New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	4525558 =	28 (0.700)	3 (0.080)	3/330	NT	8.8%	coding (489/1125 nt)	mnmA	tRNA‑specific 2‑thiouridylase MnmA
	?	AE015451	4525653 =	35 (0.890)					coding (584/1125 nt)	mnmA	tRNA‑specific 2‑thiouridylase MnmA

TGTTCGAGCACTTCCTTGAGGAGTACAAGGCCGGCCGCACACCCAACCCCGACATCCTCTGCAACCGCGAAATCAAGTTCAAGGCGTTCCTCGACTACGCCCTGTCGCTGGGTGCCGACCTGATCGCCACCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCTTCATTGGCGAGCGCCGCTTCAGCGACTTCCTCAAGCAGTACCTGCCGGCCCAGCCGGGCGACATCGAAACCACCGAAGGTGAAGTGATCGGCCGCCAC  >  AE015451/4525332‑4525780                                                                                                                                                                                                                                   |                                                                                                                                                                                                                               tgtTCGAGCACTTCCTTGAGGAGTACAAGGCCGGCCGCACACCCAACCCCGACATCCTCTGCAACCGCGAAATCAAGTTCAAGGCGTTCCTCGACTACGCCCTGTCGCTGGGTGCCGACCTGATCGCCACCGGCCACTATGGGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCCGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAg                                                                                                                                                                                                                       >  1:709587/1‑236 (MQ=255)    tCGAGCACTTCCTTGAGGAGTACAAGGCCGGCCGCACACCCAACCCCGACATCCTCTGCAACCGCGAAATCAAGTTCAAGGCGTTCCTCGACTACGCCCTGTCGCTGGGTGCCGACCTGATCGCCACCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGa                                                                                                                                                                                                                     <  1:681222/235‑1 (MQ=255)      gAGCACTTCCTTGAGGAGTACAAGGCCGGCCGCACACCCAACCCCGACATCCTCTGCAACCGCGAAATCAAGTTCAAGGCGTTCCTCGACTACGCCCTGTCGCTGGGTGCCGACCTGATCGCCACCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGCACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAAt                                                                                                                                                                                                                  >  1:120580/1‑236 (MQ=255)              cgtaccacggctcgtcactggcatccttcaggccgccaatgcccaggccctggcgctggccgatggtgtggtacatcaggccatggtggcggccgatcacttcaccttcggtggtttcgatgtcgcccggctgggccggcaggtactgcttgaggaagtcgctgaagcggcgctcgccaatgaagcagatgccggtggagtcttgcttcttggc                                                                                                                                                                                                                                <  2:649463‑M1/1‑1 (MQ=255)                                cggccgCACACCCAACCCCGACATCCTCTGCAACCGCGAAATCAAGTTCAAGGCGTTCCTCGACTACGCCCTGTCGCTGGGTGCCGACCTGATCGCCACCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCgg                                                                                                                                                                                          >  1:613033/1‑234 (MQ=255)                                       cttcaggccgccaatgcccaggccctggcgctggccgatggggtggtacatcaggccatggtggcggccgatcacttcaccttcggtggtttcgatgtcgcccggctgggccggcaggtactgcttgaggaagtcgctgaagcggcgctcgccaatgaagcagatgccggtggaatctttcttcttggCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTgg                                                                                                                                                                                  >  1:40487‑M1/189‑235 (MQ=255)                                           ccAACCCCGACATCCTCTGCAACCGCGAAATCAAGTTCAAGGCGGTCCTCGACTACGCCCTGTCGCTGGGTGCCGACCTGATCGCCACCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGc                                                                                                                                                                                                           <  2:417937/206‑1 (MQ=255)                                                                                           tCGACTACGCCCTGTCGCTGGGTGCCGACCTGATCGCCACCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAGGTACGCGCCATCGCCGAAAAACACgg                                                                                                                                             >  1:136180/1‑220 (MQ=255)                                                                                                tccGCCCTGTCGCTGGGTGCCGCCCTGATCGCCGCCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACAGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGGCGTCGGCGGCCAGGaaa                                                                                                                                                                                                                   <  2:92596/143‑1 (MQ=255)                                                                                                     ccTGTCGCTGGGTGCCGACCTGATCGCCACCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGCACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATGGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCa                                                                                                                                     >  1:709810/1‑218 (MQ=255)                                                                                                        gTCGCTGGGTGCCGACCTGATCGCCACCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGcc                                                                                                                                >  1:686996/1‑220 (MQ=255)                                                                                                                      aCCTGATCGCCACCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACgcgc                                                                                                                                                               >  1:606436/1‑175 (MQ=255)                                                                                                                      aCCTGATCACCACCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCgg                                                                                                            >  2:422985/1‑226 (MQ=255)                                                                                                                              gCCACCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGc                                                                                                           >  1:352399/1‑219 (MQ=255)                                                                                                                                        aCTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCaaga                                                                                                                            >  2:442019/1‑192 (MQ=255)                                                                                                                                        aCTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCTTCATTGGCGAGCGCCGCtt                                                                                 >  1:375614/1‑235 (MQ=255)                                                                                                                                             gtgCGCCGCCGCGATACTGGCGCGCTAACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCTTCATTGGCGAGCGCCGCTTCAg                                                                              <  2:686995/233‑1 (MQ=255)                                                                                                                                                  ccgccgcGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGaaaaa                                                                                                                                                  >  2:561456/1‑160 (MQ=255)                                                                                                                                                      cgcgATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCTTCATTGGCGAGCGCCGCTTCAGCGACTTCCTCa                                                                   >  1:350950/1‑235 (MQ=255)                                                                                                                                                         gATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCTTCATTGGCGAGCGCCGCTTCAGCGACTTCCTCAAg                                                                 >  1:314264/1‑234 (MQ=255)                                                                                                                                                                  cttgaggaagtcgctgaagcggcgctcgccaatgtagcagatgccggtggaatctttcttcttggCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCTTCATTGGCGAGCGCCGCTTCAGCGACTTCCTCAAGCAGTACCTGcc                                                      <  1:270406‑M1/171‑1 (MQ=255)                                                                                                                                                                        aCCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCTTCATTGGCGAGCGCCGCTTCAGCGACTTCCTCAAGCAGTACCTGCTGGCCCa                                                >  1:382879/1‑236 (MQ=255)                                                                                                                                                                        aCCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCTTCATTGGCGAGCGCCGCTTCAGCGACTTCCTCAAGCAGTACCTGCCGGccc                                                 >  1:337843/1‑235 (MQ=255)                                                                                                                                                                                   cAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTTGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCtt                                                                                                   >  2:64893/1‑174 (MQ=255)                                                                                                                                                                                         ccTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCa                                                                                                                                     >  2:473198/1‑134 (MQ=255)                                                                                                                                                                                              aCCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCaa                                                                                                                              >  2:351868/1‑136 (MQ=255)                                                                                                                                                                                                aatgaagcagatgccgggggaatctttcttcttggCGGCGGCCCGGAAATCGCCCGCACACTGTTCCCGGTCGGCGCACTg                                                                                                                                                                                   <  2:254743‑M1/46‑1 (MQ=255)                                                                                                                                                                                                    aCAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCTTCATTGGCGAGCGCCGCTTCAGCGACTTCCTCAAGCAGTACCTGCCGGCCCAGCCGGGCGCCATCGAAACCACCGAAGGt                    >  1:226024/1‑236 (MQ=255)                                                                                                                                                                                                     cAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGaaa                                                                                                                                                                                                                   <  2:372348/44‑1 (MQ=255)                                                                                                                                                                                                     cAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGaaa                                                                                                                                                                                                                   >  1:372349/1‑44 (MQ=255)                                                                                                                                                                                                                      tCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCTTCATTGGCGAGCGCCGCTTCAGCGACTTCCTCAAGCAGTACCTGCCGGCCCAGCCGGGCGACATCGAAACCACCGAAGGTGAAGTGATCGGCCGccac  >  1:416395/1‑236 (MQ=255)                                                                                                                                                                                                                       ccTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCTTCATTGGCGAGCGCCGCTTCAGCGACTTCCTCAAGCAGTACCTGCCGGCCCAGCCGGGCGACATCGAAACCACCGAAGGTGAAGTGATCGGCCGccac  >  1:453629/1‑235 (MQ=255)                                                                                                                                                                                                                                   |                                                                                                                                                                                                                               TGTTCGAGCACTTCCTTGAGGAGTACAAGGCCGGCCGCACACCCAACCCCGACATCCTCTGCAACCGCGAAATCAAGTTCAAGGCGTTCCTCGACTACGCCCTGTCGCTGGGTGCCGACCTGATCGCCACCGGCCACTATGTGCGCCGCCGCGATACTGGCGCGCTCACCGAACTGCTCAAGGGCCTGGACCCGAACAAGGACCAGAGCTACTTCCTGCACGCCGTCGGCGGCCAGGAAATCGCCCGCACACTGTTCCCGGTCGGCGAACTGGAAAAGCCCGAAGTACGCGCCATCGCCGAAAAACACGGCCTGGCCACCGCCAAGAAGAAAGATTCCACCGGCATCTGCTTCATTGGCGAGCGCCGCTTCAGCGACTTCCTCAAGCAGTACCTGCCGGCCCAGCCGGGCGACATCGAAACCACCGAAGGTGAAGTGATCGGCCGCCAC  >  AE015451/4525332‑4525780

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.