Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 94 of 427
Found at i:24792776 original size:2 final size:2
Alignment explanation
Indices: 24792763--24792792 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
24792753 TAGATAGATG
*
24792763 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24792793 GTTACATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24794565 original size:44 final size:44
Alignment explanation
Indices: 24794502--24794902 Score: 468
Period size: 44 Copynumber: 9.1 Consensus size: 44
24794492 CGAGAACACC
* *
24794502 AATCTGTTATTTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* * * *
24794546 AATCTACTGA-CTTCGATCTGCCCTCTGACAATACAGAGGTGCCA
1 AATCTGCT-ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* * * * *
24794590 AATCTGCTTTCTTCGATCTGCTCT-TCACCAACAGAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCT-GCCAATACAGAGATGCCA
* *
24794634 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* * *
24794678 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCA
1 AATCTGCTATCTTCG-ATCTGCTCTCTGCCAATACAGAGATGCCA
* * *
24794723 AATCTGCTATCTTTGATCTGCTCT-TCACCGATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCT-GCCAATACAGAGATGCCA
* * *
24794767 AATCTGCTATCTTCGATCTGCTCTCCGCTAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* * *
24794811 AATCTACTATCTTCGATCTGCTCTCCGCCAATACAGAGACT-TCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGA-TGCCA
* * *
24794855 AATCTACTATCTTCGAATCTGCTCTCTGACAATATAGAGATGCCA
1 AATCTGCTATCTTCG-ATCTGCTCTCTGCCAATACAGAGATGCCA
24794900 AAT
1 AAT
24794903 TTGCAGGATT
Statistics
Matches: 302, Mismatches: 45, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.01
44 235 0.78
45 65 0.22
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (44 bp):
AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
Found at i:24794826 original size:177 final size:178
Alignment explanation
Indices: 24794502--24795195 Score: 691
Period size: 177 Copynumber: 3.8 Consensus size: 178
24794492 CGAGAACACC
* * * *
24794502 AATCTGTTATTTTCG-ATCTGCTCTCTGCCAATACAGAGATGCCAAATCTACTGA-CTTCGATCT
1 AATCTGCTATCTTCGAATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCT-ATCTTCGATCT
* * * * * * *
24794565 GCCCTCTGA-CAATACAGAGGTGCCAAATCTGCTTTCTTCGATCTGCTCTTCACCAACAGAGAGA
65 GCTCTCTCACCAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGA
24794629 CGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
130 CGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * *
24794678 AATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTG
1 AATCTGCTATCTTCGAATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTG
* * *
24794743 CTCT-TCACCGATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCTAATACAGAGAC
66 CTCTCTCACCAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGAC
* **
24794807 GCCAAATCTACTATCTTCGATCTGCTCTCCGCCAATACAGAGACTTCA
131 GCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * * *
24794855 AATCTACTATCTTCGAATCTGCTCTCTGACAATATAGAGATGCCAAATTTGCAGGAT-TTGCCAA
1 AATCTGCTATCTTCGAATCTGCTCTCTGACAATACAGAGATGCCAAATCTGC--TATCTT--CGA
* * * * * * ** *
24794919 TGTCGCTACACTGTCTTCTAAAGACATGAGACAAT-ACAGAGATACCAAATCTGCTTTCTTCGAT
62 TCT-GCT---CTCTC-AC-CAATACA-GAG---ATGCCA-A-AT--C--TGCT---ATCTTCGAT
* * *
24794983 CTGCTCTCTGCCAACACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCTGCCAACACAGA
108 CTGCTCTCCGCCAACACAGAGACGCCAAATCTGCTATCTTCG-ATCTGCTCTCCGCCAATACAGA
24795048 GACGCCA
172 GACGCCA
* * * *
24795055 AATCTGCTATCTTCGAATCTGCTCTCTGACAATACAGAGACGCCAAATTTTCTGTCTTCGATCTG
1 AATCTGCTATCTTCGAATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTG
* * * * *
24795120 TTCTC-CGCCAATACAGAAATGCCAAATCTGCTATCTTCGAATCTGCTCTTCGCCAATACAGAGA
66 CTCTCTCACCAATACAGAGATGCCAAATCTGCTATCTTCG-ATCTGCTCTCCGCCAACACAGAGA
24795184 CGCCAAATCTGC
130 CGCCAAATCTGC
24795196 AGGATTTGCC
Statistics
Matches: 421, Mismatches: 66, Indels: 59
0.77 0.12 0.11
Matches are distributed among these distances:
176 16 0.04
177 185 0.44
178 8 0.02
179 35 0.08
180 3 0.01
181 5 0.01
183 1 0.00
184 2 0.00
185 4 0.01
186 4 0.01
187 6 0.01
188 3 0.01
189 2 0.00
190 7 0.02
191 4 0.01
192 3 0.01
193 2 0.00
194 1 0.00
196 4 0.01
197 4 0.01
198 1 0.00
199 48 0.11
200 73 0.17
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (178 bp):
AATCTGCTATCTTCGAATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTG
CTCTCTCACCAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGAC
GCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
Found at i:24795045 original size:45 final size:45
Alignment explanation
Indices: 24794950--24795195 Score: 345
Period size: 45 Copynumber: 5.5 Consensus size: 45
24794940 AGACATGAGA
** *
24794950 CAATACAGAGATACCAAATCTGCTTTCTTCG-ATCTGCTCTCTGC
1 CAATACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCTGC
*
24794994 CAACACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCTGC
1 CAATACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCTGC
* *
24795039 CAACACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCTGA
1 CAATACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCTGC
* * * * *
24795084 CAATACAGAGACGCCAAATTTTCTGTCTTCG-ATCTGTTCTCCGC
1 CAATACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCTGC
* *
24795128 CAATACAGAAATGCCAAATCTGCTATCTTCGAATCTGCTCT-TCGC
1 CAATACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCT-GC
24795173 CAATACAGAGACGCCAAATCTGC
1 CAATACAGAGACGCCAAATCTGC
24795196 AGGATTTGCC
Statistics
Matches: 178, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
44 63 0.35
45 115 0.65
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (45 bp):
CAATACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCTGC
Found at i:24795130 original size:89 final size:90
Alignment explanation
Indices: 24794954--24795195 Score: 346
Period size: 89 Copynumber: 2.7 Consensus size: 90
24794944 ATGAGACAAT
* * *
24794954 ACAGAGATACCAAATCTGCTTTCTTCG-ATCTGCTCTCTGCCAACACAGAGACGCCAAATCTGCT
1 ACAGAGATGCCAAATCTGCTATCTTCGAATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
*
24795018 ATCTTCGAATCTGCTCTCTGCCAAC
66 ATCTTCGAATCTGCTCTCCGCCAAC
* * * *
24795043 ACAGAGACGCCAAATCTGCTATCTTCGAATCTGCTCTCTGACAATACAGAGACGCCAAATTTTCT
1 ACAGAGATGCCAAATCTGCTATCTTCGAATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
* * *
24795108 GTCTTCG-ATCTGTTCTCCGCCAAT
66 ATCTTCGAATCTGCTCTCCGCCAAC
*
24795132 ACAGAAATGCCAAATCTGCTATCTTCGAATCTGCTCT-TCGCCAATACAGAGACGCCAAATCTGC
1 ACAGAGATGCCAAATCTGCTATCTTCGAATCTGCTCTCT-GCCAATACAGAGACGCCAAATCTGC
24795196 AGGATTTGCC
Statistics
Matches: 135, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
88 1 0.01
89 95 0.70
90 39 0.29
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (90 bp):
ACAGAGATGCCAAATCTGCTATCTTCGAATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
ATCTTCGAATCTGCTCTCCGCCAAC
Found at i:24795188 original size:134 final size:134
Alignment explanation
Indices: 24794948--24795195 Score: 381
Period size: 134 Copynumber: 1.9 Consensus size: 134
24794938 AAAGACATGA
* * * *
24794948 GACAATACAGAGATACCAAATCTGCTTTCTTCGATCTGCTCTCTGCCAACACAGAGACGCCAAAT
1 GACAATACAGAGACACCAAATCTGCTGTCTTCGATCTGCTCTCCGCCAACACAGAAACGCCAAAT
24795013 CTGCTATCTTCGAATCTGCTCTCTGCCAACACAGAGACGCCAAATCTGCTATCTTCGAATCTGCT
66 CTGCTATCTTCGAATCTGCTCTCTGCCAACACAGAGACGCCAAATCTGCTATCTTCGAATCTGCT
24795078 CTCT
131 CTCT
* * * * * *
24795082 GACAATACAGAGACGCCAAATTTTCTGTCTTCGATCTGTTCTCCGCCAATACAGAAATGCCAAAT
1 GACAATACAGAGACACCAAATCTGCTGTCTTCGATCTGCTCTCCGCCAACACAGAAACGCCAAAT
*
24795147 CTGCTATCTTCGAATCTGCTCT-TCGCCAATACAGAGACGCCAAATCTGC
66 CTGCTATCTTCGAATCTGCTCTCT-GCCAACACAGAGACGCCAAATCTGC
24795196 AGGATTTGCC
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
133 1 0.01
134 101 0.99
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (134 bp):
GACAATACAGAGACACCAAATCTGCTGTCTTCGATCTGCTCTCCGCCAACACAGAAACGCCAAAT
CTGCTATCTTCGAATCTGCTCTCTGCCAACACAGAGACGCCAAATCTGCTATCTTCGAATCTGCT
CTCT
Found at i:24795199 original size:289 final size:288
Alignment explanation
Indices: 24794662--24795236 Score: 827
Period size: 289 Copynumber: 2.0 Consensus size: 288
24794652 TGCTCTCCGC
* * * *
24794662 CAATACAGAGACGCCAAATCTGCTATCTTCGAAACTGCTTTCTGACAATACAGAGATGCCAAATC
1 CAATACAGAGACACCAAATCTGCTATCTTCGAAACTGCTCTCTGACAACACAGAGACGCCAAATC
* * * *
24794727 TGCTATCTTTGATCTGCTCTTCACCGATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTC
66 TGCTATCTTCGATCTGCTCTTCACCAACACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTC
* *
24794792 CGCTAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCAATACAGAGACTTCAAA
131 CGCTAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCAATACAGAGAATCCAAA
* * * *
24794857 TCTACTATCTTCGAATCTGCTCTCTGACAATATAGAGATGCCAAATTTGCAGGATTTGCCAATGT
196 TCTACTATCTTCGAATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCAGGATTTGCCAATAT
24794922 CGCTACACTGTCTTCTAAAGACATGAGA
261 CGCTACACTGTCTTCTAAAGACATGAGA
* * * *
24794950 CAATACAGAGATACCAAATCTGCTTTCTTCG-ATCTGCTCTCTGCCAACACAGAGACGCCAAATC
1 CAATACAGAGACACCAAATCTGCTATCTTCGAAACTGCTCTCTGACAACACAGAGACGCCAAATC
*
24795014 TGCTATCTTCGAATCTGCTC-TCTGCCAACACAGAGACGCCAAATCTGCTATCTTCGAATCTGCT
66 TGCTATCTTCG-ATCTGCTCTTC-ACCAACACAGAGACGCCAAATCTGCTATCTTCG-ATCTGCT
* * * * *
24795078 CTCTGAC-AATACAGAGACGCCAAATTTTCTGTCTTCGATCTGTTCTCCGCCAATACAGA-AATG
128 CTCCG-CTAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCAATACAGAGAAT-
* *
24795141 CCAAATCTGCTATCTTCGAATCTGCTCT-TCGCCAATACAGAGACGCCAAATCTGCAGGATTTGC
191 CCAAATCTACTATCTTCGAATCTGCTCTCT-GACAATACAGAGACGCCAAATCTGCAGGATTTGC
24795205 CAATATCGCTACACTGTCTTCTAAAGACATGA
255 CAATATCGCTACACTGTCTTCTAAAGACATGA
24795237 TGTGTAGAAT
Statistics
Matches: 255, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
287 40 0.16
288 68 0.27
289 146 0.57
290 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (288 bp):
CAATACAGAGACACCAAATCTGCTATCTTCGAAACTGCTCTCTGACAACACAGAGACGCCAAATC
TGCTATCTTCGATCTGCTCTTCACCAACACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTC
CGCTAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCAATACAGAGAATCCAAA
TCTACTATCTTCGAATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCAGGATTTGCCAATAT
CGCTACACTGTCTTCTAAAGACATGAGA
Found at i:24806957 original size:130 final size:128
Alignment explanation
Indices: 24806811--24807118 Score: 282
Period size: 131 Copynumber: 2.4 Consensus size: 128
24806801 CAGAAACCAC
* * * * * * *
24806811 AACCCAGCACAATAGGGCATGATTCTCGAATTGTCAAACGCCGAATATTGCCTTTGTTT-TAAAA
1 AACCCAACACATTAGGGCATGATTC-CGAATTGACAAACACCGAATATCGCCTTCGTTTGGAAAA
* * * *
