Multiple sequence alignment - TraesCS7D01G460400

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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 TraesCS7D01G460400 chr7D 100.000 2799 0 0 1 2799 577197242 577194444 0.000000e+00 5169.0
1 TraesCS7D01G460400 chr7B 93.374 2475 138 16 1 2459 639917390 639914926 0.000000e+00 3639.0
2 TraesCS7D01G460400 chr7B 94.444 36 2 0 694 729 383228168 383228203 3.890000e-04 56.5
3 TraesCS7D01G460400 chr7A 90.016 1833 154 15 720 2525 669200569 669198739 0.000000e+00 2344.0
4 TraesCS7D01G460400 chr7A 82.363 584 85 10 726 1295 669086819 669086240 2.500000e-135 492.0
5 TraesCS7D01G460400 chr7A 84.633 449 39 15 1 432 669201256 669200821 1.200000e-113 420.0
6 TraesCS7D01G460400 chr7A 90.244 205 14 3 2601 2799 669198433 669198229 2.140000e-66 263.0
7 TraesCS7D01G460400 chr5B 95.238 42 2 0 461 502 689895772 689895813 1.800000e-07 67.6
8 TraesCS7D01G460400 chr5B 94.737 38 2 0 464 501 341535958 341535921 3.010000e-05 60.2
9 TraesCS7D01G460400 chr3B 92.857 42 3 0 464 505 576453530 576453489 8.370000e-06 62.1
10 TraesCS7D01G460400 chr4A 94.872 39 1 1 461 499 179061619 179061582 3.010000e-05 60.2
11 TraesCS7D01G460400 chr4A 92.683 41 2 1 461 501 637125804 637125765 1.080000e-04 58.4
12 TraesCS7D01G460400 chr3D 94.872 39 1 1 461 499 135381056 135381019 3.010000e-05 60.2
13 TraesCS7D01G460400 chr3D 92.683 41 2 1 461 501 24045970 24046009 1.080000e-04 58.4
14 TraesCS7D01G460400 chr2A 92.683 41 2 1 461 501 652566477 652566438 1.080000e-04 58.4
15 TraesCS7D01G460400 chr1D 89.362 47 4 1 2558 2604 14982054 14982009 1.080000e-04 58.4
16 TraesCS7D01G460400 chr5A 96.875 32 1 0 697 728 387924363 387924394 1.000000e-03 54.7
17 TraesCS7D01G460400 chr6B 100.000 28 0 0 699 726 9500914 9500887 5.000000e-03 52.8
18 TraesCS7D01G460400 chr1B 100.000 28 0 0 702 729 592852246 592852219 5.000000e-03 52.8


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 TraesCS7D01G460400 chr7D 577194444 577197242 2798 True 5169 5169 100.000000 1 2799 1 chr7D.!!$R1 2798
1 TraesCS7D01G460400 chr7B 639914926 639917390 2464 True 3639 3639 93.374000 1 2459 1 chr7B.!!$R1 2458
2 TraesCS7D01G460400 chr7A 669198229 669201256 3027 True 1009 2344 88.297667 1 2799 3 chr7A.!!$R2 2798
3 TraesCS7D01G460400 chr7A 669086240 669086819 579 True 492 492 82.363000 726 1295 1 chr7A.!!$R1 569

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
