Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006573.1 Hibiscus syriacus cultivar Beakdansim tig00016106_pilon, 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: 1218788
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:9 original size:4 final size:4
Alignment explanation
Indices: 1--4157 Score: 7144
Period size: 4 Copynumber: 1066.8 Consensus size: 4
1 CATA CATA CATA CATA CATAA CATA CATA -ATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CAT-A CATA CATA CATA CATA CATA CATA CATA
49 CATA CATA C-TA C-TA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
95 C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
142 CATA CATA CATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
189 CATA CATA CATA CATA CATA CATA C--A CATA CAT- CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
234 CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA C-TA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
280 CATA CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
327 CCATA CATA CATA CATA CATA CATA CATA CATA CAT- CATA CAT- -ATA
1 -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
373 CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CCTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
420 CATA CATA CATA CATA CATA CA-A CATA CATA CATA C-TA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
466 CATA CATA CCTA CATA CATA CATA CATA CATA C--A CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
512 C-TA CATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
558 C-TA CATA CATA CATA CATA CATA CATA CAT- CATA -ATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
603 CATA CATA CATA CATA CATA CATA CA-A CATA CATA CATA CATA C--A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
648 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
696 CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
743 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
789 CATA CATAA CATA CATA CATA CATA CATA CATA C-TA CATA CATA C--A
1 CATA CAT-A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
835 CATA CATA CAT- CATA CATA CATA CATA CAT- -ATA CATA CATA CCTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
880 CATA CA-A CCTC CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
927 CCATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
976 CATA CATA -ATA CATA -ATA CATA CATA C-TA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1021 TC-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1069 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1117 CATA CATA CATA CATA CATA CAT- CATA CA-A CATA CAT- -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1161 CATA CATA CATA CATA CATA CATA CATA CAT- CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1208 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1256 CATA CATA CATA CATA CATC CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1304 CATA CATA CATA CATA CCTA CATA C-TA CAT- -ATA CATA CA-A CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1348 CATA CATA CATA AATA CATA CACA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1396 CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1442 CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1489 CATA CATA C-TA CATA CAT- CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1535 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATAA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT-A CATA
* *
1584 CATA CATA CATA AAGA CATA CATA CATA CATA CATA CATA C--A CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1630 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1678 CATA CCATA CATA CATA CATA CATA CATA CATA CATA C--A CATA CATA
1 CATA -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1725 CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1772 CATA C--A CATA CATA CATA CATA CATA CATA CATA CACTA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CA-TA CATA CATA
1819 CATA CATA CATA CAT- CATA CATA CATA C--A CATA CATA CATA CAT-
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1863 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1911 CATA C-TA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1956 CATA C-TA CATA CATA CATA CATA CATA CATA CATA CAGA CATA C--A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2001 CATA CATA CATA CATA -ATA CATA CATA CATA C-TA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2047 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2095 CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2142 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
2190 CATA CATA CATA CATA CATA CATA CATA CATA C-GA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2237 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2285 CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA C-TA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2330 CATA CATA C--A CATA CATA CATA CATA CAT- -ATA CATA CATA -ATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
2373 C-TA CATA CATA CATA CATA CAGA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2420 CATA CATA CATA CATA CATA CATA CAT- -ATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
2466 CATA CATA CATA CATA CATC CATA C-TA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2513 CATA CATA CATA CA-A CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2560 CATA CATA CATA CATA CATA CAT- -ATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2606 CATA CATA CATA CATCCA CATA CAT- -ATA CATA C--A CATA CATA CATA
1 CATA CATA CATA CAT--A CATA CATA CATA CATA CATA CATA CATA CATA
2652 CATA CATA CA-A CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2699 CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2746 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2794 CATA CATA CATA CATA C-TA CATA CATA -ATA CATA CATA CAT- CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2839 CATAA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CAT-A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2888 CATA CATA CATA CATA CATA CATA CATA CATA CAT- CATA -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2934 CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2981 CATA CATA CATA CATAA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CAT-A CATA CATA CATA CATA CATA CATA CATA CATA
3030 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3078 -ATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3124 CATA CA-A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3171 CATA CATA CATA CATA CATA CATA CATA CATA CA-A CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3218 CATA CATA CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3264 CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3309 CA-A CATA CATA CATA CATA CATA CATA CATA CATA CA-A CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3355 CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATAA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT-A CATA CATA
3403 CATA CATA CATA CATA CATA CATA CATA CATA CCATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA -CATA CATA CATA CATA
*
3452 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAGA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3500 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3548 CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA C-TA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3594 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA -ATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3641 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3689 CATA CATA C-TA CATA CATTA CATA CATA CATA CATA CCATA CATA CATA
1 CATA CATA CATA CATA CA-TA CATA CATA CATA CATA -CATA CATA CATA
3738 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3786 CATA CATA CATA CATA CATA CA-A CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3833 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3881 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3929 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3977 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
4023 CATA CATA CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
4069 CATA C--A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
4115 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
4158 GAAATTTCCA
Statistics
Matches: 3980, Mismatches: 32, Indels: 282
0.93 0.01 0.07
Matches are distributed among these distances:
2 56 0.01
3 206 0.05
4 3661 0.92
5 53 0.01
6 4 0.00
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:4294 original size:83 final size:83
Alignment explanation
Indices: 4163--4331 Score: 338
Period size: 83 Copynumber: 2.0 Consensus size: 83
4153 TACATGAAAT
4163 TTCCATCTTTGCATAAAAAATTCATCATCATTGCAATAAAACACTTTAAGTTTCCTTCTCTTGAG
1 TTCCATCTTTGCATAAAAAATTCATCATCATTGCAATAAAACACTTTAAGTTTCCTTCTCTTGAG
4228 GATAAATAAAATACAAAC
66 GATAAATAAAATACAAAC
4246 TTCCATCTTTGCATAAAAAATTCATCATCATTGCAATAAAACACTTTAAGTTTCCTTCTCTTGAG
1 TTCCATCTTTGCATAAAAAATTCATCATCATTGCAATAAAACACTTTAAGTTTCCTTCTCTTGAG
4311 GATAAATAAAATACAAAC
66 GATAAATAAAATACAAAC
4329 TTC
1 TTC
4332 ATCATGACAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 86 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (83 bp):
TTCCATCTTTGCATAAAAAATTCATCATCATTGCAATAAAACACTTTAAGTTTCCTTCTCTTGAG
GATAAATAAAATACAAAC
Found at i:4524 original size:138 final size:139
Alignment explanation
Indices: 4246--4513 Score: 493
Period size: 138 Copynumber: 1.9 Consensus size: 139
4236 AAATACAAAC
*
4246 TTCCATCTTTGCATAAAAAATTCATCATCATTGCAATAAAACACTTTAAGTTTCCTTCTCTTGAG
1 TTCCATCTTTGCATAAAAAATTCATCATCATTGCAATAAAACACTTTAAGTTTCCCTCTCTTGAG
* * *
4311 GATAAATAAAATACAAACTTCATCATGACATCATAACATCAAAGATTAGACAGTCATACATACAT
66 GATAAATAAAATAAAAACTTCATCATGACATCATAACATCAAAGATTAGACAATCATAAATACAT
4376 ACATGAAAT
131 ACATGAAAT
4385 TTCCATCTTTGCATAAAAAATTCATCATCATTGCAAT-AAACACTTTAAGTTTCCCTCTCTTGAG
1 TTCCATCTTTGCATAAAAAATTCATCATCATTGCAATAAAACACTTTAAGTTTCCCTCTCTTGAG
4449 GATAAATAAAATAAAAACTTCATCATGACATCATAACATCAAAGATTAGACAATCATAAATACAT
66 GATAAATAAAATAAAAACTTCATCATGACATCATAACATCAAAGATTAGACAATCATAAATACAT
4514 CATTTCAATT
Statistics
Matches: 125, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
138 88 0.70
139 37 0.30
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (139 bp):
TTCCATCTTTGCATAAAAAATTCATCATCATTGCAATAAAACACTTTAAGTTTCCCTCTCTTGAG
GATAAATAAAATAAAAACTTCATCATGACATCATAACATCAAAGATTAGACAATCATAAATACAT
ACATGAAAT
Found at i:5116 original size:15 final size:15
Alignment explanation
Indices: 5096--5125 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5086 ACAAATTTTG
*
5096 TCTCTCTTGAGACAA
1 TCTCTCTTGAAACAA
5111 TCTCTCTTGAAACAA
1 TCTCTCTTGAAACAA
5126 ATCTTTGAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (15 bp):
TCTCTCTTGAAACAA
Found at i:5559 original size:66 final size:65
Alignment explanation
Indices: 5413--5568 Score: 167
Period size: 66 Copynumber: 2.4 Consensus size: 65
5403 CTTGAAAAAC
* * * *
