Multiple sequence alignment - TraesCS4B01G023000

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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 TraesCS4B01G023000 chr4B 100.000 2686 0 0 1 2686 16872895 16870210 0.000000e+00 4961
1 TraesCS4B01G023000 chr4A 85.526 1900 142 69 639 2452 594427178 594429030 0.000000e+00 1862
2 TraesCS4B01G023000 chr4A 87.374 198 19 5 2490 2686 594429153 594429345 3.480000e-54 222
3 TraesCS4B01G023000 chr4A 78.947 228 42 6 300 525 625370517 625370740 1.670000e-32 150
4 TraesCS4B01G023000 chr4A 85.455 110 15 1 125 233 594427009 594427118 2.190000e-21 113
5 TraesCS4B01G023000 chr4D 85.786 1597 131 47 370 1898 8930995 8929427 0.000000e+00 1604
6 TraesCS4B01G023000 chr4D 93.766 385 15 6 2047 2430 8929260 8928884 1.080000e-158 569
7 TraesCS4B01G023000 chr4D 86.111 504 54 9 3 503 8931482 8930992 1.830000e-146 529
8 TraesCS4B01G023000 chr3D 87.097 310 37 3 231 538 113472217 113472525 5.500000e-92 348
9 TraesCS4B01G023000 chr3D 77.778 252 49 6 286 535 307797170 307796924 5.990000e-32 148
10 TraesCS4B01G023000 chr7A 87.013 308 35 4 231 535 567345539 567345234 2.560000e-90 342
11 TraesCS4B01G023000 chr7D 85.948 306 43 0 231 536 500885073 500884768 7.170000e-86 327
12 TraesCS4B01G023000 chr7B 81.905 315 44 5 231 536 529661596 529661286 1.230000e-63 254
13 TraesCS4B01G023000 chr3B 80.000 200 36 4 294 491 413968635 413968832 7.750000e-31 145
14 TraesCS4B01G023000 chr3B 78.977 176 28 9 375 545 95548955 95549126 7.860000e-21 111
15 TraesCS4B01G023000 chr2B 76.080 301 59 10 238 535 89974 90264 7.750000e-31 145


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 TraesCS4B01G023000 chr4B 16870210 16872895 2685 True 4961.000000 4961 100.000000 1 2686 1 chr4B.!!$R1 2685
1 TraesCS4B01G023000 chr4A 594427009 594429345 2336 False 732.333333 1862 86.118333 125 2686 3 chr4A.!!$F2 2561
2 TraesCS4B01G023000 chr4D 8928884 8931482 2598 True 900.666667 1604 88.554333 3 2430 3 chr4D.!!$R1 2427

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
679 810 0.603707 CTTGTGAAGGCCGAGCTCAA 60.604 55.0 15.4 3.62 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1842 2052 0.042188 CGACGAACACAAGCCACAAG 60.042 55.0 0.0 0.0 0.0 3.16 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
23 24 4.159506 TCTTTGCAAAAGTACCTTGTTGCT 59.840 37.500 13.84 0.00 45.21 3.91
40 41 6.884096 TGTTGCTGTCAAAACATACAAAAG 57.116 33.333 0.00 0.00 34.81 2.27
48 49 5.571357 GTCAAAACATACAAAAGTATGCCGG 59.429 40.000 13.81 0.00 40.06 6.13
49 50 5.473846 TCAAAACATACAAAAGTATGCCGGA 59.526 36.000 5.05 5.92 40.06 5.14
50 51 6.151985 TCAAAACATACAAAAGTATGCCGGAT 59.848 34.615 5.05 0.00 40.06 4.18
56 57 3.201266 ACAAAAGTATGCCGGATTCCCTA 59.799 43.478 5.05 0.00 0.00 3.53
67 68 3.901844 CCGGATTCCCTAGGATTTAGTCA 59.098 47.826 11.48 0.00 0.00 3.41
70 71 5.070580 CGGATTCCCTAGGATTTAGTCAAGT 59.929 44.000 11.48 0.00 0.00 3.16
74 75 5.497474 TCCCTAGGATTTAGTCAAGTTTGC 58.503 41.667 11.48 0.00 0.00 3.68
76 77 4.332819 CCTAGGATTTAGTCAAGTTTGCGG 59.667 45.833 1.05 0.00 0.00 5.69
85 86 4.579869 AGTCAAGTTTGCGGAATAGATGT 58.420 39.130 0.00 0.00 0.00 3.06
99 100 1.888215 AGATGTGTCTGGTTGCACTG 58.112 50.000 0.00 0.00 36.63 3.66
102 103 0.679321 TGTGTCTGGTTGCACTGCAA 60.679 50.000 12.59 12.59 46.80 4.08
111 112 1.042229 TTGCACTGCAATGCTTCCTT 58.958 45.000 22.02 0.00 43.99 3.36
262 265 4.479993 GGTGCCCGCAGAGAGCAT 62.480 66.667 0.00 0.00 46.13 3.79
285 288 1.006571 GACCGGTTTGTGCTCTCGA 60.007 57.895 9.42 0.00 0.00 4.04
286 289 1.282930 GACCGGTTTGTGCTCTCGAC 61.283 60.000 9.42 0.00 0.00 4.20
287 290 2.027625 CCGGTTTGTGCTCTCGACC 61.028 63.158 0.00 0.00 0.00 4.79
288 291 2.027625 CGGTTTGTGCTCTCGACCC 61.028 63.158 0.00 0.00 0.00 4.46
289 292 2.027625 GGTTTGTGCTCTCGACCCG 61.028 63.158 0.00 0.00 0.00 5.28
290 293 2.357034 TTTGTGCTCTCGACCCGC 60.357 61.111 0.00 0.00 0.00 6.13
291 294 3.876589 TTTGTGCTCTCGACCCGCC 62.877 63.158 0.00 0.00 0.00 6.13
