Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01019209.1 Corchorus olitorius cultivar O-4 contig19242, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10754
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Found at i:2251 original size:332 final size:327
Alignment explanation
Indices: 1002--2868 Score: 1709
Period size: 329 Copynumber: 5.6 Consensus size: 327
992 CTGTGGTCTT
** * * *
1002 GGAACGCGTTTTTAGCTAAAAAACCGTGATGGTTAGTATACGATTTCGGCTTAAATTTTGAAAAA
1 GGAACGCGTTTTTAGC-CGAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAA
* * * * * *
1067 ATTGACCC-AAAAAATTTTCCTCAATTTTTGGCTAATATACTCATAAAAAATATATAATTCGACA
65 ATTGACCCGAAAGATTTTTCCTCAATTTTTAGC-AAAATACTCATAAAAAGTATATAATTCAACA
* * * * * * * * *
1131 TCAAAAAAATTGATGGGCTTTTGACACTTCTAATATTGTTTTTCCTATTTTT-TCAAATTAATTT
129 -CCAAAAAATTGA-AGACTTTTCACGCTTTTAATATAGTTTTTCATATTTTTCT-GAATTAATTT
* * * * *
1195 CTAATTAAATCGAGACAAGATTCAGATGCTCGTAAAACCAAATTCTTAAATCTAATGTGGCTGAG
191 CTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTAAG
* * * * *
1260 ATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAAAATCATGCAAAACTAAGCC
256 ATTTGATTAGATGAATATAGGTATTTCAAGGAGTCTTGGAACCAAAAATCATGCAAAACTGAGTC
*
1325 GGGTCCC
321 GGGCCCC
* * * * *
1332 GGAAAGCGGTTTTAGCCGAAAACCGCGATGGTTAGTACATGATTTCGGAT-AAATTTTGCAAAAA
1 GGAACGCGTTTTTAGCCGAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
* * * * * *
1396 TTGACTCAAAAGATATTTCCTCGATTTCTAGCGAAAATACTTATAAAAAGTATATAATTCAACAC
66 TTGACCCGAAAGATTTTTCCTCAATTTTTAGC-AAAATACTCATAAAAAGTATATAATTCAACAC
* * * *
1461 CAAATAAATTGAAAGCCTTTTTCACGTTTTTAATATCGTTTTTCATATTTTCCTGAATTAATTTC
130 CAAA-AAATTG-AAGAC-TTTTCACGCTTTTAATATAGTTTTTCATATTTTTCTGAATTAATTTC
* * * * * *
1526 TAATAAAATCGAAACAAGATTCAGATGCTCGTAAGAACAAATCCTTCAGTTCAATGTGGCTGAGA
192 TAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTAAGA
* * *
1591 TTTGATTAGTTGAATATAGGTATTTCAAGGACG-CTCGGAACCAAAAATCCTGCAAAACTGAGTC
257 TTTGATTAGATGAATATAGGTATTTCAAGGA-GTCTTGGAACCAAAAATCATGCAAAACTGAGTC
*
1655 GGTCCCC
321 GGGCCCC
* * * * * * * *
1662 GGAATGCGTTTTTTAGCCGAAAACCG-CA---ATCGTACATGATTTTCGGCTATAATTTTGTAAT
1 GGAACGCG-TTTTTAGCCGAAAACCGTGATGGTTAGTACACGA-TTTCGGCTAAAATTTTGCAAA
* * * * * *
1723 AATTGACTCAAAAGATTTTTCCTCGATTTCTAGCGAAAATACTCATAAAAAGCATATAATTCAAT
64 AATTGACCCGAAAGATTTTTCCTCAATTTTTAGC-AAAATACTCATAAAAAGTATATAATTCAAC
* * * *
1788 GCCAAATAAATTGAAAGCCTTTTTCACGCTTTTAATATCA-TTTCTCATATTTTCCTGAATTAAT
128 ACCAAA-AAATTG-AAGAC-TTTTCACGCTTTTAATAT-AGTTTTTCATATTTTTCTGAATTAAT
* * *
1852 TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTGAGTTCAATGTGGCTA
189 TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTA
* * *
1917 AGATTTGATTAGTTGAATATAGGTATTTCAAGGACG-CTCGGAACCAAAAATCCTGCAAAACTGA
254 AGATTTGATTAGATGAATATAGGTATTTCAAGGA-GTCTTGGAACCAAAAATCATGCAAAACTGA
1981 GTCGGGCCCC
318 GTCGGGCCCC
* *
1991 GGAATGCGTTTTTTAGCCGAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTACAAAA
1 GGAACGCG-TTTTTAGCCGAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAA
* * * *
2056 ATTGACCCGAAAGATTTTTCCGCCAATTTTTGGCTTAAATACTCAT-AAAA-TATATATATTGTA
65 ATTGACCCGAAAGATTTTTCC-TCAATTTTTAGC-AAAATACTCATAAAAAGTATATA-ATT-CA
* * *
2119 ACGCCAAAAAGATTTGAAGACTTTTCACGCTTTTAATATAGTTTTACATATTTTTCTTAATTAAT
126 ACACCAAAAA-A-TTGAAGACTTTTCACGCTTTTAATATAGTTTTTCATATTTTTCTGAATTAAT
* * * * * * *
2184 TTGTAGTTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAACTTCTTCAATCCAAAGTAGCTA
189 TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTA
* * * * ** * *
2249 AGATTAGATTAAATGAATAT-GGATATCTCAAAGAGTCTTGGCGCCAAAAATCATGGAAAACTTA
254 AGATTTGATTAGATGAATATAGG-TATTTCAAGGAGTCTTGGAACCAAAAATCATGCAAAACTGA
*
2313 ATCGGGTCCCC
318 GTCGGG-CCCC
* * * * * * * * *
2324 GAAACGCGCTTTTAACCAAAAACAGTGATGATTATTACACGATTTCGGCTACAATTTTGCCAAAA
1 GGAACGCGTTTTTAGCCGAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
* * * * * *
2389 TTGACTCGAAAG-TTATTTCCTCAATTGTTATCCACAATACTCATAAAAATTATATAATTCAACT
66 TTGACCCGAAAGATT-TTTCCTCAATTTTTA-GCAAAATACTCATAAAAAGTATATAATTCAACA
* ** * * * * * *
2453 CCAAAAAGAATGAAGGTTTTTTAATGCTTCTAATATCGTTTTTCTTATTATTTTCCGAATTAATT
129 CCAAAAA-ATTGAA-GACTTTTCACGCTTTTAATATAGTTTTTCATA-T-TTTTCTGAATTAATT
* * * *** *
2518 TCTAATTAAATCGAAACATGATTCGGATGCTTGT-TGTACAAATCCTTAAATCCAATGTGGCTAT
