Multiple sequence alignment - TraesCS4B01G316600

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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 TraesCS4B01G316600 chr4B 100.000 2786 0 0 1 2786 606183409 606180624 0.000000e+00 5145.0
1 TraesCS4B01G316600 chr4B 96.739 184 5 1 2144 2327 330634798 330634616 3.490000e-79 305.0
2 TraesCS4B01G316600 chr4B 78.528 163 32 3 1319 1479 606554826 606554665 1.360000e-18 104.0
3 TraesCS4B01G316600 chr4D 94.893 1312 42 12 826 2125 479381196 479379898 0.000000e+00 2028.0
4 TraesCS4B01G316600 chr4D 94.529 329 13 3 2463 2786 479379665 479379337 1.150000e-138 503.0
5 TraesCS4B01G316600 chr4D 85.950 242 19 7 422 656 479381525 479381292 7.710000e-61 244.0
6 TraesCS4B01G316600 chr4D 88.000 200 10 3 66 264 479381858 479381672 1.000000e-54 224.0
7 TraesCS4B01G316600 chr4D 82.941 170 4 6 2327 2473 479379883 479379716 2.250000e-26 130.0
8 TraesCS4B01G316600 chr4D 78.882 161 34 0 1319 1479 479411860 479411700 2.930000e-20 110.0
9 TraesCS4B01G316600 chr4D 86.154 65 8 1 2409 2473 38290064 38290001 4.980000e-08 69.4
10 TraesCS4B01G316600 chr4A 86.199 1384 82 40 712 2013 685770992 685769636 0.000000e+00 1397.0
11 TraesCS4B01G316600 chr4A 80.992 242 19 13 3 240 685771518 685771300 1.720000e-37 167.0
12 TraesCS4B01G316600 chr4A 78.710 155 31 2 1315 1468 685787015 685786862 4.910000e-18 102.0
13 TraesCS4B01G316600 chr5B 98.876 178 2 0 2151 2328 363665298 363665475 4.480000e-83 318.0
14 TraesCS4B01G316600 chr5B 96.237 186 5 2 2152 2336 84580440 84580256 1.250000e-78 303.0
15 TraesCS4B01G316600 chr7B 98.864 176 2 0 2154 2329 632274152 632273977 5.790000e-82 315.0
16 TraesCS4B01G316600 chr7B 98.315 178 3 0 2152 2329 662001453 662001630 2.080000e-81 313.0
17 TraesCS4B01G316600 chr7B 80.315 127 17 7 1297 1421 28506288 28506168 3.820000e-14 89.8
18 TraesCS4B01G316600 chr6B 98.857 175 2 0 2153 2327 213152380 213152554 2.080000e-81 313.0
19 TraesCS4B01G316600 chr6B 98.857 175 2 0 2153 2327 525106415 525106241 2.080000e-81 313.0
20 TraesCS4B01G316600 chr3B 96.774 186 4 2 2143 2327 723448621 723448437 2.690000e-80 309.0
21 TraesCS4B01G316600 chr3B 95.722 187 6 2 2149 2334 819815088 819814903 1.620000e-77 300.0
22 TraesCS4B01G316600 chr7A 81.102 127 16 7 1297 1421 83635945 83635825 8.210000e-16 95.3
23 TraesCS4B01G316600 chr7D 78.912 147 21 9 1278 1421 80979883 80979744 1.060000e-14 91.6


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 TraesCS4B01G316600 chr4B 606180624 606183409 2785 True 5145.0 5145 100.0000 1 2786 1 chr4B.!!$R2 2785
1 TraesCS4B01G316600 chr4D 479379337 479381858 2521 True 625.8 2028 89.2626 66 2786 5 chr4D.!!$R3 2720
2 TraesCS4B01G316600 chr4A 685769636 685771518 1882 True 782.0 1397 83.5955 3 2013 2 chr4A.!!$R2 2010

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
740 991 0.034616 GATGATTAGGCAGAGGCGCT 59.965 55.0 7.64 0.0 42.47 5.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1951 2300 0.249489 ATTAGAGTCGACCGCCATGC 60.249 55.0 13.01 0.0 0.0 4.06 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
38 39 5.733226 GCACACTGTTGCACATGTATATA 57.267 39.130 0.00 0.00 42.49 0.86
40 41 7.420184 GCACACTGTTGCACATGTATATATA 57.580 36.000 0.00 0.00 42.49 0.86
42 43 8.506437 GCACACTGTTGCACATGTATATATATT 58.494 33.333 0.00 0.00 42.49 1.28
100 105 0.383949 GGCGGCAGTTGAAGAAAACA 59.616 50.000 3.07 0.00 32.21 2.83
106 111 2.354821 GCAGTTGAAGAAAACAGGTCGT 59.645 45.455 0.00 0.00 32.21 4.34
114 119 0.685660 AAAACAGGTCGTCCCCTCTC 59.314 55.000 0.00 0.00 30.33 3.20
183 188 0.246360 TGTGAGTGATGTACCGCCAG 59.754 55.000 0.00 0.00 0.00 4.85
198 203 1.071299 CCAGTGTGCAGTGCAGGTA 59.929 57.895 20.42 5.21 40.08 3.08
288 335 0.753262 ACAGTTGAGCTCGTCCTGTT 59.247 50.000 20.67 9.96 32.72 3.16
289 336 1.961394 ACAGTTGAGCTCGTCCTGTTA 59.039 47.619 20.67 0.00 32.72 2.41
291 338 2.029828 CAGTTGAGCTCGTCCTGTTACT 60.030 50.000 9.64 0.00 0.00 2.24
303 355 4.524053 GTCCTGTTACTAGGGGAATTTGG 58.476 47.826 0.00 0.00 38.42 3.28
306 358 2.650322 TGTTACTAGGGGAATTTGGCCA 59.350 45.455 0.00 0.00 0.00 5.36
308 360 1.382914 ACTAGGGGAATTTGGCCACT 58.617 50.000 3.88 0.00 43.02 4.00
365 417 3.349022 TGAGAATCAGCACATGCAATGA 58.651 40.909 6.64 2.43 45.12 2.57
366 418 3.128068 TGAGAATCAGCACATGCAATGAC 59.872 43.478 6.64 0.00 45.12 3.06
367 419 3.377485 GAGAATCAGCACATGCAATGACT 59.623 43.478 6.64 0.04 40.89 3.41
