Multiple sequence alignment - TraesCS7D01G472700

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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 TraesCS7D01G472700 chr7D 100.000 3008 0 0 1 3008 585665938 585668945 0.000000e+00 5555.0
1 TraesCS7D01G472700 chr7D 89.577 1065 95 11 972 2035 586029335 586030384 0.000000e+00 1338.0
2 TraesCS7D01G472700 chr7D 91.360 544 42 2 1674 2217 585657003 585657541 0.000000e+00 739.0
3 TraesCS7D01G472700 chr7D 94.881 293 14 1 2365 2657 511144260 511143969 9.830000e-125 457.0
4 TraesCS7D01G472700 chr7D 83.235 507 53 18 537 1031 585656519 585657005 1.280000e-118 436.0
5 TraesCS7D01G472700 chr7D 98.678 227 3 0 2778 3004 511143973 511143747 1.300000e-108 403.0
6 TraesCS7D01G472700 chr7D 92.593 108 5 3 616 720 585726909 585727016 5.190000e-33 152.0
7 TraesCS7D01G472700 chr7D 95.946 74 3 0 1 74 427747015 427747088 1.460000e-23 121.0
8 TraesCS7D01G472700 chr7D 95.455 44 2 0 535 578 585726875 585726918 1.500000e-08 71.3
9 TraesCS7D01G472700 chr7B 91.773 1884 117 20 275 2136 656286076 656287943 0.000000e+00 2586.0
10 TraesCS7D01G472700 chr7B 87.531 1636 111 50 545 2121 656419394 656420995 0.000000e+00 1805.0
11 TraesCS7D01G472700 chr7B 89.649 570 54 2 1674 2243 656275040 656275604 0.000000e+00 721.0
12 TraesCS7D01G472700 chr7B 84.100 522 52 16 537 1048 656274553 656275053 2.710000e-130 475.0
13 TraesCS7D01G472700 chr7B 95.714 280 12 0 1 280 656285597 656285876 4.570000e-123 451.0
14 TraesCS7D01G472700 chr7B 88.828 367 39 2 1674 2040 656245312 656245676 1.640000e-122 449.0
15 TraesCS7D01G472700 chr7B 83.776 339 33 11 537 867 656240542 656240866 4.870000e-78 302.0
16 TraesCS7D01G472700 chr7A 91.400 1779 83 32 485 2243 676361122 676359394 0.000000e+00 2374.0
17 TraesCS7D01G472700 chr7A 92.804 1626 76 16 23 1638 682176767 682175173 0.000000e+00 2316.0
18 TraesCS7D01G472700 chr7A 88.779 1007 100 9 1130 2136 676517623 676518616 0.000000e+00 1221.0
19 TraesCS7D01G472700 chr7A 86.905 1008 117 10 1130 2136 676539464 676540457 0.000000e+00 1116.0
20 TraesCS7D01G472700 chr7A 85.253 990 84 36 545 1503 677387498 677388456 0.000000e+00 963.0
21 TraesCS7D01G472700 chr7A 90.476 567 48 3 1677 2243 682179365 682178805 0.000000e+00 743.0
22 TraesCS7D01G472700 chr7A 89.319 543 46 5 1674 2216 676306129 676306659 0.000000e+00 671.0
23 TraesCS7D01G472700 chr7A 92.308 455 30 5 1675 2128 682175178 682174728 2.530000e-180 641.0
24 TraesCS7D01G472700 chr7A 93.429 350 23 0 1496 1845 677433468 677433817 1.240000e-143 520.0
25 TraesCS7D01G472700 chr7A 89.620 395 31 6 1 393 676361506 676361120 7.490000e-136 494.0
26 TraesCS7D01G472700 chr7A 81.359 515 53 21 537 1042 676305662 676306142 2.190000e-101 379.0
27 TraesCS7D01G472700 chr7A 81.532 509 47 23 537 1034 682182960 682182488 2.830000e-100 375.0
28 TraesCS7D01G472700 chr7A 84.681 235 24 11 204 433 689550381 689550154 1.090000e-54 224.0
29 TraesCS7D01G472700 chr7A 94.245 139 6 2 1013 1150 676516549 676516686 8.450000e-51 211.0
30 TraesCS7D01G472700 chr7A 94.253 87 5 0 2130 2216 682181789 682181703 1.880000e-27 134.0
31 TraesCS7D01G472700 chr7A 93.421 76 4 1 1 75 725443017 725443092 8.810000e-21 111.0
32 TraesCS7D01G472700 chr2B 94.565 644 22 3 2362 3004 535033721 535034352 0.000000e+00 983.0
33 TraesCS7D01G472700 chr2B 94.390 410 19 2 2362 2770 535033268 535033674 7.080000e-176 627.0
34 TraesCS7D01G472700 chr2B 96.540 289 9 1 2717 3004 535034394 535034682 7.540000e-131 477.0
35 TraesCS7D01G472700 chr2B 94.595 74 4 0 1 74 71316753 71316826 6.810000e-22 115.0
36 TraesCS7D01G472700 chr6A 95.270 296 13 1 2362 2657 360478870 360479164 4.540000e-128 468.0
37 TraesCS7D01G472700 chr6A 97.357 227 6 0 2778 3004 360479160 360479386 1.310000e-103 387.0
38 TraesCS7D01G472700 chr5A 95.286 297 11 3 2361 2657 67331666 67331373 4.540000e-128 468.0
39 TraesCS7D01G472700 chr5A 98.238 227 2 1 2778 3004 558325990 558326214 2.170000e-106 396.0
40 TraesCS7D01G472700 chr5A 97.357 227 6 0 2778 3004 67331377 67331151 1.310000e-103 387.0
41 TraesCS7D01G472700 chr5A 92.908 141 7 3 2643 2782 482554140 482554278 5.080000e-48 202.0
42 TraesCS7D01G472700 chr5A 96.000 75 2 1 1 75 652993666 652993739 1.460000e-23 121.0
43 TraesCS7D01G472700 chr3A 94.949 297 13 2 2361 2657 518489497 518489791 5.870000e-127 464.0
44 TraesCS7D01G472700 chr3A 84.774 243 30 7 194 433 701176862 701177100 1.390000e-58 237.0
45 TraesCS7D01G472700 chr3D 94.098 305 17 1 2353 2657 415719742 415720045 2.110000e-126 462.0
46 TraesCS7D01G472700 chr3D 98.246 228 3 1 2778 3004 415720041 415720268 6.040000e-107 398.0
47 TraesCS7D01G472700 chr3D 89.655 87 7 2 1 86 556852858 556852773 3.170000e-20 110.0
48 TraesCS7D01G472700 chr2D 94.881 293 14 1 2365 2657 375040033 375039742 9.830000e-125 457.0
49 TraesCS7D01G472700 chr2D 98.238 227 4 0 2778 3004 375039746 375039520 6.040000e-107 398.0
