Multiple sequence alignment - TraesCS4D01G222400

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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 TraesCS4D01G222400 chr4D 100.000 2369 0 0 1 2369 379361764 379364132 0.000000e+00 4375.0
1 TraesCS4D01G222400 chr4B 93.965 1773 39 17 1 1766 466639193 466640904 0.000000e+00 2619.0
2 TraesCS4D01G222400 chr4B 93.671 237 6 3 1772 2001 466641898 466642132 1.740000e-91 346.0
3 TraesCS4D01G222400 chr4B 97.872 47 1 0 2321 2367 466642123 466642169 5.430000e-12 82.4
4 TraesCS4D01G222400 chr4A 95.203 1084 36 6 425 1495 85146727 85145647 0.000000e+00 1700.0
5 TraesCS4D01G222400 chr4A 88.842 475 29 6 1495 1968 85142330 85141879 1.590000e-156 562.0
6 TraesCS4D01G222400 chr4A 92.749 331 13 6 1 326 85147052 85146728 3.570000e-128 468.0
7 TraesCS4D01G222400 chr4A 85.795 176 23 2 1003 1177 608990467 608990641 4.020000e-43 185.0
8 TraesCS4D01G222400 chr2D 94.393 321 17 1 2000 2320 586967694 586967375 2.120000e-135 492.0
9 TraesCS4D01G222400 chr2D 93.125 320 18 4 2002 2320 136605709 136605393 1.280000e-127 466.0
10 TraesCS4D01G222400 chr1A 93.750 320 17 3 2001 2320 520464849 520464533 5.920000e-131 477.0
11 TraesCS4D01G222400 chr1A 92.945 326 21 2 2001 2326 471271873 471271550 7.660000e-130 473.0
12 TraesCS4D01G222400 chr7B 93.438 320 20 1 2001 2320 264057636 264057954 7.660000e-130 473.0
13 TraesCS4D01G222400 chr7A 92.857 322 22 1 1999 2320 580502112 580501792 1.280000e-127 466.0
14 TraesCS4D01G222400 chr1D 92.835 321 21 2 2001 2321 443782295 443782613 4.610000e-127 464.0
15 TraesCS4D01G222400 chr5B 92.812 320 22 1 2001 2320 384026797 384026479 1.660000e-126 462.0
16 TraesCS4D01G222400 chr5B 86.364 176 20 2 1003 1176 705796934 705796761 3.110000e-44 189.0
17 TraesCS4D01G222400 chr7D 92.547 322 23 1 2001 2322 104693584 104693264 5.970000e-126 460.0


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 TraesCS4D01G222400 chr4D 379361764 379364132 2368 False 4375.0 4375 100.000000 1 2369 1 chr4D.!!$F1 2368
1 TraesCS4D01G222400 chr4B 466639193 466642169 2976 False 1015.8 2619 95.169333 1 2367 3 chr4B.!!$F1 2366
2 TraesCS4D01G222400 chr4A 85141879 85147052 5173 True 910.0 1700 92.264667 1 1968 3 chr4A.!!$R1 1967

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
331 337 1.996191 GTTCGAGAATGCACTGGAGAC 59.004 52.381 0.0 0.0 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1579 4916 0.028505 GCACACTGCTGTCACACAAG 59.971 55.0 0.0 0.0 40.96 3.16 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
306 312 7.866729 ACTAGTAACTCACACTCGATCATATG 58.133 38.462 0.00 0.00 0.00 1.78
314 320 4.026228 CACACTCGATCATATGCACAGTTC 60.026 45.833 0.00 0.00 0.00 3.01
331 337 1.996191 GTTCGAGAATGCACTGGAGAC 59.004 52.381 0.00 0.00 0.00 3.36
389 395 6.432802 GATCGAGTCGAAGATCTTCAAATC 57.567 41.667 29.93 21.67 39.99 2.17
400 406 7.408710 CGAAGATCTTCAAATCAAAACTTTCGC 60.409 37.037 29.93 2.73 39.46 4.70
448 457 4.907875 AGCTAGCTAACCCAGGATGAATTA 59.092 41.667 17.69 0.00 39.69 1.40
479 488 2.493278 CCGCTGATCTGGAAACCAATTT 59.507 45.455 1.46 0.00 30.80 1.82
490 499 4.045334 TGGAAACCAATTTACCCTCCAGAT 59.955 41.667 0.00 0.00 0.00 2.90
734 748 2.642139 ATTTGCATCGGAGCACTTTG 57.358 45.000 2.16 0.00 45.61 2.77
773 787 5.047943 GCTAGCCTCGATAGTTTAATGGAGA 60.048 44.000 2.29 0.00 34.61 3.71
947 961 3.136626 ACAAGAAGCCAAACTAGTCAGGT 59.863 43.478 13.35 1.43 0.00 4.00
1242 1262 0.034896 ACAACGGCAGGAACAGGTAG 59.965 55.000 0.00 0.00 0.00 3.18
1409 1429 1.268899 AGTCGAACCAAGGACACGTAG 59.731 52.381 0.00 0.00 35.63 3.51
1419 1439 1.891150 AGGACACGTAGGTACCAAGTG 59.109 52.381 23.85 23.85 38.63 3.16
1428 1448 1.271656 AGGTACCAAGTGCAGTACGAC 59.728 52.381 15.94 0.00 39.81 4.34
1518 4855 7.832187 CCTAGTATTTTATGTTTGGGTCTTGGA 59.168 37.037 0.00 0.00 0.00 3.53
1576 4913 3.631962 CACGTACGTGTGCATGTTC 57.368 52.632 34.48 0.00 40.91 3.18
1577 4914 0.162933 CACGTACGTGTGCATGTTCC 59.837 55.000 34.48 0.00 40.91 3.62
1578 4915 0.249531 ACGTACGTGTGCATGTTCCA 60.250 50.000 22.14 0.00 0.00 3.53
1579 4916 0.162933 CGTACGTGTGCATGTTCCAC 59.837 55.000 7.22 0.00 0.00 4.02
1580 4917 1.508632 GTACGTGTGCATGTTCCACT 58.491 50.000 0.00 0.00 34.38 4.00
1581 4918 1.871039 GTACGTGTGCATGTTCCACTT 59.129 47.619 0.00 0.00 34.38 3.16
1676 5013 4.318121 GCTACCGATGAATGAACGAATGAC 60.318 45.833 0.00 0.00 0.00 3.06
1680 5017 4.329801 CCGATGAATGAACGAATGACTGAA 59.670 41.667 0.00 0.00 0.00 3.02
1725 5062 1.476471 GCCTGATTCTGAGTGGGGATG 60.476 57.143 0.00 0.00 0.00 3.51
1726 5063 2.121948 CCTGATTCTGAGTGGGGATGA 58.878 52.381 0.00 0.00 0.00 2.92