368 420 4.730903 GAGAATCAGCACATGCAATGACTG 60.731 45.833 6.64 10.94 46.17 3.51
400 626 1.013596 TGCGCATGGGTCGAAATTAG 58.986 50.000 5.66 0.00 0.00 1.73
405 631 2.354821 GCATGGGTCGAAATTAGTCACC 59.645 50.000 0.00 0.00 0.00 4.02
406 632 3.873910 CATGGGTCGAAATTAGTCACCT 58.126 45.455 0.00 0.00 0.00 4.00
407 633 3.328382 TGGGTCGAAATTAGTCACCTG 57.672 47.619 0.00 0.00 0.00 4.00
408 634 2.007608 GGGTCGAAATTAGTCACCTGC 58.992 52.381 0.00 0.00 0.00 4.85
409 635 2.007608 GGTCGAAATTAGTCACCTGCC 58.992 52.381 0.00 0.00 0.00 4.85
410 636 1.659098 GTCGAAATTAGTCACCTGCCG 59.341 52.381 0.00 0.00 0.00 5.69
411 637 1.274167 TCGAAATTAGTCACCTGCCGT 59.726 47.619 0.00 0.00 0.00 5.68
412 638 1.393539 CGAAATTAGTCACCTGCCGTG 59.606 52.381 0.00 0.00 44.50 4.94
413 639 1.130561 GAAATTAGTCACCTGCCGTGC 59.869 52.381 0.00 0.00 42.69 5.34
414 640 0.676782 AATTAGTCACCTGCCGTGCC 60.677 55.000 0.00 0.00 42.69 5.01
415 641 2.536997 ATTAGTCACCTGCCGTGCCC 62.537 60.000 0.00 0.00 42.69 5.36
439 665 1.501741 CAACATCGAAAGCACGGGG 59.498 57.895 0.00 0.00 0.00 5.73
445 671 0.601841 TCGAAAGCACGGGGTCTTTC 60.602 55.000 13.62 13.62 42.70 2.62
468 694 1.971167 GCGCCTGATTGTCAACCCA 60.971 57.895 0.00 0.00 0.00 4.51
503 729 0.802494 GGACAAATTGGTCACGCGAT 59.198 50.000 15.93 0.00 39.59 4.58
514 740 1.588403 CACGCGATCTCTGCCTCTG 60.588 63.158 15.93 0.00 0.00 3.35
518 751 1.954362 GCGATCTCTGCCTCTGTGGT 61.954 60.000 0.00 0.00 38.35 4.16
527 760 2.301870 CTGCCTCTGTGGTTAGTGGTTA 59.698 50.000 0.00 0.00 38.35 2.85
531 764 1.619827 TCTGTGGTTAGTGGTTACCCG 59.380 52.381 0.00 0.00 33.34 5.28
532 765 1.345415 CTGTGGTTAGTGGTTACCCGT 59.655 52.381 0.00 0.00 33.34 5.28
585 818 1.330306 GTGCTGTACAAAATGCGCTG 58.670 50.000 9.73 0.00 33.71 5.18
590 823 3.052036 CTGTACAAAATGCGCTGCTTTT 58.948 40.909 9.73 9.39 37.47 2.27
608 841 1.107114 TTTTCTTTCGCCAACTGCCA 58.893 45.000 0.00 0.00 36.24 4.92
609 842 0.667993 TTTCTTTCGCCAACTGCCAG 59.332 50.000 0.00 0.00 36.24 4.85
610 843 0.465460 TTCTTTCGCCAACTGCCAGT 60.465 50.000 0.00 0.00 36.24 4.00
611 844 1.165907 TCTTTCGCCAACTGCCAGTG 61.166 55.000 0.00 0.00 36.24 3.66
612 845 2.737932 CTTTCGCCAACTGCCAGTGC 62.738 60.000 0.00 0.00 36.24 4.40
618 851 4.208403 AACTGCCAGTGCCAGCCA 62.208 61.111 0.00 0.00 36.33 4.75
619 852 4.655647 ACTGCCAGTGCCAGCCAG 62.656 66.667 0.00 0.00 36.33 4.85
627 860 0.846015 AGTGCCAGCCAGCCATATAA 59.154 50.000 0.00 0.00 0.00 0.98
645 878 2.660258 AAACGCGAGACTGCAAGGGT 62.660 55.000 15.93 0.00 39.30 4.34
649 882 2.659610 GAGACTGCAAGGGTCGCT 59.340 61.111 1.81 0.00 39.30 4.93
683 934 4.044024 GAGCGTTCAGTCTCGACG 57.956 61.111 0.00 0.00 39.61 5.12
684 935 1.496393 GAGCGTTCAGTCTCGACGA 59.504 57.895 8.33 0.00 38.99 4.20
704 955 4.100084 CCGCTGTGCATCCCCAGA 62.100 66.667 6.25 0.00 0.00 3.86
707 958 2.042831 GCTGTGCATCCCCAGACAC 61.043 63.158 6.25 0.00 0.00 3.67
710 961 2.034879 GTGCATCCCCAGACACGTG 61.035 63.158 15.48 15.48 0.00 4.49
714 965 2.525124 ATCCCCAGACACGTGCCAA 61.525 57.895 17.22 0.00 0.00 4.52
740 991 0.034616 GATGATTAGGCAGAGGCGCT 59.965 55.000 7.64 0.00 42.47 5.92
777 1034 0.036306 TCCGTGCCTTCCTTTTCCTC 59.964 55.000 0.00 0.00 0.00 3.71
778 1035 0.960861 CCGTGCCTTCCTTTTCCTCC 60.961 60.000 0.00 0.00 0.00 4.30
779 1036 0.036875 CGTGCCTTCCTTTTCCTCCT 59.963 55.000 0.00 0.00 0.00 3.69
786 1043 3.570125 CCTTCCTTTTCCTCCTGTGAAAC 59.430 47.826 0.00 0.00 31.78 2.78
817 1085 0.818296 TAGCGAGTCCTCTTGGCTTC 59.182 55.000 1.44 0.00 36.04 3.86
830 1098 3.792904 GCTTCAGCCTTCTCGCTC 58.207 61.111 0.00 0.00 36.82 5.03
874 1142 1.432514 CCATCGGTTGTCTGTCAGTG 58.567 55.000 0.00 0.00 0.00 3.66
1072 1383 2.782222 GCTAGCGTCCCGATGGTGA 61.782 63.158 0.00 0.00 0.00 4.02
1089 1400 1.819632 GATGATCACCGTGGTGGGC 60.820 63.158 18.47 11.26 45.43 5.36
1230 1544 3.760035 GTGGCCGAGGAGAAGCGA 61.760 66.667 0.00 0.00 0.00 4.93
1263 1577 2.664185 CTCATCCGCATGCTCCCG 60.664 66.667 17.13 0.00 0.00 5.14
1585 1905 1.439644 GTGATCGAGGTGAGAGGGC 59.560 63.158 0.00 0.00 0.00 5.19
1671 1994 0.246635 CGGTGGACACGAGGAAGAAT 59.753 55.000 0.00 0.00 0.00 2.40
1897 2246 1.031571 CGGTGGTAGGCCTACGTACA 61.032 60.000 32.56 24.87 38.60 2.90
1943 2292 1.592400 CGCGTCTAGATGCATGGCA 60.592 57.895 31.01 0.00 43.26 4.92
2058 2408 0.732538 CCGGAGCATTTTTCGCAACC 60.733 55.000 0.00 0.00 0.00 3.77
2075 2425 0.104304 ACCGAGTGCAGACTTTTCGT 59.896 50.000 0.00 0.00 30.16 3.85