317 320 4.299796 GCTTGGTTGGGGCCTCCA 62.300 66.667 0.00 4.11 45.43 3.86
330 333 1.200020 GGCCTCCAGTTTTGATGTTCG 59.800 52.381 0.00 0.00 0.00 3.95
331 334 2.151202 GCCTCCAGTTTTGATGTTCGA 58.849 47.619 0.00 0.00 0.00 3.71
332 335 2.095718 GCCTCCAGTTTTGATGTTCGAC 60.096 50.000 0.00 0.00 0.00 4.20
333 336 3.138304 CCTCCAGTTTTGATGTTCGACA 58.862 45.455 0.00 0.00 0.00 4.35
346 349 1.798813 GTTCGACATTGGTGTGAGGTC 59.201 52.381 0.00 0.00 39.09 3.85
402 405 5.532557 TCATCATTTGATAGGTGTAGCGAG 58.467 41.667 0.00 0.00 32.63 5.03
404 407 5.339008 TCATTTGATAGGTGTAGCGAGTT 57.661 39.130 0.00 0.00 0.00 3.01
405 408 5.730550 TCATTTGATAGGTGTAGCGAGTTT 58.269 37.500 0.00 0.00 0.00 2.66
407 410 6.653320 TCATTTGATAGGTGTAGCGAGTTTTT 59.347 34.615 0.00 0.00 0.00 1.94
431 434 3.874392 CCAAAGAAAATGGCTTCGGAT 57.126 42.857 0.00 0.00 0.00 4.18
434 437 5.719173 CCAAAGAAAATGGCTTCGGATTTA 58.281 37.500 0.00 0.00 0.00 1.40
446 449 7.648142 TGGCTTCGGATTTATTGATGTATTTC 58.352 34.615 0.00 0.00 0.00 2.17
461 464 9.513906 TTGATGTATTTCTTTGTGAGGTATTGA 57.486 29.630 0.00 0.00 0.00 2.57
462 465 9.685276 TGATGTATTTCTTTGTGAGGTATTGAT 57.315 29.630 0.00 0.00 0.00 2.57
463 466 9.941664 GATGTATTTCTTTGTGAGGTATTGATG 57.058 33.333 0.00 0.00 0.00 3.07
496 499 2.928801 ATAGTTGTATGCATCGCCCA 57.071 45.000 0.19 0.00 0.00 5.36
598 729 5.313712 AGATAAATGTTGTCCAAAGGTCGT 58.686 37.500 0.00 0.00 0.00 4.34
611 742 2.736144 AGGTCGTAAACTCGCAATGA 57.264 45.000 0.00 0.00 0.00 2.57
633 764 2.550830 AAGTGGTGTCAAGTGGCTAG 57.449 50.000 0.00 0.00 0.00 3.42
679 810 0.603707 CTTGTGAAGGCCGAGCTCAA 60.604 55.000 15.40 3.62 0.00 3.02
702 849 2.111255 TCGGATATACCTAGGGTTGGCT 59.889 50.000 14.81 0.00 37.09 4.75
716 863 1.806461 TTGGCTAGGATCTAGCGGCG 61.806 60.000 17.39 0.51 41.24 6.46
787 938 8.884124 TTTGATGAATGAAATCCTCTTTACCT 57.116 30.769 0.00 0.00 0.00 3.08
909 1066 8.462143 GCCTTGAGCAATATTGAATTATCATG 57.538 34.615 19.73 13.72 42.97 3.07
953 1123 2.295909 TCAGCAACCACTACAAAATGGC 59.704 45.455 0.00 0.00 39.84 4.40
962 1132 3.041946 ACTACAAAATGGCCCCACAAAA 58.958 40.909 0.00 0.00 0.00 2.44
1068 1238 7.066766 CCTTCTCCTTCCTAAATCACTGAATTG 59.933 40.741 0.00 0.00 0.00 2.32
1070 1240 5.819991 TCCTTCCTAAATCACTGAATTGCT 58.180 37.500 0.00 0.00 0.00 3.91
1084 1254 8.494433 TCACTGAATTGCTATTCTACCCTTATT 58.506 33.333 19.31 0.00 40.68 1.40
1115 1285 0.698818 AAGTTCGGCTTCCCTCCAAT 59.301 50.000 0.00 0.00 30.06 3.16
1130 1300 1.135315 CAATCCTTCGCGCCACAAG 59.865 57.895 0.00 0.00 0.00 3.16
1138 1308 2.434185 GCGCCACAAGATGACGGA 60.434 61.111 0.00 0.00 0.00 4.69
1139 1309 2.456119 GCGCCACAAGATGACGGAG 61.456 63.158 0.00 0.00 0.00 4.63
1140 1310 2.456119 CGCCACAAGATGACGGAGC 61.456 63.158 0.00 0.00 0.00 4.70
1141 1311 1.375908 GCCACAAGATGACGGAGCA 60.376 57.895 0.00 0.00 0.00 4.26
1142 1312 1.639298 GCCACAAGATGACGGAGCAC 61.639 60.000 0.00 0.00 0.00 4.40
1143 1313 0.320683 CCACAAGATGACGGAGCACA 60.321 55.000 0.00 0.00 0.00 4.57
1144 1314 0.792640 CACAAGATGACGGAGCACAC 59.207 55.000 0.00 0.00 0.00 3.82
1145 1315 0.320771 ACAAGATGACGGAGCACACC 60.321 55.000 0.00 0.00 0.00 4.16
1148 1327 1.448540 GATGACGGAGCACACCAGG 60.449 63.158 0.00 0.00 0.00 4.45
1472 1654 4.147449 TCGAGGTGGCGGCTCATG 62.147 66.667 11.43 0.19 0.00 3.07
1557 1739 4.862092 CGCTGCCTCGCTGATCGT 62.862 66.667 0.00 0.00 39.67 3.73
1604 1790 2.053984 CATCATGCACGTACGCGC 60.054 61.111 20.78 20.78 42.83 6.86
1605 1791 3.261951 ATCATGCACGTACGCGCC 61.262 61.111 24.06 9.37 42.83 6.53
1610 1796 4.817063 GCACGTACGCGCCGTCTA 62.817 66.667 17.18 0.00 41.54 2.59
1627 1816 4.320788 CCGTCTAACGTACTTTCTCTGGTT 60.321 45.833 0.00 0.00 40.58 3.67
1628 1817 4.615961 CGTCTAACGTACTTTCTCTGGTTG 59.384 45.833 0.00 0.00 36.74 3.77
1629 1818 4.922103 GTCTAACGTACTTTCTCTGGTTGG 59.078 45.833 0.00 0.00 0.00 3.77
1630 1819 2.833631 ACGTACTTTCTCTGGTTGGG 57.166 50.000 0.00 0.00 0.00 4.12