1727 5064 2.507058 CCTGATTCTGAGTGGGGATGAA 59.493 50.000 0.00 0.00 0.00 2.57
1728 5065 3.539604 CTGATTCTGAGTGGGGATGAAC 58.460 50.000 0.00 0.00 0.00 3.18
1816 6141 7.173047 TCCGTGTACAATAGTTGCTCGTATATA 59.827 37.037 0.00 0.00 0.00 0.86
1888 6221 2.300723 ACAACACTCGCATGTTACCCTA 59.699 45.455 4.11 0.00 40.89 3.53
1889 6222 3.055385 ACAACACTCGCATGTTACCCTAT 60.055 43.478 4.11 0.00 40.89 2.57
1986 6320 1.134560 GTCCCACTAGCTAGACGGTTG 59.865 57.143 27.45 13.84 0.00 3.77
1998 6332 1.094785 GACGGTTGGGGTCATTGATG 58.905 55.000 0.00 0.00 34.56 3.07
1999 6333 0.323360 ACGGTTGGGGTCATTGATGG 60.323 55.000 0.00 0.00 0.00 3.51
2000 6334 1.037030 CGGTTGGGGTCATTGATGGG 61.037 60.000 0.00 0.00 0.00 4.00
2001 6335 0.687427 GGTTGGGGTCATTGATGGGG 60.687 60.000 0.00 0.00 0.00 4.96
2002 6336 0.334676 GTTGGGGTCATTGATGGGGA 59.665 55.000 0.00 0.00 0.00 4.81
2003 6337 1.088269 TTGGGGTCATTGATGGGGAA 58.912 50.000 0.00 0.00 0.00 3.97
2004 6338 0.334676 TGGGGTCATTGATGGGGAAC 59.665 55.000 0.00 0.00 0.00 3.62
2018 6352 1.492764 GGGAACCGGATCCTCTAACA 58.507 55.000 27.91 0.00 40.86 2.41
2019 6353 2.047830 GGGAACCGGATCCTCTAACAT 58.952 52.381 27.91 0.00 40.86 2.71
2020 6354 2.037381 GGGAACCGGATCCTCTAACATC 59.963 54.545 27.91 7.13 40.86 3.06
2021 6355 2.037381 GGAACCGGATCCTCTAACATCC 59.963 54.545 22.87 4.23 36.50 3.51
2022 6356 2.777459 ACCGGATCCTCTAACATCCT 57.223 50.000 9.46 0.00 37.08 3.24
2023 6357 2.599677 ACCGGATCCTCTAACATCCTC 58.400 52.381 9.46 0.00 37.08 3.71
2024 6358 2.091278 ACCGGATCCTCTAACATCCTCA 60.091 50.000 9.46 0.00 37.08 3.86
2025 6359 2.965831 CCGGATCCTCTAACATCCTCAA 59.034 50.000 10.75 0.00 37.08 3.02
2026 6360 3.006323 CCGGATCCTCTAACATCCTCAAG 59.994 52.174 10.75 0.00 37.08 3.02
2027 6361 3.006323 CGGATCCTCTAACATCCTCAAGG 59.994 52.174 10.75 0.00 37.08 3.61
2028 6362 3.326297 GGATCCTCTAACATCCTCAAGGG 59.674 52.174 3.84 0.00 36.39 3.95
2037 6371 3.067011 TCCTCAAGGGATGTCACGT 57.933 52.632 0.00 0.00 39.58 4.49
2038 6372 2.225382 TCCTCAAGGGATGTCACGTA 57.775 50.000 0.00 0.00 39.58 3.57
2039 6373 2.531771 TCCTCAAGGGATGTCACGTAA 58.468 47.619 0.00 0.00 39.58 3.18
2040 6374 2.496070 TCCTCAAGGGATGTCACGTAAG 59.504 50.000 0.00 0.00 39.58 2.34
2041 6375 2.271800 CTCAAGGGATGTCACGTAAGC 58.728 52.381 0.00 0.00 45.62 3.09
2042 6376 1.899814 TCAAGGGATGTCACGTAAGCT 59.100 47.619 0.00 0.00 45.62 3.74
2043 6377 3.093814 TCAAGGGATGTCACGTAAGCTA 58.906 45.455 0.00 0.00 45.62 3.32
2044 6378 3.119245 TCAAGGGATGTCACGTAAGCTAC 60.119 47.826 0.00 0.00 45.62 3.58
2045 6379 2.453521 AGGGATGTCACGTAAGCTACA 58.546 47.619 0.00 0.00 45.62 2.74
2046 6380 2.427453 AGGGATGTCACGTAAGCTACAG 59.573 50.000 0.00 0.00 45.62 2.74
2047 6381 2.165845 GGGATGTCACGTAAGCTACAGT 59.834 50.000 0.00 0.00 45.62 3.55
2048 6382 3.379372 GGGATGTCACGTAAGCTACAGTA 59.621 47.826 0.00 0.00 45.62 2.74
2049 6383 4.142315 GGGATGTCACGTAAGCTACAGTAA 60.142 45.833 0.00 0.00 45.62 2.24
2050 6384 4.797349 GGATGTCACGTAAGCTACAGTAAC 59.203 45.833 0.00 0.00 45.62 2.50
2051 6385 4.164822 TGTCACGTAAGCTACAGTAACC 57.835 45.455 0.00 0.00 45.62 2.85
2052 6386 3.166657 GTCACGTAAGCTACAGTAACCG 58.833 50.000 0.00 0.00 45.62 4.44
2053 6387 2.813754 TCACGTAAGCTACAGTAACCGT 59.186 45.455 0.00 0.00 45.62 4.83
2054 6388 2.912967 CACGTAAGCTACAGTAACCGTG 59.087 50.000 0.00 0.00 45.62 4.94
2055 6389 2.813754 ACGTAAGCTACAGTAACCGTGA 59.186 45.455 0.00 0.00 45.62 4.35
2056 6390 3.166657 CGTAAGCTACAGTAACCGTGAC 58.833 50.000 0.00 0.00 0.00 3.67
2057 6391 3.365264 CGTAAGCTACAGTAACCGTGACA 60.365 47.826 0.00 0.00 0.00 3.58
2058 6392 3.955650 AAGCTACAGTAACCGTGACAT 57.044 42.857 0.00 0.00 0.00 3.06
2059 6393 3.505464 AGCTACAGTAACCGTGACATC 57.495 47.619 0.00 0.00 0.00 3.06
2060 6394 2.165845 AGCTACAGTAACCGTGACATCC 59.834 50.000 0.00 0.00 0.00 3.51
2061 6395 2.737679 GCTACAGTAACCGTGACATCCC 60.738 54.545 0.00 0.00 0.00 3.85
2062 6396 1.640917 ACAGTAACCGTGACATCCCT 58.359 50.000 0.00 0.00 0.00 4.20
2063 6397 1.975680 ACAGTAACCGTGACATCCCTT 59.024 47.619 0.00 0.00 0.00 3.95
2064 6398 2.028385 ACAGTAACCGTGACATCCCTTC 60.028 50.000 0.00 0.00 0.00 3.46
2065 6399 2.233922 CAGTAACCGTGACATCCCTTCT 59.766 50.000 0.00 0.00 0.00 2.85
2066 6400 2.904434 AGTAACCGTGACATCCCTTCTT 59.096 45.455 0.00 0.00 0.00 2.52
2067 6401 2.474410 AACCGTGACATCCCTTCTTC 57.526 50.000 0.00 0.00 0.00 2.87
2068 6402 1.348064 ACCGTGACATCCCTTCTTCA 58.652 50.000 0.00 0.00 0.00 3.02
2069 6403 1.002087 ACCGTGACATCCCTTCTTCAC 59.998 52.381 0.00 0.00 35.93 3.18
2070 6404 1.001974 CCGTGACATCCCTTCTTCACA 59.998 52.381 0.00 0.00 38.64 3.58
