Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A14 F1 I1 R1	770	68.5	3470224	91.7%	3182195	103.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,996,372	C→T	302 (TAG→TAA)	insD1 ←	IS2 transposase TnpB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,996,372	0	C	T	100.0%	133.7 / NA	42	302 (TAG→TAA)	insD1	IS2 transposase TnpB
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (20/22); total (20/22)

ATAAATAATCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGC  >  NC_000913/2996240‑2996483

ataaataaTCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATAtt                                                                                                           >  2:676846/1‑139 (MQ=255)

  aaataaTCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATCGTTTATTGGATTTGCCCTTATATTTc                                                                                                         >  2:1101011/1‑139 (MQ=255)

      aatCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCGTTCTCGATAAAAGTGACAACCACCGAGTAAACAGATCAACGGAAGTAAATGCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGa                                                                                                     <  1:1101011/139‑1 (MQ=255)

       atCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGAc                                                                                                    >  1:247630/1‑139 (MQ=255)

         cccTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACAt                                                                                                  <  1:805786/139‑1 (MQ=255)

                    tCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                       <  2:247630/139‑1 (MQ=255)

                     cAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACtt                                                                                      >  2:1200563/1‑139 (MQ=255)

                         aaCCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                  <  1:1200563/139‑1 (MQ=255)

                         aaCCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                  <  2:764681/139‑1 (MQ=255)

                          aCCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAccc                                                                                 >  2:1187792/1‑139 (MQ=255)

                          aCCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAccc                                                                                 >  2:92330/1‑139 (MQ=255)

                              tataAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTa                                                                             >  2:607279/1‑139 (MQ=255)

                               ataAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATATGTTATCACTTAACCCATTAc                                                                            >  2:475743/1‑139 (MQ=255)

                                    aaaaCCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGcc                                                                       <  2:1469379/139‑1 (MQ=255)

                                      aaCCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGtt                                                                                             >  1:565864/1‑115 (MQ=255)

                                      aaCCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGtt                                                                                             <  2:565864/115‑1 (MQ=255)

                                                           tctcGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                     <  1:1260497/118‑1 (MQ=255)

                                                           tctcGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                     >  2:1260497/1‑118 (MQ=255)

                                                           tctcGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTgg                                                >  1:3086/1‑139 (MQ=255)

                                                                  aaaaGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcgagcga                                         >  2:881907/1‑139 (MQ=255)

                                                                    aaGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATa                                       <  1:92330/139‑1 (MQ=255)

                                                                            aCCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcg                               <  2:511713/139‑1 (MQ=255)

                                                                              cACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCa                             <  1:475743/139‑1 (MQ=255)

                                                                                        aCAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGcc                                                                       >  2:221957/1‑87 (MQ=255)

                                                                                        aCAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGcc                                                                       <  1:221957/87‑1 (MQ=255)

                                                                                           gATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                <  1:607279/139‑1 (MQ=255)

                                                                                           gATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                <  2:3086/139‑1 (MQ=255)

                                                                                             tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                       >  1:1541117/1‑66 (MQ=255)

                                                                                             tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                       <  2:1541117/66‑1 (MQ=255)

                                                                                             tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCAt              >  2:963106/1‑139 (MQ=255)

                                                                                               aaTGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                     <  2:280783/82‑1 (MQ=255)

                                                                                               aaTGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                     >  1:280783/1‑82 (MQ=255)

                                                                                               aaTGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGa                    <  2:1400644/131‑1 (MQ=255)

                                                                                               aaTGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGa                    >  1:1400644/1‑131 (MQ=255)

                                                                                                 tGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAg                                 >  1:1072250/1‑116 (MQ=255)

                                                                                                 tGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAg                                 <  2:1072250/116‑1 (MQ=255)

                                                                                                     aGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTtata      <  1:881907/139‑1 (MQ=255)

                                                                                                      gTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAg                                 <  1:348804/111‑1 (MQ=255)

                                                                                                      gTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAg                                 >  2:348804/1‑111 (MQ=255)

                                                                                                         aaTTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGc  <  1:963106/139‑1 (MQ=255)

                                                                                                           ttCCAATTGTTTATTGGATTTGCCCTTATATTTCCa                                                                                                       >  2:256683/1‑36 (MQ=255)

                                                                                                           ttCCAATTGTTTATTGGATTTGCCCTTATATTTCCa                                                                                                       <  1:256683/36‑1 (MQ=255)

ATAAATAATCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGC  >  NC_000913/2996240‑2996483

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A