Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6561538
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 30
Found at i:4897191 original size:113 final size:111
Alignment explanation
Indices: 4896992--4897211 Score: 406
Period size: 113 Copynumber: 2.0 Consensus size: 111
4896982 CCGATGTGTA
4896992 AAATGTCGACACTTTTTTAAATCGTATCGACACATTTTCTTCCAATATGGACATAAAGTACCGAC
1 AAATGTCGACACTTTTTTAAATCGTATCGACACATTTTCTTCCAATATGGACATAAAGTACCGAC
4897057 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATTGT
66 ACAATATTAAAAAGTGTCGATATAGG-TGTAGA-CTATT-GCGCATTGT
4897106 AAATGTCGACACTTTTTTAAATCGTATCGACACATTTTCTT-CAATATGGACATAAAGTACCGAC
1 AAATGTCGACACTTTTTTAAATCGTATCGACACATTTTCTTCCAATATGGACATAAAGTACCGAC
4897170 ACAATATTAAAAAGTGTCGATATAGGTGTAGACTATTGCGCA
66 ACAATATTAAAAAGTGTCGATATAGGTGTAGACTATTGCGCA
4897212 AAGACCGGTA
Statistics
Matches: 106, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
110 5 0.05
111 5 0.05
112 6 0.06
113 49 0.46
114 41 0.39
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (111 bp):
AAATGTCGACACTTTTTTAAATCGTATCGACACATTTTCTTCCAATATGGACATAAAGTACCGAC
ACAATATTAAAAAGTGTCGATATAGGTGTAGACTATTGCGCATTGT
Found at i:4897297 original size:20 final size:19
Alignment explanation
Indices: 4897268--4897306 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
4897258 TATAATTATG
4897268 GGTTCGATGTGTAAAATGT
1 GGTTCGATGTGTAAAATGT
4897287 GGTTCCGATGTGTAAAATGT
1 GGTT-CGATGTGTAAAATGT
4897307 CGACACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.26, C:0.08, G:0.31, T:0.36
Consensus pattern (19 bp):
GGTTCGATGTGTAAAATGT
Found at i:4898911 original size:12 final size:12
Alignment explanation
Indices: 4898894--4898989 Score: 63
Period size: 12 Copynumber: 8.2 Consensus size: 12
4898884 ACTTGTTTGG
4898894 ATCATCATCTTC
1 ATCATCATCTTC
*
4898906 ATCATCATCATC
1 ATCATCATCTTC
* *
4898918 ATCATCGTCATC
1 ATCATCATCTTC
* **
4898930 ATCTTCATCGCC
1 ATCATCATCTTC
* * *
4898942 AGCTTCATCGTC
1 ATCATCATCTTC
4898954 ATCATCA---TC
1 ATCATCATCTTC
*
4898963 ATCGTCATCTTC
1 ATCATCATCTTC
* *
4898975 ATCGTCAGCTTC
1 ATCATCATCTTC
4898987 ATC
1 ATC
4898990 TTCTGCGACC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
9 8 0.12
12 61 0.88
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.35
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:4898913 original size:6 final size:6
Alignment explanation
Indices: 4898894--4898977 Score: 78
Period size: 6 Copynumber: 14.0 Consensus size: 6
4898884 ACTTGTTTGG
* * * **
4898894 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGCC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * *
4898942 AGCTTC ATCGTC ATCATC ATCATC GTCATC TTCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
4898978 GTCAGCTTCA
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.36
Consensus pattern (6 bp):
ATCATC
Found at i:4898914 original size:15 final size:15
Alignment explanation
Indices: 4898895--4898977 Score: 91
Period size: 15 Copynumber: 5.7 Consensus size: 15
4898885 CTTGTTTGGA
* *
4898895 TCATCATCTTCATCA
1 TCATCATCATCATCG
4898910 TCATCATCATCATCG
1 TCATCATCATCATCG
*
4898925 TCATCATCTTCATCG
1 TCATCATCATCATCG
* *
4898940 -C--CAGCTTCATCG
1 TCATCATCATCATCG
4898952 TCATCATCATCATCG
1 TCATCATCATCATCG
*
4898967 TCATCTTCATC
1 TCATCATCATC
4898978 GTCAGCTTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
12 10 0.17
13 1 0.02
14 1 0.02
15 46 0.79
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (15 bp):
TCATCATCATCATCG
Found at i:4898989 original size:27 final size:27
Alignment explanation
Indices: 4898898--4898981 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
4898888 GTTTGGATCA
* * *
4898898 TCATCTTCATCATCATCATCATCATCG
1 TCATCATCATCATCGTCATCTTCATCG
* * *
4898925 TCATCATCTTCATCGCCAGCTTCATCG
1 TCATCATCATCATCGTCATCTTCATCG
4898952 TCATCATCATCATCGTCATCTTCATCG
1 TCATCATCATCATCGTCATCTTCATCG
4898979 TCA
1 TCA
4898982 GCTTCATCTT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.36
Consensus pattern (27 bp):
TCATCATCATCATCGTCATCTTCATCG
Found at i:4898992 original size:6 final size:6
Alignment explanation
Indices: 4898898--4898992 Score: 55
Period size: 6 Copynumber: 15.3 Consensus size: 6
4898888 GTTTGGATCA
* * * * * * * *
4898898 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
4898946 TCATCGT CATCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATC-T --TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
4898993 TGCGACCGAT
Statistics
Matches: 69, Mismatches: 17, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
6 63 0.91
7 1 0.01
9 5 0.07
ACGTcount: A:0.21, C:0.35, G:0.07, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:4900795 original size:194 final size:198
Alignment explanation
Indices: 4900443--4901846 Score: 2352
Period size: 196 Copynumber: 7.1 Consensus size: 198
4900433 TTTAAATTAG
** * *
4900443 TATCGACACAAAAAATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
4900507 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
4900572 CGACACGTTTTATATATGGATCG--ACTTTATGGGTGCACCTTGTTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTTAATTCATTCTGGGAA
4900635 AAAAA
194 AAAAA
4900640 TATCGACACAAA-TAT-TATAGTGTCGACACA-TATTTAGACTT-TTCTCTCATAAAACC-GTAT
1 TATCGACACAAACTATAT-TAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTAT
4900700 AATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
*
4900764 TCGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
130 TCGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
4900829 AAAA
195 AAAA
4900833 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
4900898 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
4900962 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG-AAA
131 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAAA
4901026 AAA
196 AAA
4901029 -ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAAACCGGTAT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCAT-AAAACCGGTAT
4901093 AATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTTGGG
65 AATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTTGGG
4901158 ATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTTAATTCATTCTGGA
129 ATCGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTTAATTCATTCTGG-
*
4901223 AAAAAAAAA
191 -GAAAAAAA
4901232 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTC-TAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
4901296 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
4901361 CGACACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG-AAA
131 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAAA
4901425 AAA
196 AAA
*
4901428 -ATCGACACAAAACTATATTAGTGTCGACACATTATTTAGACGTATTCTCTCATAAAACCGGTAT
1 TATCGACAC-AAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTAT
*
4901492 AATTGTACC-GTTAGATTGAAAAATTACATATTACCATTATACTTTTGGGTTCGATGATTTTGGG
65 AATTGTACCGGTTAGATTAAAAAATTACATATTA-CATTATACTTTTGGGTTCGATGATTTTGGG
*
4901556 ATCGACACTTTT-TATATGGATCGACACTTTATTGATGCACCTTGTTTTTAA-TCATTCTGGAAA
129 ATCGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAA
4901619 AAAAA
194 AAAAA
*
4901624 TATCGACACAAACTATATTAGTGTCGACAC-TTATTTAGACTTATTCTCTCAT-AAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
4901687 ATTGTACCGGTTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
66 ATTGTACCGG-TTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
4901751 TCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTAATTCATTCT-GGAA
130 TCGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAA
4901814 AAAAA
194 AAAAA
*
4901819 -ATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
4901847 TGACCCTTAA
Statistics
Matches: 1152, Mismatches: 26, Indels: 61
0.93 0.02 0.05
Matches are distributed among these distances:
192 16 0.01
193 65 0.06
194 169 0.15
195 152 0.13
196 268 0.23
197 224 0.19
198 15 0.01
199 52 0.05
200 51 0.04
201 15 0.01
202 68 0.06
203 7 0.01
204 50 0.04
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAAA
AAA
Found at i:4901955 original size:19 final size:19
Alignment explanation
Indices: 4901931--4901969 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4901921 ACGTAAAAAA
*
4901931 ATAAATCGTATACCAAATT
1 ATAAATCGTATACAAAATT
*
4901950 ATAAATCTTATACAAAATT
1 ATAAATCGTATACAAAATT
4901969 A
1 A
4901970 ACTCGACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (19 bp):
ATAAATCGTATACAAAATT
Found at i:4905879 original size:24 final size:24
Alignment explanation
Indices: 4905842--4905894 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
4905832 CCGTTCTATC
4905842 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
4905866 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
4905890 TATTT
1 TATTT
4905895 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:4906083 original size:20 final size:19
Alignment explanation
Indices: 4906037--4906083 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
4906027 TCCGGTATCA
*
4906037 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
4906056 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
4906077 TTTTACC
1 TTTTACC
4906084 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:4906226 original size:18 final size:19
Alignment explanation
Indices: 4906202--4906243 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
4906192 GACACTTTTA
4906202 ATTTTACCGGTTTTATCAT
1 ATTTTACCGGTTTTATCAT
4906221 -TTTTACCGGTTTTATCAT
1 ATTTTACCGGTTTTATCAT
4906239 ATTTT
1 ATTTT
4906244 TACCTGGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.19, C:0.14, G:0.10, T:0.57
Consensus pattern (19 bp):
ATTTTACCGGTTTTATCAT
Found at i:4906256 original size:20 final size:20
Alignment explanation
Indices: 4906203--4906256 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 20
4906193 ACACTTTTAA
*
4906203 TTTTACCGGTTTTATC--AT
1 TTTTACCGGTTATATCATAT
*
4906221 TTTTACCGGTTTTATCATAT
1 TTTTACCGGTTATATCATAT
4906241 TTTTACCTGG-TATATC
1 TTTTACC-GGTTATATC
4906257 GTTTTGGATC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 16 0.50
20 14 0.44
21 2 0.06
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTTACCGGTTATATCATAT
Found at i:4909100 original size:16 final size:16
Alignment explanation
Indices: 4909079--4909110 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4909069 CTTGAATGTT
4909079 GGCAAATATGTATGAG
1 GGCAAATATGTATGAG
4909095 GGCAAATATGTATGAG
1 GGCAAATATGTATGAG
4909111 ACAAATTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
GGCAAATATGTATGAG
Found at i:4913171 original size:22 final size:22
Alignment explanation
Indices: 4913146--4913220 Score: 59
Period size: 23 Copynumber: 3.4 Consensus size: 22
4913136 ATCATTAAAT
4913146 AATTATTTATATATATTTATAA
1 AATTATTTATATATATTTATAA
*
4913168 AATTAATATTAAAT-TATTCTGA-AA
1 AATT-AT-TTATATATATT-T-ATAA
*
4913192 AGTATATTTATA-ATA-TTATAA
1 AAT-TATTTATATATATTTATAA
4913213 AATTATTT
1 AATTATTT
4913221 TAAAATATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
20 6 0.14
21 5 0.12
22 5 0.12
23 12 0.29
24 12 0.29
25 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (22 bp):
AATTATTTATATATATTTATAA
Found at i:4913232 original size:22 final size:22
Alignment explanation
Indices: 4913158--4913232 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 22
4913148 TTATTTATAT
*
4913158 ATATTTATAAAATTAATATTAAA
1 ATATTTATAAAATT-ATTTTAAA
* * * *
4913181 TTATTCT-GAAAAGTATATTTATA
1 ATATT-TATAAAATTAT-TTTAAA
4913204 ATA-TTATAAAATTATTTTAAA
1 ATATTTATAAAATTATTTTAAA
4913225 ATATTTAT
1 ATATTTAT
4913233 TTAATTTTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
21 9 0.23
22 14 0.36
23 15 0.38
24 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (22 bp):
ATATTTATAAAATTATTTTAAA
Found at i:4913238 original size:22 final size:23
Alignment explanation