190 TCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTAA
* * * * * * *
2582 GATTT-AGTTAGGTGAATGTAGATATTTCAAGGAGTCTTGGAGCAAAAAATCATGCAACACTGAA
255 GATTTGA-TTAGATGAATATAGGTATTTCAAGGAGTCTTGGAACCAAAAATCATGCAAAACTGAG
* *
2646 CCGGGGCCTC
319 TC-GGGCCCC
* ** * * * * *
2656 GGAACGCGTTTTGAGCAAAAAAACAGTAATTTCGATTAACGTGCACGATTTCGGCTAGAATTTTG
1 GGAACGCGTTTTTAGC-CGAAAACCGTGA--T-GGTT-A-GTACACGATTTCGGCTAAAATTTTG
* * * * **
2721 CAAAAATTGACCAGAAATATTTTCCCTCAATTGTT-GTCTAAAATACTCATAAAATCTATATAAT
60 CAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAG-C-AAAATACTCATAAAAAGTATATAAT
* * * * *
2785 TCAACTCCAAAAAGATTAGAGGACTTTTCTCGCCTTTAACATCA-TTTTTCATATTTTTCTGAAT
123 TCAACACCAAAAA-ATT-GAAGACTTTTCACGCTTTTAATAT-AGTTTTTCATATTTTTCTGAAT
*
2849 TAATTTCAAATTAAATCGAA
185 TAATTTCTAATTAAATCGAA
2869 CAGTGGTCCT
Statistics
Matches: 1284, Mismatches: 209, Indels: 82
0.82 0.13 0.05
Matches are distributed among these distances:
327 9 0.01
328 30 0.02
329 370 0.29
330 180 0.14
331 82 0.06
332 351 0.27
333 111 0.09
334 3 0.00
335 1 0.00
336 32 0.02
337 3 0.00
338 108 0.08
339 4 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (327 bp):
GGAACGCGTTTTTAGCCGAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
TTGACCCGAAAGATTTTTCCTCAATTTTTAGCAAAATACTCATAAAAAGTATATAATTCAACACC
AAAAAATTGAAGACTTTTCACGCTTTTAATATAGTTTTTCATATTTTTCTGAATTAATTTCTAAT
TAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTAAGATTTG
ATTAGATGAATATAGGTATTTCAAGGAGTCTTGGAACCAAAAATCATGCAAAACTGAGTCGGGCC
CC
Found at i:3609 original size:329 final size:327
Alignment explanation
Indices: 2879--4416 Score: 1382
Period size: 329 Copynumber: 4.6 Consensus size: 327
2869 CAGTGGTCCT
* * * * *
2879 GGAACGAGTTTTTAACCAAAAAATCGTGATGGTTAGTATACGATTTCGGCTAAAATTTTGCAAAA
1 GGAACGCGTTTTTAGCC-GAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAA
* * ** **
2944 ATTGACCCAAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATATATAATTCGATA
65 ATTGACCCAAAAGATTTTTCCTCAATTTTTAGCTAAAATACTCAT-AAAAATATAT-ATTTAACG
* * * * * * * *
3009 TCAAAAAAATTAAAGGGC-TTTTGACGCTTCTAATATTGTTGTTCATCCTATTTT-TTCAAATTA
128 CCAAAAAGATTGAA-GGCTTTTTCACGCTTCTAATATCGTT-TT--TCATATTTTCCT-GAATTA
* *
3072 ATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACCAAATTCTTAAATCTAATGTGG
188 ATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA--AAATCCTTAATTCTAATGTGG
* * * ** *
3137 CTGAGATTTGGTTAGATGAATATAGATATTTTAAGGAGTCTTGGCTCTAAAAATCATGCAAAACT
251 CTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGGAGCAAAAAATCATGCAAAACT
* * *
3202 AAG-CCGGTCTCC
316 GAGTCGGGCCT-C
* * * *
3214 GGAACGCGGTTTTAGCCGAAAACCGCGATGGTTATTACATGATTTCGGCTAAAATTTTGCAAAAA
1 GGAACGCGTTTTTAGCCGAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
* * * *
3279 TTGACTCAAAAGATTTTTCCTCAATTTCTAGCGAAAATACTCATAAAAGTATATATTTCAACGCC
66 TTGACCCAAAAGATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAAATATATATTT-AACGCC
* *
3344 AAATAA-ATTGAAAGCCTTTTTCACGCTTTTAATATCGTTTTTCATATTTTCCTGAATTAATTTC
130 AAA-AAGATTG-AAGGCTTTTTCACGCTTCTAATATCGTTTTTCATATTTTCCTGAATTAATTTC
* *
3408 TTATTAAATCGAAACATGATTCAGATGCTCGTAAAAAAAATCCTTAAGTTC-AATGTGGCTGAGA
193 TAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAATCCTTAA-TTCTAATGTGGCTGAGA
* * *
3472 TTTGATTAGTTGAATATAGGTATTTCAAGGAGGCTCGGTAGC-AAAAATCATGCAAAACTGAGTC
257 TTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGG-AGCAAAAAATCATGCAAAACTGAGTC
*
3536 GGGCCTT
321 GGGCCTC
* *
3543 GGAATGCGTTGTTTAGCCGAAAACCGTGAT-GTTAGTACACGATTTCGGCTAAAATTTTGTAAAA
1 GGAACGCGTT-TTTAGCCGAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAA
* * * *
3607 ATTGACCCGAAAGATTTTTCCGCCAATTTTTGGCTTAAATACTCAT-AAAATATATATTGTAACG
65 ATTGACCCAAAAGATTTTTCC-TCAATTTTTAGCTAAAATACTCATAAAAATATATATT-TAACG
* ** * * * *
3671 CCAAAAAGATTGGAGGAATTTTCACGCTTTTAATATCGTTTTTCATATTTTTCAGAATTAATTTG
128 CCAAAAAGATTGAAGGCTTTTTCACGCTTCTAATATCGTTTTTCATATTTTCCTGAATTAATTTC
* * * *
3736 TAA--AAATCGAAACAAGATTCAGATGCTCGTGAAAACAAATTCTTCAA-TCTAACGTAGCTGAG
193 TAATTAAATCGAAACAAGATTCAGATGCTCGT-AAAAAAAATCCTT-AATTCTAATGTGGCTGAG
* * * * * * * * * *
3798 ATTAGATTAAATGAATATGGATATCTCAAAGAGTCTTGGCGCCAAAAATCATTCAAAACTTAGTC
256 ATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGGAGCAAAAAATCATGCAAAACTGAGTC
*
3863 GGGTCCCC
321 GGG-CCTC
* ** * * * *
