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
A6 F1 I0 R1	2892	75.3	5698161	66.1%	3766484	59.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	2,595,362	A→C	29.7%	P412P (CCT→CCG)	arsB ←	arsenite/antimonite transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,595,362	0	A	C	29.7%	108.8 / 87.5	101	P412P (CCT→CCG)	arsB	arsenite/antimonite transporter
Reads supporting (aligned to +/- strand): ref base A (38/33); new base C (17/13); total (55/46)
Fisher's exact test for biased strand distribution p-value = 8.29e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01

Only 100 of 115 total aligned reads displayed.

ATATCAGTATCTCATTACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCATATTCTTCTGCGAAAGTA  >  minE/2595294‑2595432

atatCAGTATCTCATTACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCAcagg                                                                      >  1:4622462/1‑71 (MQ=255)

   tCAGTATCTCATTACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCAcaggcag                                                                   >  1:4892038/1‑71 (MQ=255)

   tCAGTATCTCATTACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCAcaggca                                                                    <  1:1859326/70‑1 (MQ=255)

   tCAGTATCTCATTACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCAcaggca                                                                    <  1:1831062/70‑1 (MQ=255)

     aGTATCTCATTACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAggg                                                                 <  1:977500/71‑1 (MQ=255)

         tctcATTACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCAcaggcag                                                                   <  1:4290259/65‑1 (MQ=255)

         tctcATTACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCAcaggcag                                                                   <  1:3355540/65‑1 (MQ=255)

         tctaATTACAAAGTGACAGAGAGCCGCCACGCCAGCGCGGCCAGAGTGACAAACAGCAccggcaca                                                                  >  1:3592595/1‑64 (MQ=255)

         tctaATTACAAAGTGACAGAGAGCCGCCACGCCAGCGCGGCCAGAGTGACAAACAGCACCGGCACAGTCAt                                                             >  1:1160607/1‑71 (MQ=255)

         tctaATTACAAAGTGACAGAGAGCCGCCACGCCAGCGCGGCCAGAGTGACAAACAGCACCGGCACAGTCAt                                                             >  1:1518678/1‑71 (MQ=255)

            aaTTACAAAGTGACAGAGAGCCGCCACGCCAGCGCGGCCAGAGTGACAAACAGCACCGGCACAGTCATGa                                                           >  1:1664135/2‑70 (MQ=255)

             aTTACAAAGTGACAGAGAGCCGCCACGCCAGCGCGGCCAGAGTGACAAACAGCACCGGCACAGTCATGac                                                          >  1:1737157/1‑69 (MQ=255)

             aTTACAAAGTGACAGAGAGCCGCCACGCCAGCGCGGCCAGAGTGACAAACAGCACCGGCACAGTCATGac                                                          <  1:3521973/70‑2 (MQ=255)

             aTTACAAAGTGACAGAGAGCCGCCACGCCAGCGCGGCCAGAGTGACAAACAGCACCGGCACAGTCATGac                                                          >  1:4377325/1‑69 (MQ=255)

             aTTACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATg                                                            <  1:2284194/68‑1 (MQ=255)

             aTTACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGAt                                                          <  1:4851837/70‑1 (MQ=255)

             aTTACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATa                                                         <  1:5540100/71‑1 (MQ=255)

              ttACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATaa                                                        <  1:308626/71‑1 (MQ=255)

               tACAAAGTGACAGAGAGCCGCCACGCCAGCGCGGCCAGAGTGACAAACAGCACCGGCACAGTCATGACAAt                                                       >  1:5577178/1‑71 (MQ=255)

               tACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCAcaggcag                                                                   <  1:5680226/59‑1 (MQ=255)

                aCAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGa                                                           >  1:4675637/1‑66 (MQ=255)

                aCAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATc                                                      >  1:2982070/1‑71 (MQ=255)

                 cAAAGTGACAGAGAGCCGCCACGCCAGCGCGGCCAGAGTGACAAACAGCACCGGCACAGTCATGACAAtgc                                                     <  1:3516961/71‑3 (MQ=255)

                 cAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATcc                                                     >  1:1603561/1‑71 (MQ=255)

