Multiple sequence alignment - TraesCS1D01G161600

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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 TraesCS1D01G161600 chr1D 100.000 2295 0 0 1 2295 228745537 228747831 0.000000e+00 4239.0
1 TraesCS1D01G161600 chr1D 95.840 673 27 1 1 672 208570503 208569831 0.000000e+00 1086.0
2 TraesCS1D01G161600 chr1D 85.938 1024 77 17 1 988 254561849 254560857 0.000000e+00 1031.0
3 TraesCS1D01G161600 chr1D 92.399 421 14 5 1055 1469 254560857 254560449 3.290000e-163 584.0
4 TraesCS1D01G161600 chr1D 96.703 182 6 0 2114 2295 98877743 98877562 1.030000e-78 303.0
5 TraesCS1D01G161600 chr1D 96.703 182 6 0 2114 2295 438542682 438542501 1.030000e-78 303.0
6 TraesCS1D01G161600 chr1D 78.706 479 75 16 995 1466 81069207 81069665 6.200000e-76 294.0
7 TraesCS1D01G161600 chr1D 87.162 148 12 4 1174 1316 450148347 450148492 6.560000e-36 161.0
8 TraesCS1D01G161600 chr5D 92.349 1477 81 16 1 1469 9751037 9752489 0.000000e+00 2073.0
9 TraesCS1D01G161600 chr5D 94.352 602 30 4 1470 2070 179596883 179597481 0.000000e+00 920.0
10 TraesCS1D01G161600 chr5D 96.703 182 6 0 2114 2295 234647986 234648167 1.030000e-78 303.0
11 TraesCS1D01G161600 chr5D 80.045 441 61 17 1037 1470 561692016 561692436 3.710000e-78 302.0
12 TraesCS1D01G161600 chr5D 82.117 274 46 3 695 967 292726897 292726626 4.930000e-57 231.0
13 TraesCS1D01G161600 chr5A 89.317 1507 116 16 1 1472 144294332 144295828 0.000000e+00 1849.0
14 TraesCS1D01G161600 chr4D 95.017 602 27 3 1470 2070 302774479 302773880 0.000000e+00 942.0
15 TraesCS1D01G161600 chr4D 94.362 603 27 7 1470 2070 319382492 319381895 0.000000e+00 918.0
16 TraesCS1D01G161600 chr4D 96.703 182 6 0 2114 2295 448751480 448751661 1.030000e-78 303.0
17 TraesCS1D01G161600 chr3D 94.684 602 29 3 1470 2070 399133311 399132712 0.000000e+00 931.0
18 TraesCS1D01G161600 chr3D 94.343 601 30 2 1470 2070 267731748 267731152 0.000000e+00 918.0
19 TraesCS1D01G161600 chr3D 97.222 180 5 0 2114 2293 287464426 287464605 2.860000e-79 305.0
20 TraesCS1D01G161600 chr4B 94.352 602 32 2 1470 2070 402044352 402044952 0.000000e+00 922.0
21 TraesCS1D01G161600 chr4B 78.182 495 82 14 993 1470 460376136 460376621 2.230000e-75 292.0
22 TraesCS1D01G161600 chr2D 94.352 602 29 3 1470 2070 196897247 196896650 0.000000e+00 918.0
23 TraesCS1D01G161600 chr2D 97.253 182 5 0 2114 2295 167724003 167723822 2.210000e-80 309.0
24 TraesCS1D01G161600 chr3B 94.343 601 29 4 1473 2070 123402939 123402341 0.000000e+00 917.0
25 TraesCS1D01G161600 chr3B 84.553 615 76 10 4 604 682215591 682214982 1.960000e-165 592.0
26 TraesCS1D01G161600 chr3B 83.917 628 73 12 4 604 682161306 682160680 1.980000e-160 575.0
27 TraesCS1D01G161600 chr3B 83.802 605 81 8 14 604 682234172 682233571 1.990000e-155 558.0
28 TraesCS1D01G161600 chr3B 85.657 502 60 5 115 604 682170872 682170371 3.380000e-143 518.0
29 TraesCS1D01G161600 chr3B 87.560 209 22 3 4 210 682233015 682232809 2.950000e-59 239.0
30 TraesCS1D01G161600 chr3B 87.719 171 17 3 4 172 682182342 682182174 1.800000e-46 196.0
31 TraesCS1D01G161600 chr2B 94.196 603 31 4 1470 2070 494235542 494236142 0.000000e+00 917.0
32 TraesCS1D01G161600 chr2B 84.786 677 60 23 47 694 631602782 631603444 6.910000e-180 640.0
33 TraesCS1D01G161600 chr2B 89.871 464 39 3 1012 1469 631603704 631604165 7.060000e-165 590.0
34 TraesCS1D01G161600 chr2B 88.028 142 16 1 705 845 631603569 631603710 1.410000e-37 167.0
35 TraesCS1D01G161600 chr7A 85.733 757 80 9 696 1426 712409445 712408691 0.000000e+00 774.0
36 TraesCS1D01G161600 chr7A 83.824 476 45 14 226 697 712409925 712409478 7.580000e-115 424.0
37 TraesCS1D01G161600 chr1B 84.991 573 64 12 48 604 643949986 643950552 1.540000e-156 562.0
38 TraesCS1D01G161600 chr2A 80.800 500 64 21 990 1469 702409765 702410252 1.680000e-96 363.0
39 TraesCS1D01G161600 chr1A 80.762 499 66 20 990 1469 353279826 353280313 1.680000e-96 363.0
40 TraesCS1D01G161600 chr4A 86.076 316 35 5 814 1125 608363939 608364249 4.730000e-87 331.0
41 TraesCS1D01G161600 chr6A 97.253 182 5 0 2114 2295 64039793 64039974 2.210000e-80 309.0
42 TraesCS1D01G161600 chr6A 78.557 485 73 21 993 1469 93165762 93165301 8.020000e-75 291.0
43 TraesCS1D01G161600 chr7D 96.703 182 6 0 2114 2295 190667921 190667740 1.030000e-78 303.0
