Multiple sequence alignment - TraesCS2B01G600500

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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 TraesCS2B01G600500 chr2B 100.000 2345 0 0 1 2345 783705852 783703508 0.000000e+00 4331
1 TraesCS2B01G600500 chr2B 97.902 1001 19 2 1013 2012 783960227 783959228 0.000000e+00 1731
2 TraesCS2B01G600500 chr2B 95.500 400 14 1 2 401 783960926 783960531 9.140000e-179 636
3 TraesCS2B01G600500 chr2B 99.355 310 2 0 657 966 783960535 783960226 1.570000e-156 562
4 TraesCS2B01G600500 chr2B 95.342 322 15 0 2024 2345 783948447 783948126 1.610000e-141 512
5 TraesCS2B01G600500 chr2B 97.826 92 2 0 1920 2011 190088807 190088898 2.410000e-35 159
6 TraesCS2B01G600500 chr2B 95.876 97 4 0 1915 2011 340007023 340006927 8.680000e-35 158
7 TraesCS2B01G600500 chr2D 95.693 1718 62 6 2 1708 47216315 47214599 0.000000e+00 2752
8 TraesCS2B01G600500 chr2D 97.000 200 6 0 1722 1921 47214617 47214418 1.040000e-88 337
9 TraesCS2B01G600500 chr2D 87.963 216 16 4 6 212 47216103 47215889 1.800000e-61 246
10 TraesCS2B01G600500 chr1B 95.350 1656 68 6 59 1708 321692888 321691236 0.000000e+00 2623
11 TraesCS2B01G600500 chr1B 94.944 178 6 1 1722 1899 321691254 321691080 2.300000e-70 276
12 TraesCS2B01G600500 chr1B 88.263 213 18 7 6 212 321692733 321692522 5.000000e-62 248
13 TraesCS2B01G600500 chr1B 81.720 279 38 10 1427 1705 573328701 573328436 1.090000e-53 220
14 TraesCS2B01G600500 chr6A 93.614 1660 98 5 2 1655 92404910 92406567 0.000000e+00 2471
15 TraesCS2B01G600500 chr6A 85.446 213 24 7 6 212 92405122 92405333 5.080000e-52 215
16 TraesCS2B01G600500 chr6A 75.833 360 63 11 325 676 567091442 567091099 6.710000e-36 161
17 TraesCS2B01G600500 chr1A 93.735 1229 69 6 485 1708 157962604 157963829 0.000000e+00 1836
18 TraesCS2B01G600500 chr1A 91.498 494 38 2 2 491 157960280 157960773 0.000000e+00 676
19 TraesCS2B01G600500 chr1A 94.382 178 4 2 1722 1899 157963811 157963982 3.840000e-68 268
20 TraesCS2B01G600500 chr1A 87.793 213 19 7 6 212 157960492 157960703 2.330000e-60 243
21 TraesCS2B01G600500 chr1A 81.004 279 39 8 1427 1705 520161033 520160769 2.360000e-50 209
22 TraesCS2B01G600500 chr1D 93.528 1097 49 5 51 1135 468418951 468420037 0.000000e+00 1613
23 TraesCS2B01G600500 chr1D 96.460 565 20 0 1133 1697 468424715 468425279 0.000000e+00 933
24 TraesCS2B01G600500 chr1D 93.789 322 19 1 2025 2345 76963273 76963594 1.260000e-132 483
25 TraesCS2B01G600500 chr1D 81.852 270 35 8 1436 1705 423805141 423804886 5.080000e-52 215
26 TraesCS2B01G600500 chr1D 84.112 214 18 7 6 212 468419114 468419318 2.380000e-45 193
27 TraesCS2B01G600500 chr5B 94.182 825 45 2 506 1327 384739521 384738697 0.000000e+00 1254
28 TraesCS2B01G600500 chr5B 92.188 512 37 1 2 510 384740474 384739963 0.000000e+00 721
29 TraesCS2B01G600500 chr5B 96.316 380 14 0 1329 1708 384737743 384737364 1.980000e-175 625
30 TraesCS2B01G600500 chr5B 98.500 200 3 0 1722 1921 384737382 384737183 1.030000e-93 353
31 TraesCS2B01G600500 chr5B 86.854 213 20 8 6 212 384740262 384740052 5.040000e-57 231
32 TraesCS2B01G600500 chr5B 96.809 94 3 0 1918 2011 496111911 496111818 8.680000e-35 158
33 TraesCS2B01G600500 chr3B 91.121 642 41 4 1067 1708 462053547 462054172 0.000000e+00 856
34 TraesCS2B01G600500 chr3B 89.464 522 44 5 214 731 461711559 461711045 0.000000e+00 649
35 TraesCS2B01G600500 chr3B 94.099 322 18 1 2025 2345 27481058 27481379 2.710000e-134 488
36 TraesCS2B01G600500 chr3B 95.500 200 9 0 1722 1921 462054154 462054353 1.050000e-83 320
37 TraesCS2B01G600500 chr3B 87.907 215 16 6 2 212 461711566 461711358 6.470000e-61 244
38 TraesCS2B01G600500 chr3B 91.667 120 8 2 946 1065 462048592 462048709 5.180000e-37 165
39 TraesCS2B01G600500 chr3B 96.842 95 3 0 1917 2011 576894136 576894230 2.410000e-35 159
40 TraesCS2B01G600500 chr3B 97.826 92 2 0 1920 2011 648281541 648281632 2.410000e-35 159
41 TraesCS2B01G600500 chr3B 93.137 102 7 0 1910 2011 320991082 320991183 1.450000e-32 150
42 TraesCS2B01G600500 chr3D 80.033 1212 165 49 271 1444 255525238 255524066 0.000000e+00 826
43 TraesCS2B01G600500 chr3A 80.546 1136 158 39 334 1445 272780084 272778988 0.000000e+00 815
44 TraesCS2B01G600500 chr4A 79.896 771 102 25 267 1002 442818015 442818767 1.240000e-142 516
45 TraesCS2B01G600500 chr4A 79.635 658 96 19 325 961 444152296 444152936 2.770000e-119 438
46 TraesCS2B01G600500 chr4A 85.714 161 20 2 1286 1444 444153297 444153456 1.440000e-37 167
47 TraesCS2B01G600500 chr7B 94.410 322 17 1 2025 2345 446663035 446663356 5.820000e-136 494