5413 TCTTTGAGTCTGTTTCATTTGAAACAAATCTTGTCTCCCTTGATACAGTTTCTCGTGAAACACAT
1 TCTTTGAGT-TGTTTCCTTTGAAACAAATCTTGTCCCCCTTGAGACAATTTCTCGTGAAACACAT
5478 A
65 A
* * *
5479 TCTTTGAGTCGTTTCCTTTGAAACAAAGTTTTGTCCCCCTTGAGACAATTTCT-TTGGAAA-A-A
1 TCTTTGAGTTGTTTCCTTTGAAACAAA-TCTTGTCCCCCTTGAGACAATTTCTCGT-GAAACACA
5541 TTA
64 -TA
5544 TCTTTGAGTTGGTTT-CTCTTGAAAC
1 TCTTTGAGTT-GTTTCCT-TTGAAAC
5569 CAAAATCCCT
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
64 1 0.01
65 31 0.40
66 45 0.58
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.41
Consensus pattern (65 bp):
TCTTTGAGTTGTTTCCTTTGAAACAAATCTTGTCCCCCTTGAGACAATTTCTCGTGAAACACATA
Found at i:5815 original size:130 final size:129
Alignment explanation
Indices: 5573--5964 Score: 410
Period size: 130 Copynumber: 3.0 Consensus size: 129
5563 TGAAACCAAA
* * * * * * * *
5573 ATCCCTAAAGATGGCATGCAATCTTCATCGCGTAGGAGTCGTGTCATCCCCCGACCAGACCTCCT
1 ATCCCTAAAGATGGTATACCATCCTCATCACGTAGGAATTGTGTCAT-CCCTGACCAGACCTCCT
* * * * *
5638 CATCATGTAGAAGTCGTGTCACCCCAGATAACCAG-TCGTACTTATCACGTAGGAACCGAGTTAT
65 CATCATGTAGGAGACGTGTCACCCCTGATAACCAGCT-GTCCTCATCACGTAGGAACCGAGTTAT
5702 C
129 C
* * * * *
5703 ATTCCTAAAGATTGTCTACCGTCCTCATTACGTAGGAATTGTGTCATCACCTGACCAGACCTCCT
1 ATCCCTAAAGATGGTATACCATCCTCATCACGTAGGAATTGTGTCATC-CCTGACCAGACCTCCT
* * *
5768 CATCATGTAGGAGCCGTGTCACCCCTGATAACCAGCTGTCCTCATCACGTAGGAACTGATTTAAT
65 CATCATGTAGGAGACGTGTCACCCCTGATAACCAGCTGTCCTCATCACGTAGGAACCGAGTT-AT
5833 -
129 C
** * * *
5833 ATCCCTAAAGATGGTATGTCATCCTCATCACGTAGGAACTATATCATCCCTCGACCAGACCTCCT
1 ATCCCTAAAGATGGTATACCATCCTCATCACGTAGGAATTGTGTCATCCCT-GACCAGACCTCCT
* * * ** ** *
5898 CATCACGTAGGAGATGTATCACCCCTAGATAACCAGCCATCCTCATCGTGTAGGAACCGTGTTAT
65 CATCATGTAGGAGACGTGTCACCCCT-GATAACCAGCTGTCCTCATCACGTAGGAACCGAGTTAT
5963 C
129 C
5964 A
1 A
5965 CCACTCCTAA
Statistics
Matches: 215, Mismatches: 41, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
129 4 0.02
130 178 0.83
131 33 0.15
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (129 bp):
ATCCCTAAAGATGGTATACCATCCTCATCACGTAGGAATTGTGTCATCCCTGACCAGACCTCCTC
ATCATGTAGGAGACGTGTCACCCCTGATAACCAGCTGTCCTCATCACGTAGGAACCGAGTTATC
Found at i:6267 original size:3 final size:3
Alignment explanation
Indices: 6249--6324 Score: 65
Period size: 3 Copynumber: 27.3 Consensus size: 3
6239 CTCGAAAAAA
* *
6249 TAT TA- TAT TA- TAT TAT TA- TAT CA- TAT TAT TAT TAT T-G TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
6291 TAT TAT TGT TAT TAT TAT TAT TAA TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6325 TTTTACAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
2 10 0.18
3 47 0.82
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6267 original size:13 final size:14
Alignment explanation
Indices: 6249--6324 Score: 77
Period size: 13 Copynumber: 5.5 Consensus size: 14
6239 CTCGAAAAAA
6249 TATTA-TATTATAT
1 TATTATTATTATAT
*
6262 TATTA-TATCATAT
1 TATTATTATTATAT
*
6275 TATTATTATTGTAT
1 TATTATTATTATAT
*
6289 T-TTATTATTGTTAT
1 TATTATTATT-ATAT
*
6303 TATTATTATTAATGT
1 TATTATTATT-ATAT
6318 TATTATT
1 TATTATT
6325 TTTTACAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
13 25 0.47
14 11 0.21
15 17 0.32
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (14 bp):
TATTATTATTATAT
Found at i:10086 original size:21 final size:22
Alignment explanation
Indices: 10041--10094 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
10031 TGTATAAATT
*
10041 GTATCGATACCATATGGTAGAG
1 GTATCGATACCATATGGGAGAG
10063 GTATCGATACC-TATGTGGAG-G
1 GTATCGATACCATATG-GGAGAG
*
10084 GTATTGATACC
1 GTATCGATACC
10095 CGGGGAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (22 bp):
GTATCGATACCATATGGGAGAG
Found at i:10167 original size:22 final size:20
Alignment explanation
Indices: 10118--10173 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 20
10108 AGCTAATTTT
*
10118 GGTATCGGTA-CCTAGGTAG
1 GGTATCGGTACCCTAGATAG
*
10137 GTTATCGGTACCCTAGTATAG
1 GGTATCGGTACCCTAG-ATAG
10158 AGGTATCGGTACCCTA
1 -GGTATCGGTACCCTA
10174 AGGGTAGTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.29
20 5 0.16
21 3 0.10
22 14 0.45
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (20 bp):
GGTATCGGTACCCTAGATAG
Found at i:11081 original size:18 final size:18
Alignment explanation
Indices: 11058--11109 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
11048 TGTGTTCTAT
11058 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
11076 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
**
11094 GTGGTATTTCGGGACA
1 GTGGTCCTTCGGGACA
11110 AATTCTACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:12590 original size:16 final size:15
Alignment explanation
Indices: 12571--12621 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
12561 ATAATAATTT
*
12571 AGTTATATATTTTTAA
1 AGTT-TATAATTTTAA
*
12587 AGTTTATAATTTTAT
1 AGTTTATAATTTTAA
*
12602 ATTTTA-AATTTTAA
1 AGTTTATAATTTTAA
*
12616 ATTTTA
1 AGTTTA
12622 ATATAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 13 0.42
15 14 0.45
16 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (15 bp):
AGTTTATAATTTTAA
Found at i:12605 original size:7 final size:7
Alignment explanation
Indices: 12581--12635 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
12571 AGTTATATAT
12581 TTTTAAA
1 TTTTAAA
*
12588 GTTTATAA
1 TTTTA-AA
*
12596 TTTTATA
1 TTTTAAA
12603 TTTTAAA
1 TTTTAAA
12610 TTTTAAA
1 TTTTAAA
12617 TTTT-AA
1 TTTTAAA
* *
12623 TATAAAA
1 TTTTAAA
12630 TTTTAA
1 TTTTAA
12636 TATAAAAGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
6 4 0.11
7 28 0.74
8 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (7 bp):
TTTTAAA
Found at i:12625 original size:22 final size:22
Alignment explanation
Indices: 12576--12621 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
12566 AATTTAGTTA
12576 TATATTTTTAAAGTTTATAATTT
1 TATA-TTTTAAAGTTTATAATTT
*
12599 TATATTTTAAATTTTA-AATTT
1 TATATTTTAAAGTTTATAATTT
12620 TA
1 TA
12622 ATATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TATATTTTAAAGTTTATAATTT
Found at i:12632 original size:13 final size:13
Alignment explanation
Indices: 12614--12647 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
12604 TTTAAATTTT
12614 AAATTTTAATATA
1 AAATTTTAATATA
12627 AAATTTTAATATA
1 AAATTTTAATATA
*
12640 AAAGTTTA
1 AAATTTTA
12648 CATCTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
AAATTTTAATATA
Found at i:13981 original size:161 final size:161
Alignment explanation
Indices: 13716--14006 Score: 447
Period size: 161 Copynumber: 1.8 Consensus size: 161
13706 CAAAATGACC
* *
13716 AAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTT
1 AAACCGGTAAAACGCCACCGGATATGTTAAAAGTGTCGATACTTTATTATAAGTATCGACACTTT
* ** * * *
13781 TGGAATTTAAAAGACAAGCAATAATCGCGTTTTTAAAGTGTTGATACATTATAAAAATATATCGA
66 TGGAATTTAAAAGACAAGCAATAATAGCGCCTATAAAGTGTCGAAACATTATAAAAATATATCGA
13846 TACATAACAATATAACATGTAAAATATGATA
131 TACATAACAATATAACATGTAAAATATGATA
* *
13877 AAACCGGTAAAGCGCCACTGGATATGTTAAAAGTGTCGATACTTTATTATAAGTATCGACACTTT
1 AAACCGGTAAAACGCCACCGGATATGTTAAAAGTGTCGATACTTTATTATAAGTATCGACACTTT
* * * * *
13942 TGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGAAACTTTATAAAATTGTATCGA
66 TGGAATTTAAAAGACAAGCAATAATAGCGCCTATAAAGTGTCGAAACATTATAAAAATATATCGA
14007 CACTTGGGTT
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
161 115 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (161 bp):
AAACCGGTAAAACGCCACCGGATATGTTAAAAGTGTCGATACTTTATTATAAGTATCGACACTTT
TGGAATTTAAAAGACAAGCAATAATAGCGCCTATAAAGTGTCGAAACATTATAAAAATATATCGA
TACATAACAATATAACATGTAAAATATGATA
Found at i:15924 original size:22 final size:22
Alignment explanation
Indices: 15874--15928 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
15864 GTTTTTGTTT
15874 TTTTA-TATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
*
15896 TAGTTATTATATAAAATGATCA-A
1 T-TTTATTATATAAAATGAT-AGA
15919 TTTTATTATA
1 TTTTATTATA
15929 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 9 0.32
23 5 0.18
24 13 0.46
25 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:16623 original size:15 final size:18
Alignment explanation
Indices: 16575--16622 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
16565 GCTATGTAGA
16575 GAAAAAATATGATGAACT
1 GAAAAAATATGATGAACT
16593 GAAAAAATATGATGAACT
1 GAAAAAATATGATGAACT
16611 GAAAAAATATGA
1 GAAAAAATATGA
16623 AGAAGAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.58, C:0.04, G:0.17, T:0.21
Consensus pattern (18 bp):
GAAAAAATATGATGAACT
Found at i:18166 original size:19 final size:19
Alignment explanation
Indices: 18142--18190 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
18132 AATGTAGGGT
18142 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
18161 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
18180 TAATTTTGTAT
1 TAATTTTGTAT
18191 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:18790 original size:201 final size:200
Alignment explanation
Indices: 18538--19700 Score: 1767
Period size: 201 Copynumber: 5.8 Consensus size: 200
18528 AAACAATATA
18538 TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* *
18603 GATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTGTC
66 AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
* *
18668 GGCACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAAAAGGGGTGCACGCAT
131 GACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAAAGGGGTGCACGCAT
18733 AAAGTG
195 AAAGTG
* *
18739 TCGATACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAACCCATAATTATGATGTAATAGGT
1 TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* * *
18804 AATTTTTCAATGTAATCGGTATAAAAAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTATT
66 AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
* *
18869 GACACTTGTGGAATTTGTGTCTATACTTTTTATCCAGAATGAATGCACAAAAGGGGTGCACGCAT
131 GACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGC-CAAAAGGGGTGCACGCAT
18934 AAAGTG
195 AAAGTG
* * * * *
18940 TCGAAACAGTTATAAAAAGTATCGATCCCAAAAACATCTAAACCCATAATTCTAATGTAATAGGT
1 TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* * * **
19005 AATTTTTCAATGTAACCGGTATAAAAAGATCAGTTTTATGAGAGAATAAATCTACATAATGTATC
66 AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
*
19070 GACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA-GGGTGCACGCAT
131 GACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAAAGGGGTGCACGCAT
19134 AAAGTG
195 AAAGTG
* * *
19140 CCGATACATTTATAAAAAGTGTCGAT-CCATAAAATATCGAAACCTATAATTATAATGTAATAGG
1 TCGATACATTTATAAAAAGTGTCGATCCCA-AAAACATCGAAACCCATAATTATAATGTAATAGG
* * * *
19204 TAATTTTTCAATGTAACGGGTATAAATAGTCCAGTTTTATGAAAGAATAGGTCTACATAATGTAT
65 TAATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
19269 CGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCTAAAAGGGGTGCACGCA
130 CGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCC-AAAAGGGGTGCACGCA
*
19334 TAAATTG
194 TAAAGTG
* *
19341 TCGATACATTTATAAAATGTGTTGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
*
19406 AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATAAGAGAATAGGTCTACATAATGTATC
66 AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
* * * ** * *
19471 GACACTTGTGGAATTTATGTCGATACATTTTGTCTAGAATGAATGCC-CGA-GGTTGCATGCATA
131 GACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGGGTGCACGCATA
19534 AAGTG
196 AAGTG
* *
19539 TTGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* * ** * ** *
19604 AAATTTACAATGTAACTAGTACAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATGTATC
66 AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
* **
19669 GACACTTTTTAAATTTGTGTCGATACATTTTT
131 GACACTTGTGGAATTTGTGTCGATAC-TTTTT
19701 AAATTTCGTG
Statistics
Matches: 875, Mismatches: 80, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
198 154 0.18
199 10 0.01
200 178 0.20
201 529 0.60
202 4 0.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (200 bp):
TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
GACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGGGTGCACGCATA
AAGTG
Found at i:19308 original size:401 final size:400
Alignment explanation
Indices: 18538--19701 Score: 1773
Period size: 401 Copynumber: 2.9 Consensus size: 400
18528 AAACAATATA
18538 TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* *
18603 GATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTGTC
66 AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
* * *
18668 GGCACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAAAAGGGGTGCACGCAT
131 GACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA-GGGTGCACGCAT
* * *
18733 AAAGTGTCGATACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAACCCATAATTATGATGTA
195 AAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCAATAATTATAATGTA
* * *
18798 ATAGGTAATTTTTCAATGTAATCGGTATAAAAAGACCGGTTTTATGAGAGAATAGGTCTACATAA
260 ATAGGTAATTTTTCAATGTAA-CGGTATAAATAGTCCGGTTTTATGAAAGAATAGGTCTACATAA
* *
18863 TGTATTGACACTTGTGGAATTTGTGTCTATACTTTTTATCCAGAATGAATGCAC-AAAAGGGGTG
324 TGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTATCCAGAATGAATGC-CTAAAAGGGGTG
18927 CACGCATAAAGTG
388 CACGCATAAAGTG
* * * * *
18940 TCGAAACAGTTATAAAAAGTATCGATCCCAAAAACATCTAAACCCATAATTCTAATGTAATAGGT
1 TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* * * **
19005 AATTTTTCAATGTAACCGGTATAAAAAGATCAGTTTTATGAGAGAATAAATCTACATAATGTATC
66 AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
19070 GACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGCATA
131 GACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGCATA
* * *
19135 AAGTGCCGATACATTTATAAAAAGTGTCGAT-CCATAAAATATCGAAACCTATAATTATAATGTA
196 AAGTGTCGATACATTTATAAAAAGTGTCGATCCCA-AAAACATCGAAACCAATAATTATAATGTA
*
19199 ATAGGTAATTTTTCAATGTAACGGGTATAAATAGTCCAGTTTTATGAAAGAATAGGTCTACATAA
260 ATAGGTAATTTTTCAATGTAAC-GGTATAAATAGTCCGGTTTTATGAAAGAATAGGTCTACATAA
*
19264 TGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCTAAAAGGGGTGC
324 TGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTATCCAGAATGAATGCCTAAAAGGGGTGC
*
19329 ACGCATAAATTG
389 ACGCATAAAGTG
* *
19341 TCGATACATTTATAAAATGTGTTGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
*
19406 AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATAAGAGAATAGGTCTACATAATGTATC
66 AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
* * * * * * *
19471 GACACTTGTGGAATTTATGTCGATACATTTTGTCTAGAATGAATGCCC--GAGGTTGCATGCATA
131 GACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGCATA
*
19534 AAGTGTTGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCAATAATTATAATGTAA
196 AAGTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCAATAATTATAATGTAA
* * * * *
19599 TAGGTAAATTTACAATGTAACTAGTACAAAT-TTACCGGTTTTATGAGAA-AATAGGTCTACATA
261 TAGGTAATTTTTCAATGTAAC-GGTATAAATAGT-CCGGTTTTATGA-AAGAATAGGTCTACATA
* **
19662 ATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTTA
323 ATGTATCGACACTTGTGGAATTTGTGTCGATAC-TTTTTA
19702 AATTTCGTGT
Statistics
Matches: 692, Mismatches: 63, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
398 1 0.00
399 150 0.22
400 15 0.02
401 359 0.52
402 167 0.24
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (400 bp):
TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
AATTTTTCAATGTAACCGGTATAAATAGACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
GACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGCATA
AAGTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCAATAATTATAATGTAA
TAGGTAATTTTTCAATGTAACGGTATAAATAGTCCGGTTTTATGAAAGAATAGGTCTACATAATG
TATCGACACTTGTGGAATTTGTGTCGATACTTTTTATCCAGAATGAATGCCTAAAAGGGGTGCAC
GCATAAAGTG
Found at i:20334 original size:2 final size:2
Alignment explanation
Indices: 20327--20358 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20317 CTATGTCAGG
20327 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
20359 TTGCGGATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24331 original size:20 final size:19
Alignment explanation
Indices: 24293--24331 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
24283 CGAAACATTT
*
24293 AATTACAATGTAATAGGTA
1 AATTACAATGTAACAGGTA
*
24312 AATTAACAATGTAACCGGTA
1 AATT-ACAATGTAACAGGTA
24332 CAAATTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (19 bp):
AATTACAATGTAACAGGTA
Found at i:24756 original size:200 final size:198
Alignment explanation
Indices: 23888--24807 Score: 1087
Period size: 200 Copynumber: 4.6 Consensus size: 198
23878 AAAATATTTG
* ** * * * * *
23888 AGATAATTATAACGTAATAGGTAAATTTCCAATGTAACCGGTAGATATATACC-GATTTAATTAG
1 AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATTTACCAG-TTTTATGAG
* * * * * * *
23952 AAAACATGTCAACACAATGTATCAACACTTTTTAAA-TTGTGTCGATTCTTTTTGTCCAGAATGA
65 AAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTTTCCAGAATGA
* * * * * *
24016 ATGCCCAACCGAGGTGCATGAATAAAGTGTCGATGCATTTATTAAAAGCATCGATCCCAAAAACA
130 ATGCCCAA--AAGGTGCACGCATAAAGTGTCGATACATTT-TAAAAAGTATCGATCCCAAAAACA
*
24081 TCGAATC
192 TCGAAAC
* **
24088 AGATAATTATAATGTAATAAGTAAATTAACAATGTAACTTGTACAAATTTACCAGTTTTATGAGA
1 AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATTTACCAGTTTTATGAGA
* * ** *
24153 AAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGACACTTTGTTTAAATTAAATG
66 AAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTTTCCA--GAATG
* ** *
24218 AATGCCCAAAACGGTTCACGCATAAAGTGTCGATACATTTTAAATTGTATCAATCCCAAAAACAT
129 AATGCCCAAAA-GGTGCACGCATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACAT
24283 CGAAAC
193 CGAAAC
** * * *
24289 ATTTAATTACAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATTTATC-GGTTTATGAGA
1 AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATTTACCAGTTTTATGAGA
* * * * *
24353 AAATAGTTATACATAATGTATCGACACTTTTTATATTTGTGTCAATACTTTTTGTCCAGAATGAA
66 AAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTTTCCAGAATGAA
* * *
24418 TG-CCAAACTGGGTGCATGCATAAAGTGTCGATACATTTTAAATTA-TATCGATCCCAAAAACAT
131 TGCCCAAA--AGGTGCACGCATAAAGTGTCGATACATTTTAAA-AAGTATCGATCCCAAAAACAT
24481 CGAAAC
193 CGAAAC
* *
24487 CGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTATC-AATTTACCGGTTTTATGAG
1 AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTA-CAAATTTACCAGTTTTATGAG
*
24551 AAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCGATACTTTTTTTCCAGAATGA
65 AAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTTTCCAGAATGA
* * * *
24616 ATGCCCAAAAGGATGCACCCATAAAGTGTTGATACATTTATAAAAAGAATCGATCCCAAAAATAT
130 ATGCCCAAAAGG-TGCACGCATAAAGTGTCGATACATTT-TAAAAAGTATCGATCCCAAAAACAT
**
24681 TAAAAC
193 CGAAAC
* ** * * *
24687 CGATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATATCAGTTTTATGAGA
1 AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATTTACCAGTTTTATGAGA
** *
24752 AAATAGGTCTACATAATGTATTAACACTTTTTTAAATTGGTGTCGATACTTTTTTT
66 AAATAGGTCTACATAATGTATCGACAC-TTTTTAAATTTGTGTCGATACTTTTTTT
24808 AAATTACGCA
Statistics
Matches: 616, Mismatches: 88, Indels: 31
0.84 0.12 0.04
Matches are distributed among these distances:
197 5 0.01
198 109 0.18
199 97 0.16
200 253 0.41
201 115 0.19
202 24 0.04
203 13 0.02
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (198 bp):
AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATTTACCAGTTTTATGAGA
AAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTTTCCAGAATGAA
TGCCCAAAAGGTGCACGCATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACATCGA
AAC
Found at i:24849 original size:399 final size:398
Alignment explanation
Indices: 23888--24805 Score: 1148
Period size: 399 Copynumber: 2.3 Consensus size: 398
23878 AAAATATTTG
* * ** * * * * *
23888 AGATAATTATAACGTAATAGGTAAATTTCCAATGTAACCGGTAGATATATACCGATTTAATTAGA
1 AGATAATTACAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATATATCGGTTT-ATGAGA
* * * * *
23953 AAACATGTCA-ACACAATGTATCAACACTTTTTAAATT-GTGTCGATTCTTTTTGTCCAGAATGA
65 AAATAGGT-ATACATAATGTATCAACACTTTTTAAATTGGTGTCAATACTTTTTGTCCAGAATGA
* * * * * *
24016 ATGCCCAACCGAGGTGCATGAATAAAGTGTCGATGCATTTATTAAA--AGCATCGATCCCAAAAA
129 ACGCCAAACTG-GGTGCATGCATAAAGTGTCGATACA-TT-TTAAATTA-TATCGATCCCAAAAA
* **
24079 CATCGAATCAGATAATTATAATGTAATAAGTAAATTAACAATGTAACTTGTACAAATTTACCAGT
190 CATCGAAACAGATAATTATAATGTAATAAGTAAATTAACAATGTAACCGGTACAAATTTACCAGT
*
24144 TTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGACACTTTGTTTA
255 TTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCGACACTTTGTTTA
* * ** *
24209 AATTAAATGAATGCCCAAAACGGTTCACGCATAAAGTGTCGATACATTTTAAATTGTATCAATCC
320 AA-TAAATGAATGCCCAAAACGGTGCACCCATAAAGTGTCGATACATTTTAAAAAGAATCAATCC
*
24274 CAAAAACATCGAAAC
384 CAAAAACATCAAAAC
** *
24289 ATTTAATTACAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATTTATCGGTTTATGAGAA
1 AGATAATTACAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATATATCGGTTTATGAGAA
* * * * *
24354 AATAGTTATACATAATGTATCGACACTTTTTATATTTGTGTCAATACTTTTTGTCCAGAATGAAT
66 AATAGGTATACATAATGTATCAACACTTTTTAAATTGGTGTCAATACTTTTTGTCCAGAATGAAC
24419 GCCAAACTGGGTGCATGCATAAAGTGTCGATACATTTTAAATTATATCGATCCCAAAAACATCGA
131 GCCAAACTGGGTGCATGCATAAAGTGTCGATACATTTTAAATTATATCGATCCCAAAAACATCGA
* * *
24484 AACCGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTATC-AATTTACCGGTTTTAT
196 AACAGATAATTATAATGTAATAAGTAAATTAACAATGTAACCGGTA-CAAATTTACCAGTTTTAT
* * ** *
24548 GAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCGATACTTTTTTTCCA-GA
260 GAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCGACACTTTGTTTAAATAA
* *
24612 ATGAATGCCCAAAA-GGATGCACCCATAAAGTGTTGATACATTTATAAAAAGAATCGATCCCAAA
325 ATGAATGCCCAAAACGG-TGCACCCATAAAGTGTCGATACATTT-TAAAAAGAATCAATCCCAAA
* *
24676 AATATTAAAAC
388 AACATCAAAAC
* * ** * *
24687 CGATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATATCAGTTTTATGAGA
1 AGATAATTACAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATATATC-GGTTTATGAGA
* * *
24752 AAATAGGTCTACATAATGTATTAACACTTTTTTAAATTGGTGTCGATACTTTTT
65 AAATAGGTATACATAATGTATCAACAC-TTTTTAAATTGGTGTCAATACTTTTT
24806 TTAAATTACG
Statistics
Matches: 445, Mismatches: 63, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
396 2 0.00
397 38 0.09
398 74 0.17
399 169 0.38
400 82 0.18
401 80 0.18
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (398 bp):
AGATAATTACAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATATATCGGTTTATGAGAA
AATAGGTATACATAATGTATCAACACTTTTTAAATTGGTGTCAATACTTTTTGTCCAGAATGAAC
GCCAAACTGGGTGCATGCATAAAGTGTCGATACATTTTAAATTATATCGATCCCAAAAACATCGA
