Multiple sequence alignment - TraesCS4D01G187400

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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 TraesCS4D01G187400 chr4D 100.000 2228 0 0 1 2228 326374622 326372395 0.000000e+00 4115.0
1 TraesCS4D01G187400 chr4D 95.890 146 6 0 2083 2228 326252600 326252455 1.030000e-58 237.0
2 TraesCS4D01G187400 chr4A 93.992 1215 73 0 1 1215 43214595 43213381 0.000000e+00 1840.0
3 TraesCS4D01G187400 chr4A 82.428 313 45 6 1216 1518 103003984 103003672 4.720000e-67 265.0
4 TraesCS4D01G187400 chr4A 80.913 241 33 9 1290 1518 283993275 283993514 6.320000e-41 178.0
5 TraesCS4D01G187400 chr4A 82.723 191 20 9 1339 1518 169256481 169256669 8.240000e-35 158.0
6 TraesCS4D01G187400 chr1D 90.717 1228 112 2 1 1227 474930258 474931484 0.000000e+00 1635.0
7 TraesCS4D01G187400 chr1D 81.564 1215 222 2 14 1227 30190484 30189271 0.000000e+00 1002.0
8 TraesCS4D01G187400 chr1D 82.484 314 43 9 1216 1518 180892562 180892874 4.720000e-67 265.0
9 TraesCS4D01G187400 chr1D 94.521 146 8 0 2083 2228 115580612 115580467 2.230000e-55 226.0
10 TraesCS4D01G187400 chr1D 79.130 230 35 8 1301 1518 357200859 357201087 1.780000e-31 147.0
11 TraesCS4D01G187400 chr1D 90.141 71 5 2 1999 2068 236440582 236440513 8.470000e-15 91.6
12 TraesCS4D01G187400 chr6A 90.065 1228 120 2 1 1227 270734772 270733546 0.000000e+00 1591.0
13 TraesCS4D01G187400 chr6A 82.169 1217 214 3 12 1227 38731343 38732557 0.000000e+00 1042.0
14 TraesCS4D01G187400 chr3D 89.482 1217 126 2 12 1227 303460627 303459412 0.000000e+00 1537.0
15 TraesCS4D01G187400 chr3D 95.890 146 6 0 2083 2228 60020681 60020826 1.030000e-58 237.0
16 TraesCS4D01G187400 chr3D 94.521 146 8 0 2083 2228 162884043 162883898 2.230000e-55 226.0
17 TraesCS4D01G187400 chr3D 94.521 146 8 0 2083 2228 187854015 187854160 2.230000e-55 226.0
18 TraesCS4D01G187400 chr3D 94.521 146 8 0 2083 2228 503691310 503691455 2.230000e-55 226.0
19 TraesCS4D01G187400 chr2B 82.030 1202 213 1 14 1215 91762518 91761320 0.000000e+00 1020.0
20 TraesCS4D01G187400 chr2B 81.488 1210 220 4 14 1222 282052100 282050894 0.000000e+00 990.0
21 TraesCS4D01G187400 chr4B 86.816 895 98 9 1216 2092 406382480 406381588 0.000000e+00 981.0
22 TraesCS4D01G187400 chr4B 78.175 252 44 6 1278 1518 103396607 103396858 1.380000e-32 150.0
23 TraesCS4D01G187400 chr7B 81.152 1215 227 2 14 1227 268479632 268478419 0.000000e+00 974.0
24 TraesCS4D01G187400 chr7B 82.156 269 34 10 1216 1473 316871888 316872153 3.730000e-53 219.0
25 TraesCS4D01G187400 chr7B 91.216 148 13 0 1219 1366 18729877 18729730 3.750000e-48 202.0
26 TraesCS4D01G187400 chr2D 85.135 296 34 2 1219 1504 414417851 414417556 6.020000e-76 294.0
27 TraesCS4D01G187400 chr2D 94.483 145 8 0 2084 2228 58239385 58239241 8.010000e-55 224.0
28 TraesCS4D01G187400 chr2D 78.378 259 44 4 1272 1518 165511806 165512064 8.240000e-35 158.0
29 TraesCS4D01G187400 chr5B 81.529 314 46 9 1216 1518 119458621 119458933 4.750000e-62 248.0
30 TraesCS4D01G187400 chr5A 81.169 308 47 4 1221 1518 327360616 327360310 1.030000e-58 237.0
31 TraesCS4D01G187400 chr5A 92.857 154 9 2 2077 2228 381470297 381470450 2.880000e-54 222.0
32 TraesCS4D01G187400 chr5A 80.829 193 23 9 1338 1518 433008184 433007994 2.980000e-29 139.0
33 TraesCS4D01G187400 chr7D 95.205 146 7 0 2083 2228 311323059 311322914 4.780000e-57 231.0
34 TraesCS4D01G187400 chr7D 79.720 286 45 9 1216 1490 370138765 370139048 6.280000e-46 195.0
35 TraesCS4D01G187400 chr7D 78.992 238 37 4 1293 1518 215565819 215565583 1.380000e-32 150.0
36 TraesCS4D01G187400 chr2A 87.402 127 14 2 1393 1518 505174293 505174168 6.410000e-31 145.0


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 TraesCS4D01G187400 chr4D 326372395 326374622 2227 True 4115 4115 100.000 1 2228 1 chr4D.!!$R2 2227
1 TraesCS4D01G187400 chr4A 43213381 43214595 1214 True 1840 1840 93.992 1 1215 1 chr4A.!!$R1 1214
2 TraesCS4D01G187400 chr1D 474930258 474931484 1226 False 1635 1635 90.717 1 1227 1 chr1D.!!$F3 1226
3 TraesCS4D01G187400 chr1D 30189271 30190484 1213 True 1002 1002 81.564 14 1227 1 chr1D.!!$R1 1213
4 TraesCS4D01G187400 chr6A 270733546 270734772 1226 True 1591 1591 90.065 1 1227 1 chr6A.!!$R1 1226
5 TraesCS4D01G187400 chr6A 38731343 38732557 1214 False 1042 1042 82.169 12 1227 1 chr6A.!!$F1 1215
6 TraesCS4D01G187400 chr3D 303459412 303460627 1215 True 1537 1537 89.482 12 1227 1 chr3D.!!$R2 1215
7 TraesCS4D01G187400 chr2B 91761320 91762518 1198 True 1020 1020 82.030 14 1215 1 chr2B.!!$R1 1201
8 TraesCS4D01G187400 chr2B 282050894 282052100 1206 True 990 990 81.488 14 1222 1 chr2B.!!$R2 1208
9 TraesCS4D01G187400 chr4B 406381588 406382480 892 True 981 981 86.816 1216 2092 1 chr4B.!!$R1 876
10 TraesCS4D01G187400 chr7B 268478419 268479632 1213 True 974 974 81.152 14 1227 1 chr7B.!!$R2 1213

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
59 60 0.108709 GTCAACATACGGCCGTACCA 60.109 55.0 38.58 21.54 39.03 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1340 1342 0.041926 GTACCGACGTTGTTGCCAAC 60.042 55.0 0.0 0.0 46.09 3.77 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
59 60 0.108709 GTCAACATACGGCCGTACCA 60.109 55.000 38.58 21.54 39.03 3.25
70 71 1.459450 GCCGTACCATCACAAACCAT 58.541 50.000 0.00 0.00 0.00 3.55
413 415 7.962964 TTGAATTCAAAGTAGTCTCATTCGT 57.037 32.000 18.45 0.00 32.11 3.85
480 482 2.972505 AAGCCGCTCAACCGTGTG 60.973 61.111 0.00 0.00 0.00 3.82
581 583 4.245660 CTCACACTCCTTCGCAAAGATAA 58.754 43.478 0.00 0.00 34.14 1.75
657 659 1.672854 GCCACACCATCAGCATGCAT 61.673 55.000 21.98 1.94 34.76 3.96
716 718 2.618053 GAATTGGACGACACCTACTGG 58.382 52.381 0.00 0.00 39.83 4.00
865 867 2.890311 ACCACGGAGATTGCATTTCAAA 59.110 40.909 0.00 0.00 38.34 2.69
893 895 1.337635 GCAGCAGTTAGTCTCAGCACT 60.338 52.381 0.00 0.00 0.00 4.40
974 976 2.032981 GCATTGGGGCCATCTTACG 58.967 57.895 4.39 0.00 0.00 3.18
1114 1116 4.024048 CGTACCTTCAACATGCAGAGTTTT 60.024 41.667 4.71 0.00 0.00 2.43
1227 1229 1.979469 CTGCGCTATCCGAATCGTTAG 59.021 52.381 9.73 3.87 40.02 2.34
1231 1233 3.172050 CGCTATCCGAATCGTTAGGATG 58.828 50.000 16.67 10.75 43.73 3.51
1240 1242 6.423905 TCCGAATCGTTAGGATGATCAAAATC 59.576 38.462 0.00 0.00 34.93 2.17
1241 1243 6.202762 CCGAATCGTTAGGATGATCAAAATCA 59.797 38.462 0.00 0.00 45.73 2.57
1297 1299 4.371681 AGAAGGGTGGTGGTATCTTGTAT 58.628 43.478 0.00 0.00 0.00 2.29
1300 1302 4.307259 AGGGTGGTGGTATCTTGTATGAT 58.693 43.478 0.00 0.00 0.00 2.45
1303 1305 5.057149 GGTGGTGGTATCTTGTATGATCAC 58.943 45.833 0.00 0.00 0.00 3.06
1322 1324 2.742053 CACGATACAAGGTTTGTCAGGG 59.258 50.000 0.00 0.00 44.12 4.45
1325 1327 3.435671 CGATACAAGGTTTGTCAGGGAAC 59.564 47.826 0.00 0.00 44.12 3.62
1340 1342 3.438087 CAGGGAACAGTTTGTCAGCTATG 59.562 47.826 0.00 0.00 0.00 2.23
1343 1345 4.320494 GGGAACAGTTTGTCAGCTATGTTG 60.320 45.833 0.00 0.00 31.44 3.33
1362 1364 1.159098 GGCAACAACGTCGGTACCAA 61.159 55.000 13.54 0.00 0.00 3.67
1367 1369 3.578515 AACGTCGGTACCAAGGGCG 62.579 63.158 13.54 11.69 0.00 6.13
1372 1374 3.332385 GGTACCAAGGGCGGGGAA 61.332 66.667 7.15 0.00 0.00 3.97
1373 1375 2.686572 GGTACCAAGGGCGGGGAAT 61.687 63.158 7.15 0.00 0.00 3.01
1380 1382 2.517166 GGGCGGGGAATGAAGAGC 60.517 66.667 0.00 0.00 0.00 4.09
1386 1388 0.813210 GGGGAATGAAGAGCTGCTCG 60.813 60.000 22.77 0.00 35.36 5.03
1390 1392 3.262420 GGAATGAAGAGCTGCTCGTTAA 58.738 45.455 22.77 13.05 35.36 2.01
1394 1396 2.296190 TGAAGAGCTGCTCGTTAAGACA 59.704 45.455 22.77 11.24 35.36 3.41
1397 1399 2.558795 AGAGCTGCTCGTTAAGACAAGA 59.441 45.455 22.77 0.00 35.36 3.02
1398 1400 2.664085 GAGCTGCTCGTTAAGACAAGAC 59.336 50.000 14.68 0.00 0.00 3.01
1402 1404 1.984297 GCTCGTTAAGACAAGACCGAC 59.016 52.381 0.00 0.00 0.00 4.79
1406 1408 3.006110 TCGTTAAGACAAGACCGACCAAT 59.994 43.478 0.00 0.00 0.00 3.16
1408 1410 4.312443 GTTAAGACAAGACCGACCAATCA 58.688 43.478 0.00 0.00 0.00 2.57
1431 1433 3.069586 ACAAAGTTCTCGTCCATCAGTGA 59.930 43.478 0.00 0.00 0.00 3.41
1436 1438 3.351794 TCTCGTCCATCAGTGACTACT 57.648 47.619 0.00 0.00 37.75 2.57
1457 1459 8.372459 ACTACTGGAATGTCAACAACAATAGTA 58.628 33.333 5.68 0.00 42.37 1.82
1461 1463 8.226819 TGGAATGTCAACAACAATAGTAACAA 57.773 30.769 0.00 0.00 42.37 2.83
1507 1509 3.331150 CAGGGTGTTTACATAAGCACGA 58.669 45.455 11.11 0.00 44.88 4.35
1530 1532 9.233649 ACGAAATCATTACTTGGGTGTTAAATA 57.766 29.630 0.00 0.00 0.00 1.40
1532 1534 9.516314 GAAATCATTACTTGGGTGTTAAATAGC 57.484 33.333 0.00 0.00 0.00 2.97
1568 1570 2.427095 GGTTTGGGGATGTTACATCTGC 59.573 50.000 22.48 8.83 0.00 4.26
1570 1572 0.463654 TGGGGATGTTACATCTGCGC 60.464 55.000 22.48 15.74 0.00 6.09
1592 1594 3.387374 CAGGCATCTACATGAAGGAGTCT 59.613 47.826 0.00 0.00 30.57 3.24
1593 1595 3.640967 AGGCATCTACATGAAGGAGTCTC 59.359 47.826 0.00 0.00 30.57 3.36
1595 1597 3.637432 CATCTACATGAAGGAGTCTCGC 58.363 50.000 0.00 0.00 30.57 5.03
1597 1599 1.067821 CTACATGAAGGAGTCTCGCCC 59.932 57.143 0.00 0.00 0.00 6.13
1600 1602 0.324738 ATGAAGGAGTCTCGCCCTCA 60.325 55.000 0.00 0.00 31.17 3.86
1601 1603 1.251527 TGAAGGAGTCTCGCCCTCAC 61.252 60.000 0.00 0.00 31.17 3.51
1605 1607 0.107116 GGAGTCTCGCCCTCACTCTA 60.107 60.000 0.00 0.00 37.34 2.43
1640 1642 3.133003 GGAAGAGACCGATGAGGAAATGA 59.867 47.826 0.00 0.00 45.00 2.57
1642 1644 5.011125 GGAAGAGACCGATGAGGAAATGATA 59.989 44.000 0.00 0.00 45.00 2.15
1648 1650 6.042552 AGACCGATGAGGAAATGATAATGTCT 59.957 38.462 0.00 0.00 45.00 3.41
1651 1653 6.146837 CCGATGAGGAAATGATAATGTCTGAC 59.853 42.308 0.00 0.00 45.00 3.51
1652 1654 6.703165 CGATGAGGAAATGATAATGTCTGACA 59.297 38.462 13.60 13.60 0.00 3.58
1660 1662 4.104086 TGATAATGTCTGACACCCCTCTT 58.896 43.478 13.50 5.02 0.00 2.85
1662 1664 2.030027 ATGTCTGACACCCCTCTTCA 57.970 50.000 13.50 0.00 0.00 3.02
1663 1665 1.342074 TGTCTGACACCCCTCTTCAG 58.658 55.000 6.36 0.00 38.52 3.02
1706 1725 8.948631 ATTTATGTATCTAGTGTTGTCCAGTG 57.051 34.615 0.00 0.00 0.00 3.66
1725 1744 4.394300 CAGTGATGAACTTGCTCTTTAGGG 59.606 45.833 0.00 0.00 36.83 3.53
1732 1751 4.373156 ACTTGCTCTTTAGGGTGTGATT 57.627 40.909 0.00 0.00 0.00 2.57
1741 1760 6.961576 TCTTTAGGGTGTGATTGTAAAAACG 58.038 36.000 0.00 0.00 0.00 3.60
1744 1763 3.949113 AGGGTGTGATTGTAAAAACGTGT 59.051 39.130 0.00 0.00 0.00 4.49
1755 1774 6.506500 TGTAAAAACGTGTTCTTTTGGGTA 57.493 33.333 6.05 0.00 0.00 3.69
1763 1782 4.632688 CGTGTTCTTTTGGGTACGGATTAT 59.367 41.667 0.00 0.00 0.00 1.28
1778 1797 7.817962 GGTACGGATTATGCTATGTTTCTATGT 59.182 37.037 0.00 0.00 0.00 2.29
1779 1798 9.204570 GTACGGATTATGCTATGTTTCTATGTT 57.795 33.333 0.00 0.00 0.00 2.71
1789 1808 7.979537 TGCTATGTTTCTATGTTGATCTACGTT 59.020 33.333 7.33 0.00 0.00 3.99
1811 1830 5.936187 TGTTGCATGGATTGTATGGATTT 57.064 34.783 0.00 0.00 0.00 2.17
1830 1849 5.302823 GGATTTGAGGGTTGGATATTTGAGG 59.697 44.000 0.00 0.00 0.00 3.86
1844 1863 2.817396 GAGGAGCTCAGTTGCGGC 60.817 66.667 17.19 0.00 38.13 6.53
1871 1890 4.569719 AGAAATAAGGGTGAACGGTCAT 57.430 40.909 6.36 0.00 35.80 3.06
1913 1932 3.945285 AGACGTATAGGGTGCCAAATTTG 59.055 43.478 11.40 11.40 0.00 2.32
1920 1939 2.971330 AGGGTGCCAAATTTGACAATCA 59.029 40.909 19.86 6.39 0.00 2.57
1939 1958 7.112122 ACAATCATGGTTGTAATGCTCTAAGA 58.888 34.615 22.75 0.00 40.35 2.10
1965 1984 1.843851 TCCAACACTGACCCTCAAACT 59.156 47.619 0.00 0.00 0.00 2.66
1968 1987 1.807814 ACACTGACCCTCAAACTCCT 58.192 50.000 0.00 0.00 0.00 3.69
2006 2025 1.153353 ACGTGTTTAGCCATCCAACG 58.847 50.000 0.00 0.00 0.00 4.10
2007 2026 0.179200 CGTGTTTAGCCATCCAACGC 60.179 55.000 0.00 0.00 0.00 4.84
2024 2043 2.355126 CGATCCCGCATCCGTCTG 60.355 66.667 0.00 0.00 0.00 3.51
2036 2055 0.392193 TCCGTCTGTAGACCGGTCTC 60.392 60.000 39.49 28.41 41.86 3.36
2058 2077 2.407090 GCATCTGTTTTCCTGCAAACC 58.593 47.619 0.00 0.00 36.03 3.27
2068 2087 0.103937 CCTGCAAACCGGAAGCAAAA 59.896 50.000 9.46 0.00 37.89 2.44
2069 2088 1.472376 CCTGCAAACCGGAAGCAAAAA 60.472 47.619 9.46 0.00 37.89 1.94
2070 2089 1.592543 CTGCAAACCGGAAGCAAAAAC 59.407 47.619 9.46 0.00 37.89 2.43
2077 2097 2.049526 GAAGCAAAAACGGGGCGG 60.050 61.111 0.00 0.00 0.00 6.13
2094 2114 2.511900 GGGGGTGTCGGTGTCAAA 59.488 61.111 0.00 0.00 0.00 2.69
2095 2115 1.152922 GGGGGTGTCGGTGTCAAAA 60.153 57.895 0.00 0.00 0.00 2.44
2096 2116 1.449726 GGGGGTGTCGGTGTCAAAAC 61.450 60.000 0.00 0.00 0.00 2.43
2097 2117 1.449726 GGGGTGTCGGTGTCAAAACC 61.450 60.000 0.00 0.00 36.82 3.27
2103 2123 4.442018 GGTGTCAAAACCGTCCGA 57.558 55.556 0.00 0.00 0.00 4.55
2104 2124 2.922779 GGTGTCAAAACCGTCCGAT 58.077 52.632 0.00 0.00 0.00 4.18
2105 2125 0.794473 GGTGTCAAAACCGTCCGATC 59.206 55.000 0.00 0.00 0.00 3.69
2106 2126 1.607251 GGTGTCAAAACCGTCCGATCT 60.607 52.381 0.00 0.00 0.00 2.75
