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
A5 F1 I2 R1	772	77.0	3769570	91.6%	3452926	105.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,139,406	Δ1 bp	coding (1029/1644 nt)	flgK →	flagellar hook‑filament junction protein 1

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,139,406	0	T	.	98.6%	286.3 / ‑3.0	73	coding (1029/1644 nt)	flgK	flagellar hook‑filament junction protein 1
Reads supporting (aligned to +/- strand): ref base T (0/1); new base . (31/41); total (31/42)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACAACTGGCGCTGGCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGGTGACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCGATAATAATCAGTGGCAGGTCACCCGCCTTGCCAGCAATACCACTTTTACGGTGACGC  >  NC_000913/1139274‑1139533

aCAACTGGCGCTGGCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTg                                                                                                                          >  2:1375120/1‑139 (MQ=255)

 cAACTGGCGCTGGCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGc                                                                                                                         >  2:776439/1‑139 (MQ=255)

    cTGGCGCTGGCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGAt                                                                                                                      <  2:434891/139‑1 (MQ=255)

    cTGGCGCTGGCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGAt                                                                                                                      <  2:232108/139‑1 (MQ=255)

    cTGGCGCTGGCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGAt                                                                                                                      >  1:752082/1‑139 (MQ=255)

      ggCGCTGGCGTTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTCTTTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATc                                                                                                                     <  2:1879784/139‑1 (MQ=255)

         gcTGGCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGAt                                                                                                                      <  1:1883094/134‑1 (MQ=255)

         gcTGGCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGAt                                                                                                                      >  2:1883094/1‑134 (MQ=255)

          cTGGCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGc                                                                                                                <  1:1841866/139‑1 (MQ=255)

           tGGCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGcc                                                                                                               <  1:1375120/139‑1 (MQ=255)

            ggCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGc                                                                                                                >  1:1279947/1‑137 (MQ=255)

            ggCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGc                                                                                                                <  2:1279947/137‑1 (MQ=255)

             gCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCAc                                                                                                             <  2:752082/139‑1 (MQ=255)

                         gCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGc                                                                                                 <  2:185080/139‑1 (MQ=255)

                            ttCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTc                                                                                              >  2:985794/1‑139 (MQ=255)

                             tCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTcc                                                                                             >  1:169245/1‑139 (MQ=255)

                              cAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCcg                                                                                            <  2:169245/139‑1 (MQ=255)

                              cAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCcg                                                                                            <  2:1830108/139‑1 (MQ=255)

                              cAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCcg                                                                                            <  1:747202/139‑1 (MQ=255)

                                acacCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGTTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCcgcg                                                                                          <  1:1108244/139‑1 (MQ=255)

                                acacCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCcgcg                                                                                          <  2:1631836/139‑1 (MQ=255)

                                   cccAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTa                                                                                       >  2:661808/1‑139 (MQ=255)

                                       acacAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACgg                                                                                                           >  2:834383/1‑115 (MQ=255)

                                       acacAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACgg                                                                                                           <  1:834383/115‑1 (MQ=255)

                                        cacaAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGc                                                                                                 <  2:1497518/124‑1 (MQ=255)

                                        cacaAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGc                                                                                                 >  1:1497518/1‑124 (MQ=255)

                                          caAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGa                                                                                <  1:1185679/139‑1 (MQ=255)

                                          caAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGa                                                                                <  1:1227703/139‑1 (MQ=255)

                                           aaaGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGAc                                                                               <  1:933231/139‑1 (MQ=255)

                                            aaGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACa                                                                              <  1:987104/139‑1 (MQ=255)

                                              gCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGa                                                                            <  1:230102/139‑1 (MQ=255)

                                                  gATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTAc                                                                        >  2:999/1‑139 (MQ=255)

                                                        aTGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTGGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAAtc                                                                  <  2:1682776/139‑1 (MQ=255)

                                                         tGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAAtct                                                                 <  1:776439/139‑1 (MQ=255)

                                                             aaCGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGa                                                                                >  2:617912/1‑120 (MQ=255)

                                                             aaCGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGa                                                                                <  1:617912/120‑1 (MQ=255)

                                                             aaCGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGtt                                                             >  1:802665/1‑139 (MQ=255)

                                                             aaCGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCCCGtt                                                             >  1:435756/1‑139 (MQ=255)

                                                               cGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCg                                                           <  2:802665/139‑1 (MQ=255)

                                                                  cGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCcg                                                                                            >  1:1857152/1‑103 (MQ=255)

                                                                  cGATGCCGGTGAAGATTTC‑TGTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCcg                                                                                            <  2:1857152/103‑1 (MQ=255)

                                                                   gATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCGataa                                                       <  1:999/139‑1 (MQ=255)

                                                                    aTGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAATGT‑ACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGa                                                                                <  1:1562440/113‑1 (MQ=255)

                                                                    aTGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCg                                                                                 <  1:495631/112‑1 (MQ=255)

                                                                    aTGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCg                                                                                 >  2:495631/1‑112 (MQ=255)

                                                                    aTGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGa                                                                                >  2:1562440/1‑113 (MQ=255)

                                                                          gTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACa                                                                       <  1:445269/116‑1 (MQ=255)

                                                                          gTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACa                                                                       >  2:445269/1‑116 (MQ=255)

                                                                                  ttC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCg                                                                                                                        >  1:1310689/1‑59 (MQ=255)

                                                                                  ttC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCg                                                                                                                        <  2:1310689/59‑1 (MQ=255)

                                                                                             tCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCGATAATAATCAGTGGCAGGTCACCCGCCtt                              <  2:435756/139‑1 (MQ=255)

                                                                                               ggTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCg                                                                                                                    <  2:181924/51‑1 (MQ=255)

                                                                                               ggTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCg                                                                                                                    >  1:181924/1‑51 (MQ=255)

                                                                                                gTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACt                                                                                     <  1:1525684/81‑1 (MQ=255)

                                                                                                gTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACt                                                                                     >  2:1525684/1‑81 (MQ=255)

                                                                                                gTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCGATAATAATCAGTGGCAGGTCACCCGCCTTGcc                           <  1:691717/139‑1 (MQ=255)

                                                                                                    gCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGAt                                                                                                   >  1:1415089/1‑63 (MQ=255)

                                                                                                    gCCCGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGAt                                                                                                   <  2:1415089/63‑1 (MQ=255)

                                                                                                     cccGCGGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCGATAATAATCAGTGGCAGGTCACCCGCCTTGCCAGCaa                      >  2:32675/1‑139 (MQ=255)

                                                                                                        gcgGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCGATAATAATCAGTGGCAGGTCACCCGCCTTGCCAGCAATAc                   <  1:985794/139‑1 (MQ=255)

                                                                                                        gcgGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCGATAATAATCAGTGGCAGGTCACCCGCCTTGCCAGCAATAc                   <  2:1577037/139‑1 (MQ=255)

                                                                                                         cgGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGt                                                                                                                  >  2:1733541/1‑43 (MQ=255)

                                                                                                         cgGTTCTGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGt                                                                                                                  <  1:1733541/43‑1 (MQ=255)

                                                                                                               tGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTc                                                                                              >  2:395021/1‑57 (MQ=255)

                                                                                                               tGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTc                                                                                              <  1:395021/57‑1 (MQ=255)

                                                                                                               tGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGa                                                                                <  2:1874424/71‑1 (MQ=255)

                                                                                                               tGCAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGa                                                                                >  1:1874424/1‑71 (MQ=255)

                                                                                                                 cAAAACACGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCGATAATAATCAGTGGCAGGTCACCCGCCTTGCCAGCAATACCACTTTTAc          >  2:216693/1‑139 (MQ=255)

                                                                                                                      cacGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTc                                                                                              >  2:475381/1‑50 (MQ=255)

                                                                                                                      cacGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTc                                                                                              <  1:475381/50‑1 (MQ=255)

                                                                                                                      cacGAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCGATAATAATCAGTGGCAGGTCACCCGCCTTGCCAGCAATACCACTTTTACGGTGa     >  1:1612210/1‑139 (MQ=255)

                                                                                                                      cacGAAAAACAAAGG‑GACGTTGCGATCGGGGCCACGGTAACTGATACCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCGATAATAATCAGTGGCAGGTCACCCGCCTTGCCAGCAATACCACTTTTACGGTGa     >  1:1084740/1‑139 (MQ=255)

                                                                                                                         gAAAAACAAAGG‑GACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCGATAATAATCAGTGGCAGGTCACCCGCCTTGCCAGCAATACCACTTTTACGGTGACGc  >  2:1772602/1‑139 (MQ=255)

ACAACTGGCGCTGGCATTTGCCGAGGCTTTCAACACCCAACACAAAGCCGGATTTGATGCTAACGGCGATGCCGGTGAAGATTTC‑TTTGCTATCGGTAAGCCCGCGGTTCTGCAAAACACGAAAAACAAAGGTGACGTTGCGATCGGTGCCACGGTAACTGATGCCTCCGCGGTACTGGCGACAGATTACAAAATCTCGTTCGATAATAATCAGTGGCAGGTCACCCGCCTTGCCAGCAATACCACTTTTACGGTGACGC  >  NC_000913/1139274‑1139533

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