Indices: 4913204--4913279 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
4913194 TATATTTATA
**
4913204 ATATTATAAAATTATTTTAAAAT
1 ATATTATTTAATTATTTTAAAAT
*
4913227 AT-TTATTTAA-T-TTTTAAAAGC
1 ATATTATTTAATTATTTTAAAA-T
*
4913248 ATATTATTTATTTA-TTTAAAAT
1 ATATTATTTAATTATTTTAAAAT
4913270 AATATTATTT
1 -ATATTATTT
4913280 TTAAATTGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
20 8 0.19
21 3 0.07
22 13 0.30
23 19 0.44
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (23 bp):
ATATTATTTAATTATTTTAAAAT
Found at i:4915588 original size:182 final size:182
Alignment explanation
Indices: 4914823--4916916 Score: 3447
Period size: 182 Copynumber: 11.6 Consensus size: 182
4914813 TACCTTTTTT
* *
4914823 AAAAGAGAAGAAGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
1 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
* *
4914888 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGATAAAACAGGTAAAGCGCTACCAG
66 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
* *
4914953 TTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTT
131 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
4915005 AAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
1 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
** * * * *
4915069 AATATAACGGGTAATAATATGACAAAACCGATCTCAAAATGACAAAACAGGTAAAACGCTACCGG
66 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
4915134 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAATT-
131 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
* *
4915183 ATAAGAGAAGAAGTTATAGCGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
1 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
*
4915248 AATATAACATGTAAAAATATGACAAAACCGGTTTCGAAATGAC-AAACAGGT-AA-CGCTACCGG
66 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
*
4915310 ATATGTTGAAAGTGTCGAT-ATTTATTATAAGTATCGACACTTTTGGAATTA
131 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
*
4915361 ATAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
1 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
* *
4915426 AATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGGCAAAACAGGTAAAGCGCTACCGG
66 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
* * * *
4915491 ATATATTGAGAGTGTCGATAATTTATTATAAGTATCGACACTTCTGGAATTA
131 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
* *
4915543 AAAAGAGAAGAAGTTATAGCGCCAATAAAATGTCGATACTTTATAAAAATGTATCAATCCATAAC
1 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
* *
4915608 AATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACTGG
66 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
* *
4915673 ATATGTTGAAAGTATCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
131 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
4915725 AAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATAC--------AATGTATCGATCCATAAC
1 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
4915781 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
66 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
* * *
4915846 TTATGTTGAAAGTGTCAATAATTTATTATACGTATCGACACTTTTGGAATTT
131 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
4915898 AAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
1 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
* * *
4915962 AATATAAAATGTAAAAATATGACAAAACCGGTTTCGAAATGACAAAACAGGTAAAGCGCTATCGG
66 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
*
4916027 TTATGTTGAAAGTATCGATAATTTATTATAAGTATCG--ACTTTTGGAATTA
131 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
* *
4916077 ATAAGAGAAGAAGTTATAGCGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
1 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
4916142 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
66 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
*
4916207 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTT
131 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
* *
4916259 AAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATACTTTATAAAAATGTATTGATCCATAAC
1 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
* * * *
4916324 AATATAACAAGTAATAATATGAAAAAACCGGTCTCGAAATGAAAAAACAGGTAAAGCGCTACCGG
66 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
*
4916389 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTT
131 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
4916441 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
1 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
*
4916506 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCTACCGG
66 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
*
4916571 ATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
131 TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
* * * * * *
4916623 ATAAGAGAAGAAATTATAGCGTCAATAAAGTGTCGATAATTTATAGAAATGTATCGATCAATAAC
1 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
* * *
4916688 AATATAAC-CGATAAAAATATGACAAAACCAGTCTCGAAATGACAAAACAGATAAAGCGCTACCG
66 AATATAACATG-TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCG
*
4916752 GATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
130 GTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
* *
4916805 ATAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAT
1 AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
* * * **
4916870 AATATAACATGTGAAAATATAATAAAACCGGTCTATAAATGACAAAA
66 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
4916917 GATGAACGCA
Statistics
Matches: 1792, Mismatches: 99, Indels: 42
0.93 0.05 0.02
Matches are distributed among these distances:
173 165 0.09
175 17 0.01
176 27 0.02
177 14 0.01
178 121 0.07
179 131 0.07
180 153 0.09
181 313 0.17
182 850 0.47
183 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
Found at i:4916600 original size:898 final size:896
Alignment explanation
Indices: 4914823--4916916 Score: 3482
Period size: 898 Copynumber: 2.3 Consensus size: 896
4914813 TACCTTTTTT
* * * *
4914823 AAAAGAGAAGAAGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
1 AAAAGAGAAGAAATTATAGCGCCAATAAAGTGTCG------TATAGAAATGTATCGATCCATAAC
* *
4914888 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGATAAAACAGGTAAAGCGCTACCAG
60 AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
4914953 TTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAGAGT
125 TTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAGAGT
**
4915018 TATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACGGGTAA
190 TATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAA
* * *
4915083 TAATATGACAAAACCGATCTCAAAATGACAAAACAGGTAAAACGCTACCGGTTATGTTGAAAGTG
255 AAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAACGCTACCGGTTATGTTGAAAGTA
4915148 TCGATAATTTATTATAAGTATCGACTTTTGGAATTATAAGAGAAGAAGTTATAGCGCCAATAACG
320 TCGATAATTTATTATAAGTATCGACTTTTGGAATTATAAGAGAAGAAGTTATAGCGCCAATAACG
4915213 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCG
385 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCG
*
4915278 GTTTCGAAATGACAAACAGGTAACGCTACCGGATATGTTGAAAGTGTCGATATTTATTATAAGTA
450 GTCTCGAAATGACAAACAGGTAACGCTACCGGATATGTTGAAAGTGTCGATATTTATTATAAGTA
4915343 TCGACACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAA
515 TCGACACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAA
* * **
4915408 AATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGGCAAAA
580 AATGTATCGATCCATAACAATATAACAAGTAAAAATATGAAAAAACCGGTCTCGAAATGAAAAAA
*
4915473 CAGGTAAAGCGCTACCGGATATATTGAGAGTGTCGATAATTTATTATAAGTATCGACACTTCTGG
645 CAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTCTGG
4915538 AATTAAAAAGAGAAGAAGTTATAGCGCCAATAAAATGTCGATACTTTATAAAAATGTATCAATCC
710 AATTAAAAAGAGAAGAAGTTATAGCGCCAATAAAATGTCGATACTTTATAAAAATGTATCAATCC
*
4915603 ATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCT
775 ATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCT
*
4915668 ACTGGATATGTTGAAAGTATCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
840 ACCGGATATGTTGAAAGTATCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
* *
4915725 AAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCG-ATA-CAATGTATCGATCCATAACAATATA
1 AAAAGAGAAGAAATTATAGCGCCAATAAAGTGTCGTATAGAAATGTATCGATCCATAACAATATA
4915787 ACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGT
66 ACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGT
*
4915852 TGAAAGTGTCAATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAGAGTTATAGC
131 TGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAGAGTTATAGC
*
4915917 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAAAATGTAAAAATAT
196 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
* * * *
4915982 GACAAAACCGGTTTCGAAATGACAAAACAGGTAAAGCGCTATCGGTTATGTTGAAAGTATCGATA
261 GACAAAACCGGTCTCAAAATGACAAAACAGGTAAAACGCTACCGGTTATGTTGAAAGTATCGATA
4916047 ATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAATAACGTGTCG
326 ATTTATTATAAGTATCGACTTTTGGAATT-ATAAGAGAAGAAGTTATAGCGCCAATAACGTGTCG
4916112 ATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTC
390 ATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTC
*
4916177 GAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTAT
455 GAAATGAC-AAACAGGT-AA-CGCTACCGGATATGTTGAAAGTGTCGAT-ATTTATTATAAGTAT
*
4916242 CGACACTTTTGGAATTTAA-AAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATACTTTATAAA
516 CGACACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAA
* *
4916306 AATGTATTGATCCATAACAATATAACAAGTAATAATATGAAAAAACCGGTCTCGAAATGAAAAAA
580 AATGTATCGATCCATAACAATATAACAAGTAAAAATATGAAAAAACCGGTCTCGAAATGAAAAAA
* * *
4916371 CAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGG
645 CAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTCTGG
* * *
4916436 AATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCC
710 AATTAAAAAGAGAAGAAGTTATAGCGCCAATAAAATGTCGATACTTTATAAAAATGTATCAATCC
*
4916501 ATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCT
775 ATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCT
*
4916566 ACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
840 ACCGGATATGTTGAAAGTATCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
* * *
4916623 ATAAGAGAAGAAATTATAGCGTCAATAAAGTGTCGATAATTTATAGAAATGTATCGATCAATAAC
1 AAAAGAGAAGAAATTATAGCGCCAATAAAGTGTCG------TATAGAAATGTATCGATCCATAAC
* * *
4916688 AATATAAC-CGATAAAAATATGACAAAACCAGTCTCGAAATGACAAAACAGATAAAGCGCTACCG
60 AATATAACATG-TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCG
* *
4916752 GATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA-TTAATAAGAGAAGA
124 GTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAA-AAGAGAAG-
*
4916816 AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACATG
187 AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
* * *
4916881 TGAAAATATAATAAAACCGGTCT-ATAAATGACAAAA
252 TAAAAATATGACAAAACCGGTCTCA-AAATGACAAAA
4916917 GATGAACGCA
Statistics
Matches: 1119, Mismatches: 54, Indels: 32
0.93 0.04 0.03
Matches are distributed among these distances:
893 300 0.27
894 110 0.10
895 8 0.01
896 2 0.00
897 27 0.02
898 382 0.34
899 26 0.02
901 22 0.02
902 10 0.01
906 8 0.01
907 131 0.12
908 93 0.08
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.27
Consensus pattern (896 bp):
AAAAGAGAAGAAATTATAGCGCCAATAAAGTGTCGTATAGAAATGTATCGATCCATAACAATATA
ACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGT
TGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAGAGTTATAGC
GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
GACAAAACCGGTCTCAAAATGACAAAACAGGTAAAACGCTACCGGTTATGTTGAAAGTATCGATA
ATTTATTATAAGTATCGACTTTTGGAATTATAAGAGAAGAAGTTATAGCGCCAATAACGTGTCGA
TACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCG
AAATGACAAACAGGTAACGCTACCGGATATGTTGAAAGTGTCGATATTTATTATAAGTATCGACA
CTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTA
TCGATCCATAACAATATAACAAGTAAAAATATGAAAAAACCGGTCTCGAAATGAAAAAACAGGTA
AAGCGCTACCGGATATATTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTCTGGAATTAA
AAAGAGAAGAAGTTATAGCGCCAATAAAATGTCGATACTTTATAAAAATGTATCAATCCATAACA
ATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCTACCGGA
TATGTTGAAAGTATCGATAATTTATTATAAGTATCGACACTTTTGGAATTA
Found at i:4917157 original size:87 final size:87
Alignment explanation
Indices: 4917052--4917213 Score: 261
Period size: 87 Copynumber: 1.9 Consensus size: 87
4917042 AAATAGGTCA
* *
4917052 ATATAAGCCCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCCCTACCTATTACATTATATAAGAGCTAACTAATATGTTATTATACTTGATAATATTT
*
4917117 CCGGTTAAATGCCTATTTTATT
66 CCGATTAAATGCCTATTTTATT
* * * *
4917139 ATATAAGCGCTATCTATTACATTATATAAGCGTTAACTAATATGTTATTATACTTGATAATATTT
1 ATATAAGCCCTACCTATTACATTATATAAGAGCTAACTAATATGTTATTATACTTGATAATATTT
4917204 CCGATTAAAT
66 CCGATTAAAT
4917214 AATATAACAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (87 bp):
ATATAAGCCCTACCTATTACATTATATAAGAGCTAACTAATATGTTATTATACTTGATAATATTT
CCGATTAAATGCCTATTTTATT
Found at i:4917186 original size:23 final size:23
Alignment explanation
Indices: 4917136--4917180 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4917126 TGCCTATTTT
* *
4917136 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTAACTAATAC
*
4917159 ATTATATAAGCGTTAACTAATA
1 ATTATATAAGCGCTAACTAATA
4917181 TGTTATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTAACTAATAC
Found at i:4917709 original size:16 final size:16
Alignment explanation
Indices: 4917685--4917724 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4917675 CAGACTGTTA
*
4917685 AAATGAACTAAAATAT
1 AAATAAACTAAAATAT
*
4917701 AAATAAACTGAAATAT
1 AAATAAACTAAAATAT
4917717 AAATAAAC
1 AAATAAAC
4917725 CGATTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (16 bp):
AAATAAACTAAAATAT
Found at i:4917780 original size:31 final size:31
Alignment explanation
Indices: 4917744--4917803 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
4917734 AAACTTAAAA
* *
4917744 TAGTTTTGCAATACTGAGATTTAAATAATTT
1 TAGTTTTACAATACTGAAATTTAAATAATTT
4917775 TAGTTTTACAATACTGAAATTTAAATAAT
1 TAGTTTTACAATACTGAAATTTAAATAAT
4917804 CCATACAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (31 bp):
TAGTTTTACAATACTGAAATTTAAATAATTT
Found at i:4917854 original size:22 final size:22
Alignment explanation
Indices: 4917828--4917870 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4917818 TAATAAATTA
4917828 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
4917850 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
4917871 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4917879 original size:22 final size:22
Alignment explanation
Indices: 4917830--4917878 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
4917820 ATAAATTATT
**
4917830 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
4917852 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
4917875 TAAA
1 TAAA
4917879 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:4917882 original size:54 final size:54
Alignment explanation
Indices: 4917818--4918429 Score: 348
Period size: 54 Copynumber: 11.5 Consensus size: 54
4917808 ACAACTACAA
4917818 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*** * *
4917872 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AAT-AATTCA-ATC
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATA-C
4917925 T-AT--A-T-TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
*
4917984 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
4918038 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--C
* * * * * *
4918098 TAAAATAAATCAATCAATACAAATAAAT---TA-TTTAAAATAAATCAATCC--A-
1 T--AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
4918147 T-AT---TTA---AAAATAAATCAATCCATATTTTAAAATAAATCAAT-C---C
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * ** * **
4918190 --AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** * *
4918239 -AATCCA-TATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCTATAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** * *
4918292 TAATAAATTATTTAAAATAAATCAATCCATGCTAATAAATTATTTAAAATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCAT-ATTTTAAA--A--T-AAATCAATCCATAC
* * *
4918351 -AACACAACTA--CAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATA-AATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
4918404 TAATAAATTATTTAAAATAAATCAAT
1 TAATAAATTATTTAAAATAAATCAAT
4918430 TTATACTAAT
Statistics
Matches: 435, Mismatches: 62, Indels: 122
0.70 0.10 0.20
Matches are distributed among these distances:
40 10 0.02
42 3 0.01
43 5 0.01
44 34 0.08
45 8 0.02
46 5 0.01
48 16 0.04
49 4 0.01
50 3 0.01
52 22 0.05
53 22 0.05
54 157 0.36
55 19 0.04
56 3 0.01
57 17 0.04
58 39 0.09
59 14 0.03
60 16 0.04
62 20 0.05
63 2 0.00
64 16 0.04
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:4917888 original size:32 final size:31
Alignment explanation
Indices: 4917850--4918457 Score: 226
Period size: 32 Copynumber: 22.4 Consensus size: 31
4917840 CAATCCATAT
4917850 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
4917882 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
* * **
4917912 --T--AATAATTCAATCTATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
4917937 -------TAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
4917962 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
4917994 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
4918016 TTTAAAATAAATCAATCCATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
4918048 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
4918078 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
* *
4918096 TTTAAAATAAATCAATCAATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
4918128 TTTAAAATAAATCAATCCATA-T--T---TA
1 TTTAAAATAAATCAATCCATACTAATAAATA
4918153 ---AAAATAAATCAATCCATA-T--------
1 TTTAAAATAAATCAATCCATACTAATAAATA
4918172 TTTAAAATAAATCAATCCATA-T--------
1 TTTAAAATAAATCAATCCATACTAATAAATA
4918194 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
4918226 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
* **
4918248 TTTAAAATAAATCAATTCATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
4918277 -------TAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
4918302 TTTAAAATAAATCAATCCATGCTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* *
4918334 TTTAAAATAAATCAAT-CA-AC--ACAACTA
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
4918361 --CAATAATAAATCAATCC--A-T-AT-----
1 TTTAA-AATAAATCAATCCATACTAATAAATA
4918382 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
**
4918414 TTTAAAATAAATCAATTTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
4918446 TTTAAAATAAAT
1 TTTAAAATAAAT
4918458 TATTTTTAAA
Statistics
Matches: 457, Mismatches: 34, Indels: 170
0.69 0.05 0.26
Matches are distributed among these distances:
20 1 0.00
22 141 0.31
23 17 0.04
24 5 0.01
25 11 0.02
26 48 0.11
27 4 0.01
28 9 0.02
29 2 0.00
30 4 0.01
31 9 0.02
32 206 0.45
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAAATA
Found at i:4917924 original size:80 final size:80
Alignment explanation
Indices: 4917833--4918192 Score: 541
Period size: 80 Copynumber: 4.5 Consensus size: 80
4917823 AATTATTTAA
*
4917833 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
4917898 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
4917913 AATAATTCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
*
4917978 CCATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
**
4917997 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCA
4918062 ATCCATACAACTACAAT
64 ATCCATACAACTACAAT
*
4918079 AATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
**
4918144 CCAT--ATTTA-AA-
66 CCATACAACTACAAT
4918155 AATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATA
4918193 TTTTAAAATA
Statistics
Matches: 257, Mismatches: 15, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
76 37 0.14
77 2 0.01
78 3 0.01
80 137 0.53
81 2 0.01
82 2 0.01
84 2 0.01
85 2 0.01
86 70 0.27
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:4918020 original size:22 final size:22
Alignment explanation
Indices: 4917994--4918038 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4917984 TAATAAATTA
4917994 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
4918016 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
4918038 T
1 T
4918039 AATAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4918045 original size:22 final size:22
Alignment explanation
Indices: 4917992--4918044 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
4917982 ACTAATAAAT
4917992 TATT-TAAAATAAATCAATCCA
1 TATTATAAAATAAATCAATCCA
*
4918013 TATTTTAAAATAAATCAATCCA
1 TATTATAAAATAAATCAATCCA
4918035 TATTAATAAA
1 TATT-ATAAA
4918045 TTATTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 4 0.14
22 21 0.72
23 4 0.14
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (22 bp):
TATTATAAAATAAATCAATCCA
Found at i:4918159 original size:22 final size:22
Alignment explanation
Indices: 4918128--4918214 Score: 165
Period size: 22 Copynumber: 4.0 Consensus size: 22
4918118 AAATAAATTA
4918128 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
4918150 TTAAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
4918172 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
4918194 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
4918215 CTAATAAATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 63 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4918188 original size:44 final size:44
Alignment explanation
Indices: 4918128--4918286 Score: 210
Period size: 44 Copynumber: 3.4 Consensus size: 44
4918118 AAATAAATTA
*
4918128 TTTAAAATAAATCAATCCATATTTAAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAT
4918172 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-C---C--AT--A-T
*
4918225 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAT
1 -TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAT
4918270 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
4918287 TATACTAATA
Statistics
Matches: 103, Mismatches: 2, Indels: 20
0.82 0.02 0.16
Matches are distributed among these distances:
44 54 0.52
45 2 0.02
46 1 0.01
48 3 0.03
50 3 0.03
52 1 0.01
53 1 0.01
54 38 0.37
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.36
Consensus pattern (44 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAT
Found at i:4918203 original size:98 final size:98
Alignment explanation
Indices: 4918079--4918485 Score: 457
Period size: 98 Copynumber: 4.0 Consensus size: 98
4918069 CAACTACAAT
* *
4918079 AATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
4918144 CCATATTTAAAAATAAATCAATCCATATTTTAA
66 CCATATTTAAAAATAAATCAATCCATATTTTAA
4918177 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
4918242 CCATATTTTAAAATAAATCAATTCATATTTTAA
66 CCATATTTAAAAATAAATCAATCCATATTTTAA
*
4918275 AATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATGCTAATAAATTATTTAAA
1 AATAAATCAATC----C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
* **
4918340 ATAAATCAATCAACACAACTACAATAATAAATCAATCCATATTTTAA
56 ATAAATCAATC--CATATTTA-AA-AATAAATCAATCCATATTTTAA
**
4918387 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTTATACTAATAAATTATTTAAA
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
*
4918452 ATAAAT---T--AT-TTTTAAAATAAATCAATCCATATTT
56 ATAAATCAATCCATATTTAAAAATAAATCAATCCATATTT
4918486 ATAATAATTT
Statistics
Matches: 277, Mismatches: 17, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
98 106 0.38
102 20 0.07
103 2 0.01
104 3 0.01
105 1 0.00
106 1 0.00