2107 2127 1.725164 GTGTCAAAACCGTCCGATCTC 59.275 52.381 0.00 0.00 0.00 2.75
2108 2128 0.989890 GTCAAAACCGTCCGATCTCG 59.010 55.000 0.00 0.00 39.44 4.04
2118 2138 4.192950 CGATCTCGGGTATGGGGT 57.807 61.111 0.00 0.00 35.37 4.95
2119 2139 1.965219 CGATCTCGGGTATGGGGTC 59.035 63.158 0.00 0.00 35.37 4.46
2120 2140 1.533469 CGATCTCGGGTATGGGGTCC 61.533 65.000 0.00 0.00 35.37 4.46
2121 2141 1.152096 ATCTCGGGTATGGGGTCCC 60.152 63.158 0.00 0.00 40.26 4.46
2125 2145 2.913501 GGGTATGGGGTCCCGAAC 59.086 66.667 0.48 0.00 39.42 3.95
2126 2146 1.691689 GGGTATGGGGTCCCGAACT 60.692 63.158 0.48 0.00 39.42 3.01
2127 2147 0.398948 GGGTATGGGGTCCCGAACTA 60.399 60.000 0.48 0.00 39.42 2.24
2128 2148 1.725803 GGTATGGGGTCCCGAACTAT 58.274 55.000 0.48 0.00 39.42 2.12
2129 2149 1.346722 GGTATGGGGTCCCGAACTATG 59.653 57.143 0.48 0.00 39.42 2.23
2130 2150 1.053424 TATGGGGTCCCGAACTATGC 58.947 55.000 0.48 0.00 39.42 3.14
2131 2151 2.040009 ATGGGGTCCCGAACTATGCG 62.040 60.000 0.48 0.00 39.42 4.73
2132 2152 2.728435 GGGGTCCCGAACTATGCGT 61.728 63.158 0.48 0.00 0.00 5.24
2133 2153 1.227176 GGGTCCCGAACTATGCGTC 60.227 63.158 0.00 0.00 0.00 5.19
2134 2154 1.673808 GGGTCCCGAACTATGCGTCT 61.674 60.000 0.00 0.00 0.00 4.18
2135 2155 0.527817 GGTCCCGAACTATGCGTCTG 60.528 60.000 0.00 0.00 0.00 3.51
2136 2156 0.454600 GTCCCGAACTATGCGTCTGA 59.545 55.000 0.00 0.00 0.00 3.27
2137 2157 0.738975 TCCCGAACTATGCGTCTGAG 59.261 55.000 0.00 0.00 0.00 3.35
2138 2158 0.249073 CCCGAACTATGCGTCTGAGG 60.249 60.000 0.00 0.00 0.00 3.86
2139 2159 0.738975 CCGAACTATGCGTCTGAGGA 59.261 55.000 0.82 0.00 0.00 3.71
2140 2160 1.338337 CCGAACTATGCGTCTGAGGAT 59.662 52.381 0.82 0.00 0.00 3.24
2141 2161 2.605823 CCGAACTATGCGTCTGAGGATC 60.606 54.545 0.82 0.00 0.00 3.36
2142 2162 2.656085 GAACTATGCGTCTGAGGATCG 58.344 52.381 0.82 0.00 38.61 3.69
2143 2163 1.968704 ACTATGCGTCTGAGGATCGA 58.031 50.000 0.82 0.00 38.61 3.59
2144 2164 1.876799 ACTATGCGTCTGAGGATCGAG 59.123 52.381 0.82 0.00 38.61 4.04
2145 2165 1.198867 CTATGCGTCTGAGGATCGAGG 59.801 57.143 0.82 0.00 38.61 4.63
2146 2166 1.459455 ATGCGTCTGAGGATCGAGGG 61.459 60.000 0.82 0.00 38.61 4.30
2147 2167 2.725008 CGTCTGAGGATCGAGGGC 59.275 66.667 0.00 0.00 38.61 5.19
2148 2168 2.121538 CGTCTGAGGATCGAGGGCA 61.122 63.158 0.00 0.00 38.61 5.36
2149 2169 1.667154 CGTCTGAGGATCGAGGGCAA 61.667 60.000 0.00 0.00 38.61 4.52
2150 2170 0.179097 GTCTGAGGATCGAGGGCAAC 60.179 60.000 0.00 0.00 38.61 4.17
2151 2171 0.614697 TCTGAGGATCGAGGGCAACA 60.615 55.000 0.00 0.00 38.61 3.33
2152 2172 0.250234 CTGAGGATCGAGGGCAACAA 59.750 55.000 0.00 0.00 38.61 2.83
2153 2173 0.690192 TGAGGATCGAGGGCAACAAA 59.310 50.000 0.00 0.00 38.61 2.83
2154 2174 1.339055 TGAGGATCGAGGGCAACAAAG 60.339 52.381 0.00 0.00 38.61 2.77
2155 2175 0.035056 AGGATCGAGGGCAACAAAGG 60.035 55.000 0.00 0.00 39.74 3.11
2156 2176 0.035439 GGATCGAGGGCAACAAAGGA 60.035 55.000 0.00 0.00 39.74 3.36
2157 2177 1.087501 GATCGAGGGCAACAAAGGAC 58.912 55.000 0.00 0.00 39.74 3.85
2158 2178 0.400213 ATCGAGGGCAACAAAGGACA 59.600 50.000 0.00 0.00 39.74 4.02
2159 2179 0.181587 TCGAGGGCAACAAAGGACAA 59.818 50.000 0.00 0.00 39.74 3.18
2160 2180 0.593128 CGAGGGCAACAAAGGACAAG 59.407 55.000 0.00 0.00 39.74 3.16
2161 2181 1.692411 GAGGGCAACAAAGGACAAGT 58.308 50.000 0.00 0.00 39.74 3.16
2162 2182 1.338020 GAGGGCAACAAAGGACAAGTG 59.662 52.381 0.00 0.00 39.74 3.16
2163 2183 0.389025 GGGCAACAAAGGACAAGTGG 59.611 55.000 0.00 0.00 39.74 4.00
2164 2184 1.398692 GGCAACAAAGGACAAGTGGA 58.601 50.000 0.00 0.00 0.00 4.02
2165 2185 1.754226 GGCAACAAAGGACAAGTGGAA 59.246 47.619 0.00 0.00 0.00 3.53
2166 2186 2.481276 GGCAACAAAGGACAAGTGGAAC 60.481 50.000 0.00 0.00 0.00 3.62
2167 2187 2.165437 GCAACAAAGGACAAGTGGAACA 59.835 45.455 0.00 0.00 41.43 3.18
2182 2202 3.226777 TGGAACACAATGTTTACCCAGG 58.773 45.455 0.00 0.00 41.28 4.45
2183 2203 3.227614 GGAACACAATGTTTACCCAGGT 58.772 45.455 0.00 0.00 41.28 4.00
2184 2204 3.639561 GGAACACAATGTTTACCCAGGTT 59.360 43.478 0.00 0.00 41.28 3.50
2185 2205 4.261867 GGAACACAATGTTTACCCAGGTTC 60.262 45.833 0.00 0.00 41.28 3.62
2186 2206 2.882137 ACACAATGTTTACCCAGGTTCG 59.118 45.455 0.00 0.00 0.00 3.95
