Multiple sequence alignment - TraesCS7B01G431200

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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 TraesCS7B01G431200 chr7B 100.000 2453 0 0 1 2453 699387914 699390366 0.000000e+00 4530.0
1 TraesCS7B01G431200 chr7B 94.268 157 9 0 1 157 405066598 405066442 8.770000e-60 241.0
2 TraesCS7B01G431200 chr7D 90.058 1901 137 27 160 2055 610765355 610763502 0.000000e+00 2416.0
3 TraesCS7B01G431200 chr7D 85.774 239 10 10 2085 2320 610763433 610763216 5.280000e-57 231.0
4 TraesCS7B01G431200 chr7D 100.000 32 0 0 2422 2453 610762991 610762960 2.630000e-05 60.2
5 TraesCS7B01G431200 chr7A 95.137 946 44 2 4 949 700660083 700659140 0.000000e+00 1491.0
6 TraesCS7B01G431200 chr7A 95.032 946 45 2 4 949 700642587 700641644 0.000000e+00 1485.0
7 TraesCS7B01G431200 chr7A 94.910 943 46 2 7 949 700625860 700624920 0.000000e+00 1474.0
8 TraesCS7B01G431200 chr7A 94.362 603 33 1 944 1546 700614287 700613686 0.000000e+00 924.0
9 TraesCS7B01G431200 chr7A 93.864 603 36 1 944 1546 700637624 700637023 0.000000e+00 907.0
10 TraesCS7B01G431200 chr7A 93.698 603 37 1 944 1546 700655055 700654454 0.000000e+00 902.0
11 TraesCS7B01G431200 chr7A 89.538 411 36 6 1658 2064 700613628 700613221 4.680000e-142 514.0
12 TraesCS7B01G431200 chr7A 89.538 411 36 6 1658 2064 700636965 700636558 4.680000e-142 514.0
13 TraesCS7B01G431200 chr7A 89.051 411 38 6 1658 2064 700654396 700653989 1.010000e-138 503.0
14 TraesCS7B01G431200 chr7A 87.879 297 21 5 2085 2381 700636501 700636220 3.910000e-88 335.0
15 TraesCS7B01G431200 chr7A 87.805 287 21 4 2085 2371 700653932 700653660 8.460000e-85 324.0
16 TraesCS7B01G431200 chr7A 87.153 288 23 4 2085 2372 700613164 700612891 5.090000e-82 315.0
17 TraesCS7B01G431200 chr5D 74.590 1401 265 57 605 1965 3609264 3610613 4.640000e-147 531.0
18 TraesCS7B01G431200 chr5D 94.904 157 8 0 1 157 96334135 96334291 1.880000e-61 246.0
19 TraesCS7B01G431200 chr3D 93.631 157 10 0 1 157 141749046 141749202 4.080000e-58 235.0
20 TraesCS7B01G431200 chr3A 90.506 158 14 1 1 157 514489472 514489629 8.890000e-50 207.0
21 TraesCS7B01G431200 chr2D 89.222 167 16 2 1 166 548629239 548629074 8.890000e-50 207.0
22 TraesCS7B01G431200 chr3B 89.873 158 15 1 1 157 729974265 729974422 4.140000e-48 202.0


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 TraesCS7B01G431200 chr7B 699387914 699390366 2452 False 4530.000000 4530 100.000000 1 2453 1 chr7B.!!$F1 2452