224 229 0.39113 TATCAATAGGATGCCGCGCC 60.391 55.0 0.0 0.0 36.72 6.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1893 1996 0.179468 GAATGGCCAGGCAATGCAAT 59.821 50.0 15.19 0.0 0.0 3.56 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
25 26 5.376625 GTGAGCTGGGGATGATTATTACAA 58.623 41.667 0.00 0.00 0.00 2.41
27 28 6.491403 GTGAGCTGGGGATGATTATTACAATT 59.509 38.462 0.00 0.00 0.00 2.32
80 83 8.487176 GCATCATTGTTCGAAACTTGTTTTAAT 58.513 29.630 0.00 0.00 0.00 1.40
147 152 7.227049 TGATTTAGTCTGAACCCATTTTTCC 57.773 36.000 0.00 0.00 0.00 3.13
151 156 5.319043 AGTCTGAACCCATTTTTCCTGTA 57.681 39.130 0.00 0.00 0.00 2.74
152 157 5.070685 AGTCTGAACCCATTTTTCCTGTAC 58.929 41.667 0.00 0.00 0.00 2.90
166 171 6.952773 TTTCCTGTACACAGTTTGCTTAAT 57.047 33.333 8.48 0.00 42.27 1.40
180 185 4.514545 TGCTTAATAACAATCGTCTGCG 57.485 40.909 0.00 0.00 39.92 5.18
224 229 0.391130 TATCAATAGGATGCCGCGCC 60.391 55.000 0.00 0.00 36.72 6.53
238 244 2.502093 CGCCGCCCTGGTACAATA 59.498 61.111 0.00 0.00 38.70 1.90
256 263 7.441458 GGTACAATAACATCTAGTCCCATTGTC 59.559 40.741 12.39 7.56 37.76 3.18
375 390 2.813754 GGCTTGTGCAGTAATGTTCAGA 59.186 45.455 0.00 0.00 41.91 3.27
442 461 9.780186 AAAATATCAGTAATAAGTGCTCCCTAC 57.220 33.333 0.00 0.00 0.00 3.18
453 472 1.353022 TGCTCCCTACGTCCCAAAATT 59.647 47.619 0.00 0.00 0.00 1.82
495 514 1.990327 ACTTAATTTGGGACGGAGGGT 59.010 47.619 0.00 0.00 0.00 4.34
689 773 4.219725 CCTCCGTCCCAAAATAATTGTTGT 59.780 41.667 0.00 0.00 0.00 3.32
713 797 4.016444 GCCATGACTCTTATTTTGGGACA 58.984 43.478 0.00 0.00 0.00 4.02
757 841 8.597227 CAACAAACTGTTAATATGCATGATTGG 58.403 33.333 10.16 0.00 38.77 3.16
938 1024 3.071874 TGAATGCCTTAGTTGACCCTG 57.928 47.619 0.00 0.00 0.00 4.45
946 1032 4.394729 CCTTAGTTGACCCTGTTTTGCTA 58.605 43.478 0.00 0.00 0.00 3.49
976 1063 6.940298 AGGAGTAGAAACCGATCAATTGAAAA 59.060 34.615 13.09 0.00 0.00 2.29
982 1069 6.582295 AGAAACCGATCAATTGAAAACATTCG 59.418 34.615 13.09 15.05 0.00 3.34
1083 1181 1.081892 CCGAGGCTGACAATGAAGTG 58.918 55.000 0.00 0.00 0.00 3.16
1092 1190 3.130633 TGACAATGAAGTGGTCGAGTTG 58.869 45.455 0.00 0.00 34.32 3.16
1163 1261 1.745087 CAAAGAGCGTATGGTTGGCAT 59.255 47.619 0.00 0.00 0.00 4.40
1176 1274 2.236893 GGTTGGCATCATTGGGAATGTT 59.763 45.455 0.00 0.00 39.87 2.71
1220 1318 4.808895 TGATGCCACGTATGTATTCTCAAC 59.191 41.667 0.00 0.00 0.00 3.18
1434 1532 4.080807 TCCACCGGAATGAACAAAGCTATA 60.081 41.667 9.46 0.00 0.00 1.31
