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
A15 F48 I1 R1	115	87.5	3003888	99.1%	2976853	139.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	525,916	C→A	R886R (CGG→AGG)	rhsD →	protein RhsD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	525,916	0	C	A	100.0%	147.5 / NA	57	R886R (CGG→AGG)	rhsD	protein RhsD
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (34/23); total (34/23)

CCGCATACGAACTGACCAGCACATACACCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGCGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATCCCGTATGCCACGGACCCGGC  >  NC_000913/525779‑526010

ccGCATACGAACTGACCAGCACATACACCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAgg                                                                                              >  1:252289/1‑140 (MQ=255)

 cGCATACGAACTGACCAGCACATACGCCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAggg                                                                                             <  1:696818/140‑1 (MQ=255)

     tACGAACTGACCAACACATACACCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATa                                                                                         >  2:962047/1‑140 (MQ=255)

             gACCAGCACATACACCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACa                                                                                 <  2:252289/140‑1 (MQ=21)

                   cacaTACACCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCa                                                                           >  2:661057/1‑140 (MQ=21)

                        acacCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGc                                                                      <  2:852452/140‑1 (MQ=21)

                        acacCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGc                                                                      <  1:661057/140‑1 (MQ=21)

                        acacCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGc                                                                      <  1:927378/140‑1 (MQ=21)

                        acacCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGc                                                                      <  1:919699/140‑1 (MQ=21)

                        acacCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGc                                                                      <  2:659965/140‑1 (MQ=21)

                        acacCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGc                                                                      >  2:396397/1‑140 (MQ=21)

                        acacCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGc                                                                      <  1:803041/140‑1 (MQ=21)

                         cacCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCAGCGGGCa                                                                     <  1:17687/140‑1 (MQ=255)

                            ccccGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGc                                                                  >  2:1353839/1‑140 (MQ=21)

                            ccccGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGc                                                                  <  1:396397/140‑1 (MQ=21)

                             cccGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCt                                                                 >  2:1068948/1‑140 (MQ=21)

                             cccGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCt                                                                 >  2:1324585/1‑140 (MQ=21)

                             cccGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCt                                                                 >  1:724750/1‑140 (MQ=21)

                              ccGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACgg                                                                        <  1:425139/132‑1 (MQ=21)

                              ccGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACgg                                                                        >  2:425139/1‑132 (MQ=21)

                              ccGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTg                                                                >  1:1056604/1‑140 (MQ=21)

                              ccGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTg                                                                >  2:190436/1‑140 (MQ=21)

                              ccGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTg                                                                >  1:1226140/1‑140 (MQ=21)

                               cGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTgg                                                               <  1:120326/140‑1 (MQ=21)

                                gCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGga                                                              >  2:742162/1‑140 (MQ=21)

                                gCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGAGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGga                                                              >  2:331269/1‑140 (MQ=21)

                                 cAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGgag                                                             >  2:1138044/1‑140 (MQ=21)

                                  aGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGgaga                                                            <  2:122733/140‑1 (MQ=21)

                                  aGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGgaga                                                            <  1:1065793/140‑1 (MQ=21)

                                    gCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAgt                                                          >  2:396027/1‑140 (MQ=21)

                                              gagCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCAccc                                                >  2:1157692/1‑140 (MQ=21)

                                                 ccAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCg                                             >  2:1172801/1‑140 (MQ=25)

                                                    gCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCAc                                          <  2:1299736/140‑1 (MQ=21)

                                                    gCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCAc                                          <  1:1324585/140‑1 (MQ=21)

                                                    gCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCAc                                          <  2:1226140/140‑1 (MQ=21)

                                                    gCACCTGAACAGCCTGGTATATGACCGTGACTACGGGGGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCCCGCAc                                          >  1:1396891/1‑140 (MQ=255)

                                                                ccTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACa                              >  2:1167402/1‑140 (MQ=25)

                                                                  tGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATc                            >  2:954859/1‑140 (MQ=21)

                                                                   ggTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATcc                           <  1:1172801/140‑1 (MQ=21)

                                                                     tataTGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGc                         <  1:190436/140‑1 (MQ=18)

                                                                     tataTGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGc                         >  1:160576/1‑140 (MQ=21)

                                                                          gACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATccc                    >  2:539639/1‑140 (MQ=17)

                                                                          gACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATccc                    >  2:1137565/1‑140 (MQ=18)

                                                                           aCCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATCCCg                   >  2:1345851/1‑140 (MQ=17)

                                                                           aCCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATCCCg                   <  1:1068948/140‑1 (MQ=17)

                                                                              gTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATCCCGTAt                >  1:712544/1‑140 (MQ=18)

                                                                               tGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCa                        >  1:578365/1‑131 (MQ=18)

                                                                               tGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCa                        <  2:578365/131‑1 (MQ=17)

                                                                               tGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATc                      <  1:803230/133‑1 (MQ=17)

                                                                               tGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATc                      >  2:803230/1‑133 (MQ=18)

                                                                               tGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATCCCGTATg               >  2:601436/1‑140 (MQ=17)

                                                                               tGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATCCCGTATg               >  1:897398/1‑140 (MQ=17)

                                                                               tGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGGGTGCGCACCCTCGCACCAGACCTGGACATCCGCATCCCGTATg               >  2:994005/1‑140 (MQ=17)

                                                                                     cGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATCCCGTATGCCACgg         >  2:865762/1‑140 (MQ=18)

                                                                                            aGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATCCCGTATGCCACGGACCcggc  >  2:285027/1‑140 (MQ=14)

                                                                                            aGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATCCCGTATGCCACGGACCcggc  >  1:813430/1‑140 (MQ=14)

                                                                                            aGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGAGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATCCCGTATGCCACGGACCcggc  <  2:160576/140‑1 (MQ=14)

CCGCATACGAACTGACCAGCACATACACCCCCGCAGGCCAGTTACAGAGCCAGCACCTGAACAGCCTGGTATATGACCGTGACTACGGGTGGAGTGACAACGGCGACCTGGTGCGCATCAGCGGCCCGCGACAGACGCGGGAATACGGCTACAGCGCCACGGGCAGGCTGGAGAGTGTGCGCACCCTCGCACCAGACCTGGACATCCGCATCCCGTATGCCACGGACCCGGC  >  NC_000913/525779‑526010

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A