Multiple sequence alignment - TraesCS2D01G006200

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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 TraesCS2D01G006200 chr2D 100.000 2708 0 0 1 2708 3003751 3006458 0.000000e+00 5001.0
1 TraesCS2D01G006200 chr2D 80.000 125 22 3 2369 2491 406735262 406735139 3.710000e-14 89.8
2 TraesCS2D01G006200 chr2B 90.993 2054 94 36 1 2031 7685047 7683062 0.000000e+00 2684.0
3 TraesCS2D01G006200 chr2B 93.983 482 25 1 2227 2708 7682981 7682504 0.000000e+00 726.0
4 TraesCS2D01G006200 chr2B 78.571 126 21 6 2369 2491 482712182 482712060 8.040000e-11 78.7
5 TraesCS2D01G006200 chr2A 90.317 1890 119 41 220 2077 2709656 2707799 0.000000e+00 2418.0
6 TraesCS2D01G006200 chr1B 81.795 1181 133 44 552 1719 432379773 432378662 0.000000e+00 915.0
7 TraesCS2D01G006200 chr1B 94.828 58 3 0 414 471 432380232 432380175 1.030000e-14 91.6
8 TraesCS2D01G006200 chr1B 76.429 140 28 5 2353 2490 288650471 288650335 1.350000e-08 71.3
9 TraesCS2D01G006200 chr1D 83.544 948 95 32 827 1773 319618133 319617246 0.000000e+00 830.0
10 TraesCS2D01G006200 chr1D 96.552 58 2 0 414 471 319618755 319618698 2.220000e-16 97.1
11 TraesCS2D01G006200 chr1D 77.358 159 26 10 2337 2490 200717462 200717309 4.800000e-13 86.1
12 TraesCS2D01G006200 chr1A 78.901 1237 116 68 552 1775 403631891 403632995 0.000000e+00 704.0
13 TraesCS2D01G006200 chr1A 76.582 158 29 7 2337 2490 254198379 254198226 2.240000e-11 80.5
14 TraesCS2D01G006200 chr5D 75.388 451 81 23 2266 2706 97528843 97529273 9.900000e-45 191.0
15 TraesCS2D01G006200 chr5A 89.062 64 5 2 2449 2511 106179099 106179037 8.040000e-11 78.7


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 TraesCS2D01G006200 chr2D 3003751 3006458 2707 False 5001.00 5001 100.0000 1 2708 1 chr2D.!!$F1 2707
1 TraesCS2D01G006200 chr2B 7682504 7685047 2543 True 1705.00 2684 92.4880 1 2708 2 chr2B.!!$R2 2707
2 TraesCS2D01G006200 chr2A 2707799 2709656 1857 True 2418.00 2418 90.3170 220 2077 1 chr2A.!!$R1 1857
3 TraesCS2D01G006200 chr1B 432378662 432380232 1570 True 503.30 915 88.3115 414 1719 2 chr1B.!!$R2 1305
4 TraesCS2D01G006200 chr1D 319617246 319618755 1509 True 463.55 830 90.0480 414 1773 2 chr1D.!!$R2 1359
5 TraesCS2D01G006200 chr1A 403631891 403632995 1104 False 704.00 704 78.9010 552 1775 1 chr1A.!!$F1 1223

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
164 166 0.036105 TCACGTGGCAGATGCTCATT 60.036 50.0 17.0 0.0 41.7 2.57 F
1042 1449 0.896226 GTACCACCTCCAGTCTCCAC 59.104 60.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1107 1529 0.465705 GCAGGATGATCTTGGACGGA 59.534 55.0 6.69 0.0 39.69 4.69 R
2199 2669 0.110599 CGCTCGTACTGATAGCTCGG 60.111 60.0 0.00 0.0 34.03 4.63 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
19 21 1.344065 TTCTTTGTCCTCCCTACGCA 58.656 50.000 0.00 0.00 0.00 5.24
20 22 0.606604 TCTTTGTCCTCCCTACGCAC 59.393 55.000 0.00 0.00 0.00 5.34
25 27 0.824759 GTCCTCCCTACGCACAGATT 59.175 55.000 0.00 0.00 0.00 2.40
35 37 5.587043 CCCTACGCACAGATTTGGTTTTATA 59.413 40.000 0.00 0.00 0.00 0.98
42 44 7.429340 CGCACAGATTTGGTTTTATATGACTTC 59.571 37.037 0.00 0.00 0.00 3.01
55 57 3.735237 ATGACTTCGATACTTGCCGAT 57.265 42.857 0.00 0.00 34.58 4.18
56 58 4.848562 ATGACTTCGATACTTGCCGATA 57.151 40.909 0.00 0.00 34.58 2.92
106 108 8.742125 ACAATTAATATGGATCAGAGGGACTA 57.258 34.615 0.00 0.00 41.55 2.59
107 109 9.170890 ACAATTAATATGGATCAGAGGGACTAA 57.829 33.333 0.00 0.00 41.55 2.24
115 117 7.079451 TGGATCAGAGGGACTAATAAAATCC 57.921 40.000 0.00 0.00 41.55 3.01
116 118 6.619437 TGGATCAGAGGGACTAATAAAATCCA 59.381 38.462 0.00 0.00 41.55 3.41
117 119 7.295672 TGGATCAGAGGGACTAATAAAATCCAT 59.704 37.037 0.00 0.00 41.55 3.41
