Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 19 of 186
Found at i:5794060 original size:3 final size:3
Alignment explanation
Indices: 5794052--5794077 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5794042 CCCCTCAAGT
5794052 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
5794078 TTAATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5799226 original size:14 final size:14
Alignment explanation
Indices: 5799197--5799225 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
5799187 ATGAATCTCG
5799197 AATAAATAATAAAA
1 AATAAATAATAAAA
5799211 AATAAA-AATAAAA
1 AATAAATAATAAAA
5799224 AA
1 AA
5799226 ACAACCATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AATAAATAATAAAA
Found at i:5800209 original size:18 final size:19
Alignment explanation
Indices: 5800181--5800220 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
5800171 AAAAAAAGTA
*
5800181 AAATAAAATAAGATAAAAC
1 AAATAAAATAAGAGAAAAC
5800200 AAAT-AAATAAGAGAAAAC
1 AAATAAAATAAGAGAAAAC
5800218 AAA
1 AAA
5800221 GAAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (19 bp):
AAATAAAATAAGAGAAAAC
Found at i:5801120 original size:20 final size:18
Alignment explanation
Indices: 5801072--5801120 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
5801062 AAAATAAAAT
*
5801072 AAAATAAAAATATATTAA
1 AAAATAAAAATAAATTAA
5801090 AAAATGCAAAAATAAATTTAA
1 AAAAT--AAAAATAAA-TTAA
5801111 GAAAATAAAA
1 -AAAATAAAA
5801121 CAAATGGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
20 12 0.46
21 4 0.15
22 5 0.19
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (18 bp):
AAAATAAAAATAAATTAA
Found at i:5802026 original size:13 final size:13
Alignment explanation
Indices: 5802008--5802063 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
5801998 TAGATTTTTC
5802008 CTAAATATTATCA
1 CTAAATATTATCA
5802021 CTAAATA--ATC-
1 CTAAATATTATCA
5802031 CTAAATATTATCA
1 CTAAATATTATCA
*
5802044 CTAAATGTTATCA
1 CTAAATATTATCA
5802057 CTAAATA
1 CTAAATA
5802064 ATTCAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 7 0.18
11 3 0.08
12 3 0.08
13 25 0.66
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:5802033 original size:23 final size:23
Alignment explanation
Indices: 5802006--5802049 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
5801996 GCTAGATTTT
5802006 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
5802029 TCCTAAATATTATCACTAAAT
1 TCCTAAATATTATCACTAAAT
5802050 GTTATCACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:5802085 original size:36 final size:36
Alignment explanation
Indices: 5802008--5802078 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
5801998 TAGATTTTTC
**
5802008 CTAAATATTATCACTAAATAATCCTAAATATTATCA
1 CTAAATATTATCACTAAATAATCCTAAATATTAAAA
* * *
5802044 CTAAATGTTATCACTAAATAATTC-AAATTTTAAAA
1 CTAAATATTATCACTAAATAATCCTAAATATTAAAA
5802079 ATTAAATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (36 bp):
CTAAATATTATCACTAAATAATCCTAAATATTAAAA
Found at i:5803161 original size:29 final size:30
Alignment explanation
Indices: 5803123--5803198 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
5803113 TTTTTTAAAA
* *
5803123 AAATTGCATTTTGACCCCT-AACTTTTTTG
1 AAATTGCATTTTAACCCCTAAACTTTCTTG
* * *
5803152 AAATTACATTTCAACCCTTAAACTTTCTTG
1 AAATTGCATTTTAACCCCTAAACTTTCTTG
5803182 AAATTGCATTTTAACCC
1 AAATTGCATTTTAACCC
5803199 TTGAACATTC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (30 bp):
AAATTGCATTTTAACCCCTAAACTTTCTTG
Found at i:5803183 original size:30 final size:30
Alignment explanation
Indices: 5803142--5803222 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
5803132 TTTGACCCCT
*
5803142 AACTTTTTTGAAATTACATTTCAACCCTTA
1 AACTTTCTTGAAATTACATTTCAACCCTTA
* * *
5803172 AACTTTCTTGAAATTGCATTTTAACCCTTG
1 AACTTTCTTGAAATTACATTTCAACCCTTA
* *
5803202 AACATTCCT-AGAATTACATTT
1 AACTTTCTTGA-AATTACATTT
5803223 TGACCCTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 1 0.02
30 42 0.98
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (30 bp):
AACTTTCTTGAAATTACATTTCAACCCTTA
Found at i:5803775 original size:19 final size:19
Alignment explanation
Indices: 5803746--5803806 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
5803736 ATCGTGAAAG
**
5803746 AAAGA-AAGAAATTAAGAA
1 AAAGAGAAGAAAGAAAGAA
5803764 AAAGAGAAGAAAGAAAGAA
1 AAAGAGAAGAAAGAAAGAA
5803783 AGAA-AGAAGAAAGGGAAAGAA
1 A-AAGAGAAGAAA--GAAAGAA
5803804 AAA
1 AAA
5803807 AAATTTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 5 0.14
19 20 0.54
20 4 0.11
21 8 0.22
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (19 bp):
AAAGAGAAGAAAGAAAGAA
Found at i:5803789 original size:27 final size:29
Alignment explanation
Indices: 5803741--5803804 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 29
5803731 CGCTGATCGT
**
5803741 GAAAGAAAGAAAGAAATTAAGAA-AAAGA
1 GAAAGAAAGAAAGAAAGAAAGAAGAAAGA
*
5803769 G-AAGAAAGAAAGAAAGAAAGAAGAAAGG
1 GAAAGAAAGAAAGAAAGAAAGAAGAAAGA
5803797 GAAAGAAA
1 GAAAGAAA
5803805 AAAAATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 19 0.61
28 6 0.19
29 6 0.19
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (29 bp):
GAAAGAAAGAAAGAAAGAAAGAAGAAAGA
Found at i:5803804 original size:4 final size:4
Alignment explanation
Indices: 5803741--5803795 Score: 62
Period size: 4 Copynumber: 14.2 Consensus size: 4
5803731 CGCTGATCGT
**
5803741 GAAA GAAA GAAA GAAA TTAA G-AA -AAA GAGAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA GAAA GAAA GAAA
5803788 G-AA GAAA G
1 GAAA GAAA G
5803796 GGAAAGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
3 7 0.16
4 33 0.75
5 4 0.09
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (4 bp):
GAAA
Found at i:5804109 original size:23 final size:23
Alignment explanation
Indices: 5804068--5804111 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
5804058 AGTCCAGAAA
**
5804068 AAAAAAAGAGGAAGAAAAAAAAG
1 AAAAAAAGAAAAAGAAAAAAAAG
*
5804091 AAAAAAAGAAAAAGGAAAAAA
1 AAAAAAAGAAAAAGAAAAAAA
5804112 CCAAACTTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (23 bp):
AAAAAAAGAAAAAGAAAAAAAAