Multiple sequence alignment - TraesCS5B01G051600

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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 TraesCS5B01G051600 chr5B 100.000 2291 0 0 1 2291 56336221 56338511 0.000000e+00 4231
1 TraesCS5B01G051600 chr5B 97.479 238 3 3 2055 2291 49320452 49320687 9.860000e-109 403
2 TraesCS5B01G051600 chr2A 95.526 2101 60 13 1 2070 610789242 610791339 0.000000e+00 3328
3 TraesCS5B01G051600 chr7A 93.402 2122 80 24 1 2070 56073899 56076012 0.000000e+00 3088
4 TraesCS5B01G051600 chr1D 92.460 2122 103 21 1 2070 463793643 463791527 0.000000e+00 2979
5 TraesCS5B01G051600 chr1D 93.088 651 27 5 904 1539 336729287 336728640 0.000000e+00 937
6 TraesCS5B01G051600 chr4A 91.957 2126 94 24 1 2079 129030524 129032619 0.000000e+00 2907
7 TraesCS5B01G051600 chr4A 95.217 920 40 4 1 918 433607523 433606606 0.000000e+00 1452
8 TraesCS5B01G051600 chr2D 91.007 2146 94 17 1 2070 645236663 645234541 0.000000e+00 2802
9 TraesCS5B01G051600 chr7B 88.322 2098 161 52 1 2070 725310285 725312326 0.000000e+00 2440
10 TraesCS5B01G051600 chr7B 97.479 238 4 2 2056 2291 390421876 390422113 2.740000e-109 405
11 TraesCS5B01G051600 chr4D 93.158 1593 83 10 1 1570 236672657 236671068 0.000000e+00 2314
12 TraesCS5B01G051600 chr4D 95.754 895 38 0 1 895 125891291 125892185 0.000000e+00 1443
13 TraesCS5B01G051600 chr4D 85.092 1194 117 28 905 2070 239784686 239783526 0.000000e+00 1162
14 TraesCS5B01G051600 chr4D 90.286 700 35 11 901 1570 125802840 125802144 0.000000e+00 885
15 TraesCS5B01G051600 chr4D 87.500 152 9 4 1395 1539 125903967 125903819 1.410000e-37 167
16 TraesCS5B01G051600 chr7D 91.252 1566 85 26 1 1539 501764135 501765675 0.000000e+00 2085
17 TraesCS5B01G051600 chr7D 91.987 1198 61 18 901 2070 79227533 79228723 0.000000e+00 1648
18 TraesCS5B01G051600 chr7D 92.308 1079 49 5 504 1566 17927137 17926077 0.000000e+00 1502
19 TraesCS5B01G051600 chr5A 91.209 1547 107 18 1 1539 235675095 235676620 0.000000e+00 2076
20 TraesCS5B01G051600 chr5A 99.559 227 1 0 2065 2291 178177142 178176916 4.550000e-112 414
21 TraesCS5B01G051600 chr5A 97.872 235 5 0 2057 2291 152138509 152138743 7.620000e-110 407
22 TraesCS5B01G051600 chr4B 87.459 1842 147 43 263 2070 644611593 644613384 0.000000e+00 2045
23 TraesCS5B01G051600 chr1A 91.209 1456 64 35 1 1420 340070984 340072411 0.000000e+00 1921
24 TraesCS5B01G051600 chr1A 97.881 236 3 2 2056 2291 203567521 203567288 7.620000e-110 407
25 TraesCS5B01G051600 chrUn 90.411 1387 75 28 1 1384 38472738 38474069 0.000000e+00 1772
26 TraesCS5B01G051600 chrUn 91.630 227 16 1 1197 1420 403298217 403297991 6.150000e-81 311
27 TraesCS5B01G051600 chr6D 92.295 1207 39 20 904 2070 446363468 446362276 0.000000e+00 1664
28 TraesCS5B01G051600 chr6D 95.775 923 39 0 1 923 297171498 297170576 0.000000e+00 1489
29 TraesCS5B01G051600 chr6D 91.595 702 27 4 901 1570 297170564 297169863 0.000000e+00 941
30 TraesCS5B01G051600 chr6D 92.613 555 27 11 1523 2070 297169880 297169333 0.000000e+00 785
31 TraesCS5B01G051600 chr6D 88.612 641 37 10 901 1539 46519757 46519151 0.000000e+00 747
32 TraesCS5B01G051600 chr5D 96.316 923 34 0 1 923 384512118 384511196 0.000000e+00 1517
33 TraesCS5B01G051600 chr5D 89.437 852 34 20 904 1700 363991505 363990655 0.000000e+00 1024
34 TraesCS5B01G051600 chr5D 92.899 690 23 10 904 1570 384511181 384510495 0.000000e+00 979
35 TraesCS5B01G051600 chr5D 91.631 693 32 10 901 1570 401783500 401784189 0.000000e+00 935
36 TraesCS5B01G051600 chr5D 91.486 693 33 12 901 1570 29766743 29766054 0.000000e+00 929
37 TraesCS5B01G051600 chr5D 92.058 554 33 9 1523 2070 140951620 140951072 0.000000e+00 769
38 TraesCS5B01G051600 chr3D 91.246 971 47 12 1133 2070 57608386 57609351 0.000000e+00 1288
39 TraesCS5B01G051600 chr3A 93.037 833 53 3 546 1375 706571677 706570847 0.000000e+00 1212
40 TraesCS5B01G051600 chr3A 91.399 686 40 5 901 1570 702241614 702242296 0.000000e+00 922
41 TraesCS5B01G051600 chr6A 99.559 227 1 0 2065 2291 390273493 390273267 4.550000e-112 414
42 TraesCS5B01G051600 chr2B 97.881 236 4 1 2056 2291 667043151 667043385 7.620000e-110 407
43 TraesCS5B01G051600 chr1B 97.881 236 2 3 2057 2291 67792765 67792998 2.740000e-109 405
44 TraesCS5B01G051600 chr1B 96.708 243 6 2 2049 2291 589285543 589285783 9.860000e-109 403


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 TraesCS5B01G051600 chr5B 56336221 56338511 2290 False 4231.000000 4231 100.000000 1 2291 1 chr5B.!!$F2 2290
1 TraesCS5B01G051600 chr2A 610789242 610791339 2097 False 3328.000000 3328 95.526000 1 2070 1 chr2A.!!$F1 2069
2 TraesCS5B01G051600 chr7A 56073899 56076012 2113 False 3088.000000 3088 93.402000 1 2070 1 chr7A.!!$F1 2069