1436 1534 4.876107 CACCGGAATGAACAAAGCTATACT 59.124 41.667 9.46 0.00 0.00 2.12
1491 1589 2.165845 AGCCACGTATACAGTCAAGGAC 59.834 50.000 3.32 0.00 0.00 3.85
1694 1795 7.281774 AGTTCATGATATCTGTGTTGGAATGTC 59.718 37.037 3.98 0.00 0.00 3.06
1893 1996 2.506957 TTGTGAGCTGCCGGTCTGA 61.507 57.895 1.90 0.00 38.45 3.27
1976 2079 9.725019 TTAAAATCTCTGTTGACATCATGTACT 57.275 29.630 0.00 0.00 0.00 2.73
1996 2104 0.108424 GTGTGTGCCACTTTTGCCAA 60.108 50.000 0.00 0.00 41.11 4.52
2001 2109 0.746063 TGCCACTTTTGCCAACAGAG 59.254 50.000 0.00 0.00 0.00 3.35
2002 2110 1.032014 GCCACTTTTGCCAACAGAGA 58.968 50.000 0.00 0.00 0.00 3.10
2003 2111 1.000938 GCCACTTTTGCCAACAGAGAG 60.001 52.381 0.00 0.00 0.00 3.20
2152 2262 3.138798 GTCTCCTACGCCTCGCCA 61.139 66.667 0.00 0.00 0.00 5.69
2153 2263 2.361992 TCTCCTACGCCTCGCCAA 60.362 61.111 0.00 0.00 0.00 4.52
2157 2267 2.571757 CTACGCCTCGCCAAGTCA 59.428 61.111 0.00 0.00 0.00 3.41
2172 2282 4.563580 GCCAAGTCAGAAGTCAGGTATGAA 60.564 45.833 0.00 0.00 37.14 2.57
2201 2311 3.681897 CACACATTAGAGAGCTTGTGGTC 59.318 47.826 16.20 0.00 42.86 4.02
2237 2347 2.996470 CTTCGGCCCTAGATCCGGGA 62.996 65.000 19.30 0.00 44.90 5.14
2288 2400 2.078849 TAGTGGTCGCAAGTGTGATG 57.921 50.000 0.00 0.00 36.88 3.07
2289 2401 1.207593 GTGGTCGCAAGTGTGATGC 59.792 57.895 0.00 0.00 40.41 3.91
2325 2437 0.108615 GTGTCTCTCCCATGTCACCG 60.109 60.000 0.00 0.00 0.00 4.94
2337 2449 3.433957 CCATGTCACCGTTTTTACGATGA 59.566 43.478 0.00 0.00 32.55 2.92
2340 2452 2.472488 GTCACCGTTTTTACGATGACGT 59.528 45.455 9.17 0.00 45.16 4.34
2372 2484 3.181507 CCAACCGTATGACAATGAAGCAG 60.182 47.826 0.00 0.00 0.00 4.24
2401 2513 9.612620 GTTCAACATTGTAAAATCCTACTTCAG 57.387 33.333 0.00 0.00 0.00 3.02
2429 2542 3.604627 GCGTCGTTGTTTGTTTCTTTGAA 59.395 39.130 0.00 0.00 0.00 2.69
2462 2575 9.436957 GTTAGAGAAAATTGGAGATGTAACAGA 57.563 33.333 0.00 0.00 0.00 3.41
2480 2593 3.964031 ACAGAGTAAGCTAGGGAGAATGG 59.036 47.826 0.00 0.00 0.00 3.16
2488 2613 5.717119 AGCTAGGGAGAATGGTTAATGTT 57.283 39.130 0.00 0.00 0.00 2.71
2516 2641 9.642343 ACTTTAGTTTTTCTATCAAAGGTCCTT 57.358 29.630 0.00 0.00 0.00 3.36
2517 2642 9.899226 CTTTAGTTTTTCTATCAAAGGTCCTTG 57.101 33.333 4.45 0.00 0.00 3.61
2525 2650 5.997746 TCTATCAAAGGTCCTTGTTGTCTTG 59.002 40.000 4.45 0.00 0.00 3.02
2526 2651 3.287222 TCAAAGGTCCTTGTTGTCTTGG 58.713 45.455 4.45 0.00 0.00 3.61
2527 2652 1.692411 AAGGTCCTTGTTGTCTTGGC 58.308 50.000 2.38 0.00 0.00 4.52
