Multiple sequence alignment - TraesCS2B01G211600

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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 TraesCS2B01G211600 chr2B 100.000 2056 0 0 804 2859 195167865 195165810 0.000000e+00 3797.0
1 TraesCS2B01G211600 chr2B 100.000 425 0 0 1 425 195168668 195168244 0.000000e+00 785.0
2 TraesCS2B01G211600 chr2B 89.077 650 33 16 1379 2018 195059520 195058899 0.000000e+00 773.0
3 TraesCS2B01G211600 chr2B 91.684 469 32 2 2142 2610 195058778 195058317 0.000000e+00 643.0
4 TraesCS2B01G211600 chr2B 82.753 574 46 18 816 1372 195059995 195059458 2.010000e-126 462.0
5 TraesCS2B01G211600 chr2B 82.125 593 55 24 807 1374 194954964 194954398 7.220000e-126 460.0
6 TraesCS2B01G211600 chr2B 85.340 382 38 10 1464 1842 194997340 194996974 2.080000e-101 379.0
7 TraesCS2B01G211600 chr2B 75.556 765 111 52 1464 2187 194954234 194953505 9.950000e-80 307.0
8 TraesCS2B01G211600 chr2B 89.806 206 21 0 2314 2519 793365505 793365710 6.070000e-67 265.0
9 TraesCS2B01G211600 chr2B 94.012 167 9 1 2627 2793 195058179 195058014 4.730000e-63 252.0
10 TraesCS2B01G211600 chr2B 90.291 103 5 3 192 289 195369226 195369124 2.310000e-26 130.0
11 TraesCS2B01G211600 chr2B 92.222 90 3 2 55 142 195006241 195006154 1.080000e-24 124.0
12 TraesCS2B01G211600 chr2B 86.842 76 7 2 212 286 194998339 194998266 6.570000e-12 82.4
13 TraesCS2B01G211600 chr2A 82.974 1251 142 42 1310 2526 164981877 164983090 0.000000e+00 1064.0
14 TraesCS2B01G211600 chr2A 90.605 777 44 21 1310 2071 164878514 164879276 0.000000e+00 1003.0
15 TraesCS2B01G211600 chr2A 85.381 643 59 14 816 1441 164981315 164981939 4.020000e-178 634.0
16 TraesCS2B01G211600 chr2A 84.543 634 37 31 816 1441 164877996 164878576 3.200000e-159 571.0
17 TraesCS2B01G211600 chr2A 84.655 580 48 19 813 1372 165104390 165104948 9.010000e-150 540.0
18 TraesCS2B01G211600 chr2A 90.380 395 37 1 1379 1772 164998189 164998583 4.220000e-143 518.0
19 TraesCS2B01G211600 chr2A 90.206 388 36 1 2139 2526 164879297 164879682 3.290000e-139 505.0
20 TraesCS2B01G211600 chr2A 83.630 562 48 21 1464 2018 165007301 165007825 3.310000e-134 488.0
21 TraesCS2B01G211600 chr2A 83.138 427 42 9 966 1372 164997836 164998252 2.090000e-96 363.0
22 TraesCS2B01G211600 chr2A 87.582 306 23 1 61 351 164980863 164981168 9.810000e-90 340.0
23 TraesCS2B01G211600 chr2A 77.963 599 61 40 807 1376 164867069 164867625 2.770000e-80 309.0
24 TraesCS2B01G211600 chr2A 87.190 242 15 5 961 1188 164999620 164999859 7.860000e-66 261.0
25 TraesCS2B01G211600 chr2A 90.345 145 4 6 1 142 165003515 165003652 6.290000e-42 182.0
26 TraesCS2B01G211600 chr2A 94.521 73 4 0 353 425 164981200 164981272 2.330000e-21 113.0
27 TraesCS2B01G211600 chr2A 80.220 91 11 5 2087 2171 164996613 164996702 8.550000e-06 62.1
28 TraesCS2B01G211600 chr2D 85.447 1017 109 26 1308 2306 136612340 136611345 0.000000e+00 1022.0
29 TraesCS2B01G211600 chr2D 89.250 707 42 16 1320 2018 136607897 136607217 0.000000e+00 854.0
30 TraesCS2B01G211600 chr2D 89.399 566 36 12 816 1377 136634535 136633990 0.000000e+00 691.0
31 TraesCS2B01G211600 chr2D 91.348 497 33 5 2142 2632 136607088 136606596 0.000000e+00 671.0
32 TraesCS2B01G211600 chr2D 89.401 434 41 5 1351 1782 136525850 136525420 2.510000e-150 542.0
33 TraesCS2B01G211600 chr2D 81.475 583 62 23 813 1372 136515613 136515054 1.220000e-118 436.0
34 TraesCS2B01G211600 chr2D 80.969 578 61 21 816 1372 136526310 136525761 2.050000e-111 412.0
35 TraesCS2B01G211600 chr2D 93.190 279 9 3 1100 1377 136612656 136612387 4.440000e-108 401.0
36 TraesCS2B01G211600 chr2D 86.486 370 25 11 816 1167 136608336 136607974 1.610000e-102 383.0
37 TraesCS2B01G211600 chr2D 89.606 279 17 5 1 274 136635015 136634744 7.580000e-91 344.0
38 TraesCS2B01G211600 chr2D 86.420 324 21 8 816 1138 136612952 136612651 1.640000e-87 333.0
39 TraesCS2B01G211600 chr2D 83.761 351 26 12 807 1139 136651566 136651229 1.290000e-78 303.0
40 TraesCS2B01G211600 chr2D 93.413 167 10 1 2627 2793 136606486 136606321 2.200000e-61 246.0
41 TraesCS2B01G211600 chr2D 88.166 169 14 1 2524 2686 87407525 87407357 2.250000e-46 196.0
42 TraesCS2B01G211600 chr2D 88.889 162 12 3 2524 2679 27834902 27835063 8.080000e-46 195.0
43 TraesCS2B01G211600 chr2D 87.425 167 15 5 2520 2680 134632168 134632334 1.350000e-43 187.0
44 TraesCS2B01G211600 chr2D 87.586 145 6 9 1 142 136521523 136521388 1.060000e-34 158.0
45 TraesCS2B01G211600 chr2D 89.109 101 6 2 1272 1372 136651106 136651011 1.390000e-23 121.0
46 TraesCS2B01G211600 chr2D 94.737 76 2 2 1217 1290 136607971 136607896 1.800000e-22 117.0