2071 6405 2.355108 CCGTGACATCCCTTCTTCACAT 60.355 50.000 0.00 0.00 38.64 3.21
2072 6406 2.932614 CGTGACATCCCTTCTTCACATC 59.067 50.000 0.00 0.00 38.64 3.06
2073 6407 3.274288 GTGACATCCCTTCTTCACATCC 58.726 50.000 0.00 0.00 38.60 3.51
2074 6408 2.912295 TGACATCCCTTCTTCACATCCA 59.088 45.455 0.00 0.00 0.00 3.41
2075 6409 3.524789 TGACATCCCTTCTTCACATCCAT 59.475 43.478 0.00 0.00 0.00 3.41
2076 6410 4.721274 TGACATCCCTTCTTCACATCCATA 59.279 41.667 0.00 0.00 0.00 2.74
2077 6411 5.370584 TGACATCCCTTCTTCACATCCATAT 59.629 40.000 0.00 0.00 0.00 1.78
2078 6412 5.628130 ACATCCCTTCTTCACATCCATATG 58.372 41.667 0.00 0.00 39.17 1.78
2079 6413 4.712051 TCCCTTCTTCACATCCATATGG 57.288 45.455 16.25 16.25 37.43 2.74
2080 6414 4.047166 TCCCTTCTTCACATCCATATGGT 58.953 43.478 21.28 6.34 37.43 3.55
2081 6415 4.478317 TCCCTTCTTCACATCCATATGGTT 59.522 41.667 21.28 10.66 37.43 3.67
2082 6416 5.669904 TCCCTTCTTCACATCCATATGGTTA 59.330 40.000 21.28 3.43 37.43 2.85
2083 6417 6.159575 TCCCTTCTTCACATCCATATGGTTAA 59.840 38.462 21.28 2.63 37.43 2.01
2084 6418 6.488006 CCCTTCTTCACATCCATATGGTTAAG 59.512 42.308 21.28 16.37 37.43 1.85
2085 6419 6.016777 CCTTCTTCACATCCATATGGTTAAGC 60.017 42.308 21.28 0.00 37.43 3.09
2086 6420 6.252599 TCTTCACATCCATATGGTTAAGCT 57.747 37.500 21.28 0.00 37.43 3.74
2087 6421 6.662755 TCTTCACATCCATATGGTTAAGCTT 58.337 36.000 21.28 3.48 37.43 3.74
2088 6422 7.801104 TCTTCACATCCATATGGTTAAGCTTA 58.199 34.615 21.28 0.86 37.43 3.09
2089 6423 8.271458 TCTTCACATCCATATGGTTAAGCTTAA 58.729 33.333 21.28 14.96 37.43 1.85
2090 6424 8.815565 TTCACATCCATATGGTTAAGCTTAAA 57.184 30.769 20.22 6.77 37.43 1.52
2091 6425 8.815565 TCACATCCATATGGTTAAGCTTAAAA 57.184 30.769 20.22 12.19 37.43 1.52
2092 6426 9.420118 TCACATCCATATGGTTAAGCTTAAAAT 57.580 29.630 20.22 17.71 37.43 1.82
2093 6427 9.467258 CACATCCATATGGTTAAGCTTAAAATG 57.533 33.333 20.22 18.29 37.43 2.32
2094 6428 9.420118 ACATCCATATGGTTAAGCTTAAAATGA 57.580 29.630 20.22 10.89 37.43 2.57
2167 6501 5.982465 ACACACAAACAAATTTATGGTGC 57.018 34.783 9.50 0.00 30.94 5.01
2168 6502 5.423015 ACACACAAACAAATTTATGGTGCA 58.577 33.333 9.50 0.00 30.94 4.57
2169 6503 5.877012 ACACACAAACAAATTTATGGTGCAA 59.123 32.000 9.50 0.00 30.94 4.08
2170 6504 6.541641 ACACACAAACAAATTTATGGTGCAAT 59.458 30.769 9.50 0.00 30.94 3.56
2171 6505 7.712639 ACACACAAACAAATTTATGGTGCAATA 59.287 29.630 9.50 0.00 30.94 1.90
2172 6506 8.554528 CACACAAACAAATTTATGGTGCAATAA 58.445 29.630 9.50 0.00 0.00 1.40
2173 6507 9.113838 ACACAAACAAATTTATGGTGCAATAAA 57.886 25.926 6.13 6.13 36.65 1.40
2174 6508 9.941664 CACAAACAAATTTATGGTGCAATAAAA 57.058 25.926 7.48 0.00 36.03 1.52
2218 6552 4.508128 GCTACAGTAGCCGCCGCA 62.508 66.667 20.53 0.00 45.95 5.69
2219 6553 2.582498 CTACAGTAGCCGCCGCAC 60.582 66.667 0.00 0.00 37.52 5.34
2220 6554 3.350909 CTACAGTAGCCGCCGCACA 62.351 63.158 0.00 0.00 37.52 4.57
2221 6555 3.350909 TACAGTAGCCGCCGCACAG 62.351 63.158 0.00 0.00 37.52 3.66
2222 6556 4.742201 CAGTAGCCGCCGCACAGT 62.742 66.667 0.00 0.00 37.52 3.55
2223 6557 3.066190 AGTAGCCGCCGCACAGTA 61.066 61.111 0.00 0.00 37.52 2.74
2224 6558 2.582498 GTAGCCGCCGCACAGTAG 60.582 66.667 0.00 0.00 37.52 2.57
2225 6559 3.066190 TAGCCGCCGCACAGTAGT 61.066 61.111 0.00 0.00 37.52 2.73
2226 6560 2.642254 TAGCCGCCGCACAGTAGTT 61.642 57.895 0.00 0.00 37.52 2.24
2227 6561 2.829043 TAGCCGCCGCACAGTAGTTG 62.829 60.000 0.00 0.00 37.52 3.16
2228 6562 3.788766 CCGCCGCACAGTAGTTGC 61.789 66.667 0.00 0.00 0.00 4.17
2229 6563 2.738521 CGCCGCACAGTAGTTGCT 60.739 61.111 0.00 0.00 0.00 3.91
2230 6564 1.445410 CGCCGCACAGTAGTTGCTA 60.445 57.895 0.00 0.00 0.00 3.49
2231 6565 1.683790 CGCCGCACAGTAGTTGCTAC 61.684 60.000 0.00 0.00 37.23 3.58
2232 6566 0.669318 GCCGCACAGTAGTTGCTACA 60.669 55.000 8.72 0.00 39.22 2.74
2233 6567 1.350193 CCGCACAGTAGTTGCTACAG 58.650 55.000 8.72 3.61 39.22 2.74
2234 6568 1.336887 CCGCACAGTAGTTGCTACAGT 60.337 52.381 8.72 4.19 39.22 3.55
2235 6569 2.094906 CCGCACAGTAGTTGCTACAGTA 60.095 50.000 8.72 0.00 39.22 2.74
2236 6570 3.571571 CGCACAGTAGTTGCTACAGTAA 58.428 45.455 8.72 0.00 39.22 2.24
2237 6571 3.364023 CGCACAGTAGTTGCTACAGTAAC 59.636 47.826 8.72 2.35 39.22 2.50
2238 6572 3.678548 GCACAGTAGTTGCTACAGTAACC 59.321 47.826 6.58 0.00 40.76 2.85
2239 6573 4.798263 GCACAGTAGTTGCTACAGTAACCA 60.798 45.833 6.58 0.00 40.76 3.67
2240 6574 5.479306 CACAGTAGTTGCTACAGTAACCAT 58.521 41.667 6.58 0.00 40.76 3.55
2241 6575 5.348724 CACAGTAGTTGCTACAGTAACCATG 59.651 44.000 6.58 6.13 40.76 3.66
2242 6576 4.330074 CAGTAGTTGCTACAGTAACCATGC 59.670 45.833 6.58 0.00 40.76 4.06