50 TraesCS7D01G472700 chr2A 94.881 293 13 2 2365 2657 508091245 508090955 9.830000e-125 457.0
51 TraesCS7D01G472700 chr2A 98.678 227 3 0 2778 3004 764129043 764128817 1.300000e-108 403.0
52 TraesCS7D01G472700 chr2A 97.357 227 5 1 2778 3004 508090959 508090734 4.700000e-103 385.0
53 TraesCS7D01G472700 chr1D 80.449 445 56 22 865 1300 487948935 487949357 8.100000e-81 311.0
54 TraesCS7D01G472700 chr1D 86.973 261 25 9 188 443 423673592 423673336 4.910000e-73 285.0
55 TraesCS7D01G472700 chr1D 78.199 422 70 10 1608 2013 488545126 488544711 1.790000e-62 250.0
56 TraesCS7D01G472700 chr1D 92.254 142 8 3 2642 2782 477357520 477357381 6.580000e-47 198.0
57 TraesCS7D01G472700 chr1D 92.199 141 8 3 2643 2782 336626846 336626984 2.370000e-46 196.0
58 TraesCS7D01G472700 chr1D 92.199 141 8 3 2643 2782 383877782 383877920 2.370000e-46 196.0
59 TraesCS7D01G472700 chr4D 86.275 255 26 8 187 437 46295748 46295499 4.940000e-68 268.0
60 TraesCS7D01G472700 chr4D 92.199 141 8 3 2643 2782 489942350 489942488 2.370000e-46 196.0
61 TraesCS7D01G472700 chr4D 85.876 177 18 6 2622 2794 478510160 478509987 6.620000e-42 182.0
62 TraesCS7D01G472700 chr1A 78.013 473 61 26 848 1298 586937452 586937903 1.070000e-64 257.0
63 TraesCS7D01G472700 chr4A 84.426 244 29 9 192 433 725268481 725268245 6.480000e-57 231.0
64 TraesCS7D01G472700 chr1B 83.471 242 34 5 194 433 625917039 625916802 1.400000e-53 220.0
65 TraesCS7D01G472700 chr1B 77.238 391 65 10 1641 2013 681807993 681808377 1.090000e-49 207.0
66 TraesCS7D01G472700 chr6B 92.254 142 7 4 2643 2782 127814509 127814648 6.580000e-47 198.0
67 TraesCS7D01G472700 chr5D 94.595 74 4 0 1 74 462454727 462454800 6.810000e-22 115.0


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 TraesCS7D01G472700 chr7D 585665938 585668945 3007 False 5555.000000 5555 100.0000 1 3008 1 chr7D.!!$F2 3007
1 TraesCS7D01G472700 chr7D 586029335 586030384 1049 False 1338.000000 1338 89.5770 972 2035 1 chr7D.!!$F3 1063
2 TraesCS7D01G472700 chr7D 585656519 585657541 1022 False 587.500000 739 87.2975 537 2217 2 chr7D.!!$F4 1680
3 TraesCS7D01G472700 chr7D 511143747 511144260 513 True 430.000000 457 96.7795 2365 3004 2 chr7D.!!$R1 639
4 TraesCS7D01G472700 chr7B 656419394 656420995 1601 False 1805.000000 1805 87.5310 545 2121 1 chr7B.!!$F3 1576
5 TraesCS7D01G472700 chr7B 656285597 656287943 2346 False 1518.500000 2586 93.7435 1 2136 2 chr7B.!!$F5 2135
6 TraesCS7D01G472700 chr7B 656274553 656275604 1051 False 598.000000 721 86.8745 537 2243 2 chr7B.!!$F4 1706
7 TraesCS7D01G472700 chr7A 676359394 676361506 2112 True 1434.000000 2374 90.5100 1 2243 2 chr7A.!!$R2 2242
8 TraesCS7D01G472700 chr7A 676539464 676540457 993 False 1116.000000 1116 86.9050 1130 2136 1 chr7A.!!$F1 1006
9 TraesCS7D01G472700 chr7A 677387498 677388456 958 False 963.000000 963 85.2530 545 1503 1 chr7A.!!$F2 958
10 TraesCS7D01G472700 chr7A 682174728 682182960 8232 True 841.800000 2316 90.2746 23 2243 5 chr7A.!!$R3 2220
11 TraesCS7D01G472700 chr7A 676516549 676518616 2067 False 716.000000 1221 91.5120 1013 2136 2 chr7A.!!$F6 1123
12 TraesCS7D01G472700 chr7A 676305662 676306659 997 False 525.000000 671 85.3390 537 2216 2 chr7A.!!$F5 1679
13 TraesCS7D01G472700 chr2B 535033268 535034682 1414 False 695.666667 983 95.1650 2362 3004 3 chr2B.!!$F2 642
14 TraesCS7D01G472700 chr6A 360478870 360479386 516 False 427.500000 468 96.3135 2362 3004 2 chr6A.!!$F1 642
15 TraesCS7D01G472700 chr5A 67331151 67331666 515 True 427.500000 468 96.3215 2361 3004 2 chr5A.!!$R1 643
16 TraesCS7D01G472700 chr3D 415719742 415720268 526 False 430.000000 462 96.1720 2353 3004 2 chr3D.!!$F1 651
17 TraesCS7D01G472700 chr2D 375039520 375040033 513 True 427.500000 457 96.5595 2365 3004 2 chr2D.!!$R1 639
18 TraesCS7D01G472700 chr2A 508090734 508091245 511 True 421.000000 457 96.1190 2365 3004 2 chr2A.!!$R2 639

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
909 4293 0.676151 CTTCCCAACTCAGCAGCTCC 60.676 60.0 0.0 0.0 0.0 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2324 10327 0.392706 GTTGAACCAAGGCCAAAGGG 59.607 55.0 5.01 2.52 37.18 3.95 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
114 116 4.952460 TGTTGTACCGGCTTAATATCTCC 58.048 43.478 0.00 0.00 0.00 3.71
115 117 4.406326 TGTTGTACCGGCTTAATATCTCCA 59.594 41.667 0.00 0.00 0.00 3.86
143 145 7.308589 GGTGTTTATAGGGATAATGTGTGCATC 60.309 40.741 0.00 0.00 33.50 3.91
158 160 0.940126 GCATCTGGGTGTTCATAGCG 59.060 55.000 0.00 0.00 0.00 4.26
183 185 3.243168 GCGGATATGTGCATGTTTGTGAT 60.243 43.478 0.00 0.00 0.00 3.06
221 223 2.983192 TCTGTCTGGTTTATTGGTCCCA 59.017 45.455 0.00 0.00 0.00 4.37
232 234 7.614583 TGGTTTATTGGTCCCATTCGTATTTTA 59.385 33.333 0.00 0.00 0.00 1.52
255 257 5.840243 TGCCCAACTTTGATCATAGATTG 57.160 39.130 18.61 16.48 0.00 2.67
347 557 9.847224 TTCCAATGATACTATTTTTAGGGTCTC 57.153 33.333 0.00 0.00 0.00 3.36
405 615 8.581578 TCAAAATTTGACCCAAACTATAAGGAC 58.418 33.333 4.03 0.00 36.13 3.85