2187 2207 2.227865 CACAATGTTTACCCAGGTTCGG 59.772 50.000 0.00 0.00 0.00 4.30
2195 2215 3.330720 CCAGGTTCGGGCCCTCTT 61.331 66.667 22.43 3.59 0.00 2.85
2196 2216 2.045926 CAGGTTCGGGCCCTCTTG 60.046 66.667 22.43 12.77 0.00 3.02
2197 2217 2.203938 AGGTTCGGGCCCTCTTGA 60.204 61.111 22.43 6.61 0.00 3.02
2198 2218 1.616628 AGGTTCGGGCCCTCTTGAT 60.617 57.895 22.43 0.00 0.00 2.57
2199 2219 1.452108 GGTTCGGGCCCTCTTGATG 60.452 63.158 22.43 1.43 0.00 3.07
2200 2220 1.452108 GTTCGGGCCCTCTTGATGG 60.452 63.158 22.43 0.54 0.00 3.51
2201 2221 1.615124 TTCGGGCCCTCTTGATGGA 60.615 57.895 22.43 3.53 0.00 3.41
2202 2222 1.626356 TTCGGGCCCTCTTGATGGAG 61.626 60.000 22.43 0.00 0.00 3.86
2211 2231 3.621558 CCTCTTGATGGAGGTAAAACCC 58.378 50.000 2.65 0.00 45.65 4.11
2212 2232 3.267031 CCTCTTGATGGAGGTAAAACCCT 59.733 47.826 2.65 0.00 45.65 4.34
2213 2233 4.473559 CCTCTTGATGGAGGTAAAACCCTA 59.526 45.833 2.65 0.00 45.65 3.53
2214 2234 5.429130 CTCTTGATGGAGGTAAAACCCTAC 58.571 45.833 0.00 0.00 39.75 3.18
2215 2235 3.899052 TGATGGAGGTAAAACCCTACG 57.101 47.619 0.00 0.00 38.41 3.51
2216 2236 3.175594 TGATGGAGGTAAAACCCTACGT 58.824 45.455 0.00 0.00 38.41 3.57
2217 2237 3.790091 GATGGAGGTAAAACCCTACGTC 58.210 50.000 0.00 0.00 42.79 4.34
2218 2238 2.680312 GGAGGTAAAACCCTACGTCC 57.320 55.000 0.00 6.71 44.94 4.79
2219 2239 2.182827 GGAGGTAAAACCCTACGTCCT 58.817 52.381 12.88 0.00 46.43 3.85
2220 2240 2.093816 GGAGGTAAAACCCTACGTCCTG 60.094 54.545 12.88 0.00 46.43 3.86
2221 2241 1.277273 AGGTAAAACCCTACGTCCTGC 59.723 52.381 0.00 0.00 39.75 4.85
2222 2242 1.277273 GGTAAAACCCTACGTCCTGCT 59.723 52.381 0.00 0.00 30.04 4.24
2223 2243 2.289882 GGTAAAACCCTACGTCCTGCTT 60.290 50.000 0.00 0.00 30.04 3.91
2224 2244 1.892209 AAAACCCTACGTCCTGCTTG 58.108 50.000 0.00 0.00 0.00 4.01
2225 2245 1.053424 AAACCCTACGTCCTGCTTGA 58.947 50.000 0.00 0.00 0.00 3.02
2226 2246 1.276622 AACCCTACGTCCTGCTTGAT 58.723 50.000 0.00 0.00 0.00 2.57
2227 2247 1.276622 ACCCTACGTCCTGCTTGATT 58.723 50.000 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 3.136626 CCGGGTATGAGAGGAATCCTTTT 59.863 47.826 2.09 0.00 31.76 2.27
9 10 2.330216 CCGGGTATGAGAGGAATCCTT 58.670 52.381 2.09 0.00 31.76 3.36
39 40 0.807275 GGTACGGCCGTATGTTGACC 60.807 60.000 38.22 31.38 32.82 4.02
42 43 1.214367 GATGGTACGGCCGTATGTTG 58.786 55.000 38.22 5.54 41.21 3.33
59 60 4.265073 GGACTTGAGCTATGGTTTGTGAT 58.735 43.478 0.00 0.00 0.00 3.06
70 71 5.049680 GTGTTTCAATTTCGGACTTGAGCTA 60.050 40.000 0.00 0.00 33.25 3.32
413 415 0.333993 AGTTGGGCCTCCTACGAGTA 59.666 55.000 4.53 0.00 42.36 2.59
480 482 3.035942 GTCGAAAAATGACAGCACACAC 58.964 45.455 0.00 0.00 36.37 3.82
519 521 3.438087 CGACATGCTCTTGGAGTGATTTT 59.562 43.478 0.00 0.00 31.39 1.82
581 583 5.066505 CACTTGCTGAGTTTAACTTTCCAGT 59.933 40.000 11.97 4.06 36.10 4.00
657 659 2.577059 GAATCCGTGGAGACGCCA 59.423 61.111 0.00 0.00 46.96 5.69
673 675 3.192844 GTCACTGAGGTAATCTTGGACGA 59.807 47.826 0.00 0.00 0.00 4.20
865 867 4.464244 TGAGACTAACTGCTGCTTGAGTAT 59.536 41.667 0.00 0.00 0.00 2.12
893 895 2.938086 TTGGGCAGCGCGAGAACTA 61.938 57.895 12.10 0.00 0.00 2.24
921 923 1.883926 TCAGTCTCGATTGTGAACGGA 59.116 47.619 0.00 0.00 0.00 4.69
974 976 3.364907 ATAGGGTGCCCTTGCTGCC 62.365 63.158 15.82 0.00 45.70 4.85
990 992 1.570813 CCTTGCTCATGAACGCGATA 58.429 50.000 15.93 0.00 0.00 2.92
1218 1220 9.443283 CTTTGATTTTGATCATCCTAACGATTC 57.557 33.333 0.00 0.00 0.00 2.52
1231 1233 9.414295 TGAATGTTGATCACTTTGATTTTGATC 57.586 29.630 0.00 4.23 44.01 2.92
1240 1242 6.072008 TGGTGGTATGAATGTTGATCACTTTG 60.072 38.462 0.00 0.00 0.00 2.77
1241 1243 6.009589 TGGTGGTATGAATGTTGATCACTTT 58.990 36.000 0.00 0.00 0.00 2.66
1297 1299 4.888917 TGACAAACCTTGTATCGTGATCA 58.111 39.130 0.00 0.00 45.52 2.92
1300 1302 3.556213 CCCTGACAAACCTTGTATCGTGA 60.556 47.826 0.00 0.00 45.52 4.35
1303 1305 3.328382 TCCCTGACAAACCTTGTATCG 57.672 47.619 0.00 0.00 45.52 2.92
1322 1324 4.787598 CCAACATAGCTGACAAACTGTTC 58.212 43.478 0.00 0.00 0.00 3.18
1325 1327 2.553602 TGCCAACATAGCTGACAAACTG 59.446 45.455 0.00 0.00 0.00 3.16
1340 1342 0.041926 GTACCGACGTTGTTGCCAAC 60.042 55.000 0.00 0.00 46.09 3.77
1343 1345 1.159098 TTGGTACCGACGTTGTTGCC 61.159 55.000 7.57 0.17 0.00 4.52
