Multiple sequence alignment - TraesCS2A01G196100

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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 TraesCS2A01G196100 chr2A 100.000 2308 0 0 1 2308 166064709 166062402 0.000000e+00 4263
1 TraesCS2A01G196100 chr2A 98.667 75 1 0 2234 2308 715635488 715635562 1.440000e-27 134
2 TraesCS2A01G196100 chr2B 85.598 1958 110 84 10 1902 214000157 213998307 0.000000e+00 1895
3 TraesCS2A01G196100 chr2D 88.141 1442 47 53 761 2129 155973948 155972558 0.000000e+00 1602
4 TraesCS2A01G196100 chr2D 86.762 627 52 20 43 661 155974949 155974346 0.000000e+00 669
5 TraesCS2A01G196100 chr3D 88.406 138 11 4 1156 1291 427082020 427081886 6.600000e-36 161
6 TraesCS2A01G196100 chr3B 92.523 107 5 2 1187 1290 556714453 556714347 1.430000e-32 150
7 TraesCS2A01G196100 chr3B 96.296 81 2 1 2229 2308 283327289 283327369 5.170000e-27 132
8 TraesCS2A01G196100 chr3A 86.957 138 11 5 1156 1291 559625125 559625257 5.140000e-32 148
9 TraesCS2A01G196100 chr3A 97.368 76 2 0 2233 2308 297925799 297925874 1.860000e-26 130
10 TraesCS2A01G196100 chr1B 98.684 76 1 0 2233 2308 152521436 152521361 4.000000e-28 135
11 TraesCS2A01G196100 chr1A 98.667 75 1 0 2234 2308 63744977 63745051 1.440000e-27 134
12 TraesCS2A01G196100 chr7B 97.015 67 1 1 2240 2306 197698500 197698435 6.740000e-21 111
13 TraesCS2A01G196100 chr5B 94.521 73 3 1 2234 2306 381767352 381767423 6.740000e-21 111
14 TraesCS2A01G196100 chr5B 91.358 81 5 2 2227 2306 458053743 458053822 2.420000e-20 110
15 TraesCS2A01G196100 chrUn 95.455 66 2 1 2241 2306 76112349 76112285 1.130000e-18 104


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 TraesCS2A01G196100 chr2A 166062402 166064709 2307 True 4263.0 4263 100.0000 1 2308 1 chr2A.!!$R1 2307
1 TraesCS2A01G196100 chr2B 213998307 214000157 1850 True 1895.0 1895 85.5980 10 1902 1 chr2B.!!$R1 1892
2 TraesCS2A01G196100 chr2D 155972558 155974949 2391 True 1135.5 1602 87.4515 43 2129 2 chr2D.!!$R1 2086

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
335 349 0.108424 TTTTGTTGTGTGGTGGCTGC 60.108 50.0 0.0 0.0 0.0 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2135 2543 0.036388 GCCAGAGAAACACGGGATGA 60.036 55.0 0.0 0.0 0.0 2.92 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
29 30 8.343168 TGAAATGAGTGAATTAATAAACGGGT 57.657 30.769 0.00 0.00 0.00 5.28
45 46 1.382009 GGTCAGTCCCTCTCCCTCC 60.382 68.421 0.00 0.00 0.00 4.30
69 70 1.658596 TCCGCTCGATTTGACGATTTG 59.341 47.619 0.00 0.00 41.39 2.32
70 71 1.658596 CCGCTCGATTTGACGATTTGA 59.341 47.619 0.00 0.00 41.39 2.69
72 73 2.683061 GCTCGATTTGACGATTTGACG 58.317 47.619 0.00 0.00 41.39 4.35
73 74 2.344441 GCTCGATTTGACGATTTGACGA 59.656 45.455 0.00 0.00 41.39 4.20
74 75 3.000322 GCTCGATTTGACGATTTGACGAT 60.000 43.478 0.00 0.00 41.39 3.73
75 76 4.492570 GCTCGATTTGACGATTTGACGATT 60.493 41.667 0.00 0.00 41.39 3.34
77 78 5.547341 TCGATTTGACGATTTGACGATTTC 58.453 37.500 0.00 0.00 37.37 2.17
78 79 5.347635 TCGATTTGACGATTTGACGATTTCT 59.652 36.000 0.00 0.00 37.37 2.52
79 80 5.668578 CGATTTGACGATTTGACGATTTCTC 59.331 40.000 0.00 0.00 37.03 2.87
80 81 4.921470 TTGACGATTTGACGATTTCTCC 57.079 40.909 0.00 0.00 37.03 3.71
81 82 3.259064 TGACGATTTGACGATTTCTCCC 58.741 45.455 0.00 0.00 37.03 4.30
122 130 0.963962 TAAACCGTCGCACTCTCCTT 59.036 50.000 0.00 0.00 0.00 3.36
123 131 0.319641 AAACCGTCGCACTCTCCTTC 60.320 55.000 0.00 0.00 0.00 3.46
124 132 1.179814 AACCGTCGCACTCTCCTTCT 61.180 55.000 0.00 0.00 0.00 2.85
125 133 1.179814 ACCGTCGCACTCTCCTTCTT 61.180 55.000 0.00 0.00 0.00 2.52
126 134 0.456995 CCGTCGCACTCTCCTTCTTC 60.457 60.000 0.00 0.00 0.00 2.87
127 135 0.523966 CGTCGCACTCTCCTTCTTCT 59.476 55.000 0.00 0.00 0.00 2.85
151 162 8.314751 TCTTCTTCTTCTTTCCGACTATTCATT 58.685 33.333 0.00 0.00 0.00 2.57
267 281 2.998279 GCTTGTGGGTCATGGCTGC 61.998 63.158 0.00 0.00 0.00 5.25
303 317 4.742201 CAGTGCTCACCGACGGGG 62.742 72.222 20.00 15.80 43.62 5.73
308 322 1.376812 GCTCACCGACGGGGAAAAT 60.377 57.895 21.38 0.00 33.19 1.82
309 323 1.644786 GCTCACCGACGGGGAAAATG 61.645 60.000 21.38 9.60 33.19 2.32