407 617 5.486735 TTTGACCCAAACTATAAGGACGA 57.513 39.130 0.00 0.00 0.00 4.20
409 619 3.196254 TGACCCAAACTATAAGGACGACC 59.804 47.826 0.00 0.00 0.00 4.79
413 623 5.190677 CCCAAACTATAAGGACGACCAATT 58.809 41.667 6.71 0.00 38.94 2.32
416 626 7.201670 CCCAAACTATAAGGACGACCAATTAAC 60.202 40.741 6.71 0.00 38.94 2.01
430 640 3.431766 CCAATTAACCAGGACGGAGGTAG 60.432 52.174 0.00 0.00 37.07 3.18
433 643 2.610438 AACCAGGACGGAGGTAGTAA 57.390 50.000 0.00 0.00 37.07 2.24
471 681 7.597386 AGGAAATTATTGCACTTTCTGAAGTC 58.403 34.615 0.00 0.00 44.14 3.01
483 693 3.585748 TCTGAAGTCGCTTTTGTTTCG 57.414 42.857 0.00 0.00 0.00 3.46
821 4191 7.913297 TCCTTTTACAAGTTTCGAATCAACAAG 59.087 33.333 8.83 0.00 0.00 3.16
825 4195 5.569413 ACAAGTTTCGAATCAACAAGACAC 58.431 37.500 8.83 0.00 0.00 3.67
827 4197 6.183360 ACAAGTTTCGAATCAACAAGACACAT 60.183 34.615 8.83 0.00 0.00 3.21
857 4227 0.756294 CATCACCATGCCATGCCAAT 59.244 50.000 0.00 0.00 0.00 3.16
909 4293 0.676151 CTTCCCAACTCAGCAGCTCC 60.676 60.000 0.00 0.00 0.00 4.70
1252 9213 1.446099 GCCAGCTTCGACGACATCA 60.446 57.895 0.00 0.00 0.00 3.07
1404 9374 3.958860 GCCACCACAGTCAGGCCT 61.959 66.667 0.00 0.00 41.25 5.19
1545 9524 1.470098 GCCACGAAGAATGCTCAACAT 59.530 47.619 0.00 0.00 42.30 2.71
1625 9604 1.518133 CAGAGGCGAAGAAGGAGCG 60.518 63.158 0.00 0.00 0.00 5.03
1699 9681 2.656069 GCACCGGAGCCAGAGGTTA 61.656 63.158 13.51 0.00 35.85 2.85
1905 9887 1.450312 GGACATGAAGTGGGCGGAG 60.450 63.158 0.00 0.00 0.00 4.63
1989 9971 1.403679 CTCGGCTTCTTCGTCTCTCAT 59.596 52.381 0.00 0.00 0.00 2.90
1993 9975 3.120041 GGCTTCTTCGTCTCTCATAAGC 58.880 50.000 0.00 0.00 37.67 3.09
2017 9999 0.873054 CAGGAAGTGAGCAGCAACAG 59.127 55.000 0.00 0.00 0.00 3.16
2081 10074 5.994887 AGTTGCGTGATTAAAGTGTACAA 57.005 34.783 0.00 0.00 0.00 2.41
2178 10181 5.928264 TCAATCATCATATCTGGCTACAACG 59.072 40.000 0.00 0.00 0.00 4.10
2243 10246 3.762288 AGAGATTACAGTACTCGTGGCAA 59.238 43.478 0.00 0.00 36.03 4.52
2244 10247 4.219944 AGAGATTACAGTACTCGTGGCAAA 59.780 41.667 0.00 0.00 36.03 3.68
2245 10248 4.495422 AGATTACAGTACTCGTGGCAAAG 58.505 43.478 0.00 0.00 0.00 2.77
2246 10249 3.738830 TTACAGTACTCGTGGCAAAGT 57.261 42.857 8.62 8.62 0.00 2.66
2247 10250 2.614829 ACAGTACTCGTGGCAAAGTT 57.385 45.000 8.85 0.00 0.00 2.66
2248 10251 3.738830 ACAGTACTCGTGGCAAAGTTA 57.261 42.857 8.85 0.00 0.00 2.24
2249 10252 3.387397 ACAGTACTCGTGGCAAAGTTAC 58.613 45.455 8.85 6.13 0.00 2.50
2250 10253 3.069158 ACAGTACTCGTGGCAAAGTTACT 59.931 43.478 8.85 7.84 0.00 2.24
2251 10254 3.428870 CAGTACTCGTGGCAAAGTTACTG 59.571 47.826 8.85 13.90 0.00 2.74
2252 10255 2.902705 ACTCGTGGCAAAGTTACTGA 57.097 45.000 0.00 0.00 0.00 3.41
2253 10256 3.188159 ACTCGTGGCAAAGTTACTGAA 57.812 42.857 0.00 0.00 0.00 3.02
2254 10257 3.131396 ACTCGTGGCAAAGTTACTGAAG 58.869 45.455 0.00 0.00 0.00 3.02
2255 10258 1.871039 TCGTGGCAAAGTTACTGAAGC 59.129 47.619 0.00 0.00 0.00 3.86
2256 10259 1.601903 CGTGGCAAAGTTACTGAAGCA 59.398 47.619 0.00 0.00 0.00 3.91
2257 10260 2.226437 CGTGGCAAAGTTACTGAAGCAT 59.774 45.455 0.00 0.00 0.00 3.79
2258 10261 3.667960 CGTGGCAAAGTTACTGAAGCATC 60.668 47.826 0.00 0.00 0.00 3.91
2259 10262 2.819608 TGGCAAAGTTACTGAAGCATCC 59.180 45.455 6.35 0.00 0.00 3.51
2260 10263 3.084786 GGCAAAGTTACTGAAGCATCCT 58.915 45.455 6.35 0.00 0.00 3.24
2261 10264 3.127721 GGCAAAGTTACTGAAGCATCCTC 59.872 47.826 6.35 0.00 0.00 3.71
2262 10265 3.127721 GCAAAGTTACTGAAGCATCCTCC 59.872 47.826 0.00 0.00 0.00 4.30
2263 10266 4.326826 CAAAGTTACTGAAGCATCCTCCA 58.673 43.478 0.00 0.00 0.00 3.86
2264 10267 4.640771 AAGTTACTGAAGCATCCTCCAA 57.359 40.909 0.00 0.00 0.00 3.53
2265 10268 4.851639 AGTTACTGAAGCATCCTCCAAT 57.148 40.909 0.00 0.00 0.00 3.16
2266 10269 4.521146 AGTTACTGAAGCATCCTCCAATG 58.479 43.478 0.00 0.00 0.00 2.82
2273 10276 3.583054 CATCCTCCAATGCACCACT 57.417 52.632 0.00 0.00 0.00 4.00
2274 10277 1.100510 CATCCTCCAATGCACCACTG 58.899 55.000 0.00 0.00 0.00 3.66
2275 10278 0.994247 ATCCTCCAATGCACCACTGA 59.006 50.000 0.00 0.00 0.00 3.41
2276 10279 0.770499 TCCTCCAATGCACCACTGAA 59.230 50.000 0.00 0.00 0.00 3.02
2277 10280 1.355381 TCCTCCAATGCACCACTGAAT 59.645 47.619 0.00 0.00 0.00 2.57
2278 10281 2.575735 TCCTCCAATGCACCACTGAATA 59.424 45.455 0.00 0.00 0.00 1.75
2279 10282 3.202818 TCCTCCAATGCACCACTGAATAT 59.797 43.478 0.00 0.00 0.00 1.28
2280 10283 4.411869 TCCTCCAATGCACCACTGAATATA 59.588 41.667 0.00 0.00 0.00 0.86
2281 10284 5.104151 TCCTCCAATGCACCACTGAATATAA 60.104 40.000 0.00 0.00 0.00 0.98
2282 10285 5.240183 CCTCCAATGCACCACTGAATATAAG 59.760 44.000 0.00 0.00 0.00 1.73
2283 10286 4.580167 TCCAATGCACCACTGAATATAAGC 59.420 41.667 0.00 0.00 0.00 3.09
2284 10287 4.338964 CCAATGCACCACTGAATATAAGCA 59.661 41.667 0.00 0.00 35.03 3.91
2285 10288 5.506815 CCAATGCACCACTGAATATAAGCAG 60.507 44.000 0.00 4.24 38.10 4.24
2286 10289 4.220693 TGCACCACTGAATATAAGCAGT 57.779 40.909 5.33 5.33 45.62 4.40
2287 10290 4.191544 TGCACCACTGAATATAAGCAGTC 58.808 43.478 7.63 0.10 43.06 3.51
