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
A13 F1 I1 R1	778	68.7	3228504	93.4%	3015422	109.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,962,441	C→T	108 (TAG→TAA)	ppdC ←	putative prepilin peptidase‑dependent protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,962,441	0	C	T	100.0%	154.3 / NA	48	108 (TAG→TAA)	ppdC	putative prepilin peptidase‑dependent protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (28/20); total (28/20)

ACTTTGCACCAGAATCATCTCTGGTTCGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAGGTG  >  NC_000913/2962312‑2962571

aCTTTGCACCAGAATCATCTCTGGTTCGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGa                                                                                                                            >  1:1337859/1‑139 (MQ=255)

                  ctctGGTTCGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCgg                                                                                                          <  1:226175/139‑1 (MQ=255)

                        ttCGAAAGGATCGTCTAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCAtc                                                                                                    >  2:464012/1‑139 (MQ=255)

                        ttCGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTc                                                                                                       <  1:397859/136‑1 (MQ=255)

                        ttCGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTc                                                                                                       >  2:397859/1‑136 (MQ=255)

                          cGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCAtctc                                                                                                  >  1:1382469/1‑139 (MQ=255)

                                              tcgcgttcgACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTg                                                                             >  1:774794/1‑139 (MQ=255)

                                                                  cATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATg                                                         >  2:294111/1‑139 (MQ=255)

                                                                     cAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATg                                                         >  2:649821/1‑136 (MQ=255)

                                                                     cAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATg                                                         <  1:649821/136‑1 (MQ=255)

                                                                     cAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTg                                                      >  1:622341/1‑139 (MQ=255)

                                                                          cTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCAt                                                                                                     >  2:136374/1‑88 (MQ=255)

                                                                          cTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCAt                                                                                                     <  1:136374/88‑1 (MQ=255)

                                                                          cTTCCAGCACGTCCAGACGATTAGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGAcaca                                                 >  2:752879/1‑139 (MQ=255)

                                                                            tCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACAt                                                >  1:353506/1‑139 (MQ=255)

                                                                            tCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATc                                               >  2:1340941/1‑139 (MQ=255)

                                                                             ccAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATcc                                              <  2:1337859/139‑1 (MQ=255)

                                                                                gCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGc                                           >  2:806222/1‑139 (MQ=255)

                                                                                     tCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCg                                      <  1:94709/139‑1 (MQ=255)

                                                                                     tCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCg                                      <  2:976992/139‑1 (MQ=255)

                                                                                      ccAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGa                                     <  2:763337/139‑1 (MQ=255)

                                                                                         gACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGGAGGCGGGTCATCTCGCCtt                                                                                             >  1:1039072/1‑81 (MQ=255)

                                                                                         gACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCtt                                                                                             <  2:1039072/81‑1 (MQ=255)

                                                                                               tGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCAt                            >  1:1437730/1‑139 (MQ=255)

                                                                                                ggAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCAtt                           <  2:774794/139‑1 (MQ=255)

                                                                                                  aaTGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCg                         <  2:622341/139‑1 (MQ=255)

                                                                                                        aGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGAc                   <  1:464012/139‑1 (MQ=255)

                                                                                                        aGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGAc                   >  1:1387406/1‑139 (MQ=255)

                                                                                                            ccTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑cccc                                                                                   <  1:107741/71‑1 (MQ=255)

                                                                                                            ccTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑cccc                                                                                   >  2:107741/1‑71 (MQ=255)

                                                                                                              ttAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAg                                                                                                              <  1:509886/43‑1 (MQ=255)

                                                                                                              ttAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAg                                                                                                              >  2:509886/1‑43 (MQ=255)

                                                                                                               tAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAg            >  1:1005724/1‑139 (MQ=255)

                                                                                                                aaCATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGt           >  1:1513947/1‑139 (MQ=255)

                                                                                                                   aTAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTgg        <  1:1087758/139‑1 (MQ=255)

                                                                                                                     aGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCa      <  1:1504074/139‑1 (MQ=255)

                                                                                                                     aGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCa      <  1:735359/139‑1 (MQ=255)

                                                                                                                     aGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCa      <  1:624509/139‑1 (MQ=255)

                                                                                                                      gCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTgg        >  1:829032/1‑136 (MQ=255)

                                                                                                                      gCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTgg        <  2:829032/136‑1 (MQ=255)

                                                                                                                      gCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAg     >  2:53470/1‑139 (MQ=255)

                                                                                                                      gCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAg     >  1:1044074/1‑139 (MQ=255)

                                                                                                                      gCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAg     >  1:1008279/1‑139 (MQ=255)

                                                                                                                      gCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGCAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAg     >  1:1152434/1‑139 (MQ=255)

                                                                                                                       cGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAgg    >  1:386339/1‑139 (MQ=255)

                                                                                                                         gCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACAt                                                >  2:1590071/1‑93 (MQ=255)

                                                                                                                         gCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACAt                                                <  1:1590071/93‑1 (MQ=255)

                                                                                                                         gCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAGGTg  >  1:636953/1‑139 (MQ=255)

ACTTTGCACCAGAATCATCTCTGGTTCGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAGGTG  >  NC_000913/2962312‑2962571

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