Multiple sequence alignment - TraesCS2A01G530400

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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 TraesCS2A01G530400 chr2A 100.000 2766 0 0 1 2766 748220092 748222857 0.000000e+00 5108.0
1 TraesCS2A01G530400 chr2A 91.028 1148 94 8 882 2023 748438973 748440117 0.000000e+00 1541.0
2 TraesCS2A01G530400 chr2A 89.442 1146 113 7 882 2023 748401360 748402501 0.000000e+00 1439.0
3 TraesCS2A01G530400 chr2A 94.457 920 48 3 882 1801 746621811 746622727 0.000000e+00 1413.0
4 TraesCS2A01G530400 chr2A 91.317 1002 84 3 882 1883 748286564 748287562 0.000000e+00 1365.0
5 TraesCS2A01G530400 chr2A 85.109 732 84 15 1 714 56411809 56412533 0.000000e+00 725.0
6 TraesCS2A01G530400 chr2A 82.329 498 72 8 402 885 56412524 56413019 4.260000e-113 418.0
7 TraesCS2A01G530400 chr2A 95.288 191 5 1 2457 2647 748463881 748463695 1.610000e-77 300.0
8 TraesCS2A01G530400 chr2A 93.023 129 4 2 2525 2653 746623626 746623749 1.690000e-42 183.0
9 TraesCS2A01G530400 chr2A 93.023 129 4 2 2525 2653 748451933 748451810 1.690000e-42 183.0
10 TraesCS2A01G530400 chr2A 89.474 133 8 3 2459 2589 748288468 748288596 2.200000e-36 163.0
11 TraesCS2A01G530400 chr2A 95.238 63 2 1 2454 2515 748211110 748211172 6.300000e-17 99.0
12 TraesCS2A01G530400 chr2A 91.429 70 5 1 2584 2653 748288652 748288720 8.160000e-16 95.3
13 TraesCS2A01G530400 chr2D 92.328 1147 80 6 882 2023 617547872 617549015 0.000000e+00 1624.0
14 TraesCS2A01G530400 chr2D 90.663 1146 100 6 882 2023 617888727 617889869 0.000000e+00 1517.0
15 TraesCS2A01G530400 chr2D 89.956 1145 90 9 882 2023 617732323 617733445 0.000000e+00 1454.0
16 TraesCS2A01G530400 chr2D 93.791 918 54 3 882 1799 617761529 617762443 0.000000e+00 1376.0
17 TraesCS2A01G530400 chr2D 93.478 920 59 1 882 1801 617540259 617541177 0.000000e+00 1365.0
18 TraesCS2A01G530400 chr2D 87.866 1162 107 16 882 2013 617908360 617907203 0.000000e+00 1334.0
19 TraesCS2A01G530400 chr2D 98.500 200 3 0 2454 2653 617541441 617541640 1.220000e-93 353.0
20 TraesCS2A01G530400 chr2D 95.531 179 2 2 2154 2332 617541430 617541258 5.830000e-72 281.0
21 TraesCS2A01G530400 chr2D 96.899 129 3 1 2525 2653 617902048 617901921 6.000000e-52 215.0
22 TraesCS2A01G530400 chr2D 96.040 101 3 1 2667 2766 617541750 617541850 2.200000e-36 163.0
23 TraesCS2A01G530400 chr2D 94.737 95 5 0 2457 2551 617763361 617763455 6.170000e-32 148.0
24 TraesCS2A01G530400 chr2D 97.101 69 2 0 2623 2691 617763463 617763531 1.740000e-22 117.0
25 TraesCS2A01G530400 chr2D 89.773 88 8 1 2454 2540 617637228 617637315 8.100000e-21 111.0
26 TraesCS2A01G530400 chr2D 88.136 59 4 2 2155 2213 617906641 617906586 1.780000e-07 67.6
27 TraesCS2A01G530400 chr5A 97.987 894 8 3 1 885 476098040 476097148 0.000000e+00 1543.0
28 TraesCS2A01G530400 chr5A 94.783 460 12 6 72 525 564224860 564224407 0.000000e+00 706.0
29 TraesCS2A01G530400 chr5A 96.296 324 11 1 563 885 564224410 564224087 5.250000e-147 531.0
30 TraesCS2A01G530400 chr2B 90.671 1147 97 8 882 2023 753807215 753806074 0.000000e+00 1517.0
31 TraesCS2A01G530400 chr2B 96.089 895 24 4 1 885 286513973 286513080 0.000000e+00 1448.0
32 TraesCS2A01G530400 chr2B 93.464 918 57 3 882 1799 753794231 753795145 0.000000e+00 1360.0
33 TraesCS2A01G530400 chr2B 93.401 197 9 2 2457 2653 753933822 753933630 3.490000e-74 289.0
34 TraesCS2A01G530400 chr2B 90.500 200 14 2 2454 2653 753796047 753796241 2.730000e-65 259.0
35 TraesCS2A01G530400 chr2B 94.286 70 4 0 2584 2653 753788568 753788637 1.050000e-19 108.0
36 TraesCS2A01G530400 chr4A 96.309 894 9 4 1 885 32630350 32631228 0.000000e+00 1447.0
37 TraesCS2A01G530400 chr4A 85.109 732 84 15 1 714 546381225 546380501 0.000000e+00 725.0
38 TraesCS2A01G530400 chr4A 85.229 677 80 12 1 662 477897170 477896499 0.000000e+00 678.0
39 TraesCS2A01G530400 chr4A 82.766 499 68 10 402 885 477896454 477895959 1.970000e-116 429.0
40 TraesCS2A01G530400 chr4A 82.530 498 71 8 402 885 546380510 546380015 9.160000e-115 424.0
41 TraesCS2A01G530400 chr3B 92.786 901 36 8 1 885 568416662 568415775 0.000000e+00 1277.0
42 TraesCS2A01G530400 chr7B 92.771 498 35 1 882 1379 726151724 726152220 0.000000e+00 719.0
43 TraesCS2A01G530400 chr7B 85.968 677 75 11 1 663 630158927 630159597 0.000000e+00 706.0
44 TraesCS2A01G530400 chr7B 82.731 498 70 8 402 885 630159641 630160136 1.970000e-116 429.0
