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
A2 F3 I0 R2	232	76.3	4135488	90.9%	3759158	60.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,132,803	G→A	24.7%	intergenic (+119/‑38)	arpB → / → yniD	ECK1718:JW5278+JW1710:b4494; hypothetical protein/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,132,803	0	G	A	24.7%	187.1 / 62.0	97	intergenic (+119/‑38)	arpB/yniD	ECK1718:JW5278+JW1710:b4494; hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand): ref base G (26/47); new base A (16/8); total (42/55)
Fisher's exact test for biased strand distribution p-value = 9.62e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.46e-01

Only 100 of 105 total aligned reads displayed.

AACGCAGAAACAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTAAACGCTT  >  minE/1132733‑1132872

aaCGCAGAAACAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTg                                                                       <  1:4087671/71‑1 (MQ=255)

  cGCAGAAACAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATc                                                                     <  1:1249609/71‑1 (MQ=255)

         aCAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTg                                                              >  1:3769911/1‑71 (MQ=255)

         aCAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTg                                                              >  1:338262/1‑71 (MQ=255)

         aCAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTg                                                              >  1:1370814/1‑71 (MQ=255)

               aCCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTacac                                                        >  1:3187089/1‑71 (MQ=255)

               aCCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTacac                                                        >  1:2823789/1‑71 (MQ=255)

                   tgtgCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTa                                                           <  1:78196/64‑1 (MQ=255)

                     tgCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGt                                                   <  1:2881497/70‑1 (MQ=255)

                     tgCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGt                                                   <  1:2645430/70‑1 (MQ=255)

                     tgCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTaca                                                         >  1:954512/1‑64 (MQ=255)

                     tgCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGt                                                   >  1:3691014/1‑70 (MQ=255)

                     tgCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGt                                                   >  1:2031641/1‑70 (MQ=255)

                      gCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGt                                                   <  1:1877268/69‑1 (MQ=255)

                       cacaACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTAt                                                >  1:278664/1‑71 (MQ=255)

                       cacaACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTAt                                                >  1:413790/1‑71 (MQ=255)

                       cacaACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTAt                                                >  1:1160426/1‑71 (MQ=255)

                               cACCCGACGTCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGt                                                   <  1:1466710/60‑1 (MQ=255)

                                 cccGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTa                                                           <  1:1827643/50‑1 (MQ=255)

                                  ccGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCttt                                                                <  1:1270680/44‑1 (MQ=255)

                                  ccGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCttt                                                                <  1:1691929/44‑1 (MQ=255)

                                  ccGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCttt                                                                <  1:3217509/44‑1 (MQ=255)

                                  ccGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACaa                                       >  1:3011527/1‑69 (MQ=255)

                                    gACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCa                                              >  1:860246/1‑60 (MQ=255)

                                    gACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAgaga                                   <  1:2548755/71‑1 (MQ=255)

                                    ccgggCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGcaca                                        >  1:3802599/4‑66 (MQ=255)

                                          tGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATg                               >  1:511874/1‑69 (MQ=255)

                                          tGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATg                               >  1:84363/1‑69 (MQ=255)

                                          tGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATg                               >  1:2845934/1‑69 (MQ=255)

                                          tGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATg                               >  1:2588652/1‑69 (MQ=255)

                                            taataaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            >  1:2681119/1‑70 (MQ=255)

                                            taataaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            <  1:139945/70‑1 (MQ=255)

                                            taataaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            >  1:3230034/1‑70 (MQ=255)

                                            taataaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            >  1:2284689/1‑70 (MQ=255)

                                            taataaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            >  1:2265588/1‑70 (MQ=255)

                                            taataaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            <  1:2153955/70‑1 (MQ=255)

                                            taataaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            <  1:3051319/70‑1 (MQ=255)

                                            taataaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            <  1:35664/70‑1 (MQ=255)

                                            taataaCAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            >  1:2641223/1‑70 (MQ=255)

                                            taataaCAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            <  1:1640294/70‑1 (MQ=255)

                                              ataaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                          <  1:516715/70‑1 (MQ=255)

                                              ataaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                          <  1:3858844/70‑1 (MQ=255)

                                              ataaCAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                          <  1:1201721/70‑1 (MQ=255)

                                              ataaCAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                          <  1:1700330/70‑1 (MQ=255)

                                                aaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            >  1:3206702/1‑66 (MQ=255)

                                                aaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            >  1:2418205/1‑66 (MQ=255)