2091 2441 0.899720 TCGTGGGAGCTCGGTATTTT 59.100 50.000 7.83 0.00 0.00 1.82
2118 2473 9.791838 GAACAAAAGGCATATTTAAAAGTTTCG 57.208 29.630 0.00 0.00 0.00 3.46
2159 2514 9.877178 TTTTTCATGGTTATGTGTTACAGTTTT 57.123 25.926 0.00 0.00 35.73 2.43
2160 2515 8.864069 TTTCATGGTTATGTGTTACAGTTTTG 57.136 30.769 0.00 0.00 35.73 2.44
2161 2516 6.442952 TCATGGTTATGTGTTACAGTTTTGC 58.557 36.000 0.00 0.00 35.73 3.68
2162 2517 6.264292 TCATGGTTATGTGTTACAGTTTTGCT 59.736 34.615 0.00 0.00 35.73 3.91
2163 2518 7.445707 TCATGGTTATGTGTTACAGTTTTGCTA 59.554 33.333 0.00 0.00 35.73 3.49
2164 2519 7.197071 TGGTTATGTGTTACAGTTTTGCTAG 57.803 36.000 0.00 0.00 0.00 3.42
2165 2520 6.993308 TGGTTATGTGTTACAGTTTTGCTAGA 59.007 34.615 0.00 0.00 0.00 2.43
2166 2521 7.499563 TGGTTATGTGTTACAGTTTTGCTAGAA 59.500 33.333 0.00 0.00 0.00 2.10
2167 2522 7.801783 GGTTATGTGTTACAGTTTTGCTAGAAC 59.198 37.037 0.00 0.00 0.00 3.01
2168 2523 8.557029 GTTATGTGTTACAGTTTTGCTAGAACT 58.443 33.333 0.00 0.00 37.82 3.01
2169 2524 6.598753 TGTGTTACAGTTTTGCTAGAACTC 57.401 37.500 0.00 0.00 35.26 3.01
2170 2525 6.110033 TGTGTTACAGTTTTGCTAGAACTCA 58.890 36.000 0.00 0.00 35.26 3.41
2171 2526 6.765989 TGTGTTACAGTTTTGCTAGAACTCAT 59.234 34.615 0.00 0.00 35.26 2.90
2172 2527 7.042051 TGTGTTACAGTTTTGCTAGAACTCATC 60.042 37.037 0.00 0.00 35.26 2.92
2173 2528 7.171678 GTGTTACAGTTTTGCTAGAACTCATCT 59.828 37.037 0.00 0.00 42.48 2.90
2174 2529 8.364894 TGTTACAGTTTTGCTAGAACTCATCTA 58.635 33.333 0.00 0.00 39.71 1.98
2202 2557 8.908786 TGAGATATAATTTGGTCTCATTCACC 57.091 34.615 10.50 0.00 41.40 4.02
2203 2558 8.717717 TGAGATATAATTTGGTCTCATTCACCT 58.282 33.333 10.50 0.00 41.40 4.00
2204 2559 9.566432 GAGATATAATTTGGTCTCATTCACCTT 57.434 33.333 8.11 0.00 37.60 3.50
2205 2560 9.927081 AGATATAATTTGGTCTCATTCACCTTT 57.073 29.630 0.00 0.00 34.66 3.11
2209 2564 7.595819 AATTTGGTCTCATTCACCTTTTACA 57.404 32.000 0.00 0.00 34.66 2.41
2210 2565 6.633500 TTTGGTCTCATTCACCTTTTACAG 57.367 37.500 0.00 0.00 34.66 2.74
2211 2566 5.304686 TGGTCTCATTCACCTTTTACAGT 57.695 39.130 0.00 0.00 34.66 3.55
2212 2567 5.305585 TGGTCTCATTCACCTTTTACAGTC 58.694 41.667 0.00 0.00 34.66 3.51
2213 2568 5.163248 TGGTCTCATTCACCTTTTACAGTCA 60.163 40.000 0.00 0.00 34.66 3.41
2214 2569 5.940470 GGTCTCATTCACCTTTTACAGTCAT 59.060 40.000 0.00 0.00 0.00 3.06
2215 2570 6.431234 GGTCTCATTCACCTTTTACAGTCATT 59.569 38.462 0.00 0.00 0.00 2.57
2216 2571 7.301054 GTCTCATTCACCTTTTACAGTCATTG 58.699 38.462 0.00 0.00 0.00 2.82
2217 2572 6.430925 TCTCATTCACCTTTTACAGTCATTGG 59.569 38.462 0.00 0.00 0.00 3.16
2218 2573 6.303054 TCATTCACCTTTTACAGTCATTGGA 58.697 36.000 0.00 0.00 0.00 3.53
2219 2574 6.947733 TCATTCACCTTTTACAGTCATTGGAT 59.052 34.615 0.00 0.00 0.00 3.41
2220 2575 6.573664 TTCACCTTTTACAGTCATTGGATG 57.426 37.500 0.00 0.00 0.00 3.51
2221 2576 5.630121 TCACCTTTTACAGTCATTGGATGT 58.370 37.500 0.00 1.30 0.00 3.06
2222 2577 5.473162 TCACCTTTTACAGTCATTGGATGTG 59.527 40.000 5.31 0.00 0.00 3.21
2223 2578 5.473162 CACCTTTTACAGTCATTGGATGTGA 59.527 40.000 5.31 0.00 0.00 3.58
2224 2579 6.151648 CACCTTTTACAGTCATTGGATGTGAT 59.848 38.462 5.31 0.00 0.00 3.06
2225 2580 6.151648 ACCTTTTACAGTCATTGGATGTGATG 59.848 38.462 5.31 0.00 0.00 3.07
2226 2581 5.565592 TTTACAGTCATTGGATGTGATGC 57.434 39.130 5.31 0.00 0.00 3.91
2227 2582 3.361281 ACAGTCATTGGATGTGATGCT 57.639 42.857 0.00 0.00 0.00 3.79
2228 2583 4.492494 ACAGTCATTGGATGTGATGCTA 57.508 40.909 0.00 0.00 0.00 3.49
2229 2584 5.045012 ACAGTCATTGGATGTGATGCTAT 57.955 39.130 0.00 0.00 0.00 2.97
2230 2585 6.178607 ACAGTCATTGGATGTGATGCTATA 57.821 37.500 0.00 0.00 0.00 1.31
2231 2586 6.594744 ACAGTCATTGGATGTGATGCTATAA 58.405 36.000 0.00 0.00 0.00 0.98
2232 2587 6.709397 ACAGTCATTGGATGTGATGCTATAAG 59.291 38.462 0.00 0.00 0.00 1.73
2233 2588 6.932960 CAGTCATTGGATGTGATGCTATAAGA 59.067 38.462 0.00 0.00 0.00 2.10
2234 2589 7.606839 CAGTCATTGGATGTGATGCTATAAGAT 59.393 37.037 0.00 0.00 0.00 2.40
2235 2590 7.606839 AGTCATTGGATGTGATGCTATAAGATG 59.393 37.037 0.00 0.00 0.00 2.90
2236 2591 6.373495 TCATTGGATGTGATGCTATAAGATGC 59.627 38.462 0.00 0.00 0.00 3.91
2237 2592 4.248058 TGGATGTGATGCTATAAGATGCG 58.752 43.478 0.00 0.00 0.00 4.73
2238 2593 4.248859 GGATGTGATGCTATAAGATGCGT 58.751 43.478 0.00 0.00 0.00 5.24
2239 2594 4.092529 GGATGTGATGCTATAAGATGCGTG 59.907 45.833 0.00 0.00 0.00 5.34
2240 2595 4.058721 TGTGATGCTATAAGATGCGTGT 57.941 40.909 0.00 0.00 0.00 4.49