1 TraesCS7B01G431200 chr7D 610762960 610765355 2395 True 902.400000 2416 91.944000 160 2453 3 chr7D.!!$R1 2293
2 TraesCS7B01G431200 chr7A 700659140 700660083 943 True 1491.000000 1491 95.137000 4 949 1 chr7A.!!$R3 945
3 TraesCS7B01G431200 chr7A 700641644 700642587 943 True 1485.000000 1485 95.032000 4 949 1 chr7A.!!$R2 945
4 TraesCS7B01G431200 chr7A 700624920 700625860 940 True 1474.000000 1474 94.910000 7 949 1 chr7A.!!$R1 942
5 TraesCS7B01G431200 chr7A 700636220 700637624 1404 True 585.333333 907 90.427000 944 2381 3 chr7A.!!$R5 1437
6 TraesCS7B01G431200 chr7A 700612891 700614287 1396 True 584.333333 924 90.351000 944 2372 3 chr7A.!!$R4 1428
7 TraesCS7B01G431200 chr7A 700653660 700655055 1395 True 576.333333 902 90.184667 944 2371 3 chr7A.!!$R6 1427
8 TraesCS7B01G431200 chr5D 3609264 3610613 1349 False 531.000000 531 74.590000 605 1965 1 chr5D.!!$F1 1360

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
81 82 1.135402 AGCCGAACATTTTTCCATCGC 60.135 47.619 0.0 0.0 32.46 4.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1588 1627 0.250124 TGCCAACGAACCACCACTAG 60.25 55.0 0.0 0.0 0.0 2.57 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
38 39 1.907807 GGTTGTCAGCCCATGCCAA 60.908 57.895 0.00 0.00 38.69 4.52
80 81 2.518949 CAGCCGAACATTTTTCCATCG 58.481 47.619 0.00 0.00 0.00 3.84
81 82 1.135402 AGCCGAACATTTTTCCATCGC 60.135 47.619 0.00 0.00 32.46 4.58
100 101 2.430465 GCTGTGAGAAGCTGGAAATCA 58.570 47.619 0.00 0.00 40.20 2.57
179 180 4.493057 CGCAGATATATATGCAAGGCAACG 60.493 45.833 27.00 8.68 44.73 4.10
181 182 5.295292 GCAGATATATATGCAAGGCAACGAT 59.705 40.000 23.97 0.00 43.98 3.73
196 197 3.270027 CAACGATGCTACTTCCATTCCA 58.730 45.455 0.00 0.00 0.00 3.53
291 293 1.281199 TGGCCCATCAGCATGTAGGT 61.281 55.000 0.00 0.00 37.40 3.08
341 343 6.012745 ACATGGCAAACTAAAGAGGAGAAAT 58.987 36.000 0.00 0.00 0.00 2.17
343 345 5.385198 TGGCAAACTAAAGAGGAGAAATGT 58.615 37.500 0.00 0.00 0.00 2.71
392 395 5.304101 ACCAACAGAGCAATCAAATTTGGTA 59.696 36.000 17.90 0.00 42.84 3.25
433 436 1.471119 GTGTGAGGTATGGTCGAGGA 58.529 55.000 0.00 0.00 0.00 3.71
463 466 4.564782 TCAGCAGAGGAGTCAATTGAAT 57.435 40.909 10.35 9.35 0.00 2.57
492 495 1.737793 GCGGTAAGTTTGTCATGAGGG 59.262 52.381 0.00 0.00 0.00 4.30
572 575 6.039941 CCATCACCACCAACTACTGTTTAAAA 59.960 38.462 0.00 0.00 33.52 1.52
