Multiple sequence alignment - TraesCS5A01G444000

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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 TraesCS5A01G444000 chr5A 100.000 2411 0 0 1 2411 623958508 623956098 0.000000e+00 4453
1 TraesCS5A01G444000 chr5A 96.248 1226 44 2 214 1438 593355991 593354767 0.000000e+00 2008
2 TraesCS5A01G444000 chr5A 81.754 422 68 8 1022 1438 645484379 645484796 6.380000e-91 344
3 TraesCS5A01G444000 chr2A 97.222 1440 38 2 1 1439 72972728 72974166 0.000000e+00 2436
4 TraesCS5A01G444000 chr7B 86.791 1446 172 11 2 1443 247697398 247695968 0.000000e+00 1594
5 TraesCS5A01G444000 chr5D 85.656 976 85 29 1442 2400 499655196 499654259 0.000000e+00 976
6 TraesCS5A01G444000 chr5B 86.408 721 66 15 1530 2243 620828385 620827690 0.000000e+00 760
7 TraesCS5A01G444000 chr2B 75.981 1453 318 28 2 1438 788499563 788501000 0.000000e+00 721
8 TraesCS5A01G444000 chr4B 75.843 1453 320 28 2 1440 44463187 44464622 0.000000e+00 710
9 TraesCS5A01G444000 chr3B 75.826 1452 322 26 2 1438 764745036 764746473 0.000000e+00 710
10 TraesCS5A01G444000 chr6A 75.551 1452 322 29 2 1437 454690990 454692424 0.000000e+00 684
11 TraesCS5A01G444000 chr6B 81.905 420 71 5 1022 1438 529711625 529711208 1.370000e-92 350
12 TraesCS5A01G444000 chr3D 73.597 481 114 12 766 1240 286874983 286875456 3.190000e-39 172


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 TraesCS5A01G444000 chr5A 623956098 623958508 2410 True 4453 4453 100.000 1 2411 1 chr5A.!!$R2 2410
1 TraesCS5A01G444000 chr5A 593354767 593355991 1224 True 2008 2008 96.248 214 1438 1 chr5A.!!$R1 1224
2 TraesCS5A01G444000 chr2A 72972728 72974166 1438 False 2436 2436 97.222 1 1439 1 chr2A.!!$F1 1438
3 TraesCS5A01G444000 chr7B 247695968 247697398 1430 True 1594 1594 86.791 2 1443 1 chr7B.!!$R1 1441
4 TraesCS5A01G444000 chr5D 499654259 499655196 937 True 976 976 85.656 1442 2400 1 chr5D.!!$R1 958
5 TraesCS5A01G444000 chr5B 620827690 620828385 695 True 760 760 86.408 1530 2243 1 chr5B.!!$R1 713
6 TraesCS5A01G444000 chr2B 788499563 788501000 1437 False 721 721 75.981 2 1438 1 chr2B.!!$F1 1436
7 TraesCS5A01G444000 chr4B 44463187 44464622 1435 False 710 710 75.843 2 1440 1 chr4B.!!$F1 1438
8 TraesCS5A01G444000 chr3B 764745036 764746473 1437 False 710 710 75.826 2 1438 1 chr3B.!!$F1 1436
9 TraesCS5A01G444000 chr6A 454690990 454692424 1434 False 684 684 75.551 2 1437 1 chr6A.!!$F1 1435