47 TraesCS2B01G211600 chr1B 84.854 581 46 20 813 1372 512051727 512052286 5.390000e-152 547.0
48 TraesCS2B01G211600 chr6A 90.777 206 19 0 2314 2519 574715145 574715350 2.810000e-70 276.0
49 TraesCS2B01G211600 chr4A 86.385 213 29 0 2314 2526 62545302 62545514 1.710000e-57 233.0
50 TraesCS2B01G211600 chr1D 86.667 210 28 0 2317 2526 388966927 388966718 1.710000e-57 233.0
51 TraesCS2B01G211600 chr1A 86.385 213 29 0 2314 2526 543649773 543649985 1.710000e-57 233.0
52 TraesCS2B01G211600 chr1A 85.876 177 17 4 2510 2679 534875771 534875946 6.290000e-42 182.0
53 TraesCS2B01G211600 chr7A 86.190 210 29 0 2317 2526 513206292 513206083 7.970000e-56 228.0
54 TraesCS2B01G211600 chr4D 89.024 164 12 4 2522 2679 355565290 355565127 6.250000e-47 198.0
55 TraesCS2B01G211600 chr4D 88.415 164 13 4 2522 2679 355442610 355442447 2.910000e-45 193.0
56 TraesCS2B01G211600 chr3D 87.209 172 16 1 2521 2686 459077266 459077437 1.050000e-44 191.0


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 TraesCS2B01G211600 chr2B 195165810 195168668 2858 True 2291.000000 3797 100.000000 1 2859 2 chr2B.!!$R6 2858
1 TraesCS2B01G211600 chr2B 195058014 195059995 1981 True 532.500000 773 89.381500 816 2793 4 chr2B.!!$R5 1977
2 TraesCS2B01G211600 chr2B 194953505 194954964 1459 True 383.500000 460 78.840500 807 2187 2 chr2B.!!$R3 1380
3 TraesCS2B01G211600 chr2B 194996974 194998339 1365 True 230.700000 379 86.091000 212 1842 2 chr2B.!!$R4 1630
4 TraesCS2B01G211600 chr2A 164877996 164879682 1686 False 693.000000 1003 88.451333 816 2526 3 chr2A.!!$F3 1710
5 TraesCS2B01G211600 chr2A 165104390 165104948 558 False 540.000000 540 84.655000 813 1372 1 chr2A.!!$F2 559
6 TraesCS2B01G211600 chr2A 164980863 164983090 2227 False 537.750000 1064 87.614500 61 2526 4 chr2A.!!$F4 2465
7 TraesCS2B01G211600 chr2A 164996613 165007825 11212 False 312.350000 518 85.817167 1 2171 6 chr2A.!!$F5 2170
8 TraesCS2B01G211600 chr2A 164867069 164867625 556 False 309.000000 309 77.963000 807 1376 1 chr2A.!!$F1 569
9 TraesCS2B01G211600 chr2D 136633990 136635015 1025 True 517.500000 691 89.502500 1 1377 2 chr2D.!!$R5 1376
10 TraesCS2B01G211600 chr2D 136606321 136612952 6631 True 503.375000 1022 90.036375 816 2793 8 chr2D.!!$R4 1977
11 TraesCS2B01G211600 chr2D 136515054 136515613 559 True 436.000000 436 81.475000 813 1372 1 chr2D.!!$R2 559
12 TraesCS2B01G211600 chr2D 136521388 136526310 4922 True 370.666667 542 85.985333 1 1782 3 chr2D.!!$R3 1781
13 TraesCS2B01G211600 chr2D 136651011 136651566 555 True 212.000000 303 86.435000 807 1372 2 chr2D.!!$R6 565
14 TraesCS2B01G211600 chr1B 512051727 512052286 559 False 547.000000 547 84.854000 813 1372 1 chr1B.!!$F1 559

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
930 2014 0.459237 AGAGCTCCATCGCTGTTTCG 60.459 55.0 10.93 0.0 41.08 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2440 20884 0.035439 GGAGGGTGGAAATCTTGCGA 60.035 55.0 0.0 0.0 0.0 5.1 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
25 1008 2.117423 TCCTGCCACGGAGACAGA 59.883 61.111 0.00 0.00 33.10 3.41
26 1009 2.262915 CCTGCCACGGAGACAGAC 59.737 66.667 0.00 0.00 33.10 3.51
27 1010 2.574018 CCTGCCACGGAGACAGACA 61.574 63.158 0.00 0.00 33.10 3.41
55 1038 1.004918 GACGACTTGACCACCCCTG 60.005 63.158 0.00 0.00 0.00 4.45
56 1039 1.458777 ACGACTTGACCACCCCTGA 60.459 57.895 0.00 0.00 0.00 3.86
57 1040 1.004918 CGACTTGACCACCCCTGAC 60.005 63.158 0.00 0.00 0.00 3.51
208 1191 2.989253 GGTTTCGCACCAAGGGGG 60.989 66.667 0.00 0.00 46.42 5.40
243 1228 2.821378 TCGGTCCTATCGTCTGTTCAAA 59.179 45.455 0.00 0.00 0.00 2.69
287 1278 4.201705 TGTTTCGTGGACGTTAAAGTGAAC 60.202 41.667 0.00 0.00 40.80 3.18
289 1280 2.159128 TCGTGGACGTTAAAGTGAACCA 60.159 45.455 0.00 0.00 40.80 3.67
293 1284 4.035909 GTGGACGTTAAAGTGAACCAATGT 59.964 41.667 0.00 0.00 0.00 2.71
351 1378 3.454082 TGGAAAAAGCAAAACCAGGTGAT 59.546 39.130 0.00 0.00 0.00 3.06
394 1451 3.192001 TGGCAATTGAGCTCTGAAATGAC 59.808 43.478 16.19 7.97 34.17 3.06
420 1477 1.270826 GGAAACCTGAAAAGGCTGCTC 59.729 52.381 0.00 0.00 0.00 4.26
877 1949 2.672874 CACCGCGTATGCTGCATATATT 59.327 45.455 23.74 1.59 39.65 1.28
930 2014 0.459237 AGAGCTCCATCGCTGTTTCG 60.459 55.000 10.93 0.00 41.08 3.46
933 2017 1.991430 CTCCATCGCTGTTTCGTCG 59.009 57.895 0.00 0.00 0.00 5.12
957 2042 1.609208 CCCCGCCAATATCTCCAAAG 58.391 55.000 0.00 0.00 0.00 2.77
958 2043 1.142870 CCCCGCCAATATCTCCAAAGA 59.857 52.381 0.00 0.00 35.54 2.52
959 2044 2.498167 CCCGCCAATATCTCCAAAGAG 58.502 52.381 0.00 0.00 41.93 2.85
1052 2148 6.062258 TCCCTCTTGATTAATCGTCCTTTT 57.938 37.500 10.80 0.00 0.00 2.27