2288 10291 3.246226 GCACCACTGAATATAAGCAGTCG 59.754 47.826 7.63 5.11 43.06 4.18
2289 10292 3.246226 CACCACTGAATATAAGCAGTCGC 59.754 47.826 7.63 0.00 43.06 5.19
2290 10293 3.118775 ACCACTGAATATAAGCAGTCGCA 60.119 43.478 7.63 0.00 43.06 5.10
2291 10294 3.871006 CCACTGAATATAAGCAGTCGCAA 59.129 43.478 7.63 0.00 43.06 4.85
2292 10295 4.332543 CCACTGAATATAAGCAGTCGCAAA 59.667 41.667 7.63 0.00 43.06 3.68
2293 10296 5.496387 CACTGAATATAAGCAGTCGCAAAG 58.504 41.667 7.63 0.00 43.06 2.77
2294 10297 5.063944 CACTGAATATAAGCAGTCGCAAAGT 59.936 40.000 7.63 0.00 43.06 2.66
2295 10298 5.643777 ACTGAATATAAGCAGTCGCAAAGTT 59.356 36.000 5.33 0.00 41.21 2.66
2296 10299 6.816640 ACTGAATATAAGCAGTCGCAAAGTTA 59.183 34.615 5.33 0.00 41.21 2.24
2297 10300 7.000575 TGAATATAAGCAGTCGCAAAGTTAC 57.999 36.000 0.00 0.00 42.27 2.50
2298 10301 6.816640 TGAATATAAGCAGTCGCAAAGTTACT 59.183 34.615 0.00 0.00 42.27 2.24
2299 10302 7.333423 TGAATATAAGCAGTCGCAAAGTTACTT 59.667 33.333 0.00 0.00 42.27 2.24
2300 10303 3.609103 AAGCAGTCGCAAAGTTACTTG 57.391 42.857 0.00 0.00 42.27 3.16
2301 10304 2.833794 AGCAGTCGCAAAGTTACTTGA 58.166 42.857 0.00 0.00 42.27 3.02
2302 10305 2.802816 AGCAGTCGCAAAGTTACTTGAG 59.197 45.455 0.00 0.00 42.27 3.02
2303 10306 2.096218 GCAGTCGCAAAGTTACTTGAGG 60.096 50.000 0.00 0.00 38.36 3.86
2304 10307 2.480419 CAGTCGCAAAGTTACTTGAGGG 59.520 50.000 0.00 3.64 0.00 4.30
2305 10308 2.367567 AGTCGCAAAGTTACTTGAGGGA 59.632 45.455 11.47 11.47 0.00 4.20
2306 10309 3.008049 AGTCGCAAAGTTACTTGAGGGAT 59.992 43.478 16.16 7.12 0.00 3.85
2307 10310 3.125316 GTCGCAAAGTTACTTGAGGGATG 59.875 47.826 16.16 4.84 0.00 3.51
2308 10311 3.007506 TCGCAAAGTTACTTGAGGGATGA 59.992 43.478 11.47 0.00 0.00 2.92
2309 10312 3.372206 CGCAAAGTTACTTGAGGGATGAG 59.628 47.826 0.00 0.00 0.00 2.90
2310 10313 4.579869 GCAAAGTTACTTGAGGGATGAGA 58.420 43.478 0.00 0.00 0.00 3.27
2311 10314 5.003804 GCAAAGTTACTTGAGGGATGAGAA 58.996 41.667 0.00 0.00 0.00 2.87
2312 10315 5.649831 GCAAAGTTACTTGAGGGATGAGAAT 59.350 40.000 0.00 0.00 0.00 2.40
2313 10316 6.823689 GCAAAGTTACTTGAGGGATGAGAATA 59.176 38.462 0.00 0.00 0.00 1.75
2314 10317 7.500559 GCAAAGTTACTTGAGGGATGAGAATAT 59.499 37.037 0.00 0.00 0.00 1.28
2315 10318 9.050601 CAAAGTTACTTGAGGGATGAGAATATC 57.949 37.037 0.00 0.00 0.00 1.63
2316 10319 8.560124 AAGTTACTTGAGGGATGAGAATATCT 57.440 34.615 0.00 0.00 0.00 1.98
2317 10320 8.189119 AGTTACTTGAGGGATGAGAATATCTC 57.811 38.462 0.39 0.39 43.65 2.75
2328 10331 4.363991 GAGAATATCTCACATGCCCCTT 57.636 45.455 2.57 0.00 42.90 3.95
2329 10332 4.723309 GAGAATATCTCACATGCCCCTTT 58.277 43.478 2.57 0.00 42.90 3.11
2330 10333 4.467769 AGAATATCTCACATGCCCCTTTG 58.532 43.478 0.00 0.00 0.00 2.77
2331 10334 2.734755 TATCTCACATGCCCCTTTGG 57.265 50.000 0.00 0.00 37.09 3.28
2340 10343 3.791640 CCCCTTTGGCCTTGGTTC 58.208 61.111 3.32 0.00 0.00 3.62
2341 10344 1.152355 CCCCTTTGGCCTTGGTTCA 60.152 57.895 3.32 0.00 0.00 3.18
2342 10345 0.762461 CCCCTTTGGCCTTGGTTCAA 60.762 55.000 3.32 0.00 0.00 2.69
2343 10346 0.392706 CCCTTTGGCCTTGGTTCAAC 59.607 55.000 3.32 0.00 0.00 3.18
2344 10347 1.413118 CCTTTGGCCTTGGTTCAACT 58.587 50.000 3.32 0.00 0.00 3.16
2345 10348 2.593026 CCTTTGGCCTTGGTTCAACTA 58.407 47.619 3.32 0.00 0.00 2.24
2346 10349 3.165071 CCTTTGGCCTTGGTTCAACTAT 58.835 45.455 3.32 0.00 0.00 2.12
2347 10350 4.340617 CCTTTGGCCTTGGTTCAACTATA 58.659 43.478 3.32 0.00 0.00 1.31
2348 10351 4.956075 CCTTTGGCCTTGGTTCAACTATAT 59.044 41.667 3.32 0.00 0.00 0.86
2349 10352 5.067805 CCTTTGGCCTTGGTTCAACTATATC 59.932 44.000 3.32 0.00 0.00 1.63
2350 10353 4.164843 TGGCCTTGGTTCAACTATATCC 57.835 45.455 3.32 0.00 0.00 2.59
2351 10354 3.785887 TGGCCTTGGTTCAACTATATCCT 59.214 43.478 3.32 0.00 0.00 3.24
2352 10355 4.229582 TGGCCTTGGTTCAACTATATCCTT 59.770 41.667 3.32 0.00 0.00 3.36
2353 10356 5.430417 TGGCCTTGGTTCAACTATATCCTTA 59.570 40.000 3.32 0.00 0.00 2.69
2354 10357 6.102615 TGGCCTTGGTTCAACTATATCCTTAT 59.897 38.462 3.32 0.00 0.00 1.73
2355 10358 7.004691 GGCCTTGGTTCAACTATATCCTTATT 58.995 38.462 0.00 0.00 0.00 1.40
2356 10359 7.505923 GGCCTTGGTTCAACTATATCCTTATTT 59.494 37.037 0.00 0.00 0.00 1.40
2357 10360 8.352942 GCCTTGGTTCAACTATATCCTTATTTG 58.647 37.037 0.00 0.00 0.00 2.32
2358 10361 9.408648 CCTTGGTTCAACTATATCCTTATTTGT 57.591 33.333 0.00 0.00 0.00 2.83
2360 10363 9.967451 TTGGTTCAACTATATCCTTATTTGTGA 57.033 29.630 0.00 0.00 0.00 3.58
2579 11036 7.394816 ACAACACAAATATCTACCTAGTTGCT 58.605 34.615 0.00 0.00 37.82 3.91
2593 11050 6.994221 ACCTAGTTGCTGGTATATGTGTATC 58.006 40.000 0.00 0.00 34.36 2.24
2664 11121 9.967346 GAATTAAAATAGCAAAGTATTCCCTCC 57.033 33.333 0.00 0.00 0.00 4.30
2665 11122 7.562454 TTAAAATAGCAAAGTATTCCCTCCG 57.438 36.000 0.00 0.00 0.00 4.63
2666 11123 4.772886 AATAGCAAAGTATTCCCTCCGT 57.227 40.909 0.00 0.00 0.00 4.69
2667 11124 2.693267 AGCAAAGTATTCCCTCCGTC 57.307 50.000 0.00 0.00 0.00 4.79
2668 11125 1.209747 AGCAAAGTATTCCCTCCGTCC 59.790 52.381 0.00 0.00 0.00 4.79
2669 11126 1.065709 GCAAAGTATTCCCTCCGTCCA 60.066 52.381 0.00 0.00 0.00 4.02
2670 11127 2.906354 CAAAGTATTCCCTCCGTCCAG 58.094 52.381 0.00 0.00 0.00 3.86
2671 11128 2.500098 CAAAGTATTCCCTCCGTCCAGA 59.500 50.000 0.00 0.00 0.00 3.86
2672 11129 2.544844 AGTATTCCCTCCGTCCAGAA 57.455 50.000 0.00 0.00 0.00 3.02
2673 11130 2.829023 AGTATTCCCTCCGTCCAGAAA 58.171 47.619 0.00 0.00 0.00 2.52
2674 11131 3.385115 AGTATTCCCTCCGTCCAGAAAT 58.615 45.455 0.00 0.00 0.00 2.17
2675 11132 4.553678 AGTATTCCCTCCGTCCAGAAATA 58.446 43.478 0.00 0.00 0.00 1.40
2676 11133 3.840124 ATTCCCTCCGTCCAGAAATAC 57.160 47.619 0.00 0.00 0.00 1.89
2677 11134 2.544844 TCCCTCCGTCCAGAAATACT 57.455 50.000 0.00 0.00 0.00 2.12
2678 11135 2.829023 TCCCTCCGTCCAGAAATACTT 58.171 47.619 0.00 0.00 0.00 2.24
2679 11136 2.500098 TCCCTCCGTCCAGAAATACTTG 59.500 50.000 0.00 0.00 0.00 3.16
2680 11137 2.236395 CCCTCCGTCCAGAAATACTTGT 59.764 50.000 0.00 0.00 0.00 3.16
2681 11138 3.522553 CCTCCGTCCAGAAATACTTGTC 58.477 50.000 0.00 0.00 0.00 3.18
2682 11139 3.056107 CCTCCGTCCAGAAATACTTGTCA 60.056 47.826 0.00 0.00 0.00 3.58
2683 11140 4.383118 CCTCCGTCCAGAAATACTTGTCAT 60.383 45.833 0.00 0.00 0.00 3.06
2684 11141 4.755411 TCCGTCCAGAAATACTTGTCATC 58.245 43.478 0.00 0.00 0.00 2.92
2685 11142 4.221924 TCCGTCCAGAAATACTTGTCATCA 59.778 41.667 0.00 0.00 0.00 3.07
2686 11143 4.935205 CCGTCCAGAAATACTTGTCATCAA 59.065 41.667 0.00 0.00 0.00 2.57
2687 11144 5.411361 CCGTCCAGAAATACTTGTCATCAAA 59.589 40.000 0.00 0.00 32.87 2.69
2688 11145 6.072728 CCGTCCAGAAATACTTGTCATCAAAA 60.073 38.462 0.00 0.00 32.87 2.44
2689 11146 6.797033 CGTCCAGAAATACTTGTCATCAAAAC 59.203 38.462 0.00 0.00 32.87 2.43
2690 11147 6.797033 GTCCAGAAATACTTGTCATCAAAACG 59.203 38.462 0.00 0.00 32.87 3.60
2691 11148 6.072728 TCCAGAAATACTTGTCATCAAAACGG 60.073 38.462 0.00 0.00 32.87 4.44
2692 11149 6.072728 CCAGAAATACTTGTCATCAAAACGGA 60.073 38.462 0.00 0.00 32.87 4.69
2693 11150 7.362056 CCAGAAATACTTGTCATCAAAACGGAT 60.362 37.037 0.00 0.00 32.87 4.18
2694 11151 8.664798 CAGAAATACTTGTCATCAAAACGGATA 58.335 33.333 0.00 0.00 32.87 2.59
2695 11152 9.226606 AGAAATACTTGTCATCAAAACGGATAA 57.773 29.630 0.00 0.00 32.87 1.75
2696 11153 9.834628 GAAATACTTGTCATCAAAACGGATAAA 57.165 29.630 0.00 0.00 32.87 1.40
2698 11155 9.840427 AATACTTGTCATCAAAACGGATAAAAG 57.160 29.630 0.00 0.00 32.87 2.27
2699 11156 6.677913 ACTTGTCATCAAAACGGATAAAAGG 58.322 36.000 0.00 0.00 32.87 3.11
2700 11157 6.488683 ACTTGTCATCAAAACGGATAAAAGGA 59.511 34.615 0.00 0.00 32.87 3.36
2701 11158 6.249035 TGTCATCAAAACGGATAAAAGGAC 57.751 37.500 0.00 0.00 0.00 3.85
2702 11159 5.765677 TGTCATCAAAACGGATAAAAGGACA 59.234 36.000 0.00 0.00 0.00 4.02
2703 11160 6.432783 TGTCATCAAAACGGATAAAAGGACAT 59.567 34.615 0.00 0.00 0.00 3.06
2704 11161 6.747280 GTCATCAAAACGGATAAAAGGACATG 59.253 38.462 0.00 0.00 0.00 3.21
2705 11162 6.432783 TCATCAAAACGGATAAAAGGACATGT 59.567 34.615 0.00 0.00 0.00 3.21
2706 11163 7.608376 TCATCAAAACGGATAAAAGGACATGTA 59.392 33.333 0.00 0.00 0.00 2.29
2707 11164 7.931578 TCAAAACGGATAAAAGGACATGTAT 57.068 32.000 0.00 0.00 0.00 2.29
2708 11165 7.981142 TCAAAACGGATAAAAGGACATGTATC 58.019 34.615 0.00 0.00 0.00 2.24
2709 11166 7.827236 TCAAAACGGATAAAAGGACATGTATCT 59.173 33.333 0.00 0.00 0.00 1.98
2710 11167 9.104965 CAAAACGGATAAAAGGACATGTATCTA 57.895 33.333 0.00 0.00 0.00 1.98
2711 11168 8.888579 AAACGGATAAAAGGACATGTATCTAG 57.111 34.615 0.00 0.00 0.00 2.43
2712 11169 7.834881 ACGGATAAAAGGACATGTATCTAGA 57.165 36.000 0.00 0.00 0.00 2.43
2713 11170 7.659186 ACGGATAAAAGGACATGTATCTAGAC 58.341 38.462 0.00 0.00 0.00 2.59
2714 11171 6.802348 CGGATAAAAGGACATGTATCTAGACG 59.198 42.308 0.00 0.00 0.00 4.18
2715 11172 7.521748 CGGATAAAAGGACATGTATCTAGACGT 60.522 40.741 0.00 0.00 0.00 4.34
2716 11173 8.790718 GGATAAAAGGACATGTATCTAGACGTA 58.209 37.037 0.00 0.00 0.00 3.57
2720 11177 9.886132 AAAAGGACATGTATCTAGACGTATTTT 57.114 29.630 0.00 0.00 0.00 1.82
2753 11210 9.713684 AGATACATCCCTTTTTATCCATTTTGA 57.286 29.630 0.00 0.00 0.00 2.69
2756 11213 7.567458 ACATCCCTTTTTATCCATTTTGATGG 58.433 34.615 0.00 0.00 43.01 3.51
2757 11214 5.988287 TCCCTTTTTATCCATTTTGATGGC 58.012 37.500 0.52 0.00 41.43 4.40
2758 11215 5.486775 TCCCTTTTTATCCATTTTGATGGCA 59.513 36.000 0.00 0.00 41.43 4.92
2759 11216 6.013032 TCCCTTTTTATCCATTTTGATGGCAA 60.013 34.615 0.00 0.00 41.43 4.52
2760 11217 6.316890 CCCTTTTTATCCATTTTGATGGCAAG 59.683 38.462 0.00 0.00 41.43 4.01
2761 11218 6.880529 CCTTTTTATCCATTTTGATGGCAAGT 59.119 34.615 0.00 0.00 41.43 3.16
2762 11219 8.040132 CCTTTTTATCCATTTTGATGGCAAGTA 58.960 33.333 0.00 0.00 41.43 2.24
2763 11220 9.603921 CTTTTTATCCATTTTGATGGCAAGTAT 57.396 29.630 0.00 0.00 41.43 2.12
2764 11221 9.956640 TTTTTATCCATTTTGATGGCAAGTATT 57.043 25.926 0.00 0.00 41.43 1.89
2765 11222 9.956640 TTTTATCCATTTTGATGGCAAGTATTT 57.043 25.926 0.00 0.00 41.43 1.40
2766 11223 9.956640 TTTATCCATTTTGATGGCAAGTATTTT 57.043 25.926 0.00 0.00 41.43 1.82