107 1 0.00
108 48 0.17
109 1 0.00
110 4 0.01
111 2 0.01
112 87 0.31
113 1 0.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (98 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATATTTAAAAATAAATCAATCCATATTTTAA
Found at i:4918233 original size:76 final size:76
Alignment explanation
Indices: 4917962--4918321 Score: 398
Period size: 76 Copynumber: 4.7 Consensus size: 76
4917952 AAATAAATTA
4917962 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
4918027 TCAATCCATAT
66 TCAATCCATAT
* * * * * *
4918038 TAATAAATTATTTAAAATAAATCAAT-C-CATACAACTA--CAATAATAAATCAATCCATATTTT
1 T-TTAAA--A--T-AAATCAATCCATACTAATA-AATTATTTAA-AATAAATCAATCCATATTTT
4918099 AAAATAAATCAAT-CA-A-
58 AAAATAAATCAATCCATAT
* ** * * *
4918115 --TACAAATAAAT-TATTTAAAATAAATCAATCCATATTTAAAAATAAATCAATCCATATTTTAA
1 TTTA-AAATAAATCAATCCATACT-AATAAAT---TATTT-AAAATAAATCAATCCATATTTTAA
4918177 AATAAATCAATCCATAT
60 AATAAATCAATCCATAT
4918194 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
4918259 TCAATTCATAT
66 TCAATCCATAT
*
4918270 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
4918322 GCTAATAAAT
Statistics
Matches: 237, Mismatches: 23, Indels: 48
0.77 0.07 0.16
Matches are distributed among these distances:
69 3 0.01
70 4 0.02
71 3 0.01
72 2 0.01
73 1 0.00
74 4 0.02
75 2 0.01
76 125 0.53
77 13 0.05
78 2 0.01
79 5 0.02
80 50 0.21
81 13 0.05
82 10 0.04
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (76 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATAT
Found at i:4918252 original size:22 final size:22
Alignment explanation
Indices: 4918226--4918286 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
4918216 TAATAAATTA
4918226 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
4918248 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
4918270 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
4918287 TATACTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4918408 original size:112 final size:108
Alignment explanation
Indices: 4918194--4918457 Score: 411
Period size: 112 Copynumber: 2.4 Consensus size: 108
4918184 CAATCCATAT
* * **
4918194 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAAACTACAAAATAAA
* *
4918259 TCAATTCATATTTTAAAATAAATCAATCTATACTAATAAATTA
66 TCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
*
4918302 TTTAAAATAAATCAATCCATGCTAATAAATTATTTAAAATAAATCAATCAACACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC--CA-AACTACAA-AA
4918367 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
62 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
**
4918414 TTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
4918458 TATTTTTAAA
Statistics
Matches: 142, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
108 48 0.34
110 2 0.01
111 4 0.03
112 88 0.62
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (108 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAAACTACAAAATAAA
TCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:4918411 original size:22 final size:22
Alignment explanation
Indices: 4918365--4918410 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
4918355 CAACTACAAT
**
4918365 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATAATAA
4918387 AATAAATCAATCCATACTAATAA
1 AATAAATCAATCCATA-TAATAA
4918410 A
1 A
4918411 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAATCAATCCATATAATAA
Found at i:4918465 original size:80 final size:79
Alignment explanation
Indices: 4918293--4918554 Score: 270
Period size: 80 Copynumber: 3.3 Consensus size: 79
4918283 AATCTATACT
* ** *
4918293 AATAAATTA-TTTAAAATAAATCAATCCATGCTAATAAATTATTTAAAATAAATCAATCAACAC-
1 AATAAATTATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTTATACT
*
4918356 AACTACAA-TA-AT-A
66 AA-TA-AATTATTTAA
*
4918369 AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTTAT
1 AATAAAT---TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTTAT
4918434 ACTAATAAATTATTTAA
63 ACTAATAAATTATTTAA
* * * *
4918451 AATAAATTATTTTTAAAATAAATCAATCCATATTTATAATAATTTATTTTAAAGTAAAT-TATTT
1 AATAAATTA-TTTTAAAATAAATCAATCCATA---CTAATAAATTA-TTTAAAATAAATCAATTT
*
4918515 -TA-TAATAAATTATTTTAT
61 ATACTAATAAATTA-TTTAA
4918533 AATAAATTATTTTAAAATAAAT
1 AATAAATTATTTTAAAATAAAT
4918555 TATTTTAAAA
Statistics
Matches: 160, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
76 6 0.04
79 6 0.04
80 76 0.47
81 26 0.16
82 22 0.14
83 13 0.08
84 11 0.07
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.39
Consensus pattern (79 bp):
AATAAATTATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTTATACT
AATAAATTATTTAA
Found at i:4918473 original size:30 final size:29
Alignment explanation
Indices: 4918405--4918569 Score: 150
Period size: 30 Copynumber: 5.2 Consensus size: 29
4918395 AATCCATACT
* *
4918405 AATAAATTATTTAAAATAAATCAATTTATACT
1 AATAAATTATTTAAAATAAAT-TATTT-TA-A
4918437 AATAAATTATTTAAAATAAATTATTTTTAA
1 AATAAATTATTTAAAATAAATTA-TTTTAA
* *
4918467 AATAAATCAATCCATATTTATAATAATTTATTTTAA
1 AAT--A--AAT---TATTTAAAATAAATTATTTTAA
* * *
4918503 AGTAAATTATTTTATAATAAATTATTTTAT
1 AATAAATTA-TTTAAAATAAATTATTTTAA
4918533 AATAAATTATTTTAAAATAAATTATTTTAA
1 AATAAATTA-TTTAAAATAAATTATTTTAA
4918563 AATAAAT
1 AATAAAT
4918570 AACCTTATTA
Statistics
Matches: 114, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
29 2 0.02
30 55 0.48
31 3 0.03
32 28 0.25
34 4 0.04
36 8 0.07
37 14 0.12
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (29 bp):
AATAAATTATTTAAAATAAATTATTTTAA
Found at i:4918512 original size:15 final size:14
Alignment explanation
Indices: 4918483--4918569 Score: 111
Period size: 15 Copynumber: 5.8 Consensus size: 14
4918473 TCAATCCATA
*
4918483 TTTATAATAATTTAT
1 TTTA-AATAAATTAT
4918498 TTTAAAGTAAATTAT
1 TTTAAA-TAAATTAT
4918513 TTTATAATAAATTAT
1 TTTA-AATAAATTAT
4918528 TTTATAATAAATTAT
1 TTTA-AATAAATTAT
4918543 TTTAAAATAAATTAT
1 TTT-AAATAAATTAT
4918558 TTTAAAATAAAT
1 TTT-AAATAAAT
4918570 AACCTTATTA
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
14 2 0.03
15 63 0.93
16 3 0.04
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (14 bp):
TTTAAATAAATTAT
Found at i:4918790 original size:12 final size:12
Alignment explanation
Indices: 4918762--4918798 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
4918752 TTTGGTAATC
4918762 CCCGCCCCGATTA
1 CCCGCCCCGA-TA
4918775 CCCGCCCCGATA
1 CCCGCCCCGATA
*
4918787 CCCGACCCGATA
1 CCCGCCCCGATA
4918799 ATATTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.19, C:0.54, G:0.16, T:0.11
Consensus pattern (12 bp):
CCCGCCCCGATA
Found at i:4918865 original size:19 final size:19
Alignment explanation
Indices: 4918841--4918880 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4918831 AATAAATTTA
4918841 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
4918860 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
4918879 AT
1 AT
4918881 ATACCCCGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:4918905 original size:11 final size:12
Alignment explanation
Indices: 4918885--4918934 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
4918875 ATATATATAC
4918885 CCCG-CCCAATA
1 CCCGACCCAATA
4918896 -CCGACCCAATA
1 CCCGACCCAATA
*
4918907 CCCTACCCAATA
1 CCCGACCCAATA
* *
4918919 TCCGTCCCAATA
1 CCCGACCCAATA
4918931 CCCG
1 CCCG
4918935 TTTAAATAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
10 3 0.09
11 7 0.22
12 22 0.69
ACGTcount: A:0.28, C:0.50, G:0.08, T:0.14
Consensus pattern (12 bp):
CCCGACCCAATA
Found at i:4918908 original size:23 final size:24
Alignment explanation
Indices: 4918881--4918933 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
4918871 ATATATATAT
*
4918881 ATACCCCGCCCAATA-CCGACCCA
1 ATACCCCACCCAATATCCGACCCA
* *
4918904 ATACCCTACCCAATATCCGTCCCA
1 ATACCCCACCCAATATCCGACCCA
4918928 ATACCC
1 ATACCC
4918934 GTTTAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.30, C:0.49, G:0.06, T:0.15
Consensus pattern (24 bp):
ATACCCCACCCAATATCCGACCCA
Found at i:4918932 original size:24 final size:23
Alignment explanation
Indices: 4918889--4918933 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
4918879 ATATACCCCG
4918889 CCCAATACCGACCCAATACCCTA
1 CCCAATACCGACCCAATACCCTA
*
4918912 CCCAATATCCGTCCCAATACCC
1 CCCAATA-CCGACCCAATACCC
4918934 GTTTAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.31, C:0.49, G:0.04, T:0.16
Consensus pattern (23 bp):
CCCAATACCGACCCAATACCCTA
Found at i:4919957 original size:30 final size:30
Alignment explanation
Indices: 4919917--4919973 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
4919907 ATTTTTTTGT
4919917 GAAAAAATAACTCTTATAATATCTAAAATA
1 GAAAAAATAACTCTTATAATATCTAAAATA
*
4919947 GAAATAATAACTCTTATAATATCTAAA
1 GAAAAAATAACTCTTATAATATCTAAA
4919974 TAACTGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.32
Consensus pattern (30 bp):
GAAAAAATAACTCTTATAATATCTAAAATA
Found at i:4920828 original size:31 final size:31
Alignment explanation
Indices: 4920787--4920864 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
4920777 CAGTTACGTC
4920787 AGGGACCATATTGCAAACAAACTAAATGTTG
1 AGGGACCATATTGCAAACAAACTAAATGTTG
* **
4920818 AGGGATCATATTGCAAACGGACTAAATGTTG
1 AGGGACCATATTGCAAACAAACTAAATGTTG
4920849 AGGGACCATATTGCAA
1 AGGGACCATATTGCAA
4920865 GTTTTAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (31 bp):
AGGGACCATATTGCAAACAAACTAAATGTTG
Found at i:4927629 original size:20 final size:20
Alignment explanation
Indices: 4927606--4927657 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4927596 AACGCGATCC
4927606 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
4927626 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
4927646 CCAAAATCGCAA
1 CCAGAATCGCAA
4927658 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:4927723 original size:20 final size:20
Alignment explanation
Indices: 4927568--4927723 Score: 68
Period size: 20 Copynumber: 7.8 Consensus size: 20
4927558 AAATGACCAA
**
4927568 CAAAATCGCAACGCGAAAT-
1 CAAAATCGCAACGCGATTTC
* **
4927587 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTC
* **
4927607 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTC
* **
4927627 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTC
*
4927647 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TC
* * * * *
4927668 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTC
* **
4927689 C-AATTCGCATTGCGATTTC
1 CAAAATCGCAACGCGATTTC
4927708 CAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
4927724 ATATGAAATC
Statistics
Matches: 103, Mismatches: 28, Indels: 11
0.73 0.20 0.08
Matches are distributed among these distances:
19 18 0.17
20 68 0.66
21 17 0.17
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTC
Found at i:4927752 original size:18 final size:19
Alignment explanation
Indices: 4927710--4927759 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
4927700 GCGATTTCCA
*
4927710 AAATCGCAACGCGAATATG
1 AAATCGCAACGCGAACATG
4927729 AAATCGCAACGCGAACAT-
1 AAATCGCAACGCGAACATG
4927747 AAATCGCAACGCG
1 AAATCGCAACGCG
4927760 TATCCGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.42, C:0.26, G:0.20, T:0.12
Consensus pattern (19 bp):
AAATCGCAACGCGAACATG
Found at i:4927771 original size:20 final size:20
Alignment explanation
Indices: 4927710--4927897 Score: 192
Period size: 20 Copynumber: 9.7 Consensus size: 20
4927700 GCGATTTCCA
* **
4927710 AAATCGCAACGCGAATATG-
1 AAATCGCAACGCGTATCCGT
* *
4927729 AAATCGCAACGCG-A-ACAT
1 AAATCGCAACGCGTATCCGT
4927747 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4927767 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
4927787 -AATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
4927806 AAATCGCAATGCGTAT--GT
1 AAATCGCAACGCGTATCCGT
*
4927824 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