1200 2363 2.995482 CGCGTTCGGAATCTTCGG 59.005 61.111 0.00 0.00 0.00 4.30
1201 2364 1.515519 CGCGTTCGGAATCTTCGGA 60.516 57.895 0.00 0.00 35.16 4.55
1203 2366 1.598676 CGCGTTCGGAATCTTCGGATA 60.599 52.381 0.00 0.00 36.59 2.59
1259 2422 1.055849 GGCAAAGGTTCAATTGGGGT 58.944 50.000 5.42 0.00 0.00 4.95
1262 2448 3.138304 GCAAAGGTTCAATTGGGGTTTC 58.862 45.455 5.42 0.00 0.00 2.78
1263 2449 3.181455 GCAAAGGTTCAATTGGGGTTTCT 60.181 43.478 5.42 0.00 0.00 2.52
1264 2450 4.039852 GCAAAGGTTCAATTGGGGTTTCTA 59.960 41.667 5.42 0.00 0.00 2.10
1265 2451 5.783111 CAAAGGTTCAATTGGGGTTTCTAG 58.217 41.667 5.42 0.00 0.00 2.43
1377 9008 5.917447 GCTCATCTTCTTGTTTCTTGTTTCC 59.083 40.000 0.00 0.00 0.00 3.13
1378 9009 6.238869 GCTCATCTTCTTGTTTCTTGTTTCCT 60.239 38.462 0.00 0.00 0.00 3.36
1379 9010 7.031226 TCATCTTCTTGTTTCTTGTTTCCTG 57.969 36.000 0.00 0.00 0.00 3.86
1380 9011 6.828273 TCATCTTCTTGTTTCTTGTTTCCTGA 59.172 34.615 0.00 0.00 0.00 3.86
1381 9012 7.503566 TCATCTTCTTGTTTCTTGTTTCCTGAT 59.496 33.333 0.00 0.00 0.00 2.90
1382 9013 7.031226 TCTTCTTGTTTCTTGTTTCCTGATG 57.969 36.000 0.00 0.00 0.00 3.07
1383 9014 6.828273 TCTTCTTGTTTCTTGTTTCCTGATGA 59.172 34.615 0.00 0.00 0.00 2.92
1384 9015 7.503566 TCTTCTTGTTTCTTGTTTCCTGATGAT 59.496 33.333 0.00 0.00 0.00 2.45
1385 9016 7.206981 TCTTGTTTCTTGTTTCCTGATGATC 57.793 36.000 0.00 0.00 0.00 2.92
1386 9017 7.000472 TCTTGTTTCTTGTTTCCTGATGATCT 59.000 34.615 0.00 0.00 0.00 2.75
1387 9018 6.808008 TGTTTCTTGTTTCCTGATGATCTC 57.192 37.500 0.00 0.00 0.00 2.75
1388 9019 5.409520 TGTTTCTTGTTTCCTGATGATCTCG 59.590 40.000 0.00 0.00 0.00 4.04
1389 9020 3.525537 TCTTGTTTCCTGATGATCTCGC 58.474 45.455 0.00 0.00 0.00 5.03
1390 9021 3.196469 TCTTGTTTCCTGATGATCTCGCT 59.804 43.478 0.00 0.00 0.00 4.93
1391 9022 3.170791 TGTTTCCTGATGATCTCGCTC 57.829 47.619 0.00 0.00 0.00 5.03
1392 9023 2.762887 TGTTTCCTGATGATCTCGCTCT 59.237 45.455 0.00 0.00 0.00 4.09
1393 9024 3.122297 GTTTCCTGATGATCTCGCTCTG 58.878 50.000 0.00 0.00 0.00 3.35
1394 9025 0.672889 TCCTGATGATCTCGCTCTGC 59.327 55.000 0.00 0.00 0.00 4.26
1395 9026 0.675083 CCTGATGATCTCGCTCTGCT 59.325 55.000 0.00 0.00 0.00 4.24
1396 9027 1.885233 CCTGATGATCTCGCTCTGCTA 59.115 52.381 0.00 0.00 0.00 3.49
1397 9028 2.492881 CCTGATGATCTCGCTCTGCTAT 59.507 50.000 0.00 0.00 0.00 2.97
1398 9029 3.056678 CCTGATGATCTCGCTCTGCTATT 60.057 47.826 0.00 0.00 0.00 1.73
1399 9030 4.558178 CTGATGATCTCGCTCTGCTATTT 58.442 43.478 0.00 0.00 0.00 1.40
1400 9031 4.554292 TGATGATCTCGCTCTGCTATTTC 58.446 43.478 0.00 0.00 0.00 2.17
1401 9032 3.377346 TGATCTCGCTCTGCTATTTCC 57.623 47.619 0.00 0.00 0.00 3.13
1402 9033 2.036475 TGATCTCGCTCTGCTATTTCCC 59.964 50.000 0.00 0.00 0.00 3.97
1403 9034 1.781786 TCTCGCTCTGCTATTTCCCT 58.218 50.000 0.00 0.00 0.00 4.20
1404 9035 1.410517 TCTCGCTCTGCTATTTCCCTG 59.589 52.381 0.00 0.00 0.00 4.45
1405 9036 1.137872 CTCGCTCTGCTATTTCCCTGT 59.862 52.381 0.00 0.00 0.00 4.00
1406 9037 1.137086 TCGCTCTGCTATTTCCCTGTC 59.863 52.381 0.00 0.00 0.00 3.51
1407 9038 1.134699 CGCTCTGCTATTTCCCTGTCA 60.135 52.381 0.00 0.00 0.00 3.58
1408 9039 2.484417 CGCTCTGCTATTTCCCTGTCAT 60.484 50.000 0.00 0.00 0.00 3.06
1409 9040 2.877168 GCTCTGCTATTTCCCTGTCATG 59.123 50.000 0.00 0.00 0.00 3.07
1410 9041 3.683847 GCTCTGCTATTTCCCTGTCATGT 60.684 47.826 0.00 0.00 0.00 3.21
1411 9042 4.125703 CTCTGCTATTTCCCTGTCATGTC 58.874 47.826 0.00 0.00 0.00 3.06
1412 9043 3.519107 TCTGCTATTTCCCTGTCATGTCA 59.481 43.478 0.00 0.00 0.00 3.58
1413 9044 3.609853 TGCTATTTCCCTGTCATGTCAC 58.390 45.455 0.00 0.00 0.00 3.67
1414 9045 2.945668 GCTATTTCCCTGTCATGTCACC 59.054 50.000 0.00 0.00 0.00 4.02
1415 9046 3.622206 GCTATTTCCCTGTCATGTCACCA 60.622 47.826 0.00 0.00 0.00 4.17
1416 9047 3.524095 ATTTCCCTGTCATGTCACCAA 57.476 42.857 0.00 0.00 0.00 3.67
1417 9048 2.566833 TTCCCTGTCATGTCACCAAG 57.433 50.000 0.00 0.00 0.00 3.61
1418 9049 1.728323 TCCCTGTCATGTCACCAAGA 58.272 50.000 0.00 0.00 0.00 3.02
1419 9050 2.269023 TCCCTGTCATGTCACCAAGAT 58.731 47.619 0.00 0.00 0.00 2.40
1420 9051 2.644299 TCCCTGTCATGTCACCAAGATT 59.356 45.455 0.00 0.00 0.00 2.40
1421 9052 3.074390 TCCCTGTCATGTCACCAAGATTT 59.926 43.478 0.00 0.00 0.00 2.17
1422 9053 3.192001 CCCTGTCATGTCACCAAGATTTG 59.808 47.826 0.00 0.00 0.00 2.32
1423 9054 3.366679 CCTGTCATGTCACCAAGATTTGC 60.367 47.826 0.00 0.00 0.00 3.68
1424 9055 3.489355 TGTCATGTCACCAAGATTTGCT 58.511 40.909 0.00 0.00 0.00 3.91
1425 9056 3.503363 TGTCATGTCACCAAGATTTGCTC 59.497 43.478 0.00 0.00 0.00 4.26
1426 9057 3.503363 GTCATGTCACCAAGATTTGCTCA 59.497 43.478 0.00 0.00 0.00 4.26
1427 9058 4.157289 GTCATGTCACCAAGATTTGCTCAT 59.843 41.667 0.00 0.00 0.00 2.90