723 726 4.709397 TCTTTCTTGAACAACCCACACAAT 59.291 37.500 0.00 0.00 0.00 2.71
729 732 5.037383 TGAACAACCCACACAATAGTACA 57.963 39.130 0.00 0.00 0.00 2.90
754 757 6.463995 AGTCCAACTCACAAAAGCATAAAA 57.536 33.333 0.00 0.00 0.00 1.52
963 981 7.419711 AATAAACGGGACTCTTATCTCTTCA 57.580 36.000 0.00 0.00 0.00 3.02
1095 1113 0.108138 GCAGCTATGAGAACGGTGGT 60.108 55.000 0.00 0.00 0.00 4.16
1096 1114 1.136305 GCAGCTATGAGAACGGTGGTA 59.864 52.381 0.00 0.00 0.00 3.25
1203 1221 0.323629 AGGGTTTTTCGATCGCCAGA 59.676 50.000 11.09 0.00 0.00 3.86
1251 1269 1.628846 GAACAAGAGGCCCTAGACCAA 59.371 52.381 0.00 0.00 0.00 3.67
1308 1326 1.396653 GATGTGAGGCCATTTGGAGG 58.603 55.000 5.01 0.00 37.39 4.30
1333 1351 2.912025 AAGGCAACCTTGGTGGCG 60.912 61.111 12.51 0.00 42.96 5.69
1362 1380 3.751621 CTTTCAGCAAGGCAAGATAACG 58.248 45.455 0.00 0.00 0.00 3.18
1415 1433 3.258872 TCCAAATGCAAAATGGACTCCAG 59.741 43.478 12.86 0.00 38.30 3.86
1429 1447 1.294659 CTCCAGCTGCAAGTTCGTCC 61.295 60.000 8.66 0.00 35.30 4.79
1430 1448 1.597854 CCAGCTGCAAGTTCGTCCA 60.598 57.895 8.66 0.00 35.30 4.02
1571 1610 4.251543 TGTCTCGCAAACATCTGAGTAA 57.748 40.909 0.00 0.00 0.00 2.24
1572 1611 4.627058 TGTCTCGCAAACATCTGAGTAAA 58.373 39.130 0.00 0.00 0.00 2.01
1799 1843 7.859377 CACTAACATGTTGATCAAATCCATAGC 59.141 37.037 21.42 0.00 0.00 2.97
1800 1848 5.779529 ACATGTTGATCAAATCCATAGCC 57.220 39.130 10.35 0.00 0.00 3.93
1823 1871 0.110688 CACAACCGCTTCATGTGTCG 60.111 55.000 0.00 0.00 39.60 4.35
1841 1889 2.159627 GTCGTTTGCACCATAACCTCAG 59.840 50.000 0.00 0.00 0.00 3.35
1861 1909 6.195983 CCTCAGTATAAATACGTCGTCAACAC 59.804 42.308 0.00 0.00 38.28 3.32
1873 1921 1.673033 CGTCAACACCTGTCCATCCTC 60.673 57.143 0.00 0.00 0.00 3.71
1886 1934 1.538512 CCATCCTCACAACTTGCACAG 59.461 52.381 0.00 0.00 0.00 3.66
1939 1987 5.934402 AAATCTAAGGAAGCGAACCTAGA 57.066 39.130 0.00 0.00 36.67 2.43
1955 2003 4.290942 ACCTAGATCACTTGGTTAGGAGG 58.709 47.826 8.51 0.00 46.67 4.30
1968 2016 3.588569 GTTAGGAGGGTGGATGTAGGAT 58.411 50.000 0.00 0.00 0.00 3.24
1973 2021 1.010793 AGGGTGGATGTAGGATCCCAA 59.989 52.381 8.55 0.00 37.40 4.12
1975 2023 1.143073 GGTGGATGTAGGATCCCAACC 59.857 57.143 8.55 9.16 37.40 3.77
1981 2029 1.006758 TGTAGGATCCCAACCTCTCGT 59.993 52.381 8.55 0.00 38.76 4.18
2010 2058 0.820074 TCACGGACGCAAATTGGGTT 60.820 50.000 16.67 0.00 43.89 4.11
2078 2145 8.851541 AAATGTGCAACCAAATGATTCTAAAT 57.148 26.923 0.00 0.00 34.36 1.40