45 TraesCS2A01G530400 chr5B 86.787 333 36 6 558 885 462317753 462317424 5.630000e-97 364.0
46 TraesCS2A01G530400 chr7A 86.322 329 44 1 558 885 462306167 462306495 9.420000e-95 357.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2A01G530400 chr2A 748220092 748222857 2765 False 5108.0 5108 100.000000 1 2766 1 chr2A.!!$F2 2765
1 TraesCS2A01G530400 chr2A 748438973 748440117 1144 False 1541.0 1541 91.028000 882 2023 1 chr2A.!!$F4 1141
2 TraesCS2A01G530400 chr2A 748401360 748402501 1141 False 1439.0 1439 89.442000 882 2023 1 chr2A.!!$F3 1141
3 TraesCS2A01G530400 chr2A 746621811 746623749 1938 False 798.0 1413 93.740000 882 2653 2 chr2A.!!$F6 1771
4 TraesCS2A01G530400 chr2A 56411809 56413019 1210 False 571.5 725 83.719000 1 885 2 chr2A.!!$F5 884
5 TraesCS2A01G530400 chr2A 748286564 748288720 2156 False 541.1 1365 90.740000 882 2653 3 chr2A.!!$F7 1771
6 TraesCS2A01G530400 chr2D 617547872 617549015 1143 False 1624.0 1624 92.328000 882 2023 1 chr2D.!!$F1 1141
7 TraesCS2A01G530400 chr2D 617888727 617889869 1142 False 1517.0 1517 90.663000 882 2023 1 chr2D.!!$F4 1141
8 TraesCS2A01G530400 chr2D 617732323 617733445 1122 False 1454.0 1454 89.956000 882 2023 1 chr2D.!!$F3 1141
9 TraesCS2A01G530400 chr2D 617906586 617908360 1774 True 700.8 1334 88.001000 882 2213 2 chr2D.!!$R3 1331
10 TraesCS2A01G530400 chr2D 617540259 617541850 1591 False 627.0 1365 96.006000 882 2766 3 chr2D.!!$F5 1884
11 TraesCS2A01G530400 chr2D 617761529 617763531 2002 False 547.0 1376 95.209667 882 2691 3 chr2D.!!$F6 1809
12 TraesCS2A01G530400 chr5A 476097148 476098040 892 True 1543.0 1543 97.987000 1 885 1 chr5A.!!$R1 884
13 TraesCS2A01G530400 chr5A 564224087 564224860 773 True 618.5 706 95.539500 72 885 2 chr5A.!!$R2 813
14 TraesCS2A01G530400 chr2B 753806074 753807215 1141 True 1517.0 1517 90.671000 882 2023 1 chr2B.!!$R2 1141
15 TraesCS2A01G530400 chr2B 286513080 286513973 893 True 1448.0 1448 96.089000 1 885 1 chr2B.!!$R1 884
16 TraesCS2A01G530400 chr2B 753794231 753796241 2010 False 809.5 1360 91.982000 882 2653 2 chr2B.!!$F2 1771
17 TraesCS2A01G530400 chr4A 32630350 32631228 878 False 1447.0 1447 96.309000 1 885 1 chr4A.!!$F1 884
18 TraesCS2A01G530400 chr4A 546380015 546381225 1210 True 574.5 725 83.819500 1 885 2 chr4A.!!$R2 884
19 TraesCS2A01G530400 chr4A 477895959 477897170 1211 True 553.5 678 83.997500 1 885 2 chr4A.!!$R1 884
20 TraesCS2A01G530400 chr3B 568415775 568416662 887 True 1277.0 1277 92.786000 1 885 1 chr3B.!!$R1 884
21 TraesCS2A01G530400 chr7B 630158927 630160136 1209 False 567.5 706 84.349500 1 885 2 chr7B.!!$F2 884

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
982 1634 1.676967 GGCAAGGTGGAGGAAGCAG 60.677 63.158 0.0 0.0 0.0 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2242 3610 0.11714 TGATGAGGAGGGTGGTGACT 59.883 55.0 0.0 0.0 0.0 3.41 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
404 415 2.903784 CCATATGTTGGTCTCCCCGATA 59.096 50.000 1.24 0.00 40.99 2.92
805 1456 3.780626 AGGGAGTACTACTGCTTCAAGT 58.219 45.455 4.77 0.00 36.73 3.16
940 1591 7.040201 GGCCTGATGTGATTATGTACAATTCAT 60.040 37.037 0.00 0.00 0.00 2.57
982 1634 1.676967 GGCAAGGTGGAGGAAGCAG 60.677 63.158 0.00 0.00 0.00 4.24
1027 1679 0.252513 TGCTGGCCTCCAACCTACTA 60.253 55.000 3.32 0.00 30.80 1.82
1187 1839 2.260844 TGCTCTGGGAGAACAGTTTG 57.739 50.000 0.00 0.00 39.48 2.93
1312 1964 4.005650 TGAAGCAATAGAGCTGTTCAAGG 58.994 43.478 0.00 0.00 45.89 3.61
1325 1977 4.153475 GCTGTTCAAGGAATTACGTGCTAA 59.847 41.667 0.00 0.00 0.00 3.09
1347 1999 7.848051 GCTAAGAACGTGAAGATTAATGTCATG 59.152 37.037 13.07 13.07 34.97 3.07
1446 2098 1.767654 GCCATTGGGTTGGTGCCTTT 61.768 55.000 4.53 0.00 39.11 3.11
1588 2240 1.764571 AAGTGGTCAGGGCGTTGCTA 61.765 55.000 0.00 0.00 0.00 3.49
1595 2247 2.488153 GTCAGGGCGTTGCTAGAAAAAT 59.512 45.455 0.00 0.00 0.00 1.82
1733 2385 2.604969 GCACGTAAAATTGCTTCCGA 57.395 45.000 0.00 0.00 35.74 4.55
1735 2387 2.845967 GCACGTAAAATTGCTTCCGATG 59.154 45.455 0.00 0.00 35.74 3.84
1750 2402 0.249073 CGATGAAGTACCAGCCTCCG 60.249 60.000 0.00 0.00 0.00 4.63
1761 2413 1.682684 AGCCTCCGGAGATGTTCGT 60.683 57.895 33.39 5.72 0.00 3.85
1801 2453 9.877178 CAGTATTACTTGAAACTTCCTACTGAT 57.123 33.333 0.00 0.00 37.02 2.90
1802 2454 9.877178 AGTATTACTTGAAACTTCCTACTGATG 57.123 33.333 0.00 0.00 0.00 3.07