1428 9059 4.397103 TCATGTCACCAAGATTTGCTCATC 59.603 41.667 0.00 0.00 0.00 2.92
1429 9060 4.025040 TGTCACCAAGATTTGCTCATCT 57.975 40.909 0.00 0.00 34.78 2.90
1430 9061 4.401022 TGTCACCAAGATTTGCTCATCTT 58.599 39.130 5.41 5.41 43.14 2.40
1431 9062 4.456911 TGTCACCAAGATTTGCTCATCTTC 59.543 41.667 7.71 0.00 40.86 2.87
1432 9063 4.699257 GTCACCAAGATTTGCTCATCTTCT 59.301 41.667 7.71 0.00 40.86 2.85
1433 9064 5.182760 GTCACCAAGATTTGCTCATCTTCTT 59.817 40.000 7.71 0.00 40.86 2.52
1434 9065 5.182570 TCACCAAGATTTGCTCATCTTCTTG 59.817 40.000 7.71 0.00 40.86 3.02
1435 9066 5.048224 CACCAAGATTTGCTCATCTTCTTGT 60.048 40.000 7.71 4.42 40.86 3.16
1436 9067 5.537674 ACCAAGATTTGCTCATCTTCTTGTT 59.462 36.000 7.71 0.00 40.86 2.83
1437 9068 6.041296 ACCAAGATTTGCTCATCTTCTTGTTT 59.959 34.615 7.71 0.00 40.86 2.83
1438 9069 6.585322 CCAAGATTTGCTCATCTTCTTGTTTC 59.415 38.462 7.71 0.00 40.86 2.78
1439 9070 7.368833 CAAGATTTGCTCATCTTCTTGTTTCT 58.631 34.615 7.71 0.00 40.86 2.52
1440 9071 7.521871 AGATTTGCTCATCTTCTTGTTTCTT 57.478 32.000 0.00 0.00 28.19 2.52
1441 9072 8.627208 AGATTTGCTCATCTTCTTGTTTCTTA 57.373 30.769 0.00 0.00 28.19 2.10
1442 9073 9.240734 AGATTTGCTCATCTTCTTGTTTCTTAT 57.759 29.630 0.00 0.00 28.19 1.73
1490 16580 2.362397 GACCGTGATCCTCAAGATAGCA 59.638 50.000 0.00 0.00 34.42 3.49
1727 16826 2.260434 GCGTGCTTCGTGGAGGTA 59.740 61.111 4.16 0.00 42.13 3.08
1754 16853 1.267121 AGCTGTACGTGATCCTGGTT 58.733 50.000 0.00 0.00 0.00 3.67
1756 16855 1.739371 GCTGTACGTGATCCTGGTTCC 60.739 57.143 0.00 0.00 0.00 3.62
1788 16894 0.240145 CGCTGTGTCCGTCTGTTCTA 59.760 55.000 0.00 0.00 0.00 2.10
1792 16898 3.614150 GCTGTGTCCGTCTGTTCTATTCA 60.614 47.826 0.00 0.00 0.00 2.57
1821 16927 4.834892 CGGCTTGATTTGGGCGCG 62.835 66.667 0.00 0.00 43.69 6.86
1823 16929 4.120331 GCTTGATTTGGGCGCGCT 62.120 61.111 32.29 10.98 0.00 5.92
1824 16930 2.760159 GCTTGATTTGGGCGCGCTA 61.760 57.895 32.29 17.92 0.00 4.26
1825 16931 1.800032 CTTGATTTGGGCGCGCTAA 59.200 52.632 32.29 23.63 0.00 3.09
1826 16932 0.381801 CTTGATTTGGGCGCGCTAAT 59.618 50.000 32.29 28.28 0.00 1.73
1827 16933 0.100325 TTGATTTGGGCGCGCTAATG 59.900 50.000 31.67 0.00 0.00 1.90
1828 16934 0.746204 TGATTTGGGCGCGCTAATGA 60.746 50.000 31.67 23.72 0.00 2.57
1829 16935 0.380378 GATTTGGGCGCGCTAATGAA 59.620 50.000 31.67 18.12 0.00 2.57
1830 16936 0.100503 ATTTGGGCGCGCTAATGAAC 59.899 50.000 32.29 12.21 0.00 3.18
1952 17086 6.673796 GCGCCGTTTTGTTCAGTTATTACTAT 60.674 38.462 0.00 0.00 31.96 2.12
1955 17089 9.698617 GCCGTTTTGTTCAGTTATTACTATTAG 57.301 33.333 0.00 0.00 31.96 1.73
2020 17167 7.863375 TCGTATGGTGTTTTAGTTTCAATTTGG 59.137 33.333 0.00 0.00 0.00 3.28
2021 17168 7.115663 CGTATGGTGTTTTAGTTTCAATTTGGG 59.884 37.037 0.00 0.00 0.00 4.12
2023 17170 7.419711 TGGTGTTTTAGTTTCAATTTGGGTA 57.580 32.000 0.00 0.00 0.00 3.69
2024 17171 7.266400 TGGTGTTTTAGTTTCAATTTGGGTAC 58.734 34.615 0.00 0.00 0.00 3.34
2038 17218 9.042450 TCAATTTGGGTACAAGACTATCTTAGA 57.958 33.333 0.00 0.00 33.78 2.10
2066 17246 9.760660 CTACTGTAGCATTTTGTTATTGTCTTC 57.239 33.333 1.26 0.00 0.00 2.87
2082 17288 7.797121 ATTGTCTTCTTCCATTTGGGTTTAT 57.203 32.000 0.00 0.00 38.11 1.40
2084 17290 8.713708 TTGTCTTCTTCCATTTGGGTTTATAA 57.286 30.769 0.00 0.00 38.11 0.98
2085 17291 8.348285 TGTCTTCTTCCATTTGGGTTTATAAG 57.652 34.615 0.00 0.00 38.11 1.73
2113 17324 2.575461 GCATCAGCTTTGGGGTGC 59.425 61.111 0.00 0.00 42.57 5.01
2114 17325 2.879907 CATCAGCTTTGGGGTGCG 59.120 61.111 0.00 0.00 42.57 5.34
2115 17326 3.064324 ATCAGCTTTGGGGTGCGC 61.064 61.111 0.00 0.00 42.57 6.09
2119 17330 4.056125 GCTTTGGGGTGCGCCTTC 62.056 66.667 17.49 9.65 34.45 3.46
2121 17332 1.002624 CTTTGGGGTGCGCCTTCTA 60.003 57.895 17.49 3.31 34.45 2.10
2122 17333 1.002624 TTTGGGGTGCGCCTTCTAG 60.003 57.895 17.49 0.00 34.45 2.43
2238 20658 5.316987 ACTAGTAATTTGCAGCCAGTTCTT 58.683 37.500 0.00 0.00 0.00 2.52
2239 20659 4.510038 AGTAATTTGCAGCCAGTTCTTG 57.490 40.909 0.00 0.00 0.00 3.02
2240 20660 2.159327 AATTTGCAGCCAGTTCTTGC 57.841 45.000 0.00 0.00 0.00 4.01
2252 20688 2.812591 CAGTTCTTGCTCTTCATGTGCT 59.187 45.455 0.00 0.00 36.27 4.40
2253 20689 2.812591 AGTTCTTGCTCTTCATGTGCTG 59.187 45.455 0.00 0.00 36.27 4.41
2293 20729 4.325472 GCAATCGGCAATCTTCTTTGAAAG 59.675 41.667 0.00 0.00 43.97 2.62
2306 20742 5.443185 TCTTTGAAAGGAAAGATGTGCAG 57.557 39.130 4.94 0.00 37.10 4.41
2359 20795 0.684535 TGGATGCACTCGTCTCCAAA 59.315 50.000 1.92 0.00 34.91 3.28
2360 20796 1.071542 TGGATGCACTCGTCTCCAAAA 59.928 47.619 1.92 0.00 34.91 2.44
2502 20946 4.371855 AAGCATTCGACTCGATCAACTA 57.628 40.909 1.07 0.00 35.23 2.24