1632 1821 1.346722 CGTACTTTCTCTGGTTGGGGT 59.653 52.381 0.00 0.00 0.00 4.95
1634 1823 2.364972 ACTTTCTCTGGTTGGGGTTG 57.635 50.000 0.00 0.00 0.00 3.77
1636 1825 2.230660 CTTTCTCTGGTTGGGGTTGAC 58.769 52.381 0.00 0.00 0.00 3.18
1637 1826 0.476771 TTCTCTGGTTGGGGTTGACC 59.523 55.000 0.00 0.00 39.11 4.02
1638 1827 0.401395 TCTCTGGTTGGGGTTGACCT 60.401 55.000 0.00 0.00 40.03 3.85
1639 1828 0.478507 CTCTGGTTGGGGTTGACCTT 59.521 55.000 0.00 0.00 40.03 3.50
1640 1829 0.184933 TCTGGTTGGGGTTGACCTTG 59.815 55.000 0.00 0.00 40.03 3.61
1641 1830 0.827507 CTGGTTGGGGTTGACCTTGG 60.828 60.000 0.00 0.00 40.03 3.61
1643 1832 1.231928 GTTGGGGTTGACCTTGGGT 59.768 57.895 0.00 0.00 39.44 4.51
1684 1890 3.134458 GTCCTGAAGTGAGTGTCAAAGG 58.866 50.000 0.00 0.00 0.00 3.11
1714 1921 1.340248 TCGGTCCTGAAGTCTTGTGAC 59.660 52.381 0.00 0.00 43.22 3.67
1762 1969 3.297134 AAGAACGGGACATAATGGCAT 57.703 42.857 0.00 0.00 0.00 4.40
1778 1985 3.253371 GGCATGATTAATTCGTGACCG 57.747 47.619 0.00 0.00 42.75 4.79
1779 1986 2.869801 GGCATGATTAATTCGTGACCGA 59.130 45.455 0.00 0.00 42.75 4.69
1780 1987 3.498397 GGCATGATTAATTCGTGACCGAT 59.502 43.478 0.00 0.00 42.75 4.18
1781 1988 4.377431 GGCATGATTAATTCGTGACCGATC 60.377 45.833 0.00 0.00 42.75 3.69
1782 1989 4.377431 GCATGATTAATTCGTGACCGATCC 60.377 45.833 0.00 0.00 42.99 3.36
1783 1990 3.377439 TGATTAATTCGTGACCGATCCG 58.623 45.455 0.00 0.00 43.80 4.18
1784 1991 3.067040 TGATTAATTCGTGACCGATCCGA 59.933 43.478 0.00 0.00 43.80 4.55
1785 1992 3.720949 TTAATTCGTGACCGATCCGAT 57.279 42.857 0.00 0.00 43.80 4.18
1786 1993 1.852942 AATTCGTGACCGATCCGATG 58.147 50.000 0.00 0.00 43.80 3.84
1789 1996 0.380733 TCGTGACCGATCCGATGAAG 59.619 55.000 0.00 0.00 38.40 3.02
1791 1998 0.876342 GTGACCGATCCGATGAAGGC 60.876 60.000 0.00 0.00 0.00 4.35
1793 2000 0.034059 GACCGATCCGATGAAGGCAT 59.966 55.000 0.00 0.00 37.47 4.40
1798 2005 0.182061 ATCCGATGAAGGCATGCACT 59.818 50.000 21.36 11.46 34.11 4.40
1842 2052 5.493809 TGTTACTAAACCCACATCTAAGCC 58.506 41.667 0.00 0.00 34.49 4.35
1843 2053 5.249852 TGTTACTAAACCCACATCTAAGCCT 59.750 40.000 0.00 0.00 34.49 4.58
1844 2054 4.929146 ACTAAACCCACATCTAAGCCTT 57.071 40.909 0.00 0.00 0.00 4.35
1845 2055 4.589908 ACTAAACCCACATCTAAGCCTTG 58.410 43.478 0.00 0.00 0.00 3.61
1846 2056 3.525800 AAACCCACATCTAAGCCTTGT 57.474 42.857 0.00 0.00 0.00 3.16
1847 2057 2.496899 ACCCACATCTAAGCCTTGTG 57.503 50.000 0.00 0.00 40.29 3.33
1884 2094 1.761174 GTTCCCCCTGTCTTGCTGA 59.239 57.895 0.00 0.00 0.00 4.26
1954 2187 3.802139 CAGAGTTTTTGACGTGAGCACTA 59.198 43.478 0.00 0.00 0.00 2.74
1973 2210 5.352284 CACTAATCTCGCCTCAACTACAAT 58.648 41.667 0.00 0.00 0.00 2.71
1974 2211 5.233050 CACTAATCTCGCCTCAACTACAATG 59.767 44.000 0.00 0.00 0.00 2.82
1975 2212 4.471904 AATCTCGCCTCAACTACAATGA 57.528 40.909 0.00 0.00 0.00 2.57
1976 2213 3.510388 TCTCGCCTCAACTACAATGAG 57.490 47.619 0.00 0.00 43.15 2.90
1977 2214 2.826128 TCTCGCCTCAACTACAATGAGT 59.174 45.455 3.18 0.00 42.19 3.41
1981 2218 4.927425 TCGCCTCAACTACAATGAGTTAAC 59.073 41.667 0.00 0.00 42.19 2.01
1984 2221 6.588756 CGCCTCAACTACAATGAGTTAACTAA 59.411 38.462 8.42 0.41 42.19 2.24
1985 2222 7.201444 CGCCTCAACTACAATGAGTTAACTAAG 60.201 40.741 8.42 1.53 42.19 2.18
1987 2224 8.311836 CCTCAACTACAATGAGTTAACTAAGGA 58.688 37.037 8.42 0.00 42.19 3.36
1988 2225 9.360093 CTCAACTACAATGAGTTAACTAAGGAG 57.640 37.037 8.42 7.34 37.57 3.69
1989 2226 8.311836 TCAACTACAATGAGTTAACTAAGGAGG 58.688 37.037 8.42 0.00 37.57 4.30
1990 2227 8.311836 CAACTACAATGAGTTAACTAAGGAGGA 58.688 37.037 8.42 0.00 37.57 3.71
1991 2228 8.611051 ACTACAATGAGTTAACTAAGGAGGAT 57.389 34.615 8.42 0.00 0.00 3.24
1993 2230 9.968870 CTACAATGAGTTAACTAAGGAGGATAC 57.031 37.037 8.42 0.00 0.00 2.24
1994 2231 7.793036 ACAATGAGTTAACTAAGGAGGATACC 58.207 38.462 8.42 0.00 37.17 2.73
1995 2232 7.402071 ACAATGAGTTAACTAAGGAGGATACCA 59.598 37.037 8.42 0.00 37.17 3.25
1996 2233 7.989947 ATGAGTTAACTAAGGAGGATACCAA 57.010 36.000 8.42 0.00 37.17 3.67