1803 2455 9.654663 GTATTACTTGAAACTTCCTACTGATGT 57.345 33.333 0.00 0.00 33.05 3.06
1806 2458 7.964604 ACTTGAAACTTCCTACTGATGTTAC 57.035 36.000 0.00 0.00 39.64 2.50
1807 2459 7.736893 ACTTGAAACTTCCTACTGATGTTACT 58.263 34.615 0.00 0.00 39.64 2.24
1808 2460 8.211629 ACTTGAAACTTCCTACTGATGTTACTT 58.788 33.333 0.00 0.00 39.64 2.24
1889 2546 7.724305 AATGCAGATAATTCATCCATTTTGC 57.276 32.000 0.00 0.00 33.75 3.68
2027 2726 9.176181 GTTTTGTTATGTCACACATTTAATCGT 57.824 29.630 0.00 0.00 39.88 3.73
2035 2734 9.906660 ATGTCACACATTTAATCGTTTATGTTT 57.093 25.926 0.00 0.00 34.67 2.83
2036 2735 9.737427 TGTCACACATTTAATCGTTTATGTTTT 57.263 25.926 0.00 0.00 0.00 2.43
2062 2827 2.356278 TGCCCCAGCATGAAGGAC 59.644 61.111 0.00 0.00 46.52 3.85
2063 2828 2.440980 GCCCCAGCATGAAGGACC 60.441 66.667 0.00 0.00 39.69 4.46
2064 2829 3.089838 CCCCAGCATGAAGGACCA 58.910 61.111 0.00 0.00 39.69 4.02
2065 2830 1.077212 CCCCAGCATGAAGGACCAG 60.077 63.158 0.00 0.00 39.69 4.00
2067 2832 0.679002 CCCAGCATGAAGGACCAGTG 60.679 60.000 0.00 0.00 39.69 3.66
2068 2833 0.037303 CCAGCATGAAGGACCAGTGT 59.963 55.000 0.00 0.00 39.69 3.55
2069 2834 1.546323 CCAGCATGAAGGACCAGTGTT 60.546 52.381 0.00 0.00 39.69 3.32
2071 2836 1.143684 AGCATGAAGGACCAGTGTTGT 59.856 47.619 0.00 0.00 0.00 3.32
2072 2837 1.267806 GCATGAAGGACCAGTGTTGTG 59.732 52.381 0.00 0.00 0.00 3.33
2073 2838 1.267806 CATGAAGGACCAGTGTTGTGC 59.732 52.381 0.00 0.00 0.00 4.57
2078 2843 2.896801 GACCAGTGTTGTGCTGCCG 61.897 63.158 0.00 0.00 32.93 5.69
2080 2845 3.282157 CAGTGTTGTGCTGCCGCT 61.282 61.111 0.70 0.00 36.97 5.52
2081 2846 3.282157 AGTGTTGTGCTGCCGCTG 61.282 61.111 0.70 0.00 36.97 5.18
2094 3250 1.144936 CCGCTGGGGTTCTCATCTC 59.855 63.158 1.98 0.00 0.00 2.75
2096 3252 0.179089 CGCTGGGGTTCTCATCTCAG 60.179 60.000 0.00 0.00 0.00 3.35
2102 3258 3.588842 TGGGGTTCTCATCTCAGAAACAT 59.411 43.478 0.94 0.00 41.30 2.71
2105 3261 6.180472 GGGGTTCTCATCTCAGAAACATTTA 58.820 40.000 0.94 0.00 41.30 1.40
2106 3262 6.317391 GGGGTTCTCATCTCAGAAACATTTAG 59.683 42.308 0.94 0.00 41.30 1.85
2110 3450 9.424319 GTTCTCATCTCAGAAACATTTAGTACA 57.576 33.333 0.00 0.00 34.11 2.90
2112 3452 9.809096 TCTCATCTCAGAAACATTTAGTACATC 57.191 33.333 0.00 0.00 0.00 3.06
2124 3464 8.948631 ACATTTAGTACATCAATTCATCGACT 57.051 30.769 0.00 0.00 0.00 4.18
2130 3470 8.357796 AGTACATCAATTCATCGACTATGTTG 57.642 34.615 0.00 0.00 36.89 3.33
2131 3471 7.981789 AGTACATCAATTCATCGACTATGTTGT 59.018 33.333 0.00 0.00 36.89 3.32
2132 3472 7.615582 ACATCAATTCATCGACTATGTTGTT 57.384 32.000 0.00 0.00 36.89 2.83
2133 3473 7.466805 ACATCAATTCATCGACTATGTTGTTG 58.533 34.615 0.00 0.00 36.89 3.33
2172 3540 2.159170 GCTAGAGCGTGAAGGATCAGTT 60.159 50.000 0.00 0.00 35.88 3.16
2173 3541 3.677424 GCTAGAGCGTGAAGGATCAGTTT 60.677 47.826 0.00 0.00 35.88 2.66
2174 3542 2.693069 AGAGCGTGAAGGATCAGTTTG 58.307 47.619 0.00 0.00 35.88 2.93
2175 3543 2.037772 AGAGCGTGAAGGATCAGTTTGT 59.962 45.455 0.00 0.00 35.88 2.83
2211 3579 4.530875 GGATTCTCATCCCAGAAACATGT 58.469 43.478 0.00 0.00 43.29 3.21
2212 3580 5.684704 GGATTCTCATCCCAGAAACATGTA 58.315 41.667 0.00 0.00 43.29 2.29
2213 3581 5.529060 GGATTCTCATCCCAGAAACATGTAC 59.471 44.000 0.00 0.00 43.29 2.90
2214 3582 5.497464 TTCTCATCCCAGAAACATGTACA 57.503 39.130 0.00 0.00 29.01 2.90
2215 3583 5.089970 TCTCATCCCAGAAACATGTACAG 57.910 43.478 0.00 0.00 0.00 2.74
2218 3586 5.730550 TCATCCCAGAAACATGTACAGTAC 58.269 41.667 0.00 3.49 0.00 2.73
2221 3589 4.000988 CCCAGAAACATGTACAGTACCAC 58.999 47.826 8.30 0.00 0.00 4.16
2231 3599 0.669318 ACAGTACCACGGTGCATTCG 60.669 55.000 7.08 10.23 33.14 3.34
2233 3601 0.535335 AGTACCACGGTGCATTCGAT 59.465 50.000 17.19 6.62 33.14 3.59
2238 3606 3.585990 CGGTGCATTCGATGGCCC 61.586 66.667 0.00 6.38 0.00 5.80
2239 3607 2.440065 GGTGCATTCGATGGCCCA 60.440 61.111 0.00 0.00 0.00 5.36
2240 3608 2.051518 GGTGCATTCGATGGCCCAA 61.052 57.895 0.00 0.00 0.00 4.12
2242 3610 1.317613 GTGCATTCGATGGCCCAATA 58.682 50.000 0.00 0.00 0.00 1.90
2244 3612 1.133823 TGCATTCGATGGCCCAATAGT 60.134 47.619 0.00 0.00 0.00 2.12
2245 3613 1.537202 GCATTCGATGGCCCAATAGTC 59.463 52.381 0.00 0.00 0.00 2.59
2247 3615 2.325583 TTCGATGGCCCAATAGTCAC 57.674 50.000 0.00 0.00 0.00 3.67
2252 3620 1.076995 GGCCCAATAGTCACCACCC 60.077 63.158 0.00 0.00 0.00 4.61
2254 3622 0.107165 GCCCAATAGTCACCACCCTC 60.107 60.000 0.00 0.00 0.00 4.30
2255 3623 0.546598 CCCAATAGTCACCACCCTCC 59.453 60.000 0.00 0.00 0.00 4.30