4927844 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
4927864 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
4927885 AAATCGCAACGCG
1 AAATCGCAACGCG
4927898 ATATTTAAAG
Statistics
Matches: 142, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.01
18 30 0.21
19 31 0.22
20 64 0.45
21 15 0.11
22 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:4927810 original size:77 final size:78
Alignment explanation
Indices: 4927710--4927898 Score: 222
Period size: 77 Copynumber: 2.4 Consensus size: 78
4927700 GCGATTTCCA
* *
4927710 AAATCGCAACGCGAATATG-AAATCGCAACGCGAACATAAATCGCAACGCGTATCCGTAAATCGC
1 AAATCGCAACGCGTATACGTAAATCGCAACGCGAACATAAATCGCAACGCGTATCCGTAAATCGC
* * *
4927774 AACG-TGTATCCGT
66 AACGAT-AATACAT
** * * ** *
4927787 -AATCGCAACGCGTATGGGTAAATCGCAATGCGTATGTATATCGCAACGCGTATCCGTAAATCGC
1 AAATCGCAACGCGTATACGTAAATCGCAACGCGAACATAAATCGCAACGCGTATCCGTAAATCGC
4927851 AACGATAATACAT
66 AACGATAATACAT
*
4927864 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATACGTAAATCGCAACGCGA
4927899 TATTTAAAGC
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
76 15 0.16
77 48 0.52
78 1 0.01
79 29 0.31
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (78 bp):
AAATCGCAACGCGTATACGTAAATCGCAACGCGAACATAAATCGCAACGCGTATCCGTAAATCGC
AACGATAATACAT
Found at i:4928340 original size:33 final size:33
Alignment explanation
Indices: 4928301--4928371 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4928291 TTCACTTAGA
*
4928301 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
4928334 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
4928367 TTTCA
1 TTTCA
4928372 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:4928511 original size:14 final size:14
Alignment explanation
Indices: 4928492--4928546 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
4928482 AGAATGACTG
4928492 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
4928506 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
4928525 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
4928539 TCGCAACG
1 TCGCAACG
4928547 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:4928559 original size:33 final size:33
Alignment explanation
Indices: 4928492--4928562 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4928482 AGAATGACTG
***
4928492 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
4928525 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
4928558 TCGCA
1 TCGCA
4928563 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:4928580 original size:19 final size:18
Alignment explanation
Indices: 4928558--4928654 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
4928548 GAAACCAAAA
*
4928558 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
4928577 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
*
4928591 TCTCGTTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
4928609 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
* *
4928623 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATT-TCATT
4928642 TCGCGTTGCGATT
1 TCGCGTTGCGATT
4928655 CTCTCGTTGC
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
14 20 0.31
15 4 0.06
16 2 0.03
17 6 0.09
18 10 0.16
19 22 0.34
ACGTcount: A:0.10, C:0.25, G:0.23, T:0.42
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:4928599 original size:14 final size:14
Alignment explanation
Indices: 4928580--4928668 Score: 88
Period size: 14 Copynumber: 5.7 Consensus size: 14
4928570 TTTCATTTCG
4928580 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4928594 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
4928612 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4928626 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
4928643 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
4928659 CGTTGCGATT
1 CGTTGCGATT
4928669 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 28 0.44
15 4 0.06
16 5 0.08
17 8 0.12
18 11 0.17
19 8 0.12
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4928651 original size:33 final size:33
Alignment explanation
Indices: 4928563--4928676 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
4928553 CAAAATCGCA
4928563 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
4928596 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
4928628 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
4928661 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
4928677 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 32 0.42
33 44 0.58
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:4930590 original size:184 final size:186
Alignment explanation
Indices: 4930364--4930741 Score: 735
Period size: 184 Copynumber: 2.0 Consensus size: 186
4930354 TAGATTGCTT
4930364 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4930428 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
4930493 GTGTATTC-TTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
4930547 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4930612 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
4930677 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
4930733 AGTAAATTT
1 AGTAAATTT
4930742 ATCCATTCAA
Statistics
Matches: 192, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
183 6 0.03
184 131 0.68
185 16 0.08
186 39 0.20
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:4930676 original size:93 final size:93
Alignment explanation
Indices: 4930364--4930741 Score: 735
Period size: 93 Copynumber: 4.1 Consensus size: 93
4930354 TAGATTGCTT
4930364 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4930428 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4930456 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4930519 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4930547 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4930612 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4930640 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4930705 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4930733 AGTAAATTT
1 AGTAAATTT
4930742 ATCCATTCAA
Statistics
Matches: 283, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
91 75 0.27
92 38 0.13
93 170 0.60
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:4930825 original size:19 final size:19
Alignment explanation
Indices: 4930785--4930913 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
4930775 TAGTTTACTT
* *
4930785 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
4930805 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
4930824 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
4930843 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
4930857 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
4930876 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
4930890 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
4930909 TCGCA
1 TCGCA
4930914 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:4930864 original size:33 final size:32
Alignment explanation
Indices: 4930821--4930913 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
4930811 CGCGAAACCA
**
4930821 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
4930853 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
4930886 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
4930914 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:4930911 original size:52 final size:52
Alignment explanation
Indices: 4930785--4930913 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
4930775 TAGTTTACTT
**
4930785 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
4930837 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
4930890 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
4930914 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:4930931 original size:19 final size:19
Alignment explanation
Indices: 4930909--4931043 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
4930899 GAAACCAAAA
*
4930909 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4930928 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
4930944 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
4930961 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
4930977 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
4930994 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
4931013 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
4931033 TCGTGTTGCGA
1 TCGCGTTGCGA
4931044 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:4930950 original size:14 final size:14
Alignment explanation
Indices: 4930931--4930987 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4930921 TTTCATTTCG
4930931 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
4930945 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
4930962 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
4930978 CGTTGCGATT
1 CGTTGCGATT
4930988 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:4930956 original size:33 final size:33
Alignment explanation
Indices: 4930914--4931006 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
4930904 CAAAATCGCA
*
4930914 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
4930947 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
4930980 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
4931007 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:4932727 original size:38 final size:38
Alignment explanation
Indices: 4932684--4932756 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
4932674 AATTGATTGT
*
4932684 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
4932722 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
4932757 TGTAAAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:4932743 original size:19 final size:19
Alignment explanation
Indices: 4932679--4932743 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
4932669 AGTTTAATTG
*
4932679 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
4932698 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
4932716 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
4932736 ATTGATTT
1 ATTGATTT
4932744 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:4932763 original size:13 final size:14
Alignment explanation
Indices: 4932738--4932772 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
4932728 ATTGTTTAAT
4932738 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
4932752 TGATTTGT-AAAGT
1 TGATTTGTAAAAGA
4932765 TGATTTGT
1 TGATTTGT
4932773 GTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4932894 original size:19 final size:19
Alignment explanation
Indices: 4932878--4932979 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
4932868 CAAAATGACT
4932878 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4932897 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4932916 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4932930 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4932949 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
4932969 ATCGCAATGCG
1 ATCGCAATGCG
4932980 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4933032 original size:19 final size:19
Alignment explanation
Indices: 4933008--4933314 Score: 358
Period size: 19 Copynumber: 17.4 Consensus size: 19
4932998 GATTATCTCG
4933008 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4933027 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4933046 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
4933060 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4933079 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4933098 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
4933117 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