2528 2653 0.535102 AGGTCCTTGTTGTCTTGGCG 60.535 55.000 0.00 0.00 0.00 5.69
2529 2654 1.515521 GGTCCTTGTTGTCTTGGCGG 61.516 60.000 0.00 0.00 0.00 6.13
2530 2655 1.228124 TCCTTGTTGTCTTGGCGGG 60.228 57.895 0.00 0.00 0.00 6.13
2531 2656 2.268076 CCTTGTTGTCTTGGCGGGG 61.268 63.158 0.00 0.00 0.00 5.73
2557 2682 7.630470 GAGATTTCTCCACGTGAATATACTG 57.370 40.000 19.30 0.00 37.02 2.74
2558 2683 5.986135 AGATTTCTCCACGTGAATATACTGC 59.014 40.000 19.30 0.00 0.00 4.40
2559 2684 5.339008 TTTCTCCACGTGAATATACTGCT 57.661 39.130 19.30 0.00 0.00 4.24
2560 2685 6.459670 TTTCTCCACGTGAATATACTGCTA 57.540 37.500 19.30 0.00 0.00 3.49
2561 2686 5.690997 TCTCCACGTGAATATACTGCTAG 57.309 43.478 19.30 0.00 0.00 3.42
2562 2687 5.374071 TCTCCACGTGAATATACTGCTAGA 58.626 41.667 19.30 0.00 0.00 2.43
2563 2688 6.004574 TCTCCACGTGAATATACTGCTAGAT 58.995 40.000 19.30 0.00 0.00 1.98
2564 2689 7.166167 TCTCCACGTGAATATACTGCTAGATA 58.834 38.462 19.30 0.00 0.00 1.98
2565 2690 7.829706 TCTCCACGTGAATATACTGCTAGATAT 59.170 37.037 19.30 0.00 0.00 1.63
2566 2691 9.110502 CTCCACGTGAATATACTGCTAGATATA 57.889 37.037 19.30 0.00 0.00 0.86
2567 2692 9.628500 TCCACGTGAATATACTGCTAGATATAT 57.372 33.333 19.30 0.00 0.00 0.86
2568 2693 9.885934 CCACGTGAATATACTGCTAGATATATC 57.114 37.037 19.30 4.42 0.00 1.63
2569 2694 9.885934 CACGTGAATATACTGCTAGATATATCC 57.114 37.037 10.90 0.00 0.00 2.59
2570 2695 8.775527 ACGTGAATATACTGCTAGATATATCCG 58.224 37.037 9.18 2.51 0.00 4.18
2571 2696 7.746916 CGTGAATATACTGCTAGATATATCCGC 59.253 40.741 9.18 12.33 0.00 5.54
2572 2697 8.788806 GTGAATATACTGCTAGATATATCCGCT 58.211 37.037 19.45 8.15 0.00 5.52
2573 2698 9.355916 TGAATATACTGCTAGATATATCCGCTT 57.644 33.333 19.45 12.12 0.00 4.68
2574 2699 9.619316 GAATATACTGCTAGATATATCCGCTTG 57.381 37.037 19.45 15.48 0.00 4.01
2575 2700 8.926092 ATATACTGCTAGATATATCCGCTTGA 57.074 34.615 19.45 9.28 0.00 3.02
2576 2701 5.574891 ACTGCTAGATATATCCGCTTGAG 57.425 43.478 19.45 13.51 0.00 3.02
2577 2702 4.142271 ACTGCTAGATATATCCGCTTGAGC 60.142 45.833 19.45 14.08 37.78 4.26
2593 2718 6.530913 GCTTGAGCGTCAATTAATATGAGA 57.469 37.500 0.00 0.00 35.59 3.27
2594 2719 6.358762 GCTTGAGCGTCAATTAATATGAGAC 58.641 40.000 0.00 0.00 35.59 3.36
2664 3023 1.163420 ACGTTTGCACATGCGGAGAA 61.163 50.000 0.00 0.00 45.83 2.87
2665 3024 0.168788 CGTTTGCACATGCGGAGAAT 59.831 50.000 0.00 0.00 45.83 2.40
2668 3027 3.429085 GTTTGCACATGCGGAGAATTAG 58.571 45.455 0.00 0.00 45.83 1.73