164 166 0.036105 TCACGTGGCAGATGCTCATT 60.036 50.000 17.00 0.00 41.70 2.57
172 174 2.429610 GGCAGATGCTCATTGGTCAATT 59.570 45.455 4.59 0.00 41.70 2.32
209 211 5.444663 AGAACTCATCAAAGAAAAGCCAC 57.555 39.130 0.00 0.00 0.00 5.01
292 294 1.623811 TGTCTCTGGTTCCTTAGCCAC 59.376 52.381 0.00 0.00 0.00 5.01
369 372 2.202810 GCTTCTCTTCCCGCTCCG 60.203 66.667 0.00 0.00 0.00 4.63
400 406 8.496751 GGAGTAACTATTTTCAGTTTCTCACAC 58.503 37.037 18.28 2.17 46.54 3.82
401 407 8.958119 AGTAACTATTTTCAGTTTCTCACACA 57.042 30.769 0.00 0.00 39.45 3.72
404 410 7.807977 ACTATTTTCAGTTTCTCACACACAT 57.192 32.000 0.00 0.00 0.00 3.21
409 415 2.225019 CAGTTTCTCACACACATCCAGC 59.775 50.000 0.00 0.00 0.00 4.85
531 900 2.106338 TCTTGCCACAAGAATGGAGTGA 59.894 45.455 7.54 0.00 43.02 3.41
563 932 7.369803 TCTCTAGATTGCTTTGCTTAACTTG 57.630 36.000 0.00 0.00 0.00 3.16
566 935 7.165485 TCTAGATTGCTTTGCTTAACTTGGTA 58.835 34.615 0.00 0.00 0.00 3.25
934 1336 2.583101 TGGCTTCTTCTCCTCTCCTCTA 59.417 50.000 0.00 0.00 0.00 2.43
935 1337 3.222603 GGCTTCTTCTCCTCTCCTCTAG 58.777 54.545 0.00 0.00 0.00 2.43
948 1355 4.337145 TCTCCTCTAGTCTCTGTGGTTTC 58.663 47.826 0.00 0.00 0.00 2.78
949 1356 3.082548 TCCTCTAGTCTCTGTGGTTTCG 58.917 50.000 0.00 0.00 0.00 3.46
950 1357 2.820787 CCTCTAGTCTCTGTGGTTTCGT 59.179 50.000 0.00 0.00 0.00 3.85
951 1358 3.256136 CCTCTAGTCTCTGTGGTTTCGTT 59.744 47.826 0.00 0.00 0.00 3.85
952 1359 4.230657 CTCTAGTCTCTGTGGTTTCGTTG 58.769 47.826 0.00 0.00 0.00 4.10
953 1360 2.240493 AGTCTCTGTGGTTTCGTTGG 57.760 50.000 0.00 0.00 0.00 3.77
954 1361 1.485066 AGTCTCTGTGGTTTCGTTGGT 59.515 47.619 0.00 0.00 0.00 3.67
955 1362 1.597663 GTCTCTGTGGTTTCGTTGGTG 59.402 52.381 0.00 0.00 0.00 4.17
956 1363 1.483004 TCTCTGTGGTTTCGTTGGTGA 59.517 47.619 0.00 0.00 0.00 4.02
957 1364 2.104111 TCTCTGTGGTTTCGTTGGTGAT 59.896 45.455 0.00 0.00 0.00 3.06
958 1365 2.878406 CTCTGTGGTTTCGTTGGTGATT 59.122 45.455 0.00 0.00 0.00 2.57
959 1366 2.616376 TCTGTGGTTTCGTTGGTGATTG 59.384 45.455 0.00 0.00 0.00 2.67
960 1367 1.678627 TGTGGTTTCGTTGGTGATTGG 59.321 47.619 0.00 0.00 0.00 3.16
961 1368 1.679153 GTGGTTTCGTTGGTGATTGGT 59.321 47.619 0.00 0.00 0.00 3.67
1042 1449 0.896226 GTACCACCTCCAGTCTCCAC 59.104 60.000 0.00 0.00 0.00 4.02
1051 1458 1.257750 CCAGTCTCCACGGACCATCA 61.258 60.000 0.00 0.00 36.95 3.07
1308 1754 4.828296 TACGTCGGCTCCCCCTCC 62.828 72.222 0.00 0.00 0.00 4.30
1316 1762 1.369855 GGCTCCCCCTCCTCCTACTA 61.370 65.000 0.00 0.00 0.00 1.82
1392 1838 4.148825 GTCATCCAGTCCGGCGCT 62.149 66.667 7.64 0.00 33.14 5.92
1745 2191 4.774124 TGGATCGATGCTCTTTTGATCTT 58.226 39.130 18.23 0.00 35.28 2.40
1746 2192 4.813161 TGGATCGATGCTCTTTTGATCTTC 59.187 41.667 18.23 0.00 35.28 2.87
1937 2398 2.331893 CGGCAGGCAATGGTCGAAA 61.332 57.895 0.00 0.00 0.00 3.46
1939 2400 0.109132 GGCAGGCAATGGTCGAAAAG 60.109 55.000 0.00 0.00 0.00 2.27
1973 2437 7.704899 TGTCTAGATATTGTTTGTACATCGTGG 59.295 37.037 0.00 0.00 33.44 4.94
1992 2456 7.776618 TCGTGGATCTCATATATGGTTAACT 57.223 36.000 12.78 0.00 0.00 2.24
2039 2509 4.898265 AGACATAGATGATACTGGTGCTGT 59.102 41.667 0.00 0.00 0.00 4.40
2045 2515 3.057969 TGATACTGGTGCTGTTTCTGG 57.942 47.619 0.00 0.00 0.00 3.86
2069 2539 1.560923 CTTGGTGATTCTCCGTAGCG 58.439 55.000 0.61 0.00 0.00 4.26
2076 2546 0.948678 ATTCTCCGTAGCGCTCTCTC 59.051 55.000 16.34 2.11 0.00 3.20
2077 2547 0.107606 TTCTCCGTAGCGCTCTCTCT 60.108 55.000 16.34 0.00 0.00 3.10
2078 2548 0.531090 TCTCCGTAGCGCTCTCTCTC 60.531 60.000 16.34 0.00 0.00 3.20
2079 2549 0.531974 CTCCGTAGCGCTCTCTCTCT 60.532 60.000 16.34 0.00 0.00 3.10
2080 2550 0.531090 TCCGTAGCGCTCTCTCTCTC 60.531 60.000 16.34 0.00 0.00 3.20
2081 2551 0.531974 CCGTAGCGCTCTCTCTCTCT 60.532 60.000 16.34 0.00 0.00 3.10