2137 2226 6.057533 TGTACAGGGAATCTTGATGCATTAG 58.942 40.000 0.00 1.75 0.00 1.73
2168 2260 7.652300 TGTACTGCTACTTTAAGACACAATG 57.348 36.000 0.00 0.00 0.00 2.82
2170 2262 8.361889 TGTACTGCTACTTTAAGACACAATGTA 58.638 33.333 0.00 0.00 0.00 2.29
2247 2340 5.005740 TGGTCCTCATTCATCTTGAACAAG 58.994 41.667 8.09 8.09 39.45 3.16
2249 2342 5.474876 GGTCCTCATTCATCTTGAACAAGTT 59.525 40.000 13.15 3.80 39.45 2.66
2305 2398 6.716438 ACTTAAAGTTTGAAGCTTTCGTCTC 58.284 36.000 10.29 0.00 37.37 3.36
2320 2413 3.966154 TCGTCTCTCTCAACAACTTGTC 58.034 45.455 0.00 0.00 0.00 3.18
2322 2415 3.490933 CGTCTCTCTCAACAACTTGTCCA 60.491 47.826 0.00 0.00 0.00 4.02
2331 2424 4.159321 TCAACAACTTGTCCATTTTCTGCA 59.841 37.500 0.00 0.00 0.00 4.41
2390 2483 8.801715 ACTAAATTAGCAAATCAACACACAAG 57.198 30.769 0.00 0.00 0.00 3.16
2391 2484 7.867403 ACTAAATTAGCAAATCAACACACAAGG 59.133 33.333 0.00 0.00 0.00 3.61
2392 2485 4.582701 TTAGCAAATCAACACACAAGGG 57.417 40.909 0.00 0.00 0.00 3.95
2393 2486 2.665165 AGCAAATCAACACACAAGGGA 58.335 42.857 0.00 0.00 0.00 4.20
2394 2487 2.624838 AGCAAATCAACACACAAGGGAG 59.375 45.455 0.00 0.00 0.00 4.30
2395 2488 2.288395 GCAAATCAACACACAAGGGAGG 60.288 50.000 0.00 0.00 0.00 4.30
2396 2489 3.221771 CAAATCAACACACAAGGGAGGA 58.778 45.455 0.00 0.00 0.00 3.71
2397 2490 3.593442 AATCAACACACAAGGGAGGAA 57.407 42.857 0.00 0.00 0.00 3.36
2398 2491 3.593442 ATCAACACACAAGGGAGGAAA 57.407 42.857 0.00 0.00 0.00 3.13
2399 2492 3.374042 TCAACACACAAGGGAGGAAAA 57.626 42.857 0.00 0.00 0.00 2.29
2400 2493 3.909732 TCAACACACAAGGGAGGAAAAT 58.090 40.909 0.00 0.00 0.00 1.82
2401 2494 5.055265 TCAACACACAAGGGAGGAAAATA 57.945 39.130 0.00 0.00 0.00 1.40
2402 2495 5.070001 TCAACACACAAGGGAGGAAAATAG 58.930 41.667 0.00 0.00 0.00 1.73
2403 2496 4.724279 ACACACAAGGGAGGAAAATAGT 57.276 40.909 0.00 0.00 0.00 2.12
2404 2497 4.398319 ACACACAAGGGAGGAAAATAGTG 58.602 43.478 0.00 0.00 0.00 2.74
2405 2498 4.141251 ACACACAAGGGAGGAAAATAGTGT 60.141 41.667 0.00 0.00 39.31 3.55
2406 2499 4.455877 CACACAAGGGAGGAAAATAGTGTC 59.544 45.833 0.00 0.00 36.90 3.67
2407 2500 4.104102 ACACAAGGGAGGAAAATAGTGTCA 59.896 41.667 0.00 0.00 34.18 3.58
2408 2501 4.455877 CACAAGGGAGGAAAATAGTGTCAC 59.544 45.833 0.00 0.00 0.00 3.67
2409 2502 4.010349 CAAGGGAGGAAAATAGTGTCACC 58.990 47.826 0.00 0.00 0.00 4.02
2410 2503 3.532102 AGGGAGGAAAATAGTGTCACCT 58.468 45.455 0.00 0.00 0.00 4.00
2411 2504 3.519913 AGGGAGGAAAATAGTGTCACCTC 59.480 47.826 0.00 0.00 41.90 3.85