2256 3624 1.584724 CCAATAGTCACCACCCTCCT 58.415 55.000 0.00 0.00 0.00 3.69
2257 3625 1.486726 CCAATAGTCACCACCCTCCTC 59.513 57.143 0.00 0.00 0.00 3.71
2259 3627 2.774234 CAATAGTCACCACCCTCCTCAT 59.226 50.000 0.00 0.00 0.00 2.90
2260 3628 2.160721 TAGTCACCACCCTCCTCATC 57.839 55.000 0.00 0.00 0.00 2.92
2262 3630 0.539051 GTCACCACCCTCCTCATCAG 59.461 60.000 0.00 0.00 0.00 2.90
2263 3631 1.222936 CACCACCCTCCTCATCAGC 59.777 63.158 0.00 0.00 0.00 4.26
2264 3632 2.362369 ACCACCCTCCTCATCAGCG 61.362 63.158 0.00 0.00 0.00 5.18
2265 3633 2.503061 CACCCTCCTCATCAGCGG 59.497 66.667 0.00 0.00 0.00 5.52
2267 3635 2.060980 ACCCTCCTCATCAGCGGTC 61.061 63.158 0.00 0.00 0.00 4.79
2268 3636 1.760086 CCCTCCTCATCAGCGGTCT 60.760 63.158 0.00 0.00 0.00 3.85
2269 3637 1.739049 CCTCCTCATCAGCGGTCTC 59.261 63.158 0.00 0.00 0.00 3.36
2270 3638 0.754957 CCTCCTCATCAGCGGTCTCT 60.755 60.000 0.00 0.00 0.00 3.10
2271 3639 1.110442 CTCCTCATCAGCGGTCTCTT 58.890 55.000 0.00 0.00 0.00 2.85
2272 3640 1.066908 CTCCTCATCAGCGGTCTCTTC 59.933 57.143 0.00 0.00 0.00 2.87
2273 3641 1.110442 CCTCATCAGCGGTCTCTTCT 58.890 55.000 0.00 0.00 0.00 2.85
2274 3642 1.480137 CCTCATCAGCGGTCTCTTCTT 59.520 52.381 0.00 0.00 0.00 2.52
2275 3643 2.538437 CTCATCAGCGGTCTCTTCTTG 58.462 52.381 0.00 0.00 0.00 3.02
2276 3644 2.165234 CTCATCAGCGGTCTCTTCTTGA 59.835 50.000 0.00 0.00 0.00 3.02
2277 3645 2.762887 TCATCAGCGGTCTCTTCTTGAT 59.237 45.455 0.00 0.00 0.00 2.57
2278 3646 2.949451 TCAGCGGTCTCTTCTTGATC 57.051 50.000 0.00 0.00 0.00 2.92
2279 3647 2.451490 TCAGCGGTCTCTTCTTGATCT 58.549 47.619 0.00 0.00 0.00 2.75
2280 3648 2.425312 TCAGCGGTCTCTTCTTGATCTC 59.575 50.000 0.00 0.00 0.00 2.75
2281 3649 1.403679 AGCGGTCTCTTCTTGATCTCG 59.596 52.381 0.00 0.00 0.00 4.04
2282 3650 1.535015 GCGGTCTCTTCTTGATCTCGG 60.535 57.143 0.00 0.00 0.00 4.63
2283 3651 1.746220 CGGTCTCTTCTTGATCTCGGT 59.254 52.381 0.00 0.00 0.00 4.69
2284 3652 2.223386 CGGTCTCTTCTTGATCTCGGTC 60.223 54.545 0.00 0.00 0.00 4.79
2285 3653 3.020984 GGTCTCTTCTTGATCTCGGTCT 58.979 50.000 0.00 0.00 0.00 3.85
2286 3654 3.066203 GGTCTCTTCTTGATCTCGGTCTC 59.934 52.174 0.00 0.00 0.00 3.36
2287 3655 3.945285 GTCTCTTCTTGATCTCGGTCTCT 59.055 47.826 0.00 0.00 0.00 3.10
2288 3656 3.944650 TCTCTTCTTGATCTCGGTCTCTG 59.055 47.826 0.00 0.00 0.00 3.35
2289 3657 3.020274 TCTTCTTGATCTCGGTCTCTGG 58.980 50.000 0.00 0.00 0.00 3.86
2290 3658 1.107114 TCTTGATCTCGGTCTCTGGC 58.893 55.000 0.00 0.00 0.00 4.85
2291 3659 0.248825 CTTGATCTCGGTCTCTGGCG 60.249 60.000 0.00 0.00 0.00 5.69
2292 3660 1.667154 TTGATCTCGGTCTCTGGCGG 61.667 60.000 0.00 0.00 0.00 6.13
2293 3661 3.492311 GATCTCGGTCTCTGGCGGC 62.492 68.421 0.00 0.00 0.00 6.53
2295 3663 4.803426 CTCGGTCTCTGGCGGCAC 62.803 72.222 7.97 0.00 0.00 5.01
2298 3666 4.767255 GGTCTCTGGCGGCACTGG 62.767 72.222 7.97 0.00 0.00 4.00
2305 3673 4.082523 GGCGGCACTGGCAGAGTA 62.083 66.667 23.66 0.00 43.71 2.59
2306 3674 2.510238 GCGGCACTGGCAGAGTAG 60.510 66.667 23.66 12.43 43.71 2.57
2307 3675 2.185350 CGGCACTGGCAGAGTAGG 59.815 66.667 23.66 6.04 43.71 3.18
2308 3676 2.351244 CGGCACTGGCAGAGTAGGA 61.351 63.158 23.66 0.00 43.71 2.94
2309 3677 1.519719 GGCACTGGCAGAGTAGGAG 59.480 63.158 23.66 2.87 43.71 3.69
2310 3678 1.519719 GCACTGGCAGAGTAGGAGG 59.480 63.158 23.66 1.09 40.72 4.30
2311 3679 0.972983 GCACTGGCAGAGTAGGAGGA 60.973 60.000 23.66 0.00 40.72 3.71
2312 3680 1.110442 CACTGGCAGAGTAGGAGGAG 58.890 60.000 23.66 0.00 31.73 3.69
2313 3681 0.686112 ACTGGCAGAGTAGGAGGAGC 60.686 60.000 23.66 0.00 30.86 4.70
2314 3682 0.396974 CTGGCAGAGTAGGAGGAGCT 60.397 60.000 9.42 0.00 0.00 4.09
2315 3683 0.685785 TGGCAGAGTAGGAGGAGCTG 60.686 60.000 0.00 0.00 0.00 4.24
2316 3684 0.396417 GGCAGAGTAGGAGGAGCTGA 60.396 60.000 0.00 0.00 0.00 4.26
2317 3685 1.479709 GCAGAGTAGGAGGAGCTGAA 58.520 55.000 0.00 0.00 0.00 3.02
2318 3686 1.827969 GCAGAGTAGGAGGAGCTGAAA 59.172 52.381 0.00 0.00 0.00 2.69
2319 3687 2.418060 GCAGAGTAGGAGGAGCTGAAAC 60.418 54.545 0.00 0.00 0.00 2.78
2321 3689 3.259374 CAGAGTAGGAGGAGCTGAAACAA 59.741 47.826 0.00 0.00 0.00 2.83
2323 3691 4.348168 AGAGTAGGAGGAGCTGAAACAAAA 59.652 41.667 0.00 0.00 0.00 2.44
2329 3697 4.294232 GAGGAGCTGAAACAAAAGAAAGC 58.706 43.478 0.00 0.00 0.00 3.51
2360 3728 6.822667 TTTTGTGCTGATTACATGATGAGT 57.177 33.333 0.00 0.00 0.00 3.41
2361 3729 5.806366 TTGTGCTGATTACATGATGAGTG 57.194 39.130 0.00 0.00 0.00 3.51