3871 GAAACGCGTTTTTAGCAAAAAACCGTGATGATTATTACACGATTTCAGCTAGAATTTTGCAAAAA
1 GGAACGCGTTTTTAGCCGAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
* * * *
3936 TTGACTCGAAAG-TTATTTCCTCAATTTTTA-TTCACAATACTCATAAAAATTATATAATTTAAC
66 TTGACCCAAAAGATT-TTTCCTCAATTTTTAGCT-AAAATACTCATAAAAA-TATAT-ATTTAAC
* * * *
3999 TCCAAAAAGATTGAAGGGTTTTTAATGCTTCTAATATCGTTTTTCTATTATTTTCC-GAATTAAT
127 GCCAAAAAGATTGAAGGCTTTTTCACGCTTCTAATATCGTTTTTC-A-TATTTTCCTGAATTAAT
* * *** * * *
4063 TTCTAATTAAATCGAAACATGATTCAGATGCTTGTTGTACAAATCCTTAAATCCAATGTGGCTGA
190 TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAATCCTTAATTCTAATGTGGCTGA
* * * * * * **
4128 GATTTGGTTAGGTGAATGTAGATATTTCAAGGAGTCCCGGAGCAAAAAATCAAGCAACACTGAAC
255 GATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGGAGCAAAAAATCATGCAAAACTGAGT
4193 CGGGGCCTC
320 C-GGGCCTC
** ** ** * * * * * * *
4202 AAAATACGTTTTTAGCAAAAAAAAACAGTAATTTCGATTAACGTGCACGATTTTGACTAATATTT
1 GGAACGCGTTTTTAGC---CGAAAACCGTGA--T-GGTT-A-GTACACGATTTCGGCTAAAATTT
* * * *
4267 TGCAAAAATTGA-CCAGAAATATTTTTCCTCAATTTTT-GTTTAAAATACTTATAAAATCTATAT
58 TGCAAAAATTGACCCA-AAAGATTTTTCCTCAATTTTTAG-CTAAAATACTCATAAAA-ATATAT
* * * * ** * * * * *
4330 AATTCAGCTCCAAAAAGATTGGAGGAGTTTTCTCGCCAT-TAACATCATTTTTCATATTTTTCTG
120 -ATTTAACGCCAAAAAGATTGAAGGCTTTTTCACG-CTTCTAATATCGTTTTTCATATTTTCCTG
4394 AATTAATTTCTAATTAAATCGAA
183 AATTAATTTCTAATTAAATCGAA
4417 CAGTGGTCCT
Statistics
Matches: 992, Mismatches: 167, Indels: 85
0.80 0.13 0.07
Matches are distributed among these distances:
326 31 0.03
327 110 0.11
328 112 0.11
329 202 0.20
330 65 0.07
331 144 0.15
332 32 0.03
333 21 0.02
334 114 0.11
335 14 0.01
336 1 0.00
337 11 0.01
338 27 0.03
339 102 0.10
340 6 0.01
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (327 bp):
GGAACGCGTTTTTAGCCGAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
TTGACCCAAAAGATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAAATATATATTTAACGCCA
AAAAGATTGAAGGCTTTTTCACGCTTCTAATATCGTTTTTCATATTTTCCTGAATTAATTTCTAA
TTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAATCCTTAATTCTAATGTGGCTGAGATTTG
ATTAGATGAATATAGATATTTCAAGGAGTCTCGGAGCAAAAAATCATGCAAAACTGAGTCGGGCC
TC
Found at i:4174 original size:657 final size:659
Alignment explanation
Indices: 2886--4416 Score: 1737
Period size: 657 Copynumber: 2.3 Consensus size: 659
2876 CCTGGAACGA
* * * * *
2886 GTTTTTAACCAAAAAATCGTGATGGTTAGTATACGATTTCGGCTAAAATTTTGCAAAAATTGACC
1 GTTTTTAGCAAAAAAACCGTGATCGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACC
* * * *
2951 CAAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATATATAATTCGATA-TCAAAA
66 CGAAAGATTTTTCCTCAATTTTTGGCTTAAATACTCAT--AAAATATATAATT-GA-ACCCAAAA
* ** ** * * * *
3015 AAATTAAAGGGCTTTTGACGCTTCTAATATTGTTGTTCATCCTATTTTTTCA-AATTAATTTCTA
127 AGATTGGAGGAATTTTCACGCTTTTAATATCGTT-TT--TCATA-TTTTTCAGAATTAATTTCTA
* *
3079 ATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACCAAATTCTTAAATCTAATGTGGCTGAGAT
188 A-TAAATCGAAACAAGATTCAGATGCTCGTAAAAACCAAATTCTTAAATCTAACGTAGCTGAGAT
* * * * * * * *
3144 TTGGTTAGATGAATATAGATATTTTAAGGAGTCTTGGCTCTAAAAATCATGCAAAACTAAGCCGG
252 TAGATTAAATGAATATAGATATCTCAAAGAGTCTTGGCGCCAAAAATCATGCAAAACTAAGCCGG
* * ** * * *
3209 TCTCCGGAACGCGGTTTTAGCCGAAAACCGCGATGGTTATTACATGATTTCGGCTAAAATTTTGC
317 TCCCCGAAACGCGGTTTTAGCAAAAAACCGCGATGATTATTACACGATTTCAGCTAAAATTTTGC
3274 AAAAATTGACTCAAAAGATTTTTCCTCAATTTCTAGCGAAAATACTCATAAAAGTATATATTTCA
382 AAAAATTGACTCAAAAGATTTTTCCTCAATTTCTAGCGAAAATACTCATAAAAGTATATATTTCA
* *
3339 ACGCCAAATAAATTGAAAGCCTTTTTCACGCTTTTAATATCGTTTTTCATATTTTCCTGAATTAA
447 ACGCCAAATAAATTGAAAGCCTTTTTAACGCTTCTAATATCGTTTTTCATATTTTCCTGAATTAA
* * *
3404 TTTCTTATTAAATCGAAACATGATTCAGATGCTCGTAAAAAAAATCCTTAAGTTCAATGTGGCTG
512 TTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAAAAATCCTTAAATCCAATGTGGCTG
* * * *
3469 AGATTTGATTAGTTGAATATAGGTATTTCAAGGAGGCTCGGTAGC-AAAAATCATGCAAAACTGA
577 AGATTTGATTAGGTGAATATAGATATTTCAAGGAGGCCCGGTAGCAAAAAATCAAGCAAAACTGA
** *** *
3533 GTC-GGGCCTTGGAATGC
642 ACCGGGGCCTCAAAATAC
** *
3550 GTTGTTTAGC-CGAAAACCGTGAT-GTTAGTACACGATTTCGGCTAAAATTTTGTAAAAATTGAC
1 GTT-TTTAGCAAAAAAACCGTGATCGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGAC
*
3613 CCGAAAGATTTTTCCGCCAATTTTTGGCTTAAATACTCATAAAATATAT-ATTGTAACGCCAAAA
65 CCGAAAGATTTTTCC-TCAATTTTTGGCTTAAATACTCATAAAATATATAATTG-AAC-CCAAAA