4933136 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
4933151 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4933169 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4933188 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
4933202 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4933221 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4933240 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
4933254 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
4933274 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
4933288 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
4933307 TTGCGATT
1 TTGCGATT
4933315 GTATTTTCCG
Statistics
Matches: 249, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
14 32 0.13
15 2 0.01
16 31 0.12
17 28 0.11
18 5 0.02
19 139 0.56
20 12 0.05
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4933083 original size:71 final size:71
Alignment explanation
Indices: 4933008--4933247 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
4932998 GATTATCTCG
4933008 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
4933073 TTCGCA
66 TTCGCA
* *
4933079 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
* *
4933142 TT-ATGTCG-G
61 TTCATTTCGCA
*
4933151 TT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
4933215 TTCGCA
66 TTCGCA
4933221 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
4933248 CTCTCGTTGC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 6 0.04
68 6 0.04
69 7 0.05
70 2 0.01
71 107 0.71
72 2 0.01
73 7 0.05
74 7 0.05
76 6 0.04
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:4933167 original size:142 final size:136
Alignment explanation
Indices: 4932976--4933314 Score: 504
Period size: 142 Copynumber: 2.4 Consensus size: 136
4932966 AAAATCGCAA
4932976 TGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTT-TAATTTCGCATTGCGATTAT-TCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
*
4933040 TTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
64 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-
*
4933105 TTTCATTTCGTAT
128 -TTC-TCTCG--T
4933118 TGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTTTAATTTCGCATTGCGATTAT-TC-GTTGCGATTTTCATTTCGCATTGCGATTTTCAT
4933182 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
64 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
4933247 TCTCTCGT
129 TCTCTCGT
* * *
4933255 TGCGATTTTCATTTCCGCATTGCGATT-TTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTAATTT-CGCATTGCGATTATTC--GTTGCGATTTTCATTTCGCATTGCGATT
4933315 GTATTTTCCG
Statistics
Matches: 185, Mismatches: 7, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
136 2 0.01
137 18 0.10
138 34 0.18
139 4 0.02
140 3 0.02
142 118 0.64
143 6 0.03
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (136 bp):
TGCGATTTTAATTTCGCATTGCGATTATTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTC
TCTCGT
Found at i:4933253 original size:52 final size:52
Alignment explanation
Indices: 4933008--4933286 Score: 354
Period size: 52 Copynumber: 5.2 Consensus size: 52
4932998 GATTATCTCG
*
4933008 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
4933060 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* * *
4933117 TTGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCGATTTTCATTTCGCA
4933169 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
4933221 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
4933274 TTGCGATTTTCAT
1 TTGCGATTTTCAT
4933287 GTTGGGATTT
Statistics
Matches: 212, Mismatches: 7, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
51 3 0.01
52 152 0.72
53 19 0.09
54 6 0.03
55 8 0.04
57 24 0.11
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:4935635 original size:12 final size:12
Alignment explanation
Indices: 4935618--4935642 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4935608 TCTTCGGGGA
4935618 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4935630 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4935642 C
1 C
4935643 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:4935851 original size:24 final size:24
Alignment explanation
Indices: 4935817--4935863 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4935807 CTGAAACATC
4935817 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
4935841 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
4935864 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:4936565 original size:20 final size:20
Alignment explanation
Indices: 4936537--4936905 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
4936527 AAATTTCAGT
* * * *
4936537 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
4936557 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
4936577 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
4936597 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
4936617 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4936637 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
4936657 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
4936677 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4936697 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4936717 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
4936737 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
4936757 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4936777 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
4936797 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
4936817 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
4936837 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
4936857 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
4936877 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
4936897 GTTGCGATT
1 GTTGCGATT
4936906 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:4937321 original size:31 final size:31
Alignment explanation
Indices: 4937281--4937347 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
4937271 TACAATATAA
*
4937281 TCCCCCAACATTTAGTCCGTTTGCAATATGG
1 TCCCTCAACATTTAGTCCGTTTGCAATATGG
*
4937312 TCCCTCAACATTTAGTCCGTTTGTAATATGG
1 TCCCTCAACATTTAGTCCGTTTGCAATATGG
4937343 TCCCT
1 TCCCT
4937348 AACGTAACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (31 bp):
TCCCTCAACATTTAGTCCGTTTGCAATATGG
Found at i:4938508 original size:140 final size:140
Alignment explanation
Indices: 4938247--4938642 Score: 444
Period size: 139 Copynumber: 2.9 Consensus size: 140
4938237 GTAGGCTCTC
* * * * *
4938247 ATTCTAATGAATTTTATCAAACTATTGGTTAGAATAGCTAAAATGGAACCTTAAGTATAAATGCG
1 ATTCTAATGAATTTTATCAAATTATTGGTTAGAATAACTAAAATGGAACCTCAGGTATAAATGTG
* * * *
4938312 ATGATCAACTCAGAAAGTCTCCTATTATTAAAAGACTAAAGTGAAATTAAAC-TAAAAATGAAAG
66 AGGACCAAATCAGAAATTCTCCTA-TATTAAAAGACTAAAGTGAAATTAAACTTAAAAATGAAAG
*
4938376 TTTTAATAATA
130 CTTTAATAATA
* * * * * * *
4938387 ATTCTAATGAGTTTTATTAAATTATTGGTTCGAATAACGAAAGTGGAACATCAGGTATAAATGTA
1 ATTCTAATGAATTTTATCAAATTATTGGTTAGAATAACTAAAATGGAACCTCAGGTATAAATGTG
* *
4938452 AGGACCAAATCATAAATTCTCCTAAATTAAAAGACTAAAGTGAAATTAAACTT-AAAATGAAAGC
66 AGGACCAAATCAGAAATTCTCCTATATTAAAAGACTAAAGTGAAATTAAACTTAAAAATGAAAGC
4938516 TTTAATAATA
131 TTTAATAATA
* ** * * * * * *
4938526 ATCCTAACCAACTTTAGCAATTTATTGGTTTGAATAACTAAAATGGAACCTCGGGCA-AAA-GTG
1 ATTCTAATGAATTTTATCAAATTATTGGTTAGAATAACTAAAATGGAACCTCAGGTATAAATGTG
* * * * *
4938589 AGGACCAAATAAGAAATTCTCTTATATT-AAAGATTAAATTGGAATTAAA-TTAAA
66 AGGACCAAATCAGAAATTCTCCTATATTAAAAGACTAAAGTGAAATTAAACTTAAA
4938643 TAGAGGCTCT
Statistics
Matches: 213, Mismatches: 41, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
135 2 0.01
136 20 0.09
137 26 0.12
138 3 0.01
139 89 0.42
140 73 0.34
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (140 bp):
ATTCTAATGAATTTTATCAAATTATTGGTTAGAATAACTAAAATGGAACCTCAGGTATAAATGTG
AGGACCAAATCAGAAATTCTCCTATATTAAAAGACTAAAGTGAAATTAAACTTAAAAATGAAAGC
TTTAATAATA
Found at i:4938979 original size:15 final size:14
Alignment explanation
Indices: 4938941--4938984 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
4938931 ATTGAAATTG
*
4938941 AAATACAGAAAACTT
1 AAATACAGAAATC-T
4938956 AAAATACAGAAATCT
1 -AAATACAGAAATCT
4938971 AAATAACAGAAATC
1 AAAT-ACAGAAATC
4938985 ACAATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.61, C:0.14, G:0.07, T:0.18
Consensus pattern (14 bp):
AAATACAGAAATCT
Found at i:4942120 original size:22 final size:19
Alignment explanation
Indices: 4942074--4942146 Score: 85
Period size: 19 Copynumber: 3.7 Consensus size: 19
4942064 ATGCTCAAAT
*
4942074 GGTACCGATACCCCCCAT-A
1 GGTATCGATA-CCCCCATAA
4942093 GGTATCGATACCCCCATGAAAA
1 GGTATCGATACCCCCAT---AA
*
4942115 GGTATCGATACCCCCATAT
1 GGTATCGATACCCCCATAA
4942134 GGTATCGATACCC
1 GGTATCGATACCC
4942147 TAAGGCATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
18 7 0.15
19 23 0.48
22 18 0.38
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.21
Consensus pattern (19 bp):
GGTATCGATACCCCCATAA
Found at i:4946529 original size:31 final size:31
Alignment explanation
Indices: 4946491--4946556 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
4946481 TTTATTAGTA
4946491 GTTCAAATTTATGTTGATGATATAATATTCG
1 GTTCAAATTTATGTTGATGATATAATATTCG
*
4946522 GTTCAAATTTATTTTGATGATATAATATTCG
1 GTTCAAATTTATGTTGATGATATAATATTCG
4946553 GTTC
1 GTTC
4946557 TACTAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (31 bp):
GTTCAAATTTATGTTGATGATATAATATTCG
Found at i:4947771 original size:21 final size:22
Alignment explanation
Indices: 4947742--4947862 Score: 101
Period size: 21 Copynumber: 5.6 Consensus size: 22
4947732 ATTTTTGTGC
4947742 ATAGAGTATCGATACCCCTTAGA
1 ATAG-GTATCGATACCCCTTAGA
* *
4947765 CT-GGTATCGATACCCCCTTTGA
1 ATAGGTATCGATA-CCCCTTAGA
*
4947787 ATAGGTATCGATACCCCTT-CA
1 ATAGGTATCGATACCCCTTAGA
*
4947808 ATAGATATCGATACCATCCTT-GA
1 ATAGGTATCGATACC--CCTTAGA
* * *
4947831 ATGGGTATTGATACCCCCT-G-
1 ATAGGTATCGATACCCCTTAGA
4947851 AT-GGTATCGATA
1 ATAGGTATCGATA
4947863 TCTTATACGG
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
19 9 0.11
20 2 0.02
21 28 0.34
22 16 0.19
23 28 0.34
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (22 bp):
ATAGGTATCGATACCCCTTAGA
Found at i:4947797 original size:23 final size:23
Alignment explanation
Indices: 4947742--4947849 Score: 100
Period size: 23 Copynumber: 4.8 Consensus size: 23
4947732 ATTTTTGTGC
*
4947742 ATAGAGTATCGATA-CCCCTTAGA
1 ATAG-GTATCGATACCCCCTTTGA
*
4947765 CT-GGTATCGATACCCCCTTTGA
1 ATAGGTATCGATACCCCCTTTGA
*
4947787 ATAGGTATCGATA-CCCC-TTCA
1 ATAGGTATCGATACCCCCTTTGA
* *
4947808 ATAGATATCGATACCATCC-TTGA
1 ATAGGTATCGATACC-CCCTTTGA
* *
4947831 ATGGGTATTGATACCCCCT
1 ATAGGTATCGATACCCCCT
4947850 GATGGTATCG
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
21 24 0.35
22 17 0.25
23 28 0.41
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (23 bp):
ATAGGTATCGATACCCCCTTTGA
Found at i:4947817 original size:44 final size:44
Alignment explanation
Indices: 4947742--4947847 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 44
4947732 ATTTTTGTGC
*
4947742 ATAGAGTATCGATACCCCTTAGACTGGTATCGATACC-CCCTTTGA
1 ATAG-GTATCGATACCCCTTAGACTGATATCGATACCACCC-TTGA
*
4947787 ATAGGTATCGATACCCCTTCA-A-TAGATATCGATACCATCCTTGA
1 ATAGGTATCGATACCCCTT-AGACT-GATATCGATACCACCCTTGA
* *
4947831 ATGGGTATTGATACCCC
1 ATAGGTATCGATACCCC
4947848 CTGATGGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
43 1 0.02
44 46 0.85
45 7 0.13
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
ATAGGTATCGATACCCCTTAGACTGATATCGATACCACCCTTGA
Found at i:4951478 original size:20 final size:20
Alignment explanation
Indices: 4951453--4951491 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4951443 TATCAATACC
*
4951453 CTCCCATATGAGTATCGATT