3 TraesCS5B01G051600 chr1D 463791527 463793643 2116 True 2979.000000 2979 92.460000 1 2070 1 chr1D.!!$R2 2069
4 TraesCS5B01G051600 chr1D 336728640 336729287 647 True 937.000000 937 93.088000 904 1539 1 chr1D.!!$R1 635
5 TraesCS5B01G051600 chr4A 129030524 129032619 2095 False 2907.000000 2907 91.957000 1 2079 1 chr4A.!!$F1 2078
6 TraesCS5B01G051600 chr4A 433606606 433607523 917 True 1452.000000 1452 95.217000 1 918 1 chr4A.!!$R1 917
7 TraesCS5B01G051600 chr2D 645234541 645236663 2122 True 2802.000000 2802 91.007000 1 2070 1 chr2D.!!$R1 2069
8 TraesCS5B01G051600 chr7B 725310285 725312326 2041 False 2440.000000 2440 88.322000 1 2070 1 chr7B.!!$F2 2069
9 TraesCS5B01G051600 chr4D 236671068 236672657 1589 True 2314.000000 2314 93.158000 1 1570 1 chr4D.!!$R3 1569
10 TraesCS5B01G051600 chr4D 125891291 125892185 894 False 1443.000000 1443 95.754000 1 895 1 chr4D.!!$F1 894
11 TraesCS5B01G051600 chr4D 239783526 239784686 1160 True 1162.000000 1162 85.092000 905 2070 1 chr4D.!!$R4 1165
12 TraesCS5B01G051600 chr4D 125802144 125802840 696 True 885.000000 885 90.286000 901 1570 1 chr4D.!!$R1 669
13 TraesCS5B01G051600 chr7D 501764135 501765675 1540 False 2085.000000 2085 91.252000 1 1539 1 chr7D.!!$F2 1538
14 TraesCS5B01G051600 chr7D 79227533 79228723 1190 False 1648.000000 1648 91.987000 901 2070 1 chr7D.!!$F1 1169
15 TraesCS5B01G051600 chr7D 17926077 17927137 1060 True 1502.000000 1502 92.308000 504 1566 1 chr7D.!!$R1 1062
16 TraesCS5B01G051600 chr5A 235675095 235676620 1525 False 2076.000000 2076 91.209000 1 1539 1 chr5A.!!$F2 1538
17 TraesCS5B01G051600 chr4B 644611593 644613384 1791 False 2045.000000 2045 87.459000 263 2070 1 chr4B.!!$F1 1807
18 TraesCS5B01G051600 chr1A 340070984 340072411 1427 False 1921.000000 1921 91.209000 1 1420 1 chr1A.!!$F1 1419
19 TraesCS5B01G051600 chrUn 38472738 38474069 1331 False 1772.000000 1772 90.411000 1 1384 1 chrUn.!!$F1 1383
20 TraesCS5B01G051600 chr6D 446362276 446363468 1192 True 1664.000000 1664 92.295000 904 2070 1 chr6D.!!$R2 1166
21 TraesCS5B01G051600 chr6D 297169333 297171498 2165 True 1071.666667 1489 93.327667 1 2070 3 chr6D.!!$R3 2069
22 TraesCS5B01G051600 chr6D 46519151 46519757 606 True 747.000000 747 88.612000 901 1539 1 chr6D.!!$R1 638
23 TraesCS5B01G051600 chr5D 384510495 384512118 1623 True 1248.000000 1517 94.607500 1 1570 2 chr5D.!!$R4 1569
24 TraesCS5B01G051600 chr5D 363990655 363991505 850 True 1024.000000 1024 89.437000 904 1700 1 chr5D.!!$R3 796
25 TraesCS5B01G051600 chr5D 401783500 401784189 689 False 935.000000 935 91.631000 901 1570 1 chr5D.!!$F1 669
26 TraesCS5B01G051600 chr5D 29766054 29766743 689 True 929.000000 929 91.486000 901 1570 1 chr5D.!!$R1 669
27 TraesCS5B01G051600 chr5D 140951072 140951620 548 True 769.000000 769 92.058000 1523 2070 1 chr5D.!!$R2 547
28 TraesCS5B01G051600 chr3D 57608386 57609351 965 False 1288.000000 1288 91.246000 1133 2070 1 chr3D.!!$F1 937
29 TraesCS5B01G051600 chr3A 706570847 706571677 830 True 1212.000000 1212 93.037000 546 1375 1 chr3A.!!$R1 829
30 TraesCS5B01G051600 chr3A 702241614 702242296 682 False 922.000000 922 91.399000 901 1570 1 chr3A.!!$F1 669

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
276 277 1.00358 CTGGTTCCAGGCACTACACAT 59.996 52.381 10.71 0.0 36.02 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2239 2616 0.103208 GACTAGTCATGTCAGCCCGG 59.897 60.0 18.2 0.0 34.8 5.73 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 2.285083 TGATACCATAGCCGCAAACAC 58.715 47.619 0.00 0.00 0.00 3.32
89 90 1.340017 GGTGAATGGCAAGCTCTGGTA 60.340 52.381 0.00 0.00 0.00 3.25
132 133 3.378427 ACACAAGGTTTGTCTCTGCTTTC 59.622 43.478 0.00 0.00 43.23 2.62
276 277 1.003580 CTGGTTCCAGGCACTACACAT 59.996 52.381 10.71 0.00 36.02 3.21
372 373 8.579006 TCTGATTCTTGCTGAATAACATTTTGT 58.421 29.630 5.70 0.00 44.70 2.83
423 424 1.471119 CGTAAGGGTGAGGAGCTGTA 58.529 55.000 0.00 0.00 0.00 2.74
511 512 6.836527 AGACTGCTATAGTAAGTCACTCCATT 59.163 38.462 26.31 11.24 42.28 3.16
548 578 3.243501 TGTTTGATTCACAGCCAGCTTTC 60.244 43.478 0.00 0.00 0.00 2.62
570 637 2.679450 TGCTGTTTGATGCTTTGATGC 58.321 42.857 0.00 0.00 0.00 3.91
584 651 6.279123 TGCTTTGATGCTTTGATGTTGTTTA 58.721 32.000 0.00 0.00 0.00 2.01
738 807 3.877559 AGTTTGATGATCGGCTCAATCA 58.122 40.909 12.36 2.97 37.44 2.57
883 953 5.741388 TCTTCTTCTGTTTGAGTTTGAGC 57.259 39.130 0.00 0.00 0.00 4.26
922 1029 2.175202 TGTGTGCTGGTTTGGTTTCTT 58.825 42.857 0.00 0.00 0.00 2.52
946 1053 3.760684 TGCTTGGTTTGGTTTGCAAAATT 59.239 34.783 14.67 0.00 0.00 1.82
1241 1348 5.072055 TGAAGTGATGCAAGAAGAATTGGA 58.928 37.500 0.00 0.00 34.85 3.53
