Multiple sequence alignment - TraesCS6B01G263200

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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 TraesCS6B01G263200 chr6B 100.000 4643 0 0 1 4643 474181012 474176370 0.000000e+00 8575.0
1 TraesCS6B01G263200 chr6B 90.256 780 52 8 33 789 701906413 701907191 0.000000e+00 998.0
2 TraesCS6B01G263200 chr6B 89.290 747 53 4 71 791 47870805 47870060 0.000000e+00 911.0
3 TraesCS6B01G263200 chr6B 96.000 50 2 0 788 837 474187030 474186981 1.070000e-11 82.4
4 TraesCS6B01G263200 chr6A 92.949 3886 174 56 792 4643 442400054 442396235 0.000000e+00 5566.0
5 TraesCS6B01G263200 chr6D 93.100 1913 102 17 2748 4643 306710537 306708638 0.000000e+00 2774.0
6 TraesCS6B01G263200 chr6D 90.825 1079 55 27 788 1849 306712452 306711401 0.000000e+00 1404.0
7 TraesCS6B01G263200 chr6D 90.864 799 62 10 1873 2666 306711346 306710554 0.000000e+00 1061.0
8 TraesCS6B01G263200 chr4B 92.528 803 57 2 1 801 562344554 562343753 0.000000e+00 1147.0
9 TraesCS6B01G263200 chr4B 91.743 654 47 3 22 673 116348862 116349510 0.000000e+00 902.0
10 TraesCS6B01G263200 chr3B 89.756 820 53 7 1 793 739876361 739875546 0.000000e+00 1020.0
11 TraesCS6B01G263200 chr3B 91.369 672 43 11 120 789 812568226 812568884 0.000000e+00 905.0
12 TraesCS6B01G263200 chr3B 80.628 382 41 10 433 789 641809770 641810143 9.910000e-67 265.0
13 TraesCS6B01G263200 chr5B 91.555 746 41 4 48 791 547397956 547398681 0.000000e+00 1009.0
14 TraesCS6B01G263200 chr5B 87.984 774 59 14 46 789 293547776 293547007 0.000000e+00 883.0
15 TraesCS6B01G263200 chr5B 86.008 779 78 15 22 791 339094275 339093519 0.000000e+00 806.0
16 TraesCS6B01G263200 chr5B 88.204 373 25 4 426 791 394757196 394756836 1.190000e-115 427.0
17 TraesCS6B01G263200 chr1B 89.070 796 65 6 1 789 396579897 396580677 0.000000e+00 968.0
18 TraesCS6B01G263200 chr7B 86.445 723 65 16 74 791 508655677 508656371 0.000000e+00 761.0
19 TraesCS6B01G263200 chr7B 80.370 270 39 6 520 789 110697058 110697313 4.740000e-45 193.0
20 TraesCS6B01G263200 chr7B 88.571 140 16 0 650 789 43568511 43568650 2.220000e-38 171.0
21 TraesCS6B01G263200 chr7B 91.346 104 9 0 1 104 730821706 730821603 4.840000e-30 143.0


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 TraesCS6B01G263200 chr6B 474176370 474181012 4642 True 8575.000000 8575 100.000000 1 4643 1 chr6B.!!$R2 4642
1 TraesCS6B01G263200 chr6B 701906413 701907191 778 False 998.000000 998 90.256000 33 789 1 chr6B.!!$F1 756
