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 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,503,875 C→T 23.0% F266F (TTC→TTT)  uhpT → hexose phosphate transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,503,8750CT23.0% 286.9 / 69.2 207F266F (TTC→TTT) uhpThexose phosphate transporter
Reads supporting (aligned to +/- strand):  ref base C (54/105);  new base T (31/17);  total (85/122)
Fisher's exact test for biased strand distribution p-value = 2.11e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01

Only 100 of 207 total aligned reads displayed.

ATGACCAAGTGGCAGATCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGTATACGCGTTCCAGG  >  minE/2503810‑2503942
                                                                 |                                                                   
atGACCAAGTGGCAGATCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGcc                                                                  >  1:456968/1‑69 (MQ=255)
atGACCAAGTGGCAGATCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGcc                                                                  >  1:488128/1‑69 (MQ=255)
       aGTGGCAGATCTTTGTTGAGTATTTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACAttt                                                           <  1:3149860/69‑1 (MQ=255)
       aGTGGCAGATCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACAttt                                                           <  1:967019/69‑1 (MQ=255)
       aGTGGCAGATCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACAttt                                                           <  1:1999918/69‑1 (MQ=255)
       aGTGGCAGATCTTTGTTGAGTATGTCCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACAttt                                                           <  1:2991556/69‑1 (MQ=255)
        gTGGCAGATCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACAttt                                                           <  1:2920534/68‑1 (MQ=255)
             aGATCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      <  1:3414001/68‑1 (MQ=255)
             aGATCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      <  1:2977586/68‑1 (MQ=255)
             aGATCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      <  1:2508215/68‑1 (MQ=255)
             aGATCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      <  1:1125657/68‑1 (MQ=255)
                tCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTAtg                                                  >  1:2580718/1‑69 (MQ=255)
                tCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTAtg                                                  >  1:2403300/1‑69 (MQ=255)
                tCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTAtg                                                  >  1:2363168/1‑69 (MQ=255)
                tCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTAtg                                                  >  1:2248814/1‑69 (MQ=255)
                tCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTAtg                                                  >  1:3356077/1‑69 (MQ=255)
                 cTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      >  1:1829134/1‑64 (MQ=255)
                 cTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      <  1:3173579/64‑1 (MQ=255)
                 cTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      >  1:2307557/1‑64 (MQ=255)
                 cTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      <  1:1523993/64‑1 (MQ=255)
                 cTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      >  1:393698/1‑64 (MQ=255)
                 cTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      >  1:613024/1‑64 (MQ=255)
                 cTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      >  1:861272/1‑64 (MQ=255)
                 cTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      <  1:1516854/64‑1 (MQ=255)
                 cTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTAtgt                                                 >  1:1673119/1‑69 (MQ=255)
                 cTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTAtgt                                                 >  1:1456423/1‑69 (MQ=255)
                      ttgAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTAtgt                                                 <  1:3200313/64‑1 (MQ=255)
                      ttgAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTAtgt                                                 <  1:2067491/64‑1 (MQ=255)
                      ttgAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTgg                                               <  1:1481145/66‑1 (MQ=255)
                      ttgAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTgg                                               <  1:3382664/66‑1 (MQ=255)
                      ttgAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTgg                                               <  1:1356175/66‑1 (MQ=255)
                      ttgAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGt                                              <  1:3374345/67‑1 (MQ=255)
                      ttgAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGt                                              <  1:2333416/67‑1 (MQ=255)
                      ttgAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGt                                              <  1:1575148/67‑1 (MQ=255)
                      ttgAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGt                                              <  1:1262205/67‑1 (MQ=255)
                        gAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACg                                           <  1:1816482/68‑1 (MQ=255)
                        gAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACg                                           <  1:3025928/68‑1 (MQ=255)
                         aGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACg                                           <  1:129399/67‑1 (MQ=255)
                           tATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTAtt                                       >  1:1536193/1‑69 (MQ=255)
                           tATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTAtt                                       >  1:1787686/1‑69 (MQ=255)
                           tATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTAtt                                       >  1:1176889/1‑69 (MQ=255)
                           tATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTAtt                                       >  1:1143977/1‑69 (MQ=255)
                           tATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTAtt                                       >  1:760296/1‑69 (MQ=255)
                           tATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTAtt                                       >  1:346293/1‑69 (MQ=255)
                             tgtgCTGAAAAACAAAGTGATCTGGGTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTgg                                     >  1:240846/1‑69 (MQ=255)
                               tgCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      <  1:443995/50‑1 (MQ=255)
                               tgCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGt                                    >  1:1752182/1‑68 (MQ=255)
                               agCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCctc                                                      >  1:3193394/2‑50 (MQ=255)
                                 cTGAAAAACAAAGTGATCTGGCTGCTGTGCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATc                                 <  1:1036109/69‑1 (MQ=255)
                                 cTGAAAAACAAAGTGATCTGGCTGCTGTGCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATc                                 <  1:1910069/69‑1 (MQ=255)
                                 cTGAAAAACAAAGTGATCTGGCTGCTGTGCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATc                                 <  1:2690821/69‑1 (MQ=255)