48 TraesCS2B01G600500 chr7B 97.849 93 2 0 1919 2011 345266373 345266281 6.710000e-36 161
49 TraesCS2B01G600500 chr5D 94.410 322 17 1 2025 2345 265900103 265900424 5.820000e-136 494
50 TraesCS2B01G600500 chr7A 94.099 322 18 1 2025 2345 37928628 37928307 2.710000e-134 488
51 TraesCS2B01G600500 chr7D 94.062 320 18 1 2025 2343 567479100 567478781 3.500000e-133 484
52 TraesCS2B01G600500 chr7D 93.789 322 19 1 2025 2345 534631393 534631072 1.260000e-132 483
53 TraesCS2B01G600500 chr7D 76.694 369 65 8 325 680 90572437 90572077 3.980000e-43 185
54 TraesCS2B01G600500 chr4D 93.789 322 19 1 2025 2345 419320115 419319794 1.260000e-132 483
55 TraesCS2B01G600500 chr6B 97.778 90 2 0 1916 2005 583591613 583591702 3.120000e-34 156


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 TraesCS2B01G600500 chr2B 783703508 783705852 2344 True 4331.000000 4331 100.000000 1 2345 1 chr2B.!!$R2 2344
1 TraesCS2B01G600500 chr2B 783959228 783960926 1698 True 976.333333 1731 97.585667 2 2012 3 chr2B.!!$R4 2010
2 TraesCS2B01G600500 chr2D 47214418 47216315 1897 True 1111.666667 2752 93.552000 2 1921 3 chr2D.!!$R1 1919
3 TraesCS2B01G600500 chr1B 321691080 321692888 1808 True 1049.000000 2623 92.852333 6 1899 3 chr1B.!!$R2 1893
4 TraesCS2B01G600500 chr6A 92404910 92406567 1657 False 1343.000000 2471 89.530000 2 1655 2 chr6A.!!$F1 1653
5 TraesCS2B01G600500 chr1A 157960280 157963982 3702 False 755.750000 1836 91.852000 2 1899 4 chr1A.!!$F1 1897
6 TraesCS2B01G600500 chr1D 468424715 468425279 564 False 933.000000 933 96.460000 1133 1697 1 chr1D.!!$F2 564
7 TraesCS2B01G600500 chr1D 468418951 468420037 1086 False 903.000000 1613 88.820000 6 1135 2 chr1D.!!$F3 1129
8 TraesCS2B01G600500 chr5B 384737183 384740474 3291 True 636.800000 1254 93.608000 2 1921 5 chr5B.!!$R2 1919
9 TraesCS2B01G600500 chr3B 462053547 462054353 806 False 588.000000 856 93.310500 1067 1921 2 chr3B.!!$F6 854
10 TraesCS2B01G600500 chr3B 461711045 461711566 521 True 446.500000 649 88.685500 2 731 2 chr3B.!!$R1 729
11 TraesCS2B01G600500 chr3D 255524066 255525238 1172 True 826.000000 826 80.033000 271 1444 1 chr3D.!!$R1 1173
12 TraesCS2B01G600500 chr3A 272778988 272780084 1096 True 815.000000 815 80.546000 334 1445 1 chr3A.!!$R1 1111
13 TraesCS2B01G600500 chr4A 442818015 442818767 752 False 516.000000 516 79.896000 267 1002 1 chr4A.!!$F1 735
14 TraesCS2B01G600500 chr4A 444152296 444153456 1160 False 302.500000 438 82.674500 325 1444 2 chr4A.!!$F2 1119

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
158 320 0.183014 CCTCCATCTTGCTCTGCCAT 59.817 55.0 0.0 0.0 0.0 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2029 5198 0.030908 GAGTAGATGAAGCGGTCGGG 59.969 60.0 0.0 0.0 0.0 5.14 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
132 294 2.735772 GCTGGCTCCTTCGGGATCA 61.736 63.158 0.00 0.00 44.11 2.92
158 320 0.183014 CCTCCATCTTGCTCTGCCAT 59.817 55.000 0.00 0.00 0.00 4.40
238 400 3.027170 GCAACATGTCGGTGGCGAG 62.027 63.158 0.00 0.00 0.00 5.03
422 607 1.127567 TGTTGTGCTCCTACTGCCCT 61.128 55.000 0.00 0.00 0.00 5.19
442 629 1.308047 GCTGTGTGTGTCATTGGTGA 58.692 50.000 0.00 0.00 0.00 4.02
534 2559 7.462328 AGGAGGATTAGGATTGCATAAAGGATA 59.538 37.037 0.00 0.00 0.00 2.59
959 3161 3.181496 GCCTAGCATGGTAAAAGAGCAAC 60.181 47.826 6.04 0.00 39.49 4.17
960 3162 3.063997 CCTAGCATGGTAAAAGAGCAACG 59.936 47.826 6.04 0.00 39.49 4.10
1032 3235 4.767841 CGCGAGCGCTGTCTCTGT 62.768 66.667 18.48 0.00 39.32 3.41
1972 5141 3.179265 CGAACACTAGGGTGCGCG 61.179 66.667 13.75 6.74 46.57 6.86
2008 5177 1.749634 CTACCTACCTGTTCCTCACCG 59.250 57.143 0.00 0.00 0.00 4.94
2011 5180 1.621814 CCTACCTGTTCCTCACCGAAA 59.378 52.381 0.00 0.00 0.00 3.46
2012 5181 2.038033 CCTACCTGTTCCTCACCGAAAA 59.962 50.000 0.00 0.00 0.00 2.29
2013 5182 2.951229 ACCTGTTCCTCACCGAAAAT 57.049 45.000 0.00 0.00 0.00 1.82
2014 5183 2.779506 ACCTGTTCCTCACCGAAAATC 58.220 47.619 0.00 0.00 0.00 2.17
2015 5184 2.105821 ACCTGTTCCTCACCGAAAATCA 59.894 45.455 0.00 0.00 0.00 2.57
2016 5185 2.484264 CCTGTTCCTCACCGAAAATCAC 59.516 50.000 0.00 0.00 0.00 3.06
2017 5186 2.484264 CTGTTCCTCACCGAAAATCACC 59.516 50.000 0.00 0.00 0.00 4.02
2018 5187 1.463444 GTTCCTCACCGAAAATCACCG 59.537 52.381 0.00 0.00 0.00 4.94
2019 5188 0.970640 TCCTCACCGAAAATCACCGA 59.029 50.000 0.00 0.00 0.00 4.69
2020 5189 1.345089 TCCTCACCGAAAATCACCGAA 59.655 47.619 0.00 0.00 0.00 4.30
2021 5190 2.027561 TCCTCACCGAAAATCACCGAAT 60.028 45.455 0.00 0.00 0.00 3.34
2022 5191 2.747446 CCTCACCGAAAATCACCGAATT 59.253 45.455 0.00 0.00 0.00 2.17
2023 5192 3.426159 CCTCACCGAAAATCACCGAATTG 60.426 47.826 0.00 0.00 0.00 2.32
2024 5193 3.142951 TCACCGAAAATCACCGAATTGT 58.857 40.909 0.00 0.00 0.00 2.71
2025 5194 3.187637 TCACCGAAAATCACCGAATTGTC 59.812 43.478 0.00 0.00 0.00 3.18
2026 5195 3.188460 CACCGAAAATCACCGAATTGTCT 59.812 43.478 0.00 0.00 0.00 3.41
2027 5196 4.390603 CACCGAAAATCACCGAATTGTCTA 59.609 41.667 0.00 0.00 0.00 2.59
2028 5197 4.390909 ACCGAAAATCACCGAATTGTCTAC 59.609 41.667 0.00 0.00 0.00 2.59
2029 5198 4.201783 CCGAAAATCACCGAATTGTCTACC 60.202 45.833 0.00 0.00 0.00 3.18
2030 5199 4.201783 CGAAAATCACCGAATTGTCTACCC 60.202 45.833 0.00 0.00 0.00 3.69
2031 5200 3.277142 AATCACCGAATTGTCTACCCC 57.723 47.619 0.00 0.00 0.00 4.95
2032 5201 0.533491 TCACCGAATTGTCTACCCCG 59.467 55.000 0.00 0.00 0.00 5.73
2033 5202 0.533491 CACCGAATTGTCTACCCCGA 59.467 55.000 0.00 0.00 0.00 5.14
2034 5203 0.533951 ACCGAATTGTCTACCCCGAC 59.466 55.000 0.00 0.00 34.52 4.79
2035 5204 0.179092 CCGAATTGTCTACCCCGACC 60.179 60.000 0.00 0.00 32.97 4.79
2036 5205 0.526954 CGAATTGTCTACCCCGACCG 60.527 60.000 0.00 0.00 32.97 4.79
2037 5206 0.808847 GAATTGTCTACCCCGACCGC 60.809 60.000 0.00 0.00 32.97 5.68
2038 5207 1.262640 AATTGTCTACCCCGACCGCT 61.263 55.000 0.00 0.00 32.97 5.52
2039 5208 1.262640 ATTGTCTACCCCGACCGCTT 61.263 55.000 0.00 0.00 32.97 4.68
2040 5209 1.880819 TTGTCTACCCCGACCGCTTC 61.881 60.000 0.00 0.00 32.97 3.86
2041 5210 2.036098 TCTACCCCGACCGCTTCA 59.964 61.111 0.00 0.00 0.00 3.02
2042 5211 1.380785 TCTACCCCGACCGCTTCAT 60.381 57.895 0.00 0.00 0.00 2.57
2043 5212 1.067582 CTACCCCGACCGCTTCATC 59.932 63.158 0.00 0.00 0.00 2.92
2044 5213 1.380785 TACCCCGACCGCTTCATCT 60.381 57.895 0.00 0.00 0.00 2.90
2045 5214 0.106569 TACCCCGACCGCTTCATCTA 60.107 55.000 0.00 0.00 0.00 1.98
2046 5215 1.067582 CCCCGACCGCTTCATCTAC 59.932 63.158 0.00 0.00 0.00 2.59
2047 5216 1.392710 CCCCGACCGCTTCATCTACT 61.393 60.000 0.00 0.00 0.00 2.57
2048 5217 0.030908 CCCGACCGCTTCATCTACTC 59.969 60.000 0.00 0.00 0.00 2.59
2049 5218 0.030908 CCGACCGCTTCATCTACTCC 59.969 60.000 0.00 0.00 0.00 3.85
2050 5219 0.317103 CGACCGCTTCATCTACTCCG 60.317 60.000 0.00 0.00 0.00 4.63
2051 5220 1.022735 GACCGCTTCATCTACTCCGA 58.977 55.000 0.00 0.00 0.00 4.55
2052 5221 0.739561 ACCGCTTCATCTACTCCGAC 59.260 55.000 0.00 0.00 0.00 4.79
2053 5222 0.738975 CCGCTTCATCTACTCCGACA 59.261 55.000 0.00 0.00 0.00 4.35
2054 5223 1.134367 CCGCTTCATCTACTCCGACAA 59.866 52.381 0.00 0.00 0.00 3.18
2055 5224 2.186076 CGCTTCATCTACTCCGACAAC 58.814 52.381 0.00 0.00 0.00 3.32
2056 5225 2.541556 GCTTCATCTACTCCGACAACC 58.458 52.381 0.00 0.00 0.00 3.77
2057 5226 2.798680 CTTCATCTACTCCGACAACCG 58.201 52.381 0.00 0.00 38.18 4.44
2058 5227 0.454600 TCATCTACTCCGACAACCGC 59.545 55.000 0.00 0.00 36.84 5.68
2059 5228 0.866061 CATCTACTCCGACAACCGCG 60.866 60.000 0.00 0.00 36.84 6.46
2069 5238 4.459331 CAACCGCGGGCGACATTG 62.459 66.667 31.76 19.41 42.83 2.82
2083 5252 4.820744 ATTGGCCCCGCGCTGATT 62.821 61.111 5.56 0.00 37.74 2.57
2108 5277 3.432588 CAGCCGTCGTCGAGTCCT 61.433 66.667 2.98 0.00 39.71 3.85
2109 5278 2.672307 AGCCGTCGTCGAGTCCTT 60.672 61.111 2.98 0.00 39.71 3.36
2110 5279 2.202453 GCCGTCGTCGAGTCCTTC 60.202 66.667 2.98 0.00 39.71 3.46
2111 5280 2.688794 GCCGTCGTCGAGTCCTTCT 61.689 63.158 2.98 0.00 39.71 2.85
2112 5281 1.424635 CCGTCGTCGAGTCCTTCTC 59.575 63.158 2.98 0.00 39.71 2.87
2113 5282 1.020333 CCGTCGTCGAGTCCTTCTCT 61.020 60.000 2.98 0.00 40.75 3.10
2114 5283 0.095589 CGTCGTCGAGTCCTTCTCTG 59.904 60.000 0.00 0.00 40.75 3.35
2115 5284 0.179184 GTCGTCGAGTCCTTCTCTGC 60.179 60.000 0.00 0.00 40.75 4.26
2116 5285 0.321741 TCGTCGAGTCCTTCTCTGCT 60.322 55.000 0.00 0.00 40.75 4.24
2117 5286 0.179176 CGTCGAGTCCTTCTCTGCTG 60.179 60.000 0.00 0.00 40.75 4.41
2118 5287 0.172352 GTCGAGTCCTTCTCTGCTGG 59.828 60.000 0.00 0.00 40.75 4.85
2119 5288 1.153667 CGAGTCCTTCTCTGCTGGC 60.154 63.158 0.00 0.00 40.75 4.85
2120 5289 1.220477 GAGTCCTTCTCTGCTGGCC 59.780 63.158 0.00 0.00 39.86 5.36
2121 5290 1.229464 AGTCCTTCTCTGCTGGCCT 60.229 57.895 3.32 0.00 0.00 5.19
2122 5291 1.220477 GTCCTTCTCTGCTGGCCTC 59.780 63.158 3.32 0.00 0.00 4.70
2123 5292 1.079987 TCCTTCTCTGCTGGCCTCT 59.920 57.895 3.32 0.00 0.00 3.69
2124 5293 0.975040 TCCTTCTCTGCTGGCCTCTC 60.975 60.000 3.32 0.00 0.00 3.20
2125 5294 1.521616 CTTCTCTGCTGGCCTCTCC 59.478 63.158 3.32 0.00 0.00 3.71
2126 5295 2.295472 CTTCTCTGCTGGCCTCTCCG 62.295 65.000 3.32 0.00 37.80 4.63
2127 5296 2.757508 CTCTGCTGGCCTCTCCGA 60.758 66.667 3.32 0.00 37.80 4.55
2128 5297 3.071206 TCTGCTGGCCTCTCCGAC 61.071 66.667 3.32 0.00 37.80 4.79
2129 5298 3.073735 CTGCTGGCCTCTCCGACT 61.074 66.667 3.32 0.00 37.80 4.18
2130 5299 2.604686 TGCTGGCCTCTCCGACTT 60.605 61.111 3.32 0.00 37.80 3.01
2131 5300 2.177594 CTGCTGGCCTCTCCGACTTT 62.178 60.000 3.32 0.00 37.80 2.66
2132 5301 1.003233 GCTGGCCTCTCCGACTTTT 60.003 57.895 3.32 0.00 37.80 2.27
2133 5302 0.606673 GCTGGCCTCTCCGACTTTTT 60.607 55.000 3.32 0.00 37.80 1.94
2134 5303 1.443802 CTGGCCTCTCCGACTTTTTC 58.556 55.000 3.32 0.00 37.80 2.29
2146 5315 3.099732 GACTTTTTCGACATGGCGTAC 57.900 47.619 22.59 0.00 0.00 3.67
2147 5316 2.477375 GACTTTTTCGACATGGCGTACA 59.523 45.455 22.59 0.36 0.00 2.90
2148 5317 2.873472 ACTTTTTCGACATGGCGTACAA 59.127 40.909 22.59 10.07 0.00 2.41
2149 5318 2.953640 TTTTCGACATGGCGTACAAC 57.046 45.000 22.59 0.00 0.00 3.32
2150 5319 2.157834 TTTCGACATGGCGTACAACT 57.842 45.000 22.59 0.00 0.00 3.16
2151 5320 1.705256 TTCGACATGGCGTACAACTC 58.295 50.000 22.59 0.00 0.00 3.01
2152 5321 0.455464 TCGACATGGCGTACAACTCG 60.455 55.000 22.59 5.51 34.88 4.18
2153 5322 0.731514 CGACATGGCGTACAACTCGT 60.732 55.000 14.35 0.00 31.16 4.18
2154 5323 0.713883 GACATGGCGTACAACTCGTG 59.286 55.000 0.00 0.00 0.00 4.35
2155 5324 1.289109 ACATGGCGTACAACTCGTGC 61.289 55.000 0.00 0.00 0.00 5.34
2156 5325 1.005512 ATGGCGTACAACTCGTGCA 60.006 52.632 0.00 0.00 0.00 4.57
2157 5326 1.014044 ATGGCGTACAACTCGTGCAG 61.014 55.000 0.00 0.00 0.00 4.41
2158 5327 2.380410 GGCGTACAACTCGTGCAGG 61.380 63.158 0.00 0.00 0.00 4.85
2159 5328 1.663702 GCGTACAACTCGTGCAGGT 60.664 57.895 6.26 0.00 0.00 4.00
2160 5329 1.615107 GCGTACAACTCGTGCAGGTC 61.615 60.000 6.26 0.00 0.00 3.85
2161 5330 1.007336 CGTACAACTCGTGCAGGTCC 61.007 60.000 6.26 0.00 0.00 4.46
2162 5331 0.032952 GTACAACTCGTGCAGGTCCA 59.967 55.000 6.26 0.00 0.00 4.02
2163 5332 0.317160 TACAACTCGTGCAGGTCCAG 59.683 55.000 6.26 0.00 0.00 3.86
2164 5333 1.367471 CAACTCGTGCAGGTCCAGA 59.633 57.895 6.26 0.00 0.00 3.86
2165 5334 0.946221 CAACTCGTGCAGGTCCAGAC 60.946 60.000 6.26 0.00 0.00 3.51
2166 5335 1.115930 AACTCGTGCAGGTCCAGACT 61.116 55.000 6.26 0.00 0.00 3.24
2167 5336 0.251209 ACTCGTGCAGGTCCAGACTA 60.251 55.000 6.26 0.00 0.00 2.59
2168 5337 0.171455 CTCGTGCAGGTCCAGACTAC 59.829 60.000 6.26 0.00 0.00 2.73
2169 5338 1.154016 CGTGCAGGTCCAGACTACG 60.154 63.158 0.00 1.38 0.00 3.51
2170 5339 1.446272 GTGCAGGTCCAGACTACGC 60.446 63.158 0.00 0.00 0.00 4.42
2171 5340 1.906333 TGCAGGTCCAGACTACGCA 60.906 57.895 0.00 2.04 0.00 5.24
2172 5341 1.257750 TGCAGGTCCAGACTACGCAT 61.258 55.000 0.00 0.00 0.00 4.73
2173 5342 0.807667 GCAGGTCCAGACTACGCATG 60.808 60.000 0.00 0.00 0.00 4.06
2174 5343 0.807667 CAGGTCCAGACTACGCATGC 60.808 60.000 7.91 7.91 0.00 4.06
2175 5344 1.521681 GGTCCAGACTACGCATGCC 60.522 63.158 13.15 0.00 0.00 4.40
2176 5345 1.521681 GTCCAGACTACGCATGCCC 60.522 63.158 13.15 0.00 0.00 5.36
2177 5346 2.586079 CCAGACTACGCATGCCCG 60.586 66.667 13.15 0.85 0.00 6.13
2178 5347 2.586079 CAGACTACGCATGCCCGG 60.586 66.667 13.15 0.00 0.00 5.73
2179 5348 3.075005 AGACTACGCATGCCCGGT 61.075 61.111 13.15 7.05 0.00 5.28
2180 5349 2.890474 GACTACGCATGCCCGGTG 60.890 66.667 13.15 0.00 0.00 4.94
2181 5350 3.365291 GACTACGCATGCCCGGTGA 62.365 63.158 13.15 0.00 0.00 4.02
2182 5351 2.108976 CTACGCATGCCCGGTGAT 59.891 61.111 13.15 0.00 0.00 3.06
2183 5352 2.203001 TACGCATGCCCGGTGATG 60.203 61.111 13.15 2.85 0.00 3.07
2184 5353 3.748660 TACGCATGCCCGGTGATGG 62.749 63.158 13.15 0.00 0.00 3.51
2201 5370 4.307908 GCAACACCACCGCGTGTC 62.308 66.667 4.92 0.00 46.19 3.67
2202 5371 2.587753 CAACACCACCGCGTGTCT 60.588 61.111 4.92 0.00 46.19 3.41
2203 5372 2.177580 CAACACCACCGCGTGTCTT 61.178 57.895 4.92 0.00 46.19 3.01
2204 5373 1.885850 AACACCACCGCGTGTCTTC 60.886 57.895 4.92 0.00 46.19 2.87
2205 5374 3.403057 CACCACCGCGTGTCTTCG 61.403 66.667 4.92 0.00 0.00 3.79
2206 5375 3.908081 ACCACCGCGTGTCTTCGT 61.908 61.111 4.92 0.00 0.00 3.85
2207 5376 3.103911 CCACCGCGTGTCTTCGTC 61.104 66.667 4.92 0.00 0.00 4.20
2208 5377 3.103911 CACCGCGTGTCTTCGTCC 61.104 66.667 4.92 0.00 0.00 4.79
2209 5378 3.598715 ACCGCGTGTCTTCGTCCA 61.599 61.111 4.92 0.00 0.00 4.02
2210 5379 3.103911 CCGCGTGTCTTCGTCCAC 61.104 66.667 4.92 0.00 0.00 4.02
2222 5391 4.712425 GTCCACGACGTGTCCCCG 62.712 72.222 25.18 10.66 0.00 5.73
2252 5421 3.793144 CTGGTGCGGCGCTTCTTC 61.793 66.667 33.26 16.86 0.00 2.87
2253 5422 4.617520 TGGTGCGGCGCTTCTTCA 62.618 61.111 33.26 19.12 0.00 3.02
2254 5423 3.353836 GGTGCGGCGCTTCTTCAA 61.354 61.111 33.26 7.71 0.00 2.69
2255 5424 2.127232 GTGCGGCGCTTCTTCAAC 60.127 61.111 33.26 16.90 0.00 3.18
2256 5425 2.280797 TGCGGCGCTTCTTCAACT 60.281 55.556 33.26 0.00 0.00 3.16
2257 5426 1.891919 TGCGGCGCTTCTTCAACTT 60.892 52.632 33.26 0.00 0.00 2.66
2258 5427 1.154395 GCGGCGCTTCTTCAACTTC 60.154 57.895 26.86 0.00 0.00 3.01
2259 5428 1.130613 CGGCGCTTCTTCAACTTCG 59.869 57.895 7.64 0.00 0.00 3.79
2260 5429 1.557443 CGGCGCTTCTTCAACTTCGT 61.557 55.000 7.64 0.00 0.00 3.85
2261 5430 0.164002 GGCGCTTCTTCAACTTCGTC 59.836 55.000 7.64 0.00 0.00 4.20
2262 5431 1.140816 GCGCTTCTTCAACTTCGTCT 58.859 50.000 0.00 0.00 0.00 4.18
2263 5432 1.527311 GCGCTTCTTCAACTTCGTCTT 59.473 47.619 0.00 0.00 0.00 3.01
2264 5433 2.410389 GCGCTTCTTCAACTTCGTCTTC 60.410 50.000 0.00 0.00 0.00 2.87
2265 5434 2.794910 CGCTTCTTCAACTTCGTCTTCA 59.205 45.455 0.00 0.00 0.00 3.02
2266 5435 3.430218 CGCTTCTTCAACTTCGTCTTCAT 59.570 43.478 0.00 0.00 0.00 2.57
2267 5436 4.433544 CGCTTCTTCAACTTCGTCTTCATC 60.434 45.833 0.00 0.00 0.00 2.92
2268 5437 4.143009 GCTTCTTCAACTTCGTCTTCATCC 60.143 45.833 0.00 0.00 0.00 3.51
2269 5438 3.575630 TCTTCAACTTCGTCTTCATCCG 58.424 45.455 0.00 0.00 0.00 4.18
2270 5439 3.005472 TCTTCAACTTCGTCTTCATCCGT 59.995 43.478 0.00 0.00 0.00 4.69
2271 5440 2.942710 TCAACTTCGTCTTCATCCGTC 58.057 47.619 0.00 0.00 0.00 4.79
2272 5441 2.557056 TCAACTTCGTCTTCATCCGTCT 59.443 45.455 0.00 0.00 0.00 4.18
2273 5442 3.754850 TCAACTTCGTCTTCATCCGTCTA 59.245 43.478 0.00 0.00 0.00 2.59
2274 5443 3.761311 ACTTCGTCTTCATCCGTCTAC 57.239 47.619 0.00 0.00 0.00 2.59
2275 5444 2.095532 ACTTCGTCTTCATCCGTCTACG 59.904 50.000 0.00 0.00 39.44 3.51
2276 5445 0.376152 TCGTCTTCATCCGTCTACGC 59.624 55.000 0.00 0.00 38.18 4.42
2277 5446 0.098200 CGTCTTCATCCGTCTACGCA 59.902 55.000 0.00 0.00 38.18 5.24
2278 5447 1.268589 CGTCTTCATCCGTCTACGCAT 60.269 52.381 0.00 0.00 38.18 4.73
2279 5448 2.120232 GTCTTCATCCGTCTACGCATG 58.880 52.381 0.00 0.00 38.77 4.06
2280 5449 0.855349 CTTCATCCGTCTACGCATGC 59.145 55.000 7.91 7.91 37.43 4.06
2281 5450 0.529773 TTCATCCGTCTACGCATGCC 60.530 55.000 13.15 0.00 37.43 4.40
2282 5451 1.956170 CATCCGTCTACGCATGCCC 60.956 63.158 13.15 0.00 30.27 5.36
2283 5452 2.431454 ATCCGTCTACGCATGCCCA 61.431 57.895 13.15 0.00 38.18 5.36
2284 5453 2.369257 ATCCGTCTACGCATGCCCAG 62.369 60.000 13.15 9.50 38.18 4.45
2285 5454 2.184322 CGTCTACGCATGCCCAGT 59.816 61.111 13.15 7.05 0.00 4.00
2286 5455 2.167219 CGTCTACGCATGCCCAGTG 61.167 63.158 13.15 0.00 0.00 3.66
2287 5456 2.125147 TCTACGCATGCCCAGTGC 60.125 61.111 13.15 0.00 41.77 4.40
2288 5457 2.124983 CTACGCATGCCCAGTGCT 60.125 61.111 13.15 0.00 40.37 4.40
2289 5458 2.436469 TACGCATGCCCAGTGCTG 60.436 61.111 13.15 0.00 40.37 4.41
2306 5475 2.331451 GGCAACACCAACGAGTGC 59.669 61.111 0.00 0.00 41.67 4.40
2307 5476 2.331451 GCAACACCAACGAGTGCC 59.669 61.111 0.00 0.00 41.67 5.01
2308 5477 2.186826 GCAACACCAACGAGTGCCT 61.187 57.895 0.00 0.00 41.67 4.75
2309 5478 1.724582 GCAACACCAACGAGTGCCTT 61.725 55.000 0.00 0.00 41.67 4.35
2310 5479 0.307760 CAACACCAACGAGTGCCTTC 59.692 55.000 0.00 0.00 41.67 3.46
2311 5480 1.157870 AACACCAACGAGTGCCTTCG 61.158 55.000 5.52 5.52 45.70 3.79
2319 5488 2.783828 CGAGTGCCTTCGTCTATGAT 57.216 50.000 0.00 0.00 35.91 2.45
2320 5489 2.389059 CGAGTGCCTTCGTCTATGATG 58.611 52.381 0.00 0.00 35.91 3.07
2321 5490 2.223595 CGAGTGCCTTCGTCTATGATGT 60.224 50.000 0.00 0.00 35.91 3.06
2322 5491 3.119291 GAGTGCCTTCGTCTATGATGTG 58.881 50.000 0.00 0.00 0.00 3.21
2323 5492 2.497675 AGTGCCTTCGTCTATGATGTGT 59.502 45.455 0.00 0.00 0.00 3.72
2324 5493 2.860735 GTGCCTTCGTCTATGATGTGTC 59.139 50.000 0.00 0.00 0.00 3.67
2325 5494 2.159099 TGCCTTCGTCTATGATGTGTCC 60.159 50.000 0.00 0.00 0.00 4.02
2326 5495 2.803492 GCCTTCGTCTATGATGTGTCCC 60.803 54.545 0.00 0.00 0.00 4.46
2327 5496 2.224066 CCTTCGTCTATGATGTGTCCCC 60.224 54.545 0.00 0.00 0.00 4.81
2328 5497 2.153034 TCGTCTATGATGTGTCCCCA 57.847 50.000 0.00 0.00 0.00 4.96
2329 5498 2.031870 TCGTCTATGATGTGTCCCCAG 58.968 52.381 0.00 0.00 0.00 4.45
2330 5499 1.069204 CGTCTATGATGTGTCCCCAGG 59.931 57.143 0.00 0.00 0.00 4.45
2331 5500 1.417890 GTCTATGATGTGTCCCCAGGG 59.582 57.143 0.00 0.00 0.00 4.45
2332 5501 1.009552 TCTATGATGTGTCCCCAGGGT 59.990 52.381 4.22 0.00 36.47 4.34
2333 5502 1.846439 CTATGATGTGTCCCCAGGGTT 59.154 52.381 4.22 0.00 36.47 4.11
2334 5503 0.332632 ATGATGTGTCCCCAGGGTTG 59.667 55.000 4.22 0.00 36.47 3.77
2335 5504 1.000896 GATGTGTCCCCAGGGTTGG 60.001 63.158 4.22 0.00 44.60 3.77
2336 5505 3.224007 ATGTGTCCCCAGGGTTGGC 62.224 63.158 4.22 0.00 43.58 4.52
2337 5506 3.897122 GTGTCCCCAGGGTTGGCA 61.897 66.667 4.22 0.00 43.58 4.92
2338 5507 3.106609 TGTCCCCAGGGTTGGCAA 61.107 61.111 4.22 0.00 43.58 4.52
2339 5508 2.600470 GTCCCCAGGGTTGGCAAC 60.600 66.667 21.92 21.92 43.58 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
132 294 2.641815 AGAGCAAGATGGAGGTCAACTT 59.358 45.455 0.00 0.00 38.75 2.66
158 320 3.903714 TGACAAGGACTGAAGATCTTCCA 59.096 43.478 28.40 17.07 38.77 3.53
223 385 1.980232 TACCTCGCCACCGACATGT 60.980 57.895 0.00 0.00 38.82 3.21
232 394 1.032794 CATAGAGCTGTACCTCGCCA 58.967 55.000 0.00 0.00 36.95 5.69
422 607 1.023502 CACCAATGACACACACAGCA 58.976 50.000 0.00 0.00 0.00 4.41
442 629 5.922053 ACATATAGAGTGCACATGTCATGT 58.078 37.500 21.04 17.98 46.22 3.21
452 639 5.335976 CCGCTTCATCTACATATAGAGTGCA 60.336 44.000 0.00 0.00 40.84 4.57
534 2559 4.363991 ACAAATCAAGTGAGCTCTCCTT 57.636 40.909 16.19 13.65 0.00 3.36
638 2664 8.463930 AAAGAAAATCAGAGAATGTGTTACCA 57.536 30.769 0.00 0.00 0.00 3.25
641 2667 8.690203 TGGAAAGAAAATCAGAGAATGTGTTA 57.310 30.769 0.00 0.00 0.00 2.41
959 3161 1.403679 TCCAAGAAAGGCACAACAACG 59.596 47.619 0.00 0.00 0.00 4.10
960 3162 3.518634 TTCCAAGAAAGGCACAACAAC 57.481 42.857 0.00 0.00 0.00 3.32
1032 3235 4.947388 AGGCACTGTTCACTAAACTTTTGA 59.053 37.500 0.00 0.00 37.18 2.69
1077 3288 4.501915 CGTAAATATTGCTCCTCCGGGTAA 60.502 45.833 0.00 0.00 0.00 2.85
1948 5117 0.886563 ACCCTAGTGTTCGAACCTCG 59.113 55.000 24.78 15.96 42.10 4.63
1978 5147 2.233186 ACAGGTAGGTAGAAGGCGAAAC 59.767 50.000 0.00 0.00 0.00 2.78
2008 5177 4.095932 GGGGTAGACAATTCGGTGATTTTC 59.904 45.833 0.00 0.00 0.00 2.29
2011 5180 2.419574 CGGGGTAGACAATTCGGTGATT 60.420 50.000 0.00 0.00 0.00 2.57
2012 5181 1.138266 CGGGGTAGACAATTCGGTGAT 59.862 52.381 0.00 0.00 0.00 3.06
2013 5182 0.533491 CGGGGTAGACAATTCGGTGA 59.467 55.000 0.00 0.00 0.00 4.02
2014 5183 0.533491 TCGGGGTAGACAATTCGGTG 59.467 55.000 0.00 0.00 0.00 4.94
2015 5184 0.533951 GTCGGGGTAGACAATTCGGT 59.466 55.000 0.00 0.00 40.65 4.69
2016 5185 0.179092 GGTCGGGGTAGACAATTCGG 60.179 60.000 0.00 0.00 42.62 4.30
2017 5186 0.526954 CGGTCGGGGTAGACAATTCG 60.527 60.000 0.00 0.00 42.62 3.34
2018 5187 0.808847 GCGGTCGGGGTAGACAATTC 60.809 60.000 0.00 0.00 42.62 2.17
2019 5188 1.219935 GCGGTCGGGGTAGACAATT 59.780 57.895 0.00 0.00 42.62 2.32
2020 5189 1.262640 AAGCGGTCGGGGTAGACAAT 61.263 55.000 0.00 0.00 42.62 2.71
2021 5190 1.880819 GAAGCGGTCGGGGTAGACAA 61.881 60.000 0.00 0.00 42.62 3.18
2022 5191 2.283388 AAGCGGTCGGGGTAGACA 60.283 61.111 0.00 0.00 42.62 3.41
2023 5192 1.673808 ATGAAGCGGTCGGGGTAGAC 61.674 60.000 0.00 0.00 40.25 2.59
2024 5193 1.380785 ATGAAGCGGTCGGGGTAGA 60.381 57.895 0.00 0.00 0.00 2.59
2025 5194 1.067582 GATGAAGCGGTCGGGGTAG 59.932 63.158 0.00 0.00 0.00 3.18
2026 5195 0.106569 TAGATGAAGCGGTCGGGGTA 60.107 55.000 0.00 0.00 0.00 3.69
2027 5196 1.380785 TAGATGAAGCGGTCGGGGT 60.381 57.895 0.00 0.00 0.00 4.95
2028 5197 1.067582 GTAGATGAAGCGGTCGGGG 59.932 63.158 0.00 0.00 0.00 5.73
2029 5198 0.030908 GAGTAGATGAAGCGGTCGGG 59.969 60.000 0.00 0.00 0.00 5.14
2030 5199 0.030908 GGAGTAGATGAAGCGGTCGG 59.969 60.000 0.00 0.00 0.00 4.79
2031 5200 0.317103 CGGAGTAGATGAAGCGGTCG 60.317 60.000 0.00 0.00 0.00 4.79
2032 5201 1.022735 TCGGAGTAGATGAAGCGGTC 58.977 55.000 0.00 0.00 0.00 4.79
2033 5202 0.739561 GTCGGAGTAGATGAAGCGGT 59.260 55.000 0.00 0.00 0.00 5.68
2034 5203 0.738975 TGTCGGAGTAGATGAAGCGG 59.261 55.000 0.00 0.00 0.00 5.52
2035 5204 2.186076 GTTGTCGGAGTAGATGAAGCG 58.814 52.381 0.00 0.00 0.00 4.68
2036 5205 2.541556 GGTTGTCGGAGTAGATGAAGC 58.458 52.381 0.00 0.00 0.00 3.86
2037 5206 2.798680 CGGTTGTCGGAGTAGATGAAG 58.201 52.381 0.00 0.00 34.75 3.02
2038 5207 1.135199 GCGGTTGTCGGAGTAGATGAA 60.135 52.381 0.00 0.00 39.69 2.57
2039 5208 0.454600 GCGGTTGTCGGAGTAGATGA 59.545 55.000 0.00 0.00 39.69 2.92
2040 5209 0.866061 CGCGGTTGTCGGAGTAGATG 60.866 60.000 0.00 0.00 39.69 2.90
2041 5210 1.432251 CGCGGTTGTCGGAGTAGAT 59.568 57.895 0.00 0.00 39.69 1.98
2042 5211 2.872557 CGCGGTTGTCGGAGTAGA 59.127 61.111 0.00 0.00 39.69 2.59
2052 5221 4.459331 CAATGTCGCCCGCGGTTG 62.459 66.667 26.12 16.76 40.25 3.77
2066 5235 4.820744 AATCAGCGCGGGGCCAAT 62.821 61.111 13.87 4.74 45.17 3.16
2091 5260 2.852431 GAAGGACTCGACGACGGCTG 62.852 65.000 7.55 0.00 40.21 4.85
2092 5261 2.672307 AAGGACTCGACGACGGCT 60.672 61.111 7.55 0.00 40.21 5.52
2093 5262 2.202453 GAAGGACTCGACGACGGC 60.202 66.667 7.55 0.00 40.21 5.68
2094 5263 1.424635 GAGAAGGACTCGACGACGG 59.575 63.158 7.55 0.90 40.21 4.79
2102 5271 1.220477 GGCCAGCAGAGAAGGACTC 59.780 63.158 0.00 0.00 45.22 3.36
2103 5272 1.229464 AGGCCAGCAGAGAAGGACT 60.229 57.895 5.01 0.00 35.43 3.85
2104 5273 1.220477 GAGGCCAGCAGAGAAGGAC 59.780 63.158 5.01 0.00 0.00 3.85
2105 5274 0.975040 GAGAGGCCAGCAGAGAAGGA 60.975 60.000 5.01 0.00 0.00 3.36
2106 5275 1.521616 GAGAGGCCAGCAGAGAAGG 59.478 63.158 5.01 0.00 0.00 3.46
2107 5276 1.521616 GGAGAGGCCAGCAGAGAAG 59.478 63.158 5.01 0.00 36.34 2.85
2108 5277 2.354401 CGGAGAGGCCAGCAGAGAA 61.354 63.158 5.01 0.00 35.94 2.87
2109 5278 2.757508 CGGAGAGGCCAGCAGAGA 60.758 66.667 5.01 0.00 35.94 3.10
2110 5279 2.757508 TCGGAGAGGCCAGCAGAG 60.758 66.667 5.01 0.00 35.94 3.35
2111 5280 3.071206 GTCGGAGAGGCCAGCAGA 61.071 66.667 5.01 0.00 36.95 4.26
2112 5281 2.177594 AAAGTCGGAGAGGCCAGCAG 62.178 60.000 5.01 0.00 36.95 4.24
2113 5282 1.768684 AAAAGTCGGAGAGGCCAGCA 61.769 55.000 5.01 0.00 36.95 4.41
2114 5283 0.606673 AAAAAGTCGGAGAGGCCAGC 60.607 55.000 5.01 0.00 36.95 4.85
2115 5284 1.443802 GAAAAAGTCGGAGAGGCCAG 58.556 55.000 5.01 0.00 36.95 4.85
2116 5285 0.320421 CGAAAAAGTCGGAGAGGCCA 60.320 55.000 5.01 0.00 46.45 5.36
2117 5286 2.457080 CGAAAAAGTCGGAGAGGCC 58.543 57.895 0.00 0.00 46.45 5.19
2126 5295 2.477375 TGTACGCCATGTCGAAAAAGTC 59.523 45.455 1.83 0.00 0.00 3.01
2127 5296 2.485903 TGTACGCCATGTCGAAAAAGT 58.514 42.857 1.83 0.00 0.00 2.66
2128 5297 3.059188 AGTTGTACGCCATGTCGAAAAAG 60.059 43.478 1.83 0.00 0.00 2.27
2129 5298 2.873472 AGTTGTACGCCATGTCGAAAAA 59.127 40.909 1.83 0.00 0.00 1.94
2130 5299 2.477375 GAGTTGTACGCCATGTCGAAAA 59.523 45.455 1.83 0.00 0.00 2.29
2131 5300 2.063266 GAGTTGTACGCCATGTCGAAA 58.937 47.619 1.83 0.00 0.00 3.46
2132 5301 1.705256 GAGTTGTACGCCATGTCGAA 58.295 50.000 1.83 0.00 0.00 3.71
2133 5302 0.455464 CGAGTTGTACGCCATGTCGA 60.455 55.000 1.83 0.00 32.90 4.20
2134 5303 0.731514 ACGAGTTGTACGCCATGTCG 60.732 55.000 0.00 0.00 35.70 4.35
2135 5304 0.713883 CACGAGTTGTACGCCATGTC 59.286 55.000 0.00 0.00 0.00 3.06
2136 5305 1.289109 GCACGAGTTGTACGCCATGT 61.289 55.000 0.00 0.00 0.00 3.21
2137 5306 1.288419 TGCACGAGTTGTACGCCATG 61.288 55.000 0.00 0.00 0.00 3.66
2138 5307 1.005512 TGCACGAGTTGTACGCCAT 60.006 52.632 0.00 0.00 0.00 4.40
2139 5308 1.663388 CTGCACGAGTTGTACGCCA 60.663 57.895 0.00 0.00 0.00 5.69
2140 5309 2.380410 CCTGCACGAGTTGTACGCC 61.380 63.158 0.00 0.00 0.00 5.68
2141 5310 1.615107 GACCTGCACGAGTTGTACGC 61.615 60.000 0.00 0.00 0.00 4.42
2142 5311 1.007336 GGACCTGCACGAGTTGTACG 61.007 60.000 0.00 0.00 0.00 3.67
2143 5312 0.032952 TGGACCTGCACGAGTTGTAC 59.967 55.000 0.00 0.00 0.00 2.90
2144 5313 0.317160 CTGGACCTGCACGAGTTGTA 59.683 55.000 0.00 0.00 0.00 2.41
2145 5314 1.069765 CTGGACCTGCACGAGTTGT 59.930 57.895 0.00 0.00 0.00 3.32
2146 5315 0.946221 GTCTGGACCTGCACGAGTTG 60.946 60.000 0.00 0.00 0.00 3.16
2147 5316 1.115930 AGTCTGGACCTGCACGAGTT 61.116 55.000 0.00 0.00 0.00 3.01
2148 5317 0.251209 TAGTCTGGACCTGCACGAGT 60.251 55.000 0.00 0.00 0.00 4.18
2149 5318 0.171455 GTAGTCTGGACCTGCACGAG 59.829 60.000 0.00 0.00 0.00 4.18
2150 5319 1.583495 CGTAGTCTGGACCTGCACGA 61.583 60.000 11.77 0.00 0.00 4.35
2151 5320 1.154016 CGTAGTCTGGACCTGCACG 60.154 63.158 0.00 0.00 0.00 5.34
2152 5321 1.446272 GCGTAGTCTGGACCTGCAC 60.446 63.158 0.00 0.00 0.00 4.57
2153 5322 1.257750 ATGCGTAGTCTGGACCTGCA 61.258 55.000 12.15 12.15 37.51 4.41
2154 5323 0.807667 CATGCGTAGTCTGGACCTGC 60.808 60.000 0.00 0.65 0.00 4.85
2155 5324 0.807667 GCATGCGTAGTCTGGACCTG 60.808 60.000 0.00 0.00 0.00 4.00
2156 5325 1.517832 GCATGCGTAGTCTGGACCT 59.482 57.895 0.00 0.00 0.00 3.85
2157 5326 1.521681 GGCATGCGTAGTCTGGACC 60.522 63.158 12.44 0.00 0.00 4.46
2158 5327 1.521681 GGGCATGCGTAGTCTGGAC 60.522 63.158 12.44 0.00 0.00 4.02
2159 5328 2.900273 GGGCATGCGTAGTCTGGA 59.100 61.111 12.44 0.00 0.00 3.86
2160 5329 2.586079 CGGGCATGCGTAGTCTGG 60.586 66.667 12.44 0.00 0.00 3.86
2161 5330 2.586079 CCGGGCATGCGTAGTCTG 60.586 66.667 12.44 1.96 0.00 3.51
2162 5331 3.075005 ACCGGGCATGCGTAGTCT 61.075 61.111 12.44 0.00 0.00 3.24
2163 5332 2.644555 ATCACCGGGCATGCGTAGTC 62.645 60.000 12.44 0.00 0.00 2.59
2164 5333 2.731571 ATCACCGGGCATGCGTAGT 61.732 57.895 12.44 5.41 0.00 2.73
2165 5334 2.108976 ATCACCGGGCATGCGTAG 59.891 61.111 12.44 4.71 0.00 3.51
2166 5335 2.203001 CATCACCGGGCATGCGTA 60.203 61.111 12.44 0.00 0.00 4.42
2174 5343 3.061848 GGTGTTGCCATCACCGGG 61.062 66.667 6.32 0.00 44.34 5.73
2188 5357 3.403057 CGAAGACACGCGGTGGTG 61.403 66.667 12.47 1.02 43.54 4.17
2189 5358 3.836176 GACGAAGACACGCGGTGGT 62.836 63.158 12.47 5.38 37.94 4.16
2190 5359 3.103911 GACGAAGACACGCGGTGG 61.104 66.667 12.47 1.38 37.94 4.61
2191 5360 3.103911 GGACGAAGACACGCGGTG 61.104 66.667 12.47 9.20 39.75 4.94
2192 5361 3.598715 TGGACGAAGACACGCGGT 61.599 61.111 12.47 5.31 36.70 5.68
