Sequences Alignment: from Screen (cut & paste)... >NF_KB0001 ccttccatccacaagcccagaacattttgtttcaatatggctttaccacagttgggattt cccaacctgaccagatgtgctagaagtttcccaaaggtgcgggaagggactggaagcccc >NF_KB0002 ctgcatccggagtacttcaagaactgctgatatcgagcttgctacaagggactttccgct ggggactttccagggaggcgtggcctgggcgggactggggagtggcgagccctcagatgc >NF_KB0003 ctctcagtttctgttttactacctctgtcacccaagagttggcatctcaacagaggggac tttccgagagccatctggcagttgcttaagatcagaagtgaagtctgccagttcctccta >NF_KB0004 tctcagtttctgtttttactacctctgtcacccaagagttggcatctcaacagaggggac tttccgagaggccatctggcagttgcttaagatcagaagtgaagtctgccagttcctccc >NF_KB0005 cagcagatgatgttcccttgtgtcctgtgggctttgatgaaactatgacatcagcgggac ttcccagaggccactgaccactttagattaaaagtcgaccctgaccagtgctctgccagc >NF_KB0006 ttcccaactctcaagctgctctgccttcagccacttcctccaagaactcaaacagggggc tttccctcctcaatatcatgtctccccccttatgcacccagctttcagaagcaccccccc >NF_KB0007 ccctgggggcggggccgtcgccttccttccggactcgggatcgatctggaactccgggaa tttccctggcccgggggctccgccctttccagccccaaccatgcataaaaggggttcgcg >NF_KB0008 ccccagaggcggggccatcgccttccttccgaactcgggatcgatctggagctccgggaa tttccctggcccgggactccggctttccagccccaaccatgcataaaaggggttcgccgt >NF_KB0009 ttagaaactactaaaatgtaaatgacataggaaaactgaaagggagaagtgaaagtggga aattcctctgaatagagagaggaccatctcatataaataggccatacccacggagaaagg >NF_KB0010 gtgctgggtgagaccactgccaagaagtgcttgctcaccctaccttcaacggcaggggaa tctccctctccttttatgggcgtagtgaagaaaggattcataaatgaagttcaatccttc >NF_KB0011 gtgagaccactgccaagaagtgcttgctcaccctaccttcaacggcaggggaatctccct ctccttttatgggcgtagtgaagaaaggattcataaatgaagttcaatccttctcatcaa >NF_KB0012 cgttaattgcatgaattagagctatcacctaagtgtgggctaatgtaacaaagagggatt tcacctacatccattcagtcagtctttgggggtttaaagaaattccaaagagtcatcaga >NF_KB0013 atgtaacaaagagggatttcacctacatccattcagtcagtctttgggggtttaaagaaa ttccaaagagtcatcagaagaggaaaaatgaaggtaatgttttttcagactggtaaagtc >NF_KB0014 atcagccccacccgctctggccccaccctcaccctccaacaaagatttatcaaatgtggg attttcccatgagtctcaatattagagtctcaacccccaataaatataggactggagatg >NF_KB0015 ctaggcctcagcctttcctgcctttgactgaaacagcagtatcttctaagccctgggggc ttccccgggccccagccccgacctagaacccgcccgctgcctgccacgctgccactgccg >NF_KB0016 gcgttcattgtatgaattaaaactgccacctaagtgtgggctaacccgaccaagagggat ttcacctaaatccattcagtcagtgtatgggggtttaaagaaattccagagagtcatcag >NF_KB0017 tgtgaataaagagtagagtggagtccagggagacttctttggtagtcttgcacaggaaat gacatggtgggactttccccagggaccaagcccagcactggggttttcatgaccccagtt >NF_KB0018 tgattttggtgccaaaacaaactcccattgacgtcaatggggtggagacttggaaatccc cgtgagtcaaaccgctatccacgcccattgatgtactgccaaaaccgcatcaccatggta >NF_KB0019 cccgagagctgcatccggagtacttcaagaactgctgatatcgagcttgctacaagggac tttccgctggggactttccagggaggcgtggcctgggcgggactggggagtggcgagccc >NF_KB0020 ccggagtacttcaagaactgctgatatcgagcttgctacaagggactttccgctggggac tttccagggaggcgtggcctgggcgggactggggagtggcgagccctcagatgctgcata >NF_KB0021 gaactgctgatatcgagcttgctacaagggactttccgctggggactttccagggaggcg tggcctgggcgggactggggagtggcgagccctcagatgctgcatataagcagctgcttt >NF_KB0022 acgacagcacagggttcaggcaaagtcttagtcgccaggcagtgaggtcaggggtgggga agcccagggctggggattccccatctccacagtttcacttctgcacctaacctgggtcag >NF_KB0023 aggcaaagtcttagtcgccaggcagtgaggtcaggggtggggaagcccagggctggggat tccccatctccacagtttcacttctgcacctaacctgggtcaggtccttctgtccggaca >NF_KB0024 aggcaaagtcttagtcgccaggcagtgaggtcaggggtggggaagcccagggctggggat tccccatctccacagtttcacttctgcacctaacctgggtcaggtccttctgtccggaca >NF_KB0025 ggttgctgactaattgagatgcatgctttgcatacttctgcctgctggggagcctgggga ctttccacaccctaactgacacacattccacagctggttctttccgcctcagaaggtacc >NF_KB0026 acacctcgtaataaccttaatccccgtagttggcccgctgccctggtgtaccaggaaagt cccgctcccaccactgtggtacttcccagagacgcccaggccgaagttcagatgactaac >NF_KB0027 cccgtagttggcccgctgccctggtgtaccaggaaagtcccgctcccaccactgtggtac ttcccagagacgcccaggccgaagttcagatgactaactcaggggcgcagcttgcgggcg >NF_KB0028 gaagtgtgatgactcaggtttgccctgaggggatgggccatcagttgcaaatcgtggaat ttcctctgacataatgaaaagatgagggtgcataagttctctagtagggtgatgatataa >NF_KB0029 gaagtgtgatgactcaggtttgccctgaggggatgggccatcagttgcaaatcgtggaat ttcctctgacataatgaaaagatgagggtgcataagttctctagtagggtgatgatataa >NF_KB0030 accaccggcatccaggaacttgtcttagaccagtttgtaggggaaatgacctgcagggac tttccccagggaccacatccagcttttcttccctcccaagagaccagcaaggctcactat >NF_KB0031 accaccggcatccaggaacttgtcttagaccagtttgtaggggaaatgacctgcagggac tttccccagggaccacatccagcttttcttccctcccaagagaccagcaaggctcactat >NF_KB0032 acacccacacgcacatgcagagggacacgcacacgcacacaaacacacacacaaggggaa gtccctggtactgggaataaacaagcaccagatcaattttggggccaagatttctacaga >NF_KB0033 atgtattcgtacacacacacacacacacgcacacgcacacaaacacacacacaaggggaa gtccctggtactgggaataaacaagcaccagatcaattttggggccaagatttctacaga >NF_KB0034 ggtgggggactccgacgcccactcgcacccgccacctcgggggccgcgtgctgtggggac gtcccctcccgccagcgtcgacacgggctggcgtagggcctgcgtcagctgcagcccgat >NF_KB0035 tgggggagcctccggcgcccactcgcacccgccacctcgggggccgcgtgctgtggggac gtcccctcccgccagcgtcggacgcgggctggcgtagggctgcgtcagctgcagcccgtg >NF_KB0036 tgactaattgagatgcatgctttgcatacttctgcctgctggggagcctggggactttcc acaccctaactgacacacattccacagctggttctttccgcctcagaaggtacctaacca >NF_KB0037 agccccacccgctctggccccaccctcaccctccaacaaagatttatcaaatgtgggatt ttcccatgagtctcaatattagagtctcaacccccaataaatataggactggagatgtct >NF_KB0038 gcaggctccccagatctgggttggcaattcactcctccccctttctgggaagtccgggtt ttccccaaccccccaattcatggcatattctcgcgtctagccttgattttccccacccca >NF_KB0039 aggcaaagtcttggttgccaagcggtgaggtcaggggtggggaagcccagggctggggat tccccatctcctcagtttcacttctgcacctaacctgggtcaggtccttctgccgggaca from File:
Dinucleotide property Twist (Calculated by Sklenar, and averaged by Ponomarenko) Rise (Calculated by Sklenar, and averaged by Ponomarenko) Bend (Calculated by Sklenar, and averaged by Ponomarenko) Tip (Calculated by Sklenar, and averaged by Ponomarenko) Inclination (Calculated by Sklenar, and averaged by Ponomarenko) Major groove width (Calculated by Sklenar, and averaged by Ponomarenko) Major groove depth (Calculated by Sklenar, and averaged by Ponomarenko) Minor groove width (Calculated by Sklenar, and averaged by Ponomarenko) Minor groove depth (Calculated by Sklenar, and averaged by Ponomarenko) Roll (Averaged for X-rays) Twist (Averaged for X-rays) Tilt (Averaged for X-rays) Slide (Averaged for X-rays) Roll (Averaged for X-rays in DNA/protein complex) Twist (Averaged for X-rays in DNA/protein complex) Tilt (Averaged for X-rays in DNA/protein complex) Slide (Averaged for X-rays in DNA/protein complex) Twist (Regressed for X-rays) Wedge (Regressed for X-rays) Regresson (Regressed for X-rays) Persistence length (Experimental) Melting temperature (Experimental) Probability to be contacting with a nucleosome core (Experimental) Mobility to bend towords major groove (Experimental) Mobility to bend towords minor groove (Experimental) Twist (Averaged for the X-ray centers) Tilt (Averaged for the X-ray centers) Roll (Averaged for the X-ray centers) Slide (Averaged for the X-ray centers) Propeller (Averaged for the X-ray centers) Minor groove size (Averaged for the X-ray centers) Minor groove dist (Averaged for the X-ray centers) Major groove size (Averaged for the X-ray centers) Major groove dist (Averaged for the X-ray centers) Clash strength (Averaged for the X-ray centers) Enthalpy change Entropy change Free energy change
Output parameters setup:
Type of output: Significant pairs (*.gif) Matrix color diagram (*.gif) ASCII text file HTML table
Significance level: 95% 99% 99.9% 99.99%
Widow size:
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