2241 2596 3.803778 TGTGATGCTATAAGATGCGTGTG 59.196 43.478 0.00 0.00 0.00 3.82
2242 2597 3.804325 GTGATGCTATAAGATGCGTGTGT 59.196 43.478 0.00 0.00 0.00 3.72
2243 2598 3.803778 TGATGCTATAAGATGCGTGTGTG 59.196 43.478 0.00 0.00 0.00 3.82
2244 2599 1.933181 TGCTATAAGATGCGTGTGTGC 59.067 47.619 0.00 0.00 0.00 4.57
2245 2600 2.205074 GCTATAAGATGCGTGTGTGCT 58.795 47.619 0.00 0.00 35.36 4.40
2246 2601 2.033407 GCTATAAGATGCGTGTGTGCTG 60.033 50.000 0.00 0.00 35.36 4.41
2247 2602 2.385013 ATAAGATGCGTGTGTGCTGA 57.615 45.000 0.00 0.00 35.36 4.26
2248 2603 1.428448 TAAGATGCGTGTGTGCTGAC 58.572 50.000 0.00 0.00 35.36 3.51
2249 2604 1.560004 AAGATGCGTGTGTGCTGACG 61.560 55.000 0.00 0.00 38.63 4.35
2250 2605 2.280119 ATGCGTGTGTGCTGACGT 60.280 55.556 0.00 0.00 37.89 4.34
2251 2606 2.484631 GATGCGTGTGTGCTGACGTG 62.485 60.000 0.00 0.00 37.89 4.49
2252 2607 4.000557 GCGTGTGTGCTGACGTGG 62.001 66.667 0.00 0.00 37.89 4.94
2253 2608 3.337889 CGTGTGTGCTGACGTGGG 61.338 66.667 0.00 0.00 0.00 4.61
2254 2609 2.203015 GTGTGTGCTGACGTGGGT 60.203 61.111 0.00 0.00 0.00 4.51
2255 2610 1.817941 GTGTGTGCTGACGTGGGTT 60.818 57.895 0.00 0.00 0.00 4.11
2256 2611 1.817520 TGTGTGCTGACGTGGGTTG 60.818 57.895 0.00 0.00 0.00 3.77
2257 2612 1.817941 GTGTGCTGACGTGGGTTGT 60.818 57.895 0.00 0.00 0.00 3.32
2258 2613 0.531090 GTGTGCTGACGTGGGTTGTA 60.531 55.000 0.00 0.00 0.00 2.41
2259 2614 0.394938 TGTGCTGACGTGGGTTGTAT 59.605 50.000 0.00 0.00 0.00 2.29
2260 2615 1.202710 TGTGCTGACGTGGGTTGTATT 60.203 47.619 0.00 0.00 0.00 1.89
2261 2616 1.877443 GTGCTGACGTGGGTTGTATTT 59.123 47.619 0.00 0.00 0.00 1.40
2262 2617 1.876799 TGCTGACGTGGGTTGTATTTG 59.123 47.619 0.00 0.00 0.00 2.32
2263 2618 1.877443 GCTGACGTGGGTTGTATTTGT 59.123 47.619 0.00 0.00 0.00 2.83
2264 2619 2.292292 GCTGACGTGGGTTGTATTTGTT 59.708 45.455 0.00 0.00 0.00 2.83
2265 2620 3.608474 GCTGACGTGGGTTGTATTTGTTC 60.608 47.826 0.00 0.00 0.00 3.18
2266 2621 3.811083 TGACGTGGGTTGTATTTGTTCT 58.189 40.909 0.00 0.00 0.00 3.01
2267 2622 4.200874 TGACGTGGGTTGTATTTGTTCTT 58.799 39.130 0.00 0.00 0.00 2.52
2268 2623 4.035792 TGACGTGGGTTGTATTTGTTCTTG 59.964 41.667 0.00 0.00 0.00 3.02
2269 2624 3.949113 ACGTGGGTTGTATTTGTTCTTGT 59.051 39.130 0.00 0.00 0.00 3.16
2270 2625 4.399934 ACGTGGGTTGTATTTGTTCTTGTT 59.600 37.500 0.00 0.00 0.00 2.83
2271 2626 5.105675 ACGTGGGTTGTATTTGTTCTTGTTT 60.106 36.000 0.00 0.00 0.00 2.83
2272 2627 5.808030 CGTGGGTTGTATTTGTTCTTGTTTT 59.192 36.000 0.00 0.00 0.00 2.43
2273 2628 6.020201 CGTGGGTTGTATTTGTTCTTGTTTTC 60.020 38.462 0.00 0.00 0.00 2.29
2274 2629 6.814146 GTGGGTTGTATTTGTTCTTGTTTTCA 59.186 34.615 0.00 0.00 0.00 2.69
2275 2630 7.332182 GTGGGTTGTATTTGTTCTTGTTTTCAA 59.668 33.333 0.00 0.00 38.21 2.69
2276 2631 7.878127 TGGGTTGTATTTGTTCTTGTTTTCAAA 59.122 29.630 0.00 0.00 39.47 2.69
2277 2632 8.387354 GGGTTGTATTTGTTCTTGTTTTCAAAG 58.613 33.333 0.00 0.00 39.47 2.77
2278 2633 8.931775 GGTTGTATTTGTTCTTGTTTTCAAAGT 58.068 29.630 0.00 0.00 39.47 2.66
2279 2634 9.739786 GTTGTATTTGTTCTTGTTTTCAAAGTG 57.260 29.630 0.00 0.00 39.47 3.16
2280 2635 9.698309 TTGTATTTGTTCTTGTTTTCAAAGTGA 57.302 25.926 0.00 0.00 39.47 3.41
2281 2636 9.698309 TGTATTTGTTCTTGTTTTCAAAGTGAA 57.302 25.926 0.00 0.00 39.47 3.18
2284 2639 8.824159 TTTGTTCTTGTTTTCAAAGTGAATGA 57.176 26.923 0.00 0.00 39.47 2.57
2285 2640 8.464770 TTGTTCTTGTTTTCAAAGTGAATGAG 57.535 30.769 0.00 0.00 39.47 2.90
2286 2641 7.825681 TGTTCTTGTTTTCAAAGTGAATGAGA 58.174 30.769 0.00 0.00 39.47 3.27
2287 2642 7.754924 TGTTCTTGTTTTCAAAGTGAATGAGAC 59.245 33.333 0.00 0.00 39.47 3.36
2288 2643 6.795399 TCTTGTTTTCAAAGTGAATGAGACC 58.205 36.000 0.00 0.00 39.47 3.85
2289 2644 6.376864 TCTTGTTTTCAAAGTGAATGAGACCA 59.623 34.615 0.00 0.00 39.47 4.02
2290 2645 6.522625 TGTTTTCAAAGTGAATGAGACCAA 57.477 33.333 0.00 0.00 36.11 3.67
2291 2646 6.929625 TGTTTTCAAAGTGAATGAGACCAAA 58.070 32.000 0.00 0.00 36.11 3.28
2292 2647 7.555087 TGTTTTCAAAGTGAATGAGACCAAAT 58.445 30.769 0.00 0.00 36.11 2.32
2293 2648 8.040132 TGTTTTCAAAGTGAATGAGACCAAATT 58.960 29.630 0.00 0.00 36.11 1.82
2294 2649 9.528018 GTTTTCAAAGTGAATGAGACCAAATTA 57.472 29.630 0.00 0.00 36.11 1.40
2324 2679 7.455058 TCATCTAGATGAGTTCTAGGTACTCC 58.545 42.308 27.93 8.04 44.99 3.85
2325 2680 6.657541 CATCTAGATGAGTTCTAGGTACTCCC 59.342 46.154 25.78 12.05 44.99 4.30
2420 2798 4.516323 AGGTGCCCATTTTGAAAATATGC 58.484 39.130 13.46 13.46 0.00 3.14