1288 1395 0.461870 TGAAGCTGCACGTGACAAGT 60.462 50.000 22.23 0.00 0.00 3.16
1663 2023 4.154918 GGCTCTAAATTGAGTTGGACTGTG 59.845 45.833 0.00 0.00 36.51 3.66
1665 2025 5.121454 GCTCTAAATTGAGTTGGACTGTGAG 59.879 44.000 0.00 0.00 36.51 3.51
1776 2139 5.882000 GCATCCAAGAAAATAAAAAGGCCAT 59.118 36.000 5.01 0.00 0.00 4.40
1797 2161 4.230745 TGGCCCAAATTAGAACTAGACC 57.769 45.455 0.00 0.00 0.00 3.85
1833 2198 5.336451 GGCCCAAAACAATAGTGGACTTTAG 60.336 44.000 0.00 0.00 34.05 1.85
1924 2299 6.423001 GCAGATGAGCAAAACAAAGAGAAAAT 59.577 34.615 0.00 0.00 0.00 1.82
2070 2447 4.697756 ACGTGGTGTGGGCGGATG 62.698 66.667 0.00 0.00 0.00 3.51
2071 2448 4.697756 CGTGGTGTGGGCGGATGT 62.698 66.667 0.00 0.00 0.00 3.06
2073 2450 3.245346 TGGTGTGGGCGGATGTCA 61.245 61.111 0.00 0.00 0.00 3.58
2074 2451 2.436646 GGTGTGGGCGGATGTCAG 60.437 66.667 0.00 0.00 0.00 3.51
2076 2453 2.606213 TGTGGGCGGATGTCAGGA 60.606 61.111 0.00 0.00 0.00 3.86
2077 2454 2.125106 GTGGGCGGATGTCAGGAC 60.125 66.667 0.00 0.00 0.00 3.85
2078 2455 3.399181 TGGGCGGATGTCAGGACC 61.399 66.667 0.00 0.00 0.00 4.46
2081 2458 4.530857 GCGGATGTCAGGACCCCG 62.531 72.222 19.41 19.41 44.07 5.73
2082 2459 2.758327 CGGATGTCAGGACCCCGA 60.758 66.667 19.14 0.00 44.02 5.14
2083 2460 2.901042 GGATGTCAGGACCCCGAC 59.099 66.667 4.95 4.95 0.00 4.79
2084 2461 1.686110 GGATGTCAGGACCCCGACT 60.686 63.158 11.80 0.06 31.80 4.18
2085 2462 1.677637 GGATGTCAGGACCCCGACTC 61.678 65.000 11.80 7.50 31.80 3.36
2086 2463 2.005960 GATGTCAGGACCCCGACTCG 62.006 65.000 11.80 0.00 31.80 4.18
2087 2464 2.360852 GTCAGGACCCCGACTCGA 60.361 66.667 0.00 0.00 0.00 4.04
2088 2465 1.753463 GTCAGGACCCCGACTCGAT 60.753 63.158 0.00 0.00 0.00 3.59
2089 2466 1.753078 TCAGGACCCCGACTCGATG 60.753 63.158 0.00 0.00 0.00 3.84
2090 2467 2.052690 CAGGACCCCGACTCGATGT 61.053 63.158 0.00 0.00 0.00 3.06
2091 2468 1.753463 AGGACCCCGACTCGATGTC 60.753 63.158 0.00 5.96 42.06 3.06
2092 2469 2.050350 GGACCCCGACTCGATGTCA 61.050 63.158 16.91 0.00 45.60 3.58
2093 2470 1.139095 GACCCCGACTCGATGTCAC 59.861 63.158 13.14 0.00 45.60 3.67
2094 2471 1.592400 GACCCCGACTCGATGTCACA 61.592 60.000 13.14 0.00 45.60 3.58
2095 2472 0.970937 ACCCCGACTCGATGTCACAT 60.971 55.000 13.14 0.00 45.60 3.21
2096 2473 0.249073 CCCCGACTCGATGTCACATC 60.249 60.000 7.83 7.83 45.60 3.06
2097 2474 0.592500 CCCGACTCGATGTCACATCG 60.593 60.000 30.60 30.60 45.60 3.84
2098 2475 0.377203 CCGACTCGATGTCACATCGA 59.623 55.000 34.63 34.63 46.69 3.59
2104 2481 3.544356 TCGATGTCACATCGATCTAGC 57.456 47.619 33.92 0.00 44.42 3.42
2105 2482 2.226674 TCGATGTCACATCGATCTAGCC 59.773 50.000 33.92 0.00 44.42 3.93
2106 2483 2.590073 GATGTCACATCGATCTAGCCG 58.410 52.381 0.93 0.00 0.00 5.52
2107 2484 0.668535 TGTCACATCGATCTAGCCGG 59.331 55.000 0.00 0.00 0.00 6.13
2108 2485 0.669077 GTCACATCGATCTAGCCGGT 59.331 55.000 1.90 0.00 0.00 5.28
2109 2486 1.878088 GTCACATCGATCTAGCCGGTA 59.122 52.381 1.90 0.00 0.00 4.02
2110 2487 2.292569 GTCACATCGATCTAGCCGGTAA 59.707 50.000 1.90 0.00 0.00 2.85
2111 2488 2.292569 TCACATCGATCTAGCCGGTAAC 59.707 50.000 1.90 0.00 0.00 2.50
2112 2489 2.034179 CACATCGATCTAGCCGGTAACA 59.966 50.000 1.90 0.00 0.00 2.41
2113 2490 2.034305 ACATCGATCTAGCCGGTAACAC 59.966 50.000 1.90 0.00 0.00 3.32
2114 2491 2.048444 TCGATCTAGCCGGTAACACT 57.952 50.000 1.90 0.00 0.00 3.55
2115 2492 2.372264 TCGATCTAGCCGGTAACACTT 58.628 47.619 1.90 0.00 0.00 3.16
2116 2493 2.357009 TCGATCTAGCCGGTAACACTTC 59.643 50.000 1.90 0.00 0.00 3.01
2117 2494 2.098607 CGATCTAGCCGGTAACACTTCA 59.901 50.000 1.90 0.00 0.00 3.02
2118 2495 3.243434 CGATCTAGCCGGTAACACTTCAT 60.243 47.826 1.90 0.00 0.00 2.57
2119 2496 4.023450 CGATCTAGCCGGTAACACTTCATA 60.023 45.833 1.90 0.00 0.00 2.15
2120 2497 5.335740 CGATCTAGCCGGTAACACTTCATAT 60.336 44.000 1.90 0.00 0.00 1.78
2121 2498 5.449107 TCTAGCCGGTAACACTTCATATC 57.551 43.478 1.90 0.00 0.00 1.63
2122 2499 4.891168 TCTAGCCGGTAACACTTCATATCA 59.109 41.667 1.90 0.00 0.00 2.15
2123 2500 3.793559 AGCCGGTAACACTTCATATCAC 58.206 45.455 1.90 0.00 0.00 3.06
2124 2501 3.451178 AGCCGGTAACACTTCATATCACT 59.549 43.478 1.90 0.00 0.00 3.41
2125 2502 4.081087 AGCCGGTAACACTTCATATCACTT 60.081 41.667 1.90 0.00 0.00 3.16
2126 2503 4.634443 GCCGGTAACACTTCATATCACTTT 59.366 41.667 1.90 0.00 0.00 2.66
2127 2504 5.447279 GCCGGTAACACTTCATATCACTTTG 60.447 44.000 1.90 0.00 0.00 2.77
2128 2505 5.447279 CCGGTAACACTTCATATCACTTTGC 60.447 44.000 0.00 0.00 0.00 3.68
2129 2506 5.560148 GGTAACACTTCATATCACTTTGCG 58.440 41.667 0.00 0.00 0.00 4.85
2130 2507 4.685169 AACACTTCATATCACTTTGCGG 57.315 40.909 0.00 0.00 0.00 5.69
2131 2508 2.420022 ACACTTCATATCACTTTGCGGC 59.580 45.455 0.00 0.00 0.00 6.53