2412 2505 3.263425 GGGAGGAAAATAGTGTCACCTCA 59.737 47.826 0.00 0.00 43.66 3.86
2413 2506 4.080299 GGGAGGAAAATAGTGTCACCTCAT 60.080 45.833 0.00 0.00 43.66 2.90
2414 2507 5.119694 GGAGGAAAATAGTGTCACCTCATC 58.880 45.833 0.00 0.00 43.66 2.92
2415 2508 5.104735 GGAGGAAAATAGTGTCACCTCATCT 60.105 44.000 0.00 0.00 43.66 2.90
2416 2509 6.380079 AGGAAAATAGTGTCACCTCATCTT 57.620 37.500 0.00 0.00 0.00 2.40
2417 2510 6.784031 AGGAAAATAGTGTCACCTCATCTTT 58.216 36.000 0.00 0.00 0.00 2.52
2418 2511 7.918076 AGGAAAATAGTGTCACCTCATCTTTA 58.082 34.615 0.00 0.00 0.00 1.85
2419 2512 8.552296 AGGAAAATAGTGTCACCTCATCTTTAT 58.448 33.333 0.00 0.00 0.00 1.40
2420 2513 8.616076 GGAAAATAGTGTCACCTCATCTTTATG 58.384 37.037 0.00 0.00 0.00 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 1.907807 TTGGCATGGGCTGACAACC 60.908 57.895 0.00 0.00 46.09 3.77
38 39 2.569134 GCTCCTGCTTCTCGTCGT 59.431 61.111 0.00 0.00 36.03 4.34
69 70 3.119708 GCTTCTCACAGCGATGGAAAAAT 60.120 43.478 5.32 0.00 0.00 1.82
70 71 2.226437 GCTTCTCACAGCGATGGAAAAA 59.774 45.455 5.32 0.00 0.00 1.94
80 81 2.430465 TGATTTCCAGCTTCTCACAGC 58.570 47.619 0.00 0.00 40.44 4.40
81 82 4.615452 GCTTTGATTTCCAGCTTCTCACAG 60.615 45.833 0.00 0.00 0.00 3.66
100 101 5.334421 TCCTCAACTTCTACTCCTAGCTTT 58.666 41.667 0.00 0.00 0.00 3.51
150 151 3.304829 TGCATATATATCTGCGGGCCTA 58.695 45.455 15.84 0.00 41.32 3.93
158 159 6.712549 CATCGTTGCCTTGCATATATATCTG 58.287 40.000 0.00 0.00 38.76 2.90
179 180 3.995199 TCGATGGAATGGAAGTAGCATC 58.005 45.455 0.00 0.00 0.00 3.91
181 182 4.141733 TGAATCGATGGAATGGAAGTAGCA 60.142 41.667 0.00 0.00 33.78 3.49
291 293 2.505982 GCCTCTATGCTGCCCGAA 59.494 61.111 0.00 0.00 0.00 4.30
341 343 2.237143 CCTTCTAGGTTGGCATCTCACA 59.763 50.000 0.00 0.00 0.00 3.58
365 367 5.796424 AATTTGATTGCTCTGTTGGTTCT 57.204 34.783 0.00 0.00 0.00 3.01
392 395 4.825085 ACGACCACACCAATAAGAAAACAT 59.175 37.500 0.00 0.00 0.00 2.71
404 407 0.756070 TACCTCACACGACCACACCA 60.756 55.000 0.00 0.00 0.00 4.17
433 436 4.285517 TGACTCCTCTGCTGATTTCTCTTT 59.714 41.667 0.00 0.00 0.00 2.52
492 495 0.605860 CTATCAGGCTGGCTGATGGC 60.606 60.000 40.58 5.26 41.16 4.40
506 509 5.394993 CCACTTCTTCTCTGATGTGCTATCA 60.395 44.000 4.54 4.54 39.37 2.15
723 726 6.037830 GCTTTTGTGAGTTGGACTTTGTACTA 59.962 38.462 0.00 0.00 0.00 1.82
729 732 6.463995 TTATGCTTTTGTGAGTTGGACTTT 57.536 33.333 0.00 0.00 0.00 2.66
754 757 3.887716 GGTTTGGCATCATAGCTTCAGAT 59.112 43.478 0.00 0.00 34.17 2.90