1998 2235 8.209802 TGAGTTAACTAAGGAGGATACCAAAA 57.790 34.615 8.42 0.00 37.17 2.44
2000 2237 9.682465 GAGTTAACTAAGGAGGATACCAAAATT 57.318 33.333 8.42 0.00 37.17 1.82
2001 2238 9.682465 AGTTAACTAAGGAGGATACCAAAATTC 57.318 33.333 6.26 0.00 37.17 2.17
2002 2239 9.682465 GTTAACTAAGGAGGATACCAAAATTCT 57.318 33.333 0.00 0.00 37.17 2.40
2004 2241 6.663734 ACTAAGGAGGATACCAAAATTCTGG 58.336 40.000 0.00 0.00 42.68 3.86
2015 2252 4.144297 CCAAAATTCTGGTCCTCTTGACA 58.856 43.478 0.00 0.00 46.38 3.58
2016 2253 4.584325 CCAAAATTCTGGTCCTCTTGACAA 59.416 41.667 0.00 0.00 46.38 3.18
2017 2254 5.244626 CCAAAATTCTGGTCCTCTTGACAAT 59.755 40.000 0.00 0.00 46.38 2.71
2018 2255 6.239402 CCAAAATTCTGGTCCTCTTGACAATT 60.239 38.462 0.00 0.00 46.38 2.32
2019 2256 7.039784 CCAAAATTCTGGTCCTCTTGACAATTA 60.040 37.037 0.00 0.00 46.38 1.40
2033 2280 4.523083 TGACAATTACATTAGTGGAGGCC 58.477 43.478 0.00 0.00 0.00 5.19
2034 2281 4.227300 TGACAATTACATTAGTGGAGGCCT 59.773 41.667 3.86 3.86 0.00 5.19
2035 2282 4.781934 ACAATTACATTAGTGGAGGCCTC 58.218 43.478 25.59 25.59 0.00 4.70
2036 2283 4.227300 ACAATTACATTAGTGGAGGCCTCA 59.773 41.667 33.29 17.15 0.00 3.86
2037 2284 3.906720 TTACATTAGTGGAGGCCTCAC 57.093 47.619 33.29 26.33 35.51 3.51
2038 2285 0.537188 ACATTAGTGGAGGCCTCACG 59.463 55.000 33.29 17.31 39.86 4.35
2039 2286 0.824109 CATTAGTGGAGGCCTCACGA 59.176 55.000 33.29 21.22 39.86 4.35
2040 2287 1.115467 ATTAGTGGAGGCCTCACGAG 58.885 55.000 33.29 0.00 39.86 4.18
2041 2288 0.251653 TTAGTGGAGGCCTCACGAGT 60.252 55.000 33.29 20.38 39.86 4.18
2042 2289 0.965866 TAGTGGAGGCCTCACGAGTG 60.966 60.000 33.29 0.00 39.86 3.51
2043 2290 2.117423 TGGAGGCCTCACGAGTGA 59.883 61.111 33.29 5.76 38.06 3.41
2124 2375 1.656587 ATTAGTGGTGGGCAGACAGA 58.343 50.000 0.00 0.00 0.00 3.41
2125 2376 0.685097 TTAGTGGTGGGCAGACAGAC 59.315 55.000 0.00 0.00 0.00 3.51
2126 2377 0.471022 TAGTGGTGGGCAGACAGACA 60.471 55.000 0.00 0.00 0.00 3.41
2127 2378 1.130054 AGTGGTGGGCAGACAGACAT 61.130 55.000 0.00 0.00 0.00 3.06
2138 2389 2.113807 AGACAGACATGCCAGATGCTA 58.886 47.619 0.00 0.00 42.00 3.49
2170 2422 1.464997 GCTTTCCAGGTTAGTTCAGCG 59.535 52.381 0.00 0.00 0.00 5.18
2258 2512 4.157105 CGTTTTCGGGTGGGATTAGATTTT 59.843 41.667 0.00 0.00 39.94 1.82
2269 2523 7.279981 GGTGGGATTAGATTTTTATTTTGTGCC 59.720 37.037 0.00 0.00 0.00 5.01
2276 2530 2.690173 TTTATTTTGTGCCGGTGTCG 57.310 45.000 1.90 0.00 0.00 4.35
2328 2583 1.503818 GGCGCTTCACGTCTCCAAAA 61.504 55.000 7.64 0.00 45.03 2.44
2330 2585 1.069227 GCGCTTCACGTCTCCAAAATT 60.069 47.619 0.00 0.00 46.11 1.82
2431 2687 2.678836 TCGTCGCAAAGAAAGGAAAACA 59.321 40.909 0.00 0.00 0.00 2.83
2437 2693 6.308041 GTCGCAAAGAAAGGAAAACATAATCC 59.692 38.462 0.00 0.00 35.88 3.01
2458 2714 1.962306 GCCCGGTGCGTCACTTTTA 60.962 57.895 0.00 0.00 34.40 1.52
2459 2715 1.908066 GCCCGGTGCGTCACTTTTAG 61.908 60.000 0.00 0.00 34.40 1.85
2460 2716 1.296056 CCCGGTGCGTCACTTTTAGG 61.296 60.000 0.00 6.18 34.40 2.69
2461 2717 1.495951 CGGTGCGTCACTTTTAGGC 59.504 57.895 9.31 0.00 34.40 3.93
2462 2718 1.495951 GGTGCGTCACTTTTAGGCG 59.504 57.895 9.31 0.00 34.40 5.52
2464 2720 1.421382 GTGCGTCACTTTTAGGCGTA 58.579 50.000 3.20 0.00 0.00 4.42
2465 2721 1.389106 GTGCGTCACTTTTAGGCGTAG 59.611 52.381 3.20 0.00 0.00 3.51
2480 2736 2.575694 CGTAGCTCAGATGACAGCTT 57.424 50.000 0.00 0.00 43.80 3.74
2481 2737 2.886081 CGTAGCTCAGATGACAGCTTT 58.114 47.619 0.00 0.00 43.80 3.51
2482 2738 3.257393 CGTAGCTCAGATGACAGCTTTT 58.743 45.455 0.00 0.00 43.80 2.27
2483 2739 3.061831 CGTAGCTCAGATGACAGCTTTTG 59.938 47.826 0.00 0.00 43.80 2.44
2485 2741 4.277515 AGCTCAGATGACAGCTTTTGTA 57.722 40.909 0.00 0.00 43.80 2.41
2487 2743 4.874966 AGCTCAGATGACAGCTTTTGTATC 59.125 41.667 0.00 0.00 43.80 2.24
2488 2744 4.260132 GCTCAGATGACAGCTTTTGTATCG 60.260 45.833 0.00 0.00 41.05 2.92
2513 2854 7.697291 CGGAGTTCAAGTACTAGACTTTGTATC 59.303 40.741 0.00 0.00 46.79 2.24
