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
A2 F1 I2 R1	764	42.0	2018750	95.5%	1927906	109.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,002,813	C→T	127 (TAG→TAA)	yigG ←	PRK11371 family inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,002,813	0	C	T	100.0%	130.1 / NA	41	127 (TAG→TAA)	yigG	PRK11371 family inner membrane protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (18/23); total (18/23)

TGGTGTTGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAACTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAGATGATATA  >  NC_000913/4002695‑4002947

tagtgtTGTCCCCCAGAATCCAGAAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGt                                                                                                                    <  2:553417/137‑1 (MQ=255)

tGGTGTTGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGt                                                                                                                    <  2:366336/139‑1 (MQ=255)

tGGTGTTGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGt                                                                                                                    <  1:889517/139‑1 (MQ=255)

     ttGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGt                                                                                                                    <  1:297506/134‑1 (MQ=255)

     ttGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGt                                                                                                                    >  2:297506/1‑134 (MQ=255)

       gCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCa                                                                                                             <  2:747899/139‑1 (MQ=255)

        ccccccAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTtgatga                                                                                                                          <  2:364848/125‑1 (MQ=255)

        ccccccAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTtgatga                                                                                                                          >  1:364848/1‑125 (MQ=255)

                  tCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAAt                                                                                                                        >  1:107242/1‑117 (MQ=255)

                  tCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAAt                                                                                                                        <  2:107242/117‑1 (MQ=255)

                  tCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCAt                                                                                                  >  2:665849/1‑139 (MQ=255)

                                      cATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAAc                                                                              >  1:446572/1‑139 (MQ=255)

                                                                         aaTGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGaa                                              <  1:834309/136‑1 (MQ=255)

                                                                         aaTGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGaa                                              >  2:834309/1‑136 (MQ=255)

                                                                                 aTCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTtgatga                                                                                                                          <  1:966956/52‑1 (MQ=255)

                                                                                 aTCGTTCATATATTCCTTACTCATAAATACTCCATAATTATTGTTTtgatga                                                                                                                          >  2:966956/1‑52 (MQ=255)

                                                                                       cATATATTCCTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGc                             <  2:875006/139‑1 (MQ=255)

                                                                                                cTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACaaa                                                                           <  2:396624/84‑1 (MQ=255)

                                                                                                cTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACaaa                                                                           >  1:396624/1‑84 (MQ=255)

                                                                                                cTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATtgt                    >  1:903534/1‑139 (MQ=255)

                                                                                                cTTACTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATtgt                    >  1:768217/1‑139 (MQ=255)

                                                                                                   aCTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTc                                >  2:329443/1‑124 (MQ=255)

                                                                                                   aCTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTc                                <  1:329443/124‑1 (MQ=255)

                                                                                                   aCTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGc                             <  1:9617/127‑1 (MQ=255)

                                                                                                   aCTCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGc                             >  2:9617/1‑127 (MQ=255)

                                                                                                     tCATAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGtgatga               <  2:788713/139‑1 (MQ=255)

                                                                                                       aTAAATACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATa             >  1:956309/1‑139 (MQ=255)

                                                                                                         aaaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGc                             >  1:651992/1‑121 (MQ=255)

                                                                                                         aaaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGc                             <  2:651992/121‑1 (MQ=255)

                                                                                                          aaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATagag          <  2:542350/139‑1 (MQ=255)

                                                                                                          aaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATagag          <  2:903534/139‑1 (MQ=255)

                                                                                                          aaTACTCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATAGTGATGATagag          <  2:446572/139‑1 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCa                                        >  2:568411/1‑104 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCa                                        <  1:568411/104‑1 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATag            <  2:448135/132‑1 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATag            >  1:448135/1‑132 (MQ=255)

                                                                                                               tCCATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAgatgat     <  2:956309/139‑1 (MQ=255)

                                                                                                                 cATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGc                             >  1:243895/1‑113 (MQ=255)

                                                                                                                 cATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGc                             <  2:243895/113‑1 (MQ=255)

                                                                                                                 cATAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAGATGatat   >  2:729581/1‑139 (MQ=255)

                                                                                                                  aTAATTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATACAGATGatata  <  2:768217/139‑1 (MQ=255)

TGGTGTTGCCCCCCAGAATCCAGGAAAACCATGTTGATCATAAAAATTAAATCGGTATTTCCATTTTTCACTTAATGAACCATCGTTCATATATTCCTTACTCATAAATACTCCATAACTATTGTTTTGATGAATCAGTAGGTGCAAGCATTAGCATACTGAAAGTGGAAAAATAACAAATCAAAAAAATCATCGAACCATTGCCTGAACAGGCAAAATCTTCGGCTATCATTGTGATGATAGAGATGATATA  >  NC_000913/4002695‑4002947

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