AACAGATAATTATAATGTAATAAGTAAATTAACAATGTAACCGGTACAAATTTACCAGTTTTATG
AGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCGACACTTTGTTTAAATAAA
TGAATGCCCAAAACGGTGCACCCATAAAGTGTCGATACATTTTAAAAAGAATCAATCCCAAAAAC
ATCAAAAC
Found at i:26372 original size:19 final size:19
Alignment explanation
Indices: 26348--26395 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
26338 ATGTATGTGA
26348 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
*
26367 AATTTTGTATACGATTTAT
1 AATTTTGTATACGATTCAT
26386 AATTTTGTAT
1 AATTTTGTAT
26396 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.52
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Found at i:29489 original size:200 final size:200
Alignment explanation
Indices: 29119--29620 Score: 660
Period size: 200 Copynumber: 2.5 Consensus size: 200
29109 GTAAACATAT
* *
29119 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATA
* * *
29184 GGTAATTTT-TCAATGTAACCGGTATAAATATA-CTGTTTTATGAGATAATAGGTCTACATAATG
66 GGTAATTTTGT-AATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCAACATAATG
* * * * *
29247 TATCGACACTTGTGTAATTTGTGTCGATACTCTTTGTCCAGAATTAATGCCCAA-AATGGGTTCA
130 TATCAACACTTGTGTAATATGTATCGATACTCTTTGTCCAGAATGAATGCCCAACAA--GGTGCA
29311 CACATAAA
193 CACATAAA
* * *
29319 GTGTCGATAAATTTATAAAAAGTCTCGATCCCAAAAACATCGAAACACATAATTATACTGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATA
*
29384 GGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTAT-ATGAGAATAGGTCAACATAATG
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCAGTTTTATGA-GAGAATAGGTCAACATAATG
* *
29448 TATCAACACTT-TTTAAATATGTATCGATAC-CTTTTTCCAGAATGAATGCCCAACAAGGTGCAC
130 TATCAACACTTGTGT-AATATGTATCGATACTCTTTGTCCAGAATGAATGCCCAACAAGGTGCAC
*
29511 GCATAAA
194 ACATAAA
** * *
29518 GTGTCGATACATTTA-AAATTGTGTCGATCCCAAAAACATCGAAA-ACTATAATTATAATATAAT
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACAC-ATAATTATAATGTAAT
* * * * *
29581 AAGTAAATTTGCAATGTTACCGGTATAAATAAACCAGTTT
65 AGGTAATTTTGTAATGTAACCGGTATAAATATACCAGTTT
29621 AGTCAGAAAA
Statistics
Matches: 267, Mismatches: 29, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
197 2 0.01
198 74 0.28
199 26 0.10
200 113 0.42
201 52 0.19
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATA
GGTAATTTTGTAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCAACATAATGT
ATCAACACTTGTGTAATATGTATCGATACTCTTTGTCCAGAATGAATGCCCAACAAGGTGCACAC
ATAAA
Found at i:30182 original size:12 final size:12
Alignment explanation
Indices: 30165--30198 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30155 TTTTAATATT
*
30165 TATCAGGTCGGG
1 TATCAGGCCGGG
30177 TATCAGGCCGGG
1 TATCAGGCCGGG
*
30189 TATCGGGCCG
1 TATCAGGCCG
30199 AGTAATTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.24, G:0.41, T:0.21
Consensus pattern (12 bp):
TATCAGGCCGGG
Found at i:30293 original size:36 final size:37
Alignment explanation
Indices: 30237--30311 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 37
30227 CTAAACCCGT
30237 CCCTGTCCCCGTTTAACATAAAC-GATTTTTCCCCATC
1 CCCTGTCCCCGTTTAACATAAACAG-TTTTTCCCCATC
* *
30274 CCCT-TCCCCGTTTAGCATAAACAGTTTTTCCCCGTC
1 CCCTGTCCCCGTTTAACATAAACAGTTTTTCCCCATC
30310 CC
1 CC
30312 TGTTTAATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
36 30 0.86
37 5 0.14
ACGTcount: A:0.19, C:0.40, G:0.09, T:0.32
Consensus pattern (37 bp):
CCCTGTCCCCGTTTAACATAAACAGTTTTTCCCCATC
Found at i:31161 original size:265 final size:261
Alignment explanation
Indices: 30660--31214 Score: 780
Period size: 265 Copynumber: 2.1 Consensus size: 261
30650 AAATTTTATT
* * *
30660 TCGGGTCGGGTTTCTAATTCTTATATTCGGGTCGGGTCGGGTGAAACTCTATTTTGGTCGGGTCG
1 TCGGGTCGGGTTTCTAATTCATATATTCGGGTCAGGTCGGGTGAAACTCTATTTTGGTCAGGTCG
* *
30725 GGTCGGCTTTTTTAAGTGTGATATTCGGGTCGAGTCGAGTTCGGGTTTAGGGTGAAAAATGCCCG
66 GGTCGGCTTTTTTAAGTGTGATATTCGGGTCGAGTCGAGTTCGGGTTTAGGGTGAAAAAGGACCG
* *
30790 ACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTCTAT
131 ACCCGAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATAT
*
30855 ATATATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAA-TATTTTATTA-T-T-TCGG
196 ATATATTTTTTCAATTAAGTCAATGTTTTTATTGAATAAAAATAATTATTTTATTATTGTGTCGG
30916 G
261 G
* * * *
30917 TCGGGTCGGATTTCTAATTCATATATTCGGGTCAGGTCGGGTGAAACTTTATTTTGTTTAGGTCG
1 TCGGGTCGGGTTTCTAATTCATATATTCGGGTCAGGTCGGGTGAAACTCTATTTTGGTCAGGTCG
* * * *
30982 GGTCGGGTTTTTTAAGTGTGATATTCGGGTTGAGTCGGGTCGGGTTTGGGTTTAGGGTGAAAAAA
66 GGTCGGCTTTTTTAAGTGTGATATTC--G--G-GTCGAGTCGAGTTCGGGTTTAGGGTG--AAAA
*
31047 ACCGGACCGACCC-AAAAAATATATAATTTTACCTTATATATTTAGGAATAATTATAATAATACC
124 A--GGACCGACCCGAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACC
*
31111 CCTCTATATATA-ATTTTTTTCAATTAAGTCAATGTTTTTATTGAATAAAAATAATTTTTTTATT
187 CCTCTATATATATA-TTTTTTCAATTAAGTCAATGTTTTTATTGAATAAAAATAATTATTTTATT
*
31175 ATTTTGTGTCGTG
251 A--TTGTGTCGGG
*
31188 TCGGGTCGGGTTTCTAATTCATTTATT
1 TCGGGTCGGGTTTCTAATTCATATATT
31215 GAATAAAAAT
Statistics
Matches: 261, Mismatches: 21, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
257 83 0.32
259 1 0.00
261 1 0.00
262 23 0.09
264 6 0.02
265 99 0.38
266 17 0.07
269 1 0.00
270 1 0.00
271 29 0.11
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (261 bp):
TCGGGTCGGGTTTCTAATTCATATATTCGGGTCAGGTCGGGTGAAACTCTATTTTGGTCAGGTCG
GGTCGGCTTTTTTAAGTGTGATATTCGGGTCGAGTCGAGTTCGGGTTTAGGGTGAAAAAGGACCG
ACCCGAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATAT
ATATATTTTTTCAATTAAGTCAATGTTTTTATTGAATAAAAATAATTATTTTATTATTGTGTCGG
G
Found at i:31945 original size:23 final size:23
Alignment explanation
Indices: 31898--31945 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
31888 AATCAAATTC
* *
31898 TTAAATTTGTTTAAATTATATAT
1 TTAAATATGTTTAAATCATATAT
31921 TTAAATATGTTTAAAGTCATA-AT
1 TTAAATATGTTTAAA-TCATATAT
31944 TT
1 TT
31946 TCAAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (23 bp):
TTAAATATGTTTAAATCATATAT
Found at i:39889 original size:90 final size:89
Alignment explanation
Indices: 39736--39910 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 89
39726 CCTAACACAC
* * * *
39736 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGAGATTTTATTATTTCAAATTAATTAAATCTAT
*
39801 ATTTAATTAATTAGAATTTAATAAT
66 ATTTAATTAATT-GAAATTAATAAT
* *
39826 CCTTTTATATCCGAGTTACCCTAATCATATCAGAGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGAGATTTTATTATTTCAAATTAATTAAATCTAT
39891 ATTTAATTAATTGAAATTAA
66 ATTTAATTAATTGAAATTAA
39911 ATATTCGGGA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 7 0.09
90 71 0.91
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGAGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAATAAT
Found at i:46860 original size:2 final size:2
Alignment explanation
Indices: 46853--46878 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46843 AGCATTGATT
46853 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
46879 CTAGCGGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:48818 original size:23 final size:23
Alignment explanation
Indices: 48773--48818 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
48763 AGAGTTGTCG
**
48773 TTAAAGTTTAAAAAGATTGAAAA
1 TTAAAGTTTAAAAAGATACAAAA
48796 TTAAAGTATTAAAAAGA-ACAAAA
1 TTAAAGT-TTAAAAAGATACAAAA
48819 ATTGTTAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.26
Consensus pattern (23 bp):
TTAAAGTTTAAAAAGATACAAAA
Found at i:48819 original size:24 final size:23
Alignment explanation
Indices: 48773--48821 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
48763 AGAGTTGTCG
***
48773 TTAAAGTTTAAAAAGATTGAAAA
1 TTAAAGTTTAAAAAGAACAAAAA
48796 TTAAAGTATTAAAAAGAACAAAAA
1 TTAAAGT-TTAAAAAGAACAAAAA
48820 TT
1 TT
48822 GTTAGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (23 bp):
TTAAAGTTTAAAAAGAACAAAAA
Found at i:48929 original size:36 final size:36
Alignment explanation
Indices: 48865--48934 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 36
48855 ATGATGCATA
*
48865 TTAAAATAAAATAAAAACTAAACGTT-AAATATAAT
1 TTAAAATAAAATAAAAACTAAACATTAAAATATAAT
*
48900 TTAAAA-AAAATTAAAAATCTAAATATTAAAATATA
1 TTAAAATAAAA-TAAAAA-CTAAACATTAAAATATA
48935 CAAAACTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.13
35 12 0.40
36 7 0.23
37 7 0.23
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (36 bp):
TTAAAATAAAATAAAAACTAAACATTAAAATATAAT
Found at i:49035 original size:39 final size:39
Alignment explanation
Indices: 48981--49058 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
48971 GCATGCTTTT
48981 ATTGTTGATGAACAAGACATATACGTCCATCGCACATTG
1 ATTGTTGATGAACAAGACATATACGTCCATCGCACATTG
49020 ATTGTTGATGAACAAGACATATACGTCCATCGCACATTG
1 ATTGTTGATGAACAAGACATATACGTCCATCGCACATTG
49059 CCAGTGAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (39 bp):
ATTGTTGATGAACAAGACATATACGTCCATCGCACATTG
Found at i:49888 original size:22 final size:22
Alignment explanation
Indices: 49846--49890 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
49836 GCGACACGGC
*
49846 TTAAAAGTTCCATATTCAAAAT
1 TTAAAAGTTCCAAATTCAAAAT
*
49868 TTAAAATTTCCAAAGTT-AAAAT
1 TTAAAAGTTCCAAA-TTCAAAAT
49890 T
1 T
49891 AGTGAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (22 bp):
TTAAAAGTTCCAAATTCAAAAT
Found at i:51556 original size:19 final size:19
Alignment explanation
Indices: 51532--51588 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
51522 GGAGATCGAC
51532 GAGAAGGAAGCCGACCGGT
1 GAGAAGGAAGCCGACCGGT
*
51551 GAGAAGGAAGCCGACCAGT
1 GAGAAGGAAGCCGACCGGT
51570 GAGAAGGAAGCCGACCGGT
1 GAGAAGGAAGCCGACCGGT
51589 TTTCGGCCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.33, C:0.21, G:0.40, T:0.05
Consensus pattern (19 bp):
GAGAAGGAAGCCGACCGGT
Found at i:54597 original size:11 final size:12
Alignment explanation
Indices: 54567--54591 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54557 AAAAAAAATA
54567 TAAGATAAAAAG
1 TAAGATAAAAAG
54579 TAAGATAAAAAG
1 TAAGATAAAAAG
54591 T
1 T
54592 GGATAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (12 bp):
TAAGATAAAAAG
Found at i:54678 original size:12 final size:13
Alignment explanation
Indices: 54661--54693 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
54651 TAAATAAAAC
54661 AAAATAAAGG-AA
1 AAAATAAAGGAAA
54673 AAAATAAAGGAAA
1 AAAATAAAGGAAA
54686 AAAATAAA
1 AAAATAAA
54694 TAAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (13 bp):
AAAATAAAGGAAA
Found at i:54716 original size:12 final size:13
Alignment explanation
Indices: 54696--54728 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
54686 AAAATAAATA
54696 AATAAAAAGAGAT
1 AATAAAAAGAGAT
*
54709 AA-AAAAAGAGGT
1 AATAAAAAGAGAT
54721 AATAAAAA
1 AATAAAAA
54729 ATAGAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (13 bp):
AATAAAAAGAGAT
Found at i:54839 original size:9 final size:9
Alignment explanation
Indices: 54825--54849 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
54815 ATAATATAAA
54825 AATAATAGT
1 AATAATAGT
54834 AATAATAGT
1 AATAATAGT
54843 AATAATA
1 AATAATA
54850 AAGAATATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (9 bp):
AATAATAGT
Found at i:54951 original size:28 final size:31
Alignment explanation