312 326 2.360600 CCGACGGGGAAAATGGCA 60.361 61.111 5.81 0.00 38.47 4.92
313 327 1.752694 CCGACGGGGAAAATGGCAT 60.753 57.895 5.81 0.00 38.47 4.40
314 328 1.433064 CGACGGGGAAAATGGCATG 59.567 57.895 0.00 0.00 0.00 4.06
315 329 1.029408 CGACGGGGAAAATGGCATGA 61.029 55.000 0.00 0.00 0.00 3.07
316 330 1.402787 GACGGGGAAAATGGCATGAT 58.597 50.000 0.00 0.00 0.00 2.45
317 331 1.756538 GACGGGGAAAATGGCATGATT 59.243 47.619 0.00 0.00 0.00 2.57
318 332 2.168313 GACGGGGAAAATGGCATGATTT 59.832 45.455 0.00 0.00 0.00 2.17
319 333 2.571202 ACGGGGAAAATGGCATGATTTT 59.429 40.909 0.00 0.29 38.07 1.82
320 334 2.937799 CGGGGAAAATGGCATGATTTTG 59.062 45.455 0.00 0.00 36.00 2.44
324 338 4.761227 GGGAAAATGGCATGATTTTGTTGT 59.239 37.500 0.00 0.00 36.00 3.32
335 349 0.108424 TTTTGTTGTGTGGTGGCTGC 60.108 50.000 0.00 0.00 0.00 5.25
373 387 4.985413 TGCAAAAATGCATAGCAGTAGTC 58.015 39.130 0.00 0.00 43.65 2.59
423 456 2.791927 GGCCTGGCGAACGATTTC 59.208 61.111 13.40 0.00 0.00 2.17
467 500 1.067706 TGCTGAAATGCCAATGTTCCG 60.068 47.619 0.00 0.00 0.00 4.30
475 508 2.480555 CAATGTTCCGAGCGTGGC 59.519 61.111 0.00 0.00 0.00 5.01
484 517 2.091112 CGAGCGTGGCTTCTGTCTG 61.091 63.158 0.00 0.00 39.88 3.51
487 520 1.005630 GCGTGGCTTCTGTCTGTCT 60.006 57.895 0.00 0.00 0.00 3.41
488 521 1.011451 GCGTGGCTTCTGTCTGTCTC 61.011 60.000 0.00 0.00 0.00 3.36
489 522 0.600557 CGTGGCTTCTGTCTGTCTCT 59.399 55.000 0.00 0.00 0.00 3.10
490 523 1.402194 CGTGGCTTCTGTCTGTCTCTC 60.402 57.143 0.00 0.00 0.00 3.20
491 524 1.067213 GTGGCTTCTGTCTGTCTCTCC 60.067 57.143 0.00 0.00 0.00 3.71
492 525 0.534873 GGCTTCTGTCTGTCTCTCCC 59.465 60.000 0.00 0.00 0.00 4.30
534 567 0.250513 AATGGACTCCTGGCTCGTTC 59.749 55.000 0.00 0.00 0.00 3.95
627 660 3.743396 CCTTTCTGTTTTCTCCTCGACTG 59.257 47.826 0.00 0.00 0.00 3.51
637 670 7.974501 TGTTTTCTCCTCGACTGATAATAAGAC 59.025 37.037 0.00 0.00 0.00 3.01
680 738 4.497608 CGCGCCAATTCGTTTGTTTATTAT 59.502 37.500 0.00 0.00 33.15 1.28
681 739 5.003967 CGCGCCAATTCGTTTGTTTATTATT 59.996 36.000 0.00 0.00 33.15 1.40
682 740 6.194876 CGCGCCAATTCGTTTGTTTATTATTA 59.805 34.615 0.00 0.00 33.15 0.98
684 742 8.536407 GCGCCAATTCGTTTGTTTATTATTATT 58.464 29.630 0.00 0.00 33.15 1.40
703 761 2.922740 TCATTGGTATTCGTAGGGGC 57.077 50.000 0.00 0.00 0.00 5.80
853 1189 2.815647 GGCCTCAAAGCGACTCCG 60.816 66.667 0.00 0.00 39.16 4.63
880 1216 1.755008 CCCTCACGTCTCCTCCTCC 60.755 68.421 0.00 0.00 0.00 4.30
882 1218 0.750182 CCTCACGTCTCCTCCTCCTC 60.750 65.000 0.00 0.00 0.00 3.71
967 1303 4.994756 AGCAGGGCAAAACGGGGG 62.995 66.667 0.00 0.00 0.00 5.40
987 1323 2.048409 AGTGCTCGTGCTCAGCTG 60.048 61.111 7.63 7.63 40.48 4.24
997 1333 2.493973 CTCAGCTGAGGGTCTCGC 59.506 66.667 32.30 0.00 38.48 5.03
1081 1417 2.605366 GCGCAGAAGAAGAGTATGTTCC 59.395 50.000 0.30 0.00 39.56 3.62
1082 1418 3.677424 GCGCAGAAGAAGAGTATGTTCCT 60.677 47.826 0.30 0.00 39.56 3.36
1095 1431 4.638421 AGTATGTTCCTTCGTCTCTCTCTG 59.362 45.833 0.00 0.00 0.00 3.35
1096 1432 1.542030 TGTTCCTTCGTCTCTCTCTGC 59.458 52.381 0.00 0.00 0.00 4.26
1097 1433 1.542030 GTTCCTTCGTCTCTCTCTGCA 59.458 52.381 0.00 0.00 0.00 4.41
1098 1434 1.169577 TCCTTCGTCTCTCTCTGCAC 58.830 55.000 0.00 0.00 0.00 4.57
1099 1435 1.173043 CCTTCGTCTCTCTCTGCACT 58.827 55.000 0.00 0.00 0.00 4.40
1100 1436 1.132262 CCTTCGTCTCTCTCTGCACTC 59.868 57.143 0.00 0.00 0.00 3.51
1101 1437 2.083774 CTTCGTCTCTCTCTGCACTCT 58.916 52.381 0.00 0.00 0.00 3.24
1102 1438 1.447945 TCGTCTCTCTCTGCACTCTG 58.552 55.000 0.00 0.00 0.00 3.35
1109 1475 4.022416 TCTCTCTCTGCACTCTGTTTCTTC 60.022 45.833 0.00 0.00 0.00 2.87
1120 1486 3.679389 TCTGTTTCTTCCAGATTGCTCC 58.321 45.455 0.00 0.00 34.12 4.70
1127 1493 2.957402 TCCAGATTGCTCCTGTTTGT 57.043 45.000 0.00 0.00 0.00 2.83
1131 1497 3.508793 CCAGATTGCTCCTGTTTGTGAAT 59.491 43.478 0.00 0.00 0.00 2.57
1134 1501 5.048224 CAGATTGCTCCTGTTTGTGAATTCT 60.048 40.000 7.05 0.00 0.00 2.40
1309 1676 2.036571 TGCGGCTGAAGCAGTGATG 61.037 57.895 4.43 0.00 44.36 3.07
1441 1819 7.423199 TCGGTGTAGTGTACATAAAGATGATC 58.577 38.462 0.00 0.00 41.34 2.92
1442 1820 6.359883 CGGTGTAGTGTACATAAAGATGATCG 59.640 42.308 0.00 0.00 41.34 3.69
1443 1821 7.423199 GGTGTAGTGTACATAAAGATGATCGA 58.577 38.462 0.00 0.00 41.34 3.59
1444 1822 7.591795 GGTGTAGTGTACATAAAGATGATCGAG 59.408 40.741 0.00 0.00 41.34 4.04
1481 1859 1.335964 CCGTGTCGCCATGATAGTAGG 60.336 57.143 0.00 0.00 0.00 3.18
1493 1871 6.739008 GCCATGATAGTAGGAAAGTAGGTGTC 60.739 46.154 0.00 0.00 0.00 3.67
1565 1943 4.200283 GTGAGCTCCCCTCTCGCG 62.200 72.222 12.15 0.00 41.35 5.87
1593 1976 2.022129 CCTTCACCGACACTGCGAC 61.022 63.158 0.00 0.00 0.00 5.19
1631 2015 3.588210 TTTTTCTTCCTCCTCCCGTTT 57.412 42.857 0.00 0.00 0.00 3.60
1632 2016 2.853235 TTTCTTCCTCCTCCCGTTTC 57.147 50.000 0.00 0.00 0.00 2.78
1649 2033 7.277396 TCCCGTTTCTTTTCTCTTCTTTCTTA 58.723 34.615 0.00 0.00 0.00 2.10
1689 2074 2.038837 GGGAAGCACGTGTAAGGCC 61.039 63.158 18.38 11.36 0.00 5.19
1690 2075 1.003718 GGAAGCACGTGTAAGGCCT 60.004 57.895 18.38 0.00 0.00 5.19
1774 2159 3.570550 GGATACGAGTGAGAAGGCTGTAT 59.429 47.826 0.00 0.00 0.00 2.29
1775 2160 4.760715 GGATACGAGTGAGAAGGCTGTATA 59.239 45.833 0.00 0.00 0.00 1.47
1780 2165 2.427453 AGTGAGAAGGCTGTATACACCG 59.573 50.000 0.08 0.00 0.00 4.94
1782 2167 1.755380 GAGAAGGCTGTATACACCGGT 59.245 52.381 0.00 0.00 0.00 5.28
1783 2168 1.480954 AGAAGGCTGTATACACCGGTG 59.519 52.381 32.83 32.83 0.00 4.94
1785 2170 1.112113 AGGCTGTATACACCGGTGAG 58.888 55.000 40.21 26.33 0.00 3.51
1795 2186 0.670546 CACCGGTGAGTGATGGTGTC 60.671 60.000 31.31 0.00 45.34 3.67
1800 2191 0.888619 GTGAGTGATGGTGTCGAGGA 59.111 55.000 0.00 0.00 0.00 3.71
1826 2217 3.890756 AGAATTGTGAGTGTGGCATTGAA 59.109 39.130 0.00 0.00 0.00 2.69
1827 2218 4.341806 AGAATTGTGAGTGTGGCATTGAAA 59.658 37.500 0.00 0.00 0.00 2.69
1828 2219 3.713858 TTGTGAGTGTGGCATTGAAAG 57.286 42.857 0.00 0.00 0.00 2.62
1829 2220 2.929641 TGTGAGTGTGGCATTGAAAGA 58.070 42.857 0.00 0.00 0.00 2.52
1830 2221 3.489355 TGTGAGTGTGGCATTGAAAGAT 58.511 40.909 0.00 0.00 0.00 2.40
1831 2222 3.253921 TGTGAGTGTGGCATTGAAAGATG 59.746 43.478 0.00 0.00 0.00 2.90
1832 2223 2.821378 TGAGTGTGGCATTGAAAGATGG 59.179 45.455 0.00 0.00 0.00 3.51
1833 2224 2.165030 GAGTGTGGCATTGAAAGATGGG 59.835 50.000 0.00 0.00 0.00 4.00
1834 2225 1.205417 GTGTGGCATTGAAAGATGGGG 59.795 52.381 0.00 0.00 0.00 4.96
1835 2226 1.203162 TGTGGCATTGAAAGATGGGGT 60.203 47.619 0.00 0.00 0.00 4.95
1836 2227 1.901833 GTGGCATTGAAAGATGGGGTT 59.098 47.619 0.00 0.00 0.00 4.11
1837 2228 1.901159 TGGCATTGAAAGATGGGGTTG 59.099 47.619 0.00 0.00 0.00 3.77
1838 2229 2.178580 GGCATTGAAAGATGGGGTTGA 58.821 47.619 0.00 0.00 0.00 3.18
1856 2247 4.441079 GGTTGAAAGATGGCCTGATTGATG 60.441 45.833 3.32 0.00 0.00 3.07
1859 2250 2.273538 AGATGGCCTGATTGATGCTC 57.726 50.000 3.32 0.00 0.00 4.26
1917 2308 4.662961 TGACCTGACCACAGCGCG 62.663 66.667 0.00 0.00 42.25 6.86
1928 2319 2.503158 CAGCGCGCACACGTAGTA 60.503 61.111 35.10 0.00 41.61 1.82
2054 2445 2.203238 CGTCGGGGTGGTTGGTTT 60.203 61.111 0.00 0.00 0.00 3.27
2055 2446 2.548295 CGTCGGGGTGGTTGGTTTG 61.548 63.158 0.00 0.00 0.00 2.93
2067 2475 0.658897 TTGGTTTGTTCCGAGTTCGC 59.341 50.000 0.00 0.00 38.18 4.70
2150 2558 2.295253 ACGATCATCCCGTGTTTCTC 57.705 50.000 0.00 0.00 38.97 2.87
2151 2559 1.825474 ACGATCATCCCGTGTTTCTCT 59.175 47.619 0.00 0.00 38.97 3.10
2152 2560 2.196749 CGATCATCCCGTGTTTCTCTG 58.803 52.381 0.00 0.00 0.00 3.35
2153 2561 2.555199 GATCATCCCGTGTTTCTCTGG 58.445 52.381 0.00 0.00 0.00 3.86
2154 2562 0.036388 TCATCCCGTGTTTCTCTGGC 60.036 55.000 0.00 0.00 0.00 4.85
2155 2563 1.026718 CATCCCGTGTTTCTCTGGCC 61.027 60.000 0.00 0.00 0.00 5.36
2156 2564 2.198304 ATCCCGTGTTTCTCTGGCCC 62.198 60.000 0.00 0.00 0.00 5.80
2157 2565 2.359975 CCGTGTTTCTCTGGCCCC 60.360 66.667 0.00 0.00 0.00 5.80
2158 2566 2.750350 CGTGTTTCTCTGGCCCCT 59.250 61.111 0.00 0.00 0.00 4.79
2159 2567 1.672356 CGTGTTTCTCTGGCCCCTG 60.672 63.158 0.00 0.00 0.00 4.45
2160 2568 1.973812 GTGTTTCTCTGGCCCCTGC 60.974 63.158 0.00 0.00 0.00 4.85
2172 2580 4.320456 CCCTGCCTGCGAGTGTGT 62.320 66.667 0.00 0.00 0.00 3.72
2173 2581 2.656646 CCTGCCTGCGAGTGTGTA 59.343 61.111 0.00 0.00 0.00 2.90