2132 2509 2.017049 ACTTCATATCACTTTGCGGCC 58.983 47.619 0.00 0.00 0.00 6.13
2133 2510 2.292267 CTTCATATCACTTTGCGGCCT 58.708 47.619 0.00 0.00 0.00 5.19
2134 2511 1.953559 TCATATCACTTTGCGGCCTC 58.046 50.000 0.00 0.00 0.00 4.70
2135 2512 1.209261 TCATATCACTTTGCGGCCTCA 59.791 47.619 0.00 0.00 0.00 3.86
2136 2513 1.331756 CATATCACTTTGCGGCCTCAC 59.668 52.381 0.00 0.00 0.00 3.51
2137 2514 0.739462 TATCACTTTGCGGCCTCACG 60.739 55.000 0.00 0.00 0.00 4.35
2145 2522 4.508128 CGGCCTCACGCACGGTAT 62.508 66.667 0.00 0.00 40.31 2.73
2146 2523 2.125269 GGCCTCACGCACGGTATT 60.125 61.111 0.00 0.00 40.31 1.89
2147 2524 2.171725 GGCCTCACGCACGGTATTC 61.172 63.158 0.00 0.00 40.31 1.75
2148 2525 2.171725 GCCTCACGCACGGTATTCC 61.172 63.158 0.00 0.00 37.47 3.01
2149 2526 1.520787 CCTCACGCACGGTATTCCC 60.521 63.158 0.00 0.00 0.00 3.97
2150 2527 1.216977 CTCACGCACGGTATTCCCA 59.783 57.895 0.00 0.00 0.00 4.37
2151 2528 1.079681 TCACGCACGGTATTCCCAC 60.080 57.895 0.00 0.00 0.00 4.61
2152 2529 2.125832 ACGCACGGTATTCCCACG 60.126 61.111 0.00 0.00 0.00 4.94
2153 2530 2.888534 CGCACGGTATTCCCACGG 60.889 66.667 0.00 0.00 0.00 4.94
2154 2531 2.512974 GCACGGTATTCCCACGGG 60.513 66.667 0.00 0.00 0.00 5.28
2155 2532 2.983791 CACGGTATTCCCACGGGT 59.016 61.111 1.07 0.00 36.47 5.28
2156 2533 1.448893 CACGGTATTCCCACGGGTG 60.449 63.158 1.07 0.00 36.47 4.61
2157 2534 1.914764 ACGGTATTCCCACGGGTGT 60.915 57.895 1.07 0.00 36.47 4.16
2158 2535 1.153509 CGGTATTCCCACGGGTGTC 60.154 63.158 1.07 0.00 36.47 3.67
2159 2536 1.153509 GGTATTCCCACGGGTGTCG 60.154 63.158 1.07 0.00 45.88 4.35
2160 2537 1.812507 GTATTCCCACGGGTGTCGC 60.813 63.158 1.07 0.00 43.89 5.19
2161 2538 3.021473 TATTCCCACGGGTGTCGCC 62.021 63.158 1.07 0.00 43.89 5.54
2164 2541 3.697747 CCCACGGGTGTCGCCTTA 61.698 66.667 1.66 0.00 43.89 2.69
2165 2542 2.433664 CCACGGGTGTCGCCTTAC 60.434 66.667 1.66 0.00 43.89 2.34
2166 2543 2.433664 CACGGGTGTCGCCTTACC 60.434 66.667 1.66 0.00 43.89 2.85
2167 2544 2.602568 ACGGGTGTCGCCTTACCT 60.603 61.111 1.66 0.00 43.89 3.08
2168 2545 2.212110 ACGGGTGTCGCCTTACCTT 61.212 57.895 1.66 0.00 43.89 3.50
2169 2546 1.004200 CGGGTGTCGCCTTACCTTT 60.004 57.895 1.66 0.00 37.15 3.11
2170 2547 1.296056 CGGGTGTCGCCTTACCTTTG 61.296 60.000 1.66 0.00 37.15 2.77
2171 2548 1.583495 GGGTGTCGCCTTACCTTTGC 61.583 60.000 1.66 0.00 37.15 3.68
2172 2549 1.583495 GGTGTCGCCTTACCTTTGCC 61.583 60.000 0.00 0.00 34.11 4.52
2173 2550 1.302993 TGTCGCCTTACCTTTGCCC 60.303 57.895 0.00 0.00 0.00 5.36
2174 2551 2.046700 TCGCCTTACCTTTGCCCG 60.047 61.111 0.00 0.00 0.00 6.13
2175 2552 3.131478 CGCCTTACCTTTGCCCGG 61.131 66.667 0.00 0.00 0.00 5.73
2176 2553 2.754254 GCCTTACCTTTGCCCGGG 60.754 66.667 19.09 19.09 0.00 5.73
2177 2554 3.083386 CCTTACCTTTGCCCGGGA 58.917 61.111 29.31 6.60 0.00 5.14
2178 2555 1.378119 CCTTACCTTTGCCCGGGAC 60.378 63.158 29.31 16.95 0.00 4.46
2179 2556 1.378119 CTTACCTTTGCCCGGGACC 60.378 63.158 29.31 8.20 0.00 4.46
2180 2557 3.256824 TTACCTTTGCCCGGGACCG 62.257 63.158 29.31 8.74 39.44 4.79
2182 2559 4.653888 CCTTTGCCCGGGACCGTT 62.654 66.667 29.31 0.00 37.81 4.44
2183 2560 2.596338 CTTTGCCCGGGACCGTTT 60.596 61.111 29.31 0.00 37.81 3.60
2184 2561 2.907917 TTTGCCCGGGACCGTTTG 60.908 61.111 29.31 0.00 37.81 2.93
2191 2568 3.292159 GGGACCGTTTGCGCCTTT 61.292 61.111 4.18 0.00 36.67 3.11
2192 2569 2.725641 GGACCGTTTGCGCCTTTT 59.274 55.556 4.18 0.00 36.67 2.27
2193 2570 1.660264 GGACCGTTTGCGCCTTTTG 60.660 57.895 4.18 0.00 36.67 2.44
2194 2571 1.660264 GACCGTTTGCGCCTTTTGG 60.660 57.895 4.18 2.72 44.18 3.28
2210 2587 6.712241 CCTTTTGGCTCACGTATATGATAG 57.288 41.667 0.00 0.00 0.00 2.08
2211 2588 6.223852 CCTTTTGGCTCACGTATATGATAGT 58.776 40.000 0.00 0.00 0.00 2.12
2212 2589 6.146184 CCTTTTGGCTCACGTATATGATAGTG 59.854 42.308 0.00 0.00 36.06 2.74
2213 2590 5.784578 TTGGCTCACGTATATGATAGTGT 57.215 39.130 0.00 0.00 36.16 3.55
2214 2591 5.372547 TGGCTCACGTATATGATAGTGTC 57.627 43.478 0.00 0.00 36.16 3.67
2215 2592 4.083484 TGGCTCACGTATATGATAGTGTCG 60.083 45.833 0.00 0.00 36.16 4.35
2216 2593 3.846896 GCTCACGTATATGATAGTGTCGC 59.153 47.826 0.00 0.00 36.16 5.19
2217 2594 4.378563 GCTCACGTATATGATAGTGTCGCT 60.379 45.833 0.00 0.00 36.16 4.93
2218 2595 5.163884 GCTCACGTATATGATAGTGTCGCTA 60.164 44.000 0.00 0.00 36.16 4.26
2219 2596 6.404712 TCACGTATATGATAGTGTCGCTAG 57.595 41.667 0.00 0.00 36.16 3.42
2220 2597 5.022653 CACGTATATGATAGTGTCGCTAGC 58.977 45.833 4.06 4.06 36.67 3.42
2225 2602 2.306847 TGATAGTGTCGCTAGCATCCA 58.693 47.619 16.45 4.65 40.72 3.41
2226 2603 2.893489 TGATAGTGTCGCTAGCATCCAT 59.107 45.455 16.45 0.00 40.72 3.41
2227 2604 4.079253 TGATAGTGTCGCTAGCATCCATA 58.921 43.478 16.45 1.98 40.72 2.74