24806875 ATTTTTAGAGGATATGAATGAAA-TCATGAAGGGATACTCGATTATTTTGAGCAAACGCGAAATT
65 ATTTTAACA-GACATGAATGAAATTCA--AAGCGATACTCGATTATTTTGAGCAAACGCGAAATT
24806939 GT
127 GT
* * * * * *
24806941 AACCCAACACATTAGGGC-TCAATTCCATGAATT-ACTAAATATCGAATGTCGTCTTCGTTTGGG
1 AACCCAACACATTAGGGCAT-GATTCC--GAATTGAC-AAACACCGAATATCGCCTTCGTTTGGA
* *
24807004 AGAATTTTAACAGACATGAATGAAATTTCAAAGCGATATTCGATTATTTTGAGCAAACGCGAAAT
62 AAAATTTTAACAGACATGAATGAAA-TTCAAAGCGATACTCGATTATTTTGAGCAAACGCGAAAT
24807069 TGT
126 TGT
* * * *
24807072 AACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCGAAT
1 AACCCAACACATTAGGGCATGATT-C-CGAATTGACAAACACCGAAT
24807119 CTCGTTTTTT
Statistics
Matches: 143, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
129 2 0.01
130 21 0.15
131 105 0.73
132 11 0.08
133 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (128 bp):
AACCCAACACATTAGGGCATGATTCCGAATTGACAAACACCGAATATCGCCTTCGTTTGGAAAAA
TTTTAACAGACATGAATGAAATTCAAAGCGATACTCGATTATTTTGAGCAAACGCGAAATTGT
Found at i:24807625 original size:2 final size:2
Alignment explanation
Indices: 24807618--24807642 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24807608 AAAAATAAGA
24807618 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
24807643 ATTATTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24808041 original size:2 final size:2
Alignment explanation
Indices: 24808034--24808071 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
24808024 ATTTAGTAAC
*
24808034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24808072 TAAGCATAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24810443 original size:45 final size:45
Alignment explanation
Indices: 24810333--24810789 Score: 528
Period size: 45 Copynumber: 10.4 Consensus size: 45
24810323 TGACCTTCAT
*
24810333 CGGGG-GTAGATCCAAGATGACAGATCTTATCTCTCTATAATGGA
1 CGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGA
* *
24810377 C-AGGAGTAGATCCAAGATGACAGATCTTATCTCTCCGTAATGGA
1 CGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGA
24810421 CGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGA
1 CGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGA
* * *
24810466 CGGGGAGTAGATCCAAGATGACAGCTCTTATCTCTCTGTATTCGA
1 CGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGA
* * * * *
24810511 CGGGGAGCAGATCGAAGACGTAGCAAAT-TTGA---C-CT-TCAT---
1 CGGGGAGTAGATCCAAGATG-A-CAGATCTT-ATCTCTCTGTAATGGA
* * *
24810550 C-GGG-GCAGATCCAAGATGGCGGATCTTATCTCTCTGTAATGGA
1 CGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGA
* *
24810593 CGGGG-GCAGATCCAAGATGAAAGATCTTATCTCTCTGTAATGGA
1 CGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGA
* * * * * *
24810637 TGGGGAGTAGATACAATATGACAGATCATGTCTCTCCGTAATGGA
1 CGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGA
*
24810682 CGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTATAATGGA
1 CGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGA
* * * *
24810727 TGGGGAGTAGATCCAAGATGACAGATGTTATCTCTCTGTATTCGA
1 CGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGA
* *
24810772 CGGGGAGCAGATCGAAGA
1 CGGGGAGTAGATCCAAGA
24810790 CGTAGCAGAT
Statistics
Matches: 350, Mismatches: 47, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
35 4 0.01
36 2 0.01
37 12 0.03
38 4 0.01
39 3 0.01
40 3 0.01
42 2 0.01
43 5 0.01
44 83 0.24
45 225 0.64
46 3 0.01
47 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (45 bp):
CGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGA
Found at i:24810644 original size:216 final size:217
Alignment explanation
Indices: 24810225--24810721 Score: 717
Period size: 216 Copynumber: 2.3 Consensus size: 217
24810215 TTGAAGATAC
* * * * *
24810225 CAGATCTTATCTCTCTGAAATAGACGGAGAGCAGATCCAAGATGATAGATCTTATCTCTCTATAT
1 CAGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTATAT
* * * * *
24810290 TCGATAGGGAGCAGATTGAAGATATAACAGATCTGACCTTCATCGGGGGTAGATCCAAGATGACA
66 TCGACAGGGAGCAGATCGAAGACATAACAAATCTGACCTTCATCGGGGGCAGATCCAAGATGACA
* *
24810355 GATCTTATCTCTCTATAATGGACAGGAGTAGATCCAAGATGACAGATCTTATCTCTCCGTAATGG
131 GATCTTATCTCTCTATAATGGACAGGAGCAGATCCAAGATGAAAGATCTTATCTCTCCGTAATGG
*
24810420 ACGGGGAGTAGATCCAAGATGA
196 ACGGGGAGTAGATACAAGATGA
* *
24810442 CAGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCCAAGATGACAGCTCTTATCTCTCTGTAT
1 CAGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTATAT
* * * * * *
24810507 TCGACGGGGAGCAGATCGAAGACGTAGCAAATTTGACCTTCATC-GGGGCAGATCCAAGATGGCG
66 TCGACAGGGAGCAGATCGAAGACATAACAAATCTGACCTTCATCGGGGGCAGATCCAAGATGACA
* * * *
24810571 GATCTTATCTCTCTGTAATGGACGGGGGCAGATCCAAGATGAAAGATCTTATCTCTCTGTAATGG
131 GATCTTATCTCTCTATAATGGACAGGAGCAGATCCAAGATGAAAGATCTTATCTCTCCGTAATGG
* *
24810636 ATGGGGAGTAGATACAATATGA
196 ACGGGGAGTAGATACAAGATGA
* * *
24810658 CAGATCATGTCTCTCCGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTATA
1 CAGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTATA
24810722 ATGGATGGGG
Statistics
Matches: 248, Mismatches: 32, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
216 154 0.62
217 94 0.38
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (217 bp):
CAGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTATAT
TCGACAGGGAGCAGATCGAAGACATAACAAATCTGACCTTCATCGGGGGCAGATCCAAGATGACA
GATCTTATCTCTCTATAATGGACAGGAGCAGATCCAAGATGAAAGATCTTATCTCTCCGTAATGG
ACGGGGAGTAGATACAAGATGA
Found at i:24810686 original size:171 final size:172
Alignment explanation
Indices: 24810384--24810699 Score: 481
Period size: 171 Copynumber: 1.8 Consensus size: 172
24810374 GGACAGGAGT
* *
24810384 AGATCCAAGATGACAGATCTTATCTCTCCGTAATGGACGGGGAGTAGATCCAAGATGACAGATCT
1 AGATCCAAGATGACAGATCTTATCTCTCCGTAATGGACGGGGAGCAGATCCAAGATGAAAGATCT
* * * * *
24810449 TATCTCTCTGTAATGGACGGGGAGTAGATCCAAGATGACAGCTCTTATCTCTCTGTATTCGACGG
66 TATCTCTCTGTAATGGACGGGGAGTAGATACAAGATGACAGATCATATCTCTCCGTAATCGACGG
*
24810514 GGAGCAGATCGAAGACGTAGCAAATTTGACCTTCATCGGGGC
131 GGAGCAGATCCAAGACGTAGCAAATTTGACCTTCATCGGGGC
* * *
24810556 AGATCCAAGATGGCGGATCTTATCTCTCTGTAATGGACGGGG-GCAGATCCAAGATGAAAGATCT
1 AGATCCAAGATGACAGATCTTATCTCTCCGTAATGGACGGGGAGCAGATCCAAGATGAAAGATCT
* * * *
24810620 TATCTCTCTGTAATGGATGGGGAGTAGATACAATATGACAGATCATGTCTCTCCGTAATGGACGG
66 TATCTCTCTGTAATGGACGGGGAGTAGATACAAGATGACAGATCATATCTCTCCGTAATCGACGG
*
24810685 GGAGTAGATCCAAGA
131 GGAGCAGATCCAAGA
24810700 TGACAGATCT
Statistics
Matches: 128, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
171 89 0.70
172 39 0.30
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (172 bp):
AGATCCAAGATGACAGATCTTATCTCTCCGTAATGGACGGGGAGCAGATCCAAGATGAAAGATCT
TATCTCTCTGTAATGGACGGGGAGTAGATACAAGATGACAGATCATATCTCTCCGTAATCGACGG
GGAGCAGATCCAAGACGTAGCAAATTTGACCTTCATCGGGGC
Found at i:24810804 original size:261 final size:260
Alignment explanation
Indices: 24810333--24810828 Score: 830
Period size: 261 Copynumber: 1.9 Consensus size: 260
24810323 TGACCTTCAT
* * *
24810333 CGGGGGTAGATCCAAGATGACAGATCTTATCTCTCTATAATGGACAGGAGTAGATCCAAGATGAC
1 CGGGGGCAGATCCAAGATGAAAGATCTTATCTCTCTATAATGGACAGGAGTAGATACAAGATGAC
* *
24810398 AGATCTTATCTCTCCGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAAT
66 AGATCATATCTCTCCGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTATAAT
*
24810463 GGACGGGGAGTAGATCCAAGATGACAGCTCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAG
131 GGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAG
*
24810528 ACGTAGCAAATTTGACCTTCATCGGGGCAGATCCAAGATGGCGGATCTTATCTCTCTGTAATGGA
196 ACGTAGCAAATTTGACCTTCATCGAGGCAGATCCAAGATGGCGGATCTTATCTCTCTGTAATGGA
* ** *
24810593 CGGGGGCAGATCCAAGATGAAAGATCTTATCTCTCTGTAATGGATGGGGAGTAGATACAATATGA
1 CGGGGGCAGATCCAAGATGAAAGATCTTATCTCTCTATAATGGA-CAGGAGTAGATACAAGATGA
*
24810658 CAGATCATGTCTCTCCGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTATAA
65 CAGATCATATCTCTCCGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTATAA
* *
24810723 TGGATGGGGAGTAGATCCAAGATGACAGATGTTATCTCTCTGTATTCGACGGGGAGCAGATCGAA
130 TGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAA
* * *
24810788 GACGTAGCAGATTTGACCTTTATTGAGGCAGATCCAAGATG
195 GACGTAGCAAATTTGACCTTCATCGAGGCAGATCCAAGATG
24810829 ATTTGGCATC
Statistics
Matches: 218, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
260 41 0.19
261 177 0.81
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (260 bp):
CGGGGGCAGATCCAAGATGAAAGATCTTATCTCTCTATAATGGACAGGAGTAGATACAAGATGAC
AGATCATATCTCTCCGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTATAAT
GGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAG
ACGTAGCAAATTTGACCTTCATCGAGGCAGATCCAAGATGGCGGATCTTATCTCTCTGTAATGGA
Found at i:24810850 original size:78 final size:82
Alignment explanation
Indices: 24810759--24811043 Score: 292
Period size: 88 Copynumber: 3.4 Consensus size: 82
24810749 AGATGTTATC
* * * * *
24810759 TCTCTGTATTCGACGGGGAGCAGATCGAAGACGTAGCAGATTTGA-C-C-TTT-ATTGAGGCAGA
1 TCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGCAGATTTGATCACGTTTAATTGAAGCAAA
24810820 TCCAAGATGATTTGGCA
66 TCCAAGATGATTTGGCA
*
24810837 TCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGACTTTCACGTGTTTACATTGA
1 TCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGCAGATTTGA---TCAC--GTTTA-ATTGA
*
24810902 AGCAAATCTAAGATGATTTGGCA
60 AGCAAATCCAAGATGATTTGGCA
* * * *
24810925 TCTCTGTGTTCGACGGAGAGCAGATCAAAGACATAGTTA-ATTTGGCTTTCACGTGTTTACGTTG
1 TCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAG-CAGATTT-G--ATCAC--GTTTA-ATTG
* *
24810989 AAGCAAATCTAAGATGATTTGGTA
59 AAGCAAATCCAAGATGATTTGGCA
*
24811013 TCTCTGTGTTCGACGGAGAGCCGATCGAAGA
1 TCTCTGTGTTCGACGGAGAGCAGATCGAAGA
24811044 TATCGACATG
Statistics
Matches: 178, Mismatches: 15, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
78 41 0.23
82 1 0.01
83 1 0.01
86 3 0.02
88 131 0.74
89 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (82 bp):
TCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGCAGATTTGATCACGTTTAATTGAAGCAAA
TCCAAGATGATTTGGCA
Found at i:24810934 original size:41 final size:41
Alignment explanation
Indices: 24810889--24811022 Score: 94
Period size: 41 Copynumber: 3.1 Consensus size: 41
24810879 TGACTTTCAC
24810889 GTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCT
1 GTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCT
** * * * *
24810930 GTG-TT-CGACGGAGAGCAGATCAAAGACATAGTTAATTTGGC-TTTCAC
1 GTGTTTAC-ATTGA-AGCAAATCTAAG--AT-G---ATTTGGCATCTC-T
* *
24810977 GTGTTTACGTTGAAGCAAATCTAAGATGATTTGGTATCTCT
1 GTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCT
24811018 GTGTT
1 GTGTT
24811023 CGACGGAGAG
Statistics
Matches: 67, Mismatches: 14, Indels: 24
0.64 0.13 0.23
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 24 0.36
42 3 0.04