2767 11224 9.598517 TTATCCATTTTGATGGCAAGTATTTTC 57.401 29.630 0.00 0.00 41.43 2.29
2768 11225 6.098679 TCCATTTTGATGGCAAGTATTTTCG 58.901 36.000 0.00 0.00 41.43 3.46
2769 11226 5.291614 CCATTTTGATGGCAAGTATTTTCGG 59.708 40.000 0.00 0.00 35.04 4.30
2770 11227 5.713792 TTTTGATGGCAAGTATTTTCGGA 57.286 34.783 0.00 0.00 35.04 4.55
2771 11228 4.695217 TTGATGGCAAGTATTTTCGGAC 57.305 40.909 0.00 0.00 0.00 4.79
2772 11229 2.675844 TGATGGCAAGTATTTTCGGACG 59.324 45.455 0.00 0.00 0.00 4.79
2773 11230 1.444836 TGGCAAGTATTTTCGGACGG 58.555 50.000 0.00 0.00 0.00 4.79
2774 11231 1.002201 TGGCAAGTATTTTCGGACGGA 59.998 47.619 0.00 0.00 0.00 4.69
2775 11232 1.664151 GGCAAGTATTTTCGGACGGAG 59.336 52.381 0.00 0.00 0.00 4.63
2776 11233 1.664151 GCAAGTATTTTCGGACGGAGG 59.336 52.381 0.00 0.00 0.00 4.30
2885 11788 5.315195 GCGTTTGCAACCATAATTCAATTG 58.685 37.500 0.00 0.00 42.15 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
114 116 7.468631 GCACACATTATCCCTATAAACACCTTG 60.469 40.741 0.00 0.00 31.44 3.61
115 117 6.546034 GCACACATTATCCCTATAAACACCTT 59.454 38.462 0.00 0.00 31.44 3.50
143 145 1.369091 GCACCGCTATGAACACCCAG 61.369 60.000 0.00 0.00 0.00 4.45
158 160 1.024271 AACATGCACATATCCGCACC 58.976 50.000 0.00 0.00 41.79 5.01
183 185 7.147355 ACCAGACAGAGGTAGTAGTACATATGA 60.147 40.741 20.44 0.00 34.76 2.15
221 223 7.164230 TCAAAGTTGGGCATAAAATACGAAT 57.836 32.000 0.00 0.00 0.00 3.34
232 234 5.303589 CCAATCTATGATCAAAGTTGGGCAT 59.696 40.000 17.84 0.00 32.92 4.40
318 528 9.990868 ACCCTAAAAATAGTATCATTGGAAACT 57.009 29.630 0.00 0.00 0.00 2.66
384 594 5.878669 GTCGTCCTTATAGTTTGGGTCAAAT 59.121 40.000 0.00 0.00 35.74 2.32
405 615 1.066716 TCCGTCCTGGTTAATTGGTCG 60.067 52.381 0.00 0.00 39.52 4.79
407 617 1.280998 CCTCCGTCCTGGTTAATTGGT 59.719 52.381 0.00 0.00 39.52 3.67
409 619 2.781681 ACCTCCGTCCTGGTTAATTG 57.218 50.000 0.00 0.00 39.52 2.32
413 623 3.010584 ACTTACTACCTCCGTCCTGGTTA 59.989 47.826 0.00 0.00 39.52 2.85
416 626 1.749634 CACTTACTACCTCCGTCCTGG 59.250 57.143 0.00 0.00 40.09 4.45
471 681 3.097114 GCGGGCGAAACAAAAGCG 61.097 61.111 0.00 0.00 0.00 4.68
633 862 2.324541 AGCTAGCTATGGAGGTGAAGG 58.675 52.381 17.69 0.00 34.50 3.46
821 4191 5.053145 GGTGATGGATGTAAGAGATGTGTC 58.947 45.833 0.00 0.00 0.00 3.67
825 4195 4.454847 GCATGGTGATGGATGTAAGAGATG 59.545 45.833 0.00 0.00 0.00 2.90
827 4197 3.181451 GGCATGGTGATGGATGTAAGAGA 60.181 47.826 0.00 0.00 0.00 3.10
909 4293 1.889530 GAACTGTGACCGAGGGAGGG 61.890 65.000 0.00 0.00 35.02 4.30
1017 8021 1.375908 CTGCCGCTTCTGCTTGGTA 60.376 57.895 0.00 0.00 36.97 3.25
1240 9201 2.126228 GCCGGTGATGTCGTCGAA 60.126 61.111 1.90 0.00 0.00 3.71
1404 9374 1.595929 GACGTCTTTGGTTGGCGGA 60.596 57.895 8.70 0.00 0.00 5.54
1509 9488 2.514824 GCCTCGTCCATGGCCTTC 60.515 66.667 6.96 0.00 43.11 3.46
1545 9524 1.544825 CCTCCTCCGGTTGCTTCTGA 61.545 60.000 0.00 0.00 0.00 3.27
1625 9604 3.151461 GCCTCAGGCTTCACTTCTC 57.849 57.895 9.09 0.00 46.69 2.87
1692 9674 0.395311 TCTCGCCGATGGTAACCTCT 60.395 55.000 0.00 0.00 0.00 3.69
1699 9681 0.320374 TTGTTCTTCTCGCCGATGGT 59.680 50.000 0.00 0.00 0.00 3.55
1905 9887 2.435059 GCCTTCTCCACCACGCTC 60.435 66.667 0.00 0.00 0.00 5.03
1954 9936 2.783064 CGAGCGAGAAAGCAGCGAC 61.783 63.158 0.00 0.00 38.71 5.19
1989 9971 4.681781 GCTGCTCACTTCCTGAATAGCTTA 60.682 45.833 0.00 0.00 36.03 3.09
1993 9975 3.257469 TGCTGCTCACTTCCTGAATAG 57.743 47.619 0.00 0.00 0.00 1.73
2043 10036 7.544622 TCACGCAACTATGTATCTTTACTTCT 58.455 34.615 0.00 0.00 0.00 2.85
2081 10074 4.582869 ACATGTATGTTCTGCTGTGTCAT 58.417 39.130 0.00 0.00 37.90 3.06
2178 10181 2.416747 GCCAAGATTTTGCCAACTTCC 58.583 47.619 0.00 0.00 32.79 3.46
2199 10202 5.710099 TCTGGTAGATTTCACCAATGGAAAC 59.290 40.000 6.16 0.00 45.27 2.78
2231 10234 3.645884 TCAGTAACTTTGCCACGAGTAC 58.354 45.455 0.00 0.00 0.00 2.73
2243 10246 4.640771 TTGGAGGATGCTTCAGTAACTT 57.359 40.909 0.00 0.00 0.00 2.66
2244 10247 4.521146 CATTGGAGGATGCTTCAGTAACT 58.479 43.478 0.00 0.00 0.00 2.24
2245 10248 3.065925 GCATTGGAGGATGCTTCAGTAAC 59.934 47.826 0.00 0.00 46.85 2.50
2246 10249 3.282021 GCATTGGAGGATGCTTCAGTAA 58.718 45.455 0.00 0.00 46.85 2.24
2247 10250 2.923121 GCATTGGAGGATGCTTCAGTA 58.077 47.619 0.00 0.00 46.85 2.74
2248 10251 1.760192 GCATTGGAGGATGCTTCAGT 58.240 50.000 0.00 0.00 46.85 3.41
2255 10258 1.100510 CAGTGGTGCATTGGAGGATG 58.899 55.000 0.00 0.00 0.00 3.51
2256 10259 0.994247 TCAGTGGTGCATTGGAGGAT 59.006 50.000 0.00 0.00 0.00 3.24
2257 10260 0.770499 TTCAGTGGTGCATTGGAGGA 59.230 50.000 0.00 0.00 0.00 3.71
2258 10261 1.843368 ATTCAGTGGTGCATTGGAGG 58.157 50.000 0.00 0.00 0.00 4.30
2259 10262 5.278169 GCTTATATTCAGTGGTGCATTGGAG 60.278 44.000 0.00 0.00 0.00 3.86
2260 10263 4.580167 GCTTATATTCAGTGGTGCATTGGA 59.420 41.667 0.00 0.00 0.00 3.53
2261 10264 4.338964 TGCTTATATTCAGTGGTGCATTGG 59.661 41.667 0.00 0.00 0.00 3.16
2262 10265 5.066893 ACTGCTTATATTCAGTGGTGCATTG 59.933 40.000 6.60 0.00 41.53 2.82
