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
A8 F1 I2 R1	765	53.2	2691310	93.4%	2513683	103.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,308,040	C→T	295 (TAG→TAA)	nlpI ←	lipoprotein involved in osmotic sensitivity and filamentation

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,308,040	0	C	T	100.0%	182.7 / NA	58	295 (TAG→TAA)	nlpI	lipoprotein involved in osmotic sensitivity and filamentation
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (30/28); total (30/28)

TCATCATGAAATTGATCAGCAATTTTCATTGAAAAGTGTGAACCGGCTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGCTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACGTTGTTGGCAACCGCCAGTTTGAACAGTGCCGTGGCGCT  >  NC_000913/3307905‑3308171

tcatcaTGAAATTGATCAGCAATTTTCATTGAAAAGTGTGAACCGGCTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTAt                                                                                                                                  >  2:708753/1‑139 (MQ=255)

tcatcaTGAAATTGATCAGCAATTTTCATTGAAAAGTGTGAACCGGCTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTAt                                                                                                                                  >  2:863669/1‑139 (MQ=255)

  atcatGAAATTGATCAGCAATTTTCATTGAAAAGTGTGAACCGGCTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTg                                                                                                                                >  1:756639/1‑139 (MQ=255)

   tcatGAAATTGATCAGCAATTTTCATTGAAAAGTGTGAACCGGCTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGc                                                                                                                               <  2:203104/139‑1 (MQ=255)

                  gCAATTTTCATTGAAAAGTGTGAACCGGCTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGcc                                                                                                                <  2:162410/139‑1 (MQ=255)

                     aTTTTCATTGAAAAGTGTGAACCGGCTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAgg                                                                                                             >  1:931125/1‑139 (MQ=255)

                      ttttCATTGAAAAGTGTGAACCGGCTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCACAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGt                                                                                                            <  1:291006/139‑1 (MQ=255)

                      ttttCATTGAAAAGTGTGAACCGGCTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGt                                                                                                            <  2:931125/139‑1 (MQ=255)

                             tGAAAAGTGTGAACCGGCTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTg                                                                                                     >  1:1223447/1‑139 (MQ=255)

                                 aaGTGTGAACCGGCTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTcc                                                                                                 <  2:793930/139‑1 (MQ=255)

                                              cTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCg                                                                                    >  2:133658/1‑139 (MQ=255)

                                              cTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCg                                                                                    <  2:923415/139‑1 (MQ=255)

                                                        gtgtATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCcaa                                                                          >  1:523064/1‑139 (MQ=255)

                                                          gtATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCcaaca                                                                        <  1:863669/139‑1 (MQ=255)

                                                               aaCGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCg                                                                   >  2:383733/1‑139 (MQ=255)

                                                                  gAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTAt                                                                <  2:1223447/139‑1 (MQ=255)

                                                                     caacaacGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATaa                                                                                <  1:501998/120‑1 (MQ=255)

                                                                     caacaacGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATaa                                                                                >  2:501998/1‑120 (MQ=255)

                                                                     caacaacGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCgg                                                             >  2:294628/1‑139 (MQ=255)

                                                                     caacaacGCCCTCACACGATAAGGAGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGCCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCgg                                                             >  2:883068/1‑139 (MQ=255)

                                                                       acaacGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTg                                                           <  1:278473/139‑1 (MQ=255)

                                                                            gCCCTCACCCGTTAAGGTGATTGCAATCAAAAAAGAATACGCGCTGATGTGTGCGACAGTTATTGCTGGTCCGATTCTGCCATGTCATTTTGGATCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGATGCTcaa                                                      >  1:173235/1‑139 (MQ=255)

                                                                            gCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTcaa                                                      <  1:133658/139‑1 (MQ=255)

                                                                             cccTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTcaac                                                     <  2:523064/139‑1 (MQ=255)

                                                                                tCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTAt                                                                >  2:948428/1‑125 (MQ=255)

                                                                                tCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTAt                                                                <  1:948428/125‑1 (MQ=255)

                                                                                       ttAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGa                                           >  2:38101/1‑139 (MQ=255)

                                                                                       ttAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGa                                           >  2:908861/1‑139 (MQ=255)

                                                                                        tAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGt                                                                                                                           <  2:700667/58‑1 (MQ=255)