2228 2605 4.706962 TGATAGTGTCGCTAGCATCCATAT 59.293 41.667 16.45 6.97 40.72 1.78
2229 2606 3.309961 AGTGTCGCTAGCATCCATATG 57.690 47.619 16.45 0.00 36.09 1.78
2230 2607 2.893489 AGTGTCGCTAGCATCCATATGA 59.107 45.455 16.45 0.00 34.84 2.15
2231 2608 3.513119 AGTGTCGCTAGCATCCATATGAT 59.487 43.478 16.45 0.00 34.84 2.45
2232 2609 4.706962 AGTGTCGCTAGCATCCATATGATA 59.293 41.667 16.45 0.00 34.84 2.15
2233 2610 5.185828 AGTGTCGCTAGCATCCATATGATAA 59.814 40.000 16.45 0.00 33.75 1.75
2234 2611 5.518128 GTGTCGCTAGCATCCATATGATAAG 59.482 44.000 16.45 0.00 33.75 1.73
2235 2612 5.046529 GTCGCTAGCATCCATATGATAAGG 58.953 45.833 16.45 0.00 33.75 2.69
2236 2613 4.956075 TCGCTAGCATCCATATGATAAGGA 59.044 41.667 16.45 0.00 33.75 3.36
2237 2614 5.068329 TCGCTAGCATCCATATGATAAGGAG 59.932 44.000 16.45 0.00 33.75 3.69
2238 2615 5.055812 GCTAGCATCCATATGATAAGGAGC 58.944 45.833 10.63 6.37 33.75 4.70
2239 2616 4.500499 AGCATCCATATGATAAGGAGCC 57.500 45.455 3.65 0.00 34.84 4.70
2240 2617 3.201708 AGCATCCATATGATAAGGAGCCC 59.798 47.826 3.65 0.00 34.84 5.19
2241 2618 3.801698 CATCCATATGATAAGGAGCCCG 58.198 50.000 3.65 0.00 34.84 6.13
2242 2619 2.187958 TCCATATGATAAGGAGCCCGG 58.812 52.381 3.65 0.00 0.00 5.73
2243 2620 1.210478 CCATATGATAAGGAGCCCGGG 59.790 57.143 19.09 19.09 0.00 5.73
2244 2621 0.912486 ATATGATAAGGAGCCCGGGC 59.088 55.000 39.29 39.29 42.33 6.13
2254 2631 4.101448 GCCCGGGCTGACATGACT 62.101 66.667 38.76 0.00 38.26 3.41
2255 2632 2.731571 GCCCGGGCTGACATGACTA 61.732 63.158 38.76 0.00 38.26 2.59
2256 2633 1.443407 CCCGGGCTGACATGACTAG 59.557 63.158 8.08 0.00 0.00 2.57
2257 2634 1.330655 CCCGGGCTGACATGACTAGT 61.331 60.000 8.08 0.00 0.00 2.57
2258 2635 0.103208 CCGGGCTGACATGACTAGTC 59.897 60.000 16.32 16.32 36.55 2.59
2259 2636 0.248661 CGGGCTGACATGACTAGTCG 60.249 60.000 17.85 7.27 38.83 4.18
2260 2637 0.818296 GGGCTGACATGACTAGTCGT 59.182 55.000 17.85 15.05 38.83 4.34
2261 2638 2.022195 GGGCTGACATGACTAGTCGTA 58.978 52.381 17.18 1.00 38.83 3.43
2262 2639 2.426024 GGGCTGACATGACTAGTCGTAA 59.574 50.000 17.18 2.77 38.83 3.18
2263 2640 3.119245 GGGCTGACATGACTAGTCGTAAA 60.119 47.826 17.18 0.00 38.83 2.01
2264 2641 3.858238 GGCTGACATGACTAGTCGTAAAC 59.142 47.826 17.18 11.57 38.83 2.01
2265 2642 3.858238 GCTGACATGACTAGTCGTAAACC 59.142 47.826 17.18 7.55 38.83 3.27
2266 2643 4.421948 CTGACATGACTAGTCGTAAACCC 58.578 47.826 17.18 5.99 38.83 4.11
2267 2644 3.827876 TGACATGACTAGTCGTAAACCCA 59.172 43.478 17.18 8.22 38.83 4.51
2268 2645 4.281435 TGACATGACTAGTCGTAAACCCAA 59.719 41.667 17.18 0.00 38.83 4.12
2269 2646 5.217978 ACATGACTAGTCGTAAACCCAAA 57.782 39.130 17.18 0.00 0.00 3.28
2270 2647 5.235516 ACATGACTAGTCGTAAACCCAAAG 58.764 41.667 17.18 4.72 0.00 2.77
2271 2648 4.942761 TGACTAGTCGTAAACCCAAAGT 57.057 40.909 17.85 0.00 0.00 2.66
2272 2649 4.624015 TGACTAGTCGTAAACCCAAAGTG 58.376 43.478 17.85 0.00 0.00 3.16
2273 2650 3.992427 GACTAGTCGTAAACCCAAAGTGG 59.008 47.826 7.22 0.00 37.25 4.00
2274 2651 1.601166 AGTCGTAAACCCAAAGTGGC 58.399 50.000 0.00 0.00 35.79 5.01
2275 2652 1.134037 AGTCGTAAACCCAAAGTGGCA 60.134 47.619 0.00 0.00 35.79 4.92
2276 2653 1.002142 GTCGTAAACCCAAAGTGGCAC 60.002 52.381 10.29 10.29 35.79 5.01
2277 2654 1.025812 CGTAAACCCAAAGTGGCACA 58.974 50.000 21.41 0.00 35.79 4.57
2278 2655 1.001815 CGTAAACCCAAAGTGGCACAG 60.002 52.381 21.41 9.03 41.80 3.66
2279 2656 2.303175 GTAAACCCAAAGTGGCACAGA 58.697 47.619 21.41 0.00 41.80 3.41
2280 2657 1.111277 AAACCCAAAGTGGCACAGAC 58.889 50.000 21.41 0.00 41.80 3.51
2281 2658 0.258774 AACCCAAAGTGGCACAGACT 59.741 50.000 21.41 0.00 41.80 3.24
2282 2659 0.258774 ACCCAAAGTGGCACAGACTT 59.741 50.000 21.41 1.75 41.80 3.01
2283 2660 1.493022 ACCCAAAGTGGCACAGACTTA 59.507 47.619 21.41 0.00 41.80 2.24
2284 2661 1.880027 CCCAAAGTGGCACAGACTTAC 59.120 52.381 21.41 0.00 41.80 2.34
2285 2662 2.571212 CCAAAGTGGCACAGACTTACA 58.429 47.619 21.41 0.00 41.80 2.41
2286 2663 2.549754 CCAAAGTGGCACAGACTTACAG 59.450 50.000 21.41 0.00 41.80 2.74
2287 2664 2.549754 CAAAGTGGCACAGACTTACAGG 59.450 50.000 21.41 0.00 41.80 4.00
2288 2665 0.687354 AGTGGCACAGACTTACAGGG 59.313 55.000 21.41 0.00 41.80 4.45
2289 2666 0.685097 GTGGCACAGACTTACAGGGA 59.315 55.000 13.86 0.00 41.80 4.20
2290 2667 0.685097 TGGCACAGACTTACAGGGAC 59.315 55.000 0.00 0.00 0.00 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 2.093973 ACCGGAGACTTAATGCTGACTG 60.094 50.000 9.46 0.00 0.00 3.51
132 133 5.463286 TGTGCAGAACATAAAGCATCAAAG 58.537 37.500 0.00 0.00 39.43 2.77
276 277 2.757314 TCACAGTGGCAAAAATGTGTGA 59.243 40.909 17.48 13.28 42.80 3.58
423 424 3.119495 GGCCTTAAACAAGTCAATCGCAT 60.119 43.478 0.00 0.00 0.00 4.73
511 512 1.962807 CAAACAGGGCATGGACAAAGA 59.037 47.619 3.46 0.00 0.00 2.52