44 TraesCS1D01G161600 chr6D 96.703 182 6 0 2114 2295 347235778 347235597 1.030000e-78 303.0
45 TraesCS1D01G161600 chr6D 92.308 39 3 0 1431 1469 84301362 84301324 3.190000e-04 56.5
46 TraesCS1D01G161600 chr5B 72.378 286 65 12 693 972 655444557 655444834 6.800000e-11 78.7
47 TraesCS1D01G161600 chrUn 86.364 66 9 0 1404 1469 276684781 276684716 3.160000e-09 73.1
48 TraesCS1D01G161600 chrUn 86.364 66 9 0 1404 1469 276739035 276739100 3.160000e-09 73.1
49 TraesCS1D01G161600 chrUn 86.364 66 9 0 1404 1469 346460387 346460322 3.160000e-09 73.1


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 TraesCS1D01G161600 chr1D 228745537 228747831 2294 False 4239.000000 4239 100.000000 1 2295 1 chr1D.!!$F2 2294
1 TraesCS1D01G161600 chr1D 208569831 208570503 672 True 1086.000000 1086 95.840000 1 672 1 chr1D.!!$R2 671
2 TraesCS1D01G161600 chr1D 254560449 254561849 1400 True 807.500000 1031 89.168500 1 1469 2 chr1D.!!$R4 1468
3 TraesCS1D01G161600 chr5D 9751037 9752489 1452 False 2073.000000 2073 92.349000 1 1469 1 chr5D.!!$F1 1468
4 TraesCS1D01G161600 chr5D 179596883 179597481 598 False 920.000000 920 94.352000 1470 2070 1 chr5D.!!$F2 600
5 TraesCS1D01G161600 chr5A 144294332 144295828 1496 False 1849.000000 1849 89.317000 1 1472 1 chr5A.!!$F1 1471
6 TraesCS1D01G161600 chr4D 302773880 302774479 599 True 942.000000 942 95.017000 1470 2070 1 chr4D.!!$R1 600
7 TraesCS1D01G161600 chr4D 319381895 319382492 597 True 918.000000 918 94.362000 1470 2070 1 chr4D.!!$R2 600
8 TraesCS1D01G161600 chr3D 399132712 399133311 599 True 931.000000 931 94.684000 1470 2070 1 chr3D.!!$R2 600
9 TraesCS1D01G161600 chr3D 267731152 267731748 596 True 918.000000 918 94.343000 1470 2070 1 chr3D.!!$R1 600
10 TraesCS1D01G161600 chr4B 402044352 402044952 600 False 922.000000 922 94.352000 1470 2070 1 chr4B.!!$F1 600
11 TraesCS1D01G161600 chr2D 196896650 196897247 597 True 918.000000 918 94.352000 1470 2070 1 chr2D.!!$R2 600
12 TraesCS1D01G161600 chr3B 123402341 123402939 598 True 917.000000 917 94.343000 1473 2070 1 chr3B.!!$R1 597
13 TraesCS1D01G161600 chr3B 682214982 682215591 609 True 592.000000 592 84.553000 4 604 1 chr3B.!!$R5 600
14 TraesCS1D01G161600 chr3B 682160680 682161306 626 True 575.000000 575 83.917000 4 604 1 chr3B.!!$R2 600
15 TraesCS1D01G161600 chr3B 682170371 682170872 501 True 518.000000 518 85.657000 115 604 1 chr3B.!!$R3 489
16 TraesCS1D01G161600 chr3B 682232809 682234172 1363 True 398.500000 558 85.681000 4 604 2 chr3B.!!$R6 600
17 TraesCS1D01G161600 chr2B 494235542 494236142 600 False 917.000000 917 94.196000 1470 2070 1 chr2B.!!$F1 600
18 TraesCS1D01G161600 chr2B 631602782 631604165 1383 False 465.666667 640 87.561667 47 1469 3 chr2B.!!$F2 1422
19 TraesCS1D01G161600 chr7A 712408691 712409925 1234 True 599.000000 774 84.778500 226 1426 2 chr7A.!!$R1 1200
20 TraesCS1D01G161600 chr1B 643949986 643950552 566 False 562.000000 562 84.991000 48 604 1 chr1B.!!$F1 556

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
678 737 0.45395 GCATGTGCTTTGACTCTGCG 60.454 55.0 0.0 0.0 38.21 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2240 2631 0.035152 ATGCGATCCCAGTGCAGAAA 60.035 50.0 0.0 0.0 42.65 2.52 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
220 247 2.082231 GCTTCATCTCTTTGCTCAGCA 58.918 47.619 0.00 0.00 36.47 4.41
268 296 8.666129 TCGAATATACCTCCCTTATTCAGATT 57.334 34.615 0.00 0.00 33.78 2.40
474 527 1.565156 TTGTCAATCACAGCGCGGAC 61.565 55.000 16.26 9.27 35.97 4.79
483 536 1.599071 CACAGCGCGGACATATTCATT 59.401 47.619 16.26 0.00 0.00 2.57
550 607 5.191722 TGGACCTAAGGATAAAAGTGATGCT 59.808 40.000 0.00 0.00 0.00 3.79
657 715 4.456911 AGTGATCAATCTGTTGCAATCGTT 59.543 37.500 0.59 0.00 35.26 3.85
678 737 0.453950 GCATGTGCTTTGACTCTGCG 60.454 55.000 0.00 0.00 38.21 5.18
770 971 2.412325 GCCATTGTTTCGAGTAACACGG 60.412 50.000 2.18 7.49 37.72 4.94
774 975 2.462889 TGTTTCGAGTAACACGGTGTC 58.537 47.619 15.09 2.88 33.31 3.67
845 1048 9.883142 ATTCTAGAAACTGAGAATACTTTCCAG 57.117 33.333 9.71 0.00 39.96 3.86
855 1058 9.846248 CTGAGAATACTTTCCAGGTTAATTTTG 57.154 33.333 0.00 0.00 31.68 2.44
856 1059 9.362151 TGAGAATACTTTCCAGGTTAATTTTGT 57.638 29.630 0.00 0.00 31.84 2.83
879 1085 8.586570 TGTTTTTGTTTTGGTTGATATAGCAG 57.413 30.769 0.00 0.00 0.00 4.24
883 1089 6.741992 TGTTTTGGTTGATATAGCAGTCAG 57.258 37.500 0.00 0.00 0.00 3.51