2174 2582 1.446792 CCTGCCTGCGAGTGTGTAG 60.447 63.158 0.00 0.00 0.00 2.74
2175 2583 1.290324 CTGCCTGCGAGTGTGTAGT 59.710 57.895 0.00 0.00 0.00 2.73
2176 2584 0.734253 CTGCCTGCGAGTGTGTAGTC 60.734 60.000 0.00 0.00 0.00 2.59
2177 2585 1.179174 TGCCTGCGAGTGTGTAGTCT 61.179 55.000 0.00 0.00 0.00 3.24
2178 2586 0.038159 GCCTGCGAGTGTGTAGTCTT 60.038 55.000 0.00 0.00 0.00 3.01
2179 2587 1.605712 GCCTGCGAGTGTGTAGTCTTT 60.606 52.381 0.00 0.00 0.00 2.52
2180 2588 2.755650 CCTGCGAGTGTGTAGTCTTTT 58.244 47.619 0.00 0.00 0.00 2.27
2181 2589 2.731976 CCTGCGAGTGTGTAGTCTTTTC 59.268 50.000 0.00 0.00 0.00 2.29
2182 2590 2.731976 CTGCGAGTGTGTAGTCTTTTCC 59.268 50.000 0.00 0.00 0.00 3.13
2183 2591 1.719780 GCGAGTGTGTAGTCTTTTCCG 59.280 52.381 0.00 0.00 0.00 4.30
2184 2592 1.719780 CGAGTGTGTAGTCTTTTCCGC 59.280 52.381 0.00 0.00 0.00 5.54
2185 2593 2.067013 GAGTGTGTAGTCTTTTCCGCC 58.933 52.381 0.00 0.00 0.00 6.13
2186 2594 1.692519 AGTGTGTAGTCTTTTCCGCCT 59.307 47.619 0.00 0.00 0.00 5.52
2187 2595 2.067013 GTGTGTAGTCTTTTCCGCCTC 58.933 52.381 0.00 0.00 0.00 4.70
2188 2596 1.689813 TGTGTAGTCTTTTCCGCCTCA 59.310 47.619 0.00 0.00 0.00 3.86
2189 2597 2.288825 TGTGTAGTCTTTTCCGCCTCAG 60.289 50.000 0.00 0.00 0.00 3.35
2190 2598 1.275291 TGTAGTCTTTTCCGCCTCAGG 59.725 52.381 0.00 0.00 0.00 3.86
2191 2599 0.249398 TAGTCTTTTCCGCCTCAGGC 59.751 55.000 5.22 5.22 46.75 4.85
2223 2631 4.653888 CCCAACACCCACCGGTCC 62.654 72.222 2.59 0.00 42.04 4.46
2224 2632 3.566210 CCAACACCCACCGGTCCT 61.566 66.667 2.59 0.00 42.04 3.85
2225 2633 2.218454 CCAACACCCACCGGTCCTA 61.218 63.158 2.59 0.00 42.04 2.94
2226 2634 1.559065 CCAACACCCACCGGTCCTAT 61.559 60.000 2.59 0.00 42.04 2.57
2227 2635 0.326927 CAACACCCACCGGTCCTATT 59.673 55.000 2.59 0.00 42.04 1.73
2228 2636 1.069775 AACACCCACCGGTCCTATTT 58.930 50.000 2.59 0.00 42.04 1.40
2229 2637 1.955451 ACACCCACCGGTCCTATTTA 58.045 50.000 2.59 0.00 42.04 1.40
2230 2638 2.268107 ACACCCACCGGTCCTATTTAA 58.732 47.619 2.59 0.00 42.04 1.52
2231 2639 2.848071 ACACCCACCGGTCCTATTTAAT 59.152 45.455 2.59 0.00 42.04 1.40
2232 2640 3.267551 ACACCCACCGGTCCTATTTAATT 59.732 43.478 2.59 0.00 42.04 1.40
2233 2641 3.630312 CACCCACCGGTCCTATTTAATTG 59.370 47.826 2.59 0.00 42.04 2.32
2234 2642 3.219281 CCCACCGGTCCTATTTAATTGG 58.781 50.000 2.59 0.00 0.00 3.16
2235 2643 3.372241 CCCACCGGTCCTATTTAATTGGT 60.372 47.826 2.59 0.00 0.00 3.67
2236 2644 4.141436 CCCACCGGTCCTATTTAATTGGTA 60.141 45.833 2.59 0.00 0.00 3.25
2237 2645 5.438833 CCACCGGTCCTATTTAATTGGTAA 58.561 41.667 2.59 0.00 0.00 2.85
2238 2646 6.066032 CCACCGGTCCTATTTAATTGGTAAT 58.934 40.000 2.59 0.00 0.00 1.89
2239 2647 6.206048 CCACCGGTCCTATTTAATTGGTAATC 59.794 42.308 2.59 0.00 0.00 1.75
2240 2648 5.993441 ACCGGTCCTATTTAATTGGTAATCG 59.007 40.000 0.00 0.17 0.00 3.34
2241 2649 5.993441 CCGGTCCTATTTAATTGGTAATCGT 59.007 40.000 5.43 0.00 0.00 3.73
2242 2650 6.484308 CCGGTCCTATTTAATTGGTAATCGTT 59.516 38.462 5.43 0.00 0.00 3.85
2243 2651 7.012610 CCGGTCCTATTTAATTGGTAATCGTTT 59.987 37.037 5.43 0.00 0.00 3.60
2244 2652 7.853929 CGGTCCTATTTAATTGGTAATCGTTTG 59.146 37.037 5.43 0.00 0.00 2.93
2245 2653 8.132995 GGTCCTATTTAATTGGTAATCGTTTGG 58.867 37.037 5.43 0.00 0.00 3.28
2246 2654 8.895737 GTCCTATTTAATTGGTAATCGTTTGGA 58.104 33.333 5.43 0.00 0.00 3.53
2247 2655 9.463902 TCCTATTTAATTGGTAATCGTTTGGAA 57.536 29.630 5.43 0.00 0.00 3.53
2250 2658 8.850454 ATTTAATTGGTAATCGTTTGGAATCG 57.150 30.769 0.00 0.00 0.00 3.34
2251 2659 4.893424 ATTGGTAATCGTTTGGAATCGG 57.107 40.909 0.00 0.00 0.00 4.18
2252 2660 2.011222 TGGTAATCGTTTGGAATCGGC 58.989 47.619 0.00 0.00 0.00 5.54
2253 2661 1.004292 GGTAATCGTTTGGAATCGGCG 60.004 52.381 0.00 0.00 0.00 6.46
2254 2662 0.653636 TAATCGTTTGGAATCGGCGC 59.346 50.000 0.00 0.00 0.00 6.53
2255 2663 1.302383 AATCGTTTGGAATCGGCGCA 61.302 50.000 10.83 0.00 0.00 6.09
2256 2664 1.977594 ATCGTTTGGAATCGGCGCAC 61.978 55.000 10.83 0.00 0.00 5.34
2257 2665 2.178273 GTTTGGAATCGGCGCACC 59.822 61.111 10.83 5.93 0.00 5.01
2291 2699 4.516195 GGTTCCCCTCGCTCGCTC 62.516 72.222 0.00 0.00 0.00 5.03
