New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 742778	NA (NA)	5 (0.100)	4/248	NT	NA	coding (879/1422 nt)	PP_0635	group II intron‑encoding maturase
	?	NC_002947	= 742807	NA (NA)					coding (908/1422 nt)	PP_0635	group II intron‑encoding maturase

GCAAGGCGGCCCGCTTTCGCCGTTGCTGTCGAATATCCTGCTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGTCAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/742625‑742778 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gtcagcTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCAGGA  <  NC_002947/742807‑742660                                                                                                                                                                                                                                                                                                                  GCAAGGCGGCCCGCTTTCGCCGTTGCTGTCGAATATCCTGCTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGG                                                                                                                                                             >  8:273325/1‑149  CAAGGCGGCCCGCTTTCGCCGTTGCTGTCGAATATCCTGCTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGT                                                                                                                                                            <  8:289356/149‑1  CAAGGCGGCCCGCTTTCGCCGTTGCTGTCGAATATCCTGCTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGT                                                                                                                                                            <  3:148181/149‑1   AAGGCGGCCCGCTTTCGCCGTTGCTGTCGAATATCCTGCTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGTC                                                                                                                                                           <  6:204360/149‑1   AAGGCGGCCCGCTTTCGCCGTTGCTGTCGAATATCCTGCTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGT                                                                                                                                                            >  5:32299/1‑148   AAGGCGGCCCGCTTTCGCCGTTGCTGTCGAATATCCTGCTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGT                                                                                                                                                            >  3:72169/1‑148    AGGCGGCCCGCTTTCGCCGTTGCTGTCGAATATCCTGCTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGTGTGTTGGTCA                                                                                                                                                          <  5:18306/149‑1                TTCGCCGTTGCTGTCGAATATCCTGCTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGT                                                                                                                                                            <  6:141640/135‑1                TTCGCCGTTGCTGTCGAATATCCTGCTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGT                                                                                                                                                            >  5:141640/1‑135                                       TGCTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGTCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCT                                                                                                                        >  5:49705/1‑148                                         CTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGTCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGAC                                                                                                                     <  5:278915/149‑1                                         CTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGTCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGAC                                                                                                                     <  6:49705/149‑1                                            GACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGTCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCA                                                                                                                   <  8:286129/148‑1                                            GACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGTCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCA                                                                                                                   >  7:286129/1‑148                                                                                                                                                     GTCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCCCCAGCTCGCG                      <  3:271005/134‑1                                                                                                                                                     GTCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCCCCAGCTCGCG                      >  4:271005/1‑134                                                                                                                                                      TCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGC      <  4:79052/149‑1                                                                                                                                                      TCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGC      <  6:169742/149‑1                                                                                                                                                      TCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGC      <  8:223410/149‑1                                                                                                                                                      TCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGC      <  8:35611/149‑1                                                                                                                                                      TCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTC                   <  1:6166/136‑1                                                                                                                                                      TCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTC                   >  2:6166/1‑136                                                                                                                                                      TCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCACCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAG       >  6:293962/1‑148                                                                                                                                                      TCAGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGATGACAAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAACCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAG       >  2:43295/1‑148                                                                                                                                                       CAGCTTCAGACGTGCTCTCCGGAAGCGCCCGACGCTGACCAACACCCGTTCGCCGGCCCCGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATACCGTACGAACCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCA     <  2:93294/149‑1                                                                                                                                                        AGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCATCTCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAG       <  1:271401/148‑1                                                                                                                                                        AGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCA     <  5:60688/148‑1                                                                                                                                                        AGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCA     <  8:73709/148‑1                                                                                                                                                        AGCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCA     <  5:239683/148‑1                                                                                                                                                         GCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCAGG   <  3:173641/149‑1                                                                                                                                                         GCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCAGG   <  4:220980/149‑1                                                                                                                                                         GCTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCAG    >  3:292493/1‑148                                                                                                                                                          CTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGATTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCAGGA  >  1:62422/1‑149                                                                                                                                                          CTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCAGGA  <  7:89818/149‑1                                                                                                                                                          CTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCAGGA  >  6:140051/1‑149                                                                                                                                                          CTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCAGGA  <  2:289881/149‑1                                                                                                                                                          CTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCAGGA  >  2:235788/1‑149                                                                                                                                                          CTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCA     >  6:99070/1‑146                                                                                                                                                          CTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCA     <  5:99070/146‑1                                                                                                                                                                                                                                                                                                                  GCAAGGCGGCCCGCTTTCGCCGTTGCTGTCGAATATCCTGCTCGACGAACTCGACCGCGAGCTGGAGCGGCGGGGCCATCGCTTCGTACGTTATGCCGATGATGCGAACATCTATGTACGCAGTCCCCGGGCCGGCGAACGGGTGTTGGTCAGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/742625‑742778 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gtcagcTTCAGACGTTCTCTCAGGAAGCGCTCGACGCTGACCAACACCCGTTCGCCGGCCCGGGGACTGCGTACATAGATGTTCGCATCA‑‑TCGGCATAACGTACGAAGCGATGGCCCCGCCGCTCCAGCTCGCGGTCGAGTTCGTCGAGCAGGA  <  NC_002947/742807‑742660

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.