548 578 3.062099 GCATCAAAGCATCAAACAGCATG 59.938 43.478 0.00 0.00 46.00 4.06
570 637 7.147312 TGGCTCTGAATTAAACAACATCAAAG 58.853 34.615 0.00 0.00 0.00 2.77
584 651 3.817647 GTGTTCTTGACTGGCTCTGAATT 59.182 43.478 0.00 0.00 0.00 2.17
738 807 5.337652 GCGGTTCTATATAAGATGGCTTCCT 60.338 44.000 0.00 0.00 35.56 3.36
922 1029 2.479566 TGCAAACCAAACCAAGCAAA 57.520 40.000 0.00 0.00 0.00 3.68
946 1053 6.101734 AGGCATTAGTGGGAGATCTATTTCAA 59.898 38.462 0.00 0.00 0.00 2.69
1119 1226 4.421131 ACTTGTTCCTAGATGACTGGAGT 58.579 43.478 0.00 0.00 0.00 3.85
1241 1348 1.386533 CGCCTTCATCTTGATTGCCT 58.613 50.000 0.00 0.00 0.00 4.75
1776 2139 3.589735 TGGTCTAGTTCTAATTTGGGCCA 59.410 43.478 0.00 0.00 0.00 5.36
1797 2161 2.409948 TTTGGGCCACAACCTTTTTG 57.590 45.000 5.23 0.00 39.19 2.44
1928 2303 6.071616 GCCCGATAATTCAGCCCATTAATTTA 60.072 38.462 0.00 0.00 0.00 1.40
1929 2304 5.279456 GCCCGATAATTCAGCCCATTAATTT 60.279 40.000 0.00 0.00 0.00 1.82
2071 2448 1.753078 CATCGAGTCGGGGTCCTGA 60.753 63.158 13.54 0.00 0.00 3.86
2073 2450 1.753463 GACATCGAGTCGGGGTCCT 60.753 63.158 20.03 0.00 37.53 3.85
2074 2451 2.806237 GACATCGAGTCGGGGTCC 59.194 66.667 20.03 8.02 37.53 4.46
2085 2462 2.590073 GGCTAGATCGATGTGACATCG 58.410 52.381 34.77 34.77 42.38 3.84
2086 2463 2.590073 CGGCTAGATCGATGTGACATC 58.410 52.381 15.36 15.36 0.00 3.06
2087 2464 1.270826 CCGGCTAGATCGATGTGACAT 59.729 52.381 0.54 0.00 0.00 3.06
2088 2465 0.668535 CCGGCTAGATCGATGTGACA 59.331 55.000 0.54 0.00 0.00 3.58
2089 2466 0.669077 ACCGGCTAGATCGATGTGAC 59.331 55.000 0.54 0.00 0.00 3.67
2090 2467 2.265589 TACCGGCTAGATCGATGTGA 57.734 50.000 0.54 0.00 0.00 3.58
2091 2468 2.034179 TGTTACCGGCTAGATCGATGTG 59.966 50.000 0.54 0.00 0.00 3.21
2092 2469 2.034305 GTGTTACCGGCTAGATCGATGT 59.966 50.000 0.54 0.00 0.00 3.06
2093 2470 2.293677 AGTGTTACCGGCTAGATCGATG 59.706 50.000 0.54 0.00 0.00 3.84
2094 2471 2.584236 AGTGTTACCGGCTAGATCGAT 58.416 47.619 0.00 0.00 0.00 3.59
2095 2472 2.048444 AGTGTTACCGGCTAGATCGA 57.952 50.000 0.00 0.00 0.00 3.59
2096 2473 2.098607 TGAAGTGTTACCGGCTAGATCG 59.901 50.000 0.00 0.00 0.00 3.69
2097 2474 3.795623 TGAAGTGTTACCGGCTAGATC 57.204 47.619 0.00 0.00 0.00 2.75
2098 2475 5.538813 TGATATGAAGTGTTACCGGCTAGAT 59.461 40.000 0.00 0.00 0.00 1.98
2099 2476 4.891168 TGATATGAAGTGTTACCGGCTAGA 59.109 41.667 0.00 0.00 0.00 2.43
2100 2477 4.982916 GTGATATGAAGTGTTACCGGCTAG 59.017 45.833 0.00 0.00 0.00 3.42
2101 2478 4.647853 AGTGATATGAAGTGTTACCGGCTA 59.352 41.667 0.00 0.00 0.00 3.93
2102 2479 3.451178 AGTGATATGAAGTGTTACCGGCT 59.549 43.478 0.00 0.00 0.00 5.52
2103 2480 3.793559 AGTGATATGAAGTGTTACCGGC 58.206 45.455 0.00 0.00 0.00 6.13
2104 2481 5.447279 GCAAAGTGATATGAAGTGTTACCGG 60.447 44.000 0.00 0.00 0.00 5.28
2105 2482 5.560148 GCAAAGTGATATGAAGTGTTACCG 58.440 41.667 0.00 0.00 0.00 4.02
2106 2483 5.447279 CCGCAAAGTGATATGAAGTGTTACC 60.447 44.000 0.00 0.00 0.00 2.85
2107 2484 5.560148 CCGCAAAGTGATATGAAGTGTTAC 58.440 41.667 0.00 0.00 0.00 2.50
2108 2485 4.094294 GCCGCAAAGTGATATGAAGTGTTA 59.906 41.667 0.00 0.00 0.00 2.41
2109 2486 3.119849 GCCGCAAAGTGATATGAAGTGTT 60.120 43.478 0.00 0.00 0.00 3.32
2110 2487 2.420022 GCCGCAAAGTGATATGAAGTGT 59.580 45.455 0.00 0.00 0.00 3.55
2111 2488 2.223340 GGCCGCAAAGTGATATGAAGTG 60.223 50.000 0.00 0.00 0.00 3.16
2112 2489 2.017049 GGCCGCAAAGTGATATGAAGT 58.983 47.619 0.00 0.00 0.00 3.01
2113 2490 2.289002 GAGGCCGCAAAGTGATATGAAG 59.711 50.000 0.00 0.00 0.00 3.02
2114 2491 2.288666 GAGGCCGCAAAGTGATATGAA 58.711 47.619 0.00 0.00 0.00 2.57
2115 2492 1.209261 TGAGGCCGCAAAGTGATATGA 59.791 47.619 6.75 0.00 0.00 2.15
2116 2493 1.331756 GTGAGGCCGCAAAGTGATATG 59.668 52.381 12.05 0.00 0.00 1.78
2117 2494 1.668419 GTGAGGCCGCAAAGTGATAT 58.332 50.000 12.05 0.00 0.00 1.63
2118 2495 0.739462 CGTGAGGCCGCAAAGTGATA 60.739 55.000 12.05 0.00 0.00 2.15
2119 2496 2.034879 CGTGAGGCCGCAAAGTGAT 61.035 57.895 12.05 0.00 0.00 3.06
2120 2497 2.664851 CGTGAGGCCGCAAAGTGA 60.665 61.111 12.05 0.00 0.00 3.41
2128 2505 4.508128 ATACCGTGCGTGAGGCCG 62.508 66.667 0.00 0.00 42.61 6.13
2129 2506 2.125269 AATACCGTGCGTGAGGCC 60.125 61.111 0.00 0.00 42.61 5.19
2130 2507 2.171725 GGAATACCGTGCGTGAGGC 61.172 63.158 0.00 0.00 43.96 4.70
2131 2508 1.520787 GGGAATACCGTGCGTGAGG 60.521 63.158 0.00 0.00 36.97 3.86
2132 2509 1.082117 GTGGGAATACCGTGCGTGAG 61.082 60.000 0.00 0.00 44.64 3.51
2133 2510 1.079681 GTGGGAATACCGTGCGTGA 60.080 57.895 0.00 0.00 44.64 4.35
2134 2511 2.449525 CGTGGGAATACCGTGCGTG 61.450 63.158 0.00 0.00 44.64 5.34
2135 2512 2.125832 CGTGGGAATACCGTGCGT 60.126 61.111 0.00 0.00 44.64 5.24
2136 2513 2.888534 CCGTGGGAATACCGTGCG 60.889 66.667 0.00 0.00 44.64 5.34