2292 2700 4.856607 GTTCCCCTCGCTCGCTCG 62.857 72.222 0.00 0.00 0.00 5.03
2297 2705 4.186433 CCTCGCTCGCTCGCTCTT 62.186 66.667 0.00 0.00 0.00 2.85
2298 2706 2.202544 CTCGCTCGCTCGCTCTTT 60.203 61.111 0.00 0.00 0.00 2.52
2299 2707 1.803519 CTCGCTCGCTCGCTCTTTT 60.804 57.895 0.00 0.00 0.00 2.27
2300 2708 1.347817 CTCGCTCGCTCGCTCTTTTT 61.348 55.000 0.00 0.00 0.00 1.94
2301 2709 1.057976 CGCTCGCTCGCTCTTTTTC 59.942 57.895 0.00 0.00 0.00 2.29
2302 2710 1.421877 GCTCGCTCGCTCTTTTTCC 59.578 57.895 0.00 0.00 0.00 3.13
2303 2711 1.291877 GCTCGCTCGCTCTTTTTCCA 61.292 55.000 0.00 0.00 0.00 3.53
2304 2712 0.440371 CTCGCTCGCTCTTTTTCCAC 59.560 55.000 0.00 0.00 0.00 4.02
2305 2713 1.130613 CGCTCGCTCTTTTTCCACG 59.869 57.895 0.00 0.00 0.00 4.94
2306 2714 1.154395 GCTCGCTCTTTTTCCACGC 60.154 57.895 0.00 0.00 0.00 5.34
2307 2715 1.841663 GCTCGCTCTTTTTCCACGCA 61.842 55.000 0.00 0.00 0.00 5.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 9.801873 CCCGTTTATTAATTCACTCATTTCATT 57.198 29.630 0.00 0.00 0.00 2.57
3 4 8.966868 ACCCGTTTATTAATTCACTCATTTCAT 58.033 29.630 0.00 0.00 0.00 2.57
4 5 8.343168 ACCCGTTTATTAATTCACTCATTTCA 57.657 30.769 0.00 0.00 0.00 2.69
5 6 8.455682 TGACCCGTTTATTAATTCACTCATTTC 58.544 33.333 0.00 0.00 0.00 2.17
6 7 8.343168 TGACCCGTTTATTAATTCACTCATTT 57.657 30.769 0.00 0.00 0.00 2.32
7 8 7.610305 ACTGACCCGTTTATTAATTCACTCATT 59.390 33.333 0.00 0.00 0.00 2.57
8 9 7.110155 ACTGACCCGTTTATTAATTCACTCAT 58.890 34.615 0.00 0.00 0.00 2.90
12 13 6.115450 GGACTGACCCGTTTATTAATTCAC 57.885 41.667 0.00 0.00 0.00 3.18
29 30 1.547755 AGGGAGGGAGAGGGACTGA 60.548 63.158 0.00 0.00 41.55 3.41
45 46 0.867753 CGTCAAATCGAGCGGAGAGG 60.868 60.000 0.00 0.00 0.00 3.69
69 70 0.815734 TCACGAGGGGAGAAATCGTC 59.184 55.000 0.00 0.00 45.92 4.20
72 73 1.870167 GCGATCACGAGGGGAGAAATC 60.870 57.143 0.00 0.00 42.66 2.17
73 74 0.105039 GCGATCACGAGGGGAGAAAT 59.895 55.000 0.00 0.00 42.66 2.17
74 75 0.970937 AGCGATCACGAGGGGAGAAA 60.971 55.000 0.00 0.00 42.66 2.52
75 76 1.379977 AGCGATCACGAGGGGAGAA 60.380 57.895 0.00 0.00 42.66 2.87
77 78 2.725008 GAGCGATCACGAGGGGAG 59.275 66.667 0.00 0.00 42.66 4.30
78 79 3.209812 CGAGCGATCACGAGGGGA 61.210 66.667 0.00 0.00 42.66 4.81
79 80 3.209812 TCGAGCGATCACGAGGGG 61.210 66.667 0.00 0.00 42.66 4.79
122 130 5.793030 AGTCGGAAAGAAGAAGAAGAAGA 57.207 39.130 0.00 0.00 0.00 2.87
123 131 7.815068 TGAATAGTCGGAAAGAAGAAGAAGAAG 59.185 37.037 0.00 0.00 0.00 2.85
124 132 7.667557 TGAATAGTCGGAAAGAAGAAGAAGAA 58.332 34.615 0.00 0.00 0.00 2.52
125 133 7.228314 TGAATAGTCGGAAAGAAGAAGAAGA 57.772 36.000 0.00 0.00 0.00 2.87
126 134 8.485976 AATGAATAGTCGGAAAGAAGAAGAAG 57.514 34.615 0.00 0.00 0.00 2.85
127 135 8.848474 AAATGAATAGTCGGAAAGAAGAAGAA 57.152 30.769 0.00 0.00 0.00 2.52
303 317 6.137415 CACACAACAAAATCATGCCATTTTC 58.863 36.000 2.89 0.00 34.37 2.29
308 322 2.433604 ACCACACAACAAAATCATGCCA 59.566 40.909 0.00 0.00 0.00 4.92
309 323 2.801679 CACCACACAACAAAATCATGCC 59.198 45.455 0.00 0.00 0.00 4.40
312 326 2.699846 AGCCACCACACAACAAAATCAT 59.300 40.909 0.00 0.00 0.00 2.45
313 327 2.106566 AGCCACCACACAACAAAATCA 58.893 42.857 0.00 0.00 0.00 2.57
314 328 2.472816 CAGCCACCACACAACAAAATC 58.527 47.619 0.00 0.00 0.00 2.17
315 329 1.473080 GCAGCCACCACACAACAAAAT 60.473 47.619 0.00 0.00 0.00 1.82
316 330 0.108424 GCAGCCACCACACAACAAAA 60.108 50.000 0.00 0.00 0.00 2.44
317 331 0.969917 AGCAGCCACCACACAACAAA 60.970 50.000 0.00 0.00 0.00 2.83
318 332 1.379710 AGCAGCCACCACACAACAA 60.380 52.632 0.00 0.00 0.00 2.83
319 333 2.120282 CAGCAGCCACCACACAACA 61.120 57.895 0.00 0.00 0.00 3.33
320 334 2.120909 ACAGCAGCCACCACACAAC 61.121 57.895 0.00 0.00 0.00 3.32
324 338 2.203195 GACACAGCAGCCACCACA 60.203 61.111 0.00 0.00 0.00 4.17
335 349 0.249031 TGCACGTCTCAGTGACACAG 60.249 55.000 8.59 0.00 45.60 3.66
372 386 2.392662 CCTTCTCCTGCTCCTGTATGA 58.607 52.381 0.00 0.00 0.00 2.15
373 387 1.415659 CCCTTCTCCTGCTCCTGTATG 59.584 57.143 0.00 0.00 0.00 2.39
417 450 0.441145 GTTCCGAACGTGGGAAATCG 59.559 55.000 19.53 10.03 44.69 3.34