963 981 1.774254 TGGTGGTGGTGAAGATGAACT 59.226 47.619 0.00 0.00 0.00 3.01
1095 1113 5.130350 CAGTTTTGAGAACCAAACCCTCTA 58.870 41.667 0.00 0.00 43.82 2.43
1096 1114 3.954258 CAGTTTTGAGAACCAAACCCTCT 59.046 43.478 0.00 0.00 43.82 3.69
1203 1221 2.368548 GCCCTTCCACCATTTCAAAAGT 59.631 45.455 0.00 0.00 0.00 2.66
1273 1291 4.491676 TCACATCGGCACTTCTTTACTAC 58.508 43.478 0.00 0.00 0.00 2.73
1277 1295 2.935238 GCCTCACATCGGCACTTCTTTA 60.935 50.000 0.00 0.00 46.77 1.85
1308 1326 1.531602 AAGGTTGCCTTGGACAGCC 60.532 57.895 0.00 8.19 42.96 4.85
1354 1372 6.349363 GCCCTCTGAATTTGTTTCGTTATCTT 60.349 38.462 0.00 0.00 37.13 2.40
1362 1380 3.511146 TCATGGCCCTCTGAATTTGTTTC 59.489 43.478 0.00 0.00 34.72 2.78
1415 1433 1.726853 AGTATGGACGAACTTGCAGC 58.273 50.000 0.00 0.00 0.00 5.25
1530 1569 9.916397 CGAGACAAACCTACACATATTTTATTC 57.084 33.333 0.00 0.00 0.00 1.75
1531 1570 8.395633 GCGAGACAAACCTACACATATTTTATT 58.604 33.333 0.00 0.00 0.00 1.40
1532 1571 7.551262 TGCGAGACAAACCTACACATATTTTAT 59.449 33.333 0.00 0.00 0.00 1.40
1533 1572 6.874664 TGCGAGACAAACCTACACATATTTTA 59.125 34.615 0.00 0.00 0.00 1.52
1534 1573 5.703592 TGCGAGACAAACCTACACATATTTT 59.296 36.000 0.00 0.00 0.00 1.82
1535 1574 5.242434 TGCGAGACAAACCTACACATATTT 58.758 37.500 0.00 0.00 0.00 1.40
1536 1575 4.827692 TGCGAGACAAACCTACACATATT 58.172 39.130 0.00 0.00 0.00 1.28
1537 1576 4.465632 TGCGAGACAAACCTACACATAT 57.534 40.909 0.00 0.00 0.00 1.78
1538 1577 3.945981 TGCGAGACAAACCTACACATA 57.054 42.857 0.00 0.00 0.00 2.29
1539 1578 2.831685 TGCGAGACAAACCTACACAT 57.168 45.000 0.00 0.00 0.00 3.21
1540 1579 2.605837 TTGCGAGACAAACCTACACA 57.394 45.000 0.00 0.00 34.56 3.72
1571 1610 7.987458 CCACCACTAGTAACTCATATTCACATT 59.013 37.037 0.00 0.00 0.00 2.71
1572 1611 7.125811 ACCACCACTAGTAACTCATATTCACAT 59.874 37.037 0.00 0.00 0.00 3.21
1587 1626 0.250166 GCCAACGAACCACCACTAGT 60.250 55.000 0.00 0.00 0.00 2.57
1588 1627 0.250124 TGCCAACGAACCACCACTAG 60.250 55.000 0.00 0.00 0.00 2.57
1590 1629 1.150536 ATGCCAACGAACCACCACT 59.849 52.632 0.00 0.00 0.00 4.00
1651 1690 8.391075 TCCTCAATCGTTCTTGTTTAAATCTT 57.609 30.769 0.00 0.00 0.00 2.40
1653 1692 8.029642 TCTCCTCAATCGTTCTTGTTTAAATC 57.970 34.615 0.00 0.00 0.00 2.17
1655 1694 6.426937 CCTCTCCTCAATCGTTCTTGTTTAAA 59.573 38.462 0.00 0.00 0.00 1.52
1658 1697 4.040461 TCCTCTCCTCAATCGTTCTTGTTT 59.960 41.667 0.00 0.00 0.00 2.83