1362 1364 3.049080 GCTCTTCATTCCCCGCCCT 62.049 63.158 0.00 0.00 0.00 5.19
1367 1369 0.813210 CGAGCAGCTCTTCATTCCCC 60.813 60.000 20.39 0.00 0.00 4.81
1372 1374 3.056536 TGTCTTAACGAGCAGCTCTTCAT 60.057 43.478 20.39 6.15 0.00 2.57
1373 1375 2.296190 TGTCTTAACGAGCAGCTCTTCA 59.704 45.455 20.39 2.15 0.00 3.02
1380 1382 1.986378 CGGTCTTGTCTTAACGAGCAG 59.014 52.381 0.00 0.00 36.90 4.24
1386 1388 4.312443 TGATTGGTCGGTCTTGTCTTAAC 58.688 43.478 0.00 0.00 0.00 2.01
1390 1392 2.104111 TGTTGATTGGTCGGTCTTGTCT 59.896 45.455 0.00 0.00 0.00 3.41
1394 1396 3.551846 ACTTTGTTGATTGGTCGGTCTT 58.448 40.909 0.00 0.00 0.00 3.01
1397 1399 3.551846 AGAACTTTGTTGATTGGTCGGT 58.448 40.909 0.00 0.00 0.00 4.69
1398 1400 3.363970 CGAGAACTTTGTTGATTGGTCGG 60.364 47.826 0.00 0.00 0.00 4.79
1402 1404 3.563808 TGGACGAGAACTTTGTTGATTGG 59.436 43.478 0.00 0.00 0.00 3.16
1406 1408 4.058124 CTGATGGACGAGAACTTTGTTGA 58.942 43.478 0.00 0.00 0.00 3.18
1408 1410 3.809832 CACTGATGGACGAGAACTTTGTT 59.190 43.478 0.00 0.00 0.00 2.83
1431 1433 7.224297 ACTATTGTTGTTGACATTCCAGTAGT 58.776 34.615 0.00 0.00 38.26 2.73
1436 1438 7.809546 TGTTACTATTGTTGTTGACATTCCA 57.190 32.000 0.00 0.00 38.26 3.53
1457 1459 6.370453 ACAACCCTATCAGTAAAACCTTGTT 58.630 36.000 0.00 0.00 0.00 2.83
1461 1463 6.470278 GTGTACAACCCTATCAGTAAAACCT 58.530 40.000 0.00 0.00 0.00 3.50
1488 1490 4.752661 TTTCGTGCTTATGTAAACACCC 57.247 40.909 1.88 0.00 30.63 4.61
1497 1499 6.183360 ACCCAAGTAATGATTTCGTGCTTATG 60.183 38.462 0.00 0.00 0.00 1.90
1507 1509 9.255029 AGCTATTTAACACCCAAGTAATGATTT 57.745 29.630 0.00 0.00 0.00 2.17
1530 1532 8.516198 TCCCCAAACCCTAATATTTATTAAGCT 58.484 33.333 0.00 0.00 0.00 3.74
1547 1549 2.427095 GCAGATGTAACATCCCCAAACC 59.573 50.000 0.00 0.00 0.00 3.27
1568 1570 1.202568 TCCTTCATGTAGATGCCTGCG 60.203 52.381 0.12 0.00 0.00 5.18
1570 1572 3.387374 AGACTCCTTCATGTAGATGCCTG 59.613 47.826 0.12 0.00 0.00 4.85
1581 1583 0.324738 TGAGGGCGAGACTCCTTCAT 60.325 55.000 0.00 0.00 35.18 2.57
1600 1602 1.258445 CCCCTTGCGGTCACTAGAGT 61.258 60.000 0.00 0.00 0.00 3.24
1601 1603 0.970937 TCCCCTTGCGGTCACTAGAG 60.971 60.000 0.00 0.00 0.00 2.43
1605 1607 1.831652 CTCTTCCCCTTGCGGTCACT 61.832 60.000 0.00 0.00 0.00 3.41
1611 1613 1.961180 ATCGGTCTCTTCCCCTTGCG 61.961 60.000 0.00 0.00 0.00 4.85
1623 1625 6.042552 AGACATTATCATTTCCTCATCGGTCT 59.957 38.462 0.00 0.00 0.00 3.85
1634 1636 5.440610 AGGGGTGTCAGACATTATCATTTC 58.559 41.667 6.51 0.00 0.00 2.17
1640 1642 4.104086 TGAAGAGGGGTGTCAGACATTAT 58.896 43.478 6.51 0.00 0.00 1.28
1642 1644 2.304180 CTGAAGAGGGGTGTCAGACATT 59.696 50.000 6.51 0.00 41.08 2.71
1648 1650 3.791320 AGATAACTGAAGAGGGGTGTCA 58.209 45.455 0.00 0.00 0.00 3.58
1651 1653 3.964031 AGCTAGATAACTGAAGAGGGGTG 59.036 47.826 0.00 0.00 0.00 4.61
1652 1654 4.273300 AGCTAGATAACTGAAGAGGGGT 57.727 45.455 0.00 0.00 0.00 4.95
1683 1702 7.712204 TCACTGGACAACACTAGATACATAA 57.288 36.000 0.00 0.00 0.00 1.90
1697 1716 3.141398 GAGCAAGTTCATCACTGGACAA 58.859 45.455 0.00 0.00 35.12 3.18
1706 1725 4.154918 CACACCCTAAAGAGCAAGTTCATC 59.845 45.833 0.00 0.00 0.00 2.92
1725 1744 7.500807 AAAGAACACGTTTTTACAATCACAC 57.499 32.000 0.00 0.00 0.00 3.82
1732 1751 5.388408 ACCCAAAAGAACACGTTTTTACA 57.612 34.783 0.00 0.00 0.00 2.41
1741 1760 5.675323 GCATAATCCGTACCCAAAAGAACAC 60.675 44.000 0.00 0.00 0.00 3.32
1744 1763 4.850680 AGCATAATCCGTACCCAAAAGAA 58.149 39.130 0.00 0.00 0.00 2.52
1755 1774 7.931407 TCAACATAGAAACATAGCATAATCCGT 59.069 33.333 0.00 0.00 0.00 4.69
1763 1782 7.489160 ACGTAGATCAACATAGAAACATAGCA 58.511 34.615 0.00 0.00 0.00 3.49
1778 1797 3.669536 TCCATGCAACAACGTAGATCAA 58.330 40.909 0.00 0.00 0.00 2.57
1779 1798 3.326836 TCCATGCAACAACGTAGATCA 57.673 42.857 0.00 0.00 0.00 2.92
1786 1805 3.128415 TCCATACAATCCATGCAACAACG 59.872 43.478 0.00 0.00 0.00 4.10
1789 1808 5.421374 TCAAATCCATACAATCCATGCAACA 59.579 36.000 0.00 0.00 0.00 3.33
1811 1830 3.117888 GCTCCTCAAATATCCAACCCTCA 60.118 47.826 0.00 0.00 0.00 3.86
1844 1863 2.589798 TCACCCTTATTTCTACGCGG 57.410 50.000 12.47 0.00 0.00 6.46
1850 1869 4.569719 ATGACCGTTCACCCTTATTTCT 57.430 40.909 0.00 0.00 33.38 2.52
1888 1907 2.440517 TGGCACCCTATACGTCTGTA 57.559 50.000 0.00 0.00 34.45 2.74
1889 1908 1.563924 TTGGCACCCTATACGTCTGT 58.436 50.000 0.00 0.00 0.00 3.41
1913 1932 5.824904 AGAGCATTACAACCATGATTGTC 57.175 39.130 9.25 0.00 41.89 3.18
1939 1958 0.326264 GGGTCAGTGTTGGAGATGCT 59.674 55.000 0.00 0.00 0.00 3.79
1941 1960 1.625315 TGAGGGTCAGTGTTGGAGATG 59.375 52.381 0.00 0.00 0.00 2.90
1965 1984 0.320374 AAACCGAACAGATGCGAGGA 59.680 50.000 0.00 0.00 0.00 3.71
1968 1987 1.872388 TTCAAACCGAACAGATGCGA 58.128 45.000 0.00 0.00 0.00 5.10
1996 2015 3.279875 GGGATCGCGTTGGATGGC 61.280 66.667 5.77 0.00 0.00 4.40
2007 2026 1.792118 TACAGACGGATGCGGGATCG 61.792 60.000 12.44 2.16 39.81 3.69
2036 2055 0.597568 TTGCAGGAAAACAGATGCCG 59.402 50.000 0.00 0.00 37.89 5.69
2043 2062 1.407258 CTTCCGGTTTGCAGGAAAACA 59.593 47.619 0.00 0.00 43.17 2.83
2044 2063 1.868109 GCTTCCGGTTTGCAGGAAAAC 60.868 52.381 0.00 0.00 43.17 2.43
2058 2077 2.049526 GCCCCGTTTTTGCTTCCG 60.050 61.111 0.00 0.00 0.00 4.30
2077 2097 1.152922 TTTTGACACCGACACCCCC 60.153 57.895 0.00 0.00 0.00 5.40
2088 2108 1.667756 CGAGATCGGACGGTTTTGACA 60.668 52.381 0.00 0.00 35.37 3.58
2101 2121 1.533469 GGACCCCATACCCGAGATCG 61.533 65.000 0.00 0.00 39.44 3.69
2102 2122 1.192803 GGGACCCCATACCCGAGATC 61.193 65.000 0.00 0.00 36.56 2.75
2103 2123 1.152096 GGGACCCCATACCCGAGAT 60.152 63.158 0.00 0.00 36.56 2.75
2104 2124 2.284493 GGGACCCCATACCCGAGA 59.716 66.667 0.00 0.00 36.56 4.04
2108 2128 0.398948 TAGTTCGGGACCCCATACCC 60.399 60.000 4.46 0.00 42.43 3.69
2109 2129 1.346722 CATAGTTCGGGACCCCATACC 59.653 57.143 4.46 0.00 35.37 2.73
2110 2130 1.270678 GCATAGTTCGGGACCCCATAC 60.271 57.143 4.46 0.29 35.37 2.39
2111 2131 1.053424 GCATAGTTCGGGACCCCATA 58.947 55.000 4.46 0.00 35.37 2.74
2112 2132 1.837090 GCATAGTTCGGGACCCCAT 59.163 57.895 4.46 0.00 35.37 4.00
2113 2133 2.727392 CGCATAGTTCGGGACCCCA 61.727 63.158 4.46 0.00 35.37 4.96
2114 2134 2.108362 CGCATAGTTCGGGACCCC 59.892 66.667 4.46 0.00 0.00 4.95
2115 2135 1.227176 GACGCATAGTTCGGGACCC 60.227 63.158 0.00 0.00 0.00 4.46
2116 2136 0.527817 CAGACGCATAGTTCGGGACC 60.528 60.000 0.00 0.00 0.00 4.46
2117 2137 0.454600 TCAGACGCATAGTTCGGGAC 59.545 55.000 0.00 0.00 0.00 4.46
2118 2138 0.738975 CTCAGACGCATAGTTCGGGA 59.261 55.000 0.00 0.00 0.00 5.14
2119 2139 0.249073 CCTCAGACGCATAGTTCGGG 60.249 60.000 0.00 0.00 0.00 5.14
2120 2140 0.738975 TCCTCAGACGCATAGTTCGG 59.261 55.000 0.00 0.00 0.00 4.30
2121 2141 2.656085 GATCCTCAGACGCATAGTTCG 58.344 52.381 0.00 0.00 0.00 3.95
2122 2142 2.290916 TCGATCCTCAGACGCATAGTTC 59.709 50.000 0.00 0.00 0.00 3.01
2123 2143 2.292016 CTCGATCCTCAGACGCATAGTT 59.708 50.000 0.00 0.00 0.00 2.24
2124 2144 1.876799 CTCGATCCTCAGACGCATAGT 59.123 52.381 0.00 0.00 0.00 2.12
2125 2145 1.198867 CCTCGATCCTCAGACGCATAG 59.801 57.143 0.00 0.00 0.00 2.23
2126 2146 1.239347 CCTCGATCCTCAGACGCATA 58.761 55.000 0.00 0.00 0.00 3.14
2127 2147 1.459455 CCCTCGATCCTCAGACGCAT 61.459 60.000 0.00 0.00 0.00 4.73
2128 2148 2.121538 CCCTCGATCCTCAGACGCA 61.122 63.158 0.00 0.00 0.00 5.24
2129 2149 2.725008 CCCTCGATCCTCAGACGC 59.275 66.667 0.00 0.00 0.00 5.19
2130 2150 1.667154 TTGCCCTCGATCCTCAGACG 61.667 60.000 0.00 0.00 0.00 4.18
2131 2151 0.179097 GTTGCCCTCGATCCTCAGAC 60.179 60.000 0.00 0.00 0.00 3.51
2132 2152 0.614697 TGTTGCCCTCGATCCTCAGA 60.615 55.000 0.00 0.00 0.00 3.27
2133 2153 0.250234 TTGTTGCCCTCGATCCTCAG 59.750 55.000 0.00 0.00 0.00 3.35
2134 2154 0.690192 TTTGTTGCCCTCGATCCTCA 59.310 50.000 0.00 0.00 0.00 3.86
2135 2155 1.373570 CTTTGTTGCCCTCGATCCTC 58.626 55.000 0.00 0.00 0.00 3.71
2136 2156 0.035056 CCTTTGTTGCCCTCGATCCT 60.035 55.000 0.00 0.00 0.00 3.24
2137 2157 0.035439 TCCTTTGTTGCCCTCGATCC 60.035 55.000 0.00 0.00 0.00 3.36
2138 2158 1.087501 GTCCTTTGTTGCCCTCGATC 58.912 55.000 0.00 0.00 0.00 3.69
2139 2159 0.400213 TGTCCTTTGTTGCCCTCGAT 59.600 50.000 0.00 0.00 0.00 3.59
2140 2160 0.181587 TTGTCCTTTGTTGCCCTCGA 59.818 50.000 0.00 0.00 0.00 4.04
2141 2161 0.593128 CTTGTCCTTTGTTGCCCTCG 59.407 55.000 0.00 0.00 0.00 4.63
2142 2162 1.338020 CACTTGTCCTTTGTTGCCCTC 59.662 52.381 0.00 0.00 0.00 4.30
2143 2163 1.402787 CACTTGTCCTTTGTTGCCCT 58.597 50.000 0.00 0.00 0.00 5.19
2144 2164 0.389025 CCACTTGTCCTTTGTTGCCC 59.611 55.000 0.00 0.00 0.00 5.36
