CLUSTAL W format pairwise alignment

ecoli_16S_ --AAATTGAAGAGTTTGATCATGGCTCAGATTGAACGCTGGCGGCAGGCCTAACACATGC
cdiff_16S_ TTTTATTTGAGAGTTTGATCCTGGCTCAGGATGAACGCTGGCGGCGTGCCTAACACATGC
               ***  *********** ********  **************  *************

ecoli_16S_ AAGTCGAACGGTAACAGGAAGAAGCTTGCTTCTTTGCTGACGAGTGGCGGACGGGTGAGT
cdiff_16S_ AAGTTGA----------------GCGATTTACTTCGGTAAAGAGCGGCGGACGGGTGAGT
           **** **                **    * *** * * * *** ***************

ecoli_16S_ AATGTCTGGG-AAACTGCCTGATGGAGGGGGATAACTACTGGAAACGGTAGCTAATACCG
cdiff_16S_ AACGCGTGGGTAACCTACCCTGTACACACGGATAACATACCGAAAGGTATGCTAATACGG
           ** *  **** ** ** **   *  *   *******     **** *   ******** *

ecoli_16S_ CATAAC--GTCGCAAGACCAAAGAGGGGGACCTTCGGGCCTCTTGCCATCGGATGTGCCC
cdiff_16S_ GATAATATATTTGAGAGGCATCTCTTAAATATCAAAGGTGAGCCAGTACAGGATGGACCC
            ****    *   *    **                **         *  *****  ***

ecoli_16S_ AGATGGGATTAGCTAGTAGGTGGGGTAACGGCTCACCTAGGCGACGATCCCTAGCTGGTC
cdiff_16S_ GCGTCTGATTAGCTAGTTGGTAAGGTAACGGCTTACCAAGGCGACGATCAGTAGCCGACC
              *  *********** ***  ********** *** ***********  **** *  *

ecoli_16S_ TGAGAGGATGACCAGCCACACTGGAACTGAGACACGGTCCAGACTCCTACGGGAGGCAGC
cdiff_16S_ TGAGAGGGTGATCGGCCACATTGGAACTGAGACACGGTCCAAACTCCTACGGGAGGCAGC
           ******* *** * ****** ******************** ******************

ecoli_16S_ AGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCCATGCCGCGTGTATGAAGAA
cdiff_16S_ AGTGGGGAATATTGCACAATGGGCGAAAGCCTGATGCAGCAACGCCGCGTGAGTGATGAA
           ************************* ************** * ********  *** ***

ecoli_16S_ GGCCTTCGGGTTGTAAAGTACTTTCAGCGGGGAGGAAGGGAGTAAAGTTAATACCTTTGC
cdiff_16S_ GGCCTTCGGGTCGTAAAACTCTGTCCTCAAGG------------AAGATAATGACGGTAC
           *********** *****   ** **  *  **            *** ****  *  * *

ecoli_16S_ TCATTGACGTTACCCGCAGAAGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATA
cdiff_16S_ T-------------TGAGGAGGAAGCCCCGGCTAACTACGTGCCAGCAGCCGCGGTAATA
           *              *  ** ***** ********** **********************

ecoli_16S_ CGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTA
cdiff_16S_ CGTAGGGGGCTAGCGTTATCCGGATTTACTGGGCGTAAAGGGTGCGTAGGCGGTCTTTCA
           ** **** ** *******  **** *************** *  ** ******* * * *

ecoli_16S_ AGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAGCTTGA
cdiff_16S_ AGTCAGGAGTGAAAGGCTACGGCTCAACCGTAGTA-AGCTCTTGAAACTGGGAGACTTGA
           ******  ******  *   *********   * *  **   *** ***** *  *****

ecoli_16S_ GTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTAGAGATCTGGAGGA
cdiff_16S_ GTGCAGGAGAGGAGAGTGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGA
           **   * ***** * ** *******  ********************** **  ******

ecoli_16S_ ATACCGGTGGCGAAGGCGGCCCCCTGGACGAAGACTGACGCTCAGGTGCGAAAGCGTGGG
cdiff_16S_ ACACCAGTTGCGAAGGCGGCTCTCTGGACTGTAACTGACGCTGAGGCACGAAAGCGTGGG
           * *** ** *********** * ******    ********* ***  ************

ecoli_16S_ GAGCAAACAGGATTAGATACCCTGGTAGTCCACGCCGTAAACGATGTCGACTTGGAGGTT
cdiff_16S_ GAGCAAACAGGATTAGATACCCTGGTAGTCCACGCTGTAAACGATGAGTACTAGGTG-TC
           *********************************** **********   *** ** * * 

