There is high throughput sequencing data here, and I don't know what format it is in.
It was submitted in 2009, and the description says the following:
Library strategy: ncRNA-Seq
Library source: transcriptomic
Library selection: size fractionation
Instrument model: Illumina Genome Analyzer II
Description: CIPPNK, tar file of Illumina *_seq.txt files provided as supplementary file
I got the archive here:
Inside, there are 330 files from
s_1_0330_seq.txt which are tab-delimited text files where the first column is always
1, the second has the number found in the file name, then 2 mysterious integers, and then what looks like a read of length 36, with sometimes a dot instead of a letter:
$ head s_1_0330_seq.txt 1 330 690 785 TTCCTACATTGTTCCCCCATGCTGTTGGCACCATCA 1 330 44 145 TTTTTATCACGAGTTTTAAATCTGTAGTCACCATCA 1 330 53 141 AATAATGCATAACAAAACGGAATCTGTAGAA.AAA. 1 330 784 461 TAATTGTAGTGATTGATCAATCTGTAGGCACCATCA 1 330 588 634 TATTATGCACATTTTCTAGTTCACTGTAGGCACCAT 1 330 718 678 TTACATGTTTCGGGTAGGAGCCTGTAGGCACCATCA 1 330 635 834 TGTGATCATTAGTTCAAAGCCCCCTGTCGGCACCCT 1 330 494 523 TGAAAATCAAAAATGCTGAACTGTAGGCACCATCAA 1 330 393 783 TTTTTTTTTAAATTTAAAAAAACTGTAGGCACCATC 1 330 48 148 GTTTAACCGTGTAGACGTTGGTTTCTGTAGGCACCA
This seems to be some "old" high-throughput sequencing format. I think someone in a 2008 message in sequanswers was dealing with this type of file:
What is this format that seemed so standard back then, that the authors did not give more info than describing the files as "Illumina *_seq.txt files"? I do not dare ask them for such a trivial question (the given contact is a Nobel prize laureate and is probably too busy to answer random bioinformatics questions).
In particular, what are the columns 3 and 4, and what do the dots mean?