43 2 0.03
44 2 0.03
45 2 0.03
46 3 0.04
47 20 0.30
48 4 0.06
49 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (41 bp):
GTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATCTCT
Found at i:24810958 original size:88 final size:88
Alignment explanation
Indices: 24810809--24811043 Score: 380
Period size: 88 Copynumber: 2.7 Consensus size: 88
24810799 TTTGACCTTT
* * *
24810809 ATTGAGGCAGATCCAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGC
1 ATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGC
*
24810874 TGATTTGACTTTCACGTGTTTAC
66 TAATTTGACTTTCACGTGTTTAC
* *
24810897 ATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCAGATCAAAGACATAGT
1 ATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGC
*
24810962 TAATTTGGCTTTCACGTGTTTAC
66 TAATTTGACTTTCACGTGTTTAC
* * *
24810985 GTTGAAGCAAATCTAAGATGATTTGGTATCTCTGTGTTCGACGGAGAGCCGATCGAAGA
1 ATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCAGATCGAAGA
24811044 TATCGACATG
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 136 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (88 bp):
ATTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTCGACGGAGAGCAGATCGAAGACATAGC
TAATTTGACTTTCACGTGTTTAC
Found at i:24812619 original size:30 final size:28
Alignment explanation
Indices: 24812583--24812678 Score: 96
Period size: 26 Copynumber: 3.5 Consensus size: 28
24812573 CATTACATTT
24812583 TTTTATTATATATCTTATCTATAAATTATA
1 TTTTATTATATAT-TTAT-TATAAATTATA
*
24812613 TTTTATTATATATTTTATTGT--A-TATA
1 TTTTATTATATA-TTTATTATAAATTATA
24812639 TTTCT-TTATAT-TTT-TTATAAATTATA
1 TTT-TATTATATATTTATTATAAATTATA
*
24812665 TATTATTATATATT
1 TTTTATTATATATT
24812679 AAATTTATAA
Statistics
Matches: 56, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
23 3 0.05
24 3 0.05
25 2 0.04
26 25 0.45
27 4 0.07
29 2 0.04
30 16 0.29
31 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTTATTATATATTTATTATAAATTATA
Found at i:24812638 original size:14 final size:12
Alignment explanation
Indices: 24812609--24812678 Score: 61
Period size: 12 Copynumber: 5.5 Consensus size: 12
24812599 ATCTATAAAT
24812609 TATATTTTATTA
1 TATATTTTATTA
24812621 TATATTTTATTGTA
1 TATATTTTA-T-TA
24812635 TATATTTCT-TTA
1 TATATTT-TATTA
* *
24812647 TATTTTTTATAAA
1 TATATTTTAT-TA
*
24812660 TTATATATTATTA
1 -TATATTTTATTA
24812673 TATATT
1 TATATT
24812679 AAATTTATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
11 1 0.02
12 23 0.50
13 4 0.09
14 17 0.37
15 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:24812805 original size:13 final size:13
Alignment explanation
Indices: 24812787--24812836 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
24812777 ACATCTTCTC
24812787 TTTTATTATATAT
1 TTTTATTATATAT
*
24812800 TTTTATTATGTAT
1 TTTTATTATATAT
* * *
24812813 GTATATTATTTA-
1 TTTTATTATATAT
24812825 TTTTATTATATA
1 TTTTATTATATA
24812837 AAAATTACTC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 9 0.30
13 21 0.70
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (13 bp):
TTTTATTATATAT
Found at i:24812944 original size:12 final size:12
Alignment explanation
Indices: 24812912--24812977 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
24812902 GTTTAAAATT
*
24812912 TTATTATATGATA
1 TTATT-TATTATA
24812925 TATATTTATTATA
1 T-TATTTATTATA
*
24812938 TTATTTATTTTA
1 TTATTTATTATA
*
24812950 TTATATATTA-A
1 TTATTTATTATA
* * *
24812961 ATATTTGTTACA
1 TTATTTATTATA
24812973 TTATT
1 TTATT
24812978 ATCATTATAC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
11 8 0.19
12 23 0.53
13 8 0.19
14 4 0.09
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (12 bp):
TTATTTATTATA
Found at i:24812949 original size:35 final size:35
Alignment explanation
Indices: 24812909--24812977 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
24812899 CATGTTTAAA
* *
24812909 ATTTTATTATATGA-TATATATTTATTATATTATTT
1 ATTTTATTATAT-ATTAAATATTTATTACATTATTT
*
24812944 ATTTTATTATATATTAAATATTTGTTACATTATT
1 ATTTTATTATATATTAAATATTTATTACATTATT
24812978 ATCATTATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 1 0.03
35 29 0.97
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (35 bp):
ATTTTATTATATATTAAATATTTATTACATTATTT
Found at i:24813073 original size:19 final size:19
Alignment explanation
Indices: 24813049--24813096 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
24813039 TATGTTTTAT
24813049 TATTTAATATTCCTTATA-A
1 TATTT-ATATTCCTTATATA
* *
24813068 TATTTATCTTTCTTATATA
1 TATTTATATTCCTTATATA
*
24813087 TATTTTTATT
1 TATTTATATT
24813097 TTATACTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATATTCCTTATATA
Found at i:24816525 original size:318 final size:318
Alignment explanation
Indices: 24815925--24816529 Score: 789
Period size: 318 Copynumber: 1.9 Consensus size: 318
24815915 TTATGAATGG
* * * * *
24815925 TAAAATAATTTTTCCAAAATTGTGATTCCTAGAAAATAAAATATTATTTATTATTTTCTCGTGCA
1 TAAAATAATTTTGCCAAAATTATGATTCCTAGAAAATAAAACATAATTTATCATTTTCTCGTGCA
* *
24815990 TGTATATTTTAGATCATGGACTATCATCTCTTCGGAGGGTTTTAATTTTATTATTTGAGAATAAA
66 TGTAAATTTTAGATCATGGACTATCATCTCCTCGGAGGGTTTTAATTTTATTATTTGAGAATAAA
* * * * * *
24816055 ATGAGCCAAAAATAGACATAAGAATTTTGTGATATTATTTTTCGACGAAACTCAAAGAACTGAGA
131 ATGAGCCAAAAACAGACATAAGAATTTTGTAATATTATTTTTCAACGAAACCCAAAGAACCGAAA
* ** ** * * * *
24816120 CGTATCCAAACAGATCGAGATGACGCAAACCCAGTCCTACCAAACTGACAAGTGACCGAGAGTGG
196 CGCATCCAAACAGATCGAGACCACGCAAACCCAACCCTACCAAACTAACAAGTGACCAACAATGG
*
24816185 TCAGGCAGTAAGAGGCTGGCGGTGGTCCGACTGTGGCTAGTAGCGACAACACATATAT
261 TCAGACAGTAAGAGGCTGGCGGTGGTCCGACTGTGGCTAGTAGCGACAACACATATAT
** * * *
24816243 TAAAATAATTTTGCCAAAATTATGATTTTTAGAAAATTAAACGTAATTTATCATTTTTTCAG-GC
1 TAAAATAATTTTGCCAAAATTATGATTCCTAGAAAATAAAACATAATTTATCATTTTCTC-GTGC
* *
24816307 ATGTAAATTTTAGATCGTGGACTATCATCTCCTCGTAGGGTTTTAATTTTATTATTTGAGAATAA
65 ATGTAAATTTTAGATCATGGACTATCATCTCCTCGGAGGGTTTTAATTTTATTATTTGAGAATAA
** * * *
24816372 AATGAGTTAGAAACAGACATAAGAATTTTGTAATATTATTTTTTAACGAAACCCAAATAACCGAA
130 AATGAGCCAAAAACAGACATAAGAATTTTGTAATATTATTTTTCAACGAAACCCAAAGAACCGAA
* * * * * *
24816437 ATGCATCCAAACATATCGAGACCATGCAAACGCAACCCTGCCAAGCTAACAAGTGACCAACAATG
195 ACGCATCCAAACAGATCGAGACCACGCAAACCCAACCCTACCAAACTAACAAGTGACCAACAATG
* * * *
24816502 GTCTGACAGTAGGTGGTTGGCGGTGGTC
260 GTCAGACAGTAAGAGGCTGGCGGTGGTC
24816530 TGACAGTAGG
Statistics
Matches: 241, Mismatches: 45, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
318 240 1.00
319 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (318 bp):
TAAAATAATTTTGCCAAAATTATGATTCCTAGAAAATAAAACATAATTTATCATTTTCTCGTGCA
TGTAAATTTTAGATCATGGACTATCATCTCCTCGGAGGGTTTTAATTTTATTATTTGAGAATAAA
ATGAGCCAAAAACAGACATAAGAATTTTGTAATATTATTTTTCAACGAAACCCAAAGAACCGAAA
CGCATCCAAACAGATCGAGACCACGCAAACCCAACCCTACCAAACTAACAAGTGACCAACAATGG
TCAGACAGTAAGAGGCTGGCGGTGGTCCGACTGTGGCTAGTAGCGACAACACATATAT
Found at i:24816547 original size:25 final size:25
Alignment explanation
Indices: 24816500--24816548 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
24816490 TGACCAACAA
* **
24816500 TGGTCTGACAGTAGGTGGTTGGCGG
1 TGGTCTGACAGTAGGAGACTGGCGG
24816525 TGGTCTGACAGTAGGAGACTGGCG
1 TGGTCTGACAGTAGGAGACTGGCG
24816549 ATAGAAAGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.16, C:0.14, G:0.45, T:0.24
Consensus pattern (25 bp):
TGGTCTGACAGTAGGAGACTGGCGG
Found at i:24816598 original size:24 final size:24
Alignment explanation
Indices: 24816566--24816613 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
24816556 GACGACGACG
24816566 ACGGAAACGTGAACCAAAGTATGC
1 ACGGAAACGTGAACCAAAGTATGC
24816590 ACGGAAACGTGAACCAAAGTATGC
1 ACGGAAACGTGAACCAAAGTATGC
24816614 GTTAGGGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (24 bp):
ACGGAAACGTGAACCAAAGTATGC
Found at i:24817121 original size:41 final size:41
Alignment explanation
Indices: 24817038--24817122 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
24817028 TATAGTGGCG
* *
24817038 TTTATGAGAAAAATGCTACAAAAGGTCAAGCAGTAGCGGCA
1 TTTATGAGAAAAACGCTACAAAAGGTCAAGCAGTAGAGGCA
* * * *
24817079 TTTATGAGAAAAACGCTGCAAAAGGTCTAGCATTAGATGCA
1 TTTATGAGAAAAACGCTACAAAAGGTCAAGCAGTAGAGGCA
24817120 TTT
1 TTT
24817123 TTCTCGTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (41 bp):
TTTATGAGAAAAACGCTACAAAAGGTCAAGCAGTAGAGGCA
Found at i:24817731 original size:6 final size:6
Alignment explanation
Indices: 24817720--24817746 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24817710 TTTTTTCATA
24817720 TTTTGT TTTTGT TTTTGT TTTTGT TTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTT
24817747 CTTACATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:24818122 original size:7 final size:7
Alignment explanation
Indices: 24818110--24818140 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
24818100 GTGTTTTGAT
24818110 TTTATGG
1 TTTATGG
24818117 TTTATGG
1 TTTATGG
24818124 TTTATGG
1 TTTATGG
24818131 TTTAT-G
1 TTTATGG
24818137 TTTA
1 TTTA
24818141 GGGGTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.16, C:0.00, G:0.23, T:0.61
Consensus pattern (7 bp):
TTTATGG
Found at i:24818126 original size:21 final size:21
Alignment explanation
Indices: 24818102--24818151 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
24818092 GGGGTCTAGT
*
24818102 GTTTTGATTTTATGGTTTA-TG
1 GTTTTGATTTTAT-GTTTAGGG
*
24818123 GTTTATG-GTTTATGTTTAGGG
1 GTTT-TGATTTTATGTTTAGGG
24818144 GTTTTGAT
1 GTTTTGAT
24818152 AAAAACACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
20 7 0.30
21 14 0.61
22 2 0.09
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.58
Consensus pattern (21 bp):
GTTTTGATTTTATGTTTAGGG
Found at i:24822109 original size:25 final size:25
Alignment explanation
Indices: 24822087--24822179 Score: 168
Period size: 25 Copynumber: 3.7 Consensus size: 25
24822077 TATTATTTAG
*
24822087 ATTTGTTGTTTTTGGTTGGATTTAT
1 ATTTGTTGTTTTTGGTTGGATTTGT
24822112 ATTTGTTGTTTTTGGTTGGATTTGT
1 ATTTGTTGTTTTTGGTTGGATTTGT
*
24822137 ATTTGCTGTTTTTGGTTGGATTTGT
1 ATTTGTTGTTTTTGGTTGGATTTGT
24822162 ATTTGTTGTTTTTGGTTG
1 ATTTGTTGTTTTTGGTTG
24822180 TTACAGGAAG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.09, C:0.01, G:0.27, T:0.63
Consensus pattern (25 bp):
ATTTGTTGTTTTTGGTTGGATTTGT
Found at i:24822421 original size:83 final size:87
Alignment explanation
Indices: 24822334--24822511 Score: 213
Period size: 83 Copynumber: 2.1 Consensus size: 87
24822324 CGTTTTCAGT
24822334 AAAAGTGCTACTAAAGCTCACATTCTATAGC-GCATTTGTGGG-AAAGCGCCACTAAAAGTCACG
1 AAAAGTGCTACTAAAGCTCACATTCTATAGCAGCATTTGTGGGAAAAGCGCCACTAAAAGTCACG
*
24822397 -TCTATAGTGGCGTTCGTG-GG
66 TTCTATAGCGGCGTTCGTGTGG
* ** * ** * * * *