2505 20949 3.633235 CATTCGACTCGATCAACTAGGG 58.367 50.000 1.07 0.00 35.23 3.53
2529 20973 6.778559 GGATACATCCTTGACTTACTACTCCT 59.221 42.308 0.72 0.00 43.73 3.69
2654 21299 9.349713 AGTCTATAGTGGAATCTGTAGAAAGAG 57.650 37.037 0.00 0.00 38.92 2.85
2726 21371 0.463833 GGAATTGGATCGCCGGTCTT 60.464 55.000 1.90 0.00 36.79 3.01
2731 21376 0.391130 TGGATCGCCGGTCTTCTTTG 60.391 55.000 1.90 0.00 36.79 2.77
2744 21389 5.625426 CGGTCTTCTTTGATCATCCTCTTCA 60.625 44.000 0.00 0.00 0.00 3.02
2756 21401 2.485659 TCCTCTTCATGCATCCTCCTT 58.514 47.619 0.00 0.00 0.00 3.36
2793 21438 3.204119 CGATCAAGCATGGCCGCA 61.204 61.111 5.37 0.00 0.00 5.69
2795 21440 3.459378 GATCAAGCATGGCCGCACG 62.459 63.158 5.37 0.00 0.00 5.34
2797 21442 4.041917 CAAGCATGGCCGCACGTT 62.042 61.111 5.37 0.00 0.00 3.99
2799 21444 3.267597 AAGCATGGCCGCACGTTTC 62.268 57.895 5.37 0.00 0.00 2.78
2801 21446 3.722295 CATGGCCGCACGTTTCGT 61.722 61.111 0.00 0.00 42.36 3.85
2802 21447 3.419759 ATGGCCGCACGTTTCGTC 61.420 61.111 0.00 0.00 38.32 4.20
2803 21448 4.893601 TGGCCGCACGTTTCGTCA 62.894 61.111 0.00 2.38 38.32 4.35
2804 21449 3.641986 GGCCGCACGTTTCGTCAA 61.642 61.111 6.28 0.00 38.32 3.18
2805 21450 2.127758 GCCGCACGTTTCGTCAAG 60.128 61.111 6.28 0.00 38.32 3.02
2806 21451 2.549282 CCGCACGTTTCGTCAAGG 59.451 61.111 6.28 0.00 38.32 3.61
2807 21452 2.549282 CGCACGTTTCGTCAAGGG 59.451 61.111 0.00 0.00 38.32 3.95
2808 21453 2.943653 GCACGTTTCGTCAAGGGG 59.056 61.111 0.00 0.00 38.32 4.79
2809 21454 1.595929 GCACGTTTCGTCAAGGGGA 60.596 57.895 0.00 0.00 38.32 4.81
2810 21455 1.838568 GCACGTTTCGTCAAGGGGAC 61.839 60.000 0.00 0.00 38.32 4.46
2811 21456 1.070275 ACGTTTCGTCAAGGGGACC 59.930 57.895 0.00 0.00 44.15 4.46
2812 21457 2.387476 ACGTTTCGTCAAGGGGACCC 62.387 60.000 0.03 0.03 44.88 4.46
2835 21480 5.067021 GATATCATCGTTGTTGTTCGTCC 57.933 43.478 0.00 0.00 0.00 4.79
2836 21481 2.226602 TCATCGTTGTTGTTCGTCCA 57.773 45.000 0.00 0.00 0.00 4.02
2837 21482 1.862201 TCATCGTTGTTGTTCGTCCAC 59.138 47.619 0.00 0.00 0.00 4.02
2838 21483 0.856641 ATCGTTGTTGTTCGTCCACG 59.143 50.000 0.00 0.00 41.45 4.94
2839 21484 1.367195 CGTTGTTGTTCGTCCACGC 60.367 57.895 0.00 0.00 39.60 5.34
2840 21485 1.716760 GTTGTTGTTCGTCCACGCA 59.283 52.632 0.00 0.00 39.60 5.24
2841 21486 0.097325 GTTGTTGTTCGTCCACGCAA 59.903 50.000 0.00 0.00 39.60 4.85
2842 21487 1.018148 TTGTTGTTCGTCCACGCAAT 58.982 45.000 0.00 0.00 39.60 3.56
2843 21488 0.584396 TGTTGTTCGTCCACGCAATC 59.416 50.000 0.00 0.00 39.60 2.67
2844 21489 0.450482 GTTGTTCGTCCACGCAATCG 60.450 55.000 0.00 0.00 39.60 3.34
2845 21490 0.597898 TTGTTCGTCCACGCAATCGA 60.598 50.000 0.00 0.00 39.60 3.59
2846 21491 1.279527 TGTTCGTCCACGCAATCGAC 61.280 55.000 0.00 0.00 39.60 4.20
2847 21492 1.735198 TTCGTCCACGCAATCGACC 60.735 57.895 0.00 0.00 39.60 4.79
2848 21493 3.186047 CGTCCACGCAATCGACCC 61.186 66.667 0.00 0.00 39.41 4.46
2849 21494 2.818274 GTCCACGCAATCGACCCC 60.818 66.667 0.00 0.00 39.41 4.95
2850 21495 4.090588 TCCACGCAATCGACCCCC 62.091 66.667 0.00 0.00 39.41 5.40
2851 21496 4.096003 CCACGCAATCGACCCCCT 62.096 66.667 0.00 0.00 39.41 4.79
2852 21497 2.046314 CACGCAATCGACCCCCTT 60.046 61.111 0.00 0.00 39.41 3.95
2853 21498 2.106683 CACGCAATCGACCCCCTTC 61.107 63.158 0.00 0.00 39.41 3.46
2854 21499 2.267642 CGCAATCGACCCCCTTCA 59.732 61.111 0.00 0.00 38.10 3.02
2855 21500 1.376683 CGCAATCGACCCCCTTCAA 60.377 57.895 0.00 0.00 38.10 2.69
2856 21501 1.644786 CGCAATCGACCCCCTTCAAC 61.645 60.000 0.00 0.00 38.10 3.18
2857 21502 0.608035 GCAATCGACCCCCTTCAACA 60.608 55.000 0.00 0.00 0.00 3.33
2858 21503 1.904287 CAATCGACCCCCTTCAACAA 58.096 50.000 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 1006 0.730265 GTCGTCGAGATGCTCTGTCT 59.270 55.000 0.00 0.00 0.00 3.41
24 1007 0.730265 AGTCGTCGAGATGCTCTGTC 59.270 55.000 0.00 0.00 0.00 3.51
25 1008 1.135546 CAAGTCGTCGAGATGCTCTGT 60.136 52.381 0.00 0.00 0.00 3.41
26 1009 1.131315 TCAAGTCGTCGAGATGCTCTG 59.869 52.381 0.00 0.00 0.00 3.35
27 1010 1.131504 GTCAAGTCGTCGAGATGCTCT 59.868 52.381 0.00 0.00 0.00 4.09
37 1020 1.004918 CAGGGGTGGTCAAGTCGTC 60.005 63.158 0.00 0.00 0.00 4.20
55 1038 4.475135 GCAAGCGGAGGAGGGGTC 62.475 72.222 0.00 0.00 0.00 4.46
57 1040 4.479993 CAGCAAGCGGAGGAGGGG 62.480 72.222 0.00 0.00 0.00 4.79
163 1146 5.046663 GGTGGCAGGGAAATTATTTCTGAAA 60.047 40.000 16.02 5.15 39.59 2.69
207 1190 0.745468 ACCGAAAGAGAGTATCGCCC 59.255 55.000 0.00 0.00 42.67 6.13
208 1191 1.269154 GGACCGAAAGAGAGTATCGCC 60.269 57.143 0.00 0.00 42.67 5.54
215 1198 3.002862 CAGACGATAGGACCGAAAGAGAG 59.997 52.174 0.00 0.00 43.77 3.20