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
789 795 1.404181 CCAGTTCATGTGACGGTCGAT 60.404 52.381 3.34 0.0 0.0 3.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2102 2125 0.319728 CGAGATGTATGGAGGGCTGG 59.68 60.0 0.0 0.0 0.0 4.85 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
458 464 6.125029 AGATTACAATGTGGAAAGCTGCTAT 58.875 36.000 0.90 0.00 0.00 2.97
675 681 5.540337 GGAGTGGATCCTACATCTGTTATCA 59.460 44.000 14.23 0.00 45.64 2.15
678 684 6.841229 AGTGGATCCTACATCTGTTATCAAGA 59.159 38.462 14.23 0.00 0.00 3.02
789 795 1.404181 CCAGTTCATGTGACGGTCGAT 60.404 52.381 3.34 0.00 0.00 3.59
943 949 3.367907 AAACCACCACAAGGCCGGT 62.368 57.895 1.90 0.00 43.87 5.28
977 983 5.646360 CGGTTGATGGTTCTTTTAGTGGTAT 59.354 40.000 0.00 0.00 0.00 2.73
1013 1019 3.753272 GCAGCAGGTATGGTATTATGTGG 59.247 47.826 0.00 0.00 34.74 4.17
1202 1209 0.326264 AATCAGGGTCTTGAGCGCTT 59.674 50.000 13.26 0.00 0.00 4.68
1288 1295 6.540914 TCAAAGAATTCACCGTAGTCAAAACT 59.459 34.615 8.44 0.00 39.66 2.66
1289 1296 7.711772 TCAAAGAATTCACCGTAGTCAAAACTA 59.288 33.333 8.44 0.00 36.92 2.24
1403 1410 4.762251 GCCTCTGGATTGTAACACTTCTTT 59.238 41.667 0.00 0.00 0.00 2.52
1474 1482 3.924686 ACAGAATTACGACGGTAAAGCAG 59.075 43.478 0.00 0.00 41.66 4.24
1476 1484 1.648504 ATTACGACGGTAAAGCAGCC 58.351 50.000 0.00 0.00 41.66 4.85
1479 1487 1.374252 CGACGGTAAAGCAGCCTGT 60.374 57.895 0.00 0.00 0.00 4.00
1483 1491 1.067071 ACGGTAAAGCAGCCTGTAGTC 60.067 52.381 0.00 0.00 0.00 2.59
1491 1499 3.676093 AGCAGCCTGTAGTCCTAAAAAC 58.324 45.455 0.00 0.00 0.00 2.43
1495 1503 5.305585 CAGCCTGTAGTCCTAAAAACTGAA 58.694 41.667 0.00 0.00 0.00 3.02
1498 1506 5.938125 GCCTGTAGTCCTAAAAACTGAATCA 59.062 40.000 0.00 0.00 0.00 2.57
1522 1530 9.160496 TCAGTTTAAACTAAAACGGTAACTGAA 57.840 29.630 20.15 0.00 44.02 3.02
1525 1533 7.495135 TTAAACTAAAACGGTAACTGAAGGG 57.505 36.000 0.00 0.00 0.00 3.95
1553 1561 1.153168 CCGAGCCGTCCAATTCCAT 60.153 57.895 0.00 0.00 0.00 3.41
1567 1575 3.788333 ATTCCATTTGTGAGCCATTCG 57.212 42.857 0.00 0.00 0.00 3.34
1569 1577 2.083774 TCCATTTGTGAGCCATTCGTC 58.916 47.619 0.00 0.00 0.00 4.20
1577 1585 1.543941 GAGCCATTCGTCGATCTGCG 61.544 60.000 0.00 0.00 42.69 5.18
1578 1586 1.878522 GCCATTCGTCGATCTGCGT 60.879 57.895 0.00 0.00 41.80 5.24
1583 1591 2.648102 CGTCGATCTGCGTCGTCC 60.648 66.667 5.98 0.00 44.33 4.79
1584 1592 2.483745 GTCGATCTGCGTCGTCCA 59.516 61.111 5.98 0.00 42.07 4.02
1588 1596 1.002792 TCGATCTGCGTCGTCCATTAG 60.003 52.381 5.98 0.00 42.07 1.73
1624 1632 5.351465 TCTTCAATAATTCGACAGTGGCTTC 59.649 40.000 0.00 0.00 0.00 3.86
1628 1642 1.160137 ATTCGACAGTGGCTTCAAGC 58.840 50.000 0.00 0.00 41.46 4.01
1632 1646 0.514691 GACAGTGGCTTCAAGCTTCG 59.485 55.000 9.83 0.00 41.99 3.79
1651 1665 1.179174 GGTGTCTCCTTGGTTTGGGC 61.179 60.000 0.00 0.00 0.00 5.36
1653 1667 1.971695 GTCTCCTTGGTTTGGGCCG 60.972 63.158 0.00 0.00 0.00 6.13
1682 1697 1.251251 AGGCATGCCACACTTTCTTC 58.749 50.000 37.18 6.78 38.92 2.87
1710 1730 2.165437 TGCTTGTTTCTTTGCCTCGTTT 59.835 40.909 0.00 0.00 0.00 3.60
1722 1742 0.451783 CCTCGTTTATGGCTTGCCAC 59.548 55.000 17.22 3.23 0.00 5.01
1723 1743 1.164411 CTCGTTTATGGCTTGCCACA 58.836 50.000 17.22 1.61 0.00 4.17
1776 1797 4.522789 ACACAGGTTTTTGTTGTCAAGTCT 59.477 37.500 0.00 0.00 34.88 3.24
1782 1803 4.527509 TTTTGTTGTCAAGTCTTGCCAA 57.472 36.364 4.96 4.96 34.88 4.52
1843 1864 2.970576 CCACACGTTTGGCAAAAGG 58.029 52.632 25.60 17.78 37.23 3.11
1906 1927 3.305813 CGTTTAGCCACTCCTGTAGAACA 60.306 47.826 0.00 0.00 0.00 3.18
1936 1959 2.358615 CACGCTTGCTGCCCACTA 60.359 61.111 0.00 0.00 38.78 2.74
1951 1974 2.483188 CCCACTAGCATAGGTTTCGGAC 60.483 54.545 0.00 0.00 44.97 4.79
1994 2017 4.832608 GGGACGGGTAGCAAGGCG 62.833 72.222 0.00 0.00 0.00 5.52
2038 2061 2.047560 CCCCACCCGAAACGTCTC 60.048 66.667 0.00 0.00 0.00 3.36
2039 2062 2.580601 CCCCACCCGAAACGTCTCT 61.581 63.158 0.00 0.00 0.00 3.10
2040 2063 1.374252 CCCACCCGAAACGTCTCTG 60.374 63.158 0.00 0.00 0.00 3.35
2041 2064 2.027625 CCACCCGAAACGTCTCTGC 61.028 63.158 0.00 0.00 0.00 4.26
2042 2065 2.027625 CACCCGAAACGTCTCTGCC 61.028 63.158 0.00 0.00 0.00 4.85
2043 2066 2.342279 CCCGAAACGTCTCTGCCA 59.658 61.111 0.00 0.00 0.00 4.92
2183 2206 2.186644 CGGCATCACCATGGACGA 59.813 61.111 21.47 14.93 39.03 4.20
2186 2209 1.153289 GCATCACCATGGACGAGCT 60.153 57.895 21.47 0.00 0.00 4.09
2187 2210 0.104855 GCATCACCATGGACGAGCTA 59.895 55.000 21.47 0.00 0.00 3.32
2188 2211 1.871408 GCATCACCATGGACGAGCTAG 60.871 57.143 21.47 7.29 0.00 3.42
2215 2238 0.109086 CCTACCGTGCTCTGTCTGTG 60.109 60.000 0.00 0.00 0.00 3.66
2219 2242 0.032678 CCGTGCTCTGTCTGTGTCTT 59.967 55.000 0.00 0.00 0.00 3.01
2243 2273 2.425143 TTCCATTCATCTCCCTGCAC 57.575 50.000 0.00 0.00 0.00 4.57
2246 2276 1.133575 CCATTCATCTCCCTGCACCAT 60.134 52.381 0.00 0.00 0.00 3.55
2247 2277 1.954382 CATTCATCTCCCTGCACCATG 59.046 52.381 0.00 0.00 0.00 3.66
2252 2282 3.410628 TCCCTGCACCATGCCGAT 61.411 61.111 0.00 0.00 44.23 4.18
2255 2285 2.475466 CCTGCACCATGCCGATGAC 61.475 63.158 0.00 0.00 44.23 3.06
2272 2302 5.224821 GATGACCATCATCCATCTCTTCA 57.775 43.478 7.46 0.00 45.66 3.02
2275 2305 3.814283 GACCATCATCCATCTCTTCAAGC 59.186 47.826 0.00 0.00 0.00 4.01
2278 2308 2.199208 TCATCCATCTCTTCAAGCCCA 58.801 47.619 0.00 0.00 0.00 5.36
2281 2311 0.745845 CCATCTCTTCAAGCCCACCG 60.746 60.000 0.00 0.00 0.00 4.94
2284 2314 0.034896 TCTCTTCAAGCCCACCGTTC 59.965 55.000 0.00 0.00 0.00 3.95
2287 2317 0.593128 CTTCAAGCCCACCGTTCTTG 59.407 55.000 0.00 0.00 38.73 3.02
2288 2318 1.452145 TTCAAGCCCACCGTTCTTGC 61.452 55.000 0.00 0.00 37.64 4.01
2289 2319 1.898574 CAAGCCCACCGTTCTTGCT 60.899 57.895 0.00 0.00 32.07 3.91
2292 2322 1.172812 AGCCCACCGTTCTTGCTTTC 61.173 55.000 0.00 0.00 0.00 2.62
2293 2323 1.172812 GCCCACCGTTCTTGCTTTCT 61.173 55.000 0.00 0.00 0.00 2.52
2295 2325 2.500229 CCCACCGTTCTTGCTTTCTTA 58.500 47.619 0.00 0.00 0.00 2.10
2296 2326 3.081804 CCCACCGTTCTTGCTTTCTTAT 58.918 45.455 0.00 0.00 0.00 1.73
2298 2328 4.332819 CCCACCGTTCTTGCTTTCTTATAG 59.667 45.833 0.00 0.00 0.00 1.31
2299 2329 4.935808 CCACCGTTCTTGCTTTCTTATAGT 59.064 41.667 0.00 0.00 0.00 2.12
2303 2333 7.331193 CACCGTTCTTGCTTTCTTATAGTAAGT 59.669 37.037 0.00 0.00 36.88 2.24
2304 2334 7.544915 ACCGTTCTTGCTTTCTTATAGTAAGTC 59.455 37.037 0.00 0.00 36.88 3.01
2305 2335 7.544566 CCGTTCTTGCTTTCTTATAGTAAGTCA 59.455 37.037 0.00 0.00 36.88 3.41
2306 2336 8.587950 CGTTCTTGCTTTCTTATAGTAAGTCAG 58.412 37.037 0.00 0.00 36.88 3.51
2323 2353 9.688091 AGTAAGTCAGAAATCTCACATACTAGA 57.312 33.333 1.29 0.00 0.00 2.43
2352 2382 7.979115 GTAGATATCTACGAGATTCATTGCC 57.021 40.000 23.60 0.24 39.36 4.52
2353 2383 6.596309 AGATATCTACGAGATTCATTGCCA 57.404 37.500 2.53 0.00 36.20 4.92
2354 2384 7.180322 AGATATCTACGAGATTCATTGCCAT 57.820 36.000 2.53 0.00 36.20 4.40
2365 2395 7.063898 CGAGATTCATTGCCATAAGATACGAAT 59.936 37.037 0.00 0.00 0.00 3.34
2374 2404 8.087982 TGCCATAAGATACGAATCTCAATTTC 57.912 34.615 0.00 0.00 41.81 2.17
2384 2414 7.912056 ACGAATCTCAATTTCAGATCTCAAA 57.088 32.000 0.00 0.00 29.82 2.69
2385 2415 7.746929 ACGAATCTCAATTTCAGATCTCAAAC 58.253 34.615 0.00 0.00 29.82 2.93
2393 2423 5.832539 TTTCAGATCTCAAACCTCCTTCT 57.167 39.130 0.00 0.00 0.00 2.85
2394 2424 4.815533 TCAGATCTCAAACCTCCTTCTG 57.184 45.455 0.00 0.00 0.00 3.02
2400 2430 3.775316 TCTCAAACCTCCTTCTGTATCCC 59.225 47.826 0.00 0.00 0.00 3.85
2401 2431 3.777522 CTCAAACCTCCTTCTGTATCCCT 59.222 47.826 0.00 0.00 0.00 4.20