                 cAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATcc                                                     <  1:543292/71‑1 (MQ=255)

                   aaGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCAcaggcagg                                                                  >  1:3923040/1‑56 (MQ=255)

                   aaGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCAcaggcagg                                                                  >  1:2154353/1‑56 (MQ=255)

                    aGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTg                                                  <  1:4669639/71‑1 (MQ=255)

                    aGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTg                                                  <  1:4786190/71‑1 (MQ=255)

                     gTGACAGAGAGCCGCCACGCCAGCGCGGCCAGAGTGACAAACAGCACCGGCACAGTCATGACAATgccgg                                                  >  1:5242204/1‑68 (MQ=255)

                     gTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTg                                                  >  1:5256164/1‑70 (MQ=255)

                     gTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTg                                                  >  1:1153276/1‑70 (MQ=255)

                     gTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGt                                                 <  1:969119/71‑1 (MQ=255)

                          agagagACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATa                                                         >  1:2000060/1‑58 (MQ=255)

                             gagaCGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAg                                          >  1:1827920/1‑70 (MQ=255)

                             gagaCGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAg                                          >  1:825321/1‑70 (MQ=255)

                             gagaCGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGt                                         <  1:5453997/71‑1 (MQ=255)

                             gagaCGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGt                                         <  1:163546/71‑1 (MQ=255)

                              agaCGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTa                                        <  1:5410098/71‑1 (MQ=255)

                                   tAGCGCCAGCGCAGCCAGCGTCACAAACAGCAcaggc                                                                     <  1:1791825/37‑1 (MQ=255)

                                    aGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAAt                                                       >  1:1784388/1‑50 (MQ=255)

                                    aGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAAt                                                       >  1:5171048/1‑50 (MQ=255)

                                     gcgcCCGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCAt                                                             >  1:1979192/1‑43 (MQ=255)

                                     gcgcCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCAt                                                             >  1:83857/1‑43 (MQ=255)

                                     gcgcCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGa                                                           >  1:3131452/1‑45 (MQ=255)

                                     gcgcCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATccc                                 >  1:5127962/1‑71 (MQ=255)

                                     gcgcCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATccc                                 >  1:5591103/1‑71 (MQ=255)

                                     acgcCAGCGCGGCCAGAGTGACAAACAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATccc                                 >  1:3025161/2‑71 (MQ=255)

                                     acgcCAGCGCGGCCAGAGTGACAAACAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATccc                                 >  1:2590656/2‑71 (MQ=255)

                                      cgcCAGCGCGGCCAGAGTGACAAACAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATcccc                                <  1:3471919/71‑1 (MQ=255)

                                        ccAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAg                              >  1:4473558/1‑71 (MQ=255)

                                          aGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCt                            <  1:130726/71‑1 (MQ=255)

                                           gcgcGGCCAGAGTGACAAACAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATcccc                                <  1:4704743/66‑1 (MQ=255)

                                           gcgcAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCt                            >  1:2839713/1‑70 (MQ=255)

                                            cgcAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGa                          <  1:513441/71‑1 (MQ=255)

                                            cgcAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGa                          <  1:29933/71‑1 (MQ=255)

                                            cgcAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGa                          <  1:1243161/71‑1 (MQ=255)

                                              cagccagcGTCACAAACAGCACAGGCAGGGTCATGATAATCCCt                                                   <  1:2041747/44‑1 (MQ=255)

                                              cagccagcGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGa                          >  1:3649646/1‑69 (MQ=255)

                                              cagccagcGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGa                          >  1:5070701/1‑69 (MQ=255)

                                               ggccagaGTGACAAACAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATCCCCAAGTGAttg                       >  1:3870623/2‑69 (MQ=255)

                                                gccagaGTGACAAACAGCACCGGCACAGTCATGac                                                          <  1:584133/35‑2 (MQ=12)

                                                gccagaGTGACAAACAGCACCGGCACAGTCATGac                                                          <  1:257711/35‑2 (MQ=12)

                                                gccagaGTGACAAACAGCACCGGCACAGTCATGac                                                          <  1:2147441/35‑2 (MQ=12)