2 TraesCS6B01G263200 chr6B 47870060 47870805 745 True 911.000000 911 89.290000 71 791 1 chr6B.!!$R1 720
3 TraesCS6B01G263200 chr6A 442396235 442400054 3819 True 5566.000000 5566 92.949000 792 4643 1 chr6A.!!$R1 3851
4 TraesCS6B01G263200 chr6D 306708638 306712452 3814 True 1746.333333 2774 91.596333 788 4643 3 chr6D.!!$R1 3855
5 TraesCS6B01G263200 chr4B 562343753 562344554 801 True 1147.000000 1147 92.528000 1 801 1 chr4B.!!$R1 800
6 TraesCS6B01G263200 chr4B 116348862 116349510 648 False 902.000000 902 91.743000 22 673 1 chr4B.!!$F1 651
7 TraesCS6B01G263200 chr3B 739875546 739876361 815 True 1020.000000 1020 89.756000 1 793 1 chr3B.!!$R1 792
8 TraesCS6B01G263200 chr3B 812568226 812568884 658 False 905.000000 905 91.369000 120 789 1 chr3B.!!$F2 669
9 TraesCS6B01G263200 chr5B 547397956 547398681 725 False 1009.000000 1009 91.555000 48 791 1 chr5B.!!$F1 743
10 TraesCS6B01G263200 chr5B 293547007 293547776 769 True 883.000000 883 87.984000 46 789 1 chr5B.!!$R1 743
11 TraesCS6B01G263200 chr5B 339093519 339094275 756 True 806.000000 806 86.008000 22 791 1 chr5B.!!$R2 769
12 TraesCS6B01G263200 chr1B 396579897 396580677 780 False 968.000000 968 89.070000 1 789 1 chr1B.!!$F1 788
13 TraesCS6B01G263200 chr7B 508655677 508656371 694 False 761.000000 761 86.445000 74 791 1 chr7B.!!$F3 717

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
374 458 0.098200 CGTCGGAGCTTCACGTGATA 59.902 55.0 20.80 9.5 0.00 2.15 F
1071 1210 0.035820 GTGACCAATCCGCCCTTGTA 60.036 55.0 0.00 0.0 0.00 2.41 F
1851 2022 0.036010 CTGCAGGTACCCTTGACAGG 60.036 60.0 8.74 0.0 40.45 4.00 F
1852 2023 0.472925 TGCAGGTACCCTTGACAGGA 60.473 55.0 8.74 0.0 44.19 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1608 1777 1.010125 GCTTTTGCTCGACACGCAA 60.010 52.632 6.48 6.48 44.83 4.85 R
3052 3271 1.000955 ACGCCAAGAGTTACAGTCAGG 59.999 52.381 0.00 0.00 0.00 3.86 R
3522 3741 2.167075 GCCATCAACTTGGATTTCCTGG 59.833 50.000 0.00 0.00 39.25 4.45 R
3677 3896 7.961351 TGATGAGAAAACCACCAAAATTGTAT 58.039 30.769 0.00 0.00 0.00 2.29 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
230 314 1.148273 GCTATGGCCGTCATGGGAA 59.852 57.895 0.00 0.00 38.63 3.97
259 343 1.661463 TTGCTTCTCTCATGGGAGGT 58.339 50.000 22.52 0.00 41.69 3.85
374 458 0.098200 CGTCGGAGCTTCACGTGATA 59.902 55.000 20.80 9.50 0.00 2.15
565 657 9.645059 TTATTCATCAACTTGTTTGTGTCAAAA 57.355 25.926 0.00 0.00 36.49 2.44
684 811 2.938253 GCGCGCTGCATTATAGCA 59.062 55.556 26.67 0.00 45.45 3.49
686 813 1.933734 CGCGCTGCATTATAGCACA 59.066 52.632 5.56 0.00 41.18 4.57
720 847 2.890474 CTGACGGCCGCGCTAAAT 60.890 61.111 28.58 2.52 0.00 1.40
824 951 7.384115 TCTTTCCTGACAGTAATAAGTTGTTCG 59.616 37.037 0.93 0.00 0.00 3.95
836 963 9.155053 GTAATAAGTTGTTCGAGTTTCTTGTTG 57.845 33.333 11.44 0.00 0.00 3.33
846 973 2.166254 AGTTTCTTGTTGCAGTGTTGGG 59.834 45.455 0.00 0.00 0.00 4.12
903 1032 2.251872 AGGGGCATTCCTACCTACCTAA 59.748 50.000 0.00 0.00 34.92 2.69
934 1063 2.224548 ACTAAAGCGAAACCAAGGAGCT 60.225 45.455 0.00 0.00 40.20 4.09
956 1085 5.006165 GCTATGATTGTTTGACTTCTCTCCG 59.994 44.000 0.00 0.00 0.00 4.63
1032 1162 2.325364 ATCGTCCTCCTCCCCTCCA 61.325 63.158 0.00 0.00 0.00 3.86
1069 1208 2.046285 GGTGACCAATCCGCCCTTG 61.046 63.158 0.00 0.00 0.00 3.61
1071 1210 0.035820 GTGACCAATCCGCCCTTGTA 60.036 55.000 0.00 0.00 0.00 2.41
1099 1238 4.368808 GTGAATGCGTGCGTGCGT 62.369 61.111 3.11 0.00 37.81 5.24
1100 1239 4.367340 TGAATGCGTGCGTGCGTG 62.367 61.111 0.00 0.00 37.81 5.34
1101 1240 4.368808 GAATGCGTGCGTGCGTGT 62.369 61.111 0.00 0.00 37.81 4.49
1102 1241 4.664864 AATGCGTGCGTGCGTGTG 62.665 61.111 0.00 0.00 37.81 3.82
1107 1246 4.589700 GTGCGTGCGTGTGTGGTG 62.590 66.667 0.00 0.00 0.00 4.17
1109 1248 2.962786 GCGTGCGTGTGTGGTGTA 60.963 61.111 0.00 0.00 0.00 2.90
1110 1249 2.925352 CGTGCGTGTGTGGTGTAC 59.075 61.111 0.00 0.00 0.00 2.90
1111 1250 1.590525 CGTGCGTGTGTGGTGTACT 60.591 57.895 0.00 0.00 0.00 2.73
1112 1251 1.817217 CGTGCGTGTGTGGTGTACTG 61.817 60.000 0.00 0.00 0.00 2.74
1128 1267 2.088104 ACTGGTGTTCTCCTGACTCA 57.912 50.000 5.16 0.00 0.00 3.41
1315 1454 1.518903 GGCACCACCAACAGCTTCTC 61.519 60.000 0.00 0.00 38.86 2.87
1367 1506 2.442126 TCTTATCCCGAGCCTACTCTCA 59.558 50.000 0.00 0.00 41.09 3.27
1441 1598 2.202892 GAAGCATCCGGGTCCGTC 60.203 66.667 0.00 0.00 37.81 4.79
1442 1599 3.735037 GAAGCATCCGGGTCCGTCC 62.735 68.421 0.00 0.00 37.81 4.79
1449 1606 2.517875 CGGGTCCGTCCGTATCCT 60.518 66.667 0.55 0.00 44.60 3.24
1450 1607 2.842256 CGGGTCCGTCCGTATCCTG 61.842 68.421 0.55 0.00 44.60 3.86
1451 1608 2.496291 GGGTCCGTCCGTATCCTGG 61.496 68.421 0.00 0.00 37.00 4.45
1468 1631 2.354604 CCTGGTCTCTCTCCTTTTGCTC 60.355 54.545 0.00 0.00 0.00 4.26
1469 1632 2.301296 CTGGTCTCTCTCCTTTTGCTCA 59.699 50.000 0.00 0.00 0.00 4.26
1473 1636 2.700371 TCTCTCTCCTTTTGCTCACACA 59.300 45.455 0.00 0.00 0.00 3.72