467 500 1.005630 ACAGACAGAAGCCACGCTC 60.006 57.895 0.00 0.00 38.25 5.03
475 508 1.930251 TGGGGAGAGACAGACAGAAG 58.070 55.000 0.00 0.00 0.00 2.85
484 517 0.322008 CCACTGCTTTGGGGAGAGAC 60.322 60.000 0.00 0.00 36.84 3.36
487 520 4.330056 TCCACTGCTTTGGGGAGA 57.670 55.556 4.54 0.00 37.24 3.71
488 521 4.730487 CTCCACTGCTTTGGGGAG 57.270 61.111 8.41 8.41 39.93 4.30
489 522 2.436109 GCTCCACTGCTTTGGGGA 59.564 61.111 8.14 2.33 39.93 4.81
490 523 2.677875 GGCTCCACTGCTTTGGGG 60.678 66.667 4.54 2.27 40.59 4.96
491 524 1.304713 ATGGCTCCACTGCTTTGGG 60.305 57.895 4.54 0.00 37.24 4.12
492 525 1.601419 CCATGGCTCCACTGCTTTGG 61.601 60.000 0.00 0.00 38.10 3.28
609 642 5.977489 TTATCAGTCGAGGAGAAAACAGA 57.023 39.130 0.00 0.00 0.00 3.41
611 644 7.974501 GTCTTATTATCAGTCGAGGAGAAAACA 59.025 37.037 0.00 0.00 0.00 2.83
637 670 4.385379 GCGCCAATTTTTCAATTTTCTCG 58.615 39.130 0.00 0.00 29.41 4.04
645 678 3.943967 GGCGCGCCAATTTTTCAA 58.056 50.000 43.55 0.00 35.81 2.69
680 738 5.163184 TGCCCCTACGAATACCAATGAATAA 60.163 40.000 0.00 0.00 0.00 1.40
681 739 4.348461 TGCCCCTACGAATACCAATGAATA 59.652 41.667 0.00 0.00 0.00 1.75
682 740 3.137544 TGCCCCTACGAATACCAATGAAT 59.862 43.478 0.00 0.00 0.00 2.57
684 742 2.104111 CTGCCCCTACGAATACCAATGA 59.896 50.000 0.00 0.00 0.00 2.57
685 743 2.104111 TCTGCCCCTACGAATACCAATG 59.896 50.000 0.00 0.00 0.00 2.82
686 744 2.404559 TCTGCCCCTACGAATACCAAT 58.595 47.619 0.00 0.00 0.00 3.16
687 745 1.868713 TCTGCCCCTACGAATACCAA 58.131 50.000 0.00 0.00 0.00 3.67
688 746 2.097110 ATCTGCCCCTACGAATACCA 57.903 50.000 0.00 0.00 0.00 3.25
689 747 3.118738 CCATATCTGCCCCTACGAATACC 60.119 52.174 0.00 0.00 0.00 2.73
690 748 3.767673 TCCATATCTGCCCCTACGAATAC 59.232 47.826 0.00 0.00 0.00 1.89
691 749 4.055710 TCCATATCTGCCCCTACGAATA 57.944 45.455 0.00 0.00 0.00 1.75
694 752 2.179427 CATCCATATCTGCCCCTACGA 58.821 52.381 0.00 0.00 0.00 3.43
703 761 2.625737 GTCGCCATCCATCCATATCTG 58.374 52.381 0.00 0.00 0.00 2.90
853 1189 0.612453 AGACGTGAGGGGGAAGAGAC 60.612 60.000 0.00 0.00 0.00 3.36
897 1233 2.418628 TGAAATAGCAACGCCAAGCTAC 59.581 45.455 0.00 0.00 45.18 3.58
967 1303 2.125753 CTGAGCACGAGCACTCCC 60.126 66.667 7.77 0.00 45.49 4.30
969 1305 2.093473 CAGCTGAGCACGAGCACTC 61.093 63.158 8.42 0.00 45.49 3.51
970 1306 2.048409 CAGCTGAGCACGAGCACT 60.048 61.111 8.42 0.00 45.49 4.40
971 1307 2.048784 TCAGCTGAGCACGAGCAC 60.049 61.111 13.74 0.66 45.49 4.40
972 1308 2.260743 CTCAGCTGAGCACGAGCA 59.739 61.111 29.79 0.00 45.49 4.26
973 1309 2.508887 CCTCAGCTGAGCACGAGC 60.509 66.667 34.09 0.00 40.75 5.03
974 1310 2.183811 CCCTCAGCTGAGCACGAG 59.816 66.667 34.09 21.20 40.75 4.18
975 1311 2.601666 ACCCTCAGCTGAGCACGA 60.602 61.111 34.09 4.17 40.75 4.35
976 1312 2.125753 GACCCTCAGCTGAGCACG 60.126 66.667 34.09 24.80 40.75 5.34
987 1323 2.801631 CCCCATGAGCGAGACCCTC 61.802 68.421 0.00 0.00 0.00 4.30
1081 1417 2.083774 AGAGTGCAGAGAGAGACGAAG 58.916 52.381 0.00 0.00 0.00 3.79
1082 1418 1.809547 CAGAGTGCAGAGAGAGACGAA 59.190 52.381 0.00 0.00 0.00 3.85
1109 1475 2.507484 TCACAAACAGGAGCAATCTGG 58.493 47.619 6.06 0.00 36.62 3.86
1120 1486 8.512956 AGAATCAGAATCAGAATTCACAAACAG 58.487 33.333 8.44 0.00 43.21 3.16
1127 1493 5.064325 CACGCAGAATCAGAATCAGAATTCA 59.936 40.000 8.44 0.00 43.21 2.57
1131 1497 3.264947 CCACGCAGAATCAGAATCAGAA 58.735 45.455 0.00 0.00 0.00 3.02
1134 1501 2.349590 CACCACGCAGAATCAGAATCA 58.650 47.619 0.00 0.00 0.00 2.57
1493 1871 4.806339 AAGGGAGAGGCCGAGGGG 62.806 72.222 0.00 0.00 37.63 4.79
1618 2002 2.302157 GAGAAAAGAAACGGGAGGAGGA 59.698 50.000 0.00 0.00 0.00 3.71
1619 2003 2.303311 AGAGAAAAGAAACGGGAGGAGG 59.697 50.000 0.00 0.00 0.00 4.30
1620 2004 3.686916 AGAGAAAAGAAACGGGAGGAG 57.313 47.619 0.00 0.00 0.00 3.69
1621 2005 3.646637 AGAAGAGAAAAGAAACGGGAGGA 59.353 43.478 0.00 0.00 0.00 3.71
1622 2006 4.009370 AGAAGAGAAAAGAAACGGGAGG 57.991 45.455 0.00 0.00 0.00 4.30
1623 2007 5.760743 AGAAAGAAGAGAAAAGAAACGGGAG 59.239 40.000 0.00 0.00 0.00 4.30
1624 2008 5.681639 AGAAAGAAGAGAAAAGAAACGGGA 58.318 37.500 0.00 0.00 0.00 5.14
1625 2009 6.378710 AAGAAAGAAGAGAAAAGAAACGGG 57.621 37.500 0.00 0.00 0.00 5.28