1 CTCCCATAAGAGTATCGATT
4951473 CTCCCATAAGAGTATCGAT
1 CTCCCATAAGAGTATCGAT
4951492 ACCTAAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (20 bp):
CTCCCATAAGAGTATCGATT
Found at i:4952189 original size:23 final size:23
Alignment explanation
Indices: 4952159--4952208 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
4952149 GTAGAGGAAA
4952159 ATATTTAGACATTAATAGTATCC
1 ATATTTAGACATTAATAGTATCC
4952182 ATATTTAGACATTAATAGTATCC
1 ATATTTAGACATTAATAGTATCC
4952205 ATAT
1 ATAT
4952209 AAGTGAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (23 bp):
ATATTTAGACATTAATAGTATCC
Found at i:4953757 original size:2 final size:2
Alignment explanation
Indices: 4953750--4953780 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4953740 CCCGATTTAT
4953750 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 T
4953781 TTTAATTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4954768 original size:2 final size:2
Alignment explanation
Indices: 4954757--4954873 Score: 190
Period size: 2 Copynumber: 60.5 Consensus size: 2
4954747 ATATACAAAT
4954757 TA TA -A TA TA TA TA TA TA -A T- TA -A TGA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
4954795 TA TA TA 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
4954837 TA TA 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 TA TA T
4954874 TATTCAAATT
Statistics
Matches: 109, Mismatches: 0, Indels: 12
0.90 0.00 0.10
Matches are distributed among these distances:
1 5 0.05
2 102 0.94
3 2 0.02
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4957582 original size:3 final size:3
Alignment explanation
Indices: 4957576--4957613 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4957566 AGATGATGAT
4957576 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
4957614 CGACCTACGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4957966 original size:27 final size:27
Alignment explanation
Indices: 4957936--4957987 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
4957926 CGAGTTCTTC
*
4957936 TAATTTTTTTTTGAAATTTAAAAATTT
1 TAATTTTATTTTGAAATTTAAAAATTT
*
4957963 TAATTTTATTTTGTAATTTAAAAAT
1 TAATTTTATTTTGAAATTTAAAAAT
4957988 AATATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
TAATTTTATTTTGAAATTTAAAAATTT
Found at i:4958634 original size:31 final size:31
Alignment explanation
Indices: 4958596--4958656 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
4958586 TGCCGAAACT
4958596 ATATTTTTTTATTCAAACTCATCACATTGAC
1 ATATTTTTTTATTCAAACTCATCACATTGAC
* *
4958627 ATATTTTTTTATTCGAACTCATCATATTGA
1 ATATTTTTTTATTCAAACTCATCACATTGA
4958657 AGTGACAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.48
Consensus pattern (31 bp):
ATATTTTTTTATTCAAACTCATCACATTGAC
Found at i:4963037 original size:3 final size:3
Alignment explanation
Indices: 4963024--4963115 Score: 71
Period size: 3 Copynumber: 31.3 Consensus size: 3
4963014 AAACATAAGC
* * * ** * *
4963024 AAT ACT AAT AAT AAT ACT AAT AAT AAT TAT AAT TTT AAT TAT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
4963072 AAT AAT AAT AGT TAT AAT -AT AAT ATT AAT AAT TAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4963116 TTTATAACTC
Statistics
Matches: 67, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
2 4 0.06
3 63 0.94
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (3 bp):
AAT
Found at i:4968324 original size:47 final size:45
Alignment explanation
Indices: 4968254--4968379 Score: 157
Period size: 47 Copynumber: 2.8 Consensus size: 45
4968244 TATAAAATCT
* *
4968254 CTTACCATTTATCCCATAAGCTCATAAGGTTATTTTACT-AAAATA
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTT-CTCAAAATA
* *
4968299 CTTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTTTCAATATA
1 CTTACCATTT--ATTCCATAAGCTCATAAGCTTATTTTCTCAAAATA
* *
4968346 CTTGCCA-TTATTCCATAAGCTCATAAGTTTATTT
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTT
4968380 GCTTGGTTAC
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
44 24 0.33
45 10 0.14
46 3 0.04
47 35 0.49
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTCTCAAAATA
Found at i:4975637 original size:44 final size:45
Alignment explanation
Indices: 4975517--4975642 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
4975507 TATAAAATCT
* * *
4975517 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACTAAAATA
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
* * *
4975562 CTTACCATTTAAATTCCATAAACTCATAAGCTTATTTTTCCAATATA
1 CTTACCATTT--ATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
*
4975609 CTTGCCA-TTATTCCATAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTT
4975643 GCTTGGTTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
44 24 0.34
45 10 0.14
46 2 0.03
47 35 0.49
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
Found at i:4976786 original size:30 final size:30
Alignment explanation
Indices: 4976752--4976815 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
4976742 CAACCATCAA
* * *
4976752 TTTTCCAAAATTTACGAATTGATCCCCAAC
1 TTTTCCAAAACTTACAAAATGATCCCCAAC
* *
4976782 TTTT-CAAAACTTACAAAATGGTCCCCAAT
1 TTTTCCAAAACTTACAAAATGATCCCCAAC
4976811 TTTTC
1 TTTTC
4976816 TAAGGCTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (30 bp):
TTTTCCAAAACTTACAAAATGATCCCCAAC
Found at i:4998078 original size:20 final size:20
Alignment explanation
Indices: 4998031--4998628 Score: 539
Period size: 20 Copynumber: 29.2 Consensus size: 20
4998021 AATGACCAAC
4998031 AAAATCGCAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
* *
4998050 AAAACCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* * **
4998070 AAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
4998090 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* * *
4998112 AGAATCGCAATGCGATTCAT
1 AAAATCGCAACGCGATTCAG
4998132 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
*
4998154 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
4998174 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
4998194 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
*
4998216 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
4998236 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
4998256 AGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
4998276 AGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
4998296 AGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
4998316 AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
4998336 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* * *
4998356 AGAATCACAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
4998376 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
4998396 AGAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
*
4998418 AGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
4998438 AGAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
*
4998460 AGAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* *
4998482 AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
4998502 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
4998522 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
4998542 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* *
4998564 AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
4998584 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
4998604 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
4998624 AAAAT
1 AAAAT
4998629 GAGTAAATTC
Statistics
Matches: 509, Mismatches: 38, Indels: 63
0.83 0.06 0.10
Matches are distributed among these distances:
18 1 0.00
19 29 0.06
20 342 0.67
21 7 0.01
22 123 0.24
23 7 0.01
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:4998141 original size:62 final size:59
Alignment explanation
Indices: 4998031--4998628 Score: 557
Period size: 62 Copynumber: 9.8 Consensus size: 59
4998021 AATGACCAAC
* * * * *
4998031 AAAATCGCAACGCGATAT-CAA-AACCGCAACGCGATTTAGAAAAGCGCAACGTTGAAAAG
1 AAAATCGCAACGCGAT-TCCAAGAATCGCAACGCGATTCAGAAAATCGCAACG-CGATAAG
* * ***
4998090 AAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCATAAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGA--TAAG
* ***
4998153 AAGAATCGCAACGCGATT-CAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCC
1 AA-AATCGCAACGCGATTCCA-AGAATCGCAACGCGATTCAGAAAATCGCAACGCGA--TAAG
* * ***
4998215 AAGAATCGCAACGCGATT-CAGAAAATCGCAACGCGATTCCA-AGAATCGCAACGCGATTCC
1 AA-AATCGCAACGCGATTCCA-AGAATCGCAACGCGATT-CAGAAAATCGCAACGCGATAAG
*
4998275 AAGAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCCA-AGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTCCAAGAATCGCAACGCGATT-CAGAAAATCGCAACGCGA-TAAG
* * ***
4998336 AAAATCGCAACGCGATTCCAAGAATCACAACGCGATTAAGAAAATCGCAACGCGATTCC
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGATAAG
* ***
4998395 AAGAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCCA-AGAATCGCAACGCGATCTTCC
1 AA-AATCGCAACGCGA--TTCCAAGAATCGCAACGCGATT-CAGAAAATCGCAACGCGA--TAAG
* *
4998459 AAGAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCAG
1 AA-AATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGA-TAAG
* *
4998522 AAAATCGCAACGCGATT-CAGAAAATCGCAACGCGATCTTCCA-AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCCA-AGAATCGCAACGCGA--TT-CAGAAAATCGCAACGCGA-TAAG
4998584 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAGAAAAT
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAGAAAAT
4998629 GAGTAAATTC
Statistics
Matches: 475, Mismatches: 39, Indels: 49
0.84 0.07 0.09
Matches are distributed among these distances:
59 23 0.05
60 140 0.29
61 13 0.03
62 216 0.45
63 12 0.03
64 71 0.15
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.16
Consensus pattern (59 bp):
AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGATAAG
Found at i:4998626 original size:40 final size:40
Alignment explanation
Indices: 4998088--4998628 Score: 693
Period size: 40 Copynumber: 13.2 Consensus size: 40
4998078 AACGTTGAAA
*
4998088 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTC
1 AGAAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTC
*
4998130 ATAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
1 AGAAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTC
*
4998172 AGAAAATCGCAACGCGATT-CAGAAAATCGCAACGCGATCTTCC
1 AGAAAATCGCAACGCGATTCCA-AGAATCGCAACGCGA--TT-C
* *
4998215 A-AGAATCGCAACGCGATT-CAGAAAATCGCAACGCGATTCC
1 AGAAAATCGCAACGCGATTCCA-AGAATCGCAACGCGATT-C
*
4998255 A-AGAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCC
1 AGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATT-C
* *
4998295 A-AGAATCGCAACGCGATTCCAAGAATCGCAACGCGATTA
1 AGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTC
* *
4998334 AGAAAATCGCAACGCGATTCCAAGAATCACAACGCGATTA
1 AGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTC
4998374 AGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATCTTCC
1 AGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGA--TT-C
*
4998417 A-AGAATCGCAACGCGATTCCAAGAATCGCAACGCGATCTTCC
1 AGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGA--TT-C
* *
4998459 A-AGAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTA
1 AGAAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTC
*
4998500 AGAAAATCGCAACGCGATT-CAGAAAATCGCAACGCGATTC
1 AGAAAATCGCAACGCGATTCCA-AGAATCGCAACGCGATTC
*
4998540 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTA
1 AGAAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTC
4998582 AGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTC
1 AGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTC
4998622 AGAAAAT
1 AGAAAAT
4998629 GAGTAAATTC
Statistics
Matches: 464, Mismatches: 19, Indels: 34
0.90 0.04 0.07
Matches are distributed among these distances:
39 5 0.01
40 230 0.50
41 3 0.01
42 201 0.43
43 5 0.01
44 20 0.04