2461 2839 3.938963 CGCCAGGTGTGAAAGTATAATGT 59.061 43.478 0.00 0.00 0.00 2.71
2544 2982 4.863152 CAACGATGCATGACTATTCACA 57.137 40.909 2.46 0.00 33.38 3.58
2560 2998 0.889186 CACAGGGGAGAAACAACGGG 60.889 60.000 0.00 0.00 0.00 5.28
2571 3012 5.240713 AGAAACAACGGGTAGTATCTACG 57.759 43.478 0.00 0.00 0.00 3.51
2587 3028 5.842619 ATCTACGTACTACTGTAGCATCG 57.157 43.478 14.55 16.76 38.33 3.84
2614 3055 3.429372 ATGGGTGTGGTTGTGCGGT 62.429 57.895 0.00 0.00 0.00 5.68
2707 3148 5.732528 GCACGTCTCTTTCGTATGGATCTTA 60.733 44.000 0.00 0.00 39.55 2.10
2710 3151 4.676018 GTCTCTTTCGTATGGATCTTACGC 59.324 45.833 18.07 5.02 41.59 4.42
2735 3176 1.133976 CAGTTGGAGGGTGGATGGATC 60.134 57.143 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.534654 ACAGTGTGCATGTACCTTTGTTATT 59.465 36.000 11.66 0.00 0.00 1.40
1 2 5.070001 ACAGTGTGCATGTACCTTTGTTAT 58.930 37.500 11.66 0.00 0.00 1.89
8 9 1.238439 GCAACAGTGTGCATGTACCT 58.762 50.000 11.66 5.39 44.29 3.08
53 54 3.753272 AGTGAGACCAATACATGTGCAAC 59.247 43.478 9.11 0.00 37.35 4.17
54 55 4.002982 GAGTGAGACCAATACATGTGCAA 58.997 43.478 9.11 0.00 0.00 4.08
55 56 3.007831 TGAGTGAGACCAATACATGTGCA 59.992 43.478 9.11 0.00 0.00 4.57
56 57 3.599343 TGAGTGAGACCAATACATGTGC 58.401 45.455 9.11 0.00 0.00 4.57
57 58 4.996758 TGTTGAGTGAGACCAATACATGTG 59.003 41.667 9.11 0.00 0.00 3.21
58 59 5.227569 TGTTGAGTGAGACCAATACATGT 57.772 39.130 2.69 2.69 0.00 3.21
59 60 4.633126 CCTGTTGAGTGAGACCAATACATG 59.367 45.833 0.00 0.00 0.00 3.21
60 61 4.836825 CCTGTTGAGTGAGACCAATACAT 58.163 43.478 0.00 0.00 0.00 2.29
61 62 3.557054 GCCTGTTGAGTGAGACCAATACA 60.557 47.826 0.00 0.00 0.00 2.29
64 65 1.609061 CGCCTGTTGAGTGAGACCAAT 60.609 52.381 0.00 0.00 0.00 3.16
139 144 1.339644 TACATTACACCGCCTCCCCC 61.340 60.000 0.00 0.00 0.00 5.40
183 188 2.671177 CGCTACCTGCACTGCACAC 61.671 63.158 0.00 0.00 43.06 3.82
198 203 2.038269 CACCACGGCCATTTACGCT 61.038 57.895 2.24 0.00 0.00 5.07
288 335 2.568979 AGTGGCCAAATTCCCCTAGTA 58.431 47.619 7.24 0.00 0.00 1.82
289 336 1.382914 AGTGGCCAAATTCCCCTAGT 58.617 50.000 7.24 0.00 0.00 2.57
291 338 2.568979 AGTAGTGGCCAAATTCCCCTA 58.431 47.619 7.24 0.00 0.00 3.53
303 355 1.667724 CTGCATGTGCTTAGTAGTGGC 59.332 52.381 6.55 0.00 42.66 5.01
306 358 3.259374 AGTCACTGCATGTGCTTAGTAGT 59.741 43.478 6.55 0.00 45.81 2.73
308 360 3.961480 AGTCACTGCATGTGCTTAGTA 57.039 42.857 6.55 0.00 45.81 1.82
344 396 3.128068 GTCATTGCATGTGCTGATTCTCA 59.872 43.478 6.55 0.00 42.66 3.27
345 397 3.377485 AGTCATTGCATGTGCTGATTCTC 59.623 43.478 6.55 0.00 42.66 2.87
346 398 3.128764 CAGTCATTGCATGTGCTGATTCT 59.871 43.478 6.55 0.00 42.66 2.40
348 400 2.823747 ACAGTCATTGCATGTGCTGATT 59.176 40.909 20.21 0.00 42.66 2.57
349 401 2.163613 CACAGTCATTGCATGTGCTGAT 59.836 45.455 20.21 0.00 42.66 2.90
350 402 1.538075 CACAGTCATTGCATGTGCTGA 59.462 47.619 20.21 0.00 42.66 4.26
351 403 1.977188 CACAGTCATTGCATGTGCTG 58.023 50.000 4.56 11.48 42.66 4.41
359 411 1.269413 ACAAAGCTGCACAGTCATTGC 60.269 47.619 1.02 0.00 40.63 3.56
361 413 2.026641 ACACAAAGCTGCACAGTCATT 58.973 42.857 1.02 0.00 0.00 2.57
362 414 1.335810 CACACAAAGCTGCACAGTCAT 59.664 47.619 1.02 0.00 0.00 3.06
363 415 0.734309 CACACAAAGCTGCACAGTCA 59.266 50.000 1.02 0.00 0.00 3.41
364 416 0.593263 GCACACAAAGCTGCACAGTC 60.593 55.000 1.02 0.00 33.31 3.51
365 417 1.434696 GCACACAAAGCTGCACAGT 59.565 52.632 1.02 0.00 33.31 3.55
366 418 1.656263 CGCACACAAAGCTGCACAG 60.656 57.895 1.02 0.00 32.57 3.66
367 419 2.408428 CGCACACAAAGCTGCACA 59.592 55.556 1.02 0.00 32.57 4.57
368 420 3.026311 GCGCACACAAAGCTGCAC 61.026 61.111 0.30 0.00 32.57 4.57
370 422 2.049802 ATGCGCACACAAAGCTGC 60.050 55.556 14.90 0.00 34.04 5.25
374 600 1.081242 GACCCATGCGCACACAAAG 60.081 57.895 14.90 0.51 0.00 2.77
409 635 4.715523 ATGTTGGGTCCGGGCACG 62.716 66.667 9.07 0.00 40.55 5.34
410 636 2.750237 GATGTTGGGTCCGGGCAC 60.750 66.667 9.07 4.00 0.00 5.01
411 637 4.402528 CGATGTTGGGTCCGGGCA 62.403 66.667 9.07 0.00 0.00 5.36
412 638 3.615509 TTCGATGTTGGGTCCGGGC 62.616 63.158 0.00 0.00 0.00 6.13
413 639 1.003112 TTTCGATGTTGGGTCCGGG 60.003 57.895 0.00 0.00 0.00 5.73
414 640 1.644786 GCTTTCGATGTTGGGTCCGG 61.645 60.000 0.00 0.00 0.00 5.14
415 641 0.953471 TGCTTTCGATGTTGGGTCCG 60.953 55.000 0.00 0.00 0.00 4.79
416 642 0.521735 GTGCTTTCGATGTTGGGTCC 59.478 55.000 0.00 0.00 0.00 4.46
417 643 0.165944 CGTGCTTTCGATGTTGGGTC 59.834 55.000 0.00 0.00 0.00 4.46