216 1199 2.943690 CAGACGATAGGACCGAAAGAGA 59.056 50.000 0.00 0.00 43.77 3.10
287 1278 2.878406 ACTTCCTCACAAACGACATTGG 59.122 45.455 0.00 0.00 34.56 3.16
289 1280 2.290641 GCACTTCCTCACAAACGACATT 59.709 45.455 0.00 0.00 0.00 2.71
293 1284 0.878523 CCGCACTTCCTCACAAACGA 60.879 55.000 0.00 0.00 0.00 3.85
351 1378 4.574828 CCACCTCTTTCTTTTCTCGTTTCA 59.425 41.667 0.00 0.00 0.00 2.69
394 1451 3.005791 AGCCTTTTCAGGTTTCCATTTCG 59.994 43.478 0.00 0.00 43.18 3.46
803 1861 5.680619 TCCACATTGGTCAAGATGGTATAC 58.319 41.667 12.74 0.00 39.03 1.47
804 1862 5.665360 TCTCCACATTGGTCAAGATGGTATA 59.335 40.000 12.74 2.23 39.03 1.47
805 1863 4.474651 TCTCCACATTGGTCAAGATGGTAT 59.525 41.667 12.74 0.00 39.03 2.73
811 1869 2.054021 TGGTCTCCACATTGGTCAAGA 58.946 47.619 0.00 0.00 39.03 3.02
853 1911 3.929948 GCAGCATACGCGGTGAGC 61.930 66.667 12.47 12.70 45.49 4.26
877 1949 4.338710 GTGGGGTTGGCGCCTACA 62.339 66.667 35.73 20.78 46.69 2.74
930 2014 2.100879 ATATTGGCGGGGCTCTCGAC 62.101 60.000 0.00 0.00 35.97 4.20
933 2017 0.036858 GAGATATTGGCGGGGCTCTC 60.037 60.000 0.00 0.00 0.00 3.20
957 2042 0.603569 TGACCACGGAGAGCTTTCTC 59.396 55.000 4.01 0.00 39.65 2.87
958 2043 0.605589 CTGACCACGGAGAGCTTTCT 59.394 55.000 4.01 0.00 0.00 2.52
959 2044 0.390472 CCTGACCACGGAGAGCTTTC 60.390 60.000 0.00 0.00 0.00 2.62
960 2045 1.674057 CCTGACCACGGAGAGCTTT 59.326 57.895 0.00 0.00 0.00 3.51
961 2046 2.286523 CCCTGACCACGGAGAGCTT 61.287 63.158 0.00 0.00 0.00 3.74
962 2047 2.681778 CCCTGACCACGGAGAGCT 60.682 66.667 0.00 0.00 0.00 4.09
963 2048 1.827399 TTTCCCTGACCACGGAGAGC 61.827 60.000 0.00 0.00 0.00 4.09
1215 2378 0.676466 AAATCAGCGGGAATGCGACA 60.676 50.000 0.00 0.00 40.67 4.35
1312 8943 2.323959 GGAAATAGCAGAGCGAGATCG 58.676 52.381 0.00 0.00 43.27 3.69
1377 9008 3.853831 ATAGCAGAGCGAGATCATCAG 57.146 47.619 0.00 0.00 0.00 2.90
1378 9009 4.554292 GAAATAGCAGAGCGAGATCATCA 58.446 43.478 0.00 0.00 0.00 3.07
1379 9010 3.925913 GGAAATAGCAGAGCGAGATCATC 59.074 47.826 0.00 0.00 0.00 2.92
1380 9011 3.306641 GGGAAATAGCAGAGCGAGATCAT 60.307 47.826 0.00 0.00 0.00 2.45
1381 9012 2.036475 GGGAAATAGCAGAGCGAGATCA 59.964 50.000 0.00 0.00 0.00 2.92
1382 9013 2.298729 AGGGAAATAGCAGAGCGAGATC 59.701 50.000 0.00 0.00 0.00 2.75
1383 9014 2.036992 CAGGGAAATAGCAGAGCGAGAT 59.963 50.000 0.00 0.00 0.00 2.75
1384 9015 1.410517 CAGGGAAATAGCAGAGCGAGA 59.589 52.381 0.00 0.00 0.00 4.04
1385 9016 1.137872 ACAGGGAAATAGCAGAGCGAG 59.862 52.381 0.00 0.00 0.00 5.03
1386 9017 1.137086 GACAGGGAAATAGCAGAGCGA 59.863 52.381 0.00 0.00 0.00 4.93
1387 9018 1.134699 TGACAGGGAAATAGCAGAGCG 60.135 52.381 0.00 0.00 0.00 5.03
1388 9019 2.698855 TGACAGGGAAATAGCAGAGC 57.301 50.000 0.00 0.00 0.00 4.09
1389 9020 4.125703 GACATGACAGGGAAATAGCAGAG 58.874 47.826 0.00 0.00 0.00 3.35
1390 9021 3.519107 TGACATGACAGGGAAATAGCAGA 59.481 43.478 0.00 0.00 0.00 4.26
1391 9022 3.624861 GTGACATGACAGGGAAATAGCAG 59.375 47.826 0.00 0.00 0.00 4.24
1392 9023 3.609853 GTGACATGACAGGGAAATAGCA 58.390 45.455 0.00 0.00 0.00 3.49
1393 9024 2.945668 GGTGACATGACAGGGAAATAGC 59.054 50.000 0.00 0.00 0.00 2.97
1394 9025 4.220693 TGGTGACATGACAGGGAAATAG 57.779 45.455 0.00 0.00 33.40 1.73
1395 9026 4.288366 TCTTGGTGACATGACAGGGAAATA 59.712 41.667 0.00 0.00 42.32 1.40
1396 9027 3.074390 TCTTGGTGACATGACAGGGAAAT 59.926 43.478 0.00 0.00 42.32 2.17
1397 9028 2.441375 TCTTGGTGACATGACAGGGAAA 59.559 45.455 0.00 0.00 42.32 3.13
1398 9029 2.054021 TCTTGGTGACATGACAGGGAA 58.946 47.619 0.00 0.00 42.32 3.97
1399 9030 1.728323 TCTTGGTGACATGACAGGGA 58.272 50.000 0.00 0.00 42.32 4.20
1400 9031 2.795231 ATCTTGGTGACATGACAGGG 57.205 50.000 0.00 0.00 45.94 4.45
1401 9032 3.366679 GCAAATCTTGGTGACATGACAGG 60.367 47.826 0.00 0.00 45.94 4.00
1402 9033 3.504906 AGCAAATCTTGGTGACATGACAG 59.495 43.478 0.00 0.00 45.94 3.51
1403 9034 3.489355 AGCAAATCTTGGTGACATGACA 58.511 40.909 0.00 0.00 45.94 3.58
1404 9035 3.503363 TGAGCAAATCTTGGTGACATGAC 59.497 43.478 0.00 0.00 45.94 3.06
1405 9036 3.753815 TGAGCAAATCTTGGTGACATGA 58.246 40.909 0.00 0.00 46.98 3.07
1406 9037 4.398358 AGATGAGCAAATCTTGGTGACATG 59.602 41.667 0.00 0.00 42.23 3.21
1407 9038 4.597004 AGATGAGCAAATCTTGGTGACAT 58.403 39.130 0.00 0.00 42.23 3.06
1408 9039 4.025040 AGATGAGCAAATCTTGGTGACA 57.975 40.909 0.00 0.00 42.23 3.58
1409 9040 4.699257 AGAAGATGAGCAAATCTTGGTGAC 59.301 41.667 16.13 4.48 44.96 3.67
1410 9041 4.914983 AGAAGATGAGCAAATCTTGGTGA 58.085 39.130 16.13 0.00 44.96 4.02
1411 9042 5.399858 CAAGAAGATGAGCAAATCTTGGTG 58.600 41.667 16.13 10.72 44.96 4.17
1412 9043 5.640189 CAAGAAGATGAGCAAATCTTGGT 57.360 39.130 16.13 0.00 44.96 3.67