24822417 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCAGCTTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
1 AAAAGTGCTACTAAAGCTCACATTCTATAGCAGCATTTGTGGGAAAAGCGCCACTAAAAGTCACG
*
24822482 TTCTATAGCGGCGTTTGTGTGG
66 TTCTATAGCGGCGTTCGTGTGG
24822504 -AAAGTGCT
1 AAAAGTGCT
24822512 GCTGAAGGTC
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
83 25 0.32
84 10 0.13
85 18 0.23
86 22 0.29
87 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (87 bp):
AAAAGTGCTACTAAAGCTCACATTCTATAGCAGCATTTGTGGGAAAAGCGCCACTAAAAGTCACG
TTCTATAGCGGCGTTCGTGTGG
Found at i:24822431 original size:42 final size:43
Alignment explanation
Indices: 24822356--24822540 Score: 225
Period size: 43 Copynumber: 4.4 Consensus size: 43
24822346 AAAGCTCACA
* * * *
24822356 TTCTATAGC-GCATTTGTGGG-AAAGCGCCACTAAAAGTCACG
1 TTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
* *
24822397 -TCTATAGTGGCGTTCGTGGGAAAAGCGCCGCTAAAGGTCATG
1 TTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
* *
24822439 TTCTATAGCAGCTTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
1 TTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
* * *
24822482 TTCTATAGCGGCGTTTGTGTGG-AAAGTGCTGCTGAAGGTCATG
1 TTCTATAGCGGCGTTTGTG-GGAAAAGCGCCGCTAAAGGTCATG
*
24822525 TTCTATAGCTGCGTTT
1 TTCTATAGCGGCGTTT
24822541 TTTCAAATAA
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
40 7 0.06
41 9 0.07
42 18 0.15
43 88 0.71
44 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
TTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
Found at i:24827496 original size:12 final size:12
Alignment explanation
Indices: 24827479--24827513 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
24827469 GTCTGAATCC
24827479 GCATCTATATCT
1 GCATCTATATCT
*
24827491 GCATCTGTATCT
1 GCATCTATATCT
*
24827503 GAATCTATATC
1 GCATCTATATC
24827514 AGTTACTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (12 bp):
GCATCTATATCT
Found at i:24837622 original size:25 final size:25
Alignment explanation
Indices: 24837593--24837781 Score: 245
Period size: 25 Copynumber: 7.6 Consensus size: 25
24837583 AGACACACCA
*
24837593 CAGCTCGCATGAGCTTCTCGTTATT
1 CAGCTCGTATGAGCTTCTCGTTATT
*
24837618 CAGCTCGCT-TGAGCTTCTCGCTATT
1 CAGCTCG-TATGAGCTTCTCGTTATT
* * *
24837643 CAGCTCATATGAGCTTCCCATTATT
1 CAGCTCGTATGAGCTTCTCGTTATT
* * * *
24837668 CAGCTTGCATGAACTTCCCGTTATT
1 CAGCTCGTATGAGCTTCTCGTTATT
24837693 CAGCTCGTATGAGCTTCTCGTTATT
1 CAGCTCGTATGAGCTTCTCGTTATT
*
24837718 CAGCTCGTATGAGCCTCTCGTTATT
1 CAGCTCGTATGAGCTTCTCGTTATT
* *
24837743 CAGCTCGGATGAGCTTCCCGTTATT
1 CAGCTCGTATGAGCTTCTCGTTATT
*
24837768 TAGCTCGTATGAGC
1 CAGCTCGTATGAGC
24837782 ATACATGTAT
Statistics
Matches: 141, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
24 1 0.01
25 140 0.99
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTCTCGTTATT
Found at i:24837718 original size:75 final size:75
Alignment explanation
Indices: 24837593--24837781 Score: 272
Period size: 75 Copynumber: 2.5 Consensus size: 75
24837583 AGACACACCA
*
24837593 CAGCTCGCATGAGCTTCTCGTTATTCAGCTCGCT-TGAGCTTCTCGCTATTCAGCTCATATGAGC
1 CAGCTCGCATGAGCTTCCCGTTATTCAGCTCG-TATGAGCTTCTCGCTATTCAGCTCATATGAGC
*
24837657 TTCCCATTATT
65 CTCCCATTATT
* * * *
24837668 CAGCTTGCATGAACTTCCCGTTATTCAGCTCGTATGAGCTTCTCGTTATTCAGCTCGTATGAGCC
1 CAGCTCGCATGAGCTTCCCGTTATTCAGCTCGTATGAGCTTCTCGCTATTCAGCTCATATGAGCC
* *
24837733 TCTCGTTATT
66 TCCCATTATT
* *
24837743 CAGCTCGGATGAGCTTCCCGTTATTTAGCTCGTATGAGC
1 CAGCTCGCATGAGCTTCCCGTTATTCAGCTCGTATGAGC
24837782 ATACATGTAT
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
74 1 0.01
75 100 0.99
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (75 bp):
CAGCTCGCATGAGCTTCCCGTTATTCAGCTCGTATGAGCTTCTCGCTATTCAGCTCATATGAGCC
TCCCATTATT
Found at i:24840193 original size:24 final size:24
Alignment explanation
Indices: 24840161--24840206 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
24840151 ACAAGTGTAT
24840161 GTCAGAAAAGTATGGAAAAATTAA
1 GTCAGAAAAGTATGGAAAAATTAA
24840185 GTCAGAAAAGTATGGAAAAATT
1 GTCAGAAAAGTATGGAAAAATT
24840207 GAGCACAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.04, G:0.22, T:0.22
Consensus pattern (24 bp):
GTCAGAAAAGTATGGAAAAATTAA
Found at i:24842413 original size:13 final size:13
Alignment explanation
Indices: 24842397--24842422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24842387 TAGTTTTCAT
24842397 CAACAAAAGTCAC
1 CAACAAAAGTCAC
24842410 CAACAAAAGTCAC
1 CAACAAAAGTCAC
24842423 AAAGTAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.31, G:0.08, T:0.08
Consensus pattern (13 bp):
CAACAAAAGTCAC
Found at i:24845008 original size:3 final size:3
Alignment explanation
Indices: 24845000--24845104 Score: 203
Period size: 3 Copynumber: 35.3 Consensus size: 3
24844990 TTCATCCCCT
24845000 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24845048 AGA AGA AGA AGA AGA AGA AG- AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24845095 AGA AGA AGA A
1 AGA AGA AGA A
24845105 TGTGTTATTT
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 99 0.98
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:24846140 original size:23 final size:23
Alignment explanation
Indices: 24846114--24846158 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
24846104 TTTTTTAAAA
*
24846114 TTTAAAAAAATTAAAAATTATTT
1 TTTAAAAAAATTAAAAAATATTT
24846137 TTTAAAAAAATTAAAAAATATT
1 TTTAAAAAAATTAAAAAATATT
24846159 AAAAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTAAAAAAATTAAAAAATATTT
Found at i:24846182 original size:19 final size:19
Alignment explanation
Indices: 24846120--24846189 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
24846110 AAAATTTAAA
24846120 AAAAT-TAAAAATTATTTTTT
1 AAAATATAAAAA-TA-TTTTT
* * *
24846140 AAAAAAATTAAAAA-ATATTA
1 -AAAATA-TAAAAATATTTTT
24846160 AAAATATAAAAATATTTTT
1 AAAATATAAAAATATTTTT
*
24846179 AAAATTTAAAA
1 AAAATATAAAA
24846190 TTTTAATTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.15
19 19 0.49
20 3 0.08
21 5 0.13
23 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATATAAAAATATTTTT
Found at i:24846454 original size:2 final size:2
Alignment explanation
Indices: 24846447--24846479 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24846437 ACTATTAATT
24846447 TA TA 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 TA TA T
24846480 GAAATGAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24849482 original size:15 final size:15
Alignment explanation
Indices: 24849457--24849497 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
24849447 ACTGGACACC
24849457 AATTTTGACCAGGCTG
1 AATTTTGACCA-GCTG
*
24849473 -ATTTTAACCAGCTG
1 AATTTTGACCAGCTG
24849487 AATTTTGACCA
1 AATTTTGACCA
24849498 TAAGAGAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (15 bp):
AATTTTGACCAGCTG
Found at i:24858795 original size:18 final size:18
Alignment explanation
Indices: 24858723--24858792 Score: 86
Period size: 18 Copynumber: 3.9 Consensus size: 18
24858713 CATTTACGAC
*
24858723 ACTATTTACGTATACAAT
1 ACTATTCACGTATACAAT
*
24858741 ACTATTCACGTATATAAT
1 ACTATTCACGTATACAAT
* * *
24858759 ACTATTTACATATACAGT
1 ACTATTCACGTATACAAT
*
24858777 ACTGTTCACGTATACA
1 ACTATTCACGTATACA
24858793 GTAGTTGAGA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (18 bp):
ACTATTCACGTATACAAT
Found at i:24866403 original size:25 final size:26
Alignment explanation
Indices: 24866366--24866418 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
24866356 TCAAACATGC
24866366 ATTTAGGTCAATTTAATC-CTAGGGGT
1 ATTTAGGTCAATTT-ATCACTAGGGGT
*
24866392 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTATC-ACTAGGGGT
24866418 A
1 A
24866419 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTATCACTAGGGGT
Found at i:24867935 original size:26 final size:26
Alignment explanation
Indices: 24867904--24868011 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
24867894 TGAAATTCCC
*
24867904 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
24867930 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
24867956 ATCATGGAATATTTATCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
24867982 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24868008 ATCA
1 ATCA
24868012 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:24873577 original size:37 final size:37
Alignment explanation
Indices: 24873527--24873599 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
24873517 CCAAATTAGT
24873527 TGACTTCGACTCCGTAATGGATGAGGGACGTCCGATC
1 TGACTTCGACTCCGTAATGGATGAGGGACGTCCGATC
24873564 TGACTTCGACTCCGTAATGGATGAGGGACGTCCGAT
1 TGACTTCGACTCCGTAATGGATGAGGGACGTCCGAT
24873600 TTCACCGGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (37 bp):
TGACTTCGACTCCGTAATGGATGAGGGACGTCCGATC
Found at i:24877724 original size:2 final size:2
Alignment explanation
Indices: 24877713--24877766 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
24877703 TAATCTTATT
24877713 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24877754 TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA
24877767 AGACAATGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 48 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24880218 original size:43 final size:43
Alignment explanation
Indices: 24880157--24880242 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
24880147 TTGTAAGTTG
24880157 AACTTCATCAATTCTTAACTCCCCCATCAAGCATTCAGAATAT
1 AACTTCATCAATTCTTAACTCCCCCATCAAGCATTCAGAATAT
24880200 AACTTCATCAATTCTTAACTCCCCCATCAAGCATTCAGAATAT
1 AACTTCATCAATTCTTAACTCCCCCATCAAGCATTCAGAATAT
24880243 CTTACTTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (43 bp):
AACTTCATCAATTCTTAACTCCCCCATCAAGCATTCAGAATAT
Found at i:24884223 original size:21 final size:21
Alignment explanation
Indices: 24884184--24884232 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
24884174 ATTTATTGGA
24884184 TTTTT-ATTTTGTGATTTTTGT
1 TTTTTAATTTTGTGATTTTT-T
*
24884205 TTTTTAATTTT-TGTTTTTTT
1 TTTTTAATTTTGTGATTTTTT
24884225 TATTTTAA
1 T-TTTTAA
24884233 CGGGCCCGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 18 0.72
22 5 0.20
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (21 bp):
TTTTTAATTTTGTGATTTTTT
Found at i:24884230 original size:15 final size:14
Alignment explanation
Indices: 24884183--24884223 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
24884173 CATTTATTGG
* * *
24884183 ATTTTTATTTTGTG
1 ATTTTTGTTTTTTA
24884197 ATTTTTGTTTTTTA
1 ATTTTTGTTTTTTA
24884211 ATTTTTGTTTTTT
1 ATTTTTGTTTTTT
24884224 TTATTTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (14 bp):
ATTTTTGTTTTTTA
Found at i:24884678 original size:132 final size:133