*
3677 AGATTGGAGGAATTTTCACGCTTTTAATATCGTTTTTCATATTTTTCAGAATTAATTTGTAA-AA
127 AGATTGGAGGAATTTTCACGCTTTTAATATCGTTTTTCATATTTTTCAGAATTAATTTCTAATAA
* *
3741 ATCGAAACAAGATTCAGATGCTCGTGAAAA-CAAATTCTTCAATCTAACGTAGCTGAGATTAGAT
192 ATCGAAACAAGATTCAGATGCTCGTAAAAACCAAATTCTTAAATCTAACGTAGCTGAGATTAGAT
* * * *
3805 TAAATGAATATGGATATCTCAAAGAGTCTTGGCGCCAAAAATCATTCAAAACTTAGTCGGGTCCC
257 TAAATGAATATAGATATCTCAAAGAGTCTTGGCGCCAAAAATCATGCAAAACTAAG-CCGGTCCC
* * *
3870 CGAAACGCGTTTTTAGCAAAAAACCGTGATGATTATTACACGATTTCAGCTAGAATTTTGCAAAA
321 CGAAACGCGGTTTTAGCAAAAAACCGCGATGATTATTACACGATTTCAGCTAAAATTTTGCAAAA
* * * * *
3935 ATTGACTCGAAAG-TTATTTCCTCAATTTTTATTC-ACAATACTCATAAAAATTATATAATTT-A
386 ATTGACTCAAAAGATT-TTTCCTCAATTTCTA-GCGAAAATACTCAT-AAAAGTATAT-ATTTCA
* ** *
3997 ACTCCAAA-AAGATTG-AAGGGTTTTTAATGCTTCTAATATCGTTTTTCTATTATTTTCC-GAAT
447 ACGCCAAATAA-ATTGAAAGCCTTTTTAACGCTTCTAATATCGTTTTTC-A-TATTTTCCTGAAT
* *** *
4059 TAATTTCTAATTAAATCGAAACATGATTCAGATGCTTGTTGTACAAATCCTTAAATCCAATGTGG
509 TAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAAAAATCCTTAAATCCAATGTGG
* * * *
4124 CTGAGATTTGGTTAGGTGAATGTAGATATTTCAAGGAGTCCCGG-AGCAAAAAATCAAGCAACAC
574 CTGAGATTTGATTAGGTGAATATAGATATTTCAAGGAGGCCCGGTAGCAAAAAATCAAGCAAAAC
4188 TGAACCGGGGCCTCAAAATAC
639 TGAACCGGGGCCTCAAAATAC
* * * * * *
4209 GTTTTTAGCAAAAAAAAACAGTAATTTCGATTAACGTGCACGATTTTGACTAATATTTTGCAAAA
1 GTTTTTAGC--AAAAAAACCGTGA--TCG-TT-A-GTACACGATTTCGGCTAAAATTTTGCAAAA
* * * * * *
4274 ATTGACCAGAAATATTTTTCCTCAATTTTT-GTTTAAAATACTTATAAAATCTATATAATTCAGC
59 ATTGACCCGAAAGATTTTTCCTCAATTTTTGGCTT-AAATACTCATAAAA--TATATAATTGAAC
* * ** * * *
4338 TCCAAAAAGATTGGAGGAGTTTTCTCGCCATTAACATCATTTTTCATATTTTTCTGAATTAATTT
121 -CCAAAAAGATTGGAGGAATTTTCACGCTTTTAATATCGTTTTTCATATTTTTCAGAATTAATTT
4403 CTAATTAAATCGAA
185 CTAA-TAAATCGAA
4417 CAGTGGTCCT
Statistics
Matches: 731, Mismatches: 105, Indels: 56
0.82 0.12 0.06
Matches are distributed among these distances:
656 78 0.11
657 161 0.22
658 153 0.21
659 41 0.06
660 2 0.00
661 14 0.02
662 40 0.05
663 52 0.07
664 36 0.05
665 10 0.01
666 22 0.03
667 44 0.06
668 67 0.09
669 3 0.00
670 8 0.01
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (659 bp):
GTTTTTAGCAAAAAAACCGTGATCGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACC
CGAAAGATTTTTCCTCAATTTTTGGCTTAAATACTCATAAAATATATAATTGAACCCAAAAAGAT
TGGAGGAATTTTCACGCTTTTAATATCGTTTTTCATATTTTTCAGAATTAATTTCTAATAAATCG
AAACAAGATTCAGATGCTCGTAAAAACCAAATTCTTAAATCTAACGTAGCTGAGATTAGATTAAA
TGAATATAGATATCTCAAAGAGTCTTGGCGCCAAAAATCATGCAAAACTAAGCCGGTCCCCGAAA
CGCGGTTTTAGCAAAAAACCGCGATGATTATTACACGATTTCAGCTAAAATTTTGCAAAAATTGA
CTCAAAAGATTTTTCCTCAATTTCTAGCGAAAATACTCATAAAAGTATATATTTCAACGCCAAAT
AAATTGAAAGCCTTTTTAACGCTTCTAATATCGTTTTTCATATTTTCCTGAATTAATTTCTAATT
AAATCGAAACATGATTCAGATGCTCGTAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTGAT
TAGGTGAATATAGATATTTCAAGGAGGCCCGGTAGCAAAAAATCAAGCAAAACTGAACCGGGGCC
TCAAAATAC
Found at i:5079 original size:332 final size:331
Alignment explanation
Indices: 4427--5080 Score: 832
Period size: 332 Copynumber: 2.0 Consensus size: 331
4417 CAGTGGTCCT
* * *
4427 GGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTATACGATTTCGGCTAAAATTTTGCAAAAA
1 GGAACGCGGTTTTAGCCAAAAACCGCGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
* * * *
4492 TTGACCCAAAAGATATTTCCTCAATTTTTTGGCTAAAATACTCATAAAAAATATATAAATCGACA
66 TTGACCCAAAAGATATTTCCTCAATTTTCTAGCGAAAATACTCATAAAAAATATATAAATCAACA
* * * * * * *
4557 ACAAAAAAGTTGAAGGGCTTTTGACGCTTCTAATATTGTTTGTCCTATTTTTTCAAATTAATTTC
131 ACAAAAAAGTTGAAAGCCTTTTCACGCTTCTAATATCGTTTGTCATATTTTCTCAAAGTAATTTC
* * *
4622 TAATTAAATCGAAACAAGATTCGGATGCTCGTAAAACCAAATTCTTAAATCTAATGTGGCTGAGA
196 TAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGA
* * * * * * *
4687 TTTGGTTTGATGAATATAGAAATTTTAAGGAGTCTTGGCTCTAAAAATCATGCAAAACTAAGCCG
261 TTTGATTAGATGAATATAGAAATTTCAAGGAGGCTCGGCACCAAAAATCATGCAAAACTAAGCCG
4752 GTCTCC
326 GTCTCC
* * *
4758 GGAACGCGGTTTTAGCCGAAAACCGCGATGGTTAGTACATGATTTCGGCTTAAATTTTGCAAAAA
1 GGAACGCGGTTTTAGCCAAAAACCGCGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
** * * * * *
4823 TTGACTTAAAAGATTTTTTCCTCGA-TTTCTAGCGAAAATACTCATACAAATTATATAATTCAAC
66 TTGACCCAAAAGA-TATTTCCTCAATTTTCTAGCGAAAATACTCATAAAAAATATATAAATCAAC