2516 2857 7.392673 AGTTCAAGTACTAGACTTTGTATCGGA 59.607 37.037 0.00 0.00 46.79 4.55
2519 2860 5.753716 AGTACTAGACTTTGTATCGGAGGT 58.246 41.667 0.00 0.00 33.13 3.85
2520 2861 6.186234 AGTACTAGACTTTGTATCGGAGGTT 58.814 40.000 0.00 0.00 33.13 3.50
2528 2869 5.010617 ACTTTGTATCGGAGGTTGCATTTTT 59.989 36.000 0.00 0.00 0.00 1.94
2558 2899 8.770438 AAAATTTATTTCAGCCATTTTAGCGA 57.230 26.923 0.00 0.00 34.64 4.93
2559 2900 8.947055 AAATTTATTTCAGCCATTTTAGCGAT 57.053 26.923 0.00 0.00 34.64 4.58
2584 2925 5.183331 TGCGTTTAGTGAGAGTAGATGTTCT 59.817 40.000 0.00 0.00 0.00 3.01
2588 2929 7.595502 CGTTTAGTGAGAGTAGATGTTCTTGTT 59.404 37.037 0.00 0.00 0.00 2.83
2624 2965 2.333926 TGTAGCGACTTTGTCAATCCG 58.666 47.619 0.00 0.00 32.09 4.18
2628 2969 1.128692 GCGACTTTGTCAATCCGAAGG 59.871 52.381 0.00 0.00 40.27 3.46
2656 2997 1.818060 TCAGCTCAGTCTCTCAGAAGC 59.182 52.381 0.00 0.00 0.00 3.86
2671 3012 5.521372 TCTCAGAAGCGTGTTCATATTGATG 59.479 40.000 3.01 0.00 0.00 3.07
2682 3023 8.058328 CGTGTTCATATTGATGAGTGTATGTTC 58.942 37.037 0.00 0.00 43.03 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 1.640917 TCCTAGGGAATCCGGCATAC 58.359 55.000 9.46 0.00 38.33 2.39
48 49 7.201741 GCAAACTTGACTAAATCCTAGGGAATC 60.202 40.741 9.46 0.00 34.34 2.52
49 50 6.603599 GCAAACTTGACTAAATCCTAGGGAAT 59.396 38.462 9.46 0.00 34.34 3.01
50 51 5.944007 GCAAACTTGACTAAATCCTAGGGAA 59.056 40.000 9.46 0.00 34.34 3.97
56 57 4.015872 TCCGCAAACTTGACTAAATCCT 57.984 40.909 0.00 0.00 0.00 3.24
67 68 4.393062 CAGACACATCTATTCCGCAAACTT 59.607 41.667 0.00 0.00 32.25 2.66
70 71 3.270027 CCAGACACATCTATTCCGCAAA 58.730 45.455 0.00 0.00 32.25 3.68
74 75 2.609459 GCAACCAGACACATCTATTCCG 59.391 50.000 0.00 0.00 32.25 4.30
76 77 4.093998 CAGTGCAACCAGACACATCTATTC 59.906 45.833 0.00 0.00 39.30 1.75
85 86 4.653893 TTGCAGTGCAACCAGACA 57.346 50.000 26.36 2.47 43.99 3.41
99 100 2.580815 GGGCCAAGGAAGCATTGC 59.419 61.111 4.39 0.00 36.28 3.56
102 103 1.513087 AAGAGGGGCCAAGGAAGCAT 61.513 55.000 4.39 0.00 0.00 3.79
107 108 0.620700 GGAGTAAGAGGGGCCAAGGA 60.621 60.000 4.39 0.00 0.00 3.36
111 112 3.081409 GCGGAGTAAGAGGGGCCA 61.081 66.667 4.39 0.00 0.00 5.36
217 220 3.124636 CGCACGCTCCTTAGTTGTTATTT 59.875 43.478 0.00 0.00 0.00 1.40
223 226 1.361668 ATGCGCACGCTCCTTAGTTG 61.362 55.000 14.90 0.00 42.51 3.16
246 249 3.200593 CATGCTCTCTGCGGGCAC 61.201 66.667 0.00 0.00 46.63 5.01
251 254 1.364626 GGTCCAACATGCTCTCTGCG 61.365 60.000 0.00 0.00 46.63 5.18
254 257 1.194781 ACCGGTCCAACATGCTCTCT 61.195 55.000 0.00 0.00 0.00 3.10
262 265 1.077357 AGCACAAACCGGTCCAACA 60.077 52.632 8.04 0.00 0.00 3.33
291 294 4.341502 CAACCAAGCCGCCCAACG 62.342 66.667 0.00 0.00 43.15 4.10
292 295 3.989787 CCAACCAAGCCGCCCAAC 61.990 66.667 0.00 0.00 0.00 3.77
301 304 2.036256 CTGGAGGCCCCAACCAAG 59.964 66.667 13.25 0.00 46.07 3.61
306 309 0.486879 ATCAAAACTGGAGGCCCCAA 59.513 50.000 13.25 0.00 46.07 4.12
317 320 4.338118 ACACCAATGTCGAACATCAAAACT 59.662 37.500 0.00 0.00 37.97 2.66
318 321 4.440758 CACACCAATGTCGAACATCAAAAC 59.559 41.667 0.00 0.00 37.97 2.43
330 333 1.611673 CCCTGACCTCACACCAATGTC 60.612 57.143 0.00 0.00 36.72 3.06
331 334 0.401738 CCCTGACCTCACACCAATGT 59.598 55.000 0.00 0.00 40.80 2.71
332 335 0.962356 GCCCTGACCTCACACCAATG 60.962 60.000 0.00 0.00 0.00 2.82
333 336 1.380302 GCCCTGACCTCACACCAAT 59.620 57.895 0.00 0.00 0.00 3.16
376 379 5.178252 CGCTACACCTATCAAATGATGAAGG 59.822 44.000 6.17 8.15 42.54 3.46
419 422 7.765695 ATACATCAATAAATCCGAAGCCATT 57.234 32.000 0.00 0.00 0.00 3.16
420 423 7.765695 AATACATCAATAAATCCGAAGCCAT 57.234 32.000 0.00 0.00 0.00 4.40
422 425 7.875971 AGAAATACATCAATAAATCCGAAGCC 58.124 34.615 0.00 0.00 0.00 4.35
479 482 0.541392 TCTGGGCGATGCATACAACT 59.459 50.000 0.00 0.00 0.00 3.16
509 640 0.621082 CAGAAAGGAGGAAGACCCCC 59.379 60.000 0.00 0.00 36.73 5.40
598 729 4.213270 CACCACTTTCTCATTGCGAGTTTA 59.787 41.667 0.00 0.00 42.88 2.01
611 742 1.212935 AGCCACTTGACACCACTTTCT 59.787 47.619 0.00 0.00 0.00 2.52
617 748 1.488705 CCCCTAGCCACTTGACACCA 61.489 60.000 0.00 0.00 0.00 4.17
633 764 1.498264 GGTTCTCCTACTTCCTCCCC 58.502 60.000 0.00 0.00 0.00 4.81
679 810 3.518303 GCCAACCCTAGGTATATCCGAAT 59.482 47.826 8.29 0.00 41.99 3.34
702 849 0.321741 CTCTCCGCCGCTAGATCCTA 60.322 60.000 0.00 0.00 0.00 2.94
716 863 6.210078 CAATAATCTGTCGTAGTTCCTCTCC 58.790 44.000 0.00 0.00 0.00 3.71
833 986 9.524106 CCAAGTTCATTAGTGTACATCGTATTA 57.476 33.333 0.00 0.00 0.00 0.98
906 1063 8.198109 AGCTGTCTACTTTAGGTATTGTACATG 58.802 37.037 0.00 0.00 0.00 3.21
907 1064 8.307582 AGCTGTCTACTTTAGGTATTGTACAT 57.692 34.615 0.00 0.00 0.00 2.29
909 1066 7.769220 TGAGCTGTCTACTTTAGGTATTGTAC 58.231 38.462 0.00 0.00 0.00 2.90
1068 1238 5.731591 ACGGCATAATAAGGGTAGAATAGC 58.268 41.667 0.00 0.00 38.62 2.97
1070 1240 7.233962 TGAGAACGGCATAATAAGGGTAGAATA 59.766 37.037 0.00 0.00 0.00 1.75
1084 1254 2.004583 CCGAACTTGAGAACGGCATA 57.995 50.000 0.00 0.00 38.98 3.14
1115 1285 1.741401 CATCTTGTGGCGCGAAGGA 60.741 57.895 12.10 0.00 0.00 3.36
1130 1300 1.448540 CCTGGTGTGCTCCGTCATC 60.449 63.158 0.00 0.00 0.00 2.92
1138 1308 0.400213 TCGGAATTTCCTGGTGTGCT 59.600 50.000 13.45 0.00 33.30 4.40
1139 1309 1.401905 GATCGGAATTTCCTGGTGTGC 59.598 52.381 13.45 0.00 33.30 4.57
1140 1310 1.665679 CGATCGGAATTTCCTGGTGTG 59.334 52.381 13.45 0.00 33.30 3.82
1141 1311 1.553248 TCGATCGGAATTTCCTGGTGT 59.447 47.619 16.41 0.00 33.30 4.16
1142 1312 2.309528 TCGATCGGAATTTCCTGGTG 57.690 50.000 16.41 1.77 33.30 4.17
1143 1313 2.500098 TCTTCGATCGGAATTTCCTGGT 59.500 45.455 16.41 3.59 33.30 4.00
1144 1314 3.179443 TCTTCGATCGGAATTTCCTGG 57.821 47.619 16.41 0.00 33.30 4.45
1145 1315 3.059325 GCATCTTCGATCGGAATTTCCTG 60.059 47.826 16.41 7.29 33.30 3.86
1148 1327 2.096713 CCGCATCTTCGATCGGAATTTC 60.097 50.000 16.41 0.49 44.23 2.17
1513 1695 2.280592 AACGTCCCGACACCAAGC 60.281 61.111 0.00 0.00 0.00 4.01
1516 1698 2.906388 TCGAACGTCCCGACACCA 60.906 61.111 8.63 0.00 0.00 4.17
1519 1701 3.263503 CTGCTCGAACGTCCCGACA 62.264 63.158 8.63 10.45 32.18 4.35
1557 1739 4.783621 GCGCCCATCAGCTCCACA 62.784 66.667 0.00 0.00 0.00 4.17
1606 1792 4.922103 CCAACCAGAGAAAGTACGTTAGAC 59.078 45.833 0.00 0.00 0.00 2.59
1607 1793 4.021719 CCCAACCAGAGAAAGTACGTTAGA 60.022 45.833 0.00 0.00 0.00 2.10
1608 1794 4.243270 CCCAACCAGAGAAAGTACGTTAG 58.757 47.826 0.00 0.00 0.00 2.34
1609 1795 3.007182 CCCCAACCAGAGAAAGTACGTTA 59.993 47.826 0.00 0.00 0.00 3.18
1610 1796 2.224450 CCCCAACCAGAGAAAGTACGTT 60.224 50.000 0.00 0.00 0.00 3.99
1627 1816 0.774908 CTAACCCAAGGTCAACCCCA 59.225 55.000 0.00 0.00 33.12 4.96
1628 1817 0.611062 GCTAACCCAAGGTCAACCCC 60.611 60.000 0.00 0.00 33.12 4.95
1629 1818 0.404426 AGCTAACCCAAGGTCAACCC 59.596 55.000 0.00 0.00 33.12 4.11
1630 1819 2.940083 GCTAGCTAACCCAAGGTCAACC 60.940 54.545 7.70 0.00 33.12 3.77
1632 1821 2.266279 AGCTAGCTAACCCAAGGTCAA 58.734 47.619 17.69 0.00 33.12 3.18
1634 1823 2.224090 GCTAGCTAGCTAACCCAAGGTC 60.224 54.545 33.71 4.59 45.62 3.85
1636 1825 2.535012 GCTAGCTAGCTAACCCAAGG 57.465 55.000 33.71 12.37 45.62 3.61
1643 1832 9.969074 TCAGGACTGATGAAGCTAGCTAGCTAA 62.969 44.444 40.88 32.44 45.82 3.09
1714 1921 6.495181 ACTTGGTGACTGATATATCTACCCAG 59.505 42.308 13.79 16.48 0.00 4.45
1778 1985 0.590195 GTGCATGCCTTCATCGGATC 59.410 55.000 16.68 0.00 0.00 3.36
1779 1986 0.182061 AGTGCATGCCTTCATCGGAT 59.818 50.000 16.68 0.00 0.00 4.18
1780 1987 0.829990 TAGTGCATGCCTTCATCGGA 59.170 50.000 16.68 0.00 0.00 4.55
1781 1988 1.667236 TTAGTGCATGCCTTCATCGG 58.333 50.000 16.68 0.00 0.00 4.18
1782 1989 3.763097 TTTTAGTGCATGCCTTCATCG 57.237 42.857 16.68 0.00 0.00 3.84
1806 2013 9.976776 TGGGTTTAGTAACATTATATTCCAACA 57.023 29.630 0.00 0.00 35.92 3.33
1815 2022 9.338622 GCTTAGATGTGGGTTTAGTAACATTAT 57.661 33.333 0.00 0.00 35.92 1.28
1842 2052 0.042188 CGACGAACACAAGCCACAAG 60.042 55.000 0.00 0.00 0.00 3.16