418 644 1.234615 CCGTGCTTTCGATGTTGGGT 61.235 55.000 0.00 0.00 0.00 4.51
419 645 1.501741 CCGTGCTTTCGATGTTGGG 59.498 57.895 0.00 0.00 0.00 4.12
420 646 1.501741 CCCGTGCTTTCGATGTTGG 59.498 57.895 0.00 0.00 0.00 3.77
421 647 1.234615 ACCCCGTGCTTTCGATGTTG 61.235 55.000 0.00 0.00 0.00 3.33
422 648 0.953960 GACCCCGTGCTTTCGATGTT 60.954 55.000 0.00 0.00 0.00 2.71
423 649 1.375523 GACCCCGTGCTTTCGATGT 60.376 57.895 0.00 0.00 0.00 3.06
424 650 0.673644 AAGACCCCGTGCTTTCGATG 60.674 55.000 0.00 0.00 0.00 3.84
425 651 0.036306 AAAGACCCCGTGCTTTCGAT 59.964 50.000 0.00 0.00 28.73 3.59
439 665 0.107945 ATCAGGCGCAGGAGAAAGAC 60.108 55.000 10.83 0.00 0.00 3.01
445 671 0.674581 TTGACAATCAGGCGCAGGAG 60.675 55.000 10.83 0.00 0.00 3.69
503 729 1.895798 CACTAACCACAGAGGCAGAGA 59.104 52.381 0.00 0.00 43.14 3.10
590 823 0.667993 CTGGCAGTTGGCGAAAGAAA 59.332 50.000 6.28 0.00 46.16 2.52
611 844 0.593128 CGTTTATATGGCTGGCTGGC 59.407 55.000 11.09 11.09 42.18 4.85
612 845 0.593128 GCGTTTATATGGCTGGCTGG 59.407 55.000 2.00 0.00 0.00 4.85
613 846 0.235665 CGCGTTTATATGGCTGGCTG 59.764 55.000 0.00 0.00 0.00 4.85
614 847 0.105964 TCGCGTTTATATGGCTGGCT 59.894 50.000 5.77 0.00 0.00 4.75
618 851 2.743938 CAGTCTCGCGTTTATATGGCT 58.256 47.619 5.77 0.00 0.00 4.75
619 852 1.192534 GCAGTCTCGCGTTTATATGGC 59.807 52.381 5.77 0.00 0.00 4.40
627 860 2.357517 CCCTTGCAGTCTCGCGTT 60.358 61.111 5.77 0.00 33.35 4.84
662 913 3.537297 GAGACTGAACGCTCGCGC 61.537 66.667 11.65 0.00 44.19 6.86
687 938 4.100084 TCTGGGGATGCACAGCGG 62.100 66.667 12.35 0.00 34.76 5.52
688 939 2.821366 GTCTGGGGATGCACAGCG 60.821 66.667 12.35 0.00 34.76 5.18
689 940 2.042831 GTGTCTGGGGATGCACAGC 61.043 63.158 12.35 7.74 34.76 4.40
690 941 1.742880 CGTGTCTGGGGATGCACAG 60.743 63.158 10.77 10.77 36.07 3.66
691 942 2.347114 CGTGTCTGGGGATGCACA 59.653 61.111 0.00 0.00 32.62 4.57
704 955 0.108585 ATCAGAGGTTTGGCACGTGT 59.891 50.000 18.38 0.00 0.00 4.49
707 958 1.742761 ATCATCAGAGGTTTGGCACG 58.257 50.000 0.00 0.00 0.00 5.34
710 961 2.620585 GCCTAATCATCAGAGGTTTGGC 59.379 50.000 0.00 0.00 32.53 4.52
714 965 4.686191 CTCTGCCTAATCATCAGAGGTT 57.314 45.455 9.85 0.00 46.04 3.50
740 991 3.072476 ACGGAGTTTTCCATTTCTCCTCA 59.928 43.478 8.16 0.00 44.26 3.86
777 1034 0.965363 CGGGGATTGGGTTTCACAGG 60.965 60.000 0.00 0.00 0.00 4.00
778 1035 1.595093 GCGGGGATTGGGTTTCACAG 61.595 60.000 0.00 0.00 0.00 3.66
779 1036 1.605165 GCGGGGATTGGGTTTCACA 60.605 57.895 0.00 0.00 0.00 3.58
786 1043 3.521529 CTCGCTAGCGGGGATTGGG 62.522 68.421 34.76 12.22 40.25 4.12
844 1112 4.170062 CCGATGGCGCAACAGCTG 62.170 66.667 13.48 13.48 37.29 4.24
845 1113 4.704833 ACCGATGGCGCAACAGCT 62.705 61.111 10.83 0.00 37.29 4.24
1214 1528 3.452786 CTCGCTTCTCCTCGGCCA 61.453 66.667 2.24 0.00 0.00 5.36
1263 1577 2.737376 GCCGTGAACCTGACGACC 60.737 66.667 0.00 0.00 39.21 4.79
1501 1815 4.060038 GTCCCGACGGCGAAAGGA 62.060 66.667 15.16 7.92 40.82 3.36
1585 1905 4.803426 GGACCAGGTCTCGCGCTG 62.803 72.222 19.57 2.29 32.47 5.18
1897 2246 3.548818 GGAGCGGATTTACACGTACGTAT 60.549 47.826 22.34 13.50 0.00 3.06
1943 2292 4.845447 ACCGCCATGCCATGCCAT 62.845 61.111 0.00 0.00 0.00 4.40
1947 2296 3.576356 GTCGACCGCCATGCCATG 61.576 66.667 3.51 0.00 0.00 3.66
1948 2297 3.740128 GAGTCGACCGCCATGCCAT 62.740 63.158 13.01 0.00 0.00 4.40
1949 2298 4.451150 GAGTCGACCGCCATGCCA 62.451 66.667 13.01 0.00 0.00 4.92
1950 2299 2.292794 TTAGAGTCGACCGCCATGCC 62.293 60.000 13.01 0.00 0.00 4.40
1951 2300 0.249489 ATTAGAGTCGACCGCCATGC 60.249 55.000 13.01 0.00 0.00 4.06
1952 2301 2.225068 AATTAGAGTCGACCGCCATG 57.775 50.000 13.01 0.00 0.00 3.66
2058 2408 0.508641 CCACGAAAAGTCTGCACTCG 59.491 55.000 0.00 0.00 29.93 4.18
2075 2425 2.039216 TGTTCAAAATACCGAGCTCCCA 59.961 45.455 8.47 0.00 0.00 4.37
2133 2488 9.877178 AAAACTGTAACACATAACCATGAAAAA 57.123 25.926 0.00 0.00 35.96 1.94
2134 2489 9.307121 CAAAACTGTAACACATAACCATGAAAA 57.693 29.630 0.00 0.00 35.96 2.29
2135 2490 7.436673 GCAAAACTGTAACACATAACCATGAAA 59.563 33.333 0.00 0.00 35.96 2.69
2136 2491 6.920758 GCAAAACTGTAACACATAACCATGAA 59.079 34.615 0.00 0.00 35.96 2.57
2138 2493 6.446318 AGCAAAACTGTAACACATAACCATG 58.554 36.000 0.00 0.00 38.21 3.66
2139 2494 6.648879 AGCAAAACTGTAACACATAACCAT 57.351 33.333 0.00 0.00 0.00 3.55
2140 2495 6.993308 TCTAGCAAAACTGTAACACATAACCA 59.007 34.615 0.00 0.00 0.00 3.67
2141 2496 7.429636 TCTAGCAAAACTGTAACACATAACC 57.570 36.000 0.00 0.00 0.00 2.85