Alignment explanation
Indices: 24884385--24884641 Score: 399
Period size: 133 Copynumber: 1.9 Consensus size: 133
24884375 TGGCTAAATT
* * *
24884385 CTGCTCCATTACTGATACATGGAGATAAGATTCGCCATCATTGATCTGCTCCACAACTGTTTAGG
1 CTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCATTGATCTGCTCCACAACTGCTTAGG
* ***
24884450 GAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAGTGGCTAA
66 GAGAAAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAAAAGCTAA
*
24884515 AAT
131 AAC
* * *
24884518 CTGCTCCATTGCCGATACATGGAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGG
1 CTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCATTGATCTGCTCCACAACTGCTTAGG
*
24884583 GA-AAAAGATCTTCAATCTTCAGTCTGCTTCCTTGTTACCTCAGGAAGATAAGACTAAAA
66 GAGAAAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAAAA
24884642 TCACCAACCT
Statistics
Matches: 113, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
132 52 0.46
133 61 0.54
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (133 bp):
CTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCATTGATCTGCTCCACAACTGCTTAGG
GAGAAAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAAAAGCTAA
AAC
Found at i:24885037 original size:177 final size:178
Alignment explanation
Indices: 24884481--24885034 Score: 836
Period size: 176 Copynumber: 3.1 Consensus size: 178
24884471 AGTCTGCTTC
*
24884481 CTTGCTACCTCAG-GAAGATAAGACTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATA
1 CTTGCTACCTCAGAG-AGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATA
*
24884545 AGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGA-AAAAGATCTTCAATCTTCAGTCTG
65 AGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTG
* *
24884609 CTTCCTTGTTACCTCAGGAAGATAAGACTA-AAATCACCAACCTGCTCT
130 CTTCCTTGTTACCTCAAGAAGATAAGACTACAAATCGCCAACCTGCTCT
*
24884657 CTTGCTACCTCAGAGAGATAAGG-TCAGTGGATAAAATCTGCTCCATTGCCTG-T-CATGGAGAT
1 CTTGCTACCTCAGAGAGATAAGGCT-AGTGGCTAAAATCTGCTCCATTGCC-GATACATGGAGAT
* ** *
24884719 AAGATTCGCCATCTTTGATCTGCTCTGCTACTGCTTAGGGAGATAAGATCTTCAATATTCAGTCT
64 AAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCT
* * *
24884784 GTTTCCTTGTTACCTCAAGAAGATAAGACTAC-AATCGTCAACCTGCTTT
129 GCTTCCTTGTTACCTCAAGAAGATAAGACTACAAATCGCCAACCTGCTCT
* *
24884833 CTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAACCTGCTCCATTGCCGATACATGGAGATAA
1 CTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAA
* * * *
24884898 GATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGCAATCCTCAGTCTGC
66 GATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGC
* *
24884963 TTCCTTGCTACCTTAAGAAGATAAGACTACAAAT-GCCAACCTGCTCT
131 TTCCTTGTTACCTCAAGAAGATAAGACTACAAATCGCCAACCTGCTCT
*
24885010 CTTGCTACCTCACAGAGATAAGGCT
1 CTTGCTACCTCAGAGAGATAAGGCT
24885035 GGTAATCTTC
Statistics
Matches: 340, Mismatches: 29, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
175 49 0.14
176 155 0.46
177 133 0.39
178 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (178 bp):
CTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAA
GATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGC
TTCCTTGTTACCTCAAGAAGATAAGACTACAAATCGCCAACCTGCTCT
Found at i:24885303 original size:64 final size:64
Alignment explanation
Indices: 24885145--24885394 Score: 359
Period size: 64 Copynumber: 4.0 Consensus size: 64
24885135 TTCTGTATTT
* * * *
24885145 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAACTGAATTAAATGCTCCT-A-T-GA---G
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
24885203 ATGCTCATGTCAAACAATTAGGATGCTATGATCAAAATGAATCAAATGTTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
24885267 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * * *
24885331 ATGCTTATGTCAAATAATTAGGATTCTATAATCGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
24885395 TTATGAATGA
Statistics
Matches: 172, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
58 46 0.27
59 1 0.01
60 1 0.01
61 2 0.01
64 122 0.71
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:24886511 original size:14 final size:13
Alignment explanation
Indices: 24886481--24886527 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
24886471 TTCTTTCTTC
*
24886481 TTTTTTTTTTTGA
1 TTTTTTTTTTTAA
*
24886494 TTTTTTTTTTAAA
1 TTTTTTTTTTTAA
* *
24886507 TTTTTCTTTTT-C
1 TTTTTTTTTTTAA
24886519 TTTTTTTTT
1 TTTTTTTTT
24886528 GATTTTGATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 8 0.29
13 20 0.71
ACGTcount: A:0.09, C:0.04, G:0.02, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTTAA
Found at i:24886539 original size:23 final size:24
Alignment explanation
Indices: 24886495--24886540 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
24886485 TTTTTTTGAT
**
24886495 TTTTTTTTTAAATTTTTCTTTTTC
1 TTTTTTTTTAAATTTTGATTTTTC
*
24886519 TTTTTTTTT-GATTTTGATTTTT
1 TTTTTTTTTAAATTTTGATTTTT
24886541 ATTTCAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.80
Consensus pattern (24 bp):
TTTTTTTTTAAATTTTGATTTTTC
Found at i:24886540 original size:41 final size:39
Alignment explanation
Indices: 24886474--24886564 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 39
24886464 TTTTCTTTTC
* *
24886474 TTTCTTCTTTTTTTTTTTGATTTTTTTTTTAAATTTTTCTT
1 TTTCTT-TTTTTTTTTTTGATTTTTTATTTAAA-TCTTCTT
*
24886515 TTTCTTTTTTTTTGATTTTGA-TTTTTATTTCAATCTTCTT
1 TTTCTTTTTTTTT--TTTTGATTTTTTATTTAAATCTTCTT
24886555 TTT-TTTTTTT
1 TTTCTTTTTTT
24886565 AAGGTCTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
39 7 0.16
40 16 0.36
41 16 0.36
42 6 0.13
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (39 bp):
TTTCTTTTTTTTTTTTTGATTTTTTATTTAAATCTTCTT
Found at i:24892247 original size:8 final size:8
Alignment explanation
Indices: 24892234--24892258 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24892224 TTACAAAAAT
24892234 AAAAATAA
1 AAAAATAA
24892242 AAAAATAA
1 AAAAATAA
24892250 AAAAATAA
1 AAAAATAA
24892258 A
1 A
24892259 CATAATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:24893646 original size:14 final size:14
Alignment explanation
Indices: 24893627--24893675 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
24893617 CATTTATTAC
*
24893627 ATTTTTATTTTGTG
1 ATTTTTATTTTTTG
* *
24893641 ATTTTTGTTTTTTA
1 ATTTTTATTTTTTG
24893655 ATTTTTGGATTTTTTG
1 ATTTTT--ATTTTTTG
24893671 ATTTT
1 ATTTT
24893676 AACGGGCCCG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 17 0.61
16 11 0.39
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.73
Consensus pattern (14 bp):
ATTTTTATTTTTTG
Found at i:24893658 original size:22 final size:21
Alignment explanation
Indices: 24893628--24893668 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
24893618 ATTTATTACA
24893628 TTTTTA-TTTTGTGATTTTTGT
1 TTTTTATTTTTG-GATTTTTGT
24893649 TTTTTAATTTTTGGATTTTT
1 TTTTT-ATTTTTGGATTTTT
24893669 TGATTTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (21 bp):
TTTTTATTTTTGGATTTTTGT
Found at i:24896425 original size:14 final size:14
Alignment explanation
Indices: 24896391--24896427 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
24896381 GATTATCTTC
24896391 TCATTTTTTTTAAA
1 TCATTTTTTTTAAA
*
24896405 TCCTTTTTTTTAAA
1 TCATTTTTTTTAAA
*
24896419 TTATTTTTT
1 TCATTTTTT
24896428 CAACAACCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (14 bp):
TCATTTTTTTTAAA
Found at i:24913877 original size:24 final size:24
Alignment explanation
Indices: 24913834--24913880 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
24913824 CCAATTAACT
*
24913834 TAGTTGTAGACATAATAGTAGATC
1 TAGTTGTAGACATAACAGTAGATC
* *
24913858 TAGTTGTAGACGTAGCAGTAGAT
1 TAGTTGTAGACATAACAGTAGAT
24913881 GTAGAAGTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.32
Consensus pattern (24 bp):
TAGTTGTAGACATAACAGTAGATC
Found at i:24916567 original size:27 final size:27
Alignment explanation
Indices: 24916527--24916627 Score: 80
Period size: 27 Copynumber: 3.6 Consensus size: 27
24916517 TCAAGCAAAA
*
24916527 TTCTTAACTCATAATCAAAATAAATTC
1 TTCTCAACTCATAATCAAAATAAATTC
* * *
24916554 TTCTCAACTTATAATTCTATCAATAAAATC
1 TTCTCAACTCATAA-TC-A-AAATAAATTC
24916584 -TCAAAAT-AACTCATAATCAAAATAAATTC
1 TTC----TCAACTCATAATCAAAATAAATTC
*
24916613 TTCTCAACTTATAAT
1 TTCTCAACTCATAAT
24916628 TCTATCAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
26 1 0.02
27 21 0.37
28 2 0.04
29 11 0.19
30 11 0.19
31 2 0.04
32 8 0.14
33 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.37
Consensus pattern (27 bp):
TTCTCAACTCATAATCAAAATAAATTC
Found at i:24916595 original size:59 final size:59
Alignment explanation
Indices: 24916531--24916657 Score: 245
Period size: 59 Copynumber: 2.2 Consensus size: 59
24916521 GCAAAATTCT
24916531 TAACTCATAATCAAAATAAATTCTTCTCAACTTATAATTCTATCAATAAAATCTCAAAA
1 TAACTCATAATCAAAATAAATTCTTCTCAACTTATAATTCTATCAATAAAATCTCAAAA
24916590 TAACTCATAATCAAAATAAATTCTTCTCAACTTATAATTCTATCAATAAAATCTCAAAA
1 TAACTCATAATCAAAATAAATTCTTCTCAACTTATAATTCTATCAATAAAATCTCAAAA
*
24916649 TAATTCATA
1 TAACTCATA
24916658 GGTAATCATA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (59 bp):
TAACTCATAATCAAAATAAATTCTTCTCAACTTATAATTCTATCAATAAAATCTCAAAA
Found at i:24916600 original size:32 final size:32
Alignment explanation
Indices: 24916559--24916657 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 32
24916549 AATTCTTCTC
*
24916559 AACTTATAATTCTATCAATAAAATCTCAAAAT
1 AACTCATAATTCTATCAATAAAATCTCAAAAT
* *
24916591 AACTCATAA-TC-A-AAATAAATTCTTC----T
1 AACTCATAATTCTATCAATAAAATC-TCAAAAT
*
24916617 CAACTTATAATTCTATCAATAAAATCTCAAAAT
1 -AACTCATAATTCTATCAATAAAATCTCAAAAT
*
24916650 AATTCATA
1 AACTCATA
24916658 GGTAATCATA
Statistics
Matches: 50, Mismatches: 8, Indels: 18
0.66 0.11 0.24
Matches are distributed among these distances:
26 1 0.02
27 8 0.16
28 2 0.04
29 11 0.22
30 11 0.22
31 2 0.04
32 14 0.28
33 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.34
Consensus pattern (32 bp):
AACTCATAATTCTATCAATAAAATCTCAAAAT
Found at i:24927542 original size:22 final size:23
Alignment explanation
Indices: 24927517--24927568 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
24927507 TTTAACAAGA
* * *
24927517 AATTTATTATTTCA-AATATTTT
1 AATTTATTATTTAATAAGAATTT
*
24927539 AATTTAATATTTAATAAGAATTT
1 AATTTATTATTTAATAAGAATTT
24927562 AATTTAT
1 AATTTAT
24927569 AAAATTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
AATTTATTATTTAATAAGAATTT
Found at i:24940412 original size:13 final size:13
Alignment explanation
Indices: 24940394--24940420 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24940384 TGTGTGGGTG
24940394 CACACGGCCGTGT
1 CACACGGCCGTGT
24940407 CACACGGCCGTGT
1 CACACGGCCGTGT
24940420 C
1 C