2402 2432 3.519510 TCAAACCTCCTTCTGTATCCCTG 59.480 47.826 0.00 0.00 0.00 4.45
2403 2433 3.491766 AACCTCCTTCTGTATCCCTGA 57.508 47.619 0.00 0.00 0.00 3.86
2404 2434 3.491766 ACCTCCTTCTGTATCCCTGAA 57.508 47.619 0.00 0.00 0.00 3.02
2405 2435 4.014273 ACCTCCTTCTGTATCCCTGAAT 57.986 45.455 0.00 0.00 31.53 2.57
2406 2436 5.157770 ACCTCCTTCTGTATCCCTGAATA 57.842 43.478 0.00 0.00 31.53 1.75
2407 2437 5.538877 ACCTCCTTCTGTATCCCTGAATAA 58.461 41.667 0.00 0.00 31.53 1.40
2408 2438 6.153924 ACCTCCTTCTGTATCCCTGAATAAT 58.846 40.000 0.00 0.00 31.53 1.28
2409 2439 6.271159 ACCTCCTTCTGTATCCCTGAATAATC 59.729 42.308 0.00 0.00 31.53 1.75
2410 2440 6.500049 CCTCCTTCTGTATCCCTGAATAATCT 59.500 42.308 0.00 0.00 31.53 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
675 681 5.349817 GTCACGAACATCATCAGAACATCTT 59.650 40.000 0.00 0.00 0.00 2.40
678 684 4.568956 TGTCACGAACATCATCAGAACAT 58.431 39.130 0.00 0.00 31.20 2.71
747 753 1.064017 GGGGTTTCCATGCCATGAGTA 60.064 52.381 6.18 0.00 35.00 2.59
910 916 4.514585 TTTGGGCCACGGTGCTGT 62.515 61.111 5.23 0.00 0.00 4.40
943 949 1.899814 ACCATCAACCGAGAGTGCTAA 59.100 47.619 0.00 0.00 0.00 3.09
977 983 4.193334 CTGCCGCTGATCCGTCGA 62.193 66.667 0.00 0.00 0.00 4.20
1013 1019 8.562892 CCAAGAAGATAATATGACCATTGTGAC 58.437 37.037 0.00 0.00 0.00 3.67
1202 1209 9.588096 TCTCTCTAACTATATGACCATAAGCAA 57.412 33.333 0.00 0.00 0.00 3.91
1288 1295 1.742831 GGCCAAACGATCTGCAACATA 59.257 47.619 0.00 0.00 0.00 2.29
1289 1296 0.527565 GGCCAAACGATCTGCAACAT 59.472 50.000 0.00 0.00 0.00 2.71
1403 1410 7.064253 GCGAAGTAAAGGAGCTTTATTACTCAA 59.936 37.037 15.16 0.00 38.07 3.02
1452 1460 3.916761 TGCTTTACCGTCGTAATTCTGT 58.083 40.909 0.00 0.00 34.44 3.41
1453 1461 3.241995 GCTGCTTTACCGTCGTAATTCTG 60.242 47.826 0.00 0.00 34.44 3.02
1463 1471 0.974383 ACTACAGGCTGCTTTACCGT 59.026 50.000 15.89 0.00 0.00 4.83
1469 1477 4.072839 GTTTTTAGGACTACAGGCTGCTT 58.927 43.478 15.89 0.00 0.00 3.91
1471 1479 3.437049 CAGTTTTTAGGACTACAGGCTGC 59.563 47.826 15.89 0.00 0.00 5.25
1474 1482 5.938125 TGATTCAGTTTTTAGGACTACAGGC 59.062 40.000 0.00 0.00 0.00 4.85
1495 1503 9.328845 TCAGTTACCGTTTTAGTTTAAACTGAT 57.671 29.630 27.40 9.27 43.81 2.90
1498 1506 8.615211 CCTTCAGTTACCGTTTTAGTTTAAACT 58.385 33.333 23.58 23.58 42.91 2.66
1506 1514 4.251268 CTCCCCTTCAGTTACCGTTTTAG 58.749 47.826 0.00 0.00 0.00 1.85
1511 1519 0.178912 ACCTCCCCTTCAGTTACCGT 60.179 55.000 0.00 0.00 0.00 4.83