991 1217 8.180267 CACTGAATCATATTGAACCTGAGAAAC 58.820 37.037 0.00 0.00 0.00 2.78
1058 1341 3.002791 TGGAGATTTTCGAGCATGTCAC 58.997 45.455 0.00 0.00 0.00 3.67
1068 1351 2.156504 CGAGCATGTCACAGAAGTTGAC 59.843 50.000 0.00 0.00 0.00 3.18
1069 1352 3.133691 GAGCATGTCACAGAAGTTGACA 58.866 45.455 7.58 7.58 45.07 3.58
1157 1442 5.564127 GCTTTTCAAAGACGAAATTACCGAG 59.436 40.000 3.35 0.00 38.28 4.63
1436 1727 1.761198 GGCCCCAAGTATAAGTCTCGT 59.239 52.381 0.00 0.00 0.00 4.18
1557 1850 4.591321 TGCCATCTTAGTTTCCCAATCT 57.409 40.909 0.00 0.00 0.00 2.40
1567 1860 4.079253 AGTTTCCCAATCTTACACGCATT 58.921 39.130 0.00 0.00 0.00 3.56
1602 1895 6.021596 GTGTTTTTCTGTATGTATTCCGCTG 58.978 40.000 0.00 0.00 0.00 5.18
1707 2001 5.065218 GTCTGGATTACATGTCGCAGAAAAT 59.935 40.000 0.00 0.00 39.69 1.82
1709 2003 4.096231 TGGATTACATGTCGCAGAAAATGG 59.904 41.667 0.00 0.00 39.69 3.16
1710 2004 4.335315 GGATTACATGTCGCAGAAAATGGA 59.665 41.667 0.00 0.00 39.69 3.41
1711 2005 5.009010 GGATTACATGTCGCAGAAAATGGAT 59.991 40.000 0.00 0.00 39.69 3.41
1721 2015 6.980397 GTCGCAGAAAATGGATAAAATGGATT 59.020 34.615 0.00 0.00 39.69 3.01
1765 2147 6.743208 GCCTAGACCCATCCATTTATTTACGA 60.743 42.308 0.00 0.00 0.00 3.43
1829 2220 8.046867 TCTTCAGTACCTATTCCATCTCTCTA 57.953 38.462 0.00 0.00 0.00 2.43
1878 2269 6.881065 GCACCATTCTTCTATATAAGGCATGA 59.119 38.462 0.00 0.00 0.00 3.07
2029 2420 9.553064 CAACTCCTACTGATAATAAGCAGATTT 57.447 33.333 0.00 0.00 41.85 2.17
2070 2461 1.401931 CGCTCCAGTCCAGCAAAAATG 60.402 52.381 0.00 0.00 36.61 2.32
2071 2462 1.067354 GCTCCAGTCCAGCAAAAATGG 60.067 52.381 0.00 0.00 36.82 3.16
2072 2463 2.517959 CTCCAGTCCAGCAAAAATGGA 58.482 47.619 2.22 2.22 44.63 3.41
2078 2469 1.541147 TCCAGCAAAAATGGAGAAGCG 59.459 47.619 0.00 0.00 41.96 4.68
2079 2470 1.270550 CCAGCAAAAATGGAGAAGCGT 59.729 47.619 0.00 0.00 40.51 5.07
2080 2471 2.589014 CAGCAAAAATGGAGAAGCGTC 58.411 47.619 0.00 0.00 0.00 5.19
2081 2472 2.030893 CAGCAAAAATGGAGAAGCGTCA 60.031 45.455 1.61 0.00 0.00 4.35
2082 2473 2.622942 AGCAAAAATGGAGAAGCGTCAA 59.377 40.909 1.61 0.00 0.00 3.18
2083 2474 3.256631 AGCAAAAATGGAGAAGCGTCAAT 59.743 39.130 1.61 0.00 0.00 2.57
2084 2475 3.989817 GCAAAAATGGAGAAGCGTCAATT 59.010 39.130 1.61 0.00 0.00 2.32
2085 2476 4.448732 GCAAAAATGGAGAAGCGTCAATTT 59.551 37.500 1.61 2.71 0.00 1.82
2086 2477 5.388786 GCAAAAATGGAGAAGCGTCAATTTC 60.389 40.000 1.61 0.00 0.00 2.17
2087 2478 5.452078 AAAATGGAGAAGCGTCAATTTCA 57.548 34.783 1.61 0.00 0.00 2.69
2088 2479 4.691860 AATGGAGAAGCGTCAATTTCAG 57.308 40.909 1.61 0.00 0.00 3.02
2089 2480 3.126001 TGGAGAAGCGTCAATTTCAGT 57.874 42.857 1.61 0.00 0.00 3.41
2090 2481 2.807967 TGGAGAAGCGTCAATTTCAGTG 59.192 45.455 1.61 0.00 0.00 3.66
2091 2482 2.160417 GGAGAAGCGTCAATTTCAGTGG 59.840 50.000 1.61 0.00 0.00 4.00
2092 2483 1.537202 AGAAGCGTCAATTTCAGTGGC 59.463 47.619 1.61 0.00 0.00 5.01
2093 2484 0.598065 AAGCGTCAATTTCAGTGGCC 59.402 50.000 0.00 0.00 0.00 5.36
2094 2485 0.537143 AGCGTCAATTTCAGTGGCCA 60.537 50.000 0.00 0.00 0.00 5.36
2095 2486 0.109597 GCGTCAATTTCAGTGGCCAG 60.110 55.000 5.11 0.00 0.00 4.85
2096 2487 1.238439 CGTCAATTTCAGTGGCCAGT 58.762 50.000 5.11 6.41 0.00 4.00
2097 2488 2.422597 CGTCAATTTCAGTGGCCAGTA 58.577 47.619 14.17 0.00 0.00 2.74
2098 2489 3.009723 CGTCAATTTCAGTGGCCAGTAT 58.990 45.455 14.17 0.00 0.00 2.12
2099 2490 3.440173 CGTCAATTTCAGTGGCCAGTATT 59.560 43.478 14.17 7.02 0.00 1.89
2100 2491 4.437390 CGTCAATTTCAGTGGCCAGTATTC 60.437 45.833 14.17 0.00 0.00 1.75
2101 2492 4.702131 GTCAATTTCAGTGGCCAGTATTCT 59.298 41.667 14.17 0.00 0.00 2.40
2102 2493 5.880332 GTCAATTTCAGTGGCCAGTATTCTA 59.120 40.000 14.17 0.00 0.00 2.10
2103 2494 6.543831 GTCAATTTCAGTGGCCAGTATTCTAT 59.456 38.462 14.17 0.00 0.00 1.98
2104 2495 6.767902 TCAATTTCAGTGGCCAGTATTCTATC 59.232 38.462 14.17 0.00 0.00 2.08
2105 2496 4.689612 TTCAGTGGCCAGTATTCTATCC 57.310 45.455 14.17 0.00 0.00 2.59
2106 2497 3.928754 TCAGTGGCCAGTATTCTATCCT 58.071 45.455 14.17 0.00 0.00 3.24
2107 2498 4.298626 TCAGTGGCCAGTATTCTATCCTT 58.701 43.478 14.17 0.00 0.00 3.36
2108 2499 4.721776 TCAGTGGCCAGTATTCTATCCTTT 59.278 41.667 14.17 0.00 0.00 3.11
2109 2500 5.191722 TCAGTGGCCAGTATTCTATCCTTTT 59.808 40.000 14.17 0.00 0.00 2.27
2110 2501 5.529060 CAGTGGCCAGTATTCTATCCTTTTC 59.471 44.000 14.17 0.00 0.00 2.29