2145 2165 1.398692 TCCACTTGTCCTTTGTTGCC 58.601 50.000 0.00 0.00 0.00 4.52
2146 2166 2.165437 TGTTCCACTTGTCCTTTGTTGC 59.835 45.455 0.00 0.00 0.00 4.17
2147 2167 3.192422 TGTGTTCCACTTGTCCTTTGTTG 59.808 43.478 0.00 0.00 35.11 3.33
2148 2168 3.426615 TGTGTTCCACTTGTCCTTTGTT 58.573 40.909 0.00 0.00 35.11 2.83
2149 2169 3.080300 TGTGTTCCACTTGTCCTTTGT 57.920 42.857 0.00 0.00 35.11 2.83
2150 2170 4.142182 ACATTGTGTTCCACTTGTCCTTTG 60.142 41.667 0.00 0.00 35.11 2.77
2151 2171 4.023291 ACATTGTGTTCCACTTGTCCTTT 58.977 39.130 0.00 0.00 35.11 3.11
2152 2172 3.631250 ACATTGTGTTCCACTTGTCCTT 58.369 40.909 0.00 0.00 35.11 3.36
2153 2173 3.297134 ACATTGTGTTCCACTTGTCCT 57.703 42.857 0.00 0.00 35.11 3.85
2154 2174 4.385358 AAACATTGTGTTCCACTTGTCC 57.615 40.909 0.00 0.00 40.14 4.02
2155 2175 5.278604 GGTAAACATTGTGTTCCACTTGTC 58.721 41.667 0.00 0.00 40.14 3.18
2156 2176 4.098807 GGGTAAACATTGTGTTCCACTTGT 59.901 41.667 5.15 0.00 40.14 3.16
2157 2177 4.098654 TGGGTAAACATTGTGTTCCACTTG 59.901 41.667 5.15 0.00 40.14 3.16
2158 2178 4.282496 TGGGTAAACATTGTGTTCCACTT 58.718 39.130 5.15 0.00 40.14 3.16
2159 2179 3.888930 CTGGGTAAACATTGTGTTCCACT 59.111 43.478 5.15 0.00 40.14 4.00
2160 2180 3.005367 CCTGGGTAAACATTGTGTTCCAC 59.995 47.826 5.15 0.00 40.14 4.02
2161 2181 3.226777 CCTGGGTAAACATTGTGTTCCA 58.773 45.455 5.15 3.92 40.14 3.53
2162 2182 3.227614 ACCTGGGTAAACATTGTGTTCC 58.772 45.455 0.00 0.00 40.14 3.62
2163 2183 4.555906 CGAACCTGGGTAAACATTGTGTTC 60.556 45.833 0.00 0.00 40.14 3.18
2164 2184 3.316868 CGAACCTGGGTAAACATTGTGTT 59.683 43.478 0.00 0.00 43.41 3.32
2165 2185 2.882137 CGAACCTGGGTAAACATTGTGT 59.118 45.455 0.00 0.00 0.00 3.72
2166 2186 2.227865 CCGAACCTGGGTAAACATTGTG 59.772 50.000 0.00 0.00 0.00 3.33
2167 2187 2.510613 CCGAACCTGGGTAAACATTGT 58.489 47.619 0.00 0.00 0.00 2.71
2168 2188 1.816224 CCCGAACCTGGGTAAACATTG 59.184 52.381 0.00 0.00 44.76 2.82
2169 2189 2.209690 CCCGAACCTGGGTAAACATT 57.790 50.000 0.00 0.00 44.76 2.71
2170 2190 3.970205 CCCGAACCTGGGTAAACAT 57.030 52.632 0.00 0.00 44.76 2.71
2178 2198 3.330720 AAGAGGGCCCGAACCTGG 61.331 66.667 18.44 0.00 38.79 4.45
2179 2199 1.915078 ATCAAGAGGGCCCGAACCTG 61.915 60.000 18.44 12.14 38.79 4.00
2180 2200 1.616628 ATCAAGAGGGCCCGAACCT 60.617 57.895 18.44 9.75 42.18 3.50
2181 2201 1.452108 CATCAAGAGGGCCCGAACC 60.452 63.158 18.44 7.31 0.00 3.62
2182 2202 1.452108 CCATCAAGAGGGCCCGAAC 60.452 63.158 18.44 12.45 0.00 3.95
2183 2203 1.615124 TCCATCAAGAGGGCCCGAA 60.615 57.895 18.44 1.01 31.15 4.30
2184 2204 2.040442 TCCATCAAGAGGGCCCGA 59.960 61.111 18.44 8.04 31.15 5.14
2185 2205 2.507944 CTCCATCAAGAGGGCCCG 59.492 66.667 18.44 1.05 31.15 6.13
2191 2211 4.576330 AGGGTTTTACCTCCATCAAGAG 57.424 45.455 0.00 0.00 38.64 2.85
2192 2212 4.081309 CGTAGGGTTTTACCTCCATCAAGA 60.081 45.833 0.00 0.00 42.09 3.02
2193 2213 4.189231 CGTAGGGTTTTACCTCCATCAAG 58.811 47.826 0.00 0.00 42.09 3.02
2194 2214 3.583966 ACGTAGGGTTTTACCTCCATCAA 59.416 43.478 0.00 0.00 42.09 2.57
2195 2215 3.175594 ACGTAGGGTTTTACCTCCATCA 58.824 45.455 0.00 0.00 42.09 3.07
2196 2216 3.431346 GGACGTAGGGTTTTACCTCCATC 60.431 52.174 0.00 0.00 42.09 3.51
2197 2217 2.502947 GGACGTAGGGTTTTACCTCCAT 59.497 50.000 0.00 0.00 42.09 3.41
2198 2218 1.901833 GGACGTAGGGTTTTACCTCCA 59.098 52.381 0.00 0.00 42.09 3.86
2199 2219 2.093816 CAGGACGTAGGGTTTTACCTCC 60.094 54.545 0.00 0.00 42.09 4.30
2200 2220 2.676176 GCAGGACGTAGGGTTTTACCTC 60.676 54.545 0.00 0.00 42.09 3.85
2201 2221 1.277273 GCAGGACGTAGGGTTTTACCT 59.723 52.381 0.00 0.00 44.75 3.08
2202 2222 1.277273 AGCAGGACGTAGGGTTTTACC 59.723 52.381 0.00 0.00 37.60 2.85
2203 2223 2.740447 CAAGCAGGACGTAGGGTTTTAC 59.260 50.000 0.00 0.00 0.00 2.01
2204 2224 2.633967 TCAAGCAGGACGTAGGGTTTTA 59.366 45.455 0.00 0.00 0.00 1.52
2205 2225 1.418637 TCAAGCAGGACGTAGGGTTTT 59.581 47.619 0.00 0.00 0.00 2.43
2206 2226 1.053424 TCAAGCAGGACGTAGGGTTT 58.947 50.000 0.00 0.00 0.00 3.27
2207 2227 1.276622 ATCAAGCAGGACGTAGGGTT 58.723 50.000 0.00 0.00 0.00 4.11
2208 2228 1.276622 AATCAAGCAGGACGTAGGGT 58.723 50.000 0.00 0.00 0.00 4.34


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

AutoCloner maintained by Alex Coulton.