24940421 TTTCTTCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.41, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACGGCCGTGT
Found at i:24948424 original size:43 final size:43
Alignment explanation
Indices: 24948335--24948490 Score: 165
Period size: 43 Copynumber: 3.6 Consensus size: 43
24948325 TTCGGGCCTC
* * *
24948335 GGCCTAGCAAGCTTTAA-GCTGGTG-AATAATATTATCGAGCTTCG
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATTA--G-GCTTCG
* * *
24948379 GGCCTAGCAGGCTATAATACCGGTGAGATAATATTGGGCTTCG
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATTAGGCTTCG
* * *
24948422 GGCCTAGCAGGCTATAATGCCGATGAAATGATATTAGGCTTCA
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATTAGGCTTCG
* *
24948465 AGCCTAGCAGGCGA-AATGCCGGTGAA
1 GGCCTAGCAGGCTATAATGCCGGTGAA
24948491 TGAGTTCAGA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 11 0.12
43 55 0.58
44 16 0.17
45 5 0.05
46 8 0.08
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (43 bp):
GGCCTAGCAGGCTATAATGCCGGTGAAATAATATTAGGCTTCG
Found at i:24948571 original size:40 final size:41
Alignment explanation
Indices: 24948423--24948570 Score: 147
Period size: 40 Copynumber: 3.6 Consensus size: 41
24948413 TGGGCTTCGG
* *
24948423 GCCTAGCAGGCTATAATGCCGATGAAATGATATT-AGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGA-ATTCAGGCTTAAA
* * *
24948466 GCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCAGGCTTAAA
* *** * *
24948507 GTCTAGCAGGCTTTGTGTCGGTG-ATGAATTCAGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCAGGCTTAAA
*
24948547 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
24948571 TTTGATAAAA
Statistics
Matches: 83, Mismatches: 20, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 33 0.40
41 29 0.35
42 9 0.11
43 12 0.14
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCAGGCTTAAA
Found at i:24953105 original size:39 final size:39
Alignment explanation
Indices: 24953060--24953141 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
24953050 ATGCAAGACA
*
24953060 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCATG
*
24953099 CTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCATG
24953138 CTGG
1 CTGG
24953142 TGCTGGTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCATG
Found at i:24958961 original size:43 final size:43
Alignment explanation
Indices: 24958899--24959023 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 43
24958889 TATTATTGGT
* * * * * * *
24958899 CTTCGGGCCTAGCAAGCTATTATGCTGGTGAGATAATATCGGG
1 CTTCAGGCCTAGCAGGCTATAATGCCGATGAAATAATATCAGG
*
24958942 CTTCAGGCCTAGCAGGCTATAATGCCGATGAAATGATATCAGG
1 CTTCAGGCCTAGCAGGCTATAATGCCGATGAAATAATATCAGG
* * * *
24958985 CTTCAAGCCTAGCAGGCGA-AATGCCGGTG-AATGATATCA
1 CTTCAGGCCTAGCAGGCTATAATGCCGATGAAATAATATCA
24959024 TGAATGTGAA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 10 0.14
42 9 0.13
43 52 0.73
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (43 bp):
CTTCAGGCCTAGCAGGCTATAATGCCGATGAAATAATATCAGG
Found at i:24961859 original size:93 final size:93
Alignment explanation
Indices: 24961747--24961918 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
24961737 GCCCATAAGT
* *
24961747 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24961812 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
24961840 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24961905 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
24961919 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24961914 original size:46 final size:46
Alignment explanation
Indices: 24961739--24961914 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
24961729 TGTAACCCGC
* * *
24961739 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
24961785 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
24961835 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
24961878 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24961915 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:24964334 original size:29 final size:29
Alignment explanation
Indices: 24964295--24964382 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
24964285 CAAAGATAAC
*
24964295 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
24964324 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
24964353 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
24964383 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:24964353 original size:15 final size:15
Alignment explanation
Indices: 24964295--24964373 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
24964285 CAAAGATAAC
*
24964295 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
24964309 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
24964324 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
24964338 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
24964353 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
24964368 AAGAAA
1 AAGAAA
24964374 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:24964382 original size:15 final size:15
Alignment explanation
Indices: 24964306--24964382 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
24964296 AGAAAACCGA
24964306 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
24964321 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
24964335 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
24964349 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
24964365 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
24964380 ATA
1 ATA
24964383 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:24967442 original size:93 final size:93
Alignment explanation
Indices: 24967330--24967501 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
24967320 GCCCATAAGT
* *
24967330 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24967395 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
24967423 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24967488 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
24967502 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24967497 original size:46 final size:46
Alignment explanation
Indices: 24967322--24967497 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
24967312 TGTAACCCGC
* * *
24967322 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
24967368 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
24967418 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
24967461 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24967498 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:24974288 original size:123 final size:123
Alignment explanation
Indices: 24974063--24974304 Score: 412
Period size: 123 Copynumber: 2.0 Consensus size: 123
24974053 ATTTCTGACA
24974063 GTTCTTGTAAGTCCTGTACAGGTAGTCCCTAAGAAAGGAGGCATGACTGTTGTGGCTAATGAGAA
1 GTTCTTGTAAGTCCTGTACAGGTAGTCCCTAAGAAAGGAGGCATGACTGTTGTGGCTAATGAGAA
* *
24974128 GAATGAATTGATTCCAACATGTAAAATCACGGGATGGAGAGTTTGCATCAACTAGACT
66 GAATGAATTGATTCCAACATGCAAAATCACGGAATGGAGAGTTTGCATCAACTAGACT
* *
24974186 GTTCTTGTGAGTCCTGTACAGGTTGTCCCTAAGAAAGGAGGCATGACTGTTGTGGCTAATGAGAA
1 GTTCTTGTAAGTCCTGTACAGGTAGTCCCTAAGAAAGGAGGCATGACTGTTGTGGCTAATGAGAA
* * **
24974251 GAATGAATTGATTCCACCATGCACAATCATTGAATGGAGAGTTTGCATCAACTA
66 GAATGAATTGATTCCAACATGCAAAATCACGGAATGGAGAGTTTGCATCAACTA
24974305 TAGGAAGTTG
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 111 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (123 bp):
GTTCTTGTAAGTCCTGTACAGGTAGTCCCTAAGAAAGGAGGCATGACTGTTGTGGCTAATGAGAA
GAATGAATTGATTCCAACATGCAAAATCACGGAATGGAGAGTTTGCATCAACTAGACT
Found at i:24977767 original size:13 final size:13
Alignment explanation
Indices: 24977749--24977774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24977739 TAAGAGGGTT
24977749 TTGTTTTAACTAA
1 TTGTTTTAACTAA
24977762 TTGTTTTAACTAA
1 TTGTTTTAACTAA
24977775 CTAATTAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
TTGTTTTAACTAA
Found at i:24995205 original size:71 final size:71
Alignment explanation
Indices: 24995121--24995284 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
24995111 CGATTTGTCT
24995121 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
24995186 CTTTCA
66 CTTTCA
24995192 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
24995257 CTTTCA
66 CTTTCA
24995263 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
24995285 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:24995322 original size:71 final size:70
Alignment explanation
Indices: 24995121--24995318 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
24995111 CGATTTGTCT
* * * *
24995121 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
24995186 CTTTCA
65 CTTTCA
* * * *
24995192 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
24995257 CTTTCA
65 CTTTCA
* *
24995263 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
24995319 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:24997732 original size:139 final size:139
Alignment explanation
Indices: 24997482--24997763 Score: 564
Period size: 139 Copynumber: 2.0 Consensus size: 139
24997472 CAATTTGTTG
24997482 GGTAGCTTATTCTGTAATATGGCTGAGCAAAACTGCATTCAACTCCGCATGCGACTCTTCGTCCA
1 GGTAGCTTATTCTGTAATATGGCTGAGCAAAACTGCATTCAACTCCGCATGCGACTCTTCGTCCA
24997547 ACTTTCATTTATTTGTCAAAAGCTCCTTTAAAAACCTGACTGCATTTGGCATCTGCGAAAGAGCT
66 ACTTTCATTTATTTGTCAAAAGCTCCTTTAAAAACCTGACTGCATTTGGCATCTGCGAAAGAGCT
24997612 TCAATAAAT
131 TCAATAAAT
24997621 GGTAGCTTATTCTGTAATATGGCTGAGCAAAACTGCATTCAACTCCGCATGCGACTCTTCGTCCA
1 GGTAGCTTATTCTGTAATATGGCTGAGCAAAACTGCATTCAACTCCGCATGCGACTCTTCGTCCA
24997686 ACTTTCATTTATTTGTCAAAAGCTCCTTTAAAAACCTGACTGCATTTGGCATCTGCGAAAGAGCT
66 ACTTTCATTTATTTGTCAAAAGCTCCTTTAAAAACCTGACTGCATTTGGCATCTGCGAAAGAGCT
24997751 TCAATAAAT
131 TCAATAAAT
24997760 GGTA
1 GGTA
24997764 AGTTAATATG
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 143 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (139 bp):
GGTAGCTTATTCTGTAATATGGCTGAGCAAAACTGCATTCAACTCCGCATGCGACTCTTCGTCCA
ACTTTCATTTATTTGTCAAAAGCTCCTTTAAAAACCTGACTGCATTTGGCATCTGCGAAAGAGCT
TCAATAAAT
Found at i:25001135 original size:18 final size:18
Alignment explanation
Indices: 25001112--25001206 Score: 78
Period size: 17 Copynumber: 5.7 Consensus size: 18
25001102 CTTACTAGAA
25001112 GAGCTCACCAAAATGTGC
1 GAGCTCACCAAAATGTGC
25001130 GAGCTCACC-AAATGTGC
1 GAGCTCACCAAAATGTGC
* * * *
25001147 AAACTCACCAAACT-TGA
1 GAGCTCACCAAAATGTGC
* *
25001164 GAGCTCACTAGAA-----
1 GAGCTCACCAAAATGTGC
25001177 GAGCTCACCAAAATGTGC
1 GAGCTCACCAAAATGTGC
*
25001195 GAGCTTACCAAA
1 GAGCTCACCAAA