1474 1637 3.134623 TCTCTCTCCTTTTGCTCACACAA 59.865 43.478 0.00 0.00 0.00 3.33
1475 1638 3.470709 TCTCTCCTTTTGCTCACACAAG 58.529 45.455 0.00 0.00 34.07 3.16
1508 1677 1.003718 ACAGCCTAACACCTTCGGC 60.004 57.895 0.00 0.00 38.31 5.54
1557 1726 1.336980 GGAGTGACCGAGTTCCAAGTC 60.337 57.143 0.00 0.00 0.00 3.01
1620 1789 1.510623 CAAGCATTGCGTGTCGAGC 60.511 57.895 15.30 0.00 40.39 5.03
1846 2017 1.078143 GCCTCTGCAGGTACCCTTG 60.078 63.158 15.13 2.01 42.74 3.61
1849 2020 0.976641 CTCTGCAGGTACCCTTGACA 59.023 55.000 15.13 3.53 0.00 3.58
1850 2021 0.976641 TCTGCAGGTACCCTTGACAG 59.023 55.000 15.13 12.46 0.00 3.51
1851 2022 0.036010 CTGCAGGTACCCTTGACAGG 60.036 60.000 8.74 0.00 40.45 4.00
1852 2023 0.472925 TGCAGGTACCCTTGACAGGA 60.473 55.000 8.74 0.00 44.19 3.86
1853 2024 0.912486 GCAGGTACCCTTGACAGGAT 59.088 55.000 8.74 0.00 44.19 3.24
1854 2025 2.116238 GCAGGTACCCTTGACAGGATA 58.884 52.381 8.74 0.00 44.19 2.59
1855 2026 2.706190 GCAGGTACCCTTGACAGGATAT 59.294 50.000 8.74 0.00 44.19 1.63
1856 2027 3.495100 GCAGGTACCCTTGACAGGATATG 60.495 52.174 8.74 0.00 44.19 1.78
1857 2028 2.706190 AGGTACCCTTGACAGGATATGC 59.294 50.000 8.74 0.00 44.19 3.14
1858 2029 2.224548 GGTACCCTTGACAGGATATGCC 60.225 54.545 0.00 0.00 44.19 4.40
1870 2046 1.476471 GGATATGCCTGCTCAGCTTGT 60.476 52.381 0.00 0.00 0.00 3.16
1907 2111 8.298854 TGGTGTTCAAATTATTCAGTCATCTTG 58.701 33.333 0.00 0.00 0.00 3.02
1912 2116 4.542662 ATTATTCAGTCATCTTGCGTGC 57.457 40.909 0.00 0.00 0.00 5.34
1913 2117 1.089920 ATTCAGTCATCTTGCGTGCC 58.910 50.000 0.00 0.00 0.00 5.01
1934 2138 3.003689 CCGGCATGTTTTGATGGTATCTC 59.996 47.826 0.00 0.00 0.00 2.75
1960 2164 5.181811 TCATCCACTGTTTATTGCTCTGTTG 59.818 40.000 0.00 0.00 0.00 3.33
1968 2172 7.013655 ACTGTTTATTGCTCTGTTGATCTGTTT 59.986 33.333 0.00 0.00 0.00 2.83
2038 2242 9.614792 GGATCAAGTGTAGTTATATTTGGTCTT 57.385 33.333 0.00 0.00 0.00 3.01
2085 2289 8.239038 AGTATCTACAGAAGCTGCTATTGTAA 57.761 34.615 19.90 14.00 34.37 2.41
2086 2290 8.696374 AGTATCTACAGAAGCTGCTATTGTAAA 58.304 33.333 19.90 12.25 34.37 2.01
2088 2292 8.970859 ATCTACAGAAGCTGCTATTGTAAATT 57.029 30.769 19.90 10.01 34.37 1.82
2090 2294 9.884636 TCTACAGAAGCTGCTATTGTAAATTAA 57.115 29.630 19.90 6.13 34.37 1.40
2092 2296 8.792830 ACAGAAGCTGCTATTGTAAATTAAGA 57.207 30.769 14.84 0.00 34.37 2.10
2136 2343 1.811778 TCTGAGGCCCATATCTGCTT 58.188 50.000 0.00 0.00 0.00 3.91
2308 2515 1.139058 GTGTCTGTGTCACAGGGAAGT 59.861 52.381 28.47 0.00 45.94 3.01
