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
A9 F1 I1 R1	759	71.0	3673240	91.5%	3361014	104.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,697,915	C→T	212 (TAG→TAA)	pgpC ←	phosphatidylglycerophosphatase C, membrane bound

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,697,915	0	C	T	100.0%	202.5 / NA	63	212 (TAG→TAA)	pgpC	phosphatidylglycerophosphatase C, membrane bound
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (35/28); total (35/28)

CCCAGGCACGTTTCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTCTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGATTTTG  >  NC_000913/2697788‑2698041

cccAGGCACGTTTCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTg                                                                                                                     >  1:315705/1‑139 (MQ=255)

        cGTTTCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGtt                                                                                                             >  2:63620/1‑139 (MQ=255)

          tttCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCa                                                                                                                         <  2:549189/125‑1 (MQ=255)

          tttCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCa                                                                                                                         >  1:549189/1‑125 (MQ=255)

           ttCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCAc                                                                                                          >  1:1681333/1‑139 (MQ=255)

                   cGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACcgcg                                                                                                      >  2:1609895/1‑135 (MQ=255)

                   cGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACcgcg                                                                                                      <  1:1609895/135‑1 (MQ=255)

                       aGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTa                                                                                              >  2:329098/1‑139 (MQ=255)

                       aGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTa                                                                                              <  2:1681333/139‑1 (MQ=255)

                       aGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTa                                                                                              <  1:63620/139‑1 (MQ=255)

                               aCGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCaa                                                                                      <  2:1650982/139‑1 (MQ=255)

                                         tATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCa                                                                                                                         >  2:981223/1‑94 (MQ=255)

                                         tATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCa                                                                                                                         <  1:981223/94‑1 (MQ=255)

                                                 gCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATaa                                                                    >  1:1405051/1‑139 (MQ=255)

                                                   tAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATg                                                                                 <  1:901319/124‑1 (MQ=255)

                                                   tAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATg                                                                                 >  2:901319/1‑124 (MQ=255)

                                                               cAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGAc                                                                            >  1:1418230/1‑117 (MQ=255)

                                                               cAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGAc                                                                            <  2:1418230/117‑1 (MQ=255)

                                                               cAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTc                                                      <  1:329098/139‑1 (MQ=255)

                                                               cAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCACTATACACGGACGCTATGCTATACTTTATTCCAGTTGCTGGAGTTAACCGCGCGGGGTTACTCGCCCACGATGCTGACAGAAATAACACAGCGGATTGTc                                                      >  1:1208945/1‑139 (MQ=255)

                                                                  aCAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGAc                                                                            <  1:1047969/114‑1 (MQ=255)

                                                                  aCAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGAc                                                                            >  2:1047969/1‑114 (MQ=255)

                                                                      aaaGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGa                                                           >  2:593884/1‑127 (MQ=255)

                                                                      aaaGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGa                                                           <  1:593884/127‑1 (MQ=255)

                                                                                ccGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAg                                                                                                                        <  2:640892/56‑1 (MQ=255)

                                                                                ccGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAg                                                                                                                        >  1:640892/1‑56 (MQ=255)

                                                                                 cGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGa                                                           >  2:1571880/1‑116 (MQ=255)

                                                                                 cGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGa                                                           <  1:1571880/116‑1 (MQ=255)

                                                                                   gTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGc                                  <  2:1405051/139‑1 (MQ=255)

                                                                                            gcgcGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACa                         >  1:1024436/1‑139 (MQ=255)

                                                                                             cgcgGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTAc                          <  2:637692/137‑1 (MQ=255)

                                                                                             cgcgGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTAc                          >  1:637692/1‑137 (MQ=255)

                                                                                             cgcgGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAg                        >  1:809043/1‑139 (MQ=255)

                                                                                                  cgcATTATACACGGACGCTATGCTTTACTTTATTCCAGt                                                                                                                       <  1:375707/39‑1 (MQ=255)

                                                                                                  cgcATTATACACGGACGCTATGCTTTACTTTATTCCAGt                                                                                                                       >  2:375707/1‑39 (MQ=255)

                                                                                                              ggACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGc                                  <  1:827903/112‑1 (MQ=255)

                                                                                                              ggACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGc                                  >  2:827903/1‑112 (MQ=255)

                                                                                                              ggACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGc                                  >  2:587116/1‑112 (MQ=255)

                                                                                                              ggACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGc                                  <  1:587116/112‑1 (MQ=255)

                                                                                                              ggACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGa       >  1:1482018/1‑139 (MQ=255)

                                                                                                               gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACcgc                                                                                                       >  2:1170435/1‑42 (MQ=255)

                                                                                                               gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACcgc                                                                                                       <  1:1170435/42‑1 (MQ=255)

                                                                                                               gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCaa                                                                                      >  1:1811626/1‑59 (MQ=255)

                                                                                                               gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCaa                                                                                      <  2:1811626/59‑1 (MQ=255)

                                                                                                               gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGa                                                           >  2:1801831/1‑86 (MQ=255)

                                                                                                               gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGa                                                           <  1:1801831/86‑1 (MQ=255)

                                                                                                               gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGa                                                           <  1:671425/86‑1 (MQ=255)

                                                                                                               gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGa                                                           >  2:671425/1‑86 (MQ=255)

                                                                                                                aCGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGAtt     >  1:1580140/1‑139 (MQ=255)

                                                                                                                aCGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGAtt     >  2:385183/1‑139 (MQ=255)

                                                                                                                aCGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGAtt     >  2:807866/1‑139 (MQ=255)

                                                                                                                 cGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCa                                                                                                           >  1:112220/1‑36 (MQ=38)

                                                                                                                 cGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCa                                                                                                           <  2:112220/36‑1 (MQ=255)

                                                                                                                 cGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACcgcg                                                                                                      <  2:163966/41‑1 (MQ=255)

                                                                                                                 cGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACcgcg                                                                                                      >  1:163966/1‑41 (MQ=255)

                                                                                                                 cGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGAc                                                                            >  1:1350466/1‑67 (MQ=255)

                                                                                                                 cGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGAc                                                                            <  2:1350466/67‑1 (MQ=255)

                                                                                                                   cTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGc                       >  1:1392740/1‑118 (MQ=255)

                                                                                                                   cTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGc                       <  2:1392740/118‑1 (MQ=255)

                                                                                                                   cTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGATTTTg  <  2:1024436/139‑1 (MQ=255)

                                                                                                                   cTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGAGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTAGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGATTTTg  >  1:1380369/1‑139 (MQ=255)

                                                                                                                          ttACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGa                                                                             <  1:201162/57‑1 (MQ=255)

                                                                                                                          ttACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGa                                                                             >  2:201162/1‑57 (MQ=255)

CCCAGGCACGTTTCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTCTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGATTTTG  >  NC_000913/2697788‑2698041

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A