2362 3730 3.624410 TGTGCTGATTACATGATGAGTGC 59.376 43.478 0.00 0.00 0.00 4.40
2363 3731 2.867975 TGCTGATTACATGATGAGTGCG 59.132 45.455 0.00 0.00 0.00 5.34
2364 3732 2.222678 GCTGATTACATGATGAGTGCGG 59.777 50.000 0.00 0.00 0.00 5.69
2365 3733 3.721035 CTGATTACATGATGAGTGCGGA 58.279 45.455 0.00 0.00 0.00 5.54
2366 3734 3.721035 TGATTACATGATGAGTGCGGAG 58.279 45.455 0.00 0.00 0.00 4.63
2390 3758 4.647564 AGAAGAGCAGGAAGGAAAATGA 57.352 40.909 0.00 0.00 0.00 2.57
2391 3759 4.587891 AGAAGAGCAGGAAGGAAAATGAG 58.412 43.478 0.00 0.00 0.00 2.90
2392 3760 4.288105 AGAAGAGCAGGAAGGAAAATGAGA 59.712 41.667 0.00 0.00 0.00 3.27
2393 3761 4.219264 AGAGCAGGAAGGAAAATGAGAG 57.781 45.455 0.00 0.00 0.00 3.20
2394 3762 2.682352 GAGCAGGAAGGAAAATGAGAGC 59.318 50.000 0.00 0.00 0.00 4.09
2395 3763 2.040813 AGCAGGAAGGAAAATGAGAGCA 59.959 45.455 0.00 0.00 0.00 4.26
2396 3764 2.422832 GCAGGAAGGAAAATGAGAGCAG 59.577 50.000 0.00 0.00 0.00 4.24
2397 3765 3.015327 CAGGAAGGAAAATGAGAGCAGG 58.985 50.000 0.00 0.00 0.00 4.85
2398 3766 2.025510 AGGAAGGAAAATGAGAGCAGGG 60.026 50.000 0.00 0.00 0.00 4.45
2399 3767 2.373224 GAAGGAAAATGAGAGCAGGGG 58.627 52.381 0.00 0.00 0.00 4.79
2400 3768 1.673767 AGGAAAATGAGAGCAGGGGA 58.326 50.000 0.00 0.00 0.00 4.81
2401 3769 1.563410 AGGAAAATGAGAGCAGGGGAG 59.437 52.381 0.00 0.00 0.00 4.30
2402 3770 1.409381 GGAAAATGAGAGCAGGGGAGG 60.409 57.143 0.00 0.00 0.00 4.30
2403 3771 0.627986 AAAATGAGAGCAGGGGAGGG 59.372 55.000 0.00 0.00 0.00 4.30
2404 3772 1.284841 AAATGAGAGCAGGGGAGGGG 61.285 60.000 0.00 0.00 0.00 4.79
2405 3773 3.728305 ATGAGAGCAGGGGAGGGGG 62.728 68.421 0.00 0.00 0.00 5.40
2406 3774 4.095400 GAGAGCAGGGGAGGGGGA 62.095 72.222 0.00 0.00 0.00 4.81
2407 3775 3.626596 AGAGCAGGGGAGGGGGAA 61.627 66.667 0.00 0.00 0.00 3.97
2408 3776 3.093172 GAGCAGGGGAGGGGGAAG 61.093 72.222 0.00 0.00 0.00 3.46
2409 3777 4.767892 AGCAGGGGAGGGGGAAGG 62.768 72.222 0.00 0.00 0.00 3.46
2410 3778 4.760220 GCAGGGGAGGGGGAAGGA 62.760 72.222 0.00 0.00 0.00 3.36
2411 3779 2.367512 CAGGGGAGGGGGAAGGAG 60.368 72.222 0.00 0.00 0.00 3.69
2412 3780 4.439901 AGGGGAGGGGGAAGGAGC 62.440 72.222 0.00 0.00 0.00 4.70
2413 3781 4.439901 GGGGAGGGGGAAGGAGCT 62.440 72.222 0.00 0.00 0.00 4.09
2414 3782 2.286502 GGGAGGGGGAAGGAGCTT 60.287 66.667 0.00 0.00 0.00 3.74
2415 3783 2.379459 GGGAGGGGGAAGGAGCTTC 61.379 68.421 0.00 0.00 39.52 3.86
2424 3792 3.701454 AGGAGCTTCCTCGTCCAC 58.299 61.111 0.00 0.00 45.66 4.02
2425 3793 2.182030 GGAGCTTCCTCGTCCACG 59.818 66.667 0.00 0.00 39.06 4.94
2426 3794 2.766306 AGGAGCTTCCTCGTCCACGA 62.766 60.000 1.19 1.19 45.66 4.35
2427 3795 1.153997 GAGCTTCCTCGTCCACGAC 60.154 63.158 0.00 0.00 44.22 4.34
2428 3796 2.126031 GCTTCCTCGTCCACGACC 60.126 66.667 0.00 0.00 44.22 4.79
2429 3797 2.927580 GCTTCCTCGTCCACGACCA 61.928 63.158 0.00 0.00 44.22 4.02
2430 3798 1.890894 CTTCCTCGTCCACGACCAT 59.109 57.895 0.00 0.00 44.22 3.55
2431 3799 0.458543 CTTCCTCGTCCACGACCATG 60.459 60.000 0.00 0.00 44.22 3.66
2432 3800 2.501223 TTCCTCGTCCACGACCATGC 62.501 60.000 0.00 0.00 44.22 4.06
2433 3801 2.509336 CTCGTCCACGACCATGCC 60.509 66.667 0.00 0.00 44.22 4.40
2434 3802 4.429212 TCGTCCACGACCATGCCG 62.429 66.667 0.00 4.51 44.22 5.69
2448 3816 4.829518 GCCGGCGGCGACATTTTC 62.830 66.667 37.09 6.94 39.62 2.29
2540 3908 3.486383 TGAAAGTAGCTCCTTTGGTTGG 58.514 45.455 9.26 0.00 34.87 3.77
2547 3915 1.754226 GCTCCTTTGGTTGGAACACAA 59.246 47.619 0.00 0.00 39.29 3.33
2548 3916 2.365293 GCTCCTTTGGTTGGAACACAAT 59.635 45.455 0.00 0.00 41.95 2.71
2549 3917 3.799917 GCTCCTTTGGTTGGAACACAATG 60.800 47.826 0.00 0.00 41.95 2.82
2550 3918 2.102252 TCCTTTGGTTGGAACACAATGC 59.898 45.455 0.00 0.00 41.95 3.56
2695 4225 1.141053 GTGAAGTAATCAGGGCCGGAT 59.859 52.381 13.78 13.78 39.19 4.18
2762 4293 6.262496 CGTAGTGTACAATCAGGAGAGGATTA 59.738 42.308 0.00 0.00 33.40 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
280 291 0.858369 TATAGAGGGGCCGTTCTCCT 59.142 55.000 11.90 3.98 0.00 3.69
396 407 0.030501 ATGGGTCCTGTTATCGGGGA 60.031 55.000 0.00 0.00 40.36 4.81
404 415 3.524789 TCTGATGAATGATGGGTCCTGTT 59.475 43.478 0.00 0.00 0.00 3.16
805 1456 3.297134 AAGTTTCTTCCTGACCTGCAA 57.703 42.857 0.00 0.00 0.00 4.08
940 1591 4.806892 ACAAGGCAATATCCATCCATCAA 58.193 39.130 0.00 0.00 0.00 2.57
982 1634 6.568869 ACTTCATAGCATCAAGTACTCTCAC 58.431 40.000 0.00 0.00 0.00 3.51