2669 3028 1.016627 TGCACATGCGGAGAATTAGC 58.983 50.000 0.00 0.00 45.83 3.09
2670 3029 1.303309 GCACATGCGGAGAATTAGCT 58.697 50.000 0.00 0.00 0.00 3.32
2671 3030 2.158971 TGCACATGCGGAGAATTAGCTA 60.159 45.455 0.00 0.00 45.83 3.32
2672 3031 2.478134 GCACATGCGGAGAATTAGCTAG 59.522 50.000 0.00 0.00 0.00 3.42
2683 3044 4.148838 AGAATTAGCTAGCGTCCTCATCT 58.851 43.478 9.55 5.43 0.00 2.90
2686 3047 2.350057 AGCTAGCGTCCTCATCTGTA 57.650 50.000 9.55 0.00 0.00 2.74
2749 3110 6.718522 AAGTAGACTAGAAGGCCTTATGTC 57.281 41.667 22.95 24.44 0.00 3.06
2758 3119 1.356624 GCCTTATGTCGCATGCACC 59.643 57.895 19.57 7.61 0.00 5.01
2776 3137 1.384082 CGAGGGGAGGGGGTAACAT 60.384 63.158 0.00 0.00 39.74 2.71
2777 3138 1.696097 CGAGGGGAGGGGGTAACATG 61.696 65.000 0.00 0.00 39.74 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 56 4.836125 ACAAGTTTCGAACAATGATGCT 57.164 36.364 0.00 0.00 0.00 3.79
94 97 2.626840 ACATTTTGTTTGTGGTGTGCC 58.373 42.857 0.00 0.00 0.00 5.01
151 156 6.966021 ACGATTGTTATTAAGCAAACTGTGT 58.034 32.000 0.00 0.00 0.00 3.72
152 157 7.269084 CAGACGATTGTTATTAAGCAAACTGTG 59.731 37.037 0.00 0.00 0.00 3.66
166 171 2.089201 TCTCTCCGCAGACGATTGTTA 58.911 47.619 0.00 0.00 43.93 2.41
224 229 3.194005 AGATGTTATTGTACCAGGGCG 57.806 47.619 0.00 0.00 0.00 6.13
238 244 3.846588 AGTGGACAATGGGACTAGATGTT 59.153 43.478 0.00 0.00 0.00 2.71
375 390 4.736473 ACTTACAAAAGCAAGGTATGGGT 58.264 39.130 0.00 0.00 36.05 4.51
441 460 5.479124 AGTAGACACTAATTTTGGGACGT 57.521 39.130 0.00 0.00 31.45 4.34
442 461 7.601508 ACTTTAGTAGACACTAATTTTGGGACG 59.398 37.037 0.00 0.00 44.69 4.79
495 514 2.241176 CCCTCCTTGCCCAATTACTACA 59.759 50.000 0.00 0.00 0.00 2.74
689 773 3.011144 TCCCAAAATAAGAGTCATGGCCA 59.989 43.478 8.56 8.56 0.00 5.36
946 1032 1.629043 TCGGTTTCTACTCCTGCACT 58.371 50.000 0.00 0.00 0.00 4.40
976 1063 8.796475 CATGATATTCCCTTTTTATCCGAATGT 58.204 33.333 0.00 0.00 0.00 2.71
982 1069 7.890655 AGTAGCCATGATATTCCCTTTTTATCC 59.109 37.037 0.00 0.00 0.00 2.59
1083 1181 4.268687 CTGGACAGCAACTCGACC 57.731 61.111 0.00 0.00 0.00 4.79
1163 1261 4.889409 GGCTATCAAGAACATTCCCAATGA 59.111 41.667 3.24 0.00 41.46 2.57
1176 1274 0.747255 GCGTCTCCAGGCTATCAAGA 59.253 55.000 0.00 0.00 0.00 3.02
1320 1418 2.044793 TCCCCTCACAGGTGAAGAAT 57.955 50.000 3.45 0.00 39.39 2.40
1434 1532 2.233271 CCCTCACTTTTGACATGCAGT 58.767 47.619 0.00 0.00 0.00 4.40
1436 1534 1.133513 ACCCCTCACTTTTGACATGCA 60.134 47.619 0.00 0.00 0.00 3.96