2142 2497 8.557029 AGTTCTAGCAAAACTGTAACACATAAC 58.443 33.333 0.00 0.00 35.68 1.89
2143 2498 8.671384 AGTTCTAGCAAAACTGTAACACATAA 57.329 30.769 0.00 0.00 35.68 1.90
2144 2499 7.929245 TGAGTTCTAGCAAAACTGTAACACATA 59.071 33.333 0.32 0.00 37.10 2.29
2145 2500 6.765989 TGAGTTCTAGCAAAACTGTAACACAT 59.234 34.615 0.32 0.00 37.10 3.21
2146 2501 6.110033 TGAGTTCTAGCAAAACTGTAACACA 58.890 36.000 0.32 0.00 37.10 3.72
2147 2502 6.598753 TGAGTTCTAGCAAAACTGTAACAC 57.401 37.500 0.32 0.00 37.10 3.32
2148 2503 7.217200 AGATGAGTTCTAGCAAAACTGTAACA 58.783 34.615 0.32 0.00 37.10 2.41
2149 2504 7.659652 AGATGAGTTCTAGCAAAACTGTAAC 57.340 36.000 0.32 0.00 37.10 2.50
2150 2505 8.988064 CTAGATGAGTTCTAGCAAAACTGTAA 57.012 34.615 0.32 0.00 45.63 2.41
2178 2533 9.566432 AAGGTGAATGAGACCAAATTATATCTC 57.434 33.333 0.00 6.03 38.46 2.75
2179 2534 9.927081 AAAGGTGAATGAGACCAAATTATATCT 57.073 29.630 0.00 0.00 35.76 1.98
2183 2538 9.308000 TGTAAAAGGTGAATGAGACCAAATTAT 57.692 29.630 0.00 0.00 35.76 1.28
2184 2539 8.698973 TGTAAAAGGTGAATGAGACCAAATTA 57.301 30.769 0.00 0.00 35.76 1.40
2185 2540 7.287696 ACTGTAAAAGGTGAATGAGACCAAATT 59.712 33.333 0.00 0.00 35.76 1.82
2186 2541 6.777580 ACTGTAAAAGGTGAATGAGACCAAAT 59.222 34.615 0.00 0.00 35.76 2.32
2187 2542 6.126409 ACTGTAAAAGGTGAATGAGACCAAA 58.874 36.000 0.00 0.00 35.76 3.28
2188 2543 5.690865 ACTGTAAAAGGTGAATGAGACCAA 58.309 37.500 0.00 0.00 35.76 3.67
2189 2544 5.163248 TGACTGTAAAAGGTGAATGAGACCA 60.163 40.000 0.00 0.00 35.76 4.02
2190 2545 5.305585 TGACTGTAAAAGGTGAATGAGACC 58.694 41.667 0.00 0.00 0.00 3.85
2191 2546 7.301054 CAATGACTGTAAAAGGTGAATGAGAC 58.699 38.462 0.00 0.00 0.00 3.36
2192 2547 6.430925 CCAATGACTGTAAAAGGTGAATGAGA 59.569 38.462 0.00 0.00 0.00 3.27
2193 2548 6.430925 TCCAATGACTGTAAAAGGTGAATGAG 59.569 38.462 0.00 0.00 0.00 2.90
2194 2549 6.303054 TCCAATGACTGTAAAAGGTGAATGA 58.697 36.000 0.00 0.00 0.00 2.57
2195 2550 6.573664 TCCAATGACTGTAAAAGGTGAATG 57.426 37.500 0.00 0.00 0.00 2.67
2196 2551 6.721208 ACATCCAATGACTGTAAAAGGTGAAT 59.279 34.615 0.00 0.00 0.00 2.57
2197 2552 6.016360 CACATCCAATGACTGTAAAAGGTGAA 60.016 38.462 0.00 0.00 0.00 3.18
2198 2553 5.473162 CACATCCAATGACTGTAAAAGGTGA 59.527 40.000 0.00 0.00 0.00 4.02
2199 2554 5.473162 TCACATCCAATGACTGTAAAAGGTG 59.527 40.000 0.00 0.00 0.00 4.00
2200 2555 5.630121 TCACATCCAATGACTGTAAAAGGT 58.370 37.500 0.00 0.00 0.00 3.50
2201 2556 6.558009 CATCACATCCAATGACTGTAAAAGG 58.442 40.000 0.00 0.00 0.00 3.11
2202 2557 6.032094 GCATCACATCCAATGACTGTAAAAG 58.968 40.000 0.00 0.00 0.00 2.27
2203 2558 5.711506 AGCATCACATCCAATGACTGTAAAA 59.288 36.000 0.00 0.00 0.00 1.52
2204 2559 5.255687 AGCATCACATCCAATGACTGTAAA 58.744 37.500 0.00 0.00 0.00 2.01
2205 2560 4.847198 AGCATCACATCCAATGACTGTAA 58.153 39.130 0.00 0.00 0.00 2.41
2206 2561 4.492494 AGCATCACATCCAATGACTGTA 57.508 40.909 0.00 0.00 0.00 2.74
2207 2562 3.361281 AGCATCACATCCAATGACTGT 57.639 42.857 0.00 0.00 0.00 3.55
2208 2563 6.932960 TCTTATAGCATCACATCCAATGACTG 59.067 38.462 0.00 0.00 0.00 3.51
2209 2564 7.071069 TCTTATAGCATCACATCCAATGACT 57.929 36.000 0.00 0.00 0.00 3.41
2210 2565 7.625817 GCATCTTATAGCATCACATCCAATGAC 60.626 40.741 0.00 0.00 0.00 3.06
2211 2566 6.373495 GCATCTTATAGCATCACATCCAATGA 59.627 38.462 0.00 0.00 0.00 2.57
2212 2567 6.552629 GCATCTTATAGCATCACATCCAATG 58.447 40.000 0.00 0.00 0.00 2.82
2213 2568 5.353400 CGCATCTTATAGCATCACATCCAAT 59.647 40.000 0.00 0.00 0.00 3.16
2214 2569 4.692155 CGCATCTTATAGCATCACATCCAA 59.308 41.667 0.00 0.00 0.00 3.53
2215 2570 4.248058 CGCATCTTATAGCATCACATCCA 58.752 43.478 0.00 0.00 0.00 3.41
2216 2571 4.092529 CACGCATCTTATAGCATCACATCC 59.907 45.833 0.00 0.00 0.00 3.51
2217 2572 4.687948 ACACGCATCTTATAGCATCACATC 59.312 41.667 0.00 0.00 0.00 3.06
2218 2573 4.450080 CACACGCATCTTATAGCATCACAT 59.550 41.667 0.00 0.00 0.00 3.21
2219 2574 3.803778 CACACGCATCTTATAGCATCACA 59.196 43.478 0.00 0.00 0.00 3.58
2220 2575 3.804325 ACACACGCATCTTATAGCATCAC 59.196 43.478 0.00 0.00 0.00 3.06
2221 2576 3.803778 CACACACGCATCTTATAGCATCA 59.196 43.478 0.00 0.00 0.00 3.07
2222 2577 3.363378 GCACACACGCATCTTATAGCATC 60.363 47.826 0.00 0.00 0.00 3.91
2223 2578 2.545526 GCACACACGCATCTTATAGCAT 59.454 45.455 0.00 0.00 0.00 3.79
2224 2579 1.933181 GCACACACGCATCTTATAGCA 59.067 47.619 0.00 0.00 0.00 3.49
2225 2580 2.033407 CAGCACACACGCATCTTATAGC 60.033 50.000 0.00 0.00 0.00 2.97