1325 1977 9.035607 GTATCATGACATTAATCTTCACGTTCT 57.964 33.333 0.00 0.00 0.00 3.01
1368 2020 9.474920 CAATTCTCCTAGTTTTAAACATTGCAA 57.525 29.630 10.60 0.00 0.00 4.08
1534 2186 3.888460 TTGGGAGCACAGCCAGCA 61.888 61.111 0.00 0.00 0.00 4.41
1588 2240 4.685924 CCTTCACAACTGCACATTTTTCT 58.314 39.130 0.00 0.00 0.00 2.52
1595 2247 2.407268 CAGCCTTCACAACTGCACA 58.593 52.632 0.00 0.00 0.00 4.57
1685 2337 2.578480 GTTTCCCTTCCCCTGAGAAGAT 59.422 50.000 2.91 0.00 45.08 2.40
1733 2385 2.212327 CCGGAGGCTGGTACTTCAT 58.788 57.895 0.00 0.00 46.14 2.57
1750 2402 4.245660 TCAATTGTCAGACGAACATCTCC 58.754 43.478 5.13 0.00 0.00 3.71
1801 2453 5.554437 TGAGTGAATACCACCAAGTAACA 57.446 39.130 0.00 0.00 46.87 2.41
1802 2454 6.258068 GCTATGAGTGAATACCACCAAGTAAC 59.742 42.308 0.00 0.00 46.87 2.50
1803 2455 6.156256 AGCTATGAGTGAATACCACCAAGTAA 59.844 38.462 0.00 0.00 46.87 2.24
1804 2456 5.661312 AGCTATGAGTGAATACCACCAAGTA 59.339 40.000 0.00 0.00 46.87 2.24
1806 2458 4.813161 CAGCTATGAGTGAATACCACCAAG 59.187 45.833 0.00 0.00 46.87 3.61
1807 2459 4.469586 TCAGCTATGAGTGAATACCACCAA 59.530 41.667 0.00 0.00 46.87 3.67
1808 2460 4.030216 TCAGCTATGAGTGAATACCACCA 58.970 43.478 0.00 0.00 46.87 4.17
1856 2511 9.977762 GGATGAATTATCTGCATTTTCAAAAAC 57.022 29.630 0.00 0.00 36.03 2.43
1889 2546 2.079158 ACATCAAACATCAGGCGACAG 58.921 47.619 0.00 0.00 0.00 3.51
2035 2734 1.786937 TGCTGGGGCAGAAAGAAAAA 58.213 45.000 0.00 0.00 44.28 1.94
2036 2735 3.529948 TGCTGGGGCAGAAAGAAAA 57.470 47.368 0.00 0.00 44.28 2.29
2047 2746 1.077212 CTGGTCCTTCATGCTGGGG 60.077 63.158 4.39 0.00 0.00 4.96
2048 2747 0.679002 CACTGGTCCTTCATGCTGGG 60.679 60.000 4.39 0.00 0.00 4.45
2061 2826 2.901840 CGGCAGCACAACACTGGT 60.902 61.111 0.00 0.00 35.62 4.00
2062 2827 4.332637 GCGGCAGCACAACACTGG 62.333 66.667 3.18 0.00 44.35 4.00
2073 2838 3.335356 ATGAGAACCCCAGCGGCAG 62.335 63.158 1.45 0.00 33.26 4.85
2078 2843 1.198713 TCTGAGATGAGAACCCCAGC 58.801 55.000 0.00 0.00 0.00 4.85
2080 2845 2.978978 TGTTTCTGAGATGAGAACCCCA 59.021 45.455 0.00 0.00 31.53 4.96
2081 2846 3.703001 TGTTTCTGAGATGAGAACCCC 57.297 47.619 0.00 0.00 31.53 4.95
2083 2848 7.913674 ACTAAATGTTTCTGAGATGAGAACC 57.086 36.000 0.00 0.00 31.53 3.62
2105 3261 7.981789 ACAACATAGTCGATGAATTGATGTACT 59.018 33.333 0.00 0.00 39.06 2.73
2106 3262 8.131455 ACAACATAGTCGATGAATTGATGTAC 57.869 34.615 0.00 0.00 39.06 2.90
2110 3450 7.615582 ACAACAACATAGTCGATGAATTGAT 57.384 32.000 0.00 0.00 39.06 2.57
2112 3452 7.077605 ACAACAACAACATAGTCGATGAATTG 58.922 34.615 0.00 4.15 39.06 2.32
2172 3540 0.180642 TCCCAACGGCAGTACAACAA 59.819 50.000 0.00 0.00 0.00 2.83
2173 3541 0.398696 ATCCCAACGGCAGTACAACA 59.601 50.000 0.00 0.00 0.00 3.33
2174 3542 1.467342 GAATCCCAACGGCAGTACAAC 59.533 52.381 0.00 0.00 0.00 3.32
2175 3543 1.349688 AGAATCCCAACGGCAGTACAA 59.650 47.619 0.00 0.00 0.00 2.41
2210 3578 1.997606 GAATGCACCGTGGTACTGTAC 59.002 52.381 9.46 9.46 0.00 2.90
2211 3579 1.403116 CGAATGCACCGTGGTACTGTA 60.403 52.381 0.00 0.00 0.00 2.74
2212 3580 0.669318 CGAATGCACCGTGGTACTGT 60.669 55.000 0.00 0.00 0.00 3.55
2213 3581 0.389296 TCGAATGCACCGTGGTACTG 60.389 55.000 9.70 0.00 0.00 2.74
2214 3582 0.535335 ATCGAATGCACCGTGGTACT 59.465 50.000 9.70 0.00 0.00 2.73
2215 3583 0.650512 CATCGAATGCACCGTGGTAC 59.349 55.000 9.70 0.00 0.00 3.34
2218 3586 3.101209 CCATCGAATGCACCGTGG 58.899 61.111 9.70 11.78 0.00 4.94
2221 3589 3.585990 GGGCCATCGAATGCACCG 61.586 66.667 4.39 4.14 0.00 4.94
2231 3599 1.680338 GTGGTGACTATTGGGCCATC 58.320 55.000 7.26 1.63 0.00 3.51
2233 3601 1.688811 GGTGGTGACTATTGGGCCA 59.311 57.895 0.00 0.00 0.00 5.36
2238 3606 2.187958 TGAGGAGGGTGGTGACTATTG 58.812 52.381 0.00 0.00 0.00 1.90
2239 3607 2.642171 TGAGGAGGGTGGTGACTATT 57.358 50.000 0.00 0.00 0.00 1.73
2240 3608 2.023015 TGATGAGGAGGGTGGTGACTAT 60.023 50.000 0.00 0.00 0.00 2.12
2242 3610 0.117140 TGATGAGGAGGGTGGTGACT 59.883 55.000 0.00 0.00 0.00 3.41
2244 3612 1.267574 GCTGATGAGGAGGGTGGTGA 61.268 60.000 0.00 0.00 0.00 4.02
2245 3613 1.222936 GCTGATGAGGAGGGTGGTG 59.777 63.158 0.00 0.00 0.00 4.17
2247 3615 2.503061 CGCTGATGAGGAGGGTGG 59.497 66.667 0.00 0.00 0.00 4.61
2252 3620 1.066908 GAAGAGACCGCTGATGAGGAG 59.933 57.143 0.00 0.00 36.60 3.69
2254 3622 1.110442 AGAAGAGACCGCTGATGAGG 58.890 55.000 0.00 0.00 39.17 3.86
2255 3623 2.165234 TCAAGAAGAGACCGCTGATGAG 59.835 50.000 0.00 0.00 0.00 2.90