2082 2552 0.859232 CGTAGCGCTCTCTCTCTCTC 59.141 60.000 16.34 0.00 0.00 3.20
2083 2553 1.538204 CGTAGCGCTCTCTCTCTCTCT 60.538 57.143 16.34 0.00 0.00 3.10
2084 2554 2.135933 GTAGCGCTCTCTCTCTCTCTC 58.864 57.143 16.34 0.00 0.00 3.20
2085 2555 0.833287 AGCGCTCTCTCTCTCTCTCT 59.167 55.000 2.64 0.00 0.00 3.10
2086 2556 1.202580 AGCGCTCTCTCTCTCTCTCTC 60.203 57.143 2.64 0.00 0.00 3.20
2087 2557 1.202580 GCGCTCTCTCTCTCTCTCTCT 60.203 57.143 0.00 0.00 0.00 3.10
2088 2558 2.748605 CGCTCTCTCTCTCTCTCTCTC 58.251 57.143 0.00 0.00 0.00 3.20
2089 2559 2.363680 CGCTCTCTCTCTCTCTCTCTCT 59.636 54.545 0.00 0.00 0.00 3.10
2090 2560 3.551863 CGCTCTCTCTCTCTCTCTCTCTC 60.552 56.522 0.00 0.00 0.00 3.20
2091 2561 3.640967 GCTCTCTCTCTCTCTCTCTCTCT 59.359 52.174 0.00 0.00 0.00 3.10
2092 2562 4.261994 GCTCTCTCTCTCTCTCTCTCTCTC 60.262 54.167 0.00 0.00 0.00 3.20
2093 2563 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
2094 2564 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2095 2565 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2096 2566 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2097 2567 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2098 2568 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2099 2569 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2100 2570 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2101 2571 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2102 2572 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2103 2573 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2104 2574 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2105 2575 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2106 2576 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2107 2577 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2108 2578 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2109 2579 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2110 2580 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2111 2581 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2112 2582 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2113 2583 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2114 2584 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2115 2585 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2116 2586 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2117 2587 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2118 2588 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2119 2589 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2120 2590 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2121 2591 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2122 2592 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2123 2593 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2124 2594 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2125 2595 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2126 2596 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2127 2597 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2128 2598 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2129 2599 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2130 2600 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2131 2601 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2132 2602 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2133 2603 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2134 2604 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2135 2605 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2136 2606 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2137 2607 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2138 