1414 9045 7.368833 AGAAACAAGAAGATGAGCAAATCTTG 58.631 34.615 16.13 13.28 44.96 3.02
1416 9047 7.521871 AAGAAACAAGAAGATGAGCAAATCT 57.478 32.000 0.00 0.00 38.59 2.40
1417 9048 9.286946 CATAAGAAACAAGAAGATGAGCAAATC 57.713 33.333 0.00 0.00 0.00 2.17
1418 9049 8.800332 ACATAAGAAACAAGAAGATGAGCAAAT 58.200 29.630 0.00 0.00 0.00 2.32
1419 9050 8.169977 ACATAAGAAACAAGAAGATGAGCAAA 57.830 30.769 0.00 0.00 0.00 3.68
1420 9051 7.445096 TGACATAAGAAACAAGAAGATGAGCAA 59.555 33.333 0.00 0.00 0.00 3.91
1421 9052 6.936335 TGACATAAGAAACAAGAAGATGAGCA 59.064 34.615 0.00 0.00 0.00 4.26
1422 9053 7.369803 TGACATAAGAAACAAGAAGATGAGC 57.630 36.000 0.00 0.00 0.00 4.26
1423 9054 8.997323 AGTTGACATAAGAAACAAGAAGATGAG 58.003 33.333 0.00 0.00 0.00 2.90
1424 9055 8.908786 AGTTGACATAAGAAACAAGAAGATGA 57.091 30.769 0.00 0.00 0.00 2.92
1425 9056 9.956720 AAAGTTGACATAAGAAACAAGAAGATG 57.043 29.630 0.00 0.00 0.00 2.90
1426 9057 9.956720 CAAAGTTGACATAAGAAACAAGAAGAT 57.043 29.630 0.00 0.00 0.00 2.40
1427 9058 9.173021 TCAAAGTTGACATAAGAAACAAGAAGA 57.827 29.630 0.00 0.00 31.01 2.87
1428 9059 9.787532 TTCAAAGTTGACATAAGAAACAAGAAG 57.212 29.630 0.00 0.00 36.83 2.85
1429 9060 9.787532 CTTCAAAGTTGACATAAGAAACAAGAA 57.212 29.630 0.00 0.00 36.83 2.52
1430 9061 7.915397 GCTTCAAAGTTGACATAAGAAACAAGA 59.085 33.333 0.00 0.00 36.83 3.02
1431 9062 7.168135 GGCTTCAAAGTTGACATAAGAAACAAG 59.832 37.037 0.00 0.00 36.83 3.16
1432 9063 6.978080 GGCTTCAAAGTTGACATAAGAAACAA 59.022 34.615 0.00 0.00 36.83 2.83
1433 9064 6.460953 GGGCTTCAAAGTTGACATAAGAAACA 60.461 38.462 0.00 0.00 36.83 2.83
1434 9065 5.920840 GGGCTTCAAAGTTGACATAAGAAAC 59.079 40.000 0.00 0.00 36.83 2.78
1435 9066 5.278266 CGGGCTTCAAAGTTGACATAAGAAA 60.278 40.000 0.00 0.00 36.83 2.52
1436 9067 4.215399 CGGGCTTCAAAGTTGACATAAGAA 59.785 41.667 0.00 0.00 36.83 2.52
1437 9068 3.751175 CGGGCTTCAAAGTTGACATAAGA 59.249 43.478 0.00 0.00 36.83 2.10
1438 9069 3.670627 GCGGGCTTCAAAGTTGACATAAG 60.671 47.826 0.00 0.00 36.83 1.73
1439 9070 2.227865 GCGGGCTTCAAAGTTGACATAA 59.772 45.455 0.00 0.00 36.83 1.90
1440 9071 1.810151 GCGGGCTTCAAAGTTGACATA 59.190 47.619 0.00 0.00 36.83 2.29
1441 9072 0.598065 GCGGGCTTCAAAGTTGACAT 59.402 50.000 0.00 0.00 36.83 3.06
1442 9073 0.749818 TGCGGGCTTCAAAGTTGACA 60.750 50.000 0.00 0.00 36.83 3.58
1743 16842 0.108138 CTCACCGGAACCAGGATCAC 60.108 60.000 9.46 0.00 0.00 3.06
1754 16853 2.357034 GCGCAAAGACTCACCGGA 60.357 61.111 9.46 0.00 0.00 5.14
1756 16855 1.956170 ACAGCGCAAAGACTCACCG 60.956 57.895 11.47 0.00 0.00 4.94
1821 16927 2.155802 GACGAAAACGCGTTCATTAGC 58.844 47.619 26.77 9.75 45.72 3.09
1822 16928 3.121126 ACTGACGAAAACGCGTTCATTAG 60.121 43.478 26.77 18.55 45.72 1.73
1823 16929 2.796031 ACTGACGAAAACGCGTTCATTA 59.204 40.909 26.77 8.99 45.72 1.90
1824 16930 1.595794 ACTGACGAAAACGCGTTCATT 59.404 42.857 26.77 17.13 45.72 2.57
1825 16931 1.070843 CACTGACGAAAACGCGTTCAT 60.071 47.619 26.77 17.45 45.72 2.57
1826 16932 0.299300 CACTGACGAAAACGCGTTCA 59.701 50.000 26.77 17.42 45.72 3.18
1827 16933 0.985416 GCACTGACGAAAACGCGTTC 60.985 55.000 26.77 13.29 45.72 3.95
1828 16934 1.011574 GCACTGACGAAAACGCGTT 60.012 52.632 20.79 20.79 45.72 4.84
1830 16936 2.127758 GGCACTGACGAAAACGCG 60.128 61.111 3.53 3.53 37.29 6.01
1955 17089 9.473640 AACTTGTAAAACTTAGCAGAGTAGTAC 57.526 33.333 0.00 0.00 0.00 2.73
1957 17091 8.827677 CAAACTTGTAAAACTTAGCAGAGTAGT 58.172 33.333 0.00 0.00 0.00 2.73
1979 17117 0.035739 TACGACAGGCCCTTCCAAAC 59.964 55.000 0.00 0.00 37.29 2.93
2020 17167 9.176460 ACAGTAGTTCTAAGATAGTCTTGTACC 57.824 37.037 2.60 0.00 37.29 3.34
2023 17170 8.895737 GCTACAGTAGTTCTAAGATAGTCTTGT 58.104 37.037 9.42 0.00 37.29 3.16
2024 17171 8.894731 TGCTACAGTAGTTCTAAGATAGTCTTG 58.105 37.037 9.42 0.00 37.29 3.02
2038 17218 9.284968 AGACAATAACAAAATGCTACAGTAGTT 57.715 29.630 9.42 0.00 0.00 2.24
2066 17246 6.663523 ACAGACCTTATAAACCCAAATGGAAG 59.336 38.462 0.00 0.00 37.39 3.46
2082 17288 3.861840 GCTGATGCTACAACAGACCTTA 58.138 45.455 8.81 0.00 36.57 2.69
2084 17290 2.393271 GCTGATGCTACAACAGACCT 57.607 50.000 8.81 0.00 36.57 3.85
2106 17317 3.399181 CCTAGAAGGCGCACCCCA 61.399 66.667 10.83 0.00 36.11 4.96
2125 17336 8.574251 AACAACTTCATATTACATTGGCTACA 57.426 30.769 0.00 0.00 0.00 2.74
2129 17340 8.190784 AGCTAAACAACTTCATATTACATTGGC 58.809 33.333 0.00 0.00 0.00 4.52
2134 17345 8.450964 GCTTCAGCTAAACAACTTCATATTACA 58.549 33.333 0.00 0.00 38.21 2.41
2135 17346 7.910683 GGCTTCAGCTAAACAACTTCATATTAC 59.089 37.037 0.00 0.00 41.70 1.89
2136 17347 7.829211 AGGCTTCAGCTAAACAACTTCATATTA 59.171 33.333 0.00 0.00 41.70 0.98
2140 17353 4.401925 AGGCTTCAGCTAAACAACTTCAT 58.598 39.130 0.00 0.00 41.70 2.57