1843 2053 0.460459 TCGACGAACACAAGCCACAA 60.460 50.000 0.00 0.00 0.00 3.33
1844 2054 1.142097 TCGACGAACACAAGCCACA 59.858 52.632 0.00 0.00 0.00 4.17
1845 2055 0.874607 AGTCGACGAACACAAGCCAC 60.875 55.000 10.46 0.00 0.00 5.01
1846 2056 0.874175 CAGTCGACGAACACAAGCCA 60.874 55.000 10.46 0.00 0.00 4.75
1847 2057 1.557443 CCAGTCGACGAACACAAGCC 61.557 60.000 10.46 0.00 0.00 4.35
1848 2058 0.874607 ACCAGTCGACGAACACAAGC 60.875 55.000 10.46 0.00 0.00 4.01
1921 2131 8.873830 CACGTCAAAAACTCTGAATGATAGTAT 58.126 33.333 0.00 0.00 0.00 2.12
1922 2132 8.085909 TCACGTCAAAAACTCTGAATGATAGTA 58.914 33.333 0.00 0.00 0.00 1.82
1924 2134 7.351414 TCACGTCAAAAACTCTGAATGATAG 57.649 36.000 0.00 0.00 0.00 2.08
1935 2168 5.057149 AGATTAGTGCTCACGTCAAAAACT 58.943 37.500 0.00 0.00 36.20 2.66
1937 2170 4.149922 CGAGATTAGTGCTCACGTCAAAAA 59.850 41.667 0.00 0.00 36.20 1.94
1940 2173 2.863739 CGAGATTAGTGCTCACGTCAA 58.136 47.619 0.00 0.00 36.20 3.18
1945 2178 1.135139 TGAGGCGAGATTAGTGCTCAC 59.865 52.381 0.00 0.00 32.67 3.51
1954 2187 4.081420 ACTCATTGTAGTTGAGGCGAGATT 60.081 41.667 5.75 0.00 43.95 2.40
1973 2210 7.801893 TTTGGTATCCTCCTTAGTTAACTCA 57.198 36.000 12.39 0.00 0.00 3.41
1974 2211 9.682465 AATTTTGGTATCCTCCTTAGTTAACTC 57.318 33.333 12.39 0.00 0.00 3.01
1975 2212 9.682465 GAATTTTGGTATCCTCCTTAGTTAACT 57.318 33.333 13.68 13.68 0.00 2.24
1976 2213 9.682465 AGAATTTTGGTATCCTCCTTAGTTAAC 57.318 33.333 0.00 0.00 0.00 2.01
1977 2214 9.681062 CAGAATTTTGGTATCCTCCTTAGTTAA 57.319 33.333 0.00 0.00 0.00 2.01
1993 2230 4.144297 TGTCAAGAGGACCAGAATTTTGG 58.856 43.478 13.33 13.33 46.38 3.28
1994 2231 5.772825 TTGTCAAGAGGACCAGAATTTTG 57.227 39.130 0.00 0.00 46.38 2.44
1995 2232 6.983906 AATTGTCAAGAGGACCAGAATTTT 57.016 33.333 0.00 0.00 46.38 1.82
1996 2233 7.004086 TGTAATTGTCAAGAGGACCAGAATTT 58.996 34.615 0.00 0.00 46.38 1.82
1998 2235 6.126863 TGTAATTGTCAAGAGGACCAGAAT 57.873 37.500 0.00 0.00 46.38 2.40
2000 2237 5.762179 ATGTAATTGTCAAGAGGACCAGA 57.238 39.130 0.00 0.00 46.38 3.86
2001 2238 7.065085 CACTAATGTAATTGTCAAGAGGACCAG 59.935 40.741 0.00 0.00 46.38 4.00
2002 2239 6.878923 CACTAATGTAATTGTCAAGAGGACCA 59.121 38.462 0.00 0.00 46.38 4.02
2005 2242 7.252612 TCCACTAATGTAATTGTCAAGAGGA 57.747 36.000 0.00 0.00 36.99 3.71
2006 2243 6.540189 CCTCCACTAATGTAATTGTCAAGAGG 59.460 42.308 0.00 0.00 36.99 3.69
2007 2244 6.037610 GCCTCCACTAATGTAATTGTCAAGAG 59.962 42.308 0.00 0.00 36.99 2.85
2008 2245 5.880332 GCCTCCACTAATGTAATTGTCAAGA 59.120 40.000 0.00 0.00 36.99 3.02
2010 2247 4.947388 GGCCTCCACTAATGTAATTGTCAA 59.053 41.667 0.00 0.00 36.99 3.18
2011 2248 4.227300 AGGCCTCCACTAATGTAATTGTCA 59.773 41.667 0.00 0.00 36.99 3.58
2012 2249 4.781934 AGGCCTCCACTAATGTAATTGTC 58.218 43.478 0.00 0.00 36.99 3.18
2013 2250 4.227300 TGAGGCCTCCACTAATGTAATTGT 59.773 41.667 29.95 0.00 36.99 2.71
2015 2252 4.683400 CGTGAGGCCTCCACTAATGTAATT 60.683 45.833 29.95 0.00 41.28 1.40
2016 2253 3.181465 CGTGAGGCCTCCACTAATGTAAT 60.181 47.826 29.95 0.00 32.64 1.89
2017 2254 2.167693 CGTGAGGCCTCCACTAATGTAA 59.832 50.000 29.95 3.96 32.64 2.41
2018 2255 1.754803 CGTGAGGCCTCCACTAATGTA 59.245 52.381 29.95 4.78 32.64 2.29
2019 2256 0.537188 CGTGAGGCCTCCACTAATGT 59.463 55.000 29.95 0.00 32.64 2.71
2033 2280 6.797623 GATCGTCGATCACTCACTCGTGAG 62.798 54.167 26.51 21.92 46.07 3.51
2034 2281 0.442699 CGTCGATCACTCACTCGTGA 59.557 55.000 0.00 0.00 46.82 4.35
2035 2282 0.442699 TCGTCGATCACTCACTCGTG 59.557 55.000 0.00 0.00 36.33 4.35
2036 2283 1.328069 GATCGTCGATCACTCACTCGT 59.672 52.381 26.51 0.00 38.77 4.18
2037 2284 1.595328 AGATCGTCGATCACTCACTCG 59.405 52.381 31.17 0.00 41.12 4.18
2038 2285 2.353269 ACAGATCGTCGATCACTCACTC 59.647 50.000 31.17 8.80 41.12 3.51
2039 2286 2.353269 GACAGATCGTCGATCACTCACT 59.647 50.000 31.17 11.52 41.12 3.41
2040 2287 2.710760 GACAGATCGTCGATCACTCAC 58.289 52.381 31.17 16.35 41.12 3.51
2138 2389 0.321919 TGGAAAGCAAGCGAGCAGAT 60.322 50.000 6.21 0.00 36.85 2.90