25001207 TGTTGCCAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
13 11 0.19
17 25 0.42
18 23 0.39
ACGTcount: A:0.37, C:0.27, G:0.19, T:0.17
Consensus pattern (18 bp):
GAGCTCACCAAAATGTGC
Found at i:25001178 original size:65 final size:65
Alignment explanation
Indices: 25001099--25001227 Score: 206
Period size: 65 Copynumber: 2.0 Consensus size: 65
25001089 TGCAAACTAC
*
25001099 GAGCTTACTAGAAGAGCTCACCAAAATGTGCGAGCTCACCAAATG-TGCAAACTCACCAAACTTG
1 GAGCTCACTAGAAGAGCTCACCAAAATGTGCGAGCTCACCAAATGTTGCAAACTCACC-AACTTG
25001163 A
65 A
* * *
25001164 GAGCTCACTAGAAGAGCTCACCAAAATGTGCGAGCTTACCAAATGTTGCCAACTTACCAACTTG
1 GAGCTCACTAGAAGAGCTCACCAAAATGTGCGAGCTCACCAAATGTTGCAAACTCACCAACTTG
25001228 CATTGGAGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 49 0.83
66 10 0.17
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (65 bp):
GAGCTCACTAGAAGAGCTCACCAAAATGTGCGAGCTCACCAAATGTTGCAAACTCACCAACTTGA
Found at i:25008338 original size:17 final size:17
Alignment explanation
Indices: 25008300--25008338 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
25008290 TTTATTAAGG
25008300 TTTTT-AAGATTCATTT
1 TTTTTCAAGATTCATTT
*
25008316 GTTTTCAAGATTCATTT
1 TTTTTCAAGATTCATTT
25008333 TTTTTC
1 TTTTTC
25008339 CTTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.62
Consensus pattern (17 bp):
TTTTTCAAGATTCATTT
Found at i:25016657 original size:12 final size:12
Alignment explanation
Indices: 25016640--25016664 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25016630 ATAAAGAGAG
25016640 TTTGTATTGTAT
1 TTTGTATTGTAT
25016652 TTTGTATTGTAT
1 TTTGTATTGTAT
25016664 T
1 T
25016665 GGATTTATTT
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:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (12 bp):
TTTGTATTGTAT
Found at i:25020448 original size:3 final size:3
Alignment explanation
Indices: 25020440--25020471 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
25020430 GGAAAATTAA
25020440 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
25020472 AAAATAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:25022376 original size:46 final size:47
Alignment explanation
Indices: 25022324--25022538 Score: 222
Period size: 46 Copynumber: 4.6 Consensus size: 47
25022314 GACAAGGGCT
* **
25022324 AGTGTAAGACATGTCTGGGACATAAATCAGCCT-CGAGGCGTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCTACGAGGCGTAAGCC
* * * * * *
25022370 AGTGTAAAACATGTTTGGGACATGCATC-GGCTACAAGGTGTTAGTC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCTACGAGGCGTAAGCC
* *
25022416 AGTGTAAGACCATGTTTGGGACATGTATCGGCCT-CGAGGCGTAAGCC
1 AGTGTAAGA-CATGTTTGGGACATGCATCAGCCTACGAGGCGTAAGCC
* * * * * *
25022463 AATGTAAGACATGTCTGGGACATGCATCAG-CTATGAGGTGTTAGTC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCTACGAGGCGTAAGCC
25022509 AGTGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATC
25022539 GGCTTGAGCT
Statistics
Matches: 137, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
45 5 0.04
46 76 0.55
47 48 0.35
48 8 0.06
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTTTGGGACATGCATCAGCCTACGAGGCGTAAGCC
Found at i:25022438 original size:47 final size:46
Alignment explanation
Indices: 25022324--25022586 Score: 244
Period size: 47 Copynumber: 5.7 Consensus size: 46
25022314 GACAAGGGCT
* ** * * *
25022324 AGTGTAAGA-CATGTCTGGGACATAAATCAGCCTCGAGGCGTAAGCC
1 AGTGTAAGACCATGTTTGGGACATGCATC-GGCTCGAGGTGTTAGCC
* * *
25022370 AGTGTAA-AACATGTTTGGGACATGCATCGGCTACAAGGTGTTAGTC
1 AGTGTAAGACCATGTTTGGGACATGCATCGGCT-CGAGGTGTTAGCC
* * *
25022416 AGTGTAAGACCATGTTTGGGACATGTATCGGCCTCGAGGCGTAAGCC
1 AGTGTAAGACCATGTTTGGGACATGCATCGG-CTCGAGGTGTTAGCC
* * * * *
25022463 AATGTAAGA-CATGTCTGGGACATGCATCAGCTATGAGGTGTTAGTC
1 AGTGTAAGACCATGTTTGGGACATGCATCGGCT-CGAGGTGTTAGCC
* * * *
25022509 AGTGTAAGACCATGTTTGGGACATGGCATCGGCTTGAGCTATGAGCC
1 AGTGTAAGACCATGTTTGGGACAT-GCATCGGCTCGAGGTGTTAGCC
* *
25022556 AGTATAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTTTGGGACAT-GCATCG
25022587 ACACTTAACC
Statistics
Matches: 179, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
45 6 0.03
46 74 0.41
47 89 0.50
48 10 0.06
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTTTGGGACATGCATCGGCTCGAGGTGTTAGCC
Found at i:25022556 original size:93 final size:93
Alignment explanation
Indices: 25022324--25022585 Score: 334
Period size: 93 Copynumber: 2.8 Consensus size: 93
25022314 GACAAGGGCT
* ** * * *
25022324 AGTGTAAGA-CATGTCTGGGACATAAATCAGCCTCGAGGCGTAAGCCAGTGTAAAACATGTTTGG
1 AGTGTAAGACCATGTTTGGGACATGCATCGGCCTCGAGGCGTAAGCCAGTGTAAGACATGTCTGG
*
25022388 GACATGCATCGGCTACAAGGTGTTAGTC
66 GACATGCATCAGCTACAAGGTGTTAGTC
* *
25022416 AGTGTAAGACCATGTTTGGGACATGTATCGGCCTCGAGGCGTAAGCCAATGTAAGACATGTCTGG
1 AGTGTAAGACCATGTTTGGGACATGCATCGGCCTCGAGGCGTAAGCCAGTGTAAGACATGTCTGG
**
25022481 GACATGCATCAGCTATGAGGTGTTAGTC
66 GACATGCATCAGCTACAAGGTGTTAGTC
* *
25022509 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CTTGA-GC-TATGAGCCAGTATAAGACCATGT
1 AGTGTAAGACCATGTTTGGGACAT-GCATCGGCCTCGAGGCGTA--AGCCAGTGTAAGA-CATGT
25022571 CTGGGACATGGCATC
62 CTGGGACAT-GCATC
25022586 GACACTTAAC
Statistics
Matches: 150, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
91 2 0.01
92 11 0.07
93 112 0.75
94 20 0.13
95 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (93 bp):
AGTGTAAGACCATGTTTGGGACATGCATCGGCCTCGAGGCGTAAGCCAGTGTAAGACATGTCTGG
GACATGCATCAGCTACAAGGTGTTAGTC
Found at i:25024137 original size:61 final size:61
Alignment explanation
Indices: 25024058--25024189 Score: 185
Period size: 61 Copynumber: 2.2 Consensus size: 61
25024048 TAGTTGCAAG
** * * * *
25024058 GAAAT-GAAGCTATGGAAAAAGAAGTCAGAGGTGGTAGGAATTTAGAGTAACCCACCGCCA
1 GAAATAGAAGCTACAGAAAAAGAAGTCAGAGGCGGTAGGAACTCAAAGTAACCCACCGCCA
* *
25024118 GAAATAGAAGCTACAGAAAAAGCAGTCAGTGGCGGTAGGAACTCAAAGTAACCCACCGCCA
1 GAAATAGAAGCTACAGAAAAAGAAGTCAGAGGCGGTAGGAACTCAAAGTAACCCACCGCCA
25024179 GAAATAGAAGC
1 GAAATAGAAGC
25024190 AGGAGACGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 5 0.08
61 58 0.92
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.14
Consensus pattern (61 bp):
GAAATAGAAGCTACAGAAAAAGAAGTCAGAGGCGGTAGGAACTCAAAGTAACCCACCGCCA
Found at i:25030158 original size:43 final size:43
Alignment explanation
Indices: 25030108--25030193 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
25030098 TCATATTTCA
*
25030108 TTTCTCATCTCATAATCATTTCCCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATAT
* * *
25030151 TTTCTCATCTCATACTCATTTCTCATCTTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATAT
25030194 CAATTACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.27, G:0.01, T:0.49
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATAT
Found at i:25031313 original size:9 final size:9
Alignment explanation
Indices: 25031296--25031338 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
25031286 TTCTTCCTTA
*
25031296 TTTTCTTCT
1 TTTTTTTCT
25031305 TTTTTTTCT
1 TTTTTTTCT
25031314 TTTTCTTTCT
1 TTTT-TTTCT
25031324 TTTATTTTCT
1 TTT-TTTTCT
25031334 ATTTT
1 -TTTT
25031339 ATTTGTATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 12 0.40
10 14 0.47
11 4 0.13
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:25032493 original size:4 final size:4
Alignment explanation
Indices: 25032484--25032536 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
25032474 CAACCCAATT
*
25032484 TTTA TTTA TTTA TTTA -TT- TTTA TTTTC TTTA TTT- TATTA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA T-TTA TTTA TTTA
25032530 TTTA TTT
1 TTTA TTT
25032537 TTATTACTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
3 8 0.20
4 29 0.71
5 4 0.10
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:25032514 original size:23 final size:24
Alignment explanation
Indices: 25032483--25032536 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
25032473 GCAACCCAAT
25032483 TTTTATTTA-TTTATTTATTT-TTA
1 TTTTATTTATTTTA-TTATTTATTA
*
25032506 TTTTCTTTATTTTATTATTTATTA
1 TTTTATTTATTTTATTATTTATTA
25032530 -TTTATTT
1 TTTTATTT
25032537 TTATTACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTATTTATTTTATTATTTATTA
Found at i:25032516 original size:27 final size:28
Alignment explanation
Indices: 25032484--25032537 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
25032474 CAACCCAATT
25032484 TTTA-TTTATTTATTTATT-TTTATTTTC
1 TTTATTTTA-TTATTTATTATTTATTTTC
25032511 TTTATTTTATTATTTATTATTTATTTT
1 TTTATTTTATTATTTATTATTTATTTT
25032538 TATTACTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (28 bp):
TTTATTTTATTATTTATTATTTATTTTC
Found at i:25032558 original size:31 final size:28
Alignment explanation
Indices: 25032484--25032562 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
25032474 CAACCCAATT
25032484 TTTA-TTTATTTATTTATT-TTTATTTTC
1 TTTATTTTATTT-TTTATTATTTATTTTC
*
25032511 TTTATTTTATTATTTATTATTTATTTT-
1 TTTATTTTATTTTTTATTATTTATTTTC
25032538 TATTACTTTTTACTTTTTTATTATT
1 T-TTA--TTTTA-TTTTTTATTATT
25032563 ACTTTCATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 11 0.25
28 17 0.39
30 5 0.11
31 11 0.25
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTATTTTATTTTTTATTATTTATTTTC
Found at i:25032562 original size:34 final size:33
Alignment explanation
Indices: 25032482--25032563 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 33
25032472 GGCAACCCAA
25032482 TTTTTATTTATTTATTTATTTTTATTTTCTTTAT
1 TTTTTATTTA-TTATTTATTTTTATTTTCTTTAT
25032516 TTTATTATTTATTATTTATTTTTATTACTT-TTTACT
1 TTT-TTATTTATTATTTATTTTTATT--TTCTTTA-T
25032552 TTTTTA-TTATTA
1 TTTTTATTTATTA
25032564 CTTTCATGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
34 24 0.55
35 14 0.32
36 6 0.14
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.76
Consensus pattern (33 bp):
TTTTTATTTATTATTTATTTTTATTTTCTTTAT
Found at i:25035747 original size:26 final size:27
Alignment explanation
Indices: 25035696--25035748 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
25035686 AAAGATAAAT
* *
25035696 ATTATTATAATAATTAAATATCATTTA
1 ATTATCATAATAAATAAATATCATTTA
*
25035723 ATTATCATAA-AAATAAATATTATTTA
1 ATTATCATAATAAATAAATATCATTTA
25035749 TTTTAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
ATTATCATAATAAATAAATATCATTTA
Found at i:25035749 original size:22 final size:22
Alignment explanation
Indices: 25035676--25035749 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
25035666 TTATTTTTAA
* *
25035676 TATTTTTCATAAAGATAAATAT
1 TATTTATCATAAAAATAAATAT
* *
25035698 TA-TTATAATAATTAAATATCAT-T
1 TATTTATCATAA--AAATA-AATAT
*
25035721 TAATTATCATAAAAATAAATAT
1 TATTTATCATAAAAATAAATAT
25035743 TATTTAT
1 TATTTAT
25035750 TTTAATATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