2608 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2139 2609 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2140 2610 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2141 2611 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2142 2612 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2143 2613 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2144 2614 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2145 2615 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2146 2616 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2147 2617 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2194 2664 7.315142 CCATTATAAAGTGTGCTTGTGTTGAT 58.685 34.615 0.00 0.00 34.71 2.57
2195 2665 7.274033 CCATTATAAAGTGTGCTTGTGTTGATG 59.726 37.037 0.00 0.00 34.71 3.07
2196 2666 5.772825 ATAAAGTGTGCTTGTGTTGATGT 57.227 34.783 0.00 0.00 34.71 3.06
2197 2667 3.698029 AAGTGTGCTTGTGTTGATGTC 57.302 42.857 0.00 0.00 32.92 3.06
2198 2668 2.642427 AGTGTGCTTGTGTTGATGTCA 58.358 42.857 0.00 0.00 0.00 3.58
2199 2669 2.355756 AGTGTGCTTGTGTTGATGTCAC 59.644 45.455 0.00 0.00 36.48 3.67
2200 2670 1.675483 TGTGCTTGTGTTGATGTCACC 59.325 47.619 0.00 0.00 35.25 4.02
2201 2671 0.943673 TGCTTGTGTTGATGTCACCG 59.056 50.000 0.00 0.00 35.25 4.94
2202 2672 1.225855 GCTTGTGTTGATGTCACCGA 58.774 50.000 0.00 0.00 35.25 4.69
2203 2673 1.195448 GCTTGTGTTGATGTCACCGAG 59.805 52.381 0.00 0.00 35.25 4.63
2204 2674 1.195448 CTTGTGTTGATGTCACCGAGC 59.805 52.381 0.00 0.00 35.25 5.03
2205 2675 0.392706 TGTGTTGATGTCACCGAGCT 59.607 50.000 0.00 0.00 35.25 4.09
2206 2676 1.616374 TGTGTTGATGTCACCGAGCTA 59.384 47.619 0.00 0.00 35.25 3.32
2207 2677 2.233676 TGTGTTGATGTCACCGAGCTAT 59.766 45.455 0.00 0.00 35.25 2.97
2208 2678 2.860735 GTGTTGATGTCACCGAGCTATC 59.139 50.000 0.00 0.00 0.00 2.08
2209 2679 2.495669 TGTTGATGTCACCGAGCTATCA 59.504 45.455 0.00 0.00 0.00 2.15
2210 2680 3.119291 GTTGATGTCACCGAGCTATCAG 58.881 50.000 0.00 0.00 0.00 2.90
2211 2681 2.379005 TGATGTCACCGAGCTATCAGT 58.621 47.619 0.00 0.00 0.00 3.41
2212 2682 3.551846 TGATGTCACCGAGCTATCAGTA 58.448 45.455 0.00 0.00 0.00 2.74
2213 2683 3.315470 TGATGTCACCGAGCTATCAGTAC 59.685 47.826 0.00 0.00 0.00 2.73
2214 2684 1.669265 TGTCACCGAGCTATCAGTACG 59.331 52.381 0.00 0.00 0.00 3.67
2215 2685 1.938577 GTCACCGAGCTATCAGTACGA 59.061 52.381 0.00 0.00 0.00 3.43
2216 2686 2.032722 GTCACCGAGCTATCAGTACGAG 60.033 54.545 0.00 0.00 0.00 4.18
2217 2687 0.945813 ACCGAGCTATCAGTACGAGC 59.054 55.000 0.00 4.54 36.42 5.03
2218 2688 0.110599 CCGAGCTATCAGTACGAGCG 60.111 60.000 0.00 0.00 41.23 5.03
2219 2689 0.723129 CGAGCTATCAGTACGAGCGC 60.723 60.000 0.00 0.00 41.23 5.92
2220 2690 0.589223 GAGCTATCAGTACGAGCGCT 59.411 55.000 11.27 11.27 41.23 5.92
2221 2691 0.589223 AGCTATCAGTACGAGCGCTC 59.411 55.000 27.64 27.64 41.23 5.03
2222 2692 0.308068 GCTATCAGTACGAGCGCTCA 59.692 55.000 34.69 15.88 0.00 4.26
2223 2693 1.922444 GCTATCAGTACGAGCGCTCAC 60.922 57.143 34.69 25.93 0.00 3.51
2224 2694 1.330829 CTATCAGTACGAGCGCTCACA 59.669 52.381 34.69 19.99 0.00 3.58
2225 2695 0.179161 ATCAGTACGAGCGCTCACAC 60.179 55.000 34.69 28.77 0.00 3.82
2266 2736 3.907474 TCTCCCATGTTTCCTCTGTTACA 59.093 43.478 0.00 0.00 0.00 2.41
2295 2765 6.071447 CCAGTTGATTTGGTTTGATATCCACA 60.071 38.462 0.00 0.00 33.12 4.17
2350 2820 0.768622 TGAAGTGGTCCATTTCCCGT 59.231 50.000 20.94 0.00 30.66 5.28
2363 2833 5.482175 TCCATTTCCCGTGAAACCAAATTAT 59.518 36.000 0.00 0.00 42.97 1.28
2364 2834 6.663953 TCCATTTCCCGTGAAACCAAATTATA 59.336 34.615 0.00 0.00 42.97 0.98
2368 2838 8.577048 TTTCCCGTGAAACCAAATTATACATA 57.423 30.769 0.00 0.00 35.58 2.29
2377 2847 9.476202 GAAACCAAATTATACATAGGGATTTGC 57.524 33.333 0.00 0.00 36.74 3.68
2446 2916 9.853177 ATATTTTAAGAATATCCGGGATGATCC 57.147 33.333 19.82 1.94 35.23 3.36
2447 2917 6.696042 TTTAAGAATATCCGGGATGATCCA 57.304 37.500 19.82 0.00 38.64 3.41
2512 2982 1.967779 TCCCAAAGCTTAAACCTTGGC 59.032 47.619 0.00 0.00 0.00 4.52
2545 3015 6.199393 AGCAAGAAACAAAATCGTAAGTGAC 58.801 36.000 0.00 0.00 39.48 3.67
2584 3054 9.801873 ACCGAAATAATATGAAGGTTTTGATTG 57.198 29.630 0.00 0.00 0.00 2.67
2594 3064 7.129109 TGAAGGTTTTGATTGACTTACGATC 57.871 36.000 0.00 0.00 39.26 3.69
2638 3108 7.060421 TCCACTTTCTTCACCTGAAAAGTTAT 58.940 34.615 3.38 0.00 34.61 1.89
2668 3138 6.530534 GCTATAGCGACGACAATGGTTATTAT 59.469 38.462 9.40 0.00 0.00 1.28
2675 3145 4.947388 ACGACAATGGTTATTATGCAACCT 59.053 37.500 6.10 0.00 44.83 3.50
2676 3146 5.417580 ACGACAATGGTTATTATGCAACCTT 59.582 36.000 6.10 0.00 44.83 3.50
2677 3147 5.743398 CGACAATGGTTATTATGCAACCTTG 59.257 40.000 6.10 9.54 44.83 3.61
2678 3148 6.603940 ACAATGGTTATTATGCAACCTTGT 57.396 33.333 6.10 10.05 44.83 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 19 7.429340 CGAAGTCATATAAAACCAAATCTGTGC 59.571 37.037 0.00 0.00 0.00 4.57
19 21 8.786826 TCGAAGTCATATAAAACCAAATCTGT 57.213 30.769 0.00 0.00 0.00 3.41
25 27 8.609176 GCAAGTATCGAAGTCATATAAAACCAA 58.391 33.333 0.00 0.00 0.00 3.67
35 37 3.735237 ATCGGCAAGTATCGAAGTCAT 57.265 42.857 0.00 0.00 38.92 3.06
42 44 9.188588 TCTAAAATTAACTATCGGCAAGTATCG 57.811 33.333 0.00 0.00 0.00 2.92
78 80 9.220767 GTCCCTCTGATCCATATTAATTGTTAC 57.779 37.037 0.00 0.00 0.00 2.50
80 82 8.050316 AGTCCCTCTGATCCATATTAATTGTT 57.950 34.615 0.00 0.00 0.00 2.83
81 83 7.639062 AGTCCCTCTGATCCATATTAATTGT 57.361 36.000 0.00 0.00 0.00 2.71
92 94 7.079451 TGGATTTTATTAGTCCCTCTGATCC 57.921 40.000 0.00 0.00 0.00 3.36
97 99 9.413734 CAAAAGATGGATTTTATTAGTCCCTCT 57.586 33.333 0.00 0.00 38.24 3.69
109 111 9.617523 AGATGTTTTTGACAAAAGATGGATTTT 57.382 25.926 12.84 0.00 42.62 1.82
110 112 9.264719 GAGATGTTTTTGACAAAAGATGGATTT 57.735 29.630 12.84 0.00 42.62 2.17
111 113 7.874528 GGAGATGTTTTTGACAAAAGATGGATT 59.125 33.333 12.84 0.00 42.62 3.01
112 114 7.381323 GGAGATGTTTTTGACAAAAGATGGAT 58.619 34.615 12.84 3.40 42.62 3.41
113 115 6.239289 GGGAGATGTTTTTGACAAAAGATGGA 60.239 38.462 12.84 0.00 42.62 3.41
114 116 5.928264 GGGAGATGTTTTTGACAAAAGATGG 59.072 40.000 12.84 0.00 42.62 3.51
115 117 6.421801 GTGGGAGATGTTTTTGACAAAAGATG 59.578 38.462 12.84 0.00 42.62 2.90
116 118 6.324770 AGTGGGAGATGTTTTTGACAAAAGAT 59.675 34.615 12.84 9.52 42.62 2.40
117 119 5.656416 AGTGGGAGATGTTTTTGACAAAAGA 59.344 36.000 12.84 5.39 42.62 2.52
188 190 4.024048 TCGTGGCTTTTCTTTGATGAGTTC 60.024 41.667 0.00 0.00 0.00 3.01
189 191 3.882888 TCGTGGCTTTTCTTTGATGAGTT 59.117 39.130 0.00 0.00 0.00 3.01
209 211 2.034076 CTTGAACGCGTTCCTTTTTCG 58.966 47.619 40.08 20.62 38.77 3.46
351 354 2.716017 CGGAGCGGGAAGAGAAGCT 61.716 63.158 0.00 0.00 43.33 3.74
369 372 3.203716 CTGAAAATAGTTACTCCGGCCC 58.796 50.000 0.00 0.00 0.00 5.80
382 388 6.770303 TGGATGTGTGTGAGAAACTGAAAATA 59.230 34.615 0.00 0.00 0.00 1.40
400 406 0.321564 TTTCGTGGGAGCTGGATGTG 60.322 55.000 0.00 0.00 0.00 3.21
401 407 0.400213 TTTTCGTGGGAGCTGGATGT 59.600 50.000 0.00 0.00 0.00 3.06
404 410 3.343617 CTTAATTTTCGTGGGAGCTGGA 58.656 45.455 0.00 0.00 0.00 3.86
409 415 4.672801 GCTCAAGCTTAATTTTCGTGGGAG 60.673 45.833 0.00 0.00 38.21 4.30
542 911 6.259550 ACCAAGTTAAGCAAAGCAATCTAG 57.740 37.500 0.00 0.00 0.00 2.43
544 913 5.183904 CCTACCAAGTTAAGCAAAGCAATCT 59.816 40.000 0.00 0.00 0.00 2.40
550 919 4.906618 TCCTCCTACCAAGTTAAGCAAAG 58.093 43.478 0.00 0.00 0.00 2.77
563 932 2.158885 GGAATGTGCTCTTCCTCCTACC 60.159 54.545 8.74 0.00 39.30 3.18
566 935 1.558756 CTGGAATGTGCTCTTCCTCCT 59.441 52.381 14.11 0.00 42.27 3.69