                                 cTGAAAAACAAAGTGATCTGGCTGCTGTGCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATc                                 <  1:658746/69‑1 (MQ=255)
                                 cTGAAAAACAAAGTGATCTGGCTGCTGTGCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATc                                 <  1:2198987/69‑1 (MQ=255)
                                  tGAAAAACAAAGTGATCTGGCTGCTGTGCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATc                                 <  1:1309171/68‑1 (MQ=255)
                                    aaaaaCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCg                                >  1:2835239/1‑67 (MQ=255)
                                      aaaCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGAcc                             <  1:1087109/68‑1 (MQ=255)
                                      aaaCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGAcc                             <  1:809999/68‑1 (MQ=255)
                                      aaaCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGAcc                             <  1:2817673/68‑1 (MQ=255)
                                      aaaCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGAcc                             <  1:840427/68‑1 (MQ=255)
                                      aaaCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGAcc                             <  1:1696249/68‑1 (MQ=255)
                                      aaaCAAAGTGATATGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGAcc                             <  1:3228895/68‑1 (MQ=255)
                                       aaCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAg                           <  1:745600/69‑1 (MQ=255)
                                       aaCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAg                           <  1:1371383/69‑1 (MQ=255)
                                       aaCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAg                           <  1:1665443/69‑1 (MQ=255)
                                       aaCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAg                           <  1:2316593/69‑1 (MQ=255)
                                       aaCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAg                           <  1:212970/69‑1 (MQ=255)
                                       aaCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAg                           <  1:2112589/69‑1 (MQ=255)
                                        aCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGt                          >  1:645883/1‑69 (MQ=255)
                                        aCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGt                          >  1:504303/1‑69 (MQ=255)
                                        aCAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGt                          >  1:446461/1‑69 (MQ=255)
                                                  cTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCg                 <  1:227717/68‑1 (MQ=255)
                                                  cTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCg                 <  1:2892891/68‑1 (MQ=255)
                                                  cTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCg                 <  1:2453599/68‑1 (MQ=255)
                                                  cTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCg                 <  1:3278975/68‑1 (MQ=255)
                                                  cTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCg                 <  1:1370222/68‑1 (MQ=255)
                                                       tgctgTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGta               <  1:3039340/65‑1 (MQ=255)
                                                       tgctgTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGta               <  1:881950/65‑1 (MQ=255)
                                                       tgctgTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGta               <  1:1195461/65‑1 (MQ=255)
                                                       tgctgTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGta               <  1:523702/65‑1 (MQ=255)
                                                       tgctgTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGta               <  1:2532247/65‑1 (MQ=255)
                                                       tgctgTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGta               <  1:1742128/65‑1 (MQ=255)
                                                       tgctgTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGta               <  1:2796443/65‑1 (MQ=255)
                                                       tgctgTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGta               <  1:1591896/65‑1 (MQ=255)
                                                       tgctgTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGta               <  1:2732932/65‑1 (MQ=255)
                                                            tgCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATCGCCCAGTGGTCAACCGTGTATGCGt        >  1:1044114/1‑67 (MQ=255)
                                                            tgCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATCGACCAGTGGTCAACCGTGTATGCGt        >  1:728997/1‑67 (MQ=255)
                                                            tgCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATCGACCAGTGGTCAACCGTGTATGCGt        >  1:1895945/1‑67 (MQ=255)
                                                            tgCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATCGACCAGTGGTCAACCGTGTATGCGt        >  1:2203091/1‑67 (MQ=255)
                                                            tgCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATCGACCAGTGGTCAACCGTGTATGCGt        >  1:779192/1‑67 (MQ=255)
                                                            tgCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATCGACCAGTGGTCAACCGTGTATGCGt        >  1:1026999/1‑67 (MQ=255)
                                                            tgCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATCGACCAGTGGTCAACCGTGTATGCGt        >  1:1648676/1‑67 (MQ=255)
                                                            tgCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATCGACCAGTGGTCAACCGTGTATGCGt        >  1:1946329/1‑67 (MQ=255)
                                                            tgCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATCGACCAGTGGTCAACCGTGTATGCGt        >  1:1630311/1‑67 (MQ=255)
                                                            tgCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATCGACCAGTGGTCAACCGTGTATGCGt        >  1:545559/1‑67 (MQ=255)
                                                            tgCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATCGACCAGTGGTCAACCGTGTATGCGt        >  1:1544483/1‑67 (MQ=255)
                                                            tgCTTTGCCAACATTTTCCTCTATGTGGTGCGTATTGGTATCGACCAGTGGTCAACCGTGTATGCGt        >  1:2627681/1‑67 (MQ=255)
                                                                tCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGTATACGCGTTCCAgg  <  1:738383/69‑1 (MQ=255)
                                                                tCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGTATACGCGTTCCAgg  <  1:711298/69‑1 (MQ=255)
                                                                tCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGTATACGCGTTCCAgg  <  1:1556361/69‑1 (MQ=255)
                                                                tCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGTATACGCGTTCCAgg  <  1:1200581/69‑1 (MQ=255)
                                                                 |                                                                   
ATGACCAAGTGGCAGATCTTTGTTGAGTATGTGCTGAAAAACAAAGTGATCTGGCTGCTGTGCTTCGCCAACATTTTCCTCTATGTGGTACGTATTGGTATCGACCAGTGGTCAACCGTATACGCGTTCCAGG  >  minE/2503810‑2503942

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