2193 19573 5.124776 AGTCTACCTCGTCAAGAATGAGAAG 59.875 44.000 3.03 1.61 42.75 2.85
2238 20658 1.065926 CCTACCAGCACATGAAGAGCA 60.066 52.381 0.00 0.00 36.17 4.26
2239 20659 1.661341 CCTACCAGCACATGAAGAGC 58.339 55.000 0.00 0.00 0.00 4.09
2240 20660 1.661341 GCCTACCAGCACATGAAGAG 58.339 55.000 0.00 0.00 0.00 2.85
2252 20688 2.925706 TCAACCAGCGGCCTACCA 60.926 61.111 0.00 0.00 34.57 3.25
2253 20689 2.125106 CTCAACCAGCGGCCTACC 60.125 66.667 0.00 0.00 0.00 3.18
2265 20701 2.421424 AGAAGATTGCCGATTGCTCAAC 59.579 45.455 0.00 0.00 42.00 3.18
2276 20712 6.089249 TCTTTCCTTTCAAAGAAGATTGCC 57.911 37.500 0.00 0.00 39.06 4.52
2293 20729 4.425577 AAAATCGACTGCACATCTTTCC 57.574 40.909 0.00 0.00 0.00 3.13
2344 20780 0.534203 GGGTTTTGGAGACGAGTGCA 60.534 55.000 0.00 0.00 0.00 4.57
2359 20795 6.323739 TCTTCTTTATGAAAGCACTTTGGGTT 59.676 34.615 0.00 0.00 38.39 4.11
2360 20796 5.833131 TCTTCTTTATGAAAGCACTTTGGGT 59.167 36.000 0.00 0.00 38.39 4.51
2401 20837 5.471962 GCGAAATTGCGAACAAATATGAAC 58.528 37.500 10.87 0.00 39.77 3.18
2440 20884 0.035439 GGAGGGTGGAAATCTTGCGA 60.035 55.000 0.00 0.00 0.00 5.10
2505 20949 7.826918 AGGAGTAGTAAGTCAAGGATGTATC 57.173 40.000 0.00 0.00 0.00 2.24
2529 20973 8.454570 AAAAAGACTTATGTTTAGGAACGGAA 57.545 30.769 0.00 0.00 38.65 4.30
2648 21293 6.340537 TCCGTTCGCAAATATAACTCTTTC 57.659 37.500 0.00 0.00 0.00 2.62
2654 21299 3.460103 TCCCTCCGTTCGCAAATATAAC 58.540 45.455 0.00 0.00 0.00 1.89
2722 21367 6.238429 GCATGAAGAGGATGATCAAAGAAGAC 60.238 42.308 0.00 0.00 0.00 3.01
2726 21371 5.106876 TGCATGAAGAGGATGATCAAAGA 57.893 39.130 0.00 0.00 0.00 2.52
2731 21376 4.255301 GAGGATGCATGAAGAGGATGATC 58.745 47.826 2.46 0.00 0.00 2.92
2744 21389 1.785208 AGCCCATTAAGGAGGATGCAT 59.215 47.619 0.00 0.00 41.22 3.96
2793 21438 1.070275 GGTCCCCTTGACGAAACGT 59.930 57.895 0.00 0.00 45.46 3.99
2795 21440 1.670083 CGGGTCCCCTTGACGAAAC 60.670 63.158 1.00 0.00 45.46 2.78
2796 21441 1.196104 ATCGGGTCCCCTTGACGAAA 61.196 55.000 1.00 0.00 45.46 3.46
2797 21442 0.324552 TATCGGGTCCCCTTGACGAA 60.325 55.000 1.00 0.00 45.46 3.85
2799 21444 0.317479 GATATCGGGTCCCCTTGACG 59.683 60.000 1.00 0.00 45.46 4.35
2800 21445 1.420430 TGATATCGGGTCCCCTTGAC 58.580 55.000 1.00 0.00 43.67 3.18
2801 21446 2.257207 GATGATATCGGGTCCCCTTGA 58.743 52.381 1.00 0.00 0.00 3.02
2802 21447 2.770164 GATGATATCGGGTCCCCTTG 57.230 55.000 1.00 0.00 0.00 3.61
2813 21458 4.565166 TGGACGAACAACAACGATGATATC 59.435 41.667 0.00 0.00 0.00 1.63
2814 21459 4.328983 GTGGACGAACAACAACGATGATAT 59.671 41.667 0.00 0.00 0.00 1.63
2815 21460 3.676172 GTGGACGAACAACAACGATGATA 59.324 43.478 0.00 0.00 0.00 2.15
2816 21461 2.478894 GTGGACGAACAACAACGATGAT 59.521 45.455 0.00 0.00 0.00 2.45
2817 21462 1.862201 GTGGACGAACAACAACGATGA 59.138 47.619 0.00 0.00 0.00 2.92
2818 21463 1.396690 CGTGGACGAACAACAACGATG 60.397 52.381 0.00 0.00 43.02 3.84
2819 21464 0.856641 CGTGGACGAACAACAACGAT 59.143 50.000 0.00 0.00 43.02 3.73
2820 21465 1.754436 GCGTGGACGAACAACAACGA 61.754 55.000 2.73 0.00 43.02 3.85
2821 21466 1.367195 GCGTGGACGAACAACAACG 60.367 57.895 2.73 0.00 43.02 4.10
2822 21467 0.097325 TTGCGTGGACGAACAACAAC 59.903 50.000 2.73 0.00 43.02 3.32
2823 21468 1.003331 GATTGCGTGGACGAACAACAA 60.003 47.619 2.73 0.00 43.02 2.83
2824 21469 0.584396 GATTGCGTGGACGAACAACA 59.416 50.000 2.73 0.00 43.02 3.33
2825 21470 0.450482 CGATTGCGTGGACGAACAAC 60.450 55.000 2.73 0.00 43.02 3.32
2826 21471 0.597898 TCGATTGCGTGGACGAACAA 60.598 50.000 2.73 0.00 43.02 2.83
2827 21472 1.007154 TCGATTGCGTGGACGAACA 60.007 52.632 2.73 0.00 43.02 3.18
2828 21473 1.414897 GTCGATTGCGTGGACGAAC 59.585 57.895 2.73 0.00 43.02 3.95
2829 21474 1.735198 GGTCGATTGCGTGGACGAA 60.735 57.895 2.73 0.00 43.02 3.85
2830 21475 2.126228 GGTCGATTGCGTGGACGA 60.126 61.111 2.73 0.00 43.02 4.20
2831 21476 3.186047 GGGTCGATTGCGTGGACG 61.186 66.667 0.00 0.00 36.51 4.79
2832 21477 2.818274 GGGGTCGATTGCGTGGAC 60.818 66.667 0.00 0.00 38.98 4.02
2833 21478 4.090588 GGGGGTCGATTGCGTGGA 62.091 66.667 0.00 0.00 38.98 4.02
2834 21479 3.622060 AAGGGGGTCGATTGCGTGG 62.622 63.158 0.00 0.00 38.98 4.94
2835 21480 2.046314 AAGGGGGTCGATTGCGTG 60.046 61.111 0.00 0.00 38.98 5.34
2836 21481 2.119484 TTGAAGGGGGTCGATTGCGT 62.119 55.000 0.00 0.00 38.98 5.24
2837 21482 1.376683 TTGAAGGGGGTCGATTGCG 60.377 57.895 0.00 0.00 39.35 4.85
2838 21483 0.608035 TGTTGAAGGGGGTCGATTGC 60.608 55.000 0.00 0.00 0.00 3.56
2839 21484 1.904287 TTGTTGAAGGGGGTCGATTG 58.096 50.000 0.00 0.00 0.00 2.67


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

AutoCloner maintained by Alex Coulton.