693 1077 2.203470 AAATTCGGGGTAAAGGCGAA 57.797 45.000 0.00 0.00 0.00 4.70
844 1243 4.533311 ACGAAGTAATGGAGGTAAAAGGGA 59.467 41.667 0.00 0.00 41.94 4.20
845 1244 4.840271 ACGAAGTAATGGAGGTAAAAGGG 58.160 43.478 0.00 0.00 41.94 3.95
934 1336 1.485066 ACCAACGAAACCACAGAGACT 59.515 47.619 0.00 0.00 0.00 3.24
935 1337 1.597663 CACCAACGAAACCACAGAGAC 59.402 52.381 0.00 0.00 0.00 3.36
948 1355 0.237235 CCAACGACCAATCACCAACG 59.763 55.000 0.00 0.00 0.00 4.10
949 1356 1.001815 CACCAACGACCAATCACCAAC 60.002 52.381 0.00 0.00 0.00 3.77
950 1357 1.134068 TCACCAACGACCAATCACCAA 60.134 47.619 0.00 0.00 0.00 3.67
951 1358 0.470341 TCACCAACGACCAATCACCA 59.530 50.000 0.00 0.00 0.00 4.17
952 1359 1.821216 ATCACCAACGACCAATCACC 58.179 50.000 0.00 0.00 0.00 4.02
953 1360 2.095263 CCAATCACCAACGACCAATCAC 60.095 50.000 0.00 0.00 0.00 3.06
954 1361 2.158559 CCAATCACCAACGACCAATCA 58.841 47.619 0.00 0.00 0.00 2.57
955 1362 2.159382 ACCAATCACCAACGACCAATC 58.841 47.619 0.00 0.00 0.00 2.67
956 1363 2.286365 ACCAATCACCAACGACCAAT 57.714 45.000 0.00 0.00 0.00 3.16
957 1364 1.678627 CAACCAATCACCAACGACCAA 59.321 47.619 0.00 0.00 0.00 3.67
958 1365 1.313772 CAACCAATCACCAACGACCA 58.686 50.000 0.00 0.00 0.00 4.02
959 1366 1.314730 ACAACCAATCACCAACGACC 58.685 50.000 0.00 0.00 0.00 4.79
960 1367 2.726633 CAACAACCAATCACCAACGAC 58.273 47.619 0.00 0.00 0.00 4.34
961 1368 1.066303 GCAACAACCAATCACCAACGA 59.934 47.619 0.00 0.00 0.00 3.85
1042 1449 2.158914 TGATCTTGGTGATGATGGTCCG 60.159 50.000 0.00 0.00 35.14 4.79
1051 1458 4.432980 TCATGCTGATGATCTTGGTGAT 57.567 40.909 0.00 0.00 33.40 3.06
1095 1502 4.570663 GACGGAGGCGGTGGATCG 62.571 72.222 0.00 0.00 0.00 3.69
1096 1503 4.222847 GGACGGAGGCGGTGGATC 62.223 72.222 0.00 0.00 0.00 3.36
1099 1506 4.760047 CTTGGACGGAGGCGGTGG 62.760 72.222 0.00 0.00 0.00 4.61
1100 1507 2.907897 GATCTTGGACGGAGGCGGTG 62.908 65.000 0.00 0.00 0.00 4.94
1101 1508 2.683933 ATCTTGGACGGAGGCGGT 60.684 61.111 0.00 0.00 0.00 5.68
1107 1529 0.465705 GCAGGATGATCTTGGACGGA 59.534 55.000 6.69 0.00 39.69 4.69
1152 1598 4.481617 ATGGCGGCGCACCACATA 62.482 61.111 34.36 10.30 40.82 2.29
1302 1748 1.400737 CGTTGTAGTAGGAGGAGGGG 58.599 60.000 0.00 0.00 0.00 4.79
1308 1754 0.806868 TGTCGCCGTTGTAGTAGGAG 59.193 55.000 0.00 0.00 0.00 3.69
1392 1838 1.595993 CCCGGAAGAAGAGCTCGACA 61.596 60.000 0.73 0.00 0.00 4.35
1527 1973 1.521010 CATCTGGCTGAGCAGGTCG 60.521 63.158 6.82 0.00 0.00 4.79
1538 1984 1.093159 CTTGTTGCTCCTCATCTGGC 58.907 55.000 0.00 0.00 0.00 4.85
1935 2396 7.052873 ACAATATCTAGACAGCTGCATCTTTT 58.947 34.615 15.27 1.71 0.00 2.27
1937 2398 6.172136 ACAATATCTAGACAGCTGCATCTT 57.828 37.500 15.27 0.00 0.00 2.40
1939 2400 6.259608 ACAAACAATATCTAGACAGCTGCATC 59.740 38.462 15.27 4.72 0.00 3.91
2014 2479 4.898265 AGCACCAGTATCATCTATGTCTGT 59.102 41.667 0.00 0.00 0.00 3.41
2039 2509 0.482446 ATCACCAAGGCCACCAGAAA 59.518 50.000 5.01 0.00 0.00 2.52
2045 2515 1.026718 CGGAGAATCACCAAGGCCAC 61.027 60.000 5.01 0.00 36.25 5.01
2069 2539 3.640967 AGAGAGAGAGAGAGAGAGAGAGC 59.359 52.174 0.00 0.00 0.00 4.09
2076 2546 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2077 2547 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2078 2548 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2079 2549 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2080 2550 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2081 2551 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2082 2552 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2083 2553 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2084 2554 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2085 2555 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2086 2556 