2145 2396 1.523758 ACTAACCTGGAAAGCAAGCG 58.476 50.000 0.00 0.00 0.00 4.68
2146 2397 2.884639 TGAACTAACCTGGAAAGCAAGC 59.115 45.455 0.00 0.00 0.00 4.01
2147 2398 3.057946 GCTGAACTAACCTGGAAAGCAAG 60.058 47.826 0.00 0.00 0.00 4.01
2148 2399 2.884639 GCTGAACTAACCTGGAAAGCAA 59.115 45.455 0.00 0.00 0.00 3.91
2170 2422 5.107065 GCCGCATTACATTACATTACTCTCC 60.107 44.000 0.00 0.00 0.00 3.71
2281 2535 4.634133 TTTCGACGTGGCGAGCGT 62.634 61.111 0.00 1.45 45.86 5.07
2325 2580 7.041235 TCGTTACCGAATCTAAACCACAATTTT 60.041 33.333 0.00 0.00 40.86 1.82
2328 2583 5.481105 TCGTTACCGAATCTAAACCACAAT 58.519 37.500 0.00 0.00 40.86 2.71
2330 2585 4.517952 TCGTTACCGAATCTAAACCACA 57.482 40.909 0.00 0.00 40.86 4.17
2452 2708 3.447586 TCATCTGAGCTACGCCTAAAAGT 59.552 43.478 0.00 0.00 0.00 2.66
2453 2709 3.799420 GTCATCTGAGCTACGCCTAAAAG 59.201 47.826 0.00 0.00 0.00 2.27
2458 2714 0.743688 CTGTCATCTGAGCTACGCCT 59.256 55.000 0.00 0.00 0.00 5.52
2459 2715 0.873743 GCTGTCATCTGAGCTACGCC 60.874 60.000 0.00 0.00 32.12 5.68
2460 2716 0.102120 AGCTGTCATCTGAGCTACGC 59.898 55.000 0.00 0.00 43.88 4.42
2461 2717 2.575694 AAGCTGTCATCTGAGCTACG 57.424 50.000 0.00 0.00 44.97 3.51
2462 2718 3.999663 ACAAAAGCTGTCATCTGAGCTAC 59.000 43.478 0.00 0.00 44.97 3.58
2465 2721 4.260132 CGATACAAAAGCTGTCATCTGAGC 60.260 45.833 0.00 0.00 39.64 4.26
2466 2722 4.269603 CCGATACAAAAGCTGTCATCTGAG 59.730 45.833 0.00 0.00 39.64 3.35
2467 2723 4.081697 TCCGATACAAAAGCTGTCATCTGA 60.082 41.667 0.00 0.00 39.64 3.27
2469 2725 4.081420 ACTCCGATACAAAAGCTGTCATCT 60.081 41.667 0.00 0.00 39.64 2.90
2470 2726 4.184629 ACTCCGATACAAAAGCTGTCATC 58.815 43.478 0.00 0.00 39.64 2.92
2471 2727 4.207891 ACTCCGATACAAAAGCTGTCAT 57.792 40.909 0.00 0.00 39.64 3.06
2472 2728 3.678056 ACTCCGATACAAAAGCTGTCA 57.322 42.857 0.00 0.00 39.64 3.58
2475 2731 4.452455 ACTTGAACTCCGATACAAAAGCTG 59.548 41.667 0.00 0.00 0.00 4.24
2477 2733 5.638234 AGTACTTGAACTCCGATACAAAAGC 59.362 40.000 0.00 0.00 0.00 3.51
2478 2734 8.242053 TCTAGTACTTGAACTCCGATACAAAAG 58.758 37.037 0.00 0.00 0.00 2.27
2480 2736 7.392673 AGTCTAGTACTTGAACTCCGATACAAA 59.607 37.037 8.65 0.00 33.35 2.83
2481 2737 6.883217 AGTCTAGTACTTGAACTCCGATACAA 59.117 38.462 8.65 0.00 33.35 2.41
2482 2738 6.413052 AGTCTAGTACTTGAACTCCGATACA 58.587 40.000 8.65 0.00 33.35 2.29
2483 2739 6.923928 AGTCTAGTACTTGAACTCCGATAC 57.076 41.667 8.65 0.00 33.35 2.24
2532 2873 9.862371 TCGCTAAAATGGCTGAAATAAATTTTA 57.138 25.926 0.00 0.00 33.67 1.52
2533 2874 8.770438 TCGCTAAAATGGCTGAAATAAATTTT 57.230 26.923 0.00 0.00 35.32 1.82
2534 2875 8.947055 ATCGCTAAAATGGCTGAAATAAATTT 57.053 26.923 0.00 0.00 0.00 1.82
2545 2886 1.094785 ACGCAATCGCTAAAATGGCT 58.905 45.000 0.00 0.00 39.84 4.75
2547 2888 4.495472 CACTAAACGCAATCGCTAAAATGG 59.505 41.667 0.00 0.00 39.84 3.16
2553 2894 3.119602 ACTCTCACTAAACGCAATCGCTA 60.120 43.478 0.00 0.00 39.84 4.26
2554 2895 2.263077 CTCTCACTAAACGCAATCGCT 58.737 47.619 0.00 0.00 39.84 4.93
2555 2896 1.993370 ACTCTCACTAAACGCAATCGC 59.007 47.619 0.00 0.00 39.84 4.58
2556 2897 4.659088 TCTACTCTCACTAAACGCAATCG 58.341 43.478 0.00 0.00 42.43 3.34
2557 2898 6.037098 ACATCTACTCTCACTAAACGCAATC 58.963 40.000 0.00 0.00 0.00 2.67
2558 2899 5.967088 ACATCTACTCTCACTAAACGCAAT 58.033 37.500 0.00 0.00 0.00 3.56
2559 2900 5.386958 ACATCTACTCTCACTAAACGCAA 57.613 39.130 0.00 0.00 0.00 4.85
2571 2912 6.430308 TCGTAGTCAACAAGAACATCTACTCT 59.570 38.462 0.00 0.00 0.00 3.24
2624 2965 4.099266 AGACTGAGCTGACATATCACCTTC 59.901 45.833 0.00 0.00 0.00 3.46
2628 2969 4.337836 TGAGAGACTGAGCTGACATATCAC 59.662 45.833 0.00 0.00 0.00 3.06
2638 2979 0.810648 CGCTTCTGAGAGACTGAGCT 59.189 55.000 2.10 0.00 0.00 4.09
2641 2982 1.610363 ACACGCTTCTGAGAGACTGA 58.390 50.000 0.00 0.00 0.00 3.41
2656 2997 7.468922 ACATACACTCATCAATATGAACACG 57.531 36.000 0.00 0.00 41.57 4.49


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

AutoCloner maintained by Alex Coulton.