1522 1530 2.283809 CTCGGATGGACCTCCCCT 59.716 66.667 0.00 0.00 36.31 4.79
1525 1533 3.917760 CGGCTCGGATGGACCTCC 61.918 72.222 0.00 0.00 36.31 4.30
1553 1561 1.999735 GATCGACGAATGGCTCACAAA 59.000 47.619 0.00 0.00 0.00 2.83
1567 1575 0.525668 AATGGACGACGCAGATCGAC 60.526 55.000 8.81 2.98 45.13 4.20
1577 1585 1.523095 GCGATTCAGCTAATGGACGAC 59.477 52.381 0.00 0.00 0.00 4.34
1578 1586 1.852942 GCGATTCAGCTAATGGACGA 58.147 50.000 0.00 0.00 0.00 4.20
1588 1596 4.864916 TTATTGAAGACAGCGATTCAGC 57.135 40.909 0.00 0.00 36.81 4.26
1617 1625 1.166531 ACACCGAAGCTTGAAGCCAC 61.167 55.000 14.45 7.32 43.77 5.01
1624 1632 1.151668 CAAGGAGACACCGAAGCTTG 58.848 55.000 2.10 0.00 44.74 4.01
1628 1642 1.873591 CAAACCAAGGAGACACCGAAG 59.126 52.381 0.00 0.00 44.74 3.79
1632 1646 1.179174 GCCCAAACCAAGGAGACACC 61.179 60.000 0.00 0.00 39.35 4.16
1782 1803 4.378046 CGAGTAAATTGTTAGCCACGCTTT 60.378 41.667 0.00 0.00 40.44 3.51
1831 1852 2.935849 CCACACTTTCCTTTTGCCAAAC 59.064 45.455 0.00 0.00 0.00 2.93
1906 1927 2.741878 GCAAGCGTGTGGATGTAGGTAT 60.742 50.000 0.59 0.00 0.00 2.73
1936 1959 1.518572 CGCGTCCGAAACCTATGCT 60.519 57.895 0.00 0.00 36.29 3.79
1964 1987 3.050275 GTCCCGCCTGCAGTGTTC 61.050 66.667 13.81 0.00 0.00 3.18
2101 2124 1.722034 GAGATGTATGGAGGGCTGGA 58.278 55.000 0.00 0.00 0.00 3.86
2102 2125 0.319728 CGAGATGTATGGAGGGCTGG 59.680 60.000 0.00 0.00 0.00 4.85
2103 2126 0.320247 GCGAGATGTATGGAGGGCTG 60.320 60.000 0.00 0.00 0.00 4.85
2104 2127 0.470833 AGCGAGATGTATGGAGGGCT 60.471 55.000 0.00 0.00 0.00 5.19
2105 2128 0.320247 CAGCGAGATGTATGGAGGGC 60.320 60.000 0.00 0.00 0.00 5.19
2106 2129 1.332195 TCAGCGAGATGTATGGAGGG 58.668 55.000 0.00 0.00 0.00 4.30
2107 2130 3.388308 CTTTCAGCGAGATGTATGGAGG 58.612 50.000 0.00 0.00 0.00 4.30
2108 2131 2.799412 GCTTTCAGCGAGATGTATGGAG 59.201 50.000 0.00 0.00 0.00 3.86
2109 2132 2.168313 TGCTTTCAGCGAGATGTATGGA 59.832 45.455 0.00 0.00 46.26 3.41
2197 2220 0.598562 ACACAGACAGAGCACGGTAG 59.401 55.000 0.00 0.00 0.00 3.18
2201 2224 2.320367 GTAAGACACAGACAGAGCACG 58.680 52.381 0.00 0.00 0.00 5.34
2219 2242 3.244215 GCAGGGAGATGAATGGAATCGTA 60.244 47.826 0.00 0.00 0.00 3.43
2243 2273 1.162698 GATGATGGTCATCGGCATGG 58.837 55.000 4.37 0.00 43.11 3.66
2252 2282 4.685302 GCTTGAAGAGATGGATGATGGTCA 60.685 45.833 0.00 0.00 0.00 4.02
2255 2285 3.147629 GGCTTGAAGAGATGGATGATGG 58.852 50.000 0.00 0.00 0.00 3.51
2272 2302 0.755327 AAAGCAAGAACGGTGGGCTT 60.755 50.000 0.00 0.00 45.92 4.35
