source: tags/ms_r16q3/SH/example_batch_probe_match.sh

#!/bin/bash
#
# This is an example script showing how to match multiple probes
# with one call.
#
# Start a shell using 'ARB_NTREE/Tools/Start XTERM' and run this
# script from there.
#
# Before running this script, start the targeted PT_Server from
# inside ARB - otherwise this script will not terminate for a long time.


# specify your probe match parameters here:
PARAMS='serverid=2 matchmismatches=1'

# Note: Call 'arb_probe' from the command line to see other supported parameters.

match() {
        echo "Matching $1"
        arb_probe $PARAMS matchsequence=$1
}

match_all() {
        # add/modify lines below to suit your needs:
        match CCTCAGTACGAA
        match AACCGGTTAACC
        match ACTGACTGGGCU
        match ACCTGGACTTTT
}

match_all | sed -e 's/\x01/\x0a/g'