2243 6577 2.711542 AGTTGCTACAGTAACCATGCC 58.288 47.619 6.58 0.00 40.76 4.40
2244 6578 2.039746 AGTTGCTACAGTAACCATGCCA 59.960 45.455 6.58 0.00 40.76 4.92
2245 6579 2.107950 TGCTACAGTAACCATGCCAC 57.892 50.000 0.00 0.00 0.00 5.01
2246 6580 1.339631 TGCTACAGTAACCATGCCACC 60.340 52.381 0.00 0.00 0.00 4.61
2247 6581 2.017113 GCTACAGTAACCATGCCACCC 61.017 57.143 0.00 0.00 0.00 4.61
2248 6582 0.621609 TACAGTAACCATGCCACCCC 59.378 55.000 0.00 0.00 0.00 4.95
2249 6583 1.140134 ACAGTAACCATGCCACCCCT 61.140 55.000 0.00 0.00 0.00 4.79
2250 6584 0.039618 CAGTAACCATGCCACCCCTT 59.960 55.000 0.00 0.00 0.00 3.95
2251 6585 0.331616 AGTAACCATGCCACCCCTTC 59.668 55.000 0.00 0.00 0.00 3.46
2252 6586 0.331616 GTAACCATGCCACCCCTTCT 59.668 55.000 0.00 0.00 0.00 2.85
2253 6587 1.080638 TAACCATGCCACCCCTTCTT 58.919 50.000 0.00 0.00 0.00 2.52
2254 6588 0.251787 AACCATGCCACCCCTTCTTC 60.252 55.000 0.00 0.00 0.00 2.87
2255 6589 1.383799 CCATGCCACCCCTTCTTCA 59.616 57.895 0.00 0.00 0.00 3.02
2256 6590 0.967380 CCATGCCACCCCTTCTTCAC 60.967 60.000 0.00 0.00 0.00 3.18
2257 6591 0.038744 CATGCCACCCCTTCTTCACT 59.961 55.000 0.00 0.00 0.00 3.41
2258 6592 0.779997 ATGCCACCCCTTCTTCACTT 59.220 50.000 0.00 0.00 0.00 3.16
2259 6593 0.555769 TGCCACCCCTTCTTCACTTT 59.444 50.000 0.00 0.00 0.00 2.66
2260 6594 1.777878 TGCCACCCCTTCTTCACTTTA 59.222 47.619 0.00 0.00 0.00 1.85
2261 6595 2.160205 GCCACCCCTTCTTCACTTTAC 58.840 52.381 0.00 0.00 0.00 2.01
2262 6596 2.488347 GCCACCCCTTCTTCACTTTACA 60.488 50.000 0.00 0.00 0.00 2.41
2263 6597 3.146847 CCACCCCTTCTTCACTTTACAC 58.853 50.000 0.00 0.00 0.00 2.90
2264 6598 3.434453 CCACCCCTTCTTCACTTTACACA 60.434 47.826 0.00 0.00 0.00 3.72
2265 6599 3.564225 CACCCCTTCTTCACTTTACACAC 59.436 47.826 0.00 0.00 0.00 3.82
2266 6600 2.806244 CCCCTTCTTCACTTTACACACG 59.194 50.000 0.00 0.00 0.00 4.49
2267 6601 2.223377 CCCTTCTTCACTTTACACACGC 59.777 50.000 0.00 0.00 0.00 5.34
2268 6602 2.869801 CCTTCTTCACTTTACACACGCA 59.130 45.455 0.00 0.00 0.00 5.24
2269 6603 3.498397 CCTTCTTCACTTTACACACGCAT 59.502 43.478 0.00 0.00 0.00 4.73
2270 6604 4.024048 CCTTCTTCACTTTACACACGCATT 60.024 41.667 0.00 0.00 0.00 3.56
2271 6605 5.493133 TTCTTCACTTTACACACGCATTT 57.507 34.783 0.00 0.00 0.00 2.32
2272 6606 5.090652 TCTTCACTTTACACACGCATTTC 57.909 39.130 0.00 0.00 0.00 2.17
2273 6607 4.572795 TCTTCACTTTACACACGCATTTCA 59.427 37.500 0.00 0.00 0.00 2.69
2274 6608 4.203950 TCACTTTACACACGCATTTCAC 57.796 40.909 0.00 0.00 0.00 3.18
2275 6609 3.874543 TCACTTTACACACGCATTTCACT 59.125 39.130 0.00 0.00 0.00 3.41
2276 6610 3.968096 CACTTTACACACGCATTTCACTG 59.032 43.478 0.00 0.00 0.00 3.66
2277 6611 3.625764 ACTTTACACACGCATTTCACTGT 59.374 39.130 0.00 0.00 0.00 3.55
2278 6612 4.812091 ACTTTACACACGCATTTCACTGTA 59.188 37.500 0.00 0.00 0.00 2.74
2279 6613 4.983215 TTACACACGCATTTCACTGTAG 57.017 40.909 0.00 0.00 0.00 2.74
2280 6614 1.531149 ACACACGCATTTCACTGTAGC 59.469 47.619 0.00 0.00 0.00 3.58
2281 6615 1.800586 CACACGCATTTCACTGTAGCT 59.199 47.619 0.00 0.00 0.00 3.32
2282 6616 2.224079 CACACGCATTTCACTGTAGCTT 59.776 45.455 0.00 0.00 0.00 3.74
2283 6617 2.480419 ACACGCATTTCACTGTAGCTTC 59.520 45.455 0.00 0.00 0.00 3.86
2284 6618 1.726791 ACGCATTTCACTGTAGCTTCG 59.273 47.619 0.00 0.00 0.00 3.79
2285 6619 1.726791 CGCATTTCACTGTAGCTTCGT 59.273 47.619 0.00 0.00 0.00 3.85
2286 6620 2.472886 CGCATTTCACTGTAGCTTCGTG 60.473 50.000 0.00 0.00 0.00 4.35
2287 6621 2.736721 GCATTTCACTGTAGCTTCGTGA 59.263 45.455 11.72 11.72 36.02 4.35
2288 6622 3.423645 GCATTTCACTGTAGCTTCGTGAC 60.424 47.826 14.16 0.00 37.40 3.67
2289 6623 3.446310 TTTCACTGTAGCTTCGTGACA 57.554 42.857 14.16 8.13 37.40 3.58
2290 6624 3.660501 TTCACTGTAGCTTCGTGACAT 57.339 42.857 14.16 0.00 37.40 3.06
2291 6625 3.217599 TCACTGTAGCTTCGTGACATC 57.782 47.619 11.72 0.00 33.15 3.06
2292 6626 2.094700 TCACTGTAGCTTCGTGACATCC 60.095 50.000 11.72 0.00 33.15 3.51
2293 6627 1.204941 ACTGTAGCTTCGTGACATCCC 59.795 52.381 0.00 0.00 0.00 3.85
2294 6628 1.478510 CTGTAGCTTCGTGACATCCCT 59.521 52.381 0.00 0.00 0.00 4.20
2295 6629 1.899814 TGTAGCTTCGTGACATCCCTT 59.100 47.619 0.00 0.00 0.00 3.95
2296 6630 2.271800 GTAGCTTCGTGACATCCCTTG 58.728 52.381 0.00 0.00 0.00 3.61
2297 6631 0.976641 AGCTTCGTGACATCCCTTGA 59.023 50.000 0.00 0.00 0.00 3.02
2298 6632 1.066573 AGCTTCGTGACATCCCTTGAG 60.067 52.381 0.00 0.00 0.00 3.02
2299 6633 2.009042 GCTTCGTGACATCCCTTGAGG 61.009 57.143 0.00 0.00 0.00 3.86
2309 6643 1.893315 TCCCTTGAGGATGTTAGGGG 58.107 55.000 6.21 0.00 46.10 4.79
2310 6644 1.368203 TCCCTTGAGGATGTTAGGGGA 59.632 52.381 6.21 0.00 46.10 4.81
2311 6645 2.021042 TCCCTTGAGGATGTTAGGGGAT 60.021 50.000 6.21 0.00 46.10 3.85
2312 6646 2.373502 CCCTTGAGGATGTTAGGGGATC 59.626 54.545 0.00 0.00 43.04 3.36
2313 6647 2.373502 CCTTGAGGATGTTAGGGGATCC 59.626 54.545 1.92 1.92 38.83 3.36
2314 6648 1.717032 TGAGGATGTTAGGGGATCCG 58.283 55.000 5.45 0.00 42.73 4.18
2315 6649 0.321996 GAGGATGTTAGGGGATCCGC 59.678 60.000 20.86 20.86 42.73 5.54
2316 6650 0.104934 AGGATGTTAGGGGATCCGCT 60.105 55.000 31.60 31.60 42.73 5.52
2317 6651 0.765510 GGATGTTAGGGGATCCGCTT 59.234 55.000 33.66 17.82 39.89 4.68
2318 6652 1.270893 GGATGTTAGGGGATCCGCTTC 60.271 57.143 33.66 24.13 39.89 3.86
2319 6653 0.765510 ATGTTAGGGGATCCGCTTCC 59.234 55.000 33.66 23.75 39.89 3.46
2326 6660 3.733709 GGATCCGCTTCCCATTGAT 57.266 52.632 0.00 0.00 0.00 2.57
2353 6687 0.831307 GTCGATTAAGCCCTGGAGGT 59.169 55.000 0.00 0.00 38.26 3.85
2367 6701 0.879765 GGAGGTCTCACTTTCGACGA 59.120 55.000 0.00 0.00 0.00 4.20
2368 6702 1.473278 GGAGGTCTCACTTTCGACGAT 59.527 52.381 0.00 0.00 0.00 3.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 18 4.704833 CCGGCACACACAGAGGGG 62.705 72.222 0.00 0.00 0.00 4.79
17 19 3.883744 GACCGGCACACACAGAGGG 62.884 68.421 0.00 0.00 0.00 4.30
306 312 1.136141 CAGTGCATTCTCGAACTGTGC 60.136 52.381 4.81 5.00 36.20 4.57
314 320 2.084610 TTGTCTCCAGTGCATTCTCG 57.915 50.000 0.00 0.00 0.00 4.04
331 337 6.960109 CTTCATGCAAGACGCCAAGGATTG 62.960 50.000 0.00 0.00 39.19 2.67
341 347 1.267806 AGCCAAACTTCATGCAAGACG 59.732 47.619 10.61 0.00 35.82 4.18
342 348 3.375782 AAGCCAAACTTCATGCAAGAC 57.624 42.857 10.61 0.00 35.82 3.01
389 395 2.036933 GCTCTTCACGCGAAAGTTTTG 58.963 47.619 15.93 0.00 0.00 2.44
400 406 3.602491 CGACAAGTTTTCAGCTCTTCACG 60.602 47.826 0.00 0.00 0.00 4.35
479 488 7.206789 TGATTTGTTAATGATCTGGAGGGTA 57.793 36.000 0.00 0.00 0.00 3.69
490 499 5.465532 TGCTTGGCTTGATTTGTTAATGA 57.534 34.783 0.00 0.00 0.00 2.57
626 638 0.179150 CCTAGACAGAGAGCGTGTGC 60.179 60.000 0.00 0.00 43.24 4.57
628 640 0.609406 TGCCTAGACAGAGAGCGTGT 60.609 55.000 0.00 0.00 0.00 4.49
630 644 1.407258 GAATGCCTAGACAGAGAGCGT 59.593 52.381 0.00 0.00 0.00 5.07
632 646 2.038659 AGGAATGCCTAGACAGAGAGC 58.961 52.381 0.00 0.00 44.74 4.09
947 961 1.773054 CGCTACGCTTCCTAGCTCGA 61.773 60.000 0.00 0.00 45.51 4.04
975 995 3.566322 CCACGACCTTATCTCTACCTCAG 59.434 52.174 0.00 0.00 0.00 3.35
1242 1262 2.197792 TGATCGTACACGTGTATGCC 57.802 50.000 33.41 27.24 40.80 4.40
1283 1303 4.036971 AGTCTACTGATCGGAAGTGCATAC 59.963 45.833 9.00 0.00 0.00 2.39
1324 1344 2.961893 ATGCGGCGGGACAAGGTTA 61.962 57.895 9.78 0.00 0.00 2.85
1325 1345 4.344865 ATGCGGCGGGACAAGGTT 62.345 61.111 9.78 0.00 0.00 3.50
1377 1397 1.142097 TTCGACTGTGTGAACCGCA 59.858 52.632 0.00 0.00 0.00 5.69
1409 1429 1.670967 GGTCGTACTGCACTTGGTACC 60.671 57.143 4.43 4.43 36.05 3.34
1419 1439 1.393883 GCTAAGCTTTGGTCGTACTGC 59.606 52.381 3.20 0.00 0.00 4.40
1506 4843 4.473196 TGCATATACTCTCCAAGACCCAAA 59.527 41.667 0.00 0.00 0.00 3.28
1518 4855 8.325787 ACAGAGCTATACTACTGCATATACTCT 58.674 37.037 0.00 0.06 34.25 3.24
1571 4908 1.949525 GCTGTCACACAAGTGGAACAT 59.050 47.619 5.08 0.00 45.91 2.71
1572 4909 1.339535 TGCTGTCACACAAGTGGAACA 60.340 47.619 5.08 7.32 45.91 3.18
1573 4910 1.331756 CTGCTGTCACACAAGTGGAAC 59.668 52.381 5.08 3.13 45.91 3.62
1574 4911 1.065491 ACTGCTGTCACACAAGTGGAA 60.065 47.619 5.08 0.00 45.91 3.53
1575 4912 0.541392 ACTGCTGTCACACAAGTGGA 59.459 50.000 5.08 0.00 45.91 4.02
1576 4913 0.659427 CACTGCTGTCACACAAGTGG 59.341 55.000 5.08 0.00 45.91 4.00
1577 4914 4.685322 GCACACTGCTGTCACACAAGTG 62.685 54.545 11.90 11.90 40.78 3.16
1578 4915 1.372582 CACACTGCTGTCACACAAGT 58.627 50.000 0.00 0.00 0.00 3.16
1579 4916 0.028505 GCACACTGCTGTCACACAAG 59.971 55.000 0.00 0.00 40.96 3.16
1580 4917 0.676151 TGCACACTGCTGTCACACAA 60.676 50.000 0.00 0.00 45.31 3.33
1581 4918 0.464193 ATGCACACTGCTGTCACACA 60.464 50.000 0.00 0.00 45.31 3.72
1676 5013 5.890110 AACAGCGATACGTATTCATTCAG 57.110 39.130 9.92 0.00 0.00 3.02
1680 5017 5.227152 TGCATAACAGCGATACGTATTCAT 58.773 37.500 9.92 0.00 37.31 2.57
1725 5062 3.131396 AGATGTGTGTGGTTCTTCGTTC 58.869 45.455 0.00 0.00 0.00 3.95
1726 5063 3.194005 AGATGTGTGTGGTTCTTCGTT 57.806 42.857 0.00 0.00 0.00 3.85
1727 5064 2.910688 AGATGTGTGTGGTTCTTCGT 57.089 45.000 0.00 0.00 0.00 3.85
1728 5065 4.494484 TGATAGATGTGTGTGGTTCTTCG 58.506 43.478 0.00 0.00 0.00 3.79
1795 6120 9.757859 GAGAGTATATACGAGCAACTATTGTAC 57.242 37.037 7.23 0.00 0.00 2.90
1816 6141 7.451731 TGGAAAAGGATACCAATATGAGAGT 57.548 36.000 0.00 0.00 37.17 3.24
1888 6221 2.044793 TTGTGAGTCAAGGGGGAGAT 57.955 50.000 0.00 0.00 0.00 2.75
1889 6222 1.699634 CTTTGTGAGTCAAGGGGGAGA 59.300 52.381 0.00 0.00 37.35 3.71
1986 6320 0.397114 GGTTCCCCATCAATGACCCC 60.397 60.000 0.00 0.00 0.00 4.95
1998 6332 0.757512 GTTAGAGGATCCGGTTCCCC 59.242 60.000 25.10 15.83 36.35 4.81
1999 6333 1.492764 TGTTAGAGGATCCGGTTCCC 58.507 55.000 25.10 17.15 36.35 3.97
2000 6334 2.037381 GGATGTTAGAGGATCCGGTTCC 59.963 54.545 22.05 22.05 33.66 3.62
2001 6335 2.966516 AGGATGTTAGAGGATCCGGTTC 59.033 50.000 5.98 1.67 42.73 3.62
2002 6336 2.966516 GAGGATGTTAGAGGATCCGGTT 59.033 50.000 5.98 0.00 42.73 4.44
2003 6337 2.091278 TGAGGATGTTAGAGGATCCGGT 60.091 50.000 5.98 0.00 42.73 5.28
2004 6338 2.598565 TGAGGATGTTAGAGGATCCGG 58.401 52.381 5.98 0.00 42.73 5.14
2005 6339 3.006323 CCTTGAGGATGTTAGAGGATCCG 59.994 52.174 5.98 0.00 42.73 4.18
2006 6340 3.326297 CCCTTGAGGATGTTAGAGGATCC 59.674 52.174 2.48 2.48 38.83 3.36
2007 6341 4.227197 TCCCTTGAGGATGTTAGAGGATC 58.773 47.826 0.00 0.00 40.93 3.36
2008 6342 4.286813 TCCCTTGAGGATGTTAGAGGAT 57.713 45.455 0.00 0.00 40.93 3.24
2009 6343 3.776731 TCCCTTGAGGATGTTAGAGGA 57.223 47.619 0.00 0.00 40.93 3.71
2020 6354 2.893637 CTTACGTGACATCCCTTGAGG 58.106 52.381 0.00 0.00 0.00 3.86
2021 6355 2.093973 AGCTTACGTGACATCCCTTGAG 60.094 50.000 0.00 0.00 0.00 3.02
2022 6356 1.899814 AGCTTACGTGACATCCCTTGA 59.100 47.619 0.00 0.00 0.00 3.02
2023 6357 2.386661 AGCTTACGTGACATCCCTTG 57.613 50.000 0.00 0.00 0.00 3.61
2024 6358 2.829720 TGTAGCTTACGTGACATCCCTT 59.170 45.455 0.00 0.00 0.00 3.95
2025 6359 2.427453 CTGTAGCTTACGTGACATCCCT 59.573 50.000 0.00 0.00 0.00 4.20
2026 6360 2.165845 ACTGTAGCTTACGTGACATCCC 59.834 50.000 0.00 0.00 0.00 3.85
2027 6361 3.505464 ACTGTAGCTTACGTGACATCC 57.495 47.619 0.00 0.00 0.00 3.51
2028 6362 4.797349 GGTTACTGTAGCTTACGTGACATC 59.203 45.833 0.00 0.00 0.00 3.06
2029 6363 4.673580 CGGTTACTGTAGCTTACGTGACAT 60.674 45.833 0.00 0.00 0.00 3.06
2030 6364 3.365264 CGGTTACTGTAGCTTACGTGACA 60.365 47.826 0.00 0.00 0.00 3.58
2031 6365 3.166657 CGGTTACTGTAGCTTACGTGAC 58.833 50.000 0.00 0.00 0.00 3.67
2032 6366 2.813754 ACGGTTACTGTAGCTTACGTGA 59.186 45.455 0.00 0.00 31.60 4.35
2033 6367 2.912967 CACGGTTACTGTAGCTTACGTG 59.087 50.000 13.82 13.82 43.20 4.49
2034 6368 2.813754 TCACGGTTACTGTAGCTTACGT 59.186 45.455 0.00 0.00 0.00 3.57
2035 6369 3.166657 GTCACGGTTACTGTAGCTTACG 58.833 50.000 0.00 0.34 0.00 3.18
2036 6370 4.164822 TGTCACGGTTACTGTAGCTTAC 57.835 45.455 0.00 0.00 0.00 2.34
2037 6371 4.142315 GGATGTCACGGTTACTGTAGCTTA 60.142 45.833 0.00 0.00 0.00 3.09
2038 6372 3.368116 GGATGTCACGGTTACTGTAGCTT 60.368 47.826 0.00 0.00 0.00 3.74
2039 6373 2.165845 GGATGTCACGGTTACTGTAGCT 59.834 50.000 0.00 0.00 0.00 3.32
2040 6374 2.537401 GGATGTCACGGTTACTGTAGC 58.463 52.381 0.00 0.00 0.00 3.58
2041 6375 2.758979 AGGGATGTCACGGTTACTGTAG 59.241 50.000 0.00 0.00 0.00 2.74
2042 6376 2.811410 AGGGATGTCACGGTTACTGTA 58.189 47.619 0.00 0.00 0.00 2.74
2043 6377 1.640917 AGGGATGTCACGGTTACTGT 58.359 50.000 0.00 0.00 0.00 3.55
2044 6378 2.233922 AGAAGGGATGTCACGGTTACTG 59.766 50.000 0.00 0.00 0.00 2.74
2045 6379 2.537143 AGAAGGGATGTCACGGTTACT 58.463 47.619 0.00 0.00 0.00 2.24
2046 6380 3.259902 GAAGAAGGGATGTCACGGTTAC 58.740 50.000 0.00 0.00 0.00 2.50
2047 6381 2.901192 TGAAGAAGGGATGTCACGGTTA 59.099 45.455 0.00 0.00 0.00 2.85
2048 6382 1.697432 TGAAGAAGGGATGTCACGGTT 59.303 47.619 0.00 0.00 0.00 4.44
2049 6383 1.002087 GTGAAGAAGGGATGTCACGGT 59.998 52.381 0.00 0.00 31.84 4.83
2050 6384 1.001974 TGTGAAGAAGGGATGTCACGG 59.998 52.381 0.00 0.00 42.66 4.94
2051 6385 2.455674 TGTGAAGAAGGGATGTCACG 57.544 50.000 0.00 0.00 42.66 4.35
2052 6386 3.274288 GGATGTGAAGAAGGGATGTCAC 58.726 50.000 0.00 0.00 40.64 3.67
2053 6387 2.912295 TGGATGTGAAGAAGGGATGTCA 59.088 45.455 0.00 0.00 0.00 3.58
2054 6388 3.634397 TGGATGTGAAGAAGGGATGTC 57.366 47.619 0.00 0.00 0.00 3.06
2055 6389 5.457197 CCATATGGATGTGAAGAAGGGATGT 60.457 44.000 17.49 0.00 37.39 3.06
2056 6390 5.008331 CCATATGGATGTGAAGAAGGGATG 58.992 45.833 17.49 0.00 37.39 3.51
2057 6391 4.666907 ACCATATGGATGTGAAGAAGGGAT 59.333 41.667 28.77 0.00 38.94 3.85
2058 6392 4.047166 ACCATATGGATGTGAAGAAGGGA 58.953 43.478 28.77 0.00 38.94 4.20
2059 6393 4.443978 ACCATATGGATGTGAAGAAGGG 57.556 45.455 28.77 0.00 38.94 3.95
2060 6394 6.016777 GCTTAACCATATGGATGTGAAGAAGG 60.017 42.308 28.77 1.28 38.94 3.46
2061 6395 6.769822 AGCTTAACCATATGGATGTGAAGAAG 59.230 38.462 28.77 15.51 38.94 2.85
2062 6396 6.662755 AGCTTAACCATATGGATGTGAAGAA 58.337 36.000 28.77 5.67 38.94 2.52