** * * *
4887 GCCAAATAAA-TTGAAAGCCTTTTTCACGCTTTTAATATCGTTTTTCATATTTTC-CTGAAGTAA
130 AACAAA-AAAGTTGAAAGCC-TTTTCACGCTTCTAATATCGTTTGTCATATTTTCTC-AAAGTAA
*
4950 TTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAGT-TCAATGTGGC
192 TTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCT-AATGTGGC
** *
5014 TGAGATTTGATTAG-TAGAATATAGGTATTTCAAGGAGGCTCGGCACCAAAAATCATGCGAAACT
256 TGAGATTTGATTAGAT-GAATATAGAAATTTCAAGGAGGCTCGGCACCAAAAATCATGCAAAACT
5078 AAG
320 AAG
5081 TCGGGCCCCG
Statistics
Matches: 274, Mismatches: 43, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
331 116 0.42
332 158 0.58
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (331 bp):
GGAACGCGGTTTTAGCCAAAAACCGCGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
TTGACCCAAAAGATATTTCCTCAATTTTCTAGCGAAAATACTCATAAAAAATATATAAATCAACA
ACAAAAAAGTTGAAAGCCTTTTCACGCTTCTAATATCGTTTGTCATATTTTCTCAAAGTAATTTC
TAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGA
TTTGATTAGATGAATATAGAAATTTCAAGGAGGCTCGGCACCAAAAATCATGCAAAACTAAGCCG
GTCTCC
Found at i:5208 original size:125 final size:125
Alignment explanation
Indices: 4986--5225 Score: 480
Period size: 125 Copynumber: 1.9 Consensus size: 125
4976 AGATGCTCGT
4986 AAAAACAAATCCTTAAGTTCAATGTGGCTGAGATTTGATTAGTAGAATATAGGTATTTCAAGGAG
1 AAAAACAAATCCTTAAGTTCAATGTGGCTGAGATTTGATTAGTAGAATATAGGTATTTCAAGGAG
5051 GCTCGGCACCAAAAATCATGCGAAACTAAGTCGGGCCCCGGAATGTGTTGAGATTCCGTA
66 GCTCGGCACCAAAAATCATGCGAAACTAAGTCGGGCCCCGGAATGTGTTGAGATTCCGTA
5111 AAAAACAAATCCTTAAGTTCAATGTGGCTGAGATTTGATTAGTAGAATATAGGTATTTCAAGGAG
1 AAAAACAAATCCTTAAGTTCAATGTGGCTGAGATTTGATTAGTAGAATATAGGTATTTCAAGGAG
5176 GCTCGGCACCAAAAATCATGCGAAACTAAGTCGGGCCCCGGAATGTGTTG
66 GCTCGGCACCAAAAATCATGCGAAACTAAGTCGGGCCCCGGAATGTGTTG
5226 TTTAGCCAAA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 115 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (125 bp):
AAAAACAAATCCTTAAGTTCAATGTGGCTGAGATTTGATTAGTAGAATATAGGTATTTCAAGGAG
GCTCGGCACCAAAAATCATGCGAAACTAAGTCGGGCCCCGGAATGTGTTGAGATTCCGTA
Found at i:5528 original size:457 final size:458
Alignment explanation
Indices: 4674--5548 Score: 1061
Period size: 457 Copynumber: 1.9 Consensus size: 458
4664 TCTTAAATCT
* * * * * * *
4674 AATGTGGCTGAGATTTGGTTTGATGAATATAGAAATTTTAAGGAGTCTTGGCTCTAAAAATCATG
1 AATGTGGCTGAGATTTGATTAGATGAATATAGAAATTTCAAGGAGGCTCGGCACCAAAAATCATG
* * * *
4739 CAAAACTAAGCCGGTCTCCGGAACGCGGTTTTAGCCGAAAACCGCGATGGTTAGTACATGATTTC
66 CAAAACTAAGCCGGGCCCCGGAACGCGGTTTTAGCCAAAAACCGCGATGGTTAGTACACGATTTC
* * ** * * *
4804 GGCTTAAATTTTGCAAAAATTGACTTAAAAGATTTTTTCCTCGATTTCTAGCGAAAATACTCATA
131 GGCTAAAATTTTACAAAAATTGACCCAAAAGATTTTTCCCCCAATTTCTAGCGAAAATACTCATA
**
4869 CAAATTATATAATTCAACGCCAAATAAATTGAAAGCCTTTTTCACGCTTTTAATATCGTTTTTCA
196 CAAATTATATAATTCAACGCCAAATAAATTGAAAGCAATTTTCACGCTTTTAATATCGTTTTTCA
4934 TATTTTCCTGAAGTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCT
261 TATTTTCCTGAAGTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCT
* * * * ** **
4999 TAAGTTCAATGTGGCTGAGATTTGATTAGTAGAATATAGGTATTTCAAGGAGGCTCGGCACCAAA
326 TAAGTCCAATGTAGCTGAGATTAGATTAATAGAATATAGGTATCCCAAACAGGCTCGGCACCAAA
*
5064 AATCATGCGAAACTAAGTCGGG-CCCCGGAATGTGTTGAGATTCCGTAAAAAACAAATCCTTAAG
391 AATCATGCAAAACTAAGTCGGGTCCCCGGAATGTGTTGAGATTCCGTAAAAAACAAATCCTTAAG
5128 TTC
456 TTC
**
5131 AATGTGGCTGAGATTTGATTAG-TAGAATATAGGTATTTCAAGGAGGCTCGGCACCAAAAATCAT
1 AATGTGGCTGAGATTTGATTAGAT-GAATATAGAAATTTCAAGGAGGCTCGGCACCAAAAATCAT
* * * * * * *
5195 GCGAAACTAAGTCGGGCCCCGGAATGTGTTGTTTAGCCAAAAACTGTGATGGTTAGTACACGATT
65 GCAAAACTAAGCCGGGCCCCGGAACGCGGT-TTTAGCCAAAAACCGCGATGGTTAGTACACGATT
* * * *
5260 TCGGCTAAAATTTTATAAAAATTGACCCGAAAGATTTTTCCCCCAATTTTTGGCTG-AAATACTC
129 TCGGCTAAAATTTTACAAAAATTGACCCAAAAGATTTTTCCCCCAATTTCTAGC-GAAAATACTC
* ** * *
5324 TTA-AAATGTATATAATGT-AACGTGAAA-AAGATTGGATG-AATTTTCACGCTTTTAATATCGT
193 ATACAAAT-TATATAAT-TCAACGCCAAATAA-ATTGAAAGCAATTTTCACGCTTTTAATATCGT
** * * *
5385 TTTTCATATTTTTTTGAATTAATTTGTAGTTAAATCGAAACAAGATTCAGATGCTCGTAAAAACA
255 TTTTCATATTTTCCTGAAGTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACA
* * *
5450 AATTCTT-CGATCCAAAT-TAGCTGAGATTAGATTAA-ATGAATAT-GGATATCCCAAACAGTCT
320 AATCCTTAAG-TCC-AATGTAGCTGAGATTAGATTAATA-GAATATAGG-TATCCCAAACAGGCT
* * *
5511 TGGCGCCAAAAATCATGCAAAACTTAGTCGGGTCCCCG