2111 2502 5.191722 AGTGGCCAGTATTCTATCCTTTTCA 59.808 40.000 12.69 0.00 0.00 2.69
2112 2503 5.529060 GTGGCCAGTATTCTATCCTTTTCAG 59.471 44.000 5.11 0.00 0.00 3.02
2113 2504 5.191722 TGGCCAGTATTCTATCCTTTTCAGT 59.808 40.000 0.00 0.00 0.00 3.41
2114 2505 5.529060 GGCCAGTATTCTATCCTTTTCAGTG 59.471 44.000 0.00 0.00 0.00 3.66
2115 2506 6.116126 GCCAGTATTCTATCCTTTTCAGTGT 58.884 40.000 0.00 0.00 0.00 3.55
2116 2507 6.258947 GCCAGTATTCTATCCTTTTCAGTGTC 59.741 42.308 0.00 0.00 0.00 3.67
2117 2508 7.331026 CCAGTATTCTATCCTTTTCAGTGTCA 58.669 38.462 0.00 0.00 0.00 3.58
2118 2509 7.824289 CCAGTATTCTATCCTTTTCAGTGTCAA 59.176 37.037 0.00 0.00 0.00 3.18
2119 2510 9.388506 CAGTATTCTATCCTTTTCAGTGTCAAT 57.611 33.333 0.00 0.00 0.00 2.57
2120 2511 9.965902 AGTATTCTATCCTTTTCAGTGTCAATT 57.034 29.630 0.00 0.00 0.00 2.32
2122 2513 7.687941 TTCTATCCTTTTCAGTGTCAATTCC 57.312 36.000 0.00 0.00 0.00 3.01
2123 2514 6.778821 TCTATCCTTTTCAGTGTCAATTCCA 58.221 36.000 0.00 0.00 0.00 3.53
2124 2515 7.405292 TCTATCCTTTTCAGTGTCAATTCCAT 58.595 34.615 0.00 0.00 0.00 3.41
2125 2516 6.923199 ATCCTTTTCAGTGTCAATTCCATT 57.077 33.333 0.00 0.00 0.00 3.16
2126 2517 6.331369 TCCTTTTCAGTGTCAATTCCATTC 57.669 37.500 0.00 0.00 0.00 2.67
2127 2518 6.070656 TCCTTTTCAGTGTCAATTCCATTCT 58.929 36.000 0.00 0.00 0.00 2.40
2128 2519 7.230747 TCCTTTTCAGTGTCAATTCCATTCTA 58.769 34.615 0.00 0.00 0.00 2.10
2129 2520 7.723616 TCCTTTTCAGTGTCAATTCCATTCTAA 59.276 33.333 0.00 0.00 0.00 2.10
2130 2521 8.025445 CCTTTTCAGTGTCAATTCCATTCTAAG 58.975 37.037 0.00 0.00 0.00 2.18
2131 2522 8.690203 TTTTCAGTGTCAATTCCATTCTAAGA 57.310 30.769 0.00 0.00 0.00 2.10
2132 2523 8.690203 TTTCAGTGTCAATTCCATTCTAAGAA 57.310 30.769 0.00 0.00 0.00 2.52
2133 2524 7.912056 TCAGTGTCAATTCCATTCTAAGAAG 57.088 36.000 0.00 0.00 0.00 2.85
2134 2525 6.372659 TCAGTGTCAATTCCATTCTAAGAAGC 59.627 38.462 0.00 0.00 0.00 3.86
2135 2526 5.352569 AGTGTCAATTCCATTCTAAGAAGCG 59.647 40.000 0.00 0.00 0.00 4.68
2136 2527 5.122396 GTGTCAATTCCATTCTAAGAAGCGT 59.878 40.000 0.00 0.00 0.00 5.07
2137 2528 5.122239 TGTCAATTCCATTCTAAGAAGCGTG 59.878 40.000 0.00 0.00 0.00 5.34
2138 2529 5.122396 GTCAATTCCATTCTAAGAAGCGTGT 59.878 40.000 0.00 0.00 0.00 4.49
2139 2530 5.122239 TCAATTCCATTCTAAGAAGCGTGTG 59.878 40.000 0.00 0.00 0.00 3.82
2140 2531 2.346803 TCCATTCTAAGAAGCGTGTGC 58.653 47.619 0.00 0.00 43.24 4.57
2161 2552 4.997905 CGTATCCTCGCATCATGAAATT 57.002 40.909 0.00 0.00 0.00 1.82
2162 2553 5.348418 CGTATCCTCGCATCATGAAATTT 57.652 39.130 0.00 0.00 0.00 1.82
2163 2554 5.751680 CGTATCCTCGCATCATGAAATTTT 58.248 37.500 0.00 0.00 0.00 1.82
2164 2555 6.887368 CGTATCCTCGCATCATGAAATTTTA 58.113 36.000 0.00 0.00 0.00 1.52
2165 2556 7.521529 CGTATCCTCGCATCATGAAATTTTAT 58.478 34.615 0.00 0.00 0.00 1.40
2166 2557 8.655970 CGTATCCTCGCATCATGAAATTTTATA 58.344 33.333 0.00 0.00 0.00 0.98
2167 2558 9.979270 GTATCCTCGCATCATGAAATTTTATAG 57.021 33.333 0.00 0.00 0.00 1.31
2168 2559 6.902341 TCCTCGCATCATGAAATTTTATAGC 58.098 36.000 0.00 0.70 0.00 2.97
2169 2560 6.486320 TCCTCGCATCATGAAATTTTATAGCA 59.514 34.615 0.00 0.00 0.00 3.49
2170 2561 7.175467 TCCTCGCATCATGAAATTTTATAGCAT 59.825 33.333 0.00 1.00 0.00 3.79
2171 2562 7.811236 CCTCGCATCATGAAATTTTATAGCATT 59.189 33.333 0.00 0.00 0.00 3.56
2172 2563 8.732413 TCGCATCATGAAATTTTATAGCATTC 57.268 30.769 0.00 0.00 0.00 2.67
2173 2564 8.570488 TCGCATCATGAAATTTTATAGCATTCT 58.430 29.630 0.00 0.00 0.00 2.40
2174 2565 8.635983 CGCATCATGAAATTTTATAGCATTCTG 58.364 33.333 0.00 0.00 0.00 3.02
2175 2566 9.687210 GCATCATGAAATTTTATAGCATTCTGA 57.313 29.630 0.00 0.00 0.00 3.27
2206 2597 8.561738 TTTTCTACATGTTTCTTACCCATCTC 57.438 34.615 2.30 0.00 0.00 2.75
2207 2598 7.496346 TTCTACATGTTTCTTACCCATCTCT 57.504 36.000 2.30 0.00 0.00 3.10
2208 2599 7.113658 TCTACATGTTTCTTACCCATCTCTC 57.886 40.000 2.30 0.00 0.00 3.20
2209 2600 6.897966 TCTACATGTTTCTTACCCATCTCTCT 59.102 38.462 2.30 0.00 0.00 3.10
2210 2601 6.380079 ACATGTTTCTTACCCATCTCTCTT 57.620 37.500 0.00 0.00 0.00 2.85
2211 2602 6.784031 ACATGTTTCTTACCCATCTCTCTTT 58.216 36.000 0.00 0.00 0.00 2.52
2212 2603 7.234355 ACATGTTTCTTACCCATCTCTCTTTT 58.766 34.615 0.00 0.00 0.00 2.27
2213 2604 8.383175 ACATGTTTCTTACCCATCTCTCTTTTA 58.617 33.333 0.00 0.00 0.00 1.52
2214 2605 8.887717 CATGTTTCTTACCCATCTCTCTTTTAG 58.112 37.037 0.00 0.00 0.00 1.85