ecoli_16S_ GTGCCCTTGAGGCGTGGCTTCCGGAGCTAACGCGTTAAGTCGACCGCCTGGGGAGTACGG
cdiff_16S_ GGGGGTTACCCCCTTCGGTGCCGCAGCTAACGCATTAAGTACTCCGCCTGGGAAGTACGC
           * *   *     * * * * *** ********* ******   ********* ****** 

ecoli_16S_ CCGCAAGGTTAAAACTCAAATGAATTGACGGGGGCCCGCACAAGCGGTGGAGCATGTGGT
cdiff_16S_ TCGCAAGAGTGAAACTCAAAGGAATTGACGGGGACCCGCACAAGTAGCGGAGCATGTGGT
            ******  * ********* ************ **********  * ************

ecoli_16S_ TTAATTCGATGCAACGCGAAGAACCTTACCTGGTCTTGACATC-CACGGAAGTTTTCAGA
cdiff_16S_ TTAATTCGAAGCAACGCGAAGAACCTTACCTAAGCTTGACATCCCAATGACATCTCCTTA
           ********* *********************   ********* **  **  * * *  *

ecoli_16S_ GATGAGAATGTGCCTTCGGGAACCGT-GAGACAGGTGCTGCATGGCTGTCGTCAGCTCGT
cdiff_16S_ ATCGGAGAGTTCCCTTCGGGGACATTGGTGACAGGTGGTGCATGGTTGTCGTCAGCTCGT
              *   *  * ******** **  * * ******** ******* **************

ecoli_16S_ GTTGTGAAATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTATCCTTTGTTGCCAGCG
cdiff_16S_ GTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTGTCTTTAGTTGCCATCA
           ** **** *********************************** ** ** ******* * 

ecoli_16S_ GTCCGGCCGGGAACTCAAAGGAGACTGCCAGTGATAAACTGGAGGAAGGTGGGGATGACG
cdiff_16S_ TTA-AGTTGGGCACTCTAGAGAGACTGCCAGGGATAACCTGGAGGAAGGTGGGGATGACG
            *   *  *** **** *  *********** ***** **********************

ecoli_16S_ TCAAGTCATCATGGCCCTTACGACCAGGGCTACACACGTGCTACAATGGCGCATACAAAG
cdiff_16S_ TCAAATCATCATGCCCCTTATGCTTAGGGCTACACACGTGCTACAATGGGTAGTACAGAG
           **** ******** ****** *   ************************    **** **

ecoli_16S_ AGAAGCGACCTCGCGAGAGCAAGCGGACCTCATAAAGTGCGTCGTAGTCCGGATTGGAGT
cdiff_16S_ GGTTGCCAAGCCGTAAGGTGGAGCTAATCCCTTAAAGCTACTCTCAGTTCGGATTGTAGG
            *  ** *   **  **    ***  * * * *****    **  *** ******* ** 

ecoli_16S_ CTGCAACTCGACTCCATGAAGTCGGAATCGCTAGTAATCGTGGATCAGAATGCCACGGTG
cdiff_16S_ CTGAAACTCGCCTACATGAAGCTGGAGTTACTAGTAATCGCAGATCAGAATGCTGCGGTG
           *** ****** ** *******  *** *  **********  ***********  *****

ecoli_16S_ AATACGTTCCCGGGCCTTGTACACACCGCCCGTCACACCATGGGAGTGGGTTGCAAAAGA
cdiff_16S_ AATGCGTTCCCGGGTCTTGTACACACCGCCCGTCACACCACGGGAGTTGGAGACGCCCGA
           *** ********** ************************* ****** **   *    **

ecoli_16S_ AGTAGGTAGCTTAACCTTCGGGAGGGCGCTTACCACTTTGTGATTCATGACTGGGGTGAA
cdiff_16S_ AGCCGATTATCTAACCTTTTGGAAGAAGTCGTCGAAGGTGGAATCAATAACTGGGGTGAA
           **  * *    *******  *** *  *    * *   **  **  ** ***********

ecoli_16S_ GTCGTAACAAGGTAACCGTAGGGGAACCTGCGGTTGGATCACCTCCTTA-
cdiff_16S_ GTCGTAACAAGGTAGCCGTATCGGAAGGTGCGGCTGGATCACCTCCTTTC
           ************** *****  ****  ***** **************  