2263 10266 5.195940 ACTGCTTATATTCAGTGGTGCATT 58.804 37.500 6.60 0.00 41.53 3.56
2264 10267 4.785301 ACTGCTTATATTCAGTGGTGCAT 58.215 39.130 6.60 0.00 41.53 3.96
2265 10268 4.191544 GACTGCTTATATTCAGTGGTGCA 58.808 43.478 10.89 0.00 42.97 4.57
2266 10269 3.246226 CGACTGCTTATATTCAGTGGTGC 59.754 47.826 10.89 0.00 42.97 5.01
2267 10270 3.246226 GCGACTGCTTATATTCAGTGGTG 59.754 47.826 10.89 4.19 42.97 4.17
2268 10271 3.118775 TGCGACTGCTTATATTCAGTGGT 60.119 43.478 10.89 0.00 42.97 4.16
2269 10272 3.457234 TGCGACTGCTTATATTCAGTGG 58.543 45.455 10.89 10.67 42.97 4.00
2270 10273 5.063944 ACTTTGCGACTGCTTATATTCAGTG 59.936 40.000 10.89 6.23 42.97 3.66
2271 10274 5.178797 ACTTTGCGACTGCTTATATTCAGT 58.821 37.500 7.00 7.00 45.32 3.41
2272 10275 5.725110 ACTTTGCGACTGCTTATATTCAG 57.275 39.130 0.00 1.50 43.34 3.02
2273 10276 6.816640 AGTAACTTTGCGACTGCTTATATTCA 59.183 34.615 0.00 0.00 43.34 2.57
2274 10277 7.235430 AGTAACTTTGCGACTGCTTATATTC 57.765 36.000 0.00 0.00 43.34 1.75
2275 10278 7.333423 TCAAGTAACTTTGCGACTGCTTATATT 59.667 33.333 0.00 0.00 43.34 1.28
2276 10279 6.816640 TCAAGTAACTTTGCGACTGCTTATAT 59.183 34.615 0.00 0.00 43.34 0.86
2277 10280 6.160684 TCAAGTAACTTTGCGACTGCTTATA 58.839 36.000 0.00 0.00 43.34 0.98
2278 10281 4.994852 TCAAGTAACTTTGCGACTGCTTAT 59.005 37.500 0.00 0.00 43.34 1.73
2279 10282 4.373527 TCAAGTAACTTTGCGACTGCTTA 58.626 39.130 0.00 0.00 43.34 3.09
2280 10283 3.202906 TCAAGTAACTTTGCGACTGCTT 58.797 40.909 0.00 0.00 43.34 3.91
2281 10284 2.802816 CTCAAGTAACTTTGCGACTGCT 59.197 45.455 0.00 0.00 43.34 4.24
2282 10285 2.096218 CCTCAAGTAACTTTGCGACTGC 60.096 50.000 0.00 0.00 43.20 4.40
2283 10286 2.480419 CCCTCAAGTAACTTTGCGACTG 59.520 50.000 0.00 0.00 0.00 3.51
2284 10287 2.367567 TCCCTCAAGTAACTTTGCGACT 59.632 45.455 0.00 0.00 0.00 4.18
2285 10288 2.762745 TCCCTCAAGTAACTTTGCGAC 58.237 47.619 0.00 0.00 0.00 5.19
2286 10289 3.007506 TCATCCCTCAAGTAACTTTGCGA 59.992 43.478 0.00 0.00 0.00 5.10
2287 10290 3.334691 TCATCCCTCAAGTAACTTTGCG 58.665 45.455 0.00 0.00 0.00 4.85
2288 10291 4.579869 TCTCATCCCTCAAGTAACTTTGC 58.420 43.478 0.00 0.00 0.00 3.68
2289 10292 8.970859 ATATTCTCATCCCTCAAGTAACTTTG 57.029 34.615 0.00 0.00 0.00 2.77
2290 10293 8.997734 AGATATTCTCATCCCTCAAGTAACTTT 58.002 33.333 0.00 0.00 0.00 2.66
2291 10294 8.560124 AGATATTCTCATCCCTCAAGTAACTT 57.440 34.615 0.00 0.00 0.00 2.66
2292 10295 8.189119 GAGATATTCTCATCCCTCAAGTAACT 57.811 38.462 0.00 0.00 42.90 2.24
2307 10310 4.363991 AAGGGGCATGTGAGATATTCTC 57.636 45.455 0.00 0.00 43.65 2.87
2308 10311 4.467769 CAAAGGGGCATGTGAGATATTCT 58.532 43.478 0.00 0.00 0.00 2.40
2309 10312 3.571401 CCAAAGGGGCATGTGAGATATTC 59.429 47.826 0.00 0.00 0.00 1.75
2310 10313 3.569491 CCAAAGGGGCATGTGAGATATT 58.431 45.455 0.00 0.00 0.00 1.28
2311 10314 3.234234 CCAAAGGGGCATGTGAGATAT 57.766 47.619 0.00 0.00 0.00 1.63
2312 10315 2.734755 CCAAAGGGGCATGTGAGATA 57.265 50.000 0.00 0.00 0.00 1.98
2313 10316 3.602104 CCAAAGGGGCATGTGAGAT 57.398 52.632 0.00 0.00 0.00 2.75
2323 10326 0.762461 TTGAACCAAGGCCAAAGGGG 60.762 55.000 5.01 0.41 40.85 4.79
2324 10327 0.392706 GTTGAACCAAGGCCAAAGGG 59.607 55.000 5.01 2.52 37.18 3.95
2325 10328 1.413118 AGTTGAACCAAGGCCAAAGG 58.587 50.000 5.01 5.98 0.00 3.11
2326 10329 5.067805 GGATATAGTTGAACCAAGGCCAAAG 59.932 44.000 5.01 0.00 0.00 2.77
2327 10330 4.953579 GGATATAGTTGAACCAAGGCCAAA 59.046 41.667 5.01 0.00 0.00 3.28
2328 10331 4.229582 AGGATATAGTTGAACCAAGGCCAA 59.770 41.667 5.01 0.00 0.00 4.52
2329 10332 3.785887 AGGATATAGTTGAACCAAGGCCA 59.214 43.478 5.01 0.00 0.00 5.36
2330 10333 4.439253 AGGATATAGTTGAACCAAGGCC 57.561 45.455 0.00 0.00 0.00 5.19
2331 10334 8.352942 CAAATAAGGATATAGTTGAACCAAGGC 58.647 37.037 0.00 0.00 33.83 4.35
2332 10335 9.408648 ACAAATAAGGATATAGTTGAACCAAGG 57.591 33.333 2.04 0.00 35.16 3.61
2334 10337 9.967451 TCACAAATAAGGATATAGTTGAACCAA 57.033 29.630 2.04 0.00 35.16 3.67
2349 10352 8.971321 GCATGTTTGCTAATATCACAAATAAGG 58.029 33.333 0.00 0.00 45.77 2.69
2408 10412 2.888414 TCGTCAAGTGTGTGTATGAGGA 59.112 45.455 0.00 0.00 35.17 3.71
2508 10512 7.864686 TGAGTACACTTCAAAAATCATCACAG 58.135 34.615 0.00 0.00 0.00 3.66
2593 11050 4.023279 TCACCGAGAAACAACATCAAATGG 60.023 41.667 0.00 0.00 33.60 3.16
2642 11099 6.655930 ACGGAGGGAATACTTTGCTATTTTA 58.344 36.000 0.00 0.00 0.00 1.52
2652 11109 2.544844 TCTGGACGGAGGGAATACTT 57.455 50.000 0.00 0.00 0.00 2.24
2653 11110 2.544844 TTCTGGACGGAGGGAATACT 57.455 50.000 0.00 0.00 0.00 2.12
2654 11111 3.840124 ATTTCTGGACGGAGGGAATAC 57.160 47.619 0.00 0.00 0.00 1.89
2655 11112 4.553678 AGTATTTCTGGACGGAGGGAATA 58.446 43.478 0.00 0.00 0.00 1.75
2656 11113 3.385115 AGTATTTCTGGACGGAGGGAAT 58.615 45.455 0.00 0.00 0.00 3.01
2657 11114 2.829023 AGTATTTCTGGACGGAGGGAA 58.171 47.619 0.00 0.00 0.00 3.97
2658 11115 2.500098 CAAGTATTTCTGGACGGAGGGA 59.500 50.000 0.00 0.00 0.00 4.20
2659 11116 2.236395 ACAAGTATTTCTGGACGGAGGG 59.764 50.000 0.00 0.00 0.00 4.30