2215 2606 8.202461 TGTTTCTTACCCATCTCTCTTTTAGA 57.798 34.615 0.00 0.00 0.00 2.10
2216 2607 8.656806 TGTTTCTTACCCATCTCTCTTTTAGAA 58.343 33.333 0.00 0.00 32.46 2.10
2217 2608 9.503399 GTTTCTTACCCATCTCTCTTTTAGAAA 57.497 33.333 0.00 0.00 32.46 2.52
2223 2614 8.512966 ACCCATCTCTCTTTTAGAAAATAAGC 57.487 34.615 0.00 0.00 32.46 3.09
2224 2615 8.332487 ACCCATCTCTCTTTTAGAAAATAAGCT 58.668 33.333 0.00 0.00 32.46 3.74
2225 2616 9.183368 CCCATCTCTCTTTTAGAAAATAAGCTT 57.817 33.333 3.48 3.48 32.46 3.74
2246 2637 8.669946 AGCTTAAAGGATAGAATACTTTCTGC 57.330 34.615 0.39 6.92 42.33 4.26
2247 2638 8.267894 AGCTTAAAGGATAGAATACTTTCTGCA 58.732 33.333 16.83 0.00 42.33 4.41
2248 2639 8.338986 GCTTAAAGGATAGAATACTTTCTGCAC 58.661 37.037 0.39 0.00 42.33 4.57
2249 2640 9.606631 CTTAAAGGATAGAATACTTTCTGCACT 57.393 33.333 0.39 0.00 42.33 4.40
2250 2641 7.856145 AAAGGATAGAATACTTTCTGCACTG 57.144 36.000 0.00 0.00 39.15 3.66
2251 2642 5.923204 AGGATAGAATACTTTCTGCACTGG 58.077 41.667 0.00 0.00 42.25 4.00
2252 2643 5.059833 GGATAGAATACTTTCTGCACTGGG 58.940 45.833 0.00 0.00 42.25 4.45
2253 2644 5.163301 GGATAGAATACTTTCTGCACTGGGA 60.163 44.000 0.00 0.00 42.25 4.37
2254 2645 4.851639 AGAATACTTTCTGCACTGGGAT 57.148 40.909 0.00 0.00 40.74 3.85
2255 2646 4.775236 AGAATACTTTCTGCACTGGGATC 58.225 43.478 0.00 0.00 40.74 3.36
2256 2647 2.672961 TACTTTCTGCACTGGGATCG 57.327 50.000 0.00 0.00 0.00 3.69
2257 2648 0.674895 ACTTTCTGCACTGGGATCGC 60.675 55.000 2.14 2.14 0.00 4.58
2258 2649 0.674581 CTTTCTGCACTGGGATCGCA 60.675 55.000 12.41 12.41 0.00 5.10
2259 2650 0.035152 TTTCTGCACTGGGATCGCAT 60.035 50.000 13.45 1.12 34.63 4.73
2260 2651 0.035152 TTCTGCACTGGGATCGCATT 60.035 50.000 13.45 4.72 34.63 3.56
2261 2652 0.462581 TCTGCACTGGGATCGCATTC 60.463 55.000 13.45 6.08 34.63 2.67
2262 2653 1.769098 CTGCACTGGGATCGCATTCG 61.769 60.000 13.45 4.47 34.63 3.34
2275 2666 4.386867 TCGCATTCGAGGAAAGTATCTT 57.613 40.909 0.00 0.00 40.21 2.40
2276 2667 4.112634 TCGCATTCGAGGAAAGTATCTTG 58.887 43.478 0.00 0.00 40.21 3.02
2277 2668 3.302740 CGCATTCGAGGAAAGTATCTTGC 60.303 47.826 0.00 0.00 38.10 4.01
2278 2669 3.302740 GCATTCGAGGAAAGTATCTTGCG 60.303 47.826 0.00 0.00 0.00 4.85
2279 2670 2.579207 TCGAGGAAAGTATCTTGCGG 57.421 50.000 0.00 0.00 0.00 5.69
2280 2671 1.136305 TCGAGGAAAGTATCTTGCGGG 59.864 52.381 0.00 0.00 0.00 6.13
2281 2672 1.136305 CGAGGAAAGTATCTTGCGGGA 59.864 52.381 0.00 0.00 0.00 5.14
2282 2673 2.418197 CGAGGAAAGTATCTTGCGGGAA 60.418 50.000 0.00 0.00 0.00 3.97
2283 2674 3.741388 CGAGGAAAGTATCTTGCGGGAAT 60.741 47.826 0.00 0.00 0.00 3.01
2284 2675 4.200092 GAGGAAAGTATCTTGCGGGAATT 58.800 43.478 0.00 0.00 0.00 2.17
2285 2676 4.200092 AGGAAAGTATCTTGCGGGAATTC 58.800 43.478 0.00 0.00 0.00 2.17
2286 2677 4.080299 AGGAAAGTATCTTGCGGGAATTCT 60.080 41.667 5.23 0.00 0.00 2.40
2287 2678 4.273724 GGAAAGTATCTTGCGGGAATTCTC 59.726 45.833 5.23 0.00 0.00 2.87
2288 2679 4.762289 AAGTATCTTGCGGGAATTCTCT 57.238 40.909 3.32 0.00 0.00 3.10
2289 2680 4.065321 AGTATCTTGCGGGAATTCTCTG 57.935 45.455 3.32 1.33 0.00 3.35
2290 2681 3.452627 AGTATCTTGCGGGAATTCTCTGT 59.547 43.478 3.32 0.00 0.00 3.41
2291 2682 2.099141 TCTTGCGGGAATTCTCTGTG 57.901 50.000 3.32 0.00 0.00 3.66
2292 2683 0.449388 CTTGCGGGAATTCTCTGTGC 59.551 55.000 3.32 0.01 0.00 4.57
2293 2684 0.036732 TTGCGGGAATTCTCTGTGCT 59.963 50.000 3.32 0.00 0.00 4.40
2294 2685 0.391661 TGCGGGAATTCTCTGTGCTC 60.392 55.000 3.32 0.00 0.00 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 68 6.870769 ACTTAGGAATGAAATTGATTGCTGG 58.129 36.000 9.17 5.12 36.07 4.85
220 247 6.648725 CGATTCAGAGAAAAGAGAAAAGGAGT 59.351 38.462 0.00 0.00 0.00 3.85
268 296 4.393680 CCGGAGAATTGAAATCGGTTAACA 59.606 41.667 8.10 0.00 33.63 2.41
394 447 0.391130 GAACAGTGCCTATGTGCCGA 60.391 55.000 0.00 0.00 0.00 5.54
500 556 5.769662 TGATGAAGTAGTTGAAGCACCATTT 59.230 36.000 0.00 0.00 0.00 2.32
639 697 3.750652 TGCTAACGATTGCAACAGATTGA 59.249 39.130 0.00 0.00 38.15 2.57
678 737 9.750125 AGAAGAAAACCTTGTATTTGATTCAAC 57.250 29.630 0.00 0.00 34.68 3.18
845 1048 9.678941 TCAACCAAAACAAAAACAAAATTAACC 57.321 25.926 0.00 0.00 0.00 2.85
855 1058 8.587952 ACTGCTATATCAACCAAAACAAAAAC 57.412 30.769 0.00 0.00 0.00 2.43
856 1059 8.417106 TGACTGCTATATCAACCAAAACAAAAA 58.583 29.630 0.00 0.00 0.00 1.94