2193 5362 3.103911 GTGGACGAAGACACGCGG 61.104 66.667 12.47 1.27 36.70 6.46
2205 5374 4.712425 CGGGGACACGTCGTGGAC 62.712 72.222 27.77 20.06 37.94 4.02
2235 5404 3.793144 GAAGAAGCGCCGCACCAG 61.793 66.667 13.36 0.00 0.00 4.00
2236 5405 4.617520 TGAAGAAGCGCCGCACCA 62.618 61.111 13.36 0.00 0.00 4.17
2237 5406 3.353836 TTGAAGAAGCGCCGCACC 61.354 61.111 13.36 1.55 0.00 5.01
2238 5407 2.117941 AAGTTGAAGAAGCGCCGCAC 62.118 55.000 13.36 4.85 0.00 5.34
2239 5408 1.841663 GAAGTTGAAGAAGCGCCGCA 61.842 55.000 13.36 0.00 0.00 5.69
2240 5409 1.154395 GAAGTTGAAGAAGCGCCGC 60.154 57.895 2.29 0.00 0.00 6.53
2241 5410 1.130613 CGAAGTTGAAGAAGCGCCG 59.869 57.895 2.29 0.00 0.00 6.46
2242 5411 2.235546 ACGAAGTTGAAGAAGCGCC 58.764 52.632 2.29 0.00 37.78 6.53
2250 5419 8.948936 CGTAGACGGATGAAGACGAAGTTGAA 62.949 46.154 0.00 0.00 36.76 2.69
2251 5420 7.585867 CGTAGACGGATGAAGACGAAGTTGA 62.586 48.000 0.00 0.00 36.76 3.18
2252 5421 5.474926 CGTAGACGGATGAAGACGAAGTTG 61.475 50.000 0.00 0.00 36.76 3.16
2253 5422 3.425892 CGTAGACGGATGAAGACGAAGTT 60.426 47.826 0.00 0.00 36.76 2.66
2254 5423 2.095532 CGTAGACGGATGAAGACGAAGT 59.904 50.000 0.00 0.00 38.92 3.01
2255 5424 2.706273 CGTAGACGGATGAAGACGAAG 58.294 52.381 0.00 0.00 35.37 3.79
2256 5425 1.202110 GCGTAGACGGATGAAGACGAA 60.202 52.381 3.97 0.00 40.23 3.85
2257 5426 0.376152 GCGTAGACGGATGAAGACGA 59.624 55.000 3.97 0.00 40.23 4.20
2258 5427 0.098200 TGCGTAGACGGATGAAGACG 59.902 55.000 3.97 0.00 40.23 4.18
2266 5435 3.071837 TGGGCATGCGTAGACGGA 61.072 61.111 12.44 0.66 45.29 4.69
2267 5436 2.586079 CTGGGCATGCGTAGACGG 60.586 66.667 12.44 0.63 40.23 4.79
2268 5437 2.167219 CACTGGGCATGCGTAGACG 61.167 63.158 22.02 11.35 43.27 4.18
2269 5438 2.464459 GCACTGGGCATGCGTAGAC 61.464 63.158 22.02 12.14 43.97 2.59
2270 5439 2.125147 GCACTGGGCATGCGTAGA 60.125 61.111 22.02 2.24 43.97 2.59
2289 5458 2.331451 GCACTCGTTGGTGTTGCC 59.669 61.111 0.00 0.00 39.21 4.52
2290 5459 1.724582 AAGGCACTCGTTGGTGTTGC 61.725 55.000 0.00 0.00 38.49 4.17
2291 5460 0.307760 GAAGGCACTCGTTGGTGTTG 59.692 55.000 0.00 0.00 38.49 3.33
2292 5461 1.157870 CGAAGGCACTCGTTGGTGTT 61.158 55.000 1.28 0.00 38.49 3.32
2293 5462 1.594293 CGAAGGCACTCGTTGGTGT 60.594 57.895 1.28 0.00 38.49 4.16
2294 5463 1.557443 GACGAAGGCACTCGTTGGTG 61.557 60.000 14.59 0.00 40.85 4.17
2295 5464 1.300697 GACGAAGGCACTCGTTGGT 60.301 57.895 14.59 0.00 40.85 3.67
2296 5465 0.242825 TAGACGAAGGCACTCGTTGG 59.757 55.000 14.59 0.00 40.85 3.77
2297 5466 1.920574 CATAGACGAAGGCACTCGTTG 59.079 52.381 14.59 6.93 40.85 4.10
2298 5467 1.816835 TCATAGACGAAGGCACTCGTT 59.183 47.619 14.59 8.40 40.85 3.85
2299 5468 1.460504 TCATAGACGAAGGCACTCGT 58.539 50.000 13.53 13.53 42.68 4.18
2300 5469 2.223595 ACATCATAGACGAAGGCACTCG 60.224 50.000 7.38 7.38 38.49 4.18
2301 5470 3.119291 CACATCATAGACGAAGGCACTC 58.881 50.000 0.00 0.00 38.49 3.51
2303 5472 2.860735 GACACATCATAGACGAAGGCAC 59.139 50.000 0.00 0.00 0.00 5.01
2304 5473 2.159099 GGACACATCATAGACGAAGGCA 60.159 50.000 0.00 0.00 0.00 4.75
2305 5474 2.474816 GGACACATCATAGACGAAGGC 58.525 52.381 0.00 0.00 0.00 4.35
2306 5475 2.224066 GGGGACACATCATAGACGAAGG 60.224 54.545 0.00 0.00 0.00 3.46
2307 5476 2.430694 TGGGGACACATCATAGACGAAG 59.569 50.000 0.00 0.00 33.40 3.79
2308 5477 2.430694 CTGGGGACACATCATAGACGAA 59.569 50.000 0.00 0.00 35.60 3.85
2309 5478 2.031870 CTGGGGACACATCATAGACGA 58.968 52.381 0.00 0.00 35.60 4.20
2310 5479 1.069204 CCTGGGGACACATCATAGACG 59.931 57.143 0.00 0.00 35.60 4.18
2311 5480 1.417890 CCCTGGGGACACATCATAGAC 59.582 57.143 4.27 0.00 37.50 2.59
2312 5481 1.009552 ACCCTGGGGACACATCATAGA 59.990 52.381 18.88 0.00 38.96 1.98
2313 5482 1.511613 ACCCTGGGGACACATCATAG 58.488 55.000 18.88 0.00 38.96 2.23
2314 5483 1.563879 CAACCCTGGGGACACATCATA 59.436 52.381 18.88 0.00 38.96 2.15
2315 5484 0.332632 CAACCCTGGGGACACATCAT 59.667 55.000 18.88 0.00 38.96 2.45
2316 5485 1.767036 CAACCCTGGGGACACATCA 59.233 57.895 18.88 0.00 38.96 3.07
2317 5486 1.000896 CCAACCCTGGGGACACATC 60.001 63.158 18.88 0.00 39.30 3.06
2318 5487 3.180282 CCAACCCTGGGGACACAT 58.820 61.111 18.88 0.00 39.30 3.21
2319 5488 3.897122 GCCAACCCTGGGGACACA 61.897 66.667 18.88 0.00 43.74 3.72
2320 5489 3.444818 TTGCCAACCCTGGGGACAC 62.445 63.158 18.88 4.38 43.74 3.67
2321 5490 3.106609 TTGCCAACCCTGGGGACA 61.107 61.111 18.88 6.42 43.74 4.02
2322 5491 2.600470 GTTGCCAACCCTGGGGAC 60.600 66.667 18.88 3.62 43.74 4.46
2323 5492 3.909651 GGTTGCCAACCCTGGGGA 61.910 66.667 16.01 0.00 46.12 4.81


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

AutoCloner maintained by Alex Coulton.