1660 1699 3.165875 TCCTCTCCTCAATCGTTCTTGT 58.834 45.455 0.00 0.00 0.00 3.16
1661 1700 3.876274 TCCTCTCCTCAATCGTTCTTG 57.124 47.619 0.00 0.00 0.00 3.02
1663 1702 3.636679 TCATCCTCTCCTCAATCGTTCT 58.363 45.455 0.00 0.00 0.00 3.01
1664 1703 4.392921 TTCATCCTCTCCTCAATCGTTC 57.607 45.455 0.00 0.00 0.00 3.95
1666 1705 4.406972 TCATTTCATCCTCTCCTCAATCGT 59.593 41.667 0.00 0.00 0.00 3.73
1667 1706 4.953667 TCATTTCATCCTCTCCTCAATCG 58.046 43.478 0.00 0.00 0.00 3.34
1717 1756 5.735766 ACTAAAAAGGGAGCATAGTCTGTC 58.264 41.667 0.00 0.00 0.00 3.51
1718 1757 5.485708 AGACTAAAAAGGGAGCATAGTCTGT 59.514 40.000 11.72 0.00 46.65 3.41
1719 1758 5.983540 AGACTAAAAAGGGAGCATAGTCTG 58.016 41.667 11.72 0.00 46.65 3.51
1799 1843 2.616330 ATGAAGCGGTTGTGCACGG 61.616 57.895 13.13 2.45 37.31 4.94
1800 1848 1.440850 CATGAAGCGGTTGTGCACG 60.441 57.895 13.13 0.46 37.31 5.34
1823 1871 6.995511 TTATACTGAGGTTATGGTGCAAAC 57.004 37.500 0.00 0.00 0.00 2.93
1841 1889 5.801947 ACAGGTGTTGACGACGTATTTATAC 59.198 40.000 0.00 0.00 0.00 1.47
1861 1909 2.430465 CAAGTTGTGAGGATGGACAGG 58.570 52.381 0.00 0.00 0.00 4.00
1873 1921 1.670295 TGTGCTACTGTGCAAGTTGTG 59.330 47.619 4.48 0.00 45.12 3.33
1886 1934 8.850454 TTTTTGTGAAACTAGATTTGTGCTAC 57.150 30.769 0.00 0.00 38.04 3.58
1930 1978 4.401519 TCCTAACCAAGTGATCTAGGTTCG 59.598 45.833 12.64 8.47 42.95 3.95
1939 1987 1.916181 CCACCCTCCTAACCAAGTGAT 59.084 52.381 0.00 0.00 0.00 3.06
1955 2003 1.143073 GGTTGGGATCCTACATCCACC 59.857 57.143 12.58 5.91 39.93 4.61
1968 2016 1.257743 CTTCAGACGAGAGGTTGGGA 58.742 55.000 0.00 0.00 0.00 4.37
1973 2021 3.127203 CGTGAATACTTCAGACGAGAGGT 59.873 47.826 0.00 0.00 41.01 3.85
1975 2023 3.374367 TCCGTGAATACTTCAGACGAGAG 59.626 47.826 0.00 0.00 41.01 3.20
1981 2029 1.542472 TGCGTCCGTGAATACTTCAGA 59.458 47.619 0.00 0.00 41.01 3.27
1998 2046 6.817765 ATGGTATATAGAACCCAATTTGCG 57.182 37.500 4.93 0.00 36.06 4.85
1999 2047 9.167311 CTCTATGGTATATAGAACCCAATTTGC 57.833 37.037 4.93 0.00 36.06 3.68
2083 2150 9.720769 TTTAAAGAATTGAGAAGACGTCCTATT 57.279 29.630 13.01 5.48 0.00 1.73
2137 2226 8.770828 TGTCTTAAAGTAGCAGTACATGAAAAC 58.229 33.333 0.00 0.00 0.00 2.43
2234 2327 4.946772 TGTTCCACAACTTGTTCAAGATGA 59.053 37.500 22.79 8.88 33.17 2.92
2247 2340 6.131544 ACTGAATTTGTAGTGTTCCACAAC 57.868 37.500 0.00 0.00 36.74 3.32
2249 2342 6.375736 TGAAACTGAATTTGTAGTGTTCCACA 59.624 34.615 0.00 0.00 36.74 4.17