2256 3624 2.171003 TCAAGAAGAGACCGCTGATGA 58.829 47.619 0.00 0.00 0.00 2.92
2257 3625 2.662006 TCAAGAAGAGACCGCTGATG 57.338 50.000 0.00 0.00 0.00 3.07
2259 3627 2.425312 GAGATCAAGAAGAGACCGCTGA 59.575 50.000 0.00 0.00 0.00 4.26
2260 3628 2.794282 CGAGATCAAGAAGAGACCGCTG 60.794 54.545 0.00 0.00 0.00 5.18
2262 3630 1.535015 CCGAGATCAAGAAGAGACCGC 60.535 57.143 0.00 0.00 0.00 5.68
2263 3631 1.746220 ACCGAGATCAAGAAGAGACCG 59.254 52.381 0.00 0.00 0.00 4.79
2264 3632 3.020984 AGACCGAGATCAAGAAGAGACC 58.979 50.000 0.00 0.00 0.00 3.85
2265 3633 3.945285 AGAGACCGAGATCAAGAAGAGAC 59.055 47.826 0.00 0.00 0.00 3.36
2267 3635 3.066621 CCAGAGACCGAGATCAAGAAGAG 59.933 52.174 0.00 0.00 0.00 2.85
2268 3636 3.020274 CCAGAGACCGAGATCAAGAAGA 58.980 50.000 0.00 0.00 0.00 2.87
2269 3637 2.481104 GCCAGAGACCGAGATCAAGAAG 60.481 54.545 0.00 0.00 0.00 2.85
2270 3638 1.478510 GCCAGAGACCGAGATCAAGAA 59.521 52.381 0.00 0.00 0.00 2.52
2271 3639 1.107114 GCCAGAGACCGAGATCAAGA 58.893 55.000 0.00 0.00 0.00 3.02
2272 3640 0.248825 CGCCAGAGACCGAGATCAAG 60.249 60.000 0.00 0.00 0.00 3.02
2273 3641 1.667154 CCGCCAGAGACCGAGATCAA 61.667 60.000 0.00 0.00 0.00 2.57
2274 3642 2.121538 CCGCCAGAGACCGAGATCA 61.122 63.158 0.00 0.00 0.00 2.92
2275 3643 2.725008 CCGCCAGAGACCGAGATC 59.275 66.667 0.00 0.00 0.00 2.75
2276 3644 3.532155 GCCGCCAGAGACCGAGAT 61.532 66.667 0.00 0.00 0.00 2.75
2278 3646 4.803426 GTGCCGCCAGAGACCGAG 62.803 72.222 0.00 0.00 0.00 4.63
2281 3649 4.767255 CCAGTGCCGCCAGAGACC 62.767 72.222 0.00 0.00 0.00 3.85
2288 3656 4.082523 TACTCTGCCAGTGCCGCC 62.083 66.667 0.00 0.00 36.43 6.13
2289 3657 2.510238 CTACTCTGCCAGTGCCGC 60.510 66.667 0.00 0.00 36.43 6.53
2290 3658 2.185350 CCTACTCTGCCAGTGCCG 59.815 66.667 0.00 0.00 36.43 5.69
2291 3659 1.519719 CTCCTACTCTGCCAGTGCC 59.480 63.158 0.00 0.00 36.43 5.01
2292 3660 0.972983 TCCTCCTACTCTGCCAGTGC 60.973 60.000 0.00 0.00 36.43 4.40
2293 3661 1.110442 CTCCTCCTACTCTGCCAGTG 58.890 60.000 0.00 0.00 36.43 3.66
2294 3662 0.686112 GCTCCTCCTACTCTGCCAGT 60.686 60.000 0.00 0.00 39.41 4.00
2295 3663 0.396974 AGCTCCTCCTACTCTGCCAG 60.397 60.000 0.00 0.00 0.00 4.85
2296 3664 0.685785 CAGCTCCTCCTACTCTGCCA 60.686 60.000 0.00 0.00 0.00 4.92
2297 3665 0.396417 TCAGCTCCTCCTACTCTGCC 60.396 60.000 0.00 0.00 0.00 4.85
2298 3666 1.479709 TTCAGCTCCTCCTACTCTGC 58.520 55.000 0.00 0.00 0.00 4.26
2299 3667 2.828520 TGTTTCAGCTCCTCCTACTCTG 59.171 50.000 0.00 0.00 0.00 3.35
2300 3668 3.176924 TGTTTCAGCTCCTCCTACTCT 57.823 47.619 0.00 0.00 0.00 3.24
2301 3669 3.963428 TTGTTTCAGCTCCTCCTACTC 57.037 47.619 0.00 0.00 0.00 2.59
2302 3670 4.348168 TCTTTTGTTTCAGCTCCTCCTACT 59.652 41.667 0.00 0.00 0.00 2.57
2303 3671 4.642429 TCTTTTGTTTCAGCTCCTCCTAC 58.358 43.478 0.00 0.00 0.00 3.18
2304 3672 4.974645 TCTTTTGTTTCAGCTCCTCCTA 57.025 40.909 0.00 0.00 0.00 2.94
2305 3673 3.864789 TCTTTTGTTTCAGCTCCTCCT 57.135 42.857 0.00 0.00 0.00 3.69
2306 3674 4.794329 GCTTTCTTTTGTTTCAGCTCCTCC 60.794 45.833 0.00 0.00 0.00 4.30
2307 3675 4.037327 AGCTTTCTTTTGTTTCAGCTCCTC 59.963 41.667 0.00 0.00 31.93 3.71
2308 3676 3.956848 AGCTTTCTTTTGTTTCAGCTCCT 59.043 39.130 0.00 0.00 31.93 3.69
2309 3677 4.313277 AGCTTTCTTTTGTTTCAGCTCC 57.687 40.909 0.00 0.00 31.93 4.70
2310 3678 5.586339 AGAAGCTTTCTTTTGTTTCAGCTC 58.414 37.500 0.00 0.00 36.59 4.09
2311 3679 5.588958 AGAAGCTTTCTTTTGTTTCAGCT 57.411 34.783 0.00 0.00 39.30 4.24
2336 3704 7.085746 CACTCATCATGTAATCAGCACAAAAA 58.914 34.615 0.00 0.00 0.00 1.94
2337 3705 6.614160 CACTCATCATGTAATCAGCACAAAA 58.386 36.000 0.00 0.00 0.00 2.44
2339 3707 4.095334 GCACTCATCATGTAATCAGCACAA 59.905 41.667 0.00 0.00 0.00 3.33
2342 3710 2.867975 CGCACTCATCATGTAATCAGCA 59.132 45.455 0.00 0.00 0.00 4.41
2343 3711 2.222678 CCGCACTCATCATGTAATCAGC 59.777 50.000 0.00 0.00 0.00 4.26
2344 3712 3.721035 TCCGCACTCATCATGTAATCAG 58.279 45.455 0.00 0.00 0.00 2.90
2346 3714 2.478134 GCTCCGCACTCATCATGTAATC 59.522 50.000 0.00 0.00 0.00 1.75
2350 3718 1.068281 CTAGCTCCGCACTCATCATGT 59.932 52.381 0.00 0.00 0.00 3.21
2353 3721 1.406898 CTTCTAGCTCCGCACTCATCA 59.593 52.381 0.00 0.00 0.00 3.07
2354 3722 1.678627 TCTTCTAGCTCCGCACTCATC 59.321 52.381 0.00 0.00 0.00 2.92
2355 3723 1.680735 CTCTTCTAGCTCCGCACTCAT 59.319 52.381 0.00 0.00 0.00 2.90
2356 3724 1.098869 CTCTTCTAGCTCCGCACTCA 58.901 55.000 0.00 0.00 0.00 3.41
2357 3725 3.936585 CTCTTCTAGCTCCGCACTC 57.063 57.895 0.00 0.00 0.00 3.51