1528 1626 2.753043 CTGGGCGAGCAAGGCAAT 60.753 61.111 7.26 0.00 38.57 3.56
1542 1640 1.961277 GTCCTTGACACCGCACTGG 60.961 63.158 0.00 0.00 46.41 4.00
1548 1646 1.374758 GCTCAGGTCCTTGACACCG 60.375 63.158 0.00 0.00 39.13 4.94
1647 1745 5.296748 ACTGCACCAATTAATCAAAACCAC 58.703 37.500 0.00 0.00 0.00 4.16
1694 1795 1.227380 GGAGTATGTCCAGCGCCTG 60.227 63.158 2.29 1.18 46.10 4.85
1893 1996 0.179468 GAATGGCCAGGCAATGCAAT 59.821 50.000 15.19 0.00 0.00 3.56
2047 2155 6.219417 TCAGAAGCTTGTTTCAAATCCAAA 57.781 33.333 2.10 0.00 0.00 3.28
2048 2156 5.850557 TCAGAAGCTTGTTTCAAATCCAA 57.149 34.783 2.10 0.00 0.00 3.53
2049 2157 5.850557 TTCAGAAGCTTGTTTCAAATCCA 57.149 34.783 2.10 0.00 0.00 3.41
2080 2188 5.592282 TGCAAGGAAGTCAATAGTGAAAACA 59.408 36.000 0.00 0.00 34.87 2.83
2152 2262 6.611613 TCATTCATACCTGACTTCTGACTT 57.388 37.500 0.00 0.00 0.00 3.01
2153 2263 6.382282 TCATCATTCATACCTGACTTCTGACT 59.618 38.462 0.00 0.00 0.00 3.41
2157 2267 6.070596 TGTGTCATCATTCATACCTGACTTCT 60.071 38.462 0.00 0.00 37.65 2.85
2172 2282 5.611128 AGCTCTCTAATGTGTGTCATCAT 57.389 39.130 0.00 0.00 35.48 2.45
2201 2311 4.688021 CCGAAGATTCTAGGGACTCAAAG 58.312 47.826 0.00 0.00 41.75 2.77
2206 2316 1.415200 GGCCGAAGATTCTAGGGACT 58.585 55.000 7.02 0.00 46.37 3.85
2237 2347 1.601914 GGACGAAGCGCCAAAAACAAT 60.602 47.619 2.29 0.00 0.00 2.71
2288 2400 6.013842 AGACACTAACTAAAGCAAATTGGC 57.986 37.500 0.00 0.00 0.00 4.52
2289 2401 7.361286 GGAGAGACACTAACTAAAGCAAATTGG 60.361 40.741 0.00 0.00 0.00 3.16
2337 2449 1.202722 ACGGTTGGGAAAGAATGACGT 60.203 47.619 0.00 0.00 0.00 4.34
2340 2452 4.258543 GTCATACGGTTGGGAAAGAATGA 58.741 43.478 0.00 0.00 0.00 2.57
2372 2484 4.805219 AGGATTTTACAATGTTGAACCGC 58.195 39.130 0.00 0.00 0.00 5.68
2401 2513 1.278637 CAAACAACGACGCCCAGTC 59.721 57.895 0.00 0.00 46.16 3.51
2429 2542 5.548056 TCTCCAATTTTCTCTAACCCTCAGT 59.452 40.000 0.00 0.00 0.00 3.41
2462 2575 6.387220 ACATTAACCATTCTCCCTAGCTTACT 59.613 38.462 0.00 0.00 0.00 2.24
2513 2638 2.268076 CCCCGCCAAGACAACAAGG 61.268 63.158 0.00 0.00 0.00 3.61
2514 2639 2.268076 CCCCCGCCAAGACAACAAG 61.268 63.158 0.00 0.00 0.00 3.16
2533 2658 6.144724 GCAGTATATTCACGTGGAGAAATCTC 59.855 42.308 17.00 1.68 42.14 2.75
2535 2660 5.986135 AGCAGTATATTCACGTGGAGAAATC 59.014 40.000 17.00 0.00 0.00 2.17
2536 2661 5.918608 AGCAGTATATTCACGTGGAGAAAT 58.081 37.500 17.00 10.42 0.00 2.17
2537 2662 5.339008 AGCAGTATATTCACGTGGAGAAA 57.661 39.130 17.00 2.36 0.00 2.52