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2087 2557 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2088 2558 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2089 2559 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2090 2560 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2091 2561 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2092 2562 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2093 2563 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2094 2564 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2095 2565 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2096 2566 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2097 2567 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2098 2568 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2099 2569 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2100 2570 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2101 2571 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2102 2572 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2103 2573 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2104 2574 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2105 2575 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2106 2576 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2107 2577 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2108 2578 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2109 2579 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2110 2580 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2111 2581 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2112 2582 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2113 2583 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2114 2584 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2115 2585 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2116 2586 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2117 2587 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2118 2588 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2119 2589 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2120 2590 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2121 2591 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2122 2592 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2123 2593 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2124 2594 5.009911 CAGAGAGAGAGAGAGAGAGAGAGAG 59.990 52.000 0.00 0.00 0.00 3.20
2125 2595 4.892345 CAGAGAGAGAGAGAGAGAGAGAGA 59.108 50.000 0.00 0.00 0.00 3.10
2126 2596 4.648762 ACAGAGAGAGAGAGAGAGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
2127 2597 4.614475 ACAGAGAGAGAGAGAGAGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
2128 2598 5.114780 CAACAGAGAGAGAGAGAGAGAGAG 58.885 50.000 0.00 0.00 0.00 3.20
2129 2599 4.623886 GCAACAGAGAGAGAGAGAGAGAGA 60.624 50.000 0.00 0.00 0.00 3.10
2130 2600 3.624861 GCAACAGAGAGAGAGAGAGAGAG 59.375 52.174 0.00 0.00 0.00 3.20
2131 2601 3.008923 TGCAACAGAGAGAGAGAGAGAGA 59.991 47.826 0.00 0.00 0.00 3.10
2132 2602 3.346315 TGCAACAGAGAGAGAGAGAGAG 58.654 50.000 0.00 0.00 0.00 3.20
2133 2603 3.431673 TGCAACAGAGAGAGAGAGAGA 57.568 47.619 0.00 0.00 0.00 3.10
2134 2604 4.517952 TTTGCAACAGAGAGAGAGAGAG 57.482 45.455 0.00 0.00 0.00 3.20
2135 2605 4.322574 CCATTTGCAACAGAGAGAGAGAGA 60.323 45.833 0.00 0.00 0.00 3.10
2136 2606 3.933955 CCATTTGCAACAGAGAGAGAGAG 59.066 47.826 0.00 0.00 0.00 3.20
2137 2607 3.867600 GCCATTTGCAACAGAGAGAGAGA 60.868 47.826 0.00 0.00 40.77 3.10
2138 2608 2.419324 GCCATTTGCAACAGAGAGAGAG 59.581 50.000 0.00 0.00 40.77 3.20
2139 2609 2.430465 GCCATTTGCAACAGAGAGAGA 58.570 47.619 0.00 0.00 40.77 3.10
