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
A10 F1 I2 R1	67	36.0	1614110	95.1%	1535018	114.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,786,768	C→T	pseudogene (372/2253 nt)	ygaQ →	uncharacterized protein, putative enzyme

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,786,768	0	C	T	100.0%	196.9 / NA	56	pseudogene (372/2253 nt)	ygaQ	uncharacterized protein, putative enzyme
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (20/36); total (20/36)

ATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAGCCGAT  >  NC_000913/2786634‑2786891

aTTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCg                                                                                                                         <  2:254344/139‑1 (MQ=255)

     ccTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGtt                                                                                                                    <  1:128538/139‑1 (MQ=255)

       tttCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTa                                                                                                                  <  2:232079/139‑1 (MQ=255)

        ttCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTAt                                                                                                                 <  2:791000/139‑1 (MQ=255)

        ttCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTAt                                                                                                                 <  2:373817/139‑1 (MQ=255)

                     aCTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTg                                                                                                    <  2:502688/139‑1 (MQ=255)

                        tACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTg                                                                                                 <  1:250653/139‑1 (MQ=255)

                          ccGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGaa                                                                                               >  2:153712/1‑139 (MQ=255)

                                              cacaGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATc                                                                           >  1:598224/1‑139 (MQ=255)

                                                  gCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGAc                                                                       <  2:315760/139‑1 (MQ=255)

                                                        cATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCt                                                                 >  2:283336/1‑139 (MQ=255)

                                                            aCAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTccc                                                             <  2:598224/139‑1 (MQ=255)

                                                             cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTAt                                                                                                                 <  2:759058/86‑1 (MQ=255)

                                                             cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTAt                                                                                                                 >  1:759058/1‑86 (MQ=255)

                                                             cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTcccc                                                            >  1:689084/1‑139 (MQ=255)

                                                             cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTcccc                                                            >  1:107519/1‑139 (MQ=255)

                                                              aGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCa                                                           <  1:153712/139‑1 (MQ=255)

                                                               gcgcCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCaa                                                          >  1:127459/1‑139 (MQ=255)

                                                                cgcCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCaaa                                                         >  2:205479/1‑139 (MQ=255)

                                                                   cAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCcaca                                                                                  <  1:497174/111‑1 (MQ=255)

                                                                   cAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGAGTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCcaca                                                                                  >  2:497174/1‑111 (MQ=255)

                                                                     gACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATa                                                    >  2:239790/1‑139 (MQ=255)

                                                                           aTAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATg                                              <  2:220289/139‑1 (MQ=255)

                                                                                 gaaagaaaAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCat                                        <  1:509756/139‑1 (MQ=255)

                                                                                 gaaagaaaAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCat                                        <  1:260203/139‑1 (MQ=255)

                                                                                  aaagaaaAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCata                                       <  2:425772/139‑1 (MQ=255)

                                                                                  aaagaaaAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCata                                       <  2:127459/139‑1 (MQ=255)

                                                                                  aaagaaaAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCata                                       <  2:107519/139‑1 (MQ=255)

                                                                                    agaaaAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATg                                     >  2:724313/1‑139 (MQ=255)

                                                                                    agaaaAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATg                                     >  2:379149/1‑139 (MQ=255)

                                                                                    agaaaAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATg                                     >  2:245347/1‑139 (MQ=255)

                                                                                          aCATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTa                               <  1:283336/139‑1 (MQ=255)

                                                                                              aGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAatat                                               >  2:532115/1‑119 (MQ=255)

                                                                                              aGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAatat                                               <  1:532115/119‑1 (MQ=255)

                                                                                                gTTTATCAACTAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTc                         <  1:779301/139‑1 (MQ=255)

                                                                                                  ttATCAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCt                       <  1:245347/139‑1 (MQ=255)

                                                                                                      cAACGAGATACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACt                   <  1:707872/139‑1 (MQ=255)

                                                                                                          gagaTACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCt                       >  1:107455/1‑131 (MQ=255)

                                                                                                          gagaTACAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCt                       <  2:107455/131‑1 (MQ=255)

                                                                                                                cAATGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGc         <  2:297718/139‑1 (MQ=255)

                                                                                                                  aTGATTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAg       <  1:239790/139‑1 (MQ=255)

                                                                                                                     aTTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGGGCTGGCAGCCg    <  2:382077/139‑1 (MQ=255)

                                                                                                                     aTTGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAGCCg    <  2:428365/139‑1 (MQ=255)

                                                                                                                      ttGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCcaca                                                                                  <  1:131047/60‑1 (MQ=255)

                                                                                                                      ttGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCcaca                                                                                  >  2:131047/1‑60 (MQ=255)

                                                                                                                      ttGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAGCCGa   >  1:799649/1‑139 (MQ=255)

                                                                                                                       tGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAGCCGAt  <  1:660089/139‑1 (MQ=255)

                                                                                                                       tGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAGCCGAt  <  1:724313/139‑1 (MQ=255)

                                                                                                                       tGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAGCCGAt  <  1:205479/139‑1 (MQ=255)

                                                                                                                       tGAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAGCCGAt  <  2:799649/139‑1 (MQ=255)

                                                                                                                        gAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAGCCg    >  1:391619/1‑136 (MQ=255)

                                                                                                                        gAAAGAGGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAGCCg    <  2:391619/136‑1 (MQ=255)

                                                                                                                             agGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCaa                                                          >  1:345374/1‑77 (MQ=255)

                                                                                                                             agGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCaa                                                          <  2:345374/77‑1 (MQ=255)

                                                                                                                             agGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAGCCGAt  <  1:805801/133‑1 (MQ=255)

                                                                                                                             agGTGATAATAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAGCCGAt  >  2:805801/1‑133 (MQ=255)

ATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTAACATTCCTGACTATGAGCTGGCAGCCGAT  >  NC_000913/2786634‑2786891

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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