2387 2594 5.047847 GGTACTTTTCCTGAAGTTTTTGGC 58.952 41.667 0.00 0.00 40.24 4.52
2391 2599 4.817318 TTTCCTGAAGTTTTTGGCTTGT 57.183 36.364 0.00 0.00 0.00 3.16
2397 2605 3.923461 TGAAGTTTTTGGCTTGTTTCGTG 59.077 39.130 0.00 0.00 0.00 4.35
2408 2616 4.811024 GGCTTGTTTCGTGATCTGATGATA 59.189 41.667 0.00 0.00 32.19 2.15
2494 2703 5.473931 TGAGAAAACTGAGCTACTGATCAC 58.526 41.667 0.00 0.00 34.63 3.06
2579 2788 5.518848 AACAAACTGATGTGCTCAATCAA 57.481 34.783 0.00 0.00 32.81 2.57
2779 2989 5.197451 TGATGTGGTACTGGTTTTCACTTT 58.803 37.500 0.00 0.00 0.00 2.66
2786 2996 8.234546 GTGGTACTGGTTTTCACTTTATATGTG 58.765 37.037 0.00 0.00 36.82 3.21
2817 3034 6.458751 CGATTGATCCCAACCTGATAAACAAG 60.459 42.308 0.00 0.00 34.72 3.16
3002 3221 4.909305 CGTGTGCCACAAAGTTTACTATTG 59.091 41.667 0.00 0.00 33.40 1.90
3052 3271 1.077429 GTCTTGTCAGGGATGGGGC 60.077 63.158 0.00 0.00 0.00 5.80
3070 3289 1.443802 GCCTGACTGTAACTCTTGGC 58.556 55.000 0.00 0.00 0.00 4.52
3384 3603 8.554490 AGAAATGACACTAGTATAATGGACCT 57.446 34.615 0.00 0.00 0.00 3.85
3415 3634 2.995466 ATCAACGATTGCCACACAAG 57.005 45.000 0.00 0.00 42.87 3.16
3466 3685 7.985184 TGTAATATAGTTTTCAGCCGAGACAAT 59.015 33.333 0.00 0.00 0.00 2.71
3479 3698 4.379082 GCCGAGACAATTTATTTGGAACGT 60.379 41.667 0.00 0.00 39.80 3.99
3522 3741 5.245531 TGACCATTCTGTCATGTAACTTCC 58.754 41.667 0.00 0.00 40.22 3.46
3674 3893 9.743581 TTGATTTATACATCAGTGCCATCATAT 57.256 29.630 2.02 0.00 34.59 1.78
3873 4092 3.314307 TTCCTCATATGTCCGACCTCT 57.686 47.619 1.90 0.00 0.00 3.69
4138 4359 2.376956 GAAACGTGTTATTTGCGTGCA 58.623 42.857 0.00 0.00 38.92 4.57
4226 4450 6.251163 CACCATGTTTCAAAATATGTACTGCG 59.749 38.462 10.18 0.00 36.23 5.18
4357 4581 0.397957 GTTGTGGGTCCCCTTTTGGT 60.398 55.000 5.13 0.00 38.10 3.67
4426 4650 7.122650 GGACTGAAATCCATCCTGTGATTTTAA 59.877 37.037 0.00 0.00 38.77 1.52
4456 4680 4.336280 CACCGGATGAGAGGATATACTGA 58.664 47.826 9.46 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
294 378 1.071542 TGTGAGGAGGCACATCGAAAA 59.928 47.619 0.00 0.00 43.35 2.29
374 458 0.108804 CTAACCTCATCACGCACCGT 60.109 55.000 0.00 0.00 42.36 4.83
565 657 7.604545 TCATCAAAATGCAATGAACATGTGAAT 59.395 29.630 0.00 0.00 30.54 2.57
706 833 2.890474 CTGATTTAGCGCGGCCGT 60.890 61.111 28.70 9.89 36.67 5.68
824 951 3.438360 CCAACACTGCAACAAGAAACTC 58.562 45.455 0.00 0.00 0.00 3.01
836 963 1.675641 CTGCTACCCCCAACACTGC 60.676 63.158 0.00 0.00 0.00 4.40
846 973 0.453390 GTTGCTCAATGCTGCTACCC 59.547 55.000 0.00 0.00 43.37 3.69