2538 2663 5.826208 TCTAGCAGTATATTCACGTGGAGAA 59.174 40.000 17.00 2.78 0.00 2.87
2539 2664 5.374071 TCTAGCAGTATATTCACGTGGAGA 58.626 41.667 17.00 4.11 0.00 3.71
2540 2665 5.690997 TCTAGCAGTATATTCACGTGGAG 57.309 43.478 17.00 0.00 0.00 3.86
2541 2666 7.939784 ATATCTAGCAGTATATTCACGTGGA 57.060 36.000 17.00 7.58 0.00 4.02
2542 2667 9.885934 GATATATCTAGCAGTATATTCACGTGG 57.114 37.037 17.00 0.00 0.00 4.94
2543 2668 9.885934 GGATATATCTAGCAGTATATTCACGTG 57.114 37.037 9.94 9.94 0.00 4.49
2544 2669 8.775527 CGGATATATCTAGCAGTATATTCACGT 58.224 37.037 12.42 0.00 0.00 4.49
2545 2670 7.746916 GCGGATATATCTAGCAGTATATTCACG 59.253 40.741 20.79 9.43 33.23 4.35
2546 2671 8.788806 AGCGGATATATCTAGCAGTATATTCAC 58.211 37.037 24.69 2.07 34.59 3.18
2547 2672 8.926092 AGCGGATATATCTAGCAGTATATTCA 57.074 34.615 24.69 0.00 34.59 2.57
2548 2673 9.619316 CAAGCGGATATATCTAGCAGTATATTC 57.381 37.037 24.69 2.91 34.59 1.75
2549 2674 9.355916 TCAAGCGGATATATCTAGCAGTATATT 57.644 33.333 24.69 13.08 34.59 1.28
2550 2675 8.926092 TCAAGCGGATATATCTAGCAGTATAT 57.074 34.615 24.69 9.34 34.59 0.86
2551 2676 7.041030 GCTCAAGCGGATATATCTAGCAGTATA 60.041 40.741 24.69 11.68 34.59 1.47
2552 2677 6.238897 GCTCAAGCGGATATATCTAGCAGTAT 60.239 42.308 24.69 12.28 34.59 2.12
2553 2678 5.066634 GCTCAAGCGGATATATCTAGCAGTA 59.933 44.000 24.69 13.96 34.59 2.74
2554 2679 4.142271 GCTCAAGCGGATATATCTAGCAGT 60.142 45.833 24.69 15.03 34.59 4.40
2555 2680 4.358851 GCTCAAGCGGATATATCTAGCAG 58.641 47.826 24.69 19.09 34.59 4.24
2556 2681 4.377839 GCTCAAGCGGATATATCTAGCA 57.622 45.455 24.69 11.46 34.59 3.49
2570 2695 6.358762 GTCTCATATTAATTGACGCTCAAGC 58.641 40.000 0.00 0.00 40.05 4.01
2571 2696 6.346120 CCGTCTCATATTAATTGACGCTCAAG 60.346 42.308 18.64 8.36 45.93 3.02
2572 2697 5.462068 CCGTCTCATATTAATTGACGCTCAA 59.538 40.000 18.64 3.49 45.93 3.02
2573 2698 4.982295 CCGTCTCATATTAATTGACGCTCA 59.018 41.667 18.64 0.00 45.93 4.26
2574 2699 5.220381 TCCGTCTCATATTAATTGACGCTC 58.780 41.667 18.64 0.00 45.93 5.03
2575 2700 5.009710 TCTCCGTCTCATATTAATTGACGCT 59.990 40.000 18.64 0.00 45.93 5.07
2576 2701 5.220381 TCTCCGTCTCATATTAATTGACGC 58.780 41.667 18.64 6.86 45.93 5.19
2577 2702 6.669278 TCTCTCCGTCTCATATTAATTGACG 58.331 40.000 17.80 17.80 46.55 4.35
2578 2703 7.653647 ACTCTCTCCGTCTCATATTAATTGAC 58.346 38.462 0.00 0.00 0.00 3.18
2579 2704 7.825331 ACTCTCTCCGTCTCATATTAATTGA 57.175 36.000 0.00 0.00 0.00 2.57
2580 2705 9.400638 GTAACTCTCTCCGTCTCATATTAATTG 57.599 37.037 0.00 0.00 0.00 2.32