2137 2514 2.512974 CCCGTGGGAATACCGTGC 60.513 66.667 0.00 0.00 44.64 5.34
2138 2515 1.448893 CACCCGTGGGAATACCGTG 60.449 63.158 13.01 0.00 44.64 4.94
2139 2516 1.891722 GACACCCGTGGGAATACCGT 61.892 60.000 13.01 0.00 44.64 4.83
2140 2517 1.153509 GACACCCGTGGGAATACCG 60.154 63.158 13.01 0.00 44.64 4.02
2141 2518 1.153509 CGACACCCGTGGGAATACC 60.154 63.158 13.01 0.00 38.96 2.73
2142 2519 1.812507 GCGACACCCGTGGGAATAC 60.813 63.158 13.01 0.00 41.15 1.89
2143 2520 2.580276 GCGACACCCGTGGGAATA 59.420 61.111 13.01 0.00 41.15 1.75
2144 2521 4.404098 GGCGACACCCGTGGGAAT 62.404 66.667 13.01 0.00 41.15 3.01
2147 2524 3.697747 TAAGGCGACACCCGTGGG 61.698 66.667 2.58 2.58 40.58 4.61
2148 2525 2.433664 GTAAGGCGACACCCGTGG 60.434 66.667 0.00 0.00 40.58 4.94
2149 2526 2.433664 GGTAAGGCGACACCCGTG 60.434 66.667 0.00 0.00 40.58 4.94
2150 2527 1.761500 AAAGGTAAGGCGACACCCGT 61.761 55.000 0.00 0.00 40.58 5.28
2151 2528 1.004200 AAAGGTAAGGCGACACCCG 60.004 57.895 0.00 0.00 40.58 5.28
2152 2529 1.583495 GCAAAGGTAAGGCGACACCC 61.583 60.000 0.00 0.00 40.58 4.61
2153 2530 1.583495 GGCAAAGGTAAGGCGACACC 61.583 60.000 0.00 0.00 39.61 4.16
2154 2531 1.583495 GGGCAAAGGTAAGGCGACAC 61.583 60.000 0.00 0.00 0.00 3.67
2155 2532 1.302993 GGGCAAAGGTAAGGCGACA 60.303 57.895 0.00 0.00 0.00 4.35
2156 2533 2.396157 CGGGCAAAGGTAAGGCGAC 61.396 63.158 0.00 0.00 0.00 5.19
2157 2534 2.046700 CGGGCAAAGGTAAGGCGA 60.047 61.111 0.00 0.00 0.00 5.54
2158 2535 3.131478 CCGGGCAAAGGTAAGGCG 61.131 66.667 0.00 0.00 0.00 5.52
2159 2536 2.754254 CCCGGGCAAAGGTAAGGC 60.754 66.667 8.08 0.00 0.00 4.35
2160 2537 1.378119 GTCCCGGGCAAAGGTAAGG 60.378 63.158 18.49 0.00 0.00 2.69
2161 2538 1.378119 GGTCCCGGGCAAAGGTAAG 60.378 63.158 18.49 0.00 0.00 2.34
2162 2539 2.758434 GGTCCCGGGCAAAGGTAA 59.242 61.111 18.49 0.00 0.00 2.85
2163 2540 3.708544 CGGTCCCGGGCAAAGGTA 61.709 66.667 18.49 0.00 35.56 3.08
2165 2542 4.653888 AACGGTCCCGGGCAAAGG 62.654 66.667 18.49 5.40 44.69 3.11
2166 2543 2.596338 AAACGGTCCCGGGCAAAG 60.596 61.111 18.49 9.68 44.69 2.77
2167 2544 2.907917 CAAACGGTCCCGGGCAAA 60.908 61.111 18.49 0.00 44.69 3.68
2174 2551 2.852180 AAAAGGCGCAAACGGTCCC 61.852 57.895 10.83 0.00 40.57 4.46
2175 2552 1.660264 CAAAAGGCGCAAACGGTCC 60.660 57.895 10.83 0.00 40.57 4.46
2176 2553 1.660264 CCAAAAGGCGCAAACGGTC 60.660 57.895 10.83 0.00 40.57 4.79
2177 2554 2.415426 CCAAAAGGCGCAAACGGT 59.585 55.556 10.83 0.00 40.57 4.83
2178 2555 3.035503 GCCAAAAGGCGCAAACGG 61.036 61.111 10.83 3.45 40.57 4.44
2179 2556 2.016165 GAGCCAAAAGGCGCAAACG 61.016 57.895 10.83 0.00 44.07 3.60
2180 2557 1.067250 TGAGCCAAAAGGCGCAAAC 59.933 52.632 10.83 0.00 41.28 2.93
2181 2558 1.067250 GTGAGCCAAAAGGCGCAAA 59.933 52.632 14.31 0.00 45.17 3.68
2182 2559 2.727544 GTGAGCCAAAAGGCGCAA 59.272 55.556 14.31 0.00 45.17 4.85
2183 2560 2.997952 TACGTGAGCCAAAAGGCGCA 62.998 55.000 10.83 8.86 41.90 6.09
2184 2561 1.644786 ATACGTGAGCCAAAAGGCGC 61.645 55.000 0.00 0.00 40.23 6.53
2185 2562 1.647346 TATACGTGAGCCAAAAGGCG 58.353 50.000 0.00 0.00 40.23 5.52
2186 2563 3.202906 TCATATACGTGAGCCAAAAGGC 58.797 45.455 0.00 0.00 0.00 4.35
2187 2564 6.146184 CACTATCATATACGTGAGCCAAAAGG 59.854 42.308 0.00 0.00 0.00 3.11
2188 2565 6.701841 ACACTATCATATACGTGAGCCAAAAG 59.298 38.462 0.00 0.00 0.00 2.27
2189 2566 6.578944 ACACTATCATATACGTGAGCCAAAA 58.421 36.000 0.00 0.00 0.00 2.44
2190 2567 6.156748 ACACTATCATATACGTGAGCCAAA 57.843 37.500 0.00 0.00 0.00 3.28
2191 2568 5.562113 CGACACTATCATATACGTGAGCCAA 60.562 44.000 0.00 0.00 0.00 4.52
2192 2569 4.083484 CGACACTATCATATACGTGAGCCA 60.083 45.833 0.00 0.00 0.00 4.75
2193 2570 4.404324 CGACACTATCATATACGTGAGCC 58.596 47.826 0.00 0.00 0.00 4.70
2194 2571 3.846896 GCGACACTATCATATACGTGAGC 59.153 47.826 0.00 0.00 0.00 4.26
2195 2572 5.284428 AGCGACACTATCATATACGTGAG 57.716 43.478 0.00 0.00 0.00 3.51
2196 2573 5.163884 GCTAGCGACACTATCATATACGTGA 60.164 44.000 0.00 0.00 0.00 4.35
2197 2574 5.022653 GCTAGCGACACTATCATATACGTG 58.977 45.833 0.00 0.00 0.00 4.49
2198 2575 4.694037 TGCTAGCGACACTATCATATACGT 59.306 41.667 10.77 0.00 0.00 3.57
2199 2576 5.217895 TGCTAGCGACACTATCATATACG 57.782 43.478 10.77 0.00 0.00 3.06
2200 2577 6.183360 TGGATGCTAGCGACACTATCATATAC 60.183 42.308 10.77 0.00 37.73 1.47
2201 2578 5.885912 TGGATGCTAGCGACACTATCATATA 59.114 40.000 10.77 0.00 37.73 0.86
2202 2579 4.706962 TGGATGCTAGCGACACTATCATAT 59.293 41.667 10.77 0.00 37.73 1.78
2203 2580 4.079253 TGGATGCTAGCGACACTATCATA 58.921 43.478 10.77 0.00 37.73 2.15
2204 2581 2.893489 TGGATGCTAGCGACACTATCAT 59.107 45.455 10.77 0.00 39.77 2.45
2205 2582 2.306847 TGGATGCTAGCGACACTATCA 58.693 47.619 10.77 0.00 31.82 2.15