21 9 0.22
22 14 0.35
23 7 0.17
24 10 0.25
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (22 bp):
TATTTATCATAAAAATAAATAT
Found at i:25035756 original size:49 final size:44
Alignment explanation
Indices: 25035680--25035785 Score: 115
Period size: 49 Copynumber: 2.3 Consensus size: 44
25035670 TTTTAATATT
*
25035680 TTTCATAAAGATAAATATTATTATAATAATTAAATATCATTTA-A
1 TTTCATAAAAATAAATATTATTATAATAATTAAAT-TCATTTACA
* *
25035724 TTATCATAAAAATAAATATTATTTATTTTAATATTTAAATTTATTTATCA
1 TT-TCATAAAAATAAATATTA-TTA---TAATAATTAAATTCATTTA-CA
25035774 TTTCATAAAAAT
1 TTTCATAAAAAT
25035786 TCATAACACA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
44 2 0.04
45 17 0.33
46 3 0.06
48 6 0.12
49 21 0.40
50 3 0.06
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (44 bp):
TTTCATAAAAATAAATATTATTATAATAATTAAATTCATTTACA
Found at i:25040334 original size:26 final size:26
Alignment explanation
Indices: 25040305--25040357 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
25040295 TTCATTGGTC
25040305 ATTGTAGAACCTTCCAGAATATAAAG
1 ATTGTAGAACCTTCCAGAATATAAAG
25040331 ATTGTAGAACCTTCCAGAATATAAAG
1 ATTGTAGAACCTTCCAGAATATAAAG
25040357 A
1 A
25040358 CTGTCGATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (26 bp):
ATTGTAGAACCTTCCAGAATATAAAG
Found at i:25043449 original size:21 final size:21
Alignment explanation
Indices: 25043425--25043468 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
25043415 AGTCAATTCT
*
25043425 AGGACTCACGTAGTATATGTG
1 AGGACTAACGTAGTATATGTG
25043446 AGGACTAACGTAGTATATGTG
1 AGGACTAACGTAGTATATGTG
25043467 AG
1 AG
25043469 TTTAGCTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (21 bp):
AGGACTAACGTAGTATATGTG
Found at i:25053076 original size:43 final size:42
Alignment explanation
Indices: 25052953--25053076 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 42
25052943 GGTTGTTACA
* *
25052953 AGCATCGTATTTGATTTACGTGTAAGACCACGTATGGGAC-GT
1 AGCATCGTATTTGA-TTACGTGTAAGACCATGTCTGGGACAGT
* * * * *
25052995 CGCATCGTATTTGATT-CGTGTAATACCCTATCTAGGACAGT
1 AGCATCGTATTTGATTACGTGTAAGACCATGTCTGGGACAGT
*
25053036 AGCATCGATATTTGATTACATGTAAGACCATGTCTGGGACA
1 AGCATCG-TATTTGATTACGTGTAAGACCATGTCTGGGACA
25053077 TTGGCATTGT
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
40 16 0.24
41 10 0.15
42 22 0.33
43 18 0.27
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (42 bp):
AGCATCGTATTTGATTACGTGTAAGACCATGTCTGGGACAGT
Found at i:25061005 original size:12 final size:12
Alignment explanation
Indices: 25060990--25061021 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
25060980 TTAGATTATA
25060990 TTAAAAAAATAT
1 TTAAAAAAATAT
25061002 TTAAAAAAATAT
1 TTAAAAAAATAT
*
25061014 ATAAAAAA
1 TTAAAAAA
25061022 GCGTACCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAAAAAAATAT
Found at i:25061495 original size:12 final size:12
Alignment explanation
Indices: 25061480--25061527 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
25061470 TATTTCTCTC
25061480 TTTATATTTATG
1 TTTATATTTATG
25061492 TTTATATTTTATG
1 TTTATA-TTTATG
** *
25061505 TATTATACCTATC
1 T-TTATATTTATG
25061518 TTTATATTTA
1 TTTATATTTA
25061528 CGCATGAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:25061607 original size:35 final size:34
Alignment explanation
Indices: 25061567--25061634 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
25061557 ATTTTTTTAT
** *
25061567 TATCTTCATTGGCATTTTTACTTATTATCATTTTG
1 TATCTTCATTAACATTATTAC-TATTATCATTTTG
* *
25061602 TATCTTTATTAACATTATTACTATTATTATTTT
1 TATCTTCATTAACATTATTACTATTATCATTTT
25061635 ACTATCATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 11 0.39
35 17 0.61
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.59
Consensus pattern (34 bp):
TATCTTCATTAACATTATTACTATTATCATTTTG
Found at i:25061721 original size:22 final size:22
Alignment explanation
Indices: 25061694--25061735 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25061684 TAACGTGCTA
*
25061694 TTATTACAATTATTTTTATTTT
1 TTATTACAATTATTGTTATTTT
*
25061716 TTATTACCATTATTGTTATT
1 TTATTACAATTATTGTTATT
25061736 GTACTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATTACAATTATTGTTATTTT
Found at i:25076516 original size:38 final size:38
Alignment explanation
Indices: 25076465--25076541 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
25076455 CCTTACTGAA
*
25076465 ACTATGACTATCACACCTCCTCTTGGGCGGTCGACCCG
1 ACTATGACTATCACACCTCCTCTTGGGCGATCGACCCG
25076503 ACTATGACTATCACACCTCCTCTTGGGCGATCGACCCG
1 ACTATGACTATCACACCTCCTCTTGGGCGATCGACCCG
25076541 A
1 A
25076542 TGTACCATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (38 bp):
ACTATGACTATCACACCTCCTCTTGGGCGATCGACCCG
Found at i:25084936 original size:14 final size:14
Alignment explanation
Indices: 25084917--25084946 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25084907 TACCATCTCC
25084917 TCTATTCTTCTTTT
1 TCTATTCTTCTTTT
*
25084931 TCTATTTTTCTTTT
1 TCTATTCTTCTTTT
25084945 TC
1 TC
25084947 AAAACCATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (14 bp):
TCTATTCTTCTTTT
Found at i:25109869 original size:46 final size:48
Alignment explanation
Indices: 25109796--25109898 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
25109786 GACAGGACAG
* * * *
25109796 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
* *
25109842 GATAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
25109890 GACAGGAAT
1 GACAGGAAT
25109899 AATTCATGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 26 0.54
47 1 0.02
48 21 0.44
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:25115590 original size:29 final size:28
Alignment explanation
Indices: 25115530--25115623 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 28
25115520 ATTGCATGAC
** *
25115530 TATGAATGTGATTGCACCTAATGGGTCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
25115558 TATGAATGTGATTTGGGCTTAATGGGCCA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
* * *
25115587 TATGAAAGAGATTGGGCCTAGTGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
25115615 TATGCATGT
1 TATGAATGT
25115624 ATAAAGACTT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 32 0.59
29 22 0.41
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.31
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:25119851 original size:16 final size:16
Alignment explanation
Indices: 25119830--25119860 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25119820 TAGCAAATCG
25119830 CGAAATGCCAAAAAGT
1 CGAAATGCCAAAAAGT
*
25119846 CGAAATGCCGAAAAG
1 CGAAATGCCAAAAAG
25119861 CCGGAAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.23, T:0.10
Consensus pattern (16 bp):
CGAAATGCCAAAAAGT
Found at i:25120131 original size:29 final size:28
Alignment explanation
Indices: 25120084--25120173 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
25120074 AATGACTATA
* *
25120084 AATGTGATTGGGCCAAATGGGCGATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
*
25120112 AATGTGATTTGGGCCTAATGGGCTATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* * *
25120141 AAAGAGATTGGGCCTAATAGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
*
25120169 CATGT
1 AATGT
25120174 ATGTAGACTT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 28 0.54
29 24 0.46
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:25124616 original size:40 final size:40
Alignment explanation
Indices: 25124571--25124738 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
25124561 CGGAATATAA
25124571 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25124611 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** ** *
25124651 CCGGATATAGCCACTAGCACATTTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
25124691 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
25124731 CCGGATAT
1 CCGGATAT
25124739 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 103 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25137169 original size:29 final size:29
Alignment explanation
Indices: 25137130--25137208 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
25137120 CTTAATAATC
25137130 AACCACGCACACTTAGTGCCATGTAC-TTT-A
1 AACC-CGCACACTTAGTGCCA--TACATTTCA
*
25137160 AACTCGCACACTTAGTGCCATACATTTCA
1 AACCCGCACACTTAGTGCCATACATTTCA
*
25137189 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
25137209 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
27 3 0.07
28 3 0.07
29 35 0.80
30 3 0.07
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATACATTTCA
Found at i:25143594 original size:40 final size:40
Alignment explanation
Indices: 25143550--25143729 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
25143540 GCTCGATTGT
* *
25143550 CTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGATT-TAGTAACTCGCACAAATGC
*
25143590 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGTACAAATGC
1 CTTCGGGACA-TAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
25143630 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
25143670 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
25143711 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACATAGCCCGGA
25143730 CATCATTCGA
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
39 2 0.02
40 86 0.74
41 26 0.22
42 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:25143648 original size:80 final size:81
Alignment explanation
Indices: 25143550--25143728 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
25143540 GCTCGATTGT
* * *
25143550 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
* * *
25143614 TAAC-TCGTACAAATGC
65 TAACTTAGCACAAAAGC
* * *
25143630 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
25143695 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
25143711 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
25143729 ACATCATTCG
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 59 0.69
81 27 0.31
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:25151736 original size:80 final size:81
Alignment explanation
Indices: 25151624--25151802 Score: 254
Period size: 80 Copynumber: 2.2 Consensus size: 81
25151614 GCTCAATTGT
* * *
25151624 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
* *
25151688 TAAC-TCGCACAAATGC
65 TAACTTAGCACAAAAGC
* * *
25151704 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
25151769 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
25151785 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
25151803 ACATCATTCG
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 59 0.68
81 28 0.32
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Done.