2581 2706 9.357161 AGTAACTCTCTCCGTCTCATATTAATT 57.643 33.333 0.00 0.00 0.00 1.40
2582 2707 8.788806 CAGTAACTCTCTCCGTCTCATATTAAT 58.211 37.037 0.00 0.00 0.00 1.40
2583 2708 7.991460 TCAGTAACTCTCTCCGTCTCATATTAA 59.009 37.037 0.00 0.00 0.00 1.40
2584 2709 7.506971 TCAGTAACTCTCTCCGTCTCATATTA 58.493 38.462 0.00 0.00 0.00 0.98
2585 2710 6.358178 TCAGTAACTCTCTCCGTCTCATATT 58.642 40.000 0.00 0.00 0.00 1.28
2586 2711 5.931294 TCAGTAACTCTCTCCGTCTCATAT 58.069 41.667 0.00 0.00 0.00 1.78
2587 2712 5.354842 TCAGTAACTCTCTCCGTCTCATA 57.645 43.478 0.00 0.00 0.00 2.15
2588 2713 4.223556 TCAGTAACTCTCTCCGTCTCAT 57.776 45.455 0.00 0.00 0.00 2.90
2589 2714 3.697619 TCAGTAACTCTCTCCGTCTCA 57.302 47.619 0.00 0.00 0.00 3.27
2590 2715 4.004982 ACTTCAGTAACTCTCTCCGTCTC 58.995 47.826 0.00 0.00 0.00 3.36
2591 2716 3.754323 CACTTCAGTAACTCTCTCCGTCT 59.246 47.826 0.00 0.00 0.00 4.18
2592 2717 3.502979 ACACTTCAGTAACTCTCTCCGTC 59.497 47.826 0.00 0.00 0.00 4.79
2593 2718 3.488363 ACACTTCAGTAACTCTCTCCGT 58.512 45.455 0.00 0.00 0.00 4.69
2594 2719 5.392286 GTTACACTTCAGTAACTCTCTCCG 58.608 45.833 9.13 0.00 46.41 4.63
2646 3005 0.168788 ATTCTCCGCATGTGCAAACG 59.831 50.000 0.00 0.00 42.21 3.60
2650 3009 1.016627 GCTAATTCTCCGCATGTGCA 58.983 50.000 0.00 0.00 42.21 4.57
2664 3023 3.226777 ACAGATGAGGACGCTAGCTAAT 58.773 45.455 13.93 0.00 0.00 1.73
2665 3024 2.656002 ACAGATGAGGACGCTAGCTAA 58.344 47.619 13.93 0.00 0.00 3.09
2668 3027 2.222886 TCTACAGATGAGGACGCTAGC 58.777 52.381 4.06 4.06 0.00 3.42
2669 3028 3.880490 AGTTCTACAGATGAGGACGCTAG 59.120 47.826 0.00 0.00 0.00 3.42
2670 3029 3.887352 AGTTCTACAGATGAGGACGCTA 58.113 45.455 0.00 0.00 0.00 4.26
2671 3030 2.729194 AGTTCTACAGATGAGGACGCT 58.271 47.619 0.00 0.00 0.00 5.07
2672 3031 3.878103 TCTAGTTCTACAGATGAGGACGC 59.122 47.826 0.00 0.00 0.00 5.19
2683 3044 4.331992 CGTCACCGAAGATCTAGTTCTACA 59.668 45.833 3.74 0.00 35.63 2.74
2686 3047 2.683867 CCGTCACCGAAGATCTAGTTCT 59.316 50.000 0.00 0.00 35.63 3.01
2723 3084 6.550481 ACATAAGGCCTTCTAGTCTACTTACC 59.450 42.308 24.49 0.00 0.00 2.85
2732 3093 2.108168 TGCGACATAAGGCCTTCTAGT 58.892 47.619 24.49 18.74 0.00 2.57
2758 3119 1.384082 ATGTTACCCCCTCCCCTCG 60.384 63.158 0.00 0.00 0.00 4.63
2776 3137 0.178967 TGCAGATCTTTGGGGTTGCA 60.179 50.000 0.00 0.00 39.03 4.08
2777 3138 0.968405 TTGCAGATCTTTGGGGTTGC 59.032 50.000 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.