2367 3735 5.738909 TCATTTTCCTTCCTGCTCTTCTAG 58.261 41.667 0.00 0.00 0.00 2.43
2368 3736 5.485353 TCTCATTTTCCTTCCTGCTCTTCTA 59.515 40.000 0.00 0.00 0.00 2.10
2369 3737 4.288105 TCTCATTTTCCTTCCTGCTCTTCT 59.712 41.667 0.00 0.00 0.00 2.85
2370 3738 4.583871 TCTCATTTTCCTTCCTGCTCTTC 58.416 43.478 0.00 0.00 0.00 2.87
2371 3739 4.587891 CTCTCATTTTCCTTCCTGCTCTT 58.412 43.478 0.00 0.00 0.00 2.85
2372 3740 3.621958 GCTCTCATTTTCCTTCCTGCTCT 60.622 47.826 0.00 0.00 0.00 4.09
2373 3741 2.682352 GCTCTCATTTTCCTTCCTGCTC 59.318 50.000 0.00 0.00 0.00 4.26
2374 3742 2.040813 TGCTCTCATTTTCCTTCCTGCT 59.959 45.455 0.00 0.00 0.00 4.24
2375 3743 2.422832 CTGCTCTCATTTTCCTTCCTGC 59.577 50.000 0.00 0.00 0.00 4.85
2376 3744 3.015327 CCTGCTCTCATTTTCCTTCCTG 58.985 50.000 0.00 0.00 0.00 3.86
2377 3745 2.025510 CCCTGCTCTCATTTTCCTTCCT 60.026 50.000 0.00 0.00 0.00 3.36
2378 3746 2.373224 CCCTGCTCTCATTTTCCTTCC 58.627 52.381 0.00 0.00 0.00 3.46
2379 3747 2.025887 TCCCCTGCTCTCATTTTCCTTC 60.026 50.000 0.00 0.00 0.00 3.46
2380 3748 1.995542 TCCCCTGCTCTCATTTTCCTT 59.004 47.619 0.00 0.00 0.00 3.36
2381 3749 1.563410 CTCCCCTGCTCTCATTTTCCT 59.437 52.381 0.00 0.00 0.00 3.36
2382 3750 1.409381 CCTCCCCTGCTCTCATTTTCC 60.409 57.143 0.00 0.00 0.00 3.13
2383 3751 1.409381 CCCTCCCCTGCTCTCATTTTC 60.409 57.143 0.00 0.00 0.00 2.29
2384 3752 0.627986 CCCTCCCCTGCTCTCATTTT 59.372 55.000 0.00 0.00 0.00 1.82
2385 3753 1.284841 CCCCTCCCCTGCTCTCATTT 61.285 60.000 0.00 0.00 0.00 2.32
2386 3754 1.695597 CCCCTCCCCTGCTCTCATT 60.696 63.158 0.00 0.00 0.00 2.57
2387 3755 2.040043 CCCCTCCCCTGCTCTCAT 60.040 66.667 0.00 0.00 0.00 2.90
2388 3756 4.421554 CCCCCTCCCCTGCTCTCA 62.422 72.222 0.00 0.00 0.00 3.27
2389 3757 3.642741 TTCCCCCTCCCCTGCTCTC 62.643 68.421 0.00 0.00 0.00 3.20
2390 3758 3.626596 TTCCCCCTCCCCTGCTCT 61.627 66.667 0.00 0.00 0.00 4.09
2391 3759 3.093172 CTTCCCCCTCCCCTGCTC 61.093 72.222 0.00 0.00 0.00 4.26
2392 3760 4.767892 CCTTCCCCCTCCCCTGCT 62.768 72.222 0.00 0.00 0.00 4.24
2393 3761 4.760220 TCCTTCCCCCTCCCCTGC 62.760 72.222 0.00 0.00 0.00 4.85
2394 3762 2.367512 CTCCTTCCCCCTCCCCTG 60.368 72.222 0.00 0.00 0.00 4.45
2395 3763 4.439901 GCTCCTTCCCCCTCCCCT 62.440 72.222 0.00 0.00 0.00 4.79
2396 3764 3.972328 AAGCTCCTTCCCCCTCCCC 62.972 68.421 0.00 0.00 0.00 4.81
2397 3765 2.286502 AAGCTCCTTCCCCCTCCC 60.287 66.667 0.00 0.00 0.00 4.30
2398 3766 3.325806 GAAGCTCCTTCCCCCTCC 58.674 66.667 0.00 0.00 34.71 4.30
2408 3776 2.182030 CGTGGACGAGGAAGCTCC 59.818 66.667 0.00 0.00 43.02 4.70
2409 3777 3.275088 TCGTGGACGAGGAAGCTC 58.725 61.111 0.00 0.00 44.22 4.09
2431 3799 4.829518 GAAAATGTCGCCGCCGGC 62.830 66.667 20.42 20.42 46.75 6.13
2432 3800 4.514569 CGAAAATGTCGCCGCCGG 62.515 66.667 0.00 0.00 44.14 6.13
2440 3808 3.853671 GTGCATCAATGTCCGAAAATGTC 59.146 43.478 0.00 0.00 0.00 3.06
2441 3809 3.255395 TGTGCATCAATGTCCGAAAATGT 59.745 39.130 0.00 0.00 0.00 2.71
2442 3810 3.609373 GTGTGCATCAATGTCCGAAAATG 59.391 43.478 0.00 0.00 0.00 2.32
2443 3811 3.255395 TGTGTGCATCAATGTCCGAAAAT 59.745 39.130 0.00 0.00 0.00 1.82
2444 3812 2.620585 TGTGTGCATCAATGTCCGAAAA 59.379 40.909 0.00 0.00 0.00 2.29
2445 3813 2.225467 TGTGTGCATCAATGTCCGAAA 58.775 42.857 0.00 0.00 0.00 3.46
2446 3814 1.889545 TGTGTGCATCAATGTCCGAA 58.110 45.000 0.00 0.00 0.00 4.30
2447 3815 2.112380 ATGTGTGCATCAATGTCCGA 57.888 45.000 0.00 0.00 0.00 4.55
2448 3816 2.925578 AATGTGTGCATCAATGTCCG 57.074 45.000 0.00 0.00 33.50 4.79
2449 3817 4.082841 TGTGTAATGTGTGCATCAATGTCC 60.083 41.667 0.00 0.00 33.50 4.02
2450 3818 5.045668 TGTGTAATGTGTGCATCAATGTC 57.954 39.130 0.00 0.00 33.50 3.06
2451 3819 5.648178 ATGTGTAATGTGTGCATCAATGT 57.352 34.783 0.00 0.00 33.50 2.71
2452 3820 8.132995 AGAATATGTGTAATGTGTGCATCAATG 58.867 33.333 0.00 0.00 33.50 2.82
2540 3908 3.057736 AGAGACAAGCATGCATTGTGTTC 60.058 43.478 28.42 24.24 40.86 3.18
2547 3915 2.490903 GGTTTCAGAGACAAGCATGCAT 59.509 45.455 21.98 4.57 0.00 3.96
2548 3916 1.881973 GGTTTCAGAGACAAGCATGCA 59.118 47.619 21.98 0.00 0.00 3.96
2549 3917 1.881973 TGGTTTCAGAGACAAGCATGC 59.118 47.619 10.51 10.51 0.00 4.06
2550 3918 4.572985 TTTGGTTTCAGAGACAAGCATG 57.427 40.909 0.00 0.00 30.80 4.06
2653 4087 6.260936 TCACTTTTCTCCATTGTTGAGAAGAC 59.739 38.462 10.94 0.00 46.38 3.01
2674 4204 0.541863 CCGGCCCTGATTACTTCACT 59.458 55.000 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.