2275 2305 1.318576 AAGAAAGCAAGAACGGTGGG 58.681 50.000 0.00 0.00 0.00 4.61
2278 2308 7.384477 ACTTACTATAAGAAAGCAAGAACGGT 58.616 34.615 2.65 0.00 0.00 4.83
2281 2311 9.640963 TCTGACTTACTATAAGAAAGCAAGAAC 57.359 33.333 2.65 0.00 0.00 3.01
2326 2356 8.029522 GGCAATGAATCTCGTAGATATCTACAA 58.970 37.037 32.22 20.08 46.92 2.41
2328 2358 7.539436 TGGCAATGAATCTCGTAGATATCTAC 58.461 38.462 26.64 26.64 44.00 2.59
2329 2359 7.703058 TGGCAATGAATCTCGTAGATATCTA 57.297 36.000 8.44 8.44 32.89 1.98
2330 2360 6.596309 TGGCAATGAATCTCGTAGATATCT 57.404 37.500 10.73 10.73 32.89 1.98
2332 2362 8.753133 TCTTATGGCAATGAATCTCGTAGATAT 58.247 33.333 0.00 0.00 32.89 1.63
2333 2363 8.122472 TCTTATGGCAATGAATCTCGTAGATA 57.878 34.615 0.00 0.00 32.89 1.98
2334 2364 6.997655 TCTTATGGCAATGAATCTCGTAGAT 58.002 36.000 0.00 0.00 36.28 1.98
2335 2365 6.405278 TCTTATGGCAATGAATCTCGTAGA 57.595 37.500 0.00 0.00 0.00 2.59
2336 2366 7.008719 CGTATCTTATGGCAATGAATCTCGTAG 59.991 40.741 0.00 0.00 0.00 3.51
2338 2368 5.635280 CGTATCTTATGGCAATGAATCTCGT 59.365 40.000 0.00 0.00 0.00 4.18
2339 2369 5.863935 TCGTATCTTATGGCAATGAATCTCG 59.136 40.000 0.00 0.00 0.00 4.04
2340 2370 7.658179 TTCGTATCTTATGGCAATGAATCTC 57.342 36.000 0.00 0.00 0.00 2.75
2342 2372 8.261492 AGATTCGTATCTTATGGCAATGAATC 57.739 34.615 16.39 16.39 37.90 2.52
2343 2373 7.879677 TGAGATTCGTATCTTATGGCAATGAAT 59.120 33.333 5.98 0.00 41.23 2.57
2344 2374 7.216494 TGAGATTCGTATCTTATGGCAATGAA 58.784 34.615 5.98 0.00 41.23 2.57
2345 2375 6.758254 TGAGATTCGTATCTTATGGCAATGA 58.242 36.000 5.98 0.00 41.23 2.57
2346 2376 7.425577 TTGAGATTCGTATCTTATGGCAATG 57.574 36.000 5.98 0.00 41.23 2.82
2347 2377 8.627208 AATTGAGATTCGTATCTTATGGCAAT 57.373 30.769 5.98 7.78 41.23 3.56
2348 2378 8.450578 AAATTGAGATTCGTATCTTATGGCAA 57.549 30.769 5.98 5.90 41.23 4.52
2349 2379 7.714813 TGAAATTGAGATTCGTATCTTATGGCA 59.285 33.333 5.98 0.00 41.23 4.92
2350 2380 8.087982 TGAAATTGAGATTCGTATCTTATGGC 57.912 34.615 5.98 0.00 41.23 4.40
2351 2381 9.481340 TCTGAAATTGAGATTCGTATCTTATGG 57.519 33.333 5.98 0.00 41.23 2.74
2365 2395 6.013032 AGGAGGTTTGAGATCTGAAATTGAGA 60.013 38.462 10.64 0.00 0.00 3.27
2374 2404 4.550076 ACAGAAGGAGGTTTGAGATCTG 57.450 45.455 0.00 0.00 38.91 2.90
2384 2414 3.491766 TTCAGGGATACAGAAGGAGGT 57.508 47.619 0.00 0.00 39.74 3.85
2385 2415 6.500049 AGATTATTCAGGGATACAGAAGGAGG 59.500 42.308 0.00 0.00 35.92 4.30


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

AutoCloner maintained by Alex Coulton.