903 1032 0.337428 TCGCTTTAGTAGGGGAGGGT 59.663 55.000 0.00 0.00 37.41 4.34
934 1063 4.870426 GCGGAGAGAAGTCAAACAATCATA 59.130 41.667 0.00 0.00 0.00 2.15
956 1085 2.301902 CTGTCTGCGCGAATTCTGGC 62.302 60.000 12.10 7.22 0.00 4.85
1069 1208 1.524391 GCATTCACGCGACGAAACTAC 60.524 52.381 15.93 3.04 0.00 2.73
1071 1210 1.491563 GCATTCACGCGACGAAACT 59.508 52.632 15.93 0.00 0.00 2.66
1096 1235 1.227438 ACCAGTACACCACACACGC 60.227 57.895 0.00 0.00 0.00 5.34
1097 1236 0.179094 ACACCAGTACACCACACACG 60.179 55.000 0.00 0.00 0.00 4.49
1099 1238 1.834896 AGAACACCAGTACACCACACA 59.165 47.619 0.00 0.00 0.00 3.72
1100 1239 2.480845 GAGAACACCAGTACACCACAC 58.519 52.381 0.00 0.00 0.00 3.82
1101 1240 1.414919 GGAGAACACCAGTACACCACA 59.585 52.381 0.00 0.00 0.00 4.17
1102 1241 1.692519 AGGAGAACACCAGTACACCAC 59.307 52.381 0.00 0.00 0.00 4.16
1103 1242 1.691976 CAGGAGAACACCAGTACACCA 59.308 52.381 0.00 0.00 0.00 4.17
1105 1244 2.628657 AGTCAGGAGAACACCAGTACAC 59.371 50.000 0.00 0.00 0.00 2.90
1106 1245 2.891580 GAGTCAGGAGAACACCAGTACA 59.108 50.000 0.00 0.00 0.00 2.90
1107 1246 2.891580 TGAGTCAGGAGAACACCAGTAC 59.108 50.000 0.00 0.00 0.00 2.73
1108 1247 3.238788 TGAGTCAGGAGAACACCAGTA 57.761 47.619 0.00 0.00 0.00 2.74
1109 1248 2.088104 TGAGTCAGGAGAACACCAGT 57.912 50.000 0.00 0.00 0.00 4.00
1110 1249 2.416566 CGATGAGTCAGGAGAACACCAG 60.417 54.545 0.00 0.00 0.00 4.00
1111 1250 1.546029 CGATGAGTCAGGAGAACACCA 59.454 52.381 0.00 0.00 0.00 4.17
1112 1251 1.134965 CCGATGAGTCAGGAGAACACC 60.135 57.143 0.00 0.00 0.00 4.16
1128 1267 2.112297 ACGCCACCAAACACCGAT 59.888 55.556 0.00 0.00 0.00 4.18
1220 1359 1.810532 GACCTTGACGCGGATCTCT 59.189 57.895 12.47 0.00 0.00 3.10
1352 1491 1.187087 AGTTTGAGAGTAGGCTCGGG 58.813 55.000 0.00 0.00 46.03 5.14
1367 1506 2.420022 CCTGCGATTCGGATCAAAGTTT 59.580 45.455 8.34 0.00 32.33 2.66
1441 1598 1.144093 AGGAGAGAGACCAGGATACGG 59.856 57.143 0.00 0.00 46.39 4.02
1442 1599 2.649531 AGGAGAGAGACCAGGATACG 57.350 55.000 0.00 0.00 46.39 3.06
1443 1600 4.682050 GCAAAAGGAGAGAGACCAGGATAC 60.682 50.000 0.00 0.00 0.00 2.24
1444 1601 3.452627 GCAAAAGGAGAGAGACCAGGATA 59.547 47.826 0.00 0.00 0.00 2.59
1445 1602 2.238395 GCAAAAGGAGAGAGACCAGGAT 59.762 50.000 0.00 0.00 0.00 3.24
1446 1603 1.625818 GCAAAAGGAGAGAGACCAGGA 59.374 52.381 0.00 0.00 0.00 3.86
1447 1604 1.627834 AGCAAAAGGAGAGAGACCAGG 59.372 52.381 0.00 0.00 0.00 4.45
1448 1605 2.301296 TGAGCAAAAGGAGAGAGACCAG 59.699 50.000 0.00 0.00 0.00 4.00