1626 2010 9.952188 AAATAAGAAAGAAGAGAAAAGAAACGG 57.048 29.630 0.00 0.00 0.00 4.44
1675 2060 2.052047 AACCAGGCCTTACACGTGCT 62.052 55.000 17.22 5.64 0.00 4.40
1753 2138 4.839668 ATACAGCCTTCTCACTCGTATC 57.160 45.455 0.00 0.00 0.00 2.24
1774 2159 0.606096 CACCATCACTCACCGGTGTA 59.394 55.000 32.74 18.79 43.23 2.90
1775 2160 1.371183 CACCATCACTCACCGGTGT 59.629 57.895 32.74 13.54 43.23 4.16
1780 2165 0.108615 CCTCGACACCATCACTCACC 60.109 60.000 0.00 0.00 0.00 4.02
1782 2167 1.627864 TTCCTCGACACCATCACTCA 58.372 50.000 0.00 0.00 0.00 3.41
1783 2168 2.743636 TTTCCTCGACACCATCACTC 57.256 50.000 0.00 0.00 0.00 3.51
1785 2170 3.399330 TCTTTTTCCTCGACACCATCAC 58.601 45.455 0.00 0.00 0.00 3.06
1795 2186 5.207768 CACACTCACAATTCTTTTTCCTCG 58.792 41.667 0.00 0.00 0.00 4.63
1800 2191 4.734398 TGCCACACTCACAATTCTTTTT 57.266 36.364 0.00 0.00 0.00 1.94
1826 2217 2.460669 GCCATCTTTCAACCCCATCTT 58.539 47.619 0.00 0.00 0.00 2.40
1827 2218 1.342374 GGCCATCTTTCAACCCCATCT 60.342 52.381 0.00 0.00 0.00 2.90
1828 2219 1.114627 GGCCATCTTTCAACCCCATC 58.885 55.000 0.00 0.00 0.00 3.51
1829 2220 0.712380 AGGCCATCTTTCAACCCCAT 59.288 50.000 5.01 0.00 0.00 4.00
1830 2221 0.251742 CAGGCCATCTTTCAACCCCA 60.252 55.000 5.01 0.00 0.00 4.96
1831 2222 0.039618 TCAGGCCATCTTTCAACCCC 59.960 55.000 5.01 0.00 0.00 4.95
1832 2223 2.149973 ATCAGGCCATCTTTCAACCC 57.850 50.000 5.01 0.00 0.00 4.11
1833 2224 3.091545 TCAATCAGGCCATCTTTCAACC 58.908 45.455 5.01 0.00 0.00 3.77
1834 2225 4.679662 CATCAATCAGGCCATCTTTCAAC 58.320 43.478 5.01 0.00 0.00 3.18
1835 2226 3.131577 GCATCAATCAGGCCATCTTTCAA 59.868 43.478 5.01 0.00 0.00 2.69
1836 2227 2.691526 GCATCAATCAGGCCATCTTTCA 59.308 45.455 5.01 0.00 0.00 2.69
1837 2228 2.957006 AGCATCAATCAGGCCATCTTTC 59.043 45.455 5.01 0.00 0.00 2.62
1838 2229 2.957006 GAGCATCAATCAGGCCATCTTT 59.043 45.455 5.01 0.00 33.17 2.52
1856 2247 1.376553 GAGCCACAGGGAACAGAGC 60.377 63.158 0.00 0.00 35.59 4.09
1859 2250 2.743928 GCGAGCCACAGGGAACAG 60.744 66.667 0.00 0.00 35.59 3.16
1912 2303 2.503375 GTACTACGTGTGCGCGCT 60.503 61.111 33.29 14.40 42.83 5.92
1928 2319 4.697756 CATCCCCCACACGCACGT 62.698 66.667 0.00 0.00 0.00 4.49
1933 2324 3.326578 TCACCCATCCCCCACACG 61.327 66.667 0.00 0.00 0.00 4.49
1997 2388 4.067016 CACGGGCCGACGAAAACG 62.067 66.667 35.78 2.05 37.61 3.60
2025 2416 1.516386 CCCGACGTCGACCAATGAG 60.516 63.158 37.65 18.39 43.02 2.90
2054 2445 2.049802 GACGGCGAACTCGGAACA 60.050 61.111 16.62 0.00 40.23 3.18
2055 2446 1.411493 GATGACGGCGAACTCGGAAC 61.411 60.000 16.62 0.00 40.23 3.62
2131 2539 1.825474 AGAGAAACACGGGATGATCGT 59.175 47.619 0.00 0.00 41.93 3.73
2132 2540 2.196749 CAGAGAAACACGGGATGATCG 58.803 52.381 0.00 0.00 0.00 3.69
2133 2541 2.555199 CCAGAGAAACACGGGATGATC 58.445 52.381 0.00 0.00 0.00 2.92
2134 2542 1.407437 GCCAGAGAAACACGGGATGAT 60.407 52.381 0.00 0.00 0.00 2.45
2135 2543 0.036388 GCCAGAGAAACACGGGATGA 60.036 55.000 0.00 0.00 0.00 2.92
2136 2544 1.026718 GGCCAGAGAAACACGGGATG 61.027 60.000 0.00 0.00 0.00 3.51
2137 2545 1.299976 GGCCAGAGAAACACGGGAT 59.700 57.895 0.00 0.00 0.00 3.85
2138 2546 2.747686 GGCCAGAGAAACACGGGA 59.252 61.111 0.00 0.00 0.00 5.14
2139 2547 2.359975 GGGCCAGAGAAACACGGG 60.360 66.667 4.39 0.00 0.00 5.28
2140 2548 2.359975 GGGGCCAGAGAAACACGG 60.360 66.667 4.39 0.00 0.00 4.94
2141 2549 1.672356 CAGGGGCCAGAGAAACACG 60.672 63.158 4.39 0.00 0.00 4.49
2142 2550 1.973812 GCAGGGGCCAGAGAAACAC 60.974 63.158 4.39 0.00 0.00 3.32
2143 2551 2.436109 GCAGGGGCCAGAGAAACA 59.564 61.111 4.39 0.00 0.00 2.83
2155 2563 2.842394 CTACACACTCGCAGGCAGGG 62.842 65.000 0.00 0.00 0.00 4.45
2156 2564 1.446792 CTACACACTCGCAGGCAGG 60.447 63.158 0.00 0.00 0.00 4.85
2157 2565 0.734253 GACTACACACTCGCAGGCAG 60.734 60.000 0.00 0.00 0.00 4.85
2158 2566 1.179174 AGACTACACACTCGCAGGCA 61.179 55.000 0.00 0.00 0.00 4.75
2159 2567 0.038159 AAGACTACACACTCGCAGGC 60.038 55.000 0.00 0.00 0.00 4.85
2160 2568 2.440539 AAAGACTACACACTCGCAGG 57.559 50.000 0.00 0.00 0.00 4.85
2161 2569 2.731976 GGAAAAGACTACACACTCGCAG 59.268 50.000 0.00 0.00 0.00 5.18