950 1158 1.770110 AGTGACTTCAGGGTGCCCA 60.770 57.895 10.26 0.00 38.92 5.36
991 1217 6.458478 GGCAAAGTGAATCTCATGATCTTCAG 60.458 42.308 16.32 8.97 31.51 3.02
1058 1341 2.918712 AGGGTGACTGTCAACTTCTG 57.081 50.000 23.76 0.00 33.75 3.02
1068 1351 6.227298 ACAGTTGAGATATTAGGGTGACTG 57.773 41.667 0.00 0.00 38.28 3.51
1069 1352 6.875972 AACAGTTGAGATATTAGGGTGACT 57.124 37.500 0.00 0.00 0.00 3.41
1157 1442 5.582665 GTCATTGTTGACCTCAGATAGTTCC 59.417 44.000 0.00 0.00 45.45 3.62
1243 1528 0.250381 AGTCACTGAGGTCGACGTCT 60.250 55.000 31.42 15.79 34.80 4.18
1397 1688 7.861629 TGGGGCCTTTAATATAGACATCATAG 58.138 38.462 0.84 0.00 0.00 2.23
1436 1727 4.390556 CATTTTGGGGGCCCGGGA 62.391 66.667 29.31 0.00 39.42 5.14
1567 1860 5.652994 ACAGAAAAACACTAAGGCAACAA 57.347 34.783 0.00 0.00 41.41 2.83
1602 1895 7.962918 CACTAGTTGAATGTAAAACTGTATGCC 59.037 37.037 0.00 0.00 37.23 4.40
1631 1924 4.761975 ACGACAGGACAACAGAGTAAAAA 58.238 39.130 0.00 0.00 0.00 1.94
1721 2015 7.172875 GTCTAGGCGTATGTCAGTTCTAGATAA 59.827 40.741 0.00 0.00 35.64 1.75
1735 2052 1.338107 TGGATGGGTCTAGGCGTATG 58.662 55.000 0.00 0.00 0.00 2.39
1765 2147 7.529555 ACATATTGACATGTATTCCCTCCATT 58.470 34.615 0.00 0.00 37.37 3.16
1878 2269 1.286248 ACATAGCCGTCTTCCCCTTT 58.714 50.000 0.00 0.00 0.00 3.11
2029 2420 2.038557 GGACTAGTTCTTTGGCCACTGA 59.961 50.000 3.88 3.30 28.89 3.41
2070 2461 2.160417 CCACTGAAATTGACGCTTCTCC 59.840 50.000 0.00 0.00 0.00 3.71
2071 2462 2.413371 GCCACTGAAATTGACGCTTCTC 60.413 50.000 0.00 0.00 0.00 2.87
2072 2463 1.537202 GCCACTGAAATTGACGCTTCT 59.463 47.619 0.00 0.00 0.00 2.85
2073 2464 1.401539 GGCCACTGAAATTGACGCTTC 60.402 52.381 0.00 0.00 0.00 3.86
2074 2465 0.598065 GGCCACTGAAATTGACGCTT 59.402 50.000 0.00 0.00 0.00 4.68
2075 2466 0.537143 TGGCCACTGAAATTGACGCT 60.537 50.000 0.00 0.00 0.00 5.07
2076 2467 0.109597 CTGGCCACTGAAATTGACGC 60.110 55.000 0.00 0.00 0.00 5.19
2077 2468 1.238439 ACTGGCCACTGAAATTGACG 58.762 50.000 0.00 0.00 0.00 4.35
2078 2469 4.702131 AGAATACTGGCCACTGAAATTGAC 59.298 41.667 0.00 0.00 0.00 3.18
2079 2470 4.922206 AGAATACTGGCCACTGAAATTGA 58.078 39.130 0.00 0.00 0.00 2.57
2080 2471 6.016777 GGATAGAATACTGGCCACTGAAATTG 60.017 42.308 0.00 0.00 0.00 2.32
2081 2472 6.064717 GGATAGAATACTGGCCACTGAAATT 58.935 40.000 0.00 0.00 0.00 1.82
2082 2473 5.370880 AGGATAGAATACTGGCCACTGAAAT 59.629 40.000 0.00 0.00 0.00 2.17
2083 2474 4.721776 AGGATAGAATACTGGCCACTGAAA 59.278 41.667 0.00 0.00 0.00 2.69
2084 2475 4.298626 AGGATAGAATACTGGCCACTGAA 58.701 43.478 0.00 0.00 0.00 3.02
2085 2476 3.928754 AGGATAGAATACTGGCCACTGA 58.071 45.455 0.00 0.00 0.00 3.41
2086 2477 4.696479 AAGGATAGAATACTGGCCACTG 57.304 45.455 0.00 0.00 0.00 3.66
2087 2478 5.191722 TGAAAAGGATAGAATACTGGCCACT 59.808 40.000 0.00 0.00 0.00 4.00
2088 2479 5.437060 TGAAAAGGATAGAATACTGGCCAC 58.563 41.667 0.00 0.00 0.00 5.01
2089 2480 5.191722 ACTGAAAAGGATAGAATACTGGCCA 59.808 40.000 4.71 4.71 0.00 5.36
2090 2481 5.529060 CACTGAAAAGGATAGAATACTGGCC 59.471 44.000 0.00 0.00 0.00 5.36
2091 2482 6.116126 ACACTGAAAAGGATAGAATACTGGC 58.884 40.000 0.00 0.00 0.00 4.85
2092 2483 7.331026 TGACACTGAAAAGGATAGAATACTGG 58.669 38.462 0.00 0.00 0.00 4.00
2093 2484 8.777865 TTGACACTGAAAAGGATAGAATACTG 57.222 34.615 0.00 0.00 0.00 2.74
2094 2485 9.965902 AATTGACACTGAAAAGGATAGAATACT 57.034 29.630 0.00 0.00 0.00 2.12
2096 2487 9.396022 GGAATTGACACTGAAAAGGATAGAATA 57.604 33.333 0.00 0.00 0.00 1.75
2097 2488 7.890127 TGGAATTGACACTGAAAAGGATAGAAT 59.110 33.333 0.00 0.00 0.00 2.40
2098 2489 7.230747 TGGAATTGACACTGAAAAGGATAGAA 58.769 34.615 0.00 0.00 0.00 2.10
2099 2490 6.778821 TGGAATTGACACTGAAAAGGATAGA 58.221 36.000 0.00 0.00 0.00 1.98
2100 2491 7.636150 ATGGAATTGACACTGAAAAGGATAG 57.364 36.000 0.00 0.00 0.00 2.08
2101 2492 7.890127 AGAATGGAATTGACACTGAAAAGGATA 59.110 33.333 0.00 0.00 36.07 2.59
2102 2493 6.723052 AGAATGGAATTGACACTGAAAAGGAT 59.277 34.615 0.00 0.00 36.07 3.24
2103 2494 6.070656 AGAATGGAATTGACACTGAAAAGGA 58.929 36.000 0.00 0.00 36.07 3.36
2104 2495 6.336842 AGAATGGAATTGACACTGAAAAGG 57.663 37.500 0.00 0.00 36.07 3.11
2105 2496 8.786898 TCTTAGAATGGAATTGACACTGAAAAG 58.213 33.333 0.00 0.00 36.07 2.27
2106 2497 8.690203 TCTTAGAATGGAATTGACACTGAAAA 57.310 30.769 0.00 0.00 36.07 2.29
2107 2498 8.690203 TTCTTAGAATGGAATTGACACTGAAA 57.310 30.769 0.00 0.00 36.07 2.69