                                                  cagcGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGCTAGTCa                    <  1:5555/71‑1 (MQ=255)

                                                  cagcGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCa                    <  1:214073/71‑1 (MQ=255)

                                                   agcGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCa                    >  1:5646237/1‑70 (MQ=255)

                                                   agcGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCa                    <  1:1674147/70‑1 (MQ=255)

                                                   agcGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCa                    <  1:396040/70‑1 (MQ=255)

                                                    gcGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCata                  <  1:4893225/71‑1 (MQ=255)

                                                     cGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCatat                 <  1:4148128/71‑1 (MQ=255)

                                                     cGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCatat                 <  1:1256084/71‑1 (MQ=255)

                                                     cGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCatat                 <  1:614030/71‑1 (MQ=255)

                                                      gTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCatat                 <  1:2985680/70‑1 (MQ=255)

                                                       tgacaAACAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTaa                                       >  1:60203/3‑47 (MQ=16)

                                                       tgacaAACAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATcccc                                <  1:4123704/52‑1 (MQ=255)

                                                       tgacaAACAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATCCCCAAGTGATTGTCATAttt               <  1:1203956/69‑2 (MQ=255)

                                                       tCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGa                          <  1:4270512/60‑1 (MQ=255)

                                                       tCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGa                          <  1:1595552/60‑1 (MQ=255)

                                                       tCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCATAttc               <  1:1791542/71‑1 (MQ=255)

                                                         acaAACAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATCCCCAAGTGATTGTCATAtttt              <  1:2152288/70‑3 (MQ=255)

                                                         acaAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGaa                                           >  1:1231302/1‑41 (MQ=255)

                                                         acaAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGaa                                           >  1:2766781/1‑41 (MQ=255)

                                                         acaAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGaa                                           >  1:1390253/1‑41 (MQ=255)

                                                         acaAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATcc                                  >  1:24804/1‑50 (MQ=255)

                                                         acaAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCATAttctt             >  1:4352398/1‑71 (MQ=255)

                                                         acaAACAGCACAGGCAGGGTCATGATAATCCCTGAACGGAAGTAATATcc                                  >  1:5395728/1‑50 (MQ=255)

                                                         acaAACAGCAAAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCATAttctt             >  1:2334813/1‑71 (MQ=255)

                                                          caAACAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATCCCCAAGTGATTGTCATAtttttc            <  1:3068514/71‑1 (MQ=255)

                                                          caAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCATAttcttc            >  1:2882560/1‑71 (MQ=255)

                                                           aaaCAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATCCCCAAGTGATTGTCATATttttct           >  1:1942030/1‑71 (MQ=255)

                                                           aaaCAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATCCCCAAGTGATTGTCATATttttct           >  1:4119604/1‑71 (MQ=255)

                                                           aaaCAGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATCCCCAAGTGATTGTCATATttttct           >  1:760969/1‑71 (MQ=255)

                                                            aaCAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCATATTCTTCTg          >  1:1783083/1‑71 (MQ=255)

                                                              cagcagAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCATATTCTTCTGc         >  1:5555800/1‑70 (MQ=255)

                                                               aGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATCCCCAAGTGATTGTCATATTTTTCTggg        >  1:4332141/1‑68 (MQ=255)

                                                               aGCACCGGCACAGTCATGACAATGCCGGTACGGAAGTAATATCCCCAAGTGATTGTCATATTTTTCTggg        >  1:74608/1‑68 (MQ=255)

                                                                  acaGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCATATtcttct           >  1:34713/1‑64 (MQ=255)

                                                                    aggcaggGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGt                      <  1:2549641/51‑1 (MQ=255)

                                                                    aggcaggGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCATATTCTTCTGCGAAAGTa  >  1:1731795/1‑71 (MQ=255)

ATATCAGTATCTCATTACAAAGTGAAAGAGAGACGTAGCGCCAGCGCAGCCAGCGTCACAAACAGCACAGGCAGGGTCATGATAATCCCTGTACGGAAGTAATATCCCCAGCTGATAGTCATATTCTTCTGCGAAAGTA  >  minE/2595294‑2595432

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A