2140 2610 2.915738 GCCATTTGCAACAGAGAGAG 57.084 50.000 0.00 0.00 40.77 3.20
2160 2630 3.394606 ACACTTTATAATGGGCCCGAGAT 59.605 43.478 19.37 12.32 0.00 2.75
2171 2641 7.885297 ACATCAACACAAGCACACTTTATAAT 58.115 30.769 0.00 0.00 32.29 1.28
2194 2664 1.669265 CGTACTGATAGCTCGGTGACA 59.331 52.381 0.00 0.00 41.22 3.58
2195 2665 1.938577 TCGTACTGATAGCTCGGTGAC 59.061 52.381 0.00 0.00 41.22 3.67
2196 2666 2.210961 CTCGTACTGATAGCTCGGTGA 58.789 52.381 0.00 0.00 41.22 4.02
2197 2667 1.334239 GCTCGTACTGATAGCTCGGTG 60.334 57.143 0.00 0.00 41.22 4.94
2198 2668 0.945813 GCTCGTACTGATAGCTCGGT 59.054 55.000 0.00 0.00 43.53 4.69
2199 2669 0.110599 CGCTCGTACTGATAGCTCGG 60.111 60.000 0.00 0.00 34.03 4.63
2200 2670 0.723129 GCGCTCGTACTGATAGCTCG 60.723 60.000 0.00 0.00 34.03 5.03
2201 2671 0.589223 AGCGCTCGTACTGATAGCTC 59.411 55.000 2.64 0.00 35.22 4.09
2202 2672 0.589223 GAGCGCTCGTACTGATAGCT 59.411 55.000 23.61 12.79 40.48 3.32
2203 2673 0.308068 TGAGCGCTCGTACTGATAGC 59.692 55.000 30.75 5.13 0.00 2.97
2204 2674 1.330829 TGTGAGCGCTCGTACTGATAG 59.669 52.381 30.75 0.00 0.00 2.08
2205 2675 1.063616 GTGTGAGCGCTCGTACTGATA 59.936 52.381 30.75 9.36 0.00 2.15
2206 2676 0.179161 GTGTGAGCGCTCGTACTGAT 60.179 55.000 30.75 0.00 0.00 2.90
2207 2677 1.209383 GTGTGAGCGCTCGTACTGA 59.791 57.895 30.75 10.94 0.00 3.41
2208 2678 0.794981 GAGTGTGAGCGCTCGTACTG 60.795 60.000 35.90 0.00 41.62 2.74
2209 2679 1.502640 GAGTGTGAGCGCTCGTACT 59.497 57.895 33.13 33.13 41.62 2.73
2210 2680 4.059136 GAGTGTGAGCGCTCGTAC 57.941 61.111 30.75 28.58 41.62 3.67
2214 2684 1.514443 GGTACGAGTGTGAGCGCTC 60.514 63.158 30.42 30.42 45.93 5.03
2215 2685 2.201436 CTGGTACGAGTGTGAGCGCT 62.201 60.000 11.27 11.27 38.31 5.92
2216 2686 1.801913 CTGGTACGAGTGTGAGCGC 60.802 63.158 0.00 0.00 0.00 5.92
2217 2687 0.452184 ATCTGGTACGAGTGTGAGCG 59.548 55.000 4.70 0.00 0.00 5.03
2218 2688 1.914634 CATCTGGTACGAGTGTGAGC 58.085 55.000 4.70 0.00 0.00 4.26
2219 2689 1.469940 GGCATCTGGTACGAGTGTGAG 60.470 57.143 13.85 0.98 0.00 3.51
2220 2690 0.530744 GGCATCTGGTACGAGTGTGA 59.469 55.000 13.85 0.00 0.00 3.58
2221 2691 0.246360 TGGCATCTGGTACGAGTGTG 59.754 55.000 4.70 6.71 0.00 3.82
2222 2692 1.137086 GATGGCATCTGGTACGAGTGT 59.863 52.381 20.08 0.00 0.00 3.55
2223 2693 1.410517 AGATGGCATCTGGTACGAGTG 59.589 52.381 28.33 4.32 38.44 3.51
2224 2694 1.781786 AGATGGCATCTGGTACGAGT 58.218 50.000 28.33 1.54 38.44 4.18
2225 2695 2.363680 AGAAGATGGCATCTGGTACGAG 59.636 50.000 29.43 0.00 40.13 4.18
2266 2736 3.909732 TCAAACCAAATCAACTGGAGGT 58.090 40.909 0.00 0.00 37.40 3.85
2330 2800 1.354368 ACGGGAAATGGACCACTTCAT 59.646 47.619 16.99 0.00 0.00 2.57
2332 2802 1.165270 CACGGGAAATGGACCACTTC 58.835 55.000 7.15 7.15 0.00 3.01
2436 2906 4.436852 CGTTGTTTAAACTGGATCATCCCG 60.437 45.833 18.72 0.00 35.03 5.14
2445 2915 5.583495 TCATTTCACCGTTGTTTAAACTGG 58.417 37.500 18.72 18.10 0.00 4.00
2446 2916 6.196353 CACTCATTTCACCGTTGTTTAAACTG 59.804 38.462 18.72 8.75 0.00 3.16
2447 2917 6.127842 ACACTCATTTCACCGTTGTTTAAACT 60.128 34.615 18.72 0.00 0.00 2.66
2491 2961 2.288825 GCCAAGGTTTAAGCTTTGGGAC 60.289 50.000 26.96 12.99 32.99 4.46
2512 2982 2.154854 TGTTTCTTGCTCGAGGACAG 57.845 50.000 15.58 11.57 0.00 3.51
2584 3054 3.562973 TCTGGTCATACCGATCGTAAGTC 59.437 47.826 15.09 2.30 42.58 3.01
2594 3064 1.546476 GAGGGCTATCTGGTCATACCG 59.454 57.143 0.00 0.00 42.58 4.02
2638 3108 1.314730 TGTCGTCGCTATAGCCATGA 58.685 50.000 19.00 14.27 37.91 3.07
2668 3138 1.036707 GTTGGCCTAACAAGGTTGCA 58.963 50.000 3.32 0.00 39.16 4.08
2677 3147 9.524106 GGTTTATGTTAAATATGTTGGCCTAAC 57.476 33.333 3.32 7.72 39.80 2.34
2678 3148 9.482175 AGGTTTATGTTAAATATGTTGGCCTAA 57.518 29.630 3.32 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.