2063 6397 6.252599 AGCTTAACCATATGGATGTGAAGA 57.747 37.500 28.77 0.00 38.94 2.87
2064 6398 6.949352 AAGCTTAACCATATGGATGTGAAG 57.051 37.500 28.77 20.31 38.94 3.02
2065 6399 8.815565 TTTAAGCTTAACCATATGGATGTGAA 57.184 30.769 28.77 12.28 38.94 3.18
2066 6400 8.815565 TTTTAAGCTTAACCATATGGATGTGA 57.184 30.769 28.77 8.66 38.94 3.58
2067 6401 9.467258 CATTTTAAGCTTAACCATATGGATGTG 57.533 33.333 28.77 13.95 38.94 3.21
2068 6402 9.420118 TCATTTTAAGCTTAACCATATGGATGT 57.580 29.630 28.77 14.56 38.94 3.06
2141 6475 8.555361 GCACCATAAATTTGTTTGTGTGTAATT 58.445 29.630 0.00 0.00 0.00 1.40
2142 6476 7.712639 TGCACCATAAATTTGTTTGTGTGTAAT 59.287 29.630 0.00 0.00 0.00 1.89
2143 6477 7.041721 TGCACCATAAATTTGTTTGTGTGTAA 58.958 30.769 0.00 0.00 0.00 2.41
2144 6478 6.573434 TGCACCATAAATTTGTTTGTGTGTA 58.427 32.000 0.00 4.21 0.00 2.90
2145 6479 5.423015 TGCACCATAAATTTGTTTGTGTGT 58.577 33.333 0.00 0.00 0.00 3.72
2146 6480 5.980698 TGCACCATAAATTTGTTTGTGTG 57.019 34.783 0.00 7.56 0.00 3.82
2147 6481 8.668510 TTATTGCACCATAAATTTGTTTGTGT 57.331 26.923 0.00 0.00 0.00 3.72
2148 6482 9.941664 TTTTATTGCACCATAAATTTGTTTGTG 57.058 25.926 0.00 5.59 0.00 3.33
2202 6536 2.582498 GTGCGGCGGCTACTGTAG 60.582 66.667 17.76 10.48 40.82 2.74
2203 6537 3.350909 CTGTGCGGCGGCTACTGTA 62.351 63.158 17.76 0.00 40.82 2.74
2204 6538 4.742201 CTGTGCGGCGGCTACTGT 62.742 66.667 17.76 0.00 40.82 3.55
2205 6539 3.350909 TACTGTGCGGCGGCTACTG 62.351 63.158 17.76 17.32 40.82 2.74
2206 6540 3.064987 CTACTGTGCGGCGGCTACT 62.065 63.158 17.76 2.62 40.82 2.57
2207 6541 2.582498 CTACTGTGCGGCGGCTAC 60.582 66.667 17.76 13.52 40.82 3.58
2208 6542 2.642254 AACTACTGTGCGGCGGCTA 61.642 57.895 17.76 5.77 40.82 3.93
2209 6543 4.003788 AACTACTGTGCGGCGGCT 62.004 61.111 17.76 0.00 40.82 5.52
2210 6544 3.788766 CAACTACTGTGCGGCGGC 61.789 66.667 9.78 9.68 40.52 6.53
2211 6545 2.829043 TAGCAACTACTGTGCGGCGG 62.829 60.000 9.78 0.00 0.00 6.13
2212 6546 1.445410 TAGCAACTACTGTGCGGCG 60.445 57.895 0.51 0.51 0.00 6.46
2213 6547 0.669318 TGTAGCAACTACTGTGCGGC 60.669 55.000 6.34 0.00 37.78 6.53
2214 6548 1.336887 ACTGTAGCAACTACTGTGCGG 60.337 52.381 14.17 0.00 43.75 5.69
2215 6549 2.065993 ACTGTAGCAACTACTGTGCG 57.934 50.000 14.17 0.00 43.75 5.34
2216 6550 3.678548 GGTTACTGTAGCAACTACTGTGC 59.321 47.826 20.80 14.96 44.58 4.57
2217 6551 4.878439 TGGTTACTGTAGCAACTACTGTG 58.122 43.478 20.80 8.60 44.58 3.66
2218 6552 5.479306 CATGGTTACTGTAGCAACTACTGT 58.521 41.667 17.62 17.62 45.91 3.55
2219 6553 4.330074 GCATGGTTACTGTAGCAACTACTG 59.670 45.833 9.33 9.33 40.25 2.74
2220 6554 4.504858 GCATGGTTACTGTAGCAACTACT 58.495 43.478 4.08 0.00 37.78 2.57
2221 6555 3.621715 GGCATGGTTACTGTAGCAACTAC 59.378 47.826 4.08 0.00 37.46 2.73
2222 6556 3.262151 TGGCATGGTTACTGTAGCAACTA 59.738 43.478 4.08 0.00 0.00 2.24
2223 6557 2.039746 TGGCATGGTTACTGTAGCAACT 59.960 45.455 4.08 0.00 0.00 3.16
2224 6558 2.161609 GTGGCATGGTTACTGTAGCAAC 59.838 50.000 4.08 0.00 0.00 4.17
2225 6559 2.432444 GTGGCATGGTTACTGTAGCAA 58.568 47.619 4.08 0.00 0.00 3.91
2226 6560 1.339631 GGTGGCATGGTTACTGTAGCA 60.340 52.381 4.08 0.00 0.00 3.49
2227 6561 1.379527 GGTGGCATGGTTACTGTAGC 58.620 55.000 0.00 0.00 0.00 3.58
2228 6562 1.408266 GGGGTGGCATGGTTACTGTAG 60.408 57.143 0.00 0.00 0.00 2.74
2229 6563 0.621609 GGGGTGGCATGGTTACTGTA 59.378 55.000 0.00 0.00 0.00 2.74
2230 6564 1.140134 AGGGGTGGCATGGTTACTGT 61.140 55.000 0.00 0.00 0.00 3.55
2231 6565 0.039618 AAGGGGTGGCATGGTTACTG 59.960 55.000 0.00 0.00 0.00 2.74
2232 6566 0.331616 GAAGGGGTGGCATGGTTACT 59.668 55.000 0.00 0.00 0.00 2.24
2233 6567 0.331616 AGAAGGGGTGGCATGGTTAC 59.668 55.000 0.00 0.00 0.00 2.50
2234 6568 1.005450 GAAGAAGGGGTGGCATGGTTA 59.995 52.381 0.00 0.00 0.00 2.85
2235 6569 0.251787 GAAGAAGGGGTGGCATGGTT 60.252 55.000 0.00 0.00 0.00 3.67
2236 6570 1.384191 GAAGAAGGGGTGGCATGGT 59.616 57.895 0.00 0.00 0.00 3.55
2237 6571 0.967380 GTGAAGAAGGGGTGGCATGG 60.967 60.000 0.00 0.00 0.00 3.66
2238 6572 0.038744 AGTGAAGAAGGGGTGGCATG 59.961 55.000 0.00 0.00 0.00 4.06
2239 6573 0.779997 AAGTGAAGAAGGGGTGGCAT 59.220 50.000 0.00 0.00 0.00 4.40
2240 6574 0.555769 AAAGTGAAGAAGGGGTGGCA 59.444 50.000 0.00 0.00 0.00 4.92
2241 6575 2.160205 GTAAAGTGAAGAAGGGGTGGC 58.840 52.381 0.00 0.00 0.00 5.01
2242 6576 3.146847 GTGTAAAGTGAAGAAGGGGTGG 58.853 50.000 0.00 0.00 0.00 4.61
2243 6577 3.564225 GTGTGTAAAGTGAAGAAGGGGTG 59.436 47.826 0.00 0.00 0.00 4.61
2244 6578 3.743269 CGTGTGTAAAGTGAAGAAGGGGT 60.743 47.826 0.00 0.00 0.00 4.95
2245 6579 2.806244 CGTGTGTAAAGTGAAGAAGGGG 59.194 50.000 0.00 0.00 0.00 4.79
2246 6580 2.223377 GCGTGTGTAAAGTGAAGAAGGG 59.777 50.000 0.00 0.00 0.00 3.95