2660 11117 3.056107 TGACAAGTATTTCTGGACGGAGG 60.056 47.826 0.00 0.00 0.00 4.30
2661 11118 4.188247 TGACAAGTATTTCTGGACGGAG 57.812 45.455 0.00 0.00 0.00 4.63
2662 11119 4.221924 TGATGACAAGTATTTCTGGACGGA 59.778 41.667 0.00 0.00 0.00 4.69
2663 11120 4.503910 TGATGACAAGTATTTCTGGACGG 58.496 43.478 0.00 0.00 0.00 4.79
2664 11121 6.480524 TTTGATGACAAGTATTTCTGGACG 57.519 37.500 0.00 0.00 37.32 4.79
2665 11122 6.797033 CGTTTTGATGACAAGTATTTCTGGAC 59.203 38.462 0.00 0.00 37.32 4.02
2666 11123 6.072728 CCGTTTTGATGACAAGTATTTCTGGA 60.073 38.462 0.00 0.00 37.32 3.86
2667 11124 6.072728 TCCGTTTTGATGACAAGTATTTCTGG 60.073 38.462 0.00 0.00 37.32 3.86
2668 11125 6.898041 TCCGTTTTGATGACAAGTATTTCTG 58.102 36.000 0.00 0.00 37.32 3.02
2669 11126 7.687941 ATCCGTTTTGATGACAAGTATTTCT 57.312 32.000 0.00 0.00 37.32 2.52
2670 11127 9.834628 TTTATCCGTTTTGATGACAAGTATTTC 57.165 29.630 0.00 0.00 37.32 2.17
2672 11129 9.840427 CTTTTATCCGTTTTGATGACAAGTATT 57.160 29.630 0.00 0.00 37.32 1.89
2673 11130 8.458843 CCTTTTATCCGTTTTGATGACAAGTAT 58.541 33.333 0.00 0.00 37.32 2.12
2674 11131 7.662258 TCCTTTTATCCGTTTTGATGACAAGTA 59.338 33.333 0.00 0.00 37.32 2.24
2675 11132 6.488683 TCCTTTTATCCGTTTTGATGACAAGT 59.511 34.615 0.00 0.00 37.32 3.16
2676 11133 6.801862 GTCCTTTTATCCGTTTTGATGACAAG 59.198 38.462 0.00 0.00 37.32 3.16
2677 11134 6.263392 TGTCCTTTTATCCGTTTTGATGACAA 59.737 34.615 0.00 0.00 0.00 3.18
2678 11135 5.765677 TGTCCTTTTATCCGTTTTGATGACA 59.234 36.000 0.00 0.00 0.00 3.58
2679 11136 6.249035 TGTCCTTTTATCCGTTTTGATGAC 57.751 37.500 0.00 0.00 0.00 3.06
2680 11137 6.432783 ACATGTCCTTTTATCCGTTTTGATGA 59.567 34.615 0.00 0.00 0.00 2.92
2681 11138 6.620678 ACATGTCCTTTTATCCGTTTTGATG 58.379 36.000 0.00 0.00 0.00 3.07
2682 11139 6.834168 ACATGTCCTTTTATCCGTTTTGAT 57.166 33.333 0.00 0.00 0.00 2.57
2683 11140 7.827236 AGATACATGTCCTTTTATCCGTTTTGA 59.173 33.333 0.00 0.00 0.00 2.69
2684 11141 7.985476 AGATACATGTCCTTTTATCCGTTTTG 58.015 34.615 0.00 0.00 0.00 2.44
2685 11142 9.326413 CTAGATACATGTCCTTTTATCCGTTTT 57.674 33.333 0.00 0.00 0.00 2.43
2686 11143 8.701895 TCTAGATACATGTCCTTTTATCCGTTT 58.298 33.333 0.00 0.00 0.00 3.60
2687 11144 8.142551 GTCTAGATACATGTCCTTTTATCCGTT 58.857 37.037 0.00 0.00 0.00 4.44
2688 11145 7.521748 CGTCTAGATACATGTCCTTTTATCCGT 60.522 40.741 0.00 0.00 0.00 4.69
2689 11146 6.802348 CGTCTAGATACATGTCCTTTTATCCG 59.198 42.308 0.00 0.00 0.00 4.18
2690 11147 7.659186 ACGTCTAGATACATGTCCTTTTATCC 58.341 38.462 0.00 0.00 0.00 2.59
2694 11151 9.886132 AAAATACGTCTAGATACATGTCCTTTT 57.114 29.630 0.00 0.00 0.00 2.27
2727 11184 9.713684 TCAAAATGGATAAAAAGGGATGTATCT 57.286 29.630 0.00 0.00 0.00 1.98
2746 11203 6.034898 GTCCGAAAATACTTGCCATCAAAATG 59.965 38.462 0.00 0.00 0.00 2.32
2747 11204 6.099341 GTCCGAAAATACTTGCCATCAAAAT 58.901 36.000 0.00 0.00 0.00 1.82
2748 11205 5.465935 GTCCGAAAATACTTGCCATCAAAA 58.534 37.500 0.00 0.00 0.00 2.44
2749 11206 4.378978 CGTCCGAAAATACTTGCCATCAAA 60.379 41.667 0.00 0.00 0.00 2.69
2750 11207 3.126171 CGTCCGAAAATACTTGCCATCAA 59.874 43.478 0.00 0.00 0.00 2.57
2751 11208 2.675844 CGTCCGAAAATACTTGCCATCA 59.324 45.455 0.00 0.00 0.00 3.07
2752 11209 2.031683 CCGTCCGAAAATACTTGCCATC 59.968 50.000 0.00 0.00 0.00 3.51
2753 11210 2.014128 CCGTCCGAAAATACTTGCCAT 58.986 47.619 0.00 0.00 0.00 4.40
2754 11211 1.002201 TCCGTCCGAAAATACTTGCCA 59.998 47.619 0.00 0.00 0.00 4.92
2755 11212 1.664151 CTCCGTCCGAAAATACTTGCC 59.336 52.381 0.00 0.00 0.00 4.52
2756 11213 1.664151 CCTCCGTCCGAAAATACTTGC 59.336 52.381 0.00 0.00 0.00 4.01
2757 11214 3.241067 TCCTCCGTCCGAAAATACTTG 57.759 47.619 0.00 0.00 0.00 3.16
2758 11215 3.260128 ACTTCCTCCGTCCGAAAATACTT 59.740 43.478 0.00 0.00 0.00 2.24
2759 11216 2.830321 ACTTCCTCCGTCCGAAAATACT 59.170 45.455 0.00 0.00 0.00 2.12
2760 11217 3.242549 ACTTCCTCCGTCCGAAAATAC 57.757 47.619 0.00 0.00 0.00 1.89
2761 11218 3.763360 TGTACTTCCTCCGTCCGAAAATA 59.237 43.478 0.00 0.00 0.00 1.40
2762 11219 2.564062 TGTACTTCCTCCGTCCGAAAAT 59.436 45.455 0.00 0.00 0.00 1.82
2763 11220 1.962807 TGTACTTCCTCCGTCCGAAAA 59.037 47.619 0.00 0.00 0.00 2.29
2764 11221 1.619654 TGTACTTCCTCCGTCCGAAA 58.380 50.000 0.00 0.00 0.00 3.46
2765 11222 1.843368 ATGTACTTCCTCCGTCCGAA 58.157 50.000 0.00 0.00 0.00 4.30
2766 11223 1.843368 AATGTACTTCCTCCGTCCGA 58.157 50.000 0.00 0.00 0.00 4.55
2767 11224 2.667473 AAATGTACTTCCTCCGTCCG 57.333 50.000 0.00 0.00 0.00 4.79
2768 11225 5.082251 ACTAAAATGTACTTCCTCCGTCC 57.918 43.478 0.00 0.00 0.00 4.79
2769 11226 7.977853 TGAATACTAAAATGTACTTCCTCCGTC 59.022 37.037 0.00 0.00 0.00 4.79
2770 11227 7.844009 TGAATACTAAAATGTACTTCCTCCGT 58.156 34.615 0.00 0.00 0.00 4.69
2771 11228 8.712285 TTGAATACTAAAATGTACTTCCTCCG 57.288 34.615 0.00 0.00 0.00 4.63
2885 11788 7.713764 ATGTTTGCAACCAAATTAAGTCTTC 57.286 32.000 0.00 0.00 42.44 2.87


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

AutoCloner maintained by Alex Coulton.