2108 2499 7.094634 GCTTCTTAGAATGGAATTGACACTGAA 60.095 37.037 0.00 0.00 36.07 3.02
2109 2500 6.372659 GCTTCTTAGAATGGAATTGACACTGA 59.627 38.462 0.00 0.00 36.07 3.41
2110 2501 6.549952 GCTTCTTAGAATGGAATTGACACTG 58.450 40.000 0.00 0.00 36.07 3.66
2111 2502 5.352569 CGCTTCTTAGAATGGAATTGACACT 59.647 40.000 0.00 0.00 36.07 3.55
2112 2503 5.122396 ACGCTTCTTAGAATGGAATTGACAC 59.878 40.000 0.00 0.00 36.07 3.67
2113 2504 5.122239 CACGCTTCTTAGAATGGAATTGACA 59.878 40.000 0.00 0.00 36.07 3.58
2114 2505 5.122396 ACACGCTTCTTAGAATGGAATTGAC 59.878 40.000 0.00 0.00 36.07 3.18
2115 2506 5.122239 CACACGCTTCTTAGAATGGAATTGA 59.878 40.000 0.00 0.00 36.07 2.57
2116 2507 5.327091 CACACGCTTCTTAGAATGGAATTG 58.673 41.667 0.00 0.00 36.07 2.32
2117 2508 4.142600 GCACACGCTTCTTAGAATGGAATT 60.143 41.667 0.00 0.00 35.06 2.17
2118 2509 3.375299 GCACACGCTTCTTAGAATGGAAT 59.625 43.478 0.00 0.00 34.30 3.01
2119 2510 2.742053 GCACACGCTTCTTAGAATGGAA 59.258 45.455 0.00 0.00 34.30 3.53
2120 2511 2.346803 GCACACGCTTCTTAGAATGGA 58.653 47.619 0.00 0.00 34.30 3.41
2121 2512 1.061131 CGCACACGCTTCTTAGAATGG 59.939 52.381 0.00 0.00 35.30 3.16
2122 2513 1.726791 ACGCACACGCTTCTTAGAATG 59.273 47.619 0.00 0.00 45.53 2.67
2123 2514 2.080286 ACGCACACGCTTCTTAGAAT 57.920 45.000 0.00 0.00 45.53 2.40
2124 2515 2.710220 TACGCACACGCTTCTTAGAA 57.290 45.000 0.00 0.00 45.53 2.10
2125 2516 2.479049 GGATACGCACACGCTTCTTAGA 60.479 50.000 0.00 0.00 45.53 2.10
2126 2517 1.852895 GGATACGCACACGCTTCTTAG 59.147 52.381 0.00 0.00 45.53 2.18
2127 2518 1.475280 AGGATACGCACACGCTTCTTA 59.525 47.619 0.00 0.00 45.53 2.10
2128 2519 0.246635 AGGATACGCACACGCTTCTT 59.753 50.000 0.00 0.00 45.53 2.52
2129 2520 0.179134 GAGGATACGCACACGCTTCT 60.179 55.000 0.00 0.00 45.53 2.85
2130 2521 1.472276 CGAGGATACGCACACGCTTC 61.472 60.000 0.00 0.00 45.53 3.86
2131 2522 1.516386 CGAGGATACGCACACGCTT 60.516 57.895 0.00 0.00 45.53 4.68
2132 2523 2.102357 CGAGGATACGCACACGCT 59.898 61.111 0.00 0.00 45.53 5.07
2140 2531 4.997905 AATTTCATGATGCGAGGATACG 57.002 40.909 0.00 0.00 46.39 3.06
2141 2532 9.979270 CTATAAAATTTCATGATGCGAGGATAC 57.021 33.333 0.00 0.00 0.00 2.24
2142 2533 8.668353 GCTATAAAATTTCATGATGCGAGGATA 58.332 33.333 0.00 0.00 0.00 2.59
2143 2534 7.175467 TGCTATAAAATTTCATGATGCGAGGAT 59.825 33.333 0.00 0.00 0.00 3.24
2144 2535 6.486320 TGCTATAAAATTTCATGATGCGAGGA 59.514 34.615 0.00 0.00 0.00 3.71
2145 2536 6.671190 TGCTATAAAATTTCATGATGCGAGG 58.329 36.000 0.00 0.00 0.00 4.63
2146 2537 8.738199 AATGCTATAAAATTTCATGATGCGAG 57.262 30.769 0.00 0.00 0.00 5.03
2147 2538 8.570488 AGAATGCTATAAAATTTCATGATGCGA 58.430 29.630 0.00 0.00 0.00 5.10
2148 2539 8.635983 CAGAATGCTATAAAATTTCATGATGCG 58.364 33.333 0.00 0.00 0.00 4.73
2149 2540 9.687210 TCAGAATGCTATAAAATTTCATGATGC 57.313 29.630 0.00 0.00 34.76 3.91
2180 2571 9.178758 GAGATGGGTAAGAAACATGTAGAAAAT 57.821 33.333 0.00 0.00 0.00 1.82
2181 2572 8.383175 AGAGATGGGTAAGAAACATGTAGAAAA 58.617 33.333 0.00 0.00 0.00 2.29
2182 2573 7.918076 AGAGATGGGTAAGAAACATGTAGAAA 58.082 34.615 0.00 0.00 0.00 2.52
2183 2574 7.400339 AGAGAGATGGGTAAGAAACATGTAGAA 59.600 37.037 0.00 0.00 0.00 2.10
2184 2575 6.897966 AGAGAGATGGGTAAGAAACATGTAGA 59.102 38.462 0.00 0.00 0.00 2.59
2185 2576 7.118496 AGAGAGATGGGTAAGAAACATGTAG 57.882 40.000 0.00 0.00 0.00 2.74
2186 2577 7.496346 AAGAGAGATGGGTAAGAAACATGTA 57.504 36.000 0.00 0.00 0.00 2.29
2187 2578 6.380079 AAGAGAGATGGGTAAGAAACATGT 57.620 37.500 0.00 0.00 0.00 3.21
2188 2579 7.693969 AAAAGAGAGATGGGTAAGAAACATG 57.306 36.000 0.00 0.00 0.00 3.21
2189 2580 8.826765 TCTAAAAGAGAGATGGGTAAGAAACAT 58.173 33.333 0.00 0.00 0.00 2.71
2190 2581 8.202461 TCTAAAAGAGAGATGGGTAAGAAACA 57.798 34.615 0.00 0.00 0.00 2.83
2191 2582 9.503399 TTTCTAAAAGAGAGATGGGTAAGAAAC 57.497 33.333 0.00 0.00 34.93 2.78
2197 2588 9.614792 GCTTATTTTCTAAAAGAGAGATGGGTA 57.385 33.333 5.86 0.00 34.93 3.69
2198 2589 8.332487 AGCTTATTTTCTAAAAGAGAGATGGGT 58.668 33.333 5.86 0.00 34.93 4.51
2199 2590 8.744568 AGCTTATTTTCTAAAAGAGAGATGGG 57.255 34.615 5.86 0.00 34.93 4.00
2220 2611 9.114952 GCAGAAAGTATTCTATCCTTTAAGCTT 57.885 33.333 3.48 3.48 44.11 3.74
2221 2612 8.267894 TGCAGAAAGTATTCTATCCTTTAAGCT 58.732 33.333 0.00 0.00 44.11 3.74
2222 2613 8.338986 GTGCAGAAAGTATTCTATCCTTTAAGC 58.661 37.037 0.00 0.00 44.11 3.09