2247 6581 2.869801 TGCGTGTGTAAAGTGAAGAAGG 59.130 45.455 0.00 0.00 0.00 3.46
2248 6582 4.732285 ATGCGTGTGTAAAGTGAAGAAG 57.268 40.909 0.00 0.00 0.00 2.85
2249 6583 5.065346 TGAAATGCGTGTGTAAAGTGAAGAA 59.935 36.000 0.00 0.00 0.00 2.52
2250 6584 4.572795 TGAAATGCGTGTGTAAAGTGAAGA 59.427 37.500 0.00 0.00 0.00 2.87
2251 6585 4.670621 GTGAAATGCGTGTGTAAAGTGAAG 59.329 41.667 0.00 0.00 0.00 3.02
2252 6586 4.334203 AGTGAAATGCGTGTGTAAAGTGAA 59.666 37.500 0.00 0.00 0.00 3.18
2253 6587 3.874543 AGTGAAATGCGTGTGTAAAGTGA 59.125 39.130 0.00 0.00 0.00 3.41
2254 6588 3.968096 CAGTGAAATGCGTGTGTAAAGTG 59.032 43.478 0.00 0.00 0.00 3.16
2255 6589 3.625764 ACAGTGAAATGCGTGTGTAAAGT 59.374 39.130 0.00 0.00 0.00 2.66
2256 6590 4.209452 ACAGTGAAATGCGTGTGTAAAG 57.791 40.909 0.00 0.00 0.00 1.85
2257 6591 4.319190 GCTACAGTGAAATGCGTGTGTAAA 60.319 41.667 0.00 0.00 0.00 2.01
2258 6592 3.185594 GCTACAGTGAAATGCGTGTGTAA 59.814 43.478 0.00 0.00 0.00 2.41
2259 6593 2.734606 GCTACAGTGAAATGCGTGTGTA 59.265 45.455 0.00 0.00 0.00 2.90
2260 6594 1.531149 GCTACAGTGAAATGCGTGTGT 59.469 47.619 0.00 0.00 0.00 3.72
2261 6595 1.800586 AGCTACAGTGAAATGCGTGTG 59.199 47.619 0.00 0.00 0.00 3.82
2262 6596 2.169832 AGCTACAGTGAAATGCGTGT 57.830 45.000 0.00 0.00 0.00 4.49
2263 6597 2.472886 CGAAGCTACAGTGAAATGCGTG 60.473 50.000 0.00 0.00 0.00 5.34
2264 6598 1.726791 CGAAGCTACAGTGAAATGCGT 59.273 47.619 0.00 0.00 0.00 5.24
2265 6599 1.726791 ACGAAGCTACAGTGAAATGCG 59.273 47.619 0.00 0.00 0.00 4.73
2266 6600 2.736721 TCACGAAGCTACAGTGAAATGC 59.263 45.455 14.04 0.00 41.30 3.56
2267 6601 3.740832 TGTCACGAAGCTACAGTGAAATG 59.259 43.478 16.90 0.00 45.04 2.32
2268 6602 3.990092 TGTCACGAAGCTACAGTGAAAT 58.010 40.909 16.90 0.00 45.04 2.17
2269 6603 3.446310 TGTCACGAAGCTACAGTGAAA 57.554 42.857 16.90 11.25 45.04 2.69
2270 6604 3.575630 GATGTCACGAAGCTACAGTGAA 58.424 45.455 16.90 10.15 45.04 3.18
2271 6605 2.094700 GGATGTCACGAAGCTACAGTGA 60.095 50.000 12.84 12.84 41.90 3.41
2272 6606 2.263077 GGATGTCACGAAGCTACAGTG 58.737 52.381 9.14 9.14 37.24 3.66
2273 6607 1.204941 GGGATGTCACGAAGCTACAGT 59.795 52.381 0.00 0.00 0.00 3.55
2274 6608 1.478510 AGGGATGTCACGAAGCTACAG 59.521 52.381 0.00 0.00 0.00 2.74
2275 6609 1.557099 AGGGATGTCACGAAGCTACA 58.443 50.000 0.00 0.00 0.00 2.74
2276 6610 2.094182 TCAAGGGATGTCACGAAGCTAC 60.094 50.000 0.00 0.00 0.00 3.58
2277 6611 2.166459 CTCAAGGGATGTCACGAAGCTA 59.834 50.000 0.00 0.00 0.00 3.32
2278 6612 0.976641 TCAAGGGATGTCACGAAGCT 59.023 50.000 0.00 0.00 0.00 3.74
2279 6613 1.363744 CTCAAGGGATGTCACGAAGC 58.636 55.000 0.00 0.00 0.00 3.86
2280 6614 1.550524 TCCTCAAGGGATGTCACGAAG 59.449 52.381 0.00 0.00 39.58 3.79
2281 6615 1.639722 TCCTCAAGGGATGTCACGAA 58.360 50.000 0.00 0.00 39.58 3.85
2282 6616 3.374318 TCCTCAAGGGATGTCACGA 57.626 52.632 0.00 0.00 39.58 4.35
2292 6626 2.373502 GGATCCCCTAACATCCTCAAGG 59.626 54.545 0.00 0.00 36.39 3.61
2293 6627 2.037772 CGGATCCCCTAACATCCTCAAG 59.962 54.545 6.06 0.00 37.08 3.02
2294 6628 2.047061 CGGATCCCCTAACATCCTCAA 58.953 52.381 6.06 0.00 37.08 3.02
2295 6629 1.717032 CGGATCCCCTAACATCCTCA 58.283 55.000 6.06 0.00 37.08 3.86
2296 6630 0.321996 GCGGATCCCCTAACATCCTC 59.678 60.000 6.06 0.00 37.08 3.71
2297 6631 0.104934 AGCGGATCCCCTAACATCCT 60.105 55.000 6.06 0.00 37.08 3.24
2298 6632 0.765510 AAGCGGATCCCCTAACATCC 59.234 55.000 6.06 0.00 36.01 3.51
2299 6633 1.270893 GGAAGCGGATCCCCTAACATC 60.271 57.143 6.06 0.00 33.05 3.06
2300 6634 0.765510 GGAAGCGGATCCCCTAACAT 59.234 55.000 6.06 0.00 33.05 2.71
2301 6635 2.218066 GGAAGCGGATCCCCTAACA 58.782 57.895 6.06 0.00 33.05 2.41
2308 6642 1.242076 CATCAATGGGAAGCGGATCC 58.758 55.000 0.00 0.00 38.86 3.36
2309 6643 1.242076 CCATCAATGGGAAGCGGATC 58.758 55.000 0.75 0.00 44.31 3.36
2310 6644 3.426903 CCATCAATGGGAAGCGGAT 57.573 52.632 0.75 0.00 44.31 4.18
2311 6645 4.984194 CCATCAATGGGAAGCGGA 57.016 55.556 0.75 0.00 44.31 5.54
2320 6654 1.162181 ATCGACAGCGCCCATCAATG 61.162 55.000 2.29 0.00 37.46 2.82
2321 6655 0.464373 AATCGACAGCGCCCATCAAT 60.464 50.000 2.29 0.00 37.46 2.57
2322 6656 0.176910 TAATCGACAGCGCCCATCAA 59.823 50.000 2.29 0.00 37.46 2.57
2323 6657 0.176910 TTAATCGACAGCGCCCATCA 59.823 50.000 2.29 0.00 37.46 3.07
2324 6658 0.861837 CTTAATCGACAGCGCCCATC 59.138 55.000 2.29 0.00 37.46 3.51
2325 6659 1.160329 GCTTAATCGACAGCGCCCAT 61.160 55.000 2.29 0.00 37.46 4.00
2326 6660 1.813753 GCTTAATCGACAGCGCCCA 60.814 57.895 2.29 0.00 37.46 5.36


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

AutoCloner maintained by Alex Coulton.