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 F28 I1 R1	138	62.6	2119710	99.4%	2106991	138.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,594,132	(C)_8→7	pseudogene (3955/5422 nt)	yneO ←	AIDA‑I family autotransporter YneO

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,594,125	0	C	.	100.0%	231.0 / NA	53	pseudogene (3962/5422 nt)	yneO	AIDA‑I family autotransporter YneO
Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (24/29); total (24/29)

CATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGACTTGCCATATTAATGGCAGAGTCGGAACCGAAAGCAATTTCCCCCCCC  >  NC_000913/1593991‑1594256

catcaGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGcccccc                                                                                                                                <  1:735749/140‑1 (MQ=255)

catcaGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGcccccc                                                                                                                                <  2:775792/140‑1 (MQ=255)

     ggCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGcccccccaggc                                                                                                                           >  2:328731/1‑136 (MQ=255)

       ccATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCAt                                                                                                                        <  2:780334/140‑1 (MQ=255)

        cATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATa                                                                                                                       <  1:196000/140‑1 (MQ=255)

        cATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTGCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATa                                                                                                                       <  2:216736/140‑1 (MQ=255)

                ccGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCAt                                                                                                                        <  2:586373/131‑1 (MQ=255)

                ccGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCAt                                                                                                                        >  1:586373/1‑131 (MQ=255)

                ccGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCat                                                                                                               >  2:794407/1‑140 (MQ=255)

                  ggTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCatat                                                                                                             <  2:814062/140‑1 (MQ=255)

                    tataGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCa                                                                                                           >  1:988879/1‑140 (MQ=255)

                      taGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCAcc                                                                                                         <  1:889804/140‑1 (MQ=255)

                      taGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCAcc                                                                                                         <  1:328731/140‑1 (MQ=255)

                       aGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCt                                                                                                        >  2:865356/1‑140 (MQ=255)

                       aGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCt                                                                                                        >  2:968548/1‑140 (MQ=255)

                        gTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTg                                                                                                       <  2:988879/140‑1 (MQ=255)

                         ttGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGc                                                                                                      >  1:241449/1‑140 (MQ=255)

                           gCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAg                                                                                                    >  1:812382/1‑140 (MQ=255)

                             cGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAgtg                                                                                                  <  2:140860/140‑1 (MQ=255)

                               ttAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAgtggt                                                                                                <  2:799531/140‑1 (MQ=255)

                                        aGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTcc                                                                                       <  1:1038724/140‑1 (MQ=255)

                                               tCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTGGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATc                                                                                >  1:530077/1‑140 (MQ=255)

                                               tCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACa                                                                                  <  2:61310/138‑1 (MQ=255)

                                               tCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACa                                                                                  >  1:61310/1‑138 (MQ=255)

                                                ccccGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATca                                                                               <  1:968548/140‑1 (MQ=255)

                                                ccccGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑‑CCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATcac                                                                              >  2:608883/1‑140 (MQ=255)

                                                 cccGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGa                                                                                    >  2:671514/1‑134 (MQ=255)

                                                 cccGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGa                                                                                    <  1:671514/134‑1 (MQ=255)

                                                    ggTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACAcc                                                                           >  2:757523/1‑140 (MQ=255)

                                                    ggTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑‑CCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCg                                                                          <  1:608883/140‑1 (MQ=255)

                                                     gTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCg                                                                          <  1:865356/140‑1 (MQ=255)

                                                     gTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCg                                                                          <  2:241449/140‑1 (MQ=255)

                                                        tCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTg                                                                       >  1:972333/1‑140 (MQ=255)

                                                          cccccTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTGGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGtt                                                                     <  2:530077/140‑1 (MQ=255)

                                                          cccccTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGtt                                                                     <  2:358417/140‑1 (MQ=255)

                                                          cccccTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGtt                                                                     <  1:87313/140‑1 (MQ=255)

                                                           ccccTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTa                                                                    <  1:303395/140‑1 (MQ=255)

                                                            cccTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTAt                                                                   <  1:757523/140‑1 (MQ=255)

                                                                tCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATcaca                                                                             >  2:994899/1‑126 (MQ=255)

                                                                tCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATcaca                                                                             >  2:823653/1‑126 (MQ=255)

                                                                tCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATcaca                                                                             <  1:823653/126‑1 (MQ=255)

                                                                tCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATcaca                                                                             <  1:994899/126‑1 (MQ=255)

                                                                 cGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGata                                                              <  1:781654/140‑1 (MQ=255)

                                                                           ttGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGtt                                                    >  1:219779/1‑140 (MQ=255)

                                                                             gAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGa                                                  <  1:206906/140‑1 (MQ=255)

                                                                              aaCCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGAc                                                 >  2:82466/1‑140 (MQ=255)

                                                                                    gccgccATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTTACTTGCCa                                           >  2:485540/1‑140 (MQ=255)

                                                                                             ctcCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGa                                                  >  2:437054/1‑124 (MQ=255)

                                                                                             ctcCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGa                                                  <  1:437054/124‑1 (MQ=255)

                                                                                                      gccgccGATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGACTTGCCATATTAATGGCAGAGTCgg                         <  2:219779/140‑1 (MQ=255)

                                                                                                        cgccgATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGACTTGCCATATTAATGGCAGAGTCGGaa                       >  2:735629/1‑140 (MQ=255)

                                                                                                        cgccgATAGTGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGACTTGCCATATTAATGGCAGAGTCGGaa                       >  2:875632/1‑140 (MQ=255)

                                                                                                                 tGGTTTTAGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGACTTGCCATATTAATGGCAGAGTCGGAACCGAAAGCa              >  2:734150/1‑140 (MQ=255)

                                                                                                                        aGCGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGACTTGCCATATTAATGGCAGAGTCGGAACCGAAAGCAATTTccc       >  1:1030766/1‑140 (MQ=255)

                                                                                                                          cGACACGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGACTTGCCATATTAATGGCAGAGTCGGAACCGAAAGCAATTTccccc     <  2:812382/140‑1 (MQ=255)

                                                                                                                             cacGCAGTG‑CCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGACTTGCCATATTAATGGCAGAGTCGGAACCGAAAGCAATTTccccccca  >  1:46895/1‑139 (MQ=255)

CATCAGGCCATTGTTTCCGGTATAGTTGCCGTTAACGGTCAGTACATTCCCCGGTTTCCCCCCTTCGCTATTCATTTGAACCGTGCCGCCATTCTCCAGGTTGCCGCCGATAGTGGTTTTAGCGACACGCAGTGCCCCCCCCAGGCATAACGTTCATATCACCTGCAGTGGTGACATTTCCCGACATCACACCGCTGTTATGGATATTAATGTGTTGACTTGCCATATTAATGGCAGAGTCGGAACCGAAAGCAATTTCCCCCCCC  >  NC_000913/1593991‑1594256

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A