2223 2614 9.606631 AGTGCAGAAAGTATTCTATCCTTTAAG 57.393 33.333 0.00 0.00 44.11 1.85
2224 2615 9.383519 CAGTGCAGAAAGTATTCTATCCTTTAA 57.616 33.333 0.00 0.00 44.11 1.52
2225 2616 7.987458 CCAGTGCAGAAAGTATTCTATCCTTTA 59.013 37.037 0.00 0.00 44.11 1.85
2226 2617 6.825721 CCAGTGCAGAAAGTATTCTATCCTTT 59.174 38.462 0.00 0.00 44.11 3.11
2227 2618 6.352516 CCAGTGCAGAAAGTATTCTATCCTT 58.647 40.000 0.00 0.00 44.11 3.36
2228 2619 5.163258 CCCAGTGCAGAAAGTATTCTATCCT 60.163 44.000 0.00 0.00 44.11 3.24
2229 2620 5.059833 CCCAGTGCAGAAAGTATTCTATCC 58.940 45.833 0.00 0.00 44.11 2.59
2230 2621 5.918608 TCCCAGTGCAGAAAGTATTCTATC 58.081 41.667 0.00 0.00 44.11 2.08
2231 2622 5.957771 TCCCAGTGCAGAAAGTATTCTAT 57.042 39.130 0.00 0.00 44.11 1.98
2232 2623 5.451937 CGATCCCAGTGCAGAAAGTATTCTA 60.452 44.000 0.00 0.00 44.11 2.10
2233 2624 4.681781 CGATCCCAGTGCAGAAAGTATTCT 60.682 45.833 0.00 0.00 46.91 2.40
2234 2625 3.557595 CGATCCCAGTGCAGAAAGTATTC 59.442 47.826 0.00 0.00 35.70 1.75
2235 2626 3.535561 CGATCCCAGTGCAGAAAGTATT 58.464 45.455 0.00 0.00 0.00 1.89
2236 2627 2.743183 GCGATCCCAGTGCAGAAAGTAT 60.743 50.000 0.00 0.00 0.00 2.12
2237 2628 1.405526 GCGATCCCAGTGCAGAAAGTA 60.406 52.381 0.00 0.00 0.00 2.24
2238 2629 0.674895 GCGATCCCAGTGCAGAAAGT 60.675 55.000 0.00 0.00 0.00 2.66
2239 2630 0.674581 TGCGATCCCAGTGCAGAAAG 60.675 55.000 0.00 0.00 34.03 2.62
2240 2631 0.035152 ATGCGATCCCAGTGCAGAAA 60.035 50.000 0.00 0.00 42.65 2.52
2241 2632 0.035152 AATGCGATCCCAGTGCAGAA 60.035 50.000 0.00 0.00 42.65 3.02
2242 2633 0.462581 GAATGCGATCCCAGTGCAGA 60.463 55.000 0.00 0.00 42.65 4.26
2243 2634 1.769098 CGAATGCGATCCCAGTGCAG 61.769 60.000 0.00 0.00 42.65 4.41
2244 2635 1.815003 CGAATGCGATCCCAGTGCA 60.815 57.895 0.00 0.00 43.67 4.57
2245 2636 1.493950 CTCGAATGCGATCCCAGTGC 61.494 60.000 0.00 0.00 46.80 4.40
2246 2637 0.877649 CCTCGAATGCGATCCCAGTG 60.878 60.000 0.00 0.00 46.80 3.66
2247 2638 1.043116 TCCTCGAATGCGATCCCAGT 61.043 55.000 0.00 0.00 46.80 4.00
2248 2639 0.104855 TTCCTCGAATGCGATCCCAG 59.895 55.000 0.00 0.00 46.80 4.45
2249 2640 0.539518 TTTCCTCGAATGCGATCCCA 59.460 50.000 0.00 0.00 46.80 4.37
2250 2641 1.221414 CTTTCCTCGAATGCGATCCC 58.779 55.000 0.00 0.00 46.80 3.85
2251 2642 1.941325 ACTTTCCTCGAATGCGATCC 58.059 50.000 0.00 0.00 46.80 3.36
2252 2643 4.551388 AGATACTTTCCTCGAATGCGATC 58.449 43.478 0.00 0.00 46.80 3.69
2253 2644 4.592485 AGATACTTTCCTCGAATGCGAT 57.408 40.909 0.00 0.00 46.80 4.58
2254 2645 4.112634 CAAGATACTTTCCTCGAATGCGA 58.887 43.478 0.00 0.00 45.71 5.10
2255 2646 3.302740 GCAAGATACTTTCCTCGAATGCG 60.303 47.826 0.00 0.00 39.35 4.73
2256 2647 3.302740 CGCAAGATACTTTCCTCGAATGC 60.303 47.826 0.00 0.00 43.02 3.56
2257 2648 3.246226 CCGCAAGATACTTTCCTCGAATG 59.754 47.826 0.00 0.00 43.02 2.67
2258 2649 3.458189 CCGCAAGATACTTTCCTCGAAT 58.542 45.455 0.00 0.00 43.02 3.34
2259 2650 2.418197 CCCGCAAGATACTTTCCTCGAA 60.418 50.000 0.00 0.00 43.02 3.71
2260 2651 1.136305 CCCGCAAGATACTTTCCTCGA 59.864 52.381 0.00 0.00 43.02 4.04
2261 2652 1.136305 TCCCGCAAGATACTTTCCTCG 59.864 52.381 0.00 0.00 43.02 4.63
2262 2653 2.981859 TCCCGCAAGATACTTTCCTC 57.018 50.000 0.00 0.00 43.02 3.71
2263 2654 3.933861 ATTCCCGCAAGATACTTTCCT 57.066 42.857 0.00 0.00 43.02 3.36
2264 2655 4.200092 AGAATTCCCGCAAGATACTTTCC 58.800 43.478 0.65 0.00 43.02 3.13
2265 2656 5.007136 CAGAGAATTCCCGCAAGATACTTTC 59.993 44.000 0.65 0.00 43.02 2.62
2266 2657 4.878397 CAGAGAATTCCCGCAAGATACTTT 59.122 41.667 0.65 0.00 43.02 2.66
2267 2658 4.080863 ACAGAGAATTCCCGCAAGATACTT 60.081 41.667 0.65 0.00 43.02 2.24
2268 2659 3.452627 ACAGAGAATTCCCGCAAGATACT 59.547 43.478 0.65 0.00 43.02 2.12
2269 2660 3.557595 CACAGAGAATTCCCGCAAGATAC 59.442 47.826 0.65 0.00 43.02 2.24
2270 2661 3.797039 CACAGAGAATTCCCGCAAGATA 58.203 45.455 0.65 0.00 43.02 1.98
2271 2662 2.636830 CACAGAGAATTCCCGCAAGAT 58.363 47.619 0.65 0.00 43.02 2.40
2272 2663 1.945819 GCACAGAGAATTCCCGCAAGA 60.946 52.381 0.65 0.00 43.02 3.02
2273 2664 0.449388 GCACAGAGAATTCCCGCAAG 59.551 55.000 0.65 0.00 0.00 4.01
2274 2665 0.036732 AGCACAGAGAATTCCCGCAA 59.963 50.000 0.65 0.00 0.00 4.85
2275 2666 0.391661 GAGCACAGAGAATTCCCGCA 60.392 55.000 0.65 0.00 0.00 5.69
2276 2667 2.388347 GAGCACAGAGAATTCCCGC 58.612 57.895 0.65 0.00 0.00 6.13


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

AutoCloner maintained by Alex Coulton.