2281 2374 6.539103 AGAGACGAAAGCTTCAAACTTTAAGT 59.461 34.615 0.00 0.00 37.47 2.24
2300 2393 3.053455 GGACAAGTTGTTGAGAGAGACG 58.947 50.000 10.45 0.00 37.10 4.18
2305 2398 6.204359 CAGAAAATGGACAAGTTGTTGAGAG 58.796 40.000 10.45 0.00 37.10 3.20
2381 2474 4.827284 CACTATTTTCCTCCCTTGTGTGTT 59.173 41.667 0.00 0.00 0.00 3.32
2382 2475 4.141251 ACACTATTTTCCTCCCTTGTGTGT 60.141 41.667 0.00 0.00 36.28 3.72
2383 2476 4.398319 ACACTATTTTCCTCCCTTGTGTG 58.602 43.478 0.00 0.00 36.28 3.82
2384 2477 4.104102 TGACACTATTTTCCTCCCTTGTGT 59.896 41.667 0.00 0.00 39.64 3.72
2385 2478 4.455877 GTGACACTATTTTCCTCCCTTGTG 59.544 45.833 0.00 0.00 0.00 3.33
2386 2479 4.506802 GGTGACACTATTTTCCTCCCTTGT 60.507 45.833 5.39 0.00 0.00 3.16
2387 2480 4.010349 GGTGACACTATTTTCCTCCCTTG 58.990 47.826 5.39 0.00 0.00 3.61
2388 2481 3.916989 AGGTGACACTATTTTCCTCCCTT 59.083 43.478 5.39 0.00 0.00 3.95
2389 2482 3.519913 GAGGTGACACTATTTTCCTCCCT 59.480 47.826 5.39 0.00 36.46 4.20
2390 2483 3.263425 TGAGGTGACACTATTTTCCTCCC 59.737 47.826 5.39 0.00 40.21 4.30
2391 2484 4.553330 TGAGGTGACACTATTTTCCTCC 57.447 45.455 5.39 0.00 40.21 4.30
2392 2485 5.983540 AGATGAGGTGACACTATTTTCCTC 58.016 41.667 5.39 2.42 41.00 3.71
2393 2486 6.380079 AAGATGAGGTGACACTATTTTCCT 57.620 37.500 5.39 0.00 0.00 3.36
2394 2487 8.616076 CATAAAGATGAGGTGACACTATTTTCC 58.384 37.037 5.39 0.00 34.73 3.13
2395 2488 9.167311 ACATAAAGATGAGGTGACACTATTTTC 57.833 33.333 5.39 0.00 36.48 2.29
2399 2492 9.823647 CTTTACATAAAGATGAGGTGACACTAT 57.176 33.333 5.39 0.00 44.07 2.12
2400 2493 9.031537 TCTTTACATAAAGATGAGGTGACACTA 57.968 33.333 9.54 0.00 44.74 2.74
2401 2494 7.907389 TCTTTACATAAAGATGAGGTGACACT 58.093 34.615 9.54 0.00 44.74 3.55
2413 2506 8.424918 CAGATTAGGCCTCTCTTTACATAAAGA 58.575 37.037 9.68 12.39 46.70 2.52
2414 2507 8.424918 TCAGATTAGGCCTCTCTTTACATAAAG 58.575 37.037 9.68 5.21 43.01 1.85
2415 2508 8.319057 TCAGATTAGGCCTCTCTTTACATAAA 57.681 34.615 9.68 0.00 0.00 1.40
2416 2509 7.914427 TCAGATTAGGCCTCTCTTTACATAA 57.086 36.000 9.68 0.00 0.00 1.90
2417 2510 7.510685 ACATCAGATTAGGCCTCTCTTTACATA 59.489 37.037 9.68 0.00 0.00 2.29
2418 2511 6.328672 ACATCAGATTAGGCCTCTCTTTACAT 59.671 38.462 9.68 0.00 0.00 2.29
2419 2512 5.663106 ACATCAGATTAGGCCTCTCTTTACA 59.337 40.000 9.68 0.00 0.00 2.41
2420 2513 5.988561 CACATCAGATTAGGCCTCTCTTTAC 59.011 44.000 9.68 0.00 0.00 2.01


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

AutoCloner maintained by Alex Coulton.