381 CGGCACCAAAAATCATGCAAAACTAAGTCGGGTCCCCG
5549 AAACGCGCTT
Statistics
Matches: 349, Mismatches: 58, Indels: 21
0.82 0.14 0.05
Matches are distributed among these distances:
456 5 0.01
457 230 0.66
458 112 0.32
459 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (458 bp):
AATGTGGCTGAGATTTGATTAGATGAATATAGAAATTTCAAGGAGGCTCGGCACCAAAAATCATG
CAAAACTAAGCCGGGCCCCGGAACGCGGTTTTAGCCAAAAACCGCGATGGTTAGTACACGATTTC
GGCTAAAATTTTACAAAAATTGACCCAAAAGATTTTTCCCCCAATTTCTAGCGAAAATACTCATA
CAAATTATATAATTCAACGCCAAATAAATTGAAAGCAATTTTCACGCTTTTAATATCGTTTTTCA
TATTTTCCTGAAGTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCT
TAAGTCCAATGTAGCTGAGATTAGATTAATAGAATATAGGTATCCCAAACAGGCTCGGCACCAAA
AATCATGCAAAACTAAGTCGGGTCCCCGGAATGTGTTGAGATTCCGTAAAAAACAAATCCTTAAG
TTC
Found at i:5862 original size:333 final size:324
Alignment explanation
Indices: 5111--6100 Score: 857
Period size: 332 Copynumber: 3.0 Consensus size: 324
5101 AGATTCCGTA
* * *
5111 AAAAACAAATCCTTAAGTTCAATGTGGCTGAGATTTGATTAGTAGAATATAGGTATTTCAAGGAG
1 AAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGT-GAATATAGATATTTCAAGGAG
* * * * * * *
5176 GCTCGGCACCAAAAATCATGCGAAACTAAGTCGGGCCCCGGAATGTGTTGTTTAGCCAAAAACTG
65 TCTTGG-AGCAAAAATCATGCAAAACTAAGTCGGGCCCCGGAACGCGTT-TTTAGCCAAAAACAG
* * ** *
5241 TGATGGTTAGTACACGATTTCGGCTAAAATTTTATAAAAATTGACCCGAAAGATTTTTCCCCCAA
128 TGATGATTATTACACGATTTCGGCT-AAATTTTGCAAAAATTGA-CCGAAAG-TTTTT-CCTCAA
* * * * * * * *
5306 TTTTTGGCTGAAATACTCTTAAAATGTATATAATGT-AACGT-GAAAAAGATTGGATGAATTTTC
189 TTTTTGTC-CAAATACTCATAAAATCTATATAAT-TCAAC-TCCAAAAAGATTGAAGGAATTTTA
* ** * *
5369 ACGCTTTTAATATCGTTTTTCATATTTTTTTGAATTAATTTGTAGTTAAATCGAAACAAGATTCA
251 ACGCTTCTAATATCGTTTTTCATATTTTTTCAAATTAATTTCTAATTAAATCGAAACAAGATTCA
5434 GATGCTCGT
316 GATGCTCGT
* ** * * * * ** **
5443 AAAAACAAATTCTTCGATCCAAAT-TAGCTGAGATTAGATTAAATGAATATGGATATCCCAAACA
1 AAAAACAAATCCTTAAATCC-AATGTGGCTGAGATTTGATT-AGTGAATATAGATATTTCAAGGA
* * *
5507 GTCTTGGCGCCAAAAATCATGCAAAACTTAGTCGGGTCCCCGAAACGCGCTTTTTAGCCAAAAAC
64 GTCTTGGAG-CAAAAATCATGCAAAACTAAGTCGGG-CCCCGGAACGCG-TTTTTAGCCAAAAAC
*
5572 CGTGATGATTATTACACGATTTCGGCTAGAATTTTGCAAAAATTGACTCGAAAGTTATTTCCTCA
126 AGTGATGATTATTACACGATTTCGGCTA-AATTTTGCAAAAATTGAC-CGAAAGTT-TTTCCTCA
* **
5637 ATTTTTATCCATAATACTCATAAAAAT-TATATAATTCAACTCCAAAAAGATTGAAGGGTTTTTA
188 ATTTTTGTCCA-AATACTCAT-AAAATCTATATAATTCAACTCCAAAAAGATTGAAGGAATTTTA
* * *
5701 ATGCTTCTAATATCGTTTTTCCTATTATTTTCCAAATTAATTTCTAATTAAATCGAAACATGATT
251 ACGCTTCTAATATCGTTTTTCATATT-TTTT-CAAATTAATTTCTAATTAAATCGAAACAAGATT
* *
5766 CGGATGCTTGT
314 CAGATGCTCGT
*** * *
5777 -TGTACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGGTGAATGTAGATATTTCAAGGAG
1 AAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTA-GTGAATATAGATATTTCAAGGAG
* * ** * *
5841 TCTTGGAGTAAAAAGTCATGCAACACTAAACCGGGGCCTCGGAACGCGTTTTTAGCAAAAAAAAA
65 TCTTGGAGCAAAAA-TCATGCAAAACTAAGTC-GGGCCCCGGAACGCGTTTTTAGC-----CAAA
* * *
5906 AACAG-GAATTTTCGATAAATGTGCACGATTTCGGCTAATATTTTGCAAAAATTGACCAGAAATA
123 AACAGTG-A---T-GAT-TAT-TACACGATTTCGGCTAA-ATTTTGCAAAAATTGACC-GAAA-G
* *
5970 TTTTTCCTCAATTTTTGTCTAAAATACTCATAAAATCTATATAATTCAACTCCAAAAAGATTGGA
178 TTTTTCCTCAATTTTTGTC-CAAATACTCATAAAATCTATATAATTCAACTCCAAAAAGATTGAA
* * * * * *
6035 GG-ACTTTACTCGCCTT-TAACATCATTTTGCATA-TTTTTCTGAATTAATTTCTAATTAAATC-
242 GGAATTTTA-ACG-CTTCTAATATCGTTTTTCATATTTTTTC-AAATTAATTTCTAATTAAATCG
6096 AAACA
304 AAACA
6101 GTGGTCCTGA
Statistics
Matches: 530, Mismatches: 90, Indels: 68
0.77 0.13 0.10
Matches are distributed among these distances:
331 3 0.01
332 162 0.31
333 156 0.29
334 42 0.08
336 1 0.00
337 8 0.02
340 7 0.01
341 27 0.05
342 14 0.03
343 104 0.20
344 6 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (324 bp):
AAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGTGAATATAGATATTTCAAGGAGT
CTTGGAGCAAAAATCATGCAAAACTAAGTCGGGCCCCGGAACGCGTTTTTAGCCAAAAACAGTGA
TGATTATTACACGATTTCGGCTAAATTTTGCAAAAATTGACCGAAAGTTTTTCCTCAATTTTTGT
CCAAATACTCATAAAATCTATATAATTCAACTCCAAAAAGATTGAAGGAATTTTAACGCTTCTAA
TATCGTTTTTCATATTTTTTCAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT
Found at i:6661 original size:334 final size:329
Alignment explanation
Indices: 6111--7195 Score: 1311
Period size: 334 Copynumber: 3.3 Consensus size: 329
6101 GTGGTCCTGA
* * *
6111 AACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTATACGATTTTGGCTAAAATTTTGCAAAAATT
1 AACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATT
* * * *
6176 GACCCAAAAGA-TATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATATATAATTCGACATC
66 GACCCAAAAGATTATTTCCTCGA-TTTTGGCGAAAATACTCATAAAAATTATATAATTCGAC-GC
* * * * * * *
6240 AAAAAAATTGAAGGGCTTTTGACGCTTCTAATATTGTTTTTCCTATTTTTTTAAATTAATTTCTA
129 CAAAAAATTGAAGGACTTTTCACGCTTTTAATATCGTTTTTCATATTTTTTTGAATTAATTTCTA
* *
6305 ATTAAATCAAAACAAGATTCAGATGCTCGTAAAATCCAAATTCTTAAATCTAATGTGGCTGAGAT
194 ATTAAATCGAAACAAGATTCAGATGCTCGTAAAA-ACAAATTCTTAAATCTAATGTGGCTGAGAT
* * *
6370 TTGGTTAGATGAATATAGATATTTCAAGGAATCTTGGCACCAAAAATCATGCAAAACTAAGTCGG
258 TTGATTAGATGAATATAGATATTTCAAGGAGTCTTCGCACCAAAAATCATGCAAAACTAAGTCGG
6435 GCCCCGG
323 GCCCCGG
* * * * *
6442 AACGCGATTTTAGCCAAAAAACCACGATGGTTAGTACATGATTTCAGCTTAAATTTTGCAAAAAT
1 AACGCGTTTTTAGCC-AAAAACCATGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* * * *
6507 TGACTCAAAAGATTTTTTCCTCGATTTCTAGCGAAAATACTCATACAAATTATATAATTCGACGC
65 TGACCCAAAAGATTATTTCCTCGATTT-TGGCGAAAATACTCATAAAAATTATATAATTCGACGC
* * ** *
6572 CAAATAAATTGAAAGCCTTTTTCACGCTTTTAATATCGTTTTTCATATTTTCCTGAAGTAATTTC
129 CAAA-AAATTGAAGGAC-TTTTCACGCTTTTAATATCGTTTTTCATATTTTTTTGAATTAATTTC
* *
6637 TAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAGT-TCAATGTGGCTGAG
192 TAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAATCT-AATGTGGCTGAG
* * * * * *
6701 ATTTGATTAGTTGAATATAGGTATTTCAAGGAGGCTCCGCACCAAAAATCATGCGAAACTGAGTC
256 ATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTCGCACCAAAAATCATGCAAAACTAAGTC
6766 GGGCCCCGG
321 GGGCCCCGG
* * *
6775 AATGCGTTGTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGTAAAAAT
1 AACGCGTT-TTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* * *
6840 TGACCCGAAAGATT-TTTCCCCCAGATTTTGGCTG-AAATACTCTTAAAATATATATATAATGT-
65 TGACCCAAAAGATTATTT-CCTC-GATTTTGGC-GAAAATACTCATAAAA-AT-TATATAAT-TC
* *
6902 AACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATATTTTTTTGAATTAA
124 GACGCCAAAAA-ATTGAAGGACTTTTCACGCTTTTAATATCGTTTTTCATATTTTTTTGAATTAA
* * * * * *
6967 TTTGTAGTTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTCAATCCAAAGTAGCT
188 TTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAATCTAATGTGGCT
* * * ** * * * *
7032 GAGATTAGATTAAATGAATA-CGAATATCCCAAAGAGTTTTCGCGCCAAAAATCATGCAAAACTT
253 GAGATTTGATTAGATGAATATAG-ATATTTCAAGGAGTCTTCGCACCAAAAATCATGCAAAACTA
*
7096 AGTCGGGTCCCCGA
317 AGTCGGG-CCCCGG
* * * *
7110 AACGCGCTTTTTAGCCAAAAACCATGATGATTATTACACGATTTCGGCTAGAATTTTGCAAAAAA
1 AACGCG-TTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* *
7175 TGACTCGAAAG-TTATTTCCTC
65 TGACCCAAAAGATTATTTCCTC
7196 AAAACTGAGT
Statistics
Matches: 642, Mismatches: 93, Indels: 35
0.83 0.12 0.05
Matches are distributed among these distances:
331 14 0.02
332 64 0.10
333 218 0.34
334 247 0.38
335 96 0.15
336 3 0.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (329 bp):
AACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATT
GACCCAAAAGATTATTTCCTCGATTTTGGCGAAAATACTCATAAAAATTATATAATTCGACGCCA
AAAAATTGAAGGACTTTTCACGCTTTTAATATCGTTTTTCATATTTTTTTGAATTAATTTCTAAT
TAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAATCTAATGTGGCTGAGATTTG
ATTAGATGAATATAGATATTTCAAGGAGTCTTCGCACCAAAAATCATGCAAAACTAAGTCGGGCC
CCGG
Found at i:7281 original size:107 final size:107
Alignment explanation
Indices: 7088--7282 Score: 239
Period size: 108 Copynumber: 1.8 Consensus size: 107
7078 AAAAATCATG
* * * * *
7088 CAAAACTTAGTCGGGTCCCCGAAACGCGCTTTTTAGCCAAAAACCATGATGATTATTACACGATT
1 CAAAACTGAGTCGGGACCCCGAAACGCGCTTTTTAACAAAAAACCATGATGATTAGTACACGATT
* * *
7153 TCGGCTAGAATTTTGCAAAAAATGACTCGAAAGTTATTTCCT
66 TCGGCCAAAATTTTACAAAAAATGACTCGAAAGTTATTTCCT
* ** *
7195 CAAAACTGAGTCGGGACCTCGAAACGCG-TTTTTAACAAAAAAAACTGTGATGGTTAGTACACGA
1 CAAAACTGAGTCGGGACCCCGAAACGCGCTTTTTAAC--AAAAAACCATGATGATTAGTACACGA
* *
7259 TTTTGTCCAAAATTTTACAAAAAA
64 TTTCGGCCAAAATTTTACAAAAAA
7283 GGACCAGAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
106 7 0.10
107 25 0.35
108 40 0.56
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (107 bp):
CAAAACTGAGTCGGGACCCCGAAACGCGCTTTTTAACAAAAAACCATGATGATTAGTACACGATT
TCGGCCAAAATTTTACAAAAAATGACTCGAAAGTTATTTCCT
Found at i:8420 original size:329 final size:319
Alignment explanation
Indices: 7675--8770 Score: 1107
Period size: 328 Copynumber: 3.3 Consensus size: 319
7665 ATTGAAGGGC
* * * *
7675 TTTTCTCATATTTTTTCTGAATTAATTTCTAATTACATTGAAACAAGAGTT-AGATGTTCGTAAA
1 TTTT-TCATATTTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGA-TTCAGATGCTCGTAAA
* * * * *
7739 AACAATTCCTTAAATGCAATGTGGCTAAGATTTTATTAGATGAATATAGATATTTCAAGAAGTGT
64 AACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATA-TTCAAGAAGTTT
* * * *
7804 CAGTG-CTAAAAACCATGCAAAACTGAGCTGGGGCCCTGAAACGCGTTTTTAGCCAAAATCGTGA
128 C-G-GACCAAAAATCATGCAAAACTGAGC-GGGGCCC-CAAACGCGTTTTTAGCCAAAAACGTGA
* * * ** * * * **
7868 TGGTTAGTAAACGATTTTGGCGAAAACATTGCAAAAAATGACCCAAAATTTTTTCCCCTATTTAT
189 TGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGAACAAAAATTTTTTCAACT-TTTA-
* * * ** * * *
7933 GGATAAAATACTCATAAAATATATATAATTTAATGAAAAAAGATCGGAGAACTTTTCACGATTTT
252 -GCTAAAATACTCA-AAAAAATATATAATTCAA-GCCAAAAGATTGGAGAGC-TTTGACGATTTT
7998 AATATCG
313 AATATCG
* * * *
8005 TTTTTCATA-TTTTTCTGAATTAATTTCTAATTAAATCGAAACACGATTTAGATGCTTGTAAAAA
1 TTTTTCATATTTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
* *
8069 CAAATTCC-TAAATCCAATGTGGCTGAGATTTGATTAGATGAATATGGATATCTCAAGGAGTTTC
66 CAAA-TCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATAT-TCAAGAAGTTTC
* * *
8133 GGCACCAAAAATCATGCAAAACTGAGTCGGGGCCCCATAATGCTTTTTTAGCCAAAAACTGTTAT
129 GG-ACCAAAAATCATGCAAAACTGAG-CGGGGCCCCA-AACGCGTTTTTAGCCAAAAAC-GTGAT
* * *
8198 GGTTATTACACGATTTCGGCTAAAATTTTGTAAAAATTGATTAGAAAAATATTTTATCAACTTTT
190 GGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGA--ACAAAAAT-TTTT-TCAACTTTT
* * * * *
8263 AGCTAAAATGCTTAGAAAAAATATATAATTCAA-CCAAAATATTGAAGCGCTCTTGACG-TTTAT
251 AGCTAAAATACTCA-AAAAAATATATAATTCAAGCCAAAAGATTGGAGAGCT-TTGACGATTT-T
8326 AATATCG
313 AATATCG
* * *
8333 TTTTTCCTATTTTTTCCAAATTAATTTCTAATTAAAACGAAACAAGATTCAGATGCTCGTAAAAA
1 TTTTTCATATTTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
*
8398 CAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTCAAGTAGTCTT-G
66 CAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTCAAGAAGT-TTCG
* * * *
8462 GAGTCAAAAATCATGCAAAATTGAGCCGGGTCCCCGGAACGCGTTTTTAGCCAAAAACCGTGATG
130 GA-CCAAAAATCATGCAAAACTGAG-CGGGGCCCC-AAACGCGTTTTTAGCCAAAAA-CGTGAT-
*
8527 GTTTGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACACAAAAGATTTCTCCTT-AAT
190 G---GTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGA-ACAAAA-ATTT-T--TTCAAC
* * * * *
8591 TTTTGGCTAAAATACTCATAAAAATATATAATTCAACGCCAAACAGATTGGAGGGCTTTGTATGC
247 TTTTAGCTAAAATACTCAAAAAAATATATAATTCAA-GCCAAA-AGATTGGAGAGCTTTG-ACGA
8656 TTTTAATATCG
309 TTTTAATATCG
* * * *
8667 TATTTCTTATTTTTTTCTAAATTAATTTTTAATTGAATCGAAACAAGATTCAGATGCTCGT-AAA
1 TTTTTCATA-TTTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* *
8731 A-AAAT-CTTAAATCCAATGTTGCTGAGATTTGCTTAGATGA
65 ACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGA
8771 TGTAAAGTAT
Statistics
Matches: 648, Mismatches: 84, Indels: 66
0.81 0.11 0.08
Matches are distributed among these distances:
326 1 0.00
327 10 0.02
328 237 0.37
329 144 0.22
330 30 0.05
331 29 0.04
332 98 0.15
333 17 0.03
334 32 0.05
335 50 0.08
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (319 bp):
TTTTTCATATTTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
CAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTCAAGAAGTTTCGG
ACCAAAAATCATGCAAAACTGAGCGGGGCCCCAAACGCGTTTTTAGCCAAAAACGTGATGGTTAG
TACACGATTTCGGCTAAAATTTTGCAAAAATTGAACAAAAATTTTTTCAACTTTTAGCTAAAATA
CTCAAAAAAATATATAATTCAAGCCAAAAGATTGGAGAGCTTTGACGATTTTAATATCG
Found at i:9134 original size:15 final size:15
Alignment explanation
Indices: 9106--9148 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
9096 GTTTCATGAA
* *
9106 TATAAATAATAATAT
1 TATAATTAAAAATAT
9121 TATAATTAAAAATAT
1 TATAATTAAAAATAT
9136 TATAATCTAAAAA
1 TATAAT-TAAAAA
9149 AAATATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAATTAAAAATAT
Found at i:10706 original size:2 final size:2
Alignment explanation
Indices: 10701--10745 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
10691 GAATTTAAGC
10701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10743 AT A
1 AT A
10746 CTACTACAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.