                                                 aCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAaga                                     <  1:2514596/56‑1 (MQ=255)

                                                 aCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAaga                                     <  1:2338767/56‑1 (MQ=255)

                                                 aCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAaga                                     <  1:2005815/56‑1 (MQ=255)

                                                 aCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAaga                                     <  1:941195/56‑1 (MQ=255)

                                                 aCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAaga                                     <  1:2884789/56‑1 (MQ=255)

                                                 aCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                          >  1:3783261/1‑67 (MQ=255)

                                                 aCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                          >  1:802678/1‑67 (MQ=255)

                                                 aCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                          >  1:1599931/1‑67 (MQ=255)

                                                 aCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                          >  1:1360909/1‑67 (MQ=255)

                                                 aCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                          >  1:3260461/1‑67 (MQ=255)

                                                 aCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                          >  1:3741130/1‑67 (MQ=255)

                                                   aaaaaaTCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:2395135/71‑1 (MQ=255)

                                                   aaaaaaTCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    >  1:3870323/1‑71 (MQ=255)

                                                    aaaaaTCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATg                               <  1:3504511/59‑1 (MQ=255)

                                                    aaaaaTCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATg                               <  1:1236863/59‑1 (MQ=255)

                                                         tCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGcc              <  1:1216510/71‑1 (MQ=255)

                                                         tCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGcc              <  1:3970694/71‑1 (MQ=255)

                                                             ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                            <  1:1668119/53‑1 (MQ=255)

                                                             ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:1206550/61‑1 (MQ=255)

                                                             ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:852519/61‑1 (MQ=255)

                                                             ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:2941217/61‑1 (MQ=255)

                                                             ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:3282527/61‑1 (MQ=255)

                                                             ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:1803080/61‑1 (MQ=255)

                                                             ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:3158571/61‑1 (MQ=255)

                                                             ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:248724/61‑1 (MQ=255)

                                                             ttGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:3443486/61‑1 (MQ=255)

                                                              tGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAaga                                     <  1:2721866/43‑1 (MQ=255)

                                                               gATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTa                  >  1:3342239/1‑61 (MQ=255)

                                                               gATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTa                  >  1:1492010/1‑61 (MQ=255)

                                                               gATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTa                  >  1:3032092/1‑61 (MQ=255)

                                                               gATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTa                  >  1:2829468/1‑61 (MQ=255)

                                                               gATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTa                  >  1:422561/1‑61 (MQ=255)

                                                                   ccTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTaa        <  1:1142793/67‑1 (MQ=255)

                                                                   ccTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTaa        <  1:667442/67‑1 (MQ=255)

                                                                   ccTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTaa        <  1:1845705/67‑1 (MQ=255)

                                                                   ccTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTaa        <  1:420148/67‑1 (MQ=255)

                                                                   ccTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTaa        <  1:2464748/67‑1 (MQ=255)

                                                                   ccTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTaa        <  1:2539988/67‑1 (MQ=255)

                                                                   ccTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTaa        <  1:379241/67‑1 (MQ=255)

                                                                   ccTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTaa        <  1:3727600/67‑1 (MQ=255)

                                                                     tGTCCCTTTTGTTACACTCCGTTATCACGCACAaga                                     <  1:1548343/36‑1 (MQ=255)

                                                                     tGTCCCTTTTGTTACACTCCGTTATCACGCACAaga                                     <  1:1720258/36‑1 (MQ=255)

                                                                     tGTCCCTTTTGTTACACTCCGTTATCACGCACAaga                                     <  1:741810/36‑1 (MQ=255)

                                                                     tGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTAAAc      >  1:2392991/1‑67 (MQ=255)

                                                                     tGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTAAAc      >  1:3514066/1‑67 (MQ=255)

                                                                     tGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTAAACGCtt  >  1:1340399/1‑71 (MQ=255)

                                                                     tGTCCCTTTTGTTACAATCCGTTATCACCCACAAGAGATATGCAGGACACTGGTAt                 >  1:1828034/1‑56 (MQ=255)

                                                                      gTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:724658/52‑1 (MQ=255)

                                                                      gTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:2045156/52‑1 (MQ=255)

                                                                      gTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:3650444/52‑1 (MQ=255)

                                                                      gTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:1660110/52‑1 (MQ=255)

                                                                      gTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:2144607/52‑1 (MQ=255)

                                                                      gTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:1216743/52‑1 (MQ=255)

                                                                      gTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                    <  1:4105553/52‑1 (MQ=255)

AACGCAGAAACAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTAAACGCTT  >  minE/1132733‑1132872

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