2162 2570 2.750948 GGAAAAGACTACACACTCGCA 58.249 47.619 0.00 0.00 0.00 5.10
2163 2571 1.719780 CGGAAAAGACTACACACTCGC 59.280 52.381 0.00 0.00 0.00 5.03
2164 2572 1.719780 GCGGAAAAGACTACACACTCG 59.280 52.381 0.00 0.00 0.00 4.18
2165 2573 2.067013 GGCGGAAAAGACTACACACTC 58.933 52.381 0.00 0.00 0.00 3.51
2166 2574 1.692519 AGGCGGAAAAGACTACACACT 59.307 47.619 0.00 0.00 0.00 3.55
2167 2575 2.067013 GAGGCGGAAAAGACTACACAC 58.933 52.381 0.00 0.00 0.00 3.82
2168 2576 1.689813 TGAGGCGGAAAAGACTACACA 59.310 47.619 0.00 0.00 0.00 3.72
2169 2577 2.338500 CTGAGGCGGAAAAGACTACAC 58.662 52.381 0.00 0.00 0.00 2.90
2170 2578 1.275291 CCTGAGGCGGAAAAGACTACA 59.725 52.381 0.00 0.00 0.00 2.74
2171 2579 2.007547 GCCTGAGGCGGAAAAGACTAC 61.008 57.143 8.16 0.00 39.62 2.73
2172 2580 0.249398 GCCTGAGGCGGAAAAGACTA 59.751 55.000 8.16 0.00 39.62 2.59
2173 2581 1.003233 GCCTGAGGCGGAAAAGACT 60.003 57.895 8.16 0.00 39.62 3.24
2174 2582 3.579685 GCCTGAGGCGGAAAAGAC 58.420 61.111 8.16 0.00 39.62 3.01
2213 2621 3.219281 CCAATTAAATAGGACCGGTGGG 58.781 50.000 14.63 0.00 40.11 4.61
2214 2622 3.893521 ACCAATTAAATAGGACCGGTGG 58.106 45.455 14.63 4.49 0.00 4.61
2215 2623 6.073440 CGATTACCAATTAAATAGGACCGGTG 60.073 42.308 14.63 0.00 0.00 4.94
2216 2624 5.993441 CGATTACCAATTAAATAGGACCGGT 59.007 40.000 6.92 6.92 0.00 5.28
2217 2625 5.993441 ACGATTACCAATTAAATAGGACCGG 59.007 40.000 0.00 0.00 0.00 5.28
2218 2626 7.486802 AACGATTACCAATTAAATAGGACCG 57.513 36.000 0.00 0.00 0.00 4.79
2219 2627 8.132995 CCAAACGATTACCAATTAAATAGGACC 58.867 37.037 0.00 0.00 0.00 4.46
2220 2628 8.895737 TCCAAACGATTACCAATTAAATAGGAC 58.104 33.333 0.00 0.00 0.00 3.85
2221 2629 9.463902 TTCCAAACGATTACCAATTAAATAGGA 57.536 29.630 0.00 0.00 0.00 2.94
2224 2632 9.938670 CGATTCCAAACGATTACCAATTAAATA 57.061 29.630 0.00 0.00 0.00 1.40
2225 2633 7.918562 CCGATTCCAAACGATTACCAATTAAAT 59.081 33.333 0.00 0.00 0.00 1.40
2226 2634 7.251994 CCGATTCCAAACGATTACCAATTAAA 58.748 34.615 0.00 0.00 0.00 1.52
2227 2635 6.678409 GCCGATTCCAAACGATTACCAATTAA 60.678 38.462 0.00 0.00 0.00 1.40
2228 2636 5.220892 GCCGATTCCAAACGATTACCAATTA 60.221 40.000 0.00 0.00 0.00 1.40
2229 2637 4.439563 GCCGATTCCAAACGATTACCAATT 60.440 41.667 0.00 0.00 0.00 2.32
2230 2638 3.066203 GCCGATTCCAAACGATTACCAAT 59.934 43.478 0.00 0.00 0.00 3.16
2231 2639 2.420722 GCCGATTCCAAACGATTACCAA 59.579 45.455 0.00 0.00 0.00 3.67
2232 2640 2.011222 GCCGATTCCAAACGATTACCA 58.989 47.619 0.00 0.00 0.00 3.25
2233 2641 1.004292 CGCCGATTCCAAACGATTACC 60.004 52.381 0.00 0.00 0.00 2.85
2234 2642 1.593793 GCGCCGATTCCAAACGATTAC 60.594 52.381 0.00 0.00 0.00 1.89
2235 2643 0.653636 GCGCCGATTCCAAACGATTA 59.346 50.000 0.00 0.00 0.00 1.75
2236 2644 1.302383 TGCGCCGATTCCAAACGATT 61.302 50.000 4.18 0.00 0.00 3.34
2237 2645 1.743623 TGCGCCGATTCCAAACGAT 60.744 52.632 4.18 0.00 0.00 3.73
2238 2646 2.357638 TGCGCCGATTCCAAACGA 60.358 55.556 4.18 0.00 0.00 3.85
2239 2647 2.202298 GTGCGCCGATTCCAAACG 60.202 61.111 4.18 0.00 0.00 3.60
2240 2648 2.178273 GGTGCGCCGATTCCAAAC 59.822 61.111 4.18 0.00 0.00 2.93
2275 2683 4.856607 CGAGCGAGCGAGGGGAAC 62.857 72.222 0.00 0.00 0.00 3.62
2280 2688 3.691744 AAAGAGCGAGCGAGCGAGG 62.692 63.158 1.41 0.00 43.00 4.63
2281 2689 1.347817 AAAAAGAGCGAGCGAGCGAG 61.348 55.000 1.41 0.00 43.00 5.03
2282 2690 1.344942 GAAAAAGAGCGAGCGAGCGA 61.345 55.000 1.41 0.00 43.00 4.93
2283 2691 1.057976 GAAAAAGAGCGAGCGAGCG 59.942 57.895 0.00 0.00 43.00 5.03
2284 2692 1.291877 TGGAAAAAGAGCGAGCGAGC 61.292 55.000 0.00 0.00 37.41 5.03
2285 2693 0.440371 GTGGAAAAAGAGCGAGCGAG 59.560 55.000 0.00 0.00 0.00 5.03
2286 2694 1.282248 CGTGGAAAAAGAGCGAGCGA 61.282 55.000 0.00 0.00 0.00 4.93
2287 2695 1.130613 CGTGGAAAAAGAGCGAGCG 59.869 57.895 0.00 0.00 0.00 5.03
2288 2696 1.154395 GCGTGGAAAAAGAGCGAGC 60.154 57.895 0.00 0.00 0.00 5.03
2289 2697 2.234613 TGCGTGGAAAAAGAGCGAG 58.765 52.632 0.00 0.00 0.00 5.03
2290 2698 4.447544 TGCGTGGAAAAAGAGCGA 57.552 50.000 0.00 0.00 0.00 4.93


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

AutoCloner maintained by Alex Coulton.