2226 2581 3.243877 GTCAGCACACACGCATCTTATAG 59.756 47.826 0.00 0.00 0.00 1.31
2227 2582 3.186909 GTCAGCACACACGCATCTTATA 58.813 45.455 0.00 0.00 0.00 0.98
2228 2583 2.002586 GTCAGCACACACGCATCTTAT 58.997 47.619 0.00 0.00 0.00 1.73
2229 2584 1.428448 GTCAGCACACACGCATCTTA 58.572 50.000 0.00 0.00 0.00 2.10
2230 2585 1.560004 CGTCAGCACACACGCATCTT 61.560 55.000 0.00 0.00 0.00 2.40
2231 2586 2.023771 CGTCAGCACACACGCATCT 61.024 57.895 0.00 0.00 0.00 2.90
2232 2587 2.310233 ACGTCAGCACACACGCATC 61.310 57.895 0.00 0.00 39.73 3.91
2233 2588 2.280119 ACGTCAGCACACACGCAT 60.280 55.556 0.00 0.00 39.73 4.73
2234 2589 3.261216 CACGTCAGCACACACGCA 61.261 61.111 0.00 0.00 39.73 5.24
2235 2590 4.000557 CCACGTCAGCACACACGC 62.001 66.667 0.00 0.00 39.73 5.34
2236 2591 3.337889 CCCACGTCAGCACACACG 61.338 66.667 0.00 0.00 41.90 4.49
2237 2592 1.817941 AACCCACGTCAGCACACAC 60.818 57.895 0.00 0.00 0.00 3.82
2238 2593 1.817520 CAACCCACGTCAGCACACA 60.818 57.895 0.00 0.00 0.00 3.72
2239 2594 0.531090 TACAACCCACGTCAGCACAC 60.531 55.000 0.00 0.00 0.00 3.82
2240 2595 0.394938 ATACAACCCACGTCAGCACA 59.605 50.000 0.00 0.00 0.00 4.57
2241 2596 1.519408 AATACAACCCACGTCAGCAC 58.481 50.000 0.00 0.00 0.00 4.40
2242 2597 1.876799 CAAATACAACCCACGTCAGCA 59.123 47.619 0.00 0.00 0.00 4.41
2243 2598 1.877443 ACAAATACAACCCACGTCAGC 59.123 47.619 0.00 0.00 0.00 4.26
2244 2599 3.813166 AGAACAAATACAACCCACGTCAG 59.187 43.478 0.00 0.00 0.00 3.51
2245 2600 3.811083 AGAACAAATACAACCCACGTCA 58.189 40.909 0.00 0.00 0.00 4.35
2246 2601 4.035909 ACAAGAACAAATACAACCCACGTC 59.964 41.667 0.00 0.00 0.00 4.34
2247 2602 3.949113 ACAAGAACAAATACAACCCACGT 59.051 39.130 0.00 0.00 0.00 4.49
2248 2603 4.561735 ACAAGAACAAATACAACCCACG 57.438 40.909 0.00 0.00 0.00 4.94
2249 2604 6.814146 TGAAAACAAGAACAAATACAACCCAC 59.186 34.615 0.00 0.00 0.00 4.61
2250 2605 6.936279 TGAAAACAAGAACAAATACAACCCA 58.064 32.000 0.00 0.00 0.00 4.51
2251 2606 7.835634 TTGAAAACAAGAACAAATACAACCC 57.164 32.000 0.00 0.00 0.00 4.11
2252 2607 8.931775 ACTTTGAAAACAAGAACAAATACAACC 58.068 29.630 0.00 0.00 33.01 3.77
2253 2608 9.739786 CACTTTGAAAACAAGAACAAATACAAC 57.260 29.630 0.00 0.00 33.01 3.32
2254 2609 9.698309 TCACTTTGAAAACAAGAACAAATACAA 57.302 25.926 0.00 0.00 33.01 2.41
2255 2610 9.698309 TTCACTTTGAAAACAAGAACAAATACA 57.302 25.926 0.00 0.00 32.71 2.29
2258 2613 9.434420 TCATTCACTTTGAAAACAAGAACAAAT 57.566 25.926 0.00 0.00 40.12 2.32
2259 2614 8.824159 TCATTCACTTTGAAAACAAGAACAAA 57.176 26.923 0.00 0.00 40.12 2.83
2260 2615 8.303156 TCTCATTCACTTTGAAAACAAGAACAA 58.697 29.630 0.00 0.00 40.12 2.83
2261 2616 7.754924 GTCTCATTCACTTTGAAAACAAGAACA 59.245 33.333 0.00 0.00 40.12 3.18
2262 2617 7.220875 GGTCTCATTCACTTTGAAAACAAGAAC 59.779 37.037 0.00 0.00 40.12 3.01
2263 2618 7.093988 TGGTCTCATTCACTTTGAAAACAAGAA 60.094 33.333 0.00 0.00 40.12 2.52
2264 2619 6.376864 TGGTCTCATTCACTTTGAAAACAAGA 59.623 34.615 0.00 0.00 40.12 3.02
2265 2620 6.563422 TGGTCTCATTCACTTTGAAAACAAG 58.437 36.000 0.00 0.00 40.12 3.16
2266 2621 6.522625 TGGTCTCATTCACTTTGAAAACAA 57.477 33.333 0.00 0.00 40.12 2.83
2267 2622 6.522625 TTGGTCTCATTCACTTTGAAAACA 57.477 33.333 0.00 0.00 40.12 2.83
2268 2623 8.424274 AATTTGGTCTCATTCACTTTGAAAAC 57.576 30.769 0.00 0.00 40.12 2.43
2317 2672 4.682778 TGCATAACACATAGGGAGTACC 57.317 45.455 0.00 0.00 40.67 3.34
2399 2754 6.127675 AAATGCATATTTTCAAAATGGGCACC 60.128 34.615 19.49 0.36 40.73 5.01
2400 2755 6.439675 AATGCATATTTTCAAAATGGGCAC 57.560 33.333 19.49 2.29 0.00 5.01
2484 2922 2.816337 GCTCGAGCTATAGGGAGGTCTT 60.816 54.545 29.88 0.00 40.97 3.01
2485 2923 1.271707 GCTCGAGCTATAGGGAGGTCT 60.272 57.143 29.88 0.00 40.97 3.85
2488 2926 1.928706 GCGCTCGAGCTATAGGGAGG 61.929 65.000 32.88 16.20 39.32 4.30
2544 2982 0.981943 CTACCCGTTGTTTCTCCCCT 59.018 55.000 0.00 0.00 0.00 4.79
2571 3012 6.368243 TCATAGCTACGATGCTACAGTAGTAC 59.632 42.308 14.11 0.00 46.60 2.73
2587 3028 3.206150 CAACCACACCCATCATAGCTAC 58.794 50.000 0.00 0.00 0.00 3.58
2596 3037 2.597217 CCGCACAACCACACCCAT 60.597 61.111 0.00 0.00 0.00 4.00
2614 3055 0.597118 GGCCACAACACGTACGTACA 60.597 55.000 22.34 0.00 0.00 2.90
2707 3148 0.763035 ACCCTCCAACTGTAAAGCGT 59.237 50.000 0.00 0.00 0.00 5.07
2710 3151 3.347216 CATCCACCCTCCAACTGTAAAG 58.653 50.000 0.00 0.00 0.00 1.85


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

AutoCloner maintained by Alex Coulton.