1449 1606 2.037772 GTGAGCAAAAGGAGAGAGACCA 59.962 50.000 0.00 0.00 0.00 4.02
1450 1607 2.037772 TGTGAGCAAAAGGAGAGAGACC 59.962 50.000 0.00 0.00 0.00 3.85
1451 1608 3.063485 GTGTGAGCAAAAGGAGAGAGAC 58.937 50.000 0.00 0.00 0.00 3.36
1468 1631 1.599071 AGCATTGTGACGACTTGTGTG 59.401 47.619 0.00 0.00 0.00 3.82
1469 1632 1.599071 CAGCATTGTGACGACTTGTGT 59.401 47.619 0.00 0.00 0.00 3.72
1508 1677 2.997315 TCTCGACCACCCTGCAGG 60.997 66.667 26.87 26.87 43.78 4.85
1608 1777 1.010125 GCTTTTGCTCGACACGCAA 60.010 52.632 6.48 6.48 44.83 4.85
1850 2021 1.236628 CAAGCTGAGCAGGCATATCC 58.763 55.000 7.39 0.00 0.00 2.59
1851 2022 1.964552 ACAAGCTGAGCAGGCATATC 58.035 50.000 7.39 0.00 0.00 1.63
1852 2023 3.565764 TTACAAGCTGAGCAGGCATAT 57.434 42.857 7.39 0.00 0.00 1.78
1853 2024 3.055167 TCTTTACAAGCTGAGCAGGCATA 60.055 43.478 7.39 0.00 0.00 3.14
1854 2025 2.089980 CTTTACAAGCTGAGCAGGCAT 58.910 47.619 7.39 0.00 0.00 4.40
1855 2026 1.072173 TCTTTACAAGCTGAGCAGGCA 59.928 47.619 7.39 0.00 0.00 4.75
1856 2027 1.813513 TCTTTACAAGCTGAGCAGGC 58.186 50.000 7.39 0.00 0.00 4.85
1857 2028 4.699257 AGAATTCTTTACAAGCTGAGCAGG 59.301 41.667 7.39 0.00 0.00 4.85
1858 2029 5.876612 AGAATTCTTTACAAGCTGAGCAG 57.123 39.130 7.39 0.51 0.00 4.24
1859 2030 5.048504 CCAAGAATTCTTTACAAGCTGAGCA 60.049 40.000 18.16 0.00 33.11 4.26
1860 2031 5.048434 ACCAAGAATTCTTTACAAGCTGAGC 60.048 40.000 18.16 0.00 33.11 4.26
1862 2033 5.827797 ACACCAAGAATTCTTTACAAGCTGA 59.172 36.000 18.16 0.00 33.11 4.26
1879 2081 8.517878 AGATGACTGAATAATTTGAACACCAAG 58.482 33.333 0.00 0.00 35.94 3.61
1912 2116 2.951642 AGATACCATCAAAACATGCCGG 59.048 45.455 0.00 0.00 0.00 6.13
1913 2117 3.627123 TGAGATACCATCAAAACATGCCG 59.373 43.478 0.00 0.00 0.00 5.69
1934 2138 5.356190 ACAGAGCAATAAACAGTGGATGATG 59.644 40.000 0.00 0.00 0.00 3.07
1968 2172 4.089105 CCGCACCAAGGCCTAAAA 57.911 55.556 5.16 0.00 0.00 1.52
2038 2242 2.036733 CACCGAAAGTCCTACAGTTCCA 59.963 50.000 0.00 0.00 0.00 3.53
2088 2292 7.174772 TGCAGCTCTTGATATGTGTTTTTCTTA 59.825 33.333 0.00 0.00 0.00 2.10
2090 2294 5.474532 TGCAGCTCTTGATATGTGTTTTTCT 59.525 36.000 0.00 0.00 0.00 2.52
2091 2295 5.702865 TGCAGCTCTTGATATGTGTTTTTC 58.297 37.500 0.00 0.00 0.00 2.29
2092 2296 5.710513 TGCAGCTCTTGATATGTGTTTTT 57.289 34.783 0.00 0.00 0.00 1.94
2109 2316 1.041447 ATGGGCCTCAGAATTGCAGC 61.041 55.000 4.53 0.00 0.00 5.25
2110 2317 2.353357 TATGGGCCTCAGAATTGCAG 57.647 50.000 4.53 0.00 0.00 4.41