2206 2583 3.584406 ATGGATGCTAGCGACACTATC 57.416 47.619 10.77 6.09 0.00 2.08
2207 2584 4.706962 TCATATGGATGCTAGCGACACTAT 59.293 41.667 10.77 7.20 32.62 2.12
2208 2585 4.079253 TCATATGGATGCTAGCGACACTA 58.921 43.478 10.77 0.00 32.62 2.74
2209 2586 2.893489 TCATATGGATGCTAGCGACACT 59.107 45.455 10.77 0.00 32.62 3.55
2210 2587 3.303881 TCATATGGATGCTAGCGACAC 57.696 47.619 10.77 0.81 32.62 3.67
2211 2588 5.394553 CCTTATCATATGGATGCTAGCGACA 60.395 44.000 10.77 9.20 36.72 4.35
2212 2589 5.046529 CCTTATCATATGGATGCTAGCGAC 58.953 45.833 10.77 6.33 36.72 5.19
2213 2590 4.956075 TCCTTATCATATGGATGCTAGCGA 59.044 41.667 10.77 0.00 36.72 4.93
2214 2591 5.268118 TCCTTATCATATGGATGCTAGCG 57.732 43.478 10.77 0.00 36.72 4.26
2215 2592 5.055812 GCTCCTTATCATATGGATGCTAGC 58.944 45.833 8.10 8.10 36.72 3.42
2216 2593 5.454471 GGGCTCCTTATCATATGGATGCTAG 60.454 48.000 2.13 0.00 36.72 3.42
2217 2594 4.410228 GGGCTCCTTATCATATGGATGCTA 59.590 45.833 2.13 0.00 36.72 3.49
2218 2595 3.201708 GGGCTCCTTATCATATGGATGCT 59.798 47.826 2.13 0.00 36.72 3.79
2219 2596 3.549794 GGGCTCCTTATCATATGGATGC 58.450 50.000 2.13 6.23 36.72 3.91
2220 2597 3.432749 CCGGGCTCCTTATCATATGGATG 60.433 52.174 2.13 0.00 36.72 3.51
2221 2598 2.774234 CCGGGCTCCTTATCATATGGAT 59.226 50.000 2.13 0.00 40.14 3.41
2222 2599 2.187958 CCGGGCTCCTTATCATATGGA 58.812 52.381 2.13 0.00 0.00 3.41
2223 2600 1.210478 CCCGGGCTCCTTATCATATGG 59.790 57.143 8.08 0.00 0.00 2.74
2224 2601 1.407437 GCCCGGGCTCCTTATCATATG 60.407 57.143 38.76 0.00 38.26 1.78
2225 2602 0.912486 GCCCGGGCTCCTTATCATAT 59.088 55.000 38.76 0.00 38.26 1.78
2226 2603 2.372852 GCCCGGGCTCCTTATCATA 58.627 57.895 38.76 0.00 38.26 2.15
2227 2604 3.161557 GCCCGGGCTCCTTATCAT 58.838 61.111 38.76 0.00 38.26 2.45
2237 2614 2.650813 CTAGTCATGTCAGCCCGGGC 62.651 65.000 39.29 39.29 42.33 6.13
2238 2615 1.330655 ACTAGTCATGTCAGCCCGGG 61.331 60.000 19.09 19.09 0.00 5.73
2239 2616 0.103208 GACTAGTCATGTCAGCCCGG 59.897 60.000 18.20 0.00 34.80 5.73
2240 2617 0.248661 CGACTAGTCATGTCAGCCCG 60.249 60.000 22.37 1.38 34.37 6.13
2241 2618 0.818296 ACGACTAGTCATGTCAGCCC 59.182 55.000 22.37 0.00 34.37 5.19
2242 2619 3.777465 TTACGACTAGTCATGTCAGCC 57.223 47.619 22.37 0.00 34.37 4.85
2243 2620 3.858238 GGTTTACGACTAGTCATGTCAGC 59.142 47.826 22.37 9.28 34.37 4.26
2244 2621 4.082408 TGGGTTTACGACTAGTCATGTCAG 60.082 45.833 22.37 7.59 34.37 3.51
2245 2622 3.827876 TGGGTTTACGACTAGTCATGTCA 59.172 43.478 22.37 8.10 34.37 3.58
2246 2623 4.445452 TGGGTTTACGACTAGTCATGTC 57.555 45.455 22.37 8.28 0.00 3.06
2247 2624 4.877378 TTGGGTTTACGACTAGTCATGT 57.123 40.909 22.37 14.86 0.00 3.21
2248 2625 5.120208 CACTTTGGGTTTACGACTAGTCATG 59.880 44.000 22.37 9.72 0.00 3.07
2249 2626 5.235516 CACTTTGGGTTTACGACTAGTCAT 58.764 41.667 22.37 10.40 0.00 3.06
2250 2627 4.501915 CCACTTTGGGTTTACGACTAGTCA 60.502 45.833 22.37 0.95 32.67 3.41
2251 2628 3.992427 CCACTTTGGGTTTACGACTAGTC 59.008 47.826 13.18 13.18 32.67 2.59
2252 2629 3.804759 GCCACTTTGGGTTTACGACTAGT 60.805 47.826 0.00 0.00 38.19 2.57
2253 2630 2.740447 GCCACTTTGGGTTTACGACTAG 59.260 50.000 0.00 0.00 38.19 2.57
2254 2631 2.104451 TGCCACTTTGGGTTTACGACTA 59.896 45.455 0.00 0.00 38.19 2.59
2255 2632 1.134037 TGCCACTTTGGGTTTACGACT 60.134 47.619 0.00 0.00 38.19 4.18
2256 2633 1.002142 GTGCCACTTTGGGTTTACGAC 60.002 52.381 0.00 0.00 38.19 4.34
2257 2634 1.310904 GTGCCACTTTGGGTTTACGA 58.689 50.000 0.00 0.00 38.19 3.43
2258 2635 1.001815 CTGTGCCACTTTGGGTTTACG 60.002 52.381 0.00 0.00 38.19 3.18
2259 2636 2.034179 GTCTGTGCCACTTTGGGTTTAC 59.966 50.000 0.00 0.00 38.19 2.01
2260 2637 2.092103 AGTCTGTGCCACTTTGGGTTTA 60.092 45.455 0.00 0.00 38.19 2.01
2261 2638 1.111277 GTCTGTGCCACTTTGGGTTT 58.889 50.000 0.00 0.00 38.19 3.27
2262 2639 0.258774 AGTCTGTGCCACTTTGGGTT 59.741 50.000 0.00 0.00 38.19 4.11
2263 2640 0.258774 AAGTCTGTGCCACTTTGGGT 59.741 50.000 0.00 0.00 38.19 4.51
2264 2641 1.880027 GTAAGTCTGTGCCACTTTGGG 59.120 52.381 0.00 0.00 38.19 4.12
2265 2642 2.549754 CTGTAAGTCTGTGCCACTTTGG 59.450 50.000 0.00 0.00 41.55 3.28
2266 2643 2.549754 CCTGTAAGTCTGTGCCACTTTG 59.450 50.000 0.00 0.00 35.63 2.77
2267 2644 2.487265 CCCTGTAAGTCTGTGCCACTTT 60.487 50.000 0.00 0.00 35.63 2.66
2268 2645 1.072331 CCCTGTAAGTCTGTGCCACTT 59.928 52.381 0.00 0.00 37.80 3.16
2269 2646 0.687354 CCCTGTAAGTCTGTGCCACT 59.313 55.000 0.00 0.00 0.00 4.00
2270 2647 0.685097 TCCCTGTAAGTCTGTGCCAC 59.315 55.000 0.00 0.00 0.00 5.01
2271 2648 0.685097 GTCCCTGTAAGTCTGTGCCA 59.315 55.000 0.00 0.00 0.00 4.92
2272 2649 3.534721 GTCCCTGTAAGTCTGTGCC 57.465 57.895 0.00 0.00 0.00 5.01


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

AutoCloner maintained by Alex Coulton.