                                                                                        tAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGt                                                                                                                           >  1:700667/1‑58 (MQ=255)

                                                                                        tAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGaa                                          <  1:294628/139‑1 (MQ=255)

                                                                                              gATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTACAACAATGCGTATCGGTGCTCAACAAAGTTATGAACgttgt                                    >  2:806015/1‑139 (MQ=255)

                                                                                                tGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAg                                                                                                              <  2:950757/63‑1 (MQ=255)

                                                                                                tGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAg                                                                                                              >  1:950757/1‑63 (MQ=255)

                                                                                                tGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACGttgttg                                  >  1:915733/1‑139 (MQ=255)

                                                                                                 ggCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCt                                                                                                       <  2:1319024/69‑1 (MQ=255)

                                                                                                 ggCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCt                                                                                                       >  1:1319024/1‑69 (MQ=255)

                                                                                                       cAAAAAAGATTACGGGCTGAGGTGTACGTCAGTTATTGCTGTGCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAAAGCGTATCGGTGCTCAACAAAGTTATGAACGTTGTTGGCAAcgg                           <  2:808238/139‑3 (MQ=255)

                                                                                                         aaaaaGATTACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACGTTGTTGGCAACCGcc                         >  1:1016946/1‑139 (MQ=255)

                                                                                                                ttACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACGTTGTTGGCAACCGCCAGTTTGa                  >  1:180928/1‑139 (MQ=255)

                                                                                                                 tACGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACGTTGTTGGCAACCGCCAGTTTGaa                 >  1:84009/1‑139 (MQ=255)

                                                                                                                   cGGGCTGATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACGTTGTTGGCAACCGCCAGTTTGaaaa               <  2:173235/139‑3 (MQ=255)

                                                                                                                         gATGTGTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACGTTGTTGGCAACCGCCAGTTTGAACAGTGCCg         <  1:708753/139‑1 (MQ=255)

                                                                                                                           tgtgTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTcc                                                                                                 >  2:104254/1‑49 (MQ=255)

                                                                                                                           tgtgTACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTcc                                                                                                 <  1:104254/49‑1 (MQ=255)

                                                                                                                              gtACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCg                                                                                    <  1:258029/59‑1 (MQ=255)

                                                                                                                              gtACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCg                                                                                    >  2:258029/1‑59 (MQ=255)

                                                                                                                              gtACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACGTTGTTGGCAACCGCCAGTTTGAACAGTGCCGTGgcg    <  1:908861/139‑1 (MQ=255)

                                                                                                                               tACGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACGTTGTTGGCAACCGCCAGTTTGAACAGTGCCGTGgcgc   <  2:756639/139‑1 (MQ=255)

                                                                                                                                aCGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCg                                                                                    <  2:1105964/57‑1 (MQ=255)

                                                                                                                                aCGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCg                                                                                    >  1:1105964/1‑57 (MQ=255)

                                                                                                                                aCGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACGTTGTTGGCAACCGCCAGTTTGAACAGTGCCGTGGCGCt  >  2:328397/1‑139 (MQ=255)

                                                                                                                                 cGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGAt                                                                                  >  1:945188/1‑58 (MQ=255)

                                                                                                                                 cGTCAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGAt                                                                                  <  2:945188/58‑1 (MQ=255)

                                                                                                                                    cAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGaa                                          <  1:879034/95‑1 (MQ=255)

                                                                                                                                    cAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGaa                                          >  2:879034/1‑95 (MQ=255)

                                                                                                                                    cAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACg                                        <  1:1335594/97‑1 (MQ=255)

                                                                                                                                    cAGTTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACg                                        >  2:1335594/1‑97 (MQ=255)

TCATCATGAAATTGATCAGCAATTTTCATTGAAAAGTGTGAACCGGCTCAAAGTAGGTGTATTAACGAACAACAACGCCCTCACCCGTTAAGGTGATGGCAATCAAAAAAGATTACGGGCTGATGTGTACGTCAGCTATTGCTGGTCCGATTCTGCCAGGTCATCTTGGTCCTGGCCCAGGAGCGATAATTCCAACAATGCGTATCGGTGCTCAACAAAGTTATGAACGTTGTTGGCAACCGCCAGTTTGAACAGTGCCGTGGCGCT  >  NC_000913/3307905‑3308171

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A