2136 2343 2.500098 AGCACCTTGAGCGACCTAAATA 59.500 45.455 0.00 0.00 37.01 1.40
2387 2594 6.019237 CCACTATCATCAGATCACGAAACAAG 60.019 42.308 0.00 0.00 35.67 3.16
2391 2599 5.852282 TCCACTATCATCAGATCACGAAA 57.148 39.130 0.00 0.00 35.67 3.46
2397 2605 3.306364 CCCGGTTCCACTATCATCAGATC 60.306 52.174 0.00 0.00 35.67 2.75
2408 2616 4.658786 AGGGAGCCCGGTTCCACT 62.659 66.667 20.95 12.79 41.95 4.00
2459 2668 7.014038 AGCTCAGTTTTCTCAGTCAATTTGATT 59.986 33.333 1.78 0.00 0.00 2.57
2478 2687 5.574891 CTGTAAGTGATCAGTAGCTCAGT 57.425 43.478 2.79 0.00 0.00 3.41
2512 2721 5.468746 TGTACACCAAAGATGCAGTTAAGAC 59.531 40.000 0.00 0.00 0.00 3.01
2671 2881 2.388121 CAAAGCTTGCTTACTGTGCAC 58.612 47.619 10.75 10.75 40.40 4.57
2779 2989 7.068686 TGGGATCAATCGGTTAACACATATA 57.931 36.000 8.10 0.00 0.00 0.86
2786 2996 3.377172 CAGGTTGGGATCAATCGGTTAAC 59.623 47.826 0.00 0.00 38.93 2.01
2817 3034 8.230472 AGGATGAACAAAATGTCATTCCTATC 57.770 34.615 0.00 0.00 0.00 2.08
2957 3175 7.713942 ACACGGTTACTAGAAATGAAAAAGACT 59.286 33.333 0.00 0.00 0.00 3.24
3002 3221 4.699257 AGAGGAGAAAATGCATCTGAACAC 59.301 41.667 0.00 0.00 0.00 3.32
3052 3271 1.000955 ACGCCAAGAGTTACAGTCAGG 59.999 52.381 0.00 0.00 0.00 3.86
3070 3289 3.701532 TCTGGTTTTGCTTTTGGTACG 57.298 42.857 0.00 0.00 0.00 3.67
3286 3505 6.485313 ACACCAAGACGAATAATGAAGTTCAA 59.515 34.615 10.14 0.00 0.00 2.69
3384 3603 4.725359 CAATCGTTGATTCTGCAATGTCA 58.275 39.130 0.00 0.00 36.43 3.58
3415 3634 9.188588 CACATGCCACATTTATTGAATCTATTC 57.811 33.333 0.00 0.00 37.31 1.75
3466 3685 5.856156 TGAGGTCTACACGTTCCAAATAAA 58.144 37.500 0.00 0.00 0.00 1.40
3479 3698 5.822519 GGTCAATGCATATTTGAGGTCTACA 59.177 40.000 0.00 0.00 0.00 2.74
3522 3741 2.167075 GCCATCAACTTGGATTTCCTGG 59.833 50.000 0.00 0.00 39.25 4.45
3674 3893 8.698973 TGAGAAAACCACCAAAATTGTATAGA 57.301 30.769 0.00 0.00 0.00 1.98
3677 3896 7.961351 TGATGAGAAAACCACCAAAATTGTAT 58.039 30.769 0.00 0.00 0.00 2.29
3806 4025 9.167311 GATTTGTAATCTCCTCAACAACTACAT 57.833 33.333 0.00 0.00 31.92 2.29
3808 4027 8.547967 TGATTTGTAATCTCCTCAACAACTAC 57.452 34.615 0.00 0.00 31.92 2.73
4079 4300 6.653989 AGAATTCTTCACGAAGGACCATAAT 58.346 36.000 0.88 0.00 38.88 1.28
4080 4301 6.049955 AGAATTCTTCACGAAGGACCATAA 57.950 37.500 0.88 0.00 38.88 1.90
4123 4344 2.993545 TGAAGTGCACGCAAATAACAC 58.006 42.857 12.01 0.00 0.00 3.32
4426 4650 1.145598 CTCATCCGGTGCTGCTCAT 59.854 57.895 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.