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.16
Consensus pattern (40 bp):
AGAAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTC
Found at i:4998732 original size:6 final size:6
Alignment explanation
Indices: 4998721--4998760 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
4998711 GAAGACACGT
4998721 ACGACC ACGACC ACGACC ACGACC ACGACC -CGACC -CGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
4998761 CGAGACGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.29
6 24 0.71
ACGTcount: A:0.30, C:0.53, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:4999286 original size:15 final size:15
Alignment explanation
Indices: 4999263--4999310 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
4999253 CTCGTCTCGG
*
4999263 GTCGGGTCGGGTCGT
1 GTCGTGTCGGGTCGT
*
4999278 GTCGTGTCGTGTCGT
1 GTCGTGTCGGGTCGT
4999293 GTCGTGGTCGTGGTCGT
1 GTCGT-GTCG-GGTCGT
4999310 G
1 G
4999311 GCCACAAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 18 0.64
16 4 0.14
17 6 0.21
ACGTcount: A:0.00, C:0.19, G:0.48, T:0.33
Consensus pattern (15 bp):
GTCGTGTCGGGTCGT
Found at i:5000623 original size:16 final size:17
Alignment explanation
Indices: 5000585--5000625 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
5000575 GAGTATTTAA
*
5000585 AATTATTTTATACTATT
1 AATTATTTAATACTATT
5000602 AA-TATTTAATA-TATT
1 AATTATTTAATACTATT
5000617 AATTATTTA
1 AATTATTTA
5000626 CAATTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 14 0.64
17 2 0.09
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATTTAATACTATT
Found at i:5002078 original size:129 final size:129
Alignment explanation
Indices: 5001848--5002108 Score: 504
Period size: 129 Copynumber: 2.0 Consensus size: 129
5001838 TTTACTAAAA
*
5001848 ATAGAAAATATTTTAAATTATTTATATTCAAAATTATAAATTAAATGTAAAAAAAATTAAAAAAT
1 ATAGAAAATATTTTAAATTATTTATATTCAAAATTATAAATTAAATGTAAAAAAAAGTAAAAAAT
5001913 CTAATCAAATAAACTTAAACAAAAGATAGATGTAATCAAATCTGACTGTATTTGTAAATGAAAC
66 CTAATCAAATAAACTTAAACAAAAGATAGATGTAATCAAATCTGACTGTATTTGTAAATGAAAC
5001977 ATAGAAAATATTTTAAATTATTTATATTCAAAATTATAAATTAAATGTAAAAAAAAGTAAAAAAT
1 ATAGAAAATATTTTAAATTATTTATATTCAAAATTATAAATTAAATGTAAAAAAAAGTAAAAAAT
*
5002042 CTAATCAAATAAACTTGAACAAAAGATAGATGTAATCAAATCTGACTGTATTTGTAAATGAAAC
66 CTAATCAAATAAACTTAAACAAAAGATAGATGTAATCAAATCTGACTGTATTTGTAAATGAAAC
5002106 ATA
1 ATA
5002109 AAAGGGAATC
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 130 1.00
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (129 bp):
ATAGAAAATATTTTAAATTATTTATATTCAAAATTATAAATTAAATGTAAAAAAAAGTAAAAAAT
CTAATCAAATAAACTTAAACAAAAGATAGATGTAATCAAATCTGACTGTATTTGTAAATGAAAC
Found at i:5002783 original size:23 final size:22
Alignment explanation
Indices: 5002757--5002803 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
5002747 TTATTTTTAA
* *
5002757 TATATATACTTTTTAATAAATTT
1 TATATA-AATTTTTAATAAAATT
*
5002780 TATATAAATTTTTTATAAAATT
1 TATATAAATTTTTAATAAAATT
5002802 TA
1 TA
5002804 AAAGATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATAAATTTTTAATAAAATT
Found at i:5007268 original size:2 final size:2
Alignment explanation
Indices: 5007214--5007260 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
5007204 GATGACTTGC
5007214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5007256 AT AT A
1 AT AT A
5007261 CTTATATAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5007571 original size:119 final size:119
Alignment explanation
Indices: 5007360--5007598 Score: 469
Period size: 119 Copynumber: 2.0 Consensus size: 119
5007350 ATTATGCACA
*
5007360 TGTAATGAGGTGTAAATCAATTATGCCCTGATATGATAGTAGGTCCATAAATACTGCACTACAGT
1 TGTAAAGAGGTGTAAATCAATTATGCCCTGATATGATAGTAGGTCCATAAATACTGCACTACAGT
5007425 ATTTAAAAGCAATTATCTAGGAACGTGGTAAACTCCTGATCTCTTATTAAACTT
66 ATTTAAAAGCAATTATCTAGGAACGTGGTAAACTCCTGATCTCTTATTAAACTT
5007479 TGTAAAGAGGTGTAAATCAATTATGCCCTGATATGATAGTAGGTCCATAAATACTGCACTACAGT
1 TGTAAAGAGGTGTAAATCAATTATGCCCTGATATGATAGTAGGTCCATAAATACTGCACTACAGT
5007544 ATTTAAAAGCAATTATCTAGGAACGTGGTAAACTCCTGATCTCTTATTAAACTT
66 ATTTAAAAGCAATTATCTAGGAACGTGGTAAACTCCTGATCTCTTATTAAACTT
5007598 T
1 T
5007599 AGATGTTTTA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 119 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (119 bp):
TGTAAAGAGGTGTAAATCAATTATGCCCTGATATGATAGTAGGTCCATAAATACTGCACTACAGT
ATTTAAAAGCAATTATCTAGGAACGTGGTAAACTCCTGATCTCTTATTAAACTT
Found at i:5008990 original size:20 final size:20
Alignment explanation
Indices: 5008965--5009016 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
5008955 GTACTCAAAG
*
5008965 GAGTATTGATACCCAATGCA
1 GAGTATCGATACCCAATGCA
*
5008985 GAGTATCGATACCCAATGTA
1 GAGTATCGATACCCAATGCA
5009005 GAGTATCGATAC
1 GAGTATCGATAC
5009017 TCCCAATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (20 bp):
GAGTATCGATACCCAATGCA
Found at i:5009233 original size:20 final size:20
Alignment explanation
Indices: 5009205--5009254 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
5009195 GATATTGAAG
* *
5009205 ATATTGATACTCAA-GGTTCA
1 ATATCGATACTAAAGGGTT-A
5009225 ATATCGATACTAAAGGGTTA
1 ATATCGATACTAAAGGGTTA
*
5009245 ATATCAATAC
1 ATATCGATAC
5009255 CAACTGATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (20 bp):
ATATCGATACTAAAGGGTTA
Found at i:5012341 original size:20 final size:19
Alignment explanation
Indices: 5012300--5012347 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
5012290 AACGATTTTC
* *
5012300 TTTTGAAAACAAAAATAGA
1 TTTTGAAAGCAAAAATAAA
*
5012319 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAGCAAAAAT-AAA
5012339 TTTTGAAAG
1 TTTTGAAAG
5012348 AGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (19 bp):
TTTTGAAAGCAAAAATAAA
Found at i:5014425 original size:33 final size:33
Alignment explanation
Indices: 5014367--5014439 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
5014357 TAAAACCCCC
*
5014367 TTTTATCTTTATTACTATTTTTAATTCATTTATT
1 TTTTATCTTTATTACTATTTATAATT-ATTTATT
* *
5014401 TTTTATTTTTTTTA-TATTTATAATTATTTATT
1 TTTTATCTTTATTACTATTTATAATTATTTATT
5014433 TTATTAT
1 TT-TTAT
5014440 ACCTTTTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 9 0.26
33 14 0.40
34 12 0.34
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (33 bp):
TTTTATCTTTATTACTATTTATAATTATTTATT
Found at i:5028851 original size:5 final size:5
Alignment explanation
Indices: 5028841--5028866 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5028831 TGACTTAGAA
5028841 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
5028867 AATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:5037208 original size:19 final size:20
Alignment explanation
Indices: 5037157--5037209 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
5037147 ATTTCAGAAT
* *
5037157 TTATTTTCTAAA-TCAGAAC
1 TTATTTTCGAAATTCAAAAC
*
5037176 TTA-TTTCGAGATTCAAAAC
1 TTATTTTCGAAATTCAAAAC
5037195 TTATTTTC-AAATTCA
1 TTATTTTCGAAATTCA
5037210 TAGCTCAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 6 0.21
19 18 0.64
20 4 0.14
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (20 bp):
TTATTTTCGAAATTCAAAAC
Found at i:5040765 original size:2 final size:2
Alignment explanation
Indices: 5040758--5040812 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
5040748 ACTTTATAAG
5040758 TA TA TA 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
5040800 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
5040813 TCACATGGTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5041334 original size:10 final size:10
Alignment explanation
Indices: 5041267--5041351 Score: 55
Period size: 10 Copynumber: 7.7 Consensus size: 10
5041257 TACATCATAC
5041267 ATATATACTT
1 ATATATACTT
*
5041277 ATGTATACATAT
1 ATATATAC-T-T
5041289 ACTTATATA-TT
1 A--TATATACTT
5041300 ATACTTGATACTT
1 ATA--T-ATACTT
*
5041313 ATATATATTT
1 ATATATACTT
5041323 ATATATACTT
1 ATATATACTT
*
5041333 ATATACATTCTT
1 ATAT--ATACTT
5041345 ATATATA
1 ATATATA
5041352 TAGATACTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
9 2 0.03
10 27 0.46
11 5 0.08
12 15 0.25
13 5 0.08
14 5 0.08
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.49
Consensus pattern (10 bp):
ATATATACTT
Found at i:5041349 original size:2 final size:2
Alignment explanation
Indices: 5041218--5041329 Score: 65
Period size: 2 Copynumber: 56.0 Consensus size: 2
5041208 GCACAATTAT
* *
5041218 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TG TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
5041259 CA TCA TA CA TA TA TA CT- TA TG TA TA CA TA TA CT- TA TA TA T-
1 TA T-A TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA
*
5041299 TA TA CT- TGA TA CT- TA TA TA TA TT TA TA TA TA
1 TA TA -TA T-A TA -TA TA TA TA TA TA TA TA TA TA
5041330 CTTATATACA
Statistics
Matches: 84, Mismatches: 14, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
1 6 0.07
2 71 0.85
3 7 0.08
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:5041351 original size:16 final size:16
Alignment explanation
Indices: 5041217--5041363 Score: 60
Period size: 16 Copynumber: 9.3 Consensus size: 16
5041207 TGCACAATTA
*
5041217 TTATATATATATATA-
1 TTATATATATACATAC
*
5041232 -TATATATATATATA-
1 TTATATATATACATAC
*
5041246 -TAT-TATGTACATAC
1 TTATATATATACATAC
* *
5041260 --ATCATACATATATAC
1 TTAT-ATATATACATAC
* * *
5041275 TTATGTATACATATAC
1 TTATATATATACATAC
5041291 TTATATATTATACTTGATAC
1 TTATATA-TATAC---ATAC
**
5041311 TTATATATATTTATA-
1 TTATATATATACATAC
*
5041326 -TATACTTATATACATTC
1 TTATA--TATATACATAC
*
5041343 TTATATATATAGATAC
1 TTATATATATACATAC
5041359 TTATA
1 TTATA
5041364 CTTATAAGTA
Statistics
Matches: 101, Mismatches: 18, Indels: 25
0.70 0.12 0.17
Matches are distributed among these distances:
13 10 0.10
14 21 0.21
15 8 0.08
16 39 0.39
17 5 0.05
18 4 0.04
19 3 0.03
20 11 0.11
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.48
Consensus pattern (16 bp):
TTATATATATACATAC
Found at i:5041369 original size:20 final size:20
Alignment explanation
Indices: 5041280--5041369 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
5041270 TATACTTATG
*
5041280 TATACATATACTTATATAT-
1 TATACTTATACTTATATATA
5041299 TATACTTGATACTTATATATA
1 TATACTT-ATACTTATATATA
* *
5041320 TTTA-TATATACTTATATACA
1 TATACT-TATACTTATATATA
5041340 T-T-C-T-TA--TATATATA
1 TATACTTATACTTATATATA
*
5041354 GATACTTATACTTATA
1 TATACTTATACTTATA
5041370 AGTATAATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
14 7 0.12
15 1 0.02
16 3 0.05
17 2 0.04
18 2 0.04
19 7 0.12
20 30 0.54
21 4 0.07
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (20 bp):
TATACTTATACTTATATATA
Found at i:5041402 original size:20 final size:19
Alignment explanation
Indices: 5041360--5041402 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
5041350 TATAGATACT
* * *
5041360 TATACTTATAAGTATAATT
1 TATACTTATAAATAAAATG
5041379 TATACATTATAAATAAAATG
1 TATAC-TTATAAATAAAATG
5041399 TATA
1 TATA
5041403 TGTATATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
TATACTTATAAATAAAATG
Found at i:5041465 original size:13 final size:13
Alignment explanation
Indices: 5041449--5041473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5041439 ATAATGTATA
5041449 TATTATATACTTG
1 TATTATATACTTG
5041462 TATTATATACTT
1 TATTATATACTT
5041474 ACAAGTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
TATTATATACTTG
Found at i:5041490 original size:32 final size:32
Alignment explanation
Indices: 5041447--5041521 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
5041437 GTATAATGTA
* *
5041447 TATATTATATACTTGTATTATATACTTACAAG
1 TATAATATATACTTATATTATATACTTACAAG
* *
5041479 TATAATGTATACTTATATTATATACTTATAAG
1 TATAATATATACTTATATTATATACTTACAAG
5041511 TATAATATATA
1 TATAATATATA
5041522 TATATAGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (32 bp):
TATAATATATACTTATATTATATACTTACAAG
Done.