Indices: 54906--54964 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 31
54896 AAAAAGGGAA
*
54906 TAAAAAGTAAAATAAAATAAAATGTATATAT
1 TAAAAAGTAAAATAAAATAAAAAGTATATAT
54937 TAAAAA-T-AAAT-AAATAAAAAGTATATAT
1 TAAAAAGTAAAATAAAATAAAAAGTATATAT
54965 ATATTTGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 16 0.59
29 4 0.15
30 1 0.04
31 6 0.22
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (31 bp):
TAAAAAGTAAAATAAAATAAAAAGTATATAT
Found at i:57252 original size:110 final size:110
Alignment explanation
Indices: 57096--57302 Score: 290
Period size: 110 Copynumber: 1.9 Consensus size: 110
57086 AACTGAGAAA
* *
57096 TTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTTCAATA
1 TTGTTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATA
**
57161 TCATTCGTTGTGAAGTTGAAATTGACTCTGAATGAATTTGAAAAG
66 TCATTCACTGTGAAGTTGAAATTGACTCTGAATGAATTTGAAAAG
** * * * * *
57206 TTGTTTGTTGACAATCAGTTGCCCCTTC-ATCGTGACGTTGAGCTTGTGTTGTCTTGGGTCCAAT
1 TTGTTTGTTGACAATCAGCCGCCCCTTCGCT-GTGAAGTTGAGCTTGTGCTGTCTCGAGTCCAAT
*
57270 ATCATTCACTGTGAAGTTGAAATTGGCTCTGAA
65 ATCATTCACTGTGAAGTTGAAATTGACTCTGAA
57303 ATTGGGAAGC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
109 1 0.01
110 83 0.99
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (110 bp):
TTGTTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATA
TCATTCACTGTGAAGTTGAAATTGACTCTGAATGAATTTGAAAAG
Found at i:58274 original size:8 final size:8
Alignment explanation
Indices: 58242--58288 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 8
58232 ACCCACCTTA
58242 TTTTTCTT
1 TTTTTCTT
58250 TTATGTT-TT
1 TT-T-TTCTT
58259 TTTGTTCTT
1 TTT-TTCTT
58268 TTTTTCTCT
1 TTTTTCT-T
58277 TTTTTCTT
1 TTTTTCTT
58285 TTTT
1 TTTT
58289 CAATTTAGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 15 0.43
9 18 0.51
10 2 0.06
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:58366 original size:62 final size:59
Alignment explanation
Indices: 58267--58384 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 59
58257 TTTTTGTTCT
* ** *
58267 TTTTTTCTCTTTTTTCTTTTTTCAATTTAGGGTGCCCTTTCGGGTTTTCACCCTAAATG
1 TTTTTTCTCTTTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAATG
* *
58326 TTTTTTCTCTTTTTCATTGTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTTCTC-TTTT--TTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
58385 GCGAAGTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 9 0.18
60 4 0.08
62 37 0.74
ACGTcount: A:0.13, C:0.22, G:0.13, T:0.53
Consensus pattern (59 bp):
TTTTTTCTCTTTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAATG
Found at i:66564 original size:164 final size:164
Alignment explanation
Indices: 66286--66589 Score: 509
Period size: 164 Copynumber: 1.9 Consensus size: 164
66276 CTATCGGATA
*
66286 TTCCTCCATAGTCCGGGTGTCTTCACAGTCTGGCACCGGGATATTATCATTCTTTCTCAATCTTT
1 TTCCTCCATAGTCCGGGTGTCTTCACAGTCTGGCACCGGGATATTATCATTCTTTCTCAATCTTC
* *
66351 GCCACTCCACATAATCCGGAGTGAGCATGTATCTGGTAGCTACAACATCCATCCAGAATACTTTC
66 GCCACTCCACATAATCCGGAGTGAGCATGTATCTGGCAGCTACAACATCCATCCAGAATACTTTA
66416 TTCCATGATTCAGCTCGTTATTTCCACTGAGAAG
131 TTCCATGATTCAGCTCGTTATTTCCACTGAGAAG
** *
66450 TTCCTCCATAGTCCGGGTGTCTTCACAGTCTGGCGTCGGGATGTTATCATTCTTTCTCAATCTTC
1 TTCCTCCATAGTCCGGGTGTCTTCACAGTCTGGCACCGGGATATTATCATTCTTTCTCAATCTTC
* * * * *
66515 GTCACTCCACATAATTCGGAGTGAGCATGTCTCTGGCAGCTATAACATCCATCCGGAATACTTTA
66 GCCACTCCACATAATCCGGAGTGAGCATGTATCTGGCAGCTACAACATCCATCCAGAATACTTTA
66580 TTCCATGATT
131 TTCCATGATT
66590 TAGCCGCTTC
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
164 129 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (164 bp):
TTCCTCCATAGTCCGGGTGTCTTCACAGTCTGGCACCGGGATATTATCATTCTTTCTCAATCTTC
GCCACTCCACATAATCCGGAGTGAGCATGTATCTGGCAGCTACAACATCCATCCAGAATACTTTA
TTCCATGATTCAGCTCGTTATTTCCACTGAGAAG
Found at i:69565 original size:24 final size:20
Alignment explanation
Indices: 69508--69584 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 20
69498 TTCCCCTTGA
*
69508 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
69528 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
69551 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
69572 A-TGCATCGATGCA
1 AGTGCATCGATGCA
69585 CTAATTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
19 12 0.25
20 14 0.29
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:72447 original size:23 final size:24
Alignment explanation
Indices: 72412--72460 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
72402 CCACTAGGGG
*
72412 CTATGAATTTGTCCCGAAGGACCA
1 CTATGAATATGTCCCGAAGGACCA
*
72436 CTATGAA-ATGTCTCGAAGGACCA
1 CTATGAATATGTCCCGAAGGACCA
72459 CT
1 CT
72461 GTATGTCCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (24 bp):
CTATGAATATGTCCCGAAGGACCA
Found at i:72472 original size:20 final size:22
Alignment explanation
Indices: 72421--72473 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
72411 GCTATGAATT
72421 TGTCCCGAAGGACCACTATGAAA
1 TGTCCCGAAGGACCAC-ATGAAA
* *
72444 TGTCTCGAAGGACCAC-TG-TA
1 TGTCCCGAAGGACCACATGAAA
72464 TGTCCCGAAG
1 TGTCCCGAAG
72474 TGTAATACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.37
21 2 0.07
23 15 0.56
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (22 bp):
TGTCCCGAAGGACCACATGAAA
Found at i:73281 original size:13 final size:13
Alignment explanation
Indices: 73255--73299 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
73245 GTCACAACCC
*
73255 GACCCGACCTGTT
1 GACCCGACCCGTT
*
73268 GACCCAACCCGTT
1 GACCCGACCCGTT
73281 GACCCGACCCGTT
1 GACCCGACCCGTT
73294 GACCCG
1 GACCCG
73300 TTGACCGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.18, C:0.44, G:0.22, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:73285 original size:8 final size:8
Alignment explanation
Indices: 73274--73332 Score: 54
Period size: 8 Copynumber: 7.4 Consensus size: 8
73264 TGTTGACCCA
73274 ACCCGTTG
1 ACCCGTTG
73282 ACCC---G
1 ACCCGTTG
73287 ACCCGTTG
1 ACCCGTTG
73295 ACCCGTTG
1 ACCCGTTG
73303 A-CCGTTG
1 ACCCGTTG
73310 ACCGGCGTTG
1 ACC--CGTTG
73320 ACCACTGTTG
1 ACC-C-GTTG
73330 ACC
1 ACC
73333 AAAACTTTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
5 5 0.12
7 7 0.16
8 15 0.35
9 1 0.02
10 15 0.35
ACGTcount: A:0.15, C:0.37, G:0.25, T:0.22
Consensus pattern (8 bp):
ACCCGTTG
Found at i:73309 original size:15 final size:16
Alignment explanation
Indices: 73289--73322 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
73279 TTGACCCGAC
73289 CCGTTGACC-CGTTGA
1 CCGTTGACCGCGTTGA
73304 CCGTTGACCGGCGTTGA
1 CCGTTGACC-GCGTTGA
73321 CC
1 CC
73323 ACTGTTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (16 bp):
CCGTTGACCGCGTTGA
Found at i:75823 original size:24 final size:24
Alignment explanation
Indices: 75796--75867 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
75786 ATTTGAATTT
75796 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACATGGATTC
75820 TGATCTGATA-TATGACATGGATTC
1 TGATCTGATACT-TGACATGGATTC
*
75844 TGATCTGATACTTGACTTGGATTC
1 TGATCTGATACTTGACATGGATTC
75868 GACTTGATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
23 1 0.02
24 43 0.96
25 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTC
Found at i:77990 original size:23 final size:24
Alignment explanation
Indices: 77950--77995 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
77940 TAACCCATTT
*
77950 GACCAGTTTGACCGGACCCGACCC
1 GACCAGTTTGACCCGACCCGACCC
*
77974 GACCCGTTT-ACCCGACCCGACC
1 GACCAGTTTGACCCGACCCGACC
77996 TGTTGACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.20, C:0.46, G:0.22, T:0.13
Consensus pattern (24 bp):
GACCAGTTTGACCCGACCCGACCC
Found at i:80641 original size:24 final size:24
Alignment explanation
Indices: 80519--80634 Score: 164
Period size: 24 Copynumber: 4.8 Consensus size: 24
80509 TTTTATTTGA
80519 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
80543 ATTCTGATCTGATA-TATGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
80567 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
80591 ATTCTGATCTGTTACTTGAC-TTG
1 ATTCTGATCTGATACTTGACATGG
*
80614 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
80635 CTGATTTATG
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 4 0.05
24 79 0.94
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:80651 original size:24 final size:24
Alignment explanation
Indices: 80571--80644 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
80561 ACATGGATTC
* * *
80571 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * * *
80595 TGATCTGTTACTTGACTTGATTTC
1 TGATATGATACTTGACCTGATTTA
80619 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
80643 TG
1 TG
80645 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.45
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:80815 original size:45 final size:45
Alignment explanation
Indices: 80751--80864 Score: 210
Period size: 45 Copynumber: 2.5 Consensus size: 45
80741 CAGGGCCTTA
*
80751 TATGATGTGTTGGGTTGGGTGTATGGTTCTGGGGAACCTACACAT
1 TATGATGTGTTGGGATGGGTGTATGGTTCTGGGGAACCTACACAT
80796 TATGATGTGTTGGGATGGGTGTATGGTTCTGGGGAACCTACACAT
1 TATGATGTGTTGGGATGGGTGTATGGTTCTGGGGAACCTACACAT
*
80841 TATGATGTGTTGGGATGGGGGTAT
1 TATGATGTGTTGGGATGGGTGTAT
80865 ATATATATAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.18, C:0.09, G:0.38, T:0.35
Consensus pattern (45 bp):
TATGATGTGTTGGGATGGGTGTATGGTTCTGGGGAACCTACACAT
Found at i:83396 original size:32 final size:31
Alignment explanation
Indices: 83321--83379 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
83311 CTAATGTGAC
* *
83321 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
*
83352 TCTTGGGTAGGCCCTGCGGCCCTAAGAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT
83380 GTGTTCTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
Found at i:85390 original size:23 final size:24
Alignment explanation
Indices: 85355--85419 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 24
85345 CCACTATGGG
*
85355 CTATGAATTTGTCCC-AACGGACCA
1 CTATGAATATGTCCCGAA-GGACCA
85379 CTATGAA-ATGTCCCGAAGGACCA
1 CTATGAATATGTCCCGAAGGACCA
85402 C--TG--TATGTCCCGAAGGAC
1 CTATGAATATGTCCCGAAGGAC
85420 TTATGAACCC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
20 14 0.37
21 2 0.05
23 13 0.34
24 9 0.24
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (24 bp):
CTATGAATATGTCCCGAAGGACCA
Found at i:89146 original size:20 final size:22
Alignment explanation
Indices: 89101--89155 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 22
89091 TATGAATTTT
89101 TCCCGAATGACCACTATGAAATG
1 TCCCGAATGACCAC-ATGAAATG
*
89124 TCCCGAATGACCAC-TG-TATG
1 TCCCGAATGACCACATGAAATG
*
89144 TCCCGAAGGACC
1 TCCCGAATGACC
89156 TATGAACCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 14 0.47
21 2 0.07
23 14 0.47
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (22 bp):
TCCCGAATGACCACATGAAATG
Found at i:91544 original size:20 final size:20
Alignment explanation
Indices: 91521--91559 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
91511 AAATAAGAAT
91521 TAAAAAAAACAAAGATAAAC
1 TAAAAAAAACAAAGATAAAC
**
91541 TAAAAAAAAGTAAGATAAA
1 TAAAAAAAACAAAGATAAA
91560 AAGTGGATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (20 bp):
TAAAAAAAACAAAGATAAAC
Found at i:91642 original size:8 final size:8
Alignment explanation
Indices: 91629--91695 Score: 55
Period size: 8 Copynumber: 8.0 Consensus size: 8
91619 AAATATACAT
91629 AAAAAATA
1 AAAAAATA
91637 AAAAAA-A
1 AAAAAATA
* *
91644 GGAAAAACA
1 -AAAAAATA
*
91653 AACAAATA
1 AAAAAATA
*
91661 AATAAATA
1 AAAAAATA
91669 AATAAAATA
1 AA-AAAATA
91678 AAAAGAGATA
1 AAAA-A-ATA
91688 AAAAAATA
1 AAAAAATA
91696 GGTAATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
7 1 0.02
8 30 0.62
9 10 0.21
10 7 0.15
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:91815 original size:9 final size:9
Alignment explanation
Indices: 91801--91825 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
91791 AATAATATAA
91801 AATAATAGT
1 AATAATAGT
91810 AATAATAGT
1 AATAATAGT
91819 AATAATA
1 AATAATA
91826 AAGAATATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (9 bp):
AATAATAGT
Found at i:91918 original size:32 final size:32
Alignment explanation
Indices: 91882--91945 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
91872 GCAAAGGGAA
*
91882 TAAAAAGAAA-AACTAAAATAAAATATATATAT
1 TAAAAAGAAATAAATAAAA-AAAATATATATAT
* **
91914 TAAAAATAAATAAATAAAAAGTATATATATAT
1 TAAAAAGAAATAAATAAAAAAAATATATATAT
91946 ATATATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (32 bp):
TAAAAAGAAATAAATAAAAAAAATATATATAT
Found at i:91942 original size:2 final size:2
Alignment explanation
Indices: 91935--91963 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
91925 AAATAAAAAG
91935 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
91964 GTATGTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93592 original size:17 final size:18
Alignment explanation
Indices: 93572--93610 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
93562 TTCGTCTGTA
*
93572 TTTATTTTTTTATTTT-T
1 TTTATTTTGTTATTTTAT
93589 TTTATTTTGTTATTTTAT
1 TTTATTTTGTTATTTTAT
93607 TTTA
1 TTTA
93611 ATTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTATTTTGTTATTTTAT
Found at i:93751 original size:79 final size:77
Alignment explanation
Indices: 93656--93877 Score: 288
Period size: 79 Copynumber: 2.8 Consensus size: 77
93646 GATTTTTTAA
93656 ATATATATA-ATATATAGTTTTTGAAAGAATTTTGAAAACCTATATATTATATAGTTTTTAAAAC
1 ATATATATATATATATAGTTTTT-AAAGAATTTTGAAAACCTATATATTATATAGTTTTTAAAAC
93720 ATTTTGGAAACAT
65 ATTTTGGAAACAT
* *
93733 ATATATATATATAATATAGTTTTTAAAG-ATTTTGAAAACTTATATAATATATAGTTTTTTAAAA
1 ATATATATATAT-ATATAGTTTTTAAAGAATTTTGAAAACCTATATATTATATAG-TTTTT-AAA
*
93797 ACATTTTGTAAACAT
63 ACATTTTGGAAACAT
* * * *
93812 ATATATATGTATTATATAGTTTTTTAAAAACATTTTGAACACAC-ATATATTATATAATTTTTAA
1 ATATATATATA-TATATAG-TTTTTAAAGA-ATTTTGAAAAC-CTATATATTATATAGTTTTTAA
93876 AA
62 AA
93878 TCGGTTTTTG
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
77 33 0.26
78 11 0.09
79 44 0.35
80 13 0.10
81 5 0.04
82 21 0.17
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.45
Consensus pattern (77 bp):
ATATATATATATATATAGTTTTTAAAGAATTTTGAAAACCTATATATTATATAGTTTTTAAAACA
TTTTGGAAACAT
Found at i:93819 original size:35 final size:33
Alignment explanation
Indices: 93738--93819 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 33
93728 AACATATATA
*
93738 TATATATAATATAGTTTTTAAAGATTTTGAAAAC
1 TATATAT-ATATAGTTTTTAAACATTTTGAAAAC
*
93772 TTATATAATATATAGTTTTTTAAAAACATTTTGTAAAC
1 -TATAT-ATATATAG-TTTTT--AAACATTTTGAAAAC
93810 -ATATATATAT
1 TATATATATAT
93820 GTATTATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
35 17 0.41
36 11 0.27
38 13 0.32
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (33 bp):
TATATATATATAGTTTTTAAACATTTTGAAAAC
Found at i:93887 original size:121 final size:117
Alignment explanation
Indices: 93618--93914 Score: 276
Period size: 115 Copynumber: 2.5 Consensus size: 117
93608 TTAATTATAT
* * * * *
93618 ATATATATATATATTATAGTTTGAAAATGATTTTTTAAATATATATAATATATAGTTTTTGAAAG
1 ATATATATATATAATATA-TTTTAAAA-GA-TTTTGAAA-ACATATAATATATAGTTTTT-AAAA
** *
93683 A-ATTTTG--AA-A-ACCTATA--TATTATATAGTTTTTAAAACATTTTGGAAACAT
61 ACATTTTGTAAACATATATATATGTATTATATAGTTTTTAAAACATTTTGGAAACAC
*
93733 ATATATATATATAATATAGTTTTTAAAGATTTTGAAAACTTATATAATATATAGTTTTTTAAAAA
1 ATATATATATATAATATA-TTTTAAAAGATTTTGAAAAC--ATATAATATATAG-TTTTTAAAAA
93798 CATTTTGTAAACATATATATATGTATTATATAGTTTTTTAAAAACATTTT-GAACACAC
62 CATTTTGTAAACATATATATATGTATTATATAG-TTTTT-AAAACATTTTGGAA-ACAC
* *
93856 ATATAT-TATAT-A-AT-TTTTAAAATCGGTTTTTGAAAACCTATAATATATAGTTTTTAAAA
1 ATATATATATATAATATATTTTAAAA---GATTTTGAAAACATATAATATATAGTTTTTAAAA
93915 TATTTTATTT
Statistics
Matches: 154, Mismatches: 12, Indels: 29
0.79 0.06 0.15
Matches are distributed among these distances:
112 1 0.01
113 7 0.05
114 19 0.12
115 35 0.23
117 2 0.01
118 17 0.11
119 17 0.11
120 2 0.01
121 22 0.14
122 13 0.08
123 19 0.12
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (117 bp):
ATATATATATATAATATATTTTAAAAGATTTTGAAAACATATAATATATAGTTTTTAAAAACATT
TTGTAAACATATATATATGTATTATATAGTTTTTAAAACATTTTGGAAACAC
Found at i:93997 original size:26 final size:27
Alignment explanation
Indices: 93944--93997 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
93934 TAATATTATA
* ** *
93944 TATATATATATTTTATTTTTTTATTTT
1 TATATATATATCTTATTTACTTAATTT
93971 TATAT-TATATCTTATTTACTTAATTT
1 TATATATATATCTTATTTACTTAATTT
93997 T
1 T
93998 TGTTTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (27 bp):
TATATATATATCTTATTTACTTAATTT
Found at i:94386 original size:20 final size:20
Alignment explanation
Indices: 94358--94400 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
94348 GGAACACATG
*
94358 GATCGACAGTGAGAACAAAC
1 GATCAACAGTGAGAACAAAC
**
94378 GATCAACAGTGAGGCCAAAC
1 GATCAACAGTGAGAACAAAC
94398 GAT
1 GAT
94401 ACATCGAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.21, G:0.26, T:0.12
Consensus pattern (20 bp):
GATCAACAGTGAGAACAAAC
Found at i:95207 original size:15 final size:16
Alignment explanation
Indices: 95179--95208 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95169 TATTTTTTGG
95179 TTTTTTTAATATTTAT
1 TTTTTTTAATATTTAT
95195 TTTTTTTAA-ATTTA
1 TTTTTTTAATATTTA
95209 CCAGTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTAATATTTAT
Found at i:95269 original size:17 final size:18
Alignment explanation
Indices: 95243--95295 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
95233 ACCTTTTTTA
*
95243 TTTATTTTATTTTATTTG
1 TTTATTTTATTTTATTTC
*
95261 TTT-TTTTATTTTGTTTC
1 TTTATTTTATTTTATTTC
*
95278 TTTATTTCTTTTTTATTT
1 TTTATTT-TATTTTATTT
95296 ATCCCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 15 0.52
18 6 0.21
19 8 0.28
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.81
Consensus pattern (18 bp):
TTTATTTTATTTTATTTC
Found at i:95275 original size:13 final size:13
Alignment explanation
Indices: 95236--95284 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
95226 ATATTTAACC
95236 TTTTTTATTTAT-T
1 TTTTTTATTT-TGT
95249 TTATTTTA-TTTGT
1 TT-TTTTATTTTGT
95262 TTTTTTATTTTGT
1 TTTTTTATTTTGT
*
95275 TTCTTTATTT
1 TTTTTTATTT
95285 CTTTTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.19
13 21 0.66
14 5 0.16
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.82
Consensus pattern (13 bp):
TTTTTTATTTTGT
Found at i:96266 original size:26 final size:27
Alignment explanation
Indices: 96237--96294 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
96227 ATTTAAATTT
*
96237 TTAAAATA-AAAATTAACAA-ATAGTTA
1 TTAAAATATAAAATTAA-AATATACTTA
*
96263 TT-AAATATTAAATTAAAATATACTTA
1 TTAAAATATAAAATTAAAATATACTTA
96289 TTAAAA
1 TTAAAA
96295 ATTTATCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 7 0.26
26 17 0.63
27 3 0.11
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (27 bp):
TTAAAATATAAAATTAAAATATACTTA
Found at i:96823 original size:29 final size:31
Alignment explanation
Indices: 96777--96839 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
96767 GGGCTTATCG
* * * *
96777 TTTTTATAAAAAGTTTAAGA-CTTATTTAAA
1 TTTTTAGAAAAAGATTAAGATATTAATTAAA
96807 TTTTTAGAAAAA-ATTAAGATATTAATTAAA
1 TTTTTAGAAAAAGATTAAGATATTAATTAAA
96837 TTT
1 TTT
96840 AAAATATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (31 bp):
TTTTTAGAAAAAGATTAAGATATTAATTAAA
Found at i:97008 original size:32 final size:33
Alignment explanation
Indices: 96972--97057 Score: 113
Period size: 32 Copynumber: 2.7 Consensus size: 33
96962 AAAAATAATT
*
96972 ATTTATATATATATATA-ATATTAATAAATTTA
1 ATTTAAATATATATATATATATTAATAAATTTA
* * * *
97004 ATTTAAATA-AAAAATATATATTTATATATTTA
1 ATTTAAATATATATATATATATTAATAAATTTA
97036 ATTTAAATATATATATATATAT
1 ATTTAAATATATATATATATAT
97058 ACCCGACCCG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
31 5 0.11
32 30 0.67
33 10 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
ATTTAAATATATATATATATATTAATAAATTTA
Found at i:97088 original size:24 final size:24
Alignment explanation
Indices: 97056--97108 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
97046 ATATATATAT
* * *
97056 ATACCCGACCCGATTCTCGGCCCA
1 ATACCCGACCCAATACCCGGCCCA
97080 ATACCCGACCCAATACCCGGCCCA
1 ATACCCGACCCAATACCCGGCCCA
97104 ATACC
1 ATACC
97109 TGTTTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.47, G:0.13, T:0.13
Consensus pattern (24 bp):
ATACCCGACCCAATACCCGGCCCA
Found at i:97093 original size:12 final size:12
Alignment explanation
Indices: 97056--97108 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
97046 ATATATATAT
*
97056 ATACCCGACCCG
1 ATACCCGACCCA
* * *
97068 ATTCTCGGCCCA
1 ATACCCGACCCA
97080 ATACCCGACCCA
1 ATACCCGACCCA
*
97092 ATACCCGGCCCA
1 ATACCCGACCCA
97104 ATACC
1 ATACC
97109 TGTTTAAATA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.26, C:0.47, G:0.13, T:0.13
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:102308 original size:21 final size:21
Alignment explanation
Indices: 102279--102328 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
102269 TAGGCGATGA
*
102279 CACCGATCTTAATGTTGGTTGT
1 CACC-ATCTTAATATTGGTTGT
*
102301 CACCATCTTGATATTGGTTGT
1 CACCATCTTAATATTGGTTGT
102322 CACCATC
1 CACCATC
102329 GATATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (21 bp):
CACCATCTTAATATTGGTTGT
Found at i:102334 original size:19 final size:20
Alignment explanation
Indices: 102293--102334 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
102283 GATCTTAATG
102293 TTGGTTGTCACCATCTTGATA
1 TTGGTTGTCACCATC-TGATA
102314 TTGGTTGTCACCATC-GATA
1 TTGGTTGTCACCATCTGATA
102333 TT
1 TT
102335 TTTTTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
21 15 0.71
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (20 bp):
TTGGTTGTCACCATCTGATA
Found at i:103104 original size:15 final size:14
Alignment explanation
Indices: 103064--103105 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
103054 TTTATATATA
103064 TTTTTATTTT-ATT
1 TTTTTATTTTAATT
*
103077 TTCTTTAATTTAATT
1 TT-TTTATTTTAATT
103092 TTTTTATTATTAAT
1 TTTTTATT-TTAAT
103106 GTTAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 2 0.08
14 12 0.50
15 10 0.42
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTATTTTAATT
Found at i:103212 original size:35 final size:36
Alignment explanation
Indices: 103159--103228 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
103149 ATATTACGTA
* *
103159 TACATATTATTATATGTGTGAGTATCTA-TATATGT
1 TACATATTATTATATGTGTGAATATATATTATATGT
*
103194 TACATATTA-TATGGTGTGTGAATATATATTATATG
1 TACATATTATTAT-ATGTGTGAATATATATTATATG
103229 ATATAAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 3 0.10
35 21 0.70
36 6 0.20
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (36 bp):
TACATATTATTATATGTGTGAATATATATTATATGT
Found at i:103818 original size:12 final size:13
Alignment explanation
Indices: 103794--103848 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 13
103784 GAGTCTTTTC
103794 TATTTATTTTATT
1 TATTTATTTTATT
103807 TATTTA-TTTATT
1 TATTTATTTTATT
103819 TA-TTATTATTA-T
1 TATTTATT-TTATT
103831 TA-TTATTATTA-T
1 TATTTATT-TTATT
103843 TATTTA
1 TATTTA
103849 ATATATATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.08
12 24 0.62
13 12 0.31
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTTATTTTATT
Found at i:103826 original size:3 final size:3
Alignment explanation
Indices: 103818--103846 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
103808 ATTTATTTAT
103818 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
103847 TAATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:104625 original size:22 final size:22
Alignment explanation
Indices: 104600--104649 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
104590 GGGCCATTTT
104600 TAGGTTAAGTTGGCTTGGGATC
1 TAGGTTAAGTTGGCTTGGGATC
104622 TAGGTTAAGTTGGCTTGGGATC
1 TAGGTTAAGTTGGCTTGGGATC
104644 TAGGTT
1 TAGGTT
104650 GAGGGTGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.18, C:0.08, G:0.36, T:0.38
Consensus pattern (22 bp):
TAGGTTAAGTTGGCTTGGGATC
Found at i:105270 original size:29 final size:28
Alignment explanation
Indices: 105203--105428 Score: 95
Period size: 29 Copynumber: 7.7 Consensus size: 28
105193 AATGTATGTA
*
105203 TTTT-CTATTTTAGCCACTTTAGTTTCTG-
1 TTTTACTATTTTAGTC-C-TTAGTTTCTGT
*
105231 TTTTATTTATTTTAGTCCTTAGCTTTCTGT
1 TTTTA-CTATTTTAGTCCTTAG-TTTCTGT
*
105261 TTTTACTATTTATA-TCCTTTAAGTTTTTG-
1 TTTTACTATTT-TAGTCC-TT-AGTTTCTGT
* * * *
105290 TTTTACTGTTTTAG-CTATGTAAATTTATGCT
1 TTTTACTATTTTAGTC-CT-T-AGTTTCTG-T
* * *
105321 TTTT-CCATTTTAGTCCTCTAGGTTTTTAT
1 TTTTACTATTTTAGTCCT-TA-GTTTCTGT
* * * *
105350 TTTTATTATTTTAGTCCCTAAGTTTTTAT
1 TTTTACTATTTTAGT-CCTTAGTTTCTGT
* * *
105379 TTTTTCCATTTTAGTCCCTTTAGTTTCTTTT
1 TTTTACTATTTTAGT-CC-TTAGTTTC-TGT
*
105410 TTTTATTATTTTAGTCCTT
1 TTTTACTATTTTAGTCCTT
105429 CAAATTTATG
Statistics
Matches: 153, Mismatches: 27, Indels: 35
0.71 0.13 0.16
Matches are distributed among these distances:
28 12 0.08
29 64 0.42
30 53 0.35
31 24 0.16
ACGTcount: A:0.16, C:0.14, G:0.09, T:0.61
Consensus pattern (28 bp):
TTTTACTATTTTAGTCCTTAGTTTCTGT
Found at i:105361 original size:30 final size:29
Alignment explanation
Indices: 105327--105427 Score: 116
Period size: 29 Copynumber: 3.4 Consensus size: 29
105317 TGCTTTTTCC
105327 ATTTTAGTCCTCTAGGTTTTTATTTTTATT
1 ATTTTAGTCCTCTA-GTTTTTATTTTTATT
*
105357 ATTTTAGTCC-CTAAGTTTTTATTTTT-TCC
1 ATTTTAGTCCTCT-AGTTTTTATTTTTAT-T
* *
105386 ATTTTAGTCCCTTTAGTTTCTTTTTTTTATT
1 ATTTTAGT-CCTCTAGTTT-TTATTTTTATT
105417 ATTTTAGTCCT
1 ATTTTAGTCCT
105428 TCAAATTTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
28 1 0.02
29 22 0.36
30 21 0.34
31 16 0.26
32 1 0.02
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.62
Consensus pattern (29 bp):
ATTTTAGTCCTCTAGTTTTTATTTTTATT
Found at i:105450 original size:60 final size:58
Alignment explanation
Indices: 105309--105454 Score: 152
Period size: 60 Copynumber: 2.4 Consensus size: 58
105299 TTTAGCTATG
*
105309 TAAATTTATGCTTTTTCCATTTTAGT-CCTCTAGGTTTTTATTTTTATTATTTTAGTCCC
1 TAAATTTATG-TTTTT-TATTTTAGTCCCTCTAGGTTTTTATTTTTATTATTTTAGTCCC
* * * * * *
105368 TAAGTTTTTATTTTTTCCATTTTAGTCCCTTTA-GTTTCTTTTTTTTATTATTTTAGTCCT
1 TAAATTTATGTTTTTT--ATTTTAGTCCCTCTAGGTTT-TTATTTTTATTATTTTAGTCCC
105428 TCAAATTTATGTTATTTTATTTTAGTC
1 T-AAATTTATGTT-TTTTATTTTAGTC
105455 TTGTAAATAT
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
58 5 0.07
59 19 0.27
60 35 0.49
61 8 0.11
62 4 0.06
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (58 bp):
TAAATTTATGTTTTTTATTTTAGTCCCTCTAGGTTTTTATTTTTATTATTTTAGTCCC
Found at i:105462 original size:29 final size:28
Alignment explanation
Indices: 105415--105474 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
105405 CTTTTTTTTA
105415 TTATTTTAGTCCTTCAAAT-TTATGTTATT
1 TTATTTTAGTCCTTCAAATATT-TG-TATT
*
105444 TTATTTTAGT-CTTGTAAATATTTGTATT
1 TTATTTTAGTCCTT-CAAATATTTGTATT
105472 TTA
1 TTA
105475 ATGATTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 10 0.36
29 16 0.57
30 2 0.07
ACGTcount: A:0.25, C:0.07, G:0.08, T:0.60
Consensus pattern (28 bp):
TTATTTTAGTCCTTCAAATATTTGTATT
Found at i:108068 original size:21 final size:20
Alignment explanation
Indices: 108036--108075 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
108026 GATCAATATT
*
108036 TTTGCATTTGCATCTGCATC
1 TTTGCATTTGCACCTGCATC
108056 TTTGCATTTTGCACCTGCAT
1 TTTGCA-TTTGCACCTGCAT
108076 TTTATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.45
Consensus pattern (20 bp):
TTTGCATTTGCACCTGCATC
Found at i:109359 original size:16 final size:16
Alignment explanation
Indices: 109338--109414 Score: 60
Period size: 13 Copynumber: 5.0 Consensus size: 16
109328 CGAAGAGAAC
109338 AGAAAAACAAAGAAAA
1 AGAAAAACAAAGAAAA
109354 AG--AAA-AAAGAAAA
1 AGAAAAACAAAGAAAA
*
109367 A-AAAGA-AAAG-AAA
1 AGAAAAACAAAGAAAA
109380 AGCAAAAACAAAGAAAA
1 AG-AAAAACAAAGAAAA
109397 GAGCAAAGAACAAA-AAAA
1 -AG-AAA-AACAAAGAAAA
109415 TGACAAAGAG
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
13 13 0.25
14 9 0.18
15 4 0.08
16 6 0.12
17 3 0.06
18 10 0.20
19 6 0.12
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.00
Consensus pattern (16 bp):
AGAAAAACAAAGAAAA
Found at i:109368 original size:9 final size:9
Alignment explanation
Indices: 109356--109396 Score: 55
Period size: 9 Copynumber: 4.2 Consensus size: 9
109346 AAAGAAAAAG
109356 AAAAAAGAA
1 AAAAAAGAA
109365 AAAAAAGAA
1 AAAAAAGAA
109374 AAGAAAAGCAA
1 AA-AAAAG-AA
109385 AAACAAAGAA
1 AAA-AAAGAA
109395 AA
1 AA
109397 GAGCAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 11 0.38
10 10 0.34
11 8 0.28
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:109386 original size:6 final size:5
Alignment explanation
Indices: 109333--109398 Score: 52
Period size: 5 Copynumber: 13.6 Consensus size: 5
109323 CAAAGCGAAG
* *
109333 AGAAC AGAAA A-ACAA AGAAA A-AGA A-AAA AGAAA A-AAA AGAAA AGAAA
1 AGAAA AGAAA AGA-AA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
109380 AGCAAA A-ACAA AGAAA AGA
1 AG-AAA AGA-AA AGAAA AGA
109399 GCAAAGAACA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
4 12 0.24
5 33 0.65
6 6 0.12
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:109421 original size:18 final size:19
Alignment explanation
Indices: 109345--109423 Score: 64
Period size: 18 Copynumber: 4.3 Consensus size: 19
109335 AACAGAAAAA
*
109345 CAAAGAA-AAAGAAAAAAG
1 CAAAGAACAAAGAAAAGAG
109363 -AAA-AA-AAAGAAAAGAAAAG
1 CAAAGAACAAAGAAAAG---AG
109382 CAAA-AACAAAGAAAAGAG
1 CAAAGAACAAAGAAAAGAG
109400 CAAAGAACAAA-AAAATGA-
1 CAAAGAACAAAGAAAA-GAG
109418 CAAAGA
1 CAAAGA
109424 GCACAGACAA
Statistics
Matches: 53, Mismatches: 1, Indels: 14
0.78 0.01 0.21
Matches are distributed among these distances:
16 10 0.19
17 3 0.06
18 16 0.30
19 10 0.19
20 5 0.09
21 9 0.17
ACGTcount: A:0.76, C:0.08, G:0.15, T:0.01
Consensus pattern (19 bp):
CAAAGAACAAAGAAAAGAG
Found at i:113168 original size:20 final size:22
Alignment explanation
Indices: 113123--113180 Score: 93
Period size: 21 Copynumber: 2.7 Consensus size: 22
113113 CCCTTAGGGG
*
113123 AAAGGATCGATCCCTTTTCAAA
1 AAAGGATTGATCCCTTTTCAAA
113145 AAA-GATTGATCCCTTTTC-AA
1 AAAGGATTGATCCCTTTTCAAA
113165 AAAGGATTGATCCCTT
1 AAAGGATTGATCCCTT
113181 GGCCAGAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 5 0.15
21 26 0.76
22 3 0.09
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (22 bp):
AAAGGATTGATCCCTTTTCAAA
Found at i:113193 original size:21 final size:20
Alignment explanation
Indices: 113143--113194 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
113133 TCCCTTTTCA
**
113143 AAAAAGATTGATCCCTTTTC
1 AAAAAGATTGATCCCTTGCC
113163 AAAAAGGATTGATCCCTTGGCC
1 AAAAA-GATTGATCCCTT-GCC
*
113185 AGAAAGATTG
1 AAAAAGATTG
113195 GCCTCAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 17 0.63
22 5 0.19
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (20 bp):
AAAAAGATTGATCCCTTGCC
Found at i:116627 original size:20 final size:21
Alignment explanation
Indices: 116604--116651 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
116594 TCAAAATCAT
* *
116604 TTTTCAAAATTTC-ATTTTGC
1 TTTTCAAAAATCCAATTTTGC
116624 TTTT-AAAAATCCAATTTTGC
1 TTTTCAAAAATCCAATTTTGC
116644 -TTTCAAAA
1 TTTTCAAAA
116652 GAAAATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (21 bp):
TTTTCAAAAATCCAATTTTGC
Found at i:122642 original size:25 final size:25
Alignment explanation
Indices: 122614--122670 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
122604 GAAGAACCAG
122614 GAGAAGAGAAAAGCCATATGAGCTA
1 GAGAAGAGAAAAGCCATATGAGCTA
122639 GAGAAGAGAAAAGCCATATGAGCTA
1 GAGAAGAGAAAAGCCATATGAGCTA
122664 GAGAAGA
1 GAGAAGA
122671 TCTTAAGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.49, C:0.11, G:0.30, T:0.11
Consensus pattern (25 bp):
GAGAAGAGAAAAGCCATATGAGCTA
Found at i:125798 original size:22 final size:21
Alignment explanation
Indices: 125728--125806 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 21
125718 ACTGAAAGGG
* * *
125728 GAGTATCGGTACCATAGTGTAG
1 GAGTATCGATACCATAGT-AAA
* *
125750 GAGTATTGATACTA-AGATAAA
1 GAGTATCGATACCATAG-TAAA
*
125771 G-GTATCGGTACCATAGTAAA
1 GAGTATCGATACCATAGTAAA
125791 GTAGTATCGATACCAT
1 G-AGTATCGATACCAT
125807 GGAAGGGGTA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
20 14 0.32
21 6 0.14
22 24 0.55
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (21 bp):
GAGTATCGATACCATAGTAAA
Found at i:126385 original size:111 final size:110
Alignment explanation
Indices: 126143--126417 Score: 426
Period size: 111 Copynumber: 2.5 Consensus size: 110
126133 AATACCAAAT
* * * *
126143 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAATTTATGAATTTCAGTATGGGCACTTTGT
1 GGCACTTTGTGTGCAAAAATAATAAATTCATAATAAGTTTATGAATTTCAGTATGGGCACTTTGT
* *
126208 GTGCAAAAAACATAAATTCATAATAAGTTTATGAATTTCAGTATG
66 ATGCAAAAAACATAAATTCACAATAAGTTTATGAATTTCAGTATG
*
126253 GGCACTTTGTGTTCAAAAATAATAAATTCATAATAAGTTTATGAATTTCAGTATGGGCACTTTGT
1 GGCACTTTGTGTGCAAAAATAATAAATTCATAATAAGTTTATGAATTTCAGTATGGGCACTTTGT
* *
126318 ATGTAAAAATA-ATAAAATTCACAATAATTTTATGAATTTCAGTATG
66 ATGCAAAAA-ACAT-AAATTCACAATAAGTTTATGAATTTCAGTATG
* *
126364 GGCACTTTGTGTGCAAAAATAATAAATTTATAATAAGTTTATGAATTTCGGTAT
1 GGCACTTTGTGTGCAAAAATAATAAATTCATAATAAGTTTATGAATTTCAGTAT
126418 TGGTAATGTA
Statistics
Matches: 151, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
110 69 0.46
111 82 0.54
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (110 bp):
GGCACTTTGTGTGCAAAAATAATAAATTCATAATAAGTTTATGAATTTCAGTATGGGCACTTTGT
ATGCAAAAAACATAAATTCACAATAAGTTTATGAATTTCAGTATG
Found at i:126434 original size:55 final size:55
Alignment explanation
Indices: 126143--126417 Score: 426
Period size: 55 Copynumber: 5.0 Consensus size: 55
126133 AATACCAAAT
* * * *
126143 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAATTTATGAATTTCAGTATG
1 GGCACTTTGTGTGCAAAAATAATAAATTCATAATAAGTTTATGAATTTCAGTATG
126198 GGCACTTTGTGTGCAAAAA-ACATAAATTCATAATAAGTTTATGAATTTCAGTATG
1 GGCACTTTGTGTGCAAAAATA-ATAAATTCATAATAAGTTTATGAATTTCAGTATG
*
126253 GGCACTTTGTGTTCAAAAATAATAAATTCATAATAAGTTTATGAATTTCAGTATG
1 GGCACTTTGTGTGCAAAAATAATAAATTCATAATAAGTTTATGAATTTCAGTATG
* * * *
126308 GGCACTTTGTATGTAAAAATAATAAAATTCACAATAATTTTATGAATTTCAGTATG
1 GGCACTTTGTGTGCAAAAATAAT-AAATTCATAATAAGTTTATGAATTTCAGTATG
* *
126364 GGCACTTTGTGTGCAAAAATAATAAATTTATAATAAGTTTATGAATTTCGGTAT
1 GGCACTTTGTGTGCAAAAATAATAAATTCATAATAAGTTTATGAATTTCAGTAT
126418 TGGTAATGTA
Statistics
Matches: 201, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
54 1 0.00
55 148 0.74
56 52 0.26
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (55 bp):
GGCACTTTGTGTGCAAAAATAATAAATTCATAATAAGTTTATGAATTTCAGTATG
Found at i:126701 original size:81 final size:81
Alignment explanation
Indices: 126566--127274 Score: 1016
Period size: 81 Copynumber: 8.8 Consensus size: 81
126556 TATTCCAAAA
* * *
126566 TAAAATATTAATGGCCTACCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
126631 GTTAAATACATTTGAG
66 GTTAAATACCTTTGAG
* * *
126647 TAAAAGATTAATGGCCTAGCTGTGCATTTGACTGAAATGTGTCAATTATACCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
126712 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * * *
126728 TAAAAGATTAATGGTCTAGCTGTGCATTTTACATAAATGTGTTAAATATGCCAATTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
126793 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
126809 TAAAAGATTAATGGCCTAGTTGTGCATTTGATAGAAAGGTGTTAATTATGCTAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
126874 GTTAAACACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
126890 TAAAAGATTAATGGCCTAGCTATGCATTTAACA-AAGAGGTGTTAATTATTCCAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAA-AGGTGTCAATTATGCCAGTTAGATGAAA
126954 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* *
126971 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCAAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
127036 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
127052 TAAAAGATTAATGGCCTAGTTGTGCATTTGACTGAAAGGTGTCAATTATGCGAGTTAGATGAAAA
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
127117 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
127133 TAAAATATTAATAGCCTAGTTGTGCATTTGACAGAAAGATGTCAATTATGCCAATTAGATG--A-
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
127195 G--AAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
127209 TAAAATATTAATGGCCTAGCTATGCATTTGACAGGAAGGTGTCAATCATGCAAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
127274 G
66 G
127275 CTATATGTCT
Statistics
Matches: 568, Mismatches: 55, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
76 66 0.12
78 2 0.00
79 2 0.00
80 2 0.00
81 494 0.87
82 2 0.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:128535 original size:22 final size:22
Alignment explanation
Indices: 128510--128563 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
128500 TCCTCCTACA
*
128510 GTACCGATACTTTTCTTTTAGG
1 GTACCGATACTTCTCTTTTAGG
128532 GTACCGATACTTCTCTTTTAGG
1 GTACCGATACTTCTCTTTTAGG
*
128554 GTATCGATAC
1 GTACCGATAC
128564 CCACTTCAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (22 bp):
GTACCGATACTTCTCTTTTAGG
Found at i:129647 original size:14 final size:14
Alignment explanation
Indices: 129628--129661 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
129618 CGCATGGTTA
*
129628 TTCTTTGATTTTCT
1 TTCTTTCATTTTCT
*
129642 TTCTTTCTTTTTCT
1 TTCTTTCATTTTCT
129656 TTCTTT
1 TTCTTT
129662 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (14 bp):
TTCTTTCATTTTCT
Found at i:129672 original size:10 final size:10
Alignment explanation
Indices: 129659--129684 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
129649 TTTTTCTTTC
129659 TTTTTTAAAT
1 TTTTTTAAAT
129669 TTTTTTAAAT
1 TTTTTTAAAT
129679 TTTTTT
1 TTTTTT
129685 CTTGATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:131735 original size:111 final size:111
Alignment explanation
Indices: 131541--131764 Score: 385
Period size: 111 Copynumber: 2.0 Consensus size: 111
131531 ACAAATTTTA
*
131541 GAATTGTATTAACGCTTGAATTAGAGCCTCATCCACTTGTACATAAAGAAGATACTAAGAACTTT
1 GAATTGTATTAACGCTTGAATTAGAGCCTCATCCACTTGTACATAAAGAAGATACTAAGAACTTC
* *
131606 TGCTTCTCTCATGTTTCCACTTACCCTACATACTTCGTAGTTCTTG
66 TGCTTCTCTCATGCTTCCACTTACCATACATACTTCGTAGTTCTTG
* * *
131652 GAATTGTATTAACGCTTGAATTAGAGCCTCATCCACTTGTACATAAAGCATATACTGAGAACTTC
1 GAATTGTATTAACGCTTGAATTAGAGCCTCATCCACTTGTACATAAAGAAGATACTAAGAACTTC
*
131717 TGCTTCTCTCATGCTTCCACTTGCCATACATACTTCGTAGTTCTTG
66 TGCTTCTCTCATGCTTCCACTTACCATACATACTTCGTAGTTCTTG
131763 GA
1 GA
131765 CGTCGTTCTG
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (111 bp):
GAATTGTATTAACGCTTGAATTAGAGCCTCATCCACTTGTACATAAAGAAGATACTAAGAACTTC
TGCTTCTCTCATGCTTCCACTTACCATACATACTTCGTAGTTCTTG
Found at i:134011 original size:11 final size:11
Alignment explanation
Indices: 133995--134026 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
133985 AAATTTTCCA
*
133995 TTCTTCTCTTG
1 TTCTTCTCTCG
134006 TTCTTCTCTCG
1 TTCTTCTCTCG
134017 TTCTTCTCTC
1 TTCTTCTCTC
134027 ATCTTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.34, G:0.06, T:0.59
Consensus pattern (11 bp):
TTCTTCTCTCG
Found at i:134468 original size:7 final size:8
Alignment explanation
Indices: 134451--134477 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
134441 TGAGATGAGC
134451 AAAGAAAA
1 AAAGAAAA
134459 AAAGAAAA
1 AAAGAAAA
134467 AAAGAAAA
1 AAAGAAAA
134475 AAA
1 AAA
134478 AACATAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:135161 original size:16 final size:15
Alignment explanation
Indices: 135118--135176 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 15
135108 GTGGTGGTGG
135118 TAATAAATAATAGTAA
1 TAATAAATAATA-TAA
*
135134 TTATAAAT-ATATAA
1 TAATAAATAATATAA
135148 TAATAATATAATAT-A
1 TAATAA-ATAATATAA
135163 TAA-ATAATAATATA
1 TAATA-AATAATATA
135177 CAGAACAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 16 0.43
15 10 0.27
16 11 0.30
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
TAATAAATAATATAA
Found at i:135168 original size:19 final size:18
Alignment explanation
Indices: 135118--135176 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
135108 GTGGTGGTGG
* *
135118 TAATAAATAATAGTAATTA
1 TAATATATAATAATAA-TA
135137 TAAATATATAATAATAATA
1 T-AATATATAATAATAATA
135156 TAATATATAAATAATAATA
1 TAATATAT-AATAATAATA
135175 TA
1 TA
135177 CAGAACAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.19
19 16 0.44
20 13 0.36
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
TAATATATAATAATAATA
Found at i:140602 original size:128 final size:127
Alignment explanation
Indices: 140395--140726 Score: 310
Period size: 128 Copynumber: 2.6 Consensus size: 127
140385 AGTAGTAAAT
* * * * *
140395 CAAATCAATCACGATTCAATTTTTCCTTAAGAGTAGT-ACAATAAATCAAATTTTATAGATTTTA
1 CAAATCAATCATGATTCAA-TTTTCCTTAAGAGTAGTGA-AATGAATCAAATTTTCTAGATCTAA
* * * * * * * * * **
140459 TCTCCTTAAATAGTAGCGGAGTAGATCCCATTTCCAAATTTGATCTTATTGAAGTGTATTGAAG
64 TCTCCCTAAAGAGTAGCAGAGAAGATCCCATTTACAAATTTGATATTACTGAAGAGCAGGGAAG
*
140523 CAAATTAATCATGATTCAATTTTCCTTGAAGAGTAGTGAAATGAATCAAATTTTCTAGATCTAAT
1 CAAATCAATCATGATTCAATTTTCCTT-AAGAGTAGTGAAATGAATCAAATTTTCTAGATCTAAT
* * * * * *
140588 CTCCCTCAAGAGTAGTAGAGAAGATCCTATTTATAGATTTGATATTCCTGAAGAGCAGGGAAG
65 CTCCCTAAAGAGTAGCAGAGAAGATCCCATTTACAAATTTGATATTACTGAAGAGCAGGGAAG
* * * * * *
140651 CAAATCAACCTTGATTCAATCTTCCCTAAAGAG-AGGTGAAGTGAATCAAAATTTTC-ATATCTA
1 CAAATCAATCATGATTCAAT-TTTCCTTAAGAGTA-GTGAAATGAATC-AAATTTTCTAGATCTA
**
140714 ATCTTTCTAAAGA
63 ATCTCCCTAAAGA
140727 ACAGTGGAGT
Statistics
Matches: 166, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
127 9 0.05
128 143 0.86
129 14 0.08
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (127 bp):
CAAATCAATCATGATTCAATTTTCCTTAAGAGTAGTGAAATGAATCAAATTTTCTAGATCTAATC
TCCCTAAAGAGTAGCAGAGAAGATCCCATTTACAAATTTGATATTACTGAAGAGCAGGGAAG
Found at i:141219 original size:21 final size:21
Alignment explanation
Indices: 141194--141236 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
141184 ATACACATAT
* * *
141194 AGATATATATGTATTATATAA
1 AGATATAAATATATGATATAA
141215 AGATATAAATATATGATATAA
1 AGATATAAATATATGATATAA
141236 A
1 A
141237 TAATTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (21 bp):
AGATATAAATATATGATATAA
Found at i:141263 original size:27 final size:27
Alignment explanation
Indices: 141220--141271 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
141210 TATAAAGATA
*
141220 TAAATATATGATATAAATAATTAATAT
1 TAAATATATGATATAAACAATTAATAT
*
141247 TAAATATATTAGT-TAAACAATTAAT
1 TAAATATATGA-TATAAACAATTAAT
141272 TAATCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (27 bp):
TAAATATATGATATAAACAATTAATAT
Found at i:144006 original size:14 final size:14
Alignment explanation
Indices: 143987--144022 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
143977 TTTTTATTTA
*
143987 TTTAATTTCAGTCC
1 TTTAATTTCAGTAC
*
144001 TTTAATTTCATTAC
1 TTTAATTTCAGTAC
144015 TTTAATTT
1 TTTAATTT
144023 ACTATTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTAATTTCAGTAC
Found at i:144044 original size:14 final size:15
Alignment explanation
Indices: 144000--144071 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 15
143990 AATTTCAGTC
* *
144000 CTTTAATTTCA-TTA
1 CTTTAATTTTATTTT
144014 CTTTAATTTACTATTTT
1 CTTTAATTT--TATTTT
144031 CTTT-ATTTTATTTTAT
1 CTTTAATTTTA-TTT-T
* *
144047 CTTTCATTTT-TTTA
1 CTTTAATTTTATTTT
144061 CTTTAATTTTA
1 CTTTAATTTTA
144072 GTCATCTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
14 20 0.43
15 6 0.13
16 10 0.21
17 11 0.23
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTTAATTTTATTTT
Found at i:147365 original size:2 final size:2
Alignment explanation
Indices: 147358--147399 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
147348 TATCTTTTAA
*
147358 AT AT AT AT AC 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
147400 CCCTTGTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:147630 original size:11 final size:11
Alignment explanation
Indices: 147614--147686 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
147604 TAGATATAGC
147614 AAAAAGAAGAA
1 AAAAAGAAGAA
147625 AAAAAGAA-AA
1 AAAAAGAAGAA
* *
147635 ACCATA-AA-AA
1 A-AAAAGAAGAA
*
147645 AAAGAGAAAGAA
1 AAAAAG-AAGAA
* *
147657 AGAAAGAAGAT
1 AAAAAGAAGAA
147668 AAAAAGAAGAA
1 AAAAAGAAGAA
*
147679 AAGAAGAA
1 AAAAAGAA
147687 AAGAAAGAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
9 2 0.04
10 8 0.17
11 32 0.67
12 6 0.12
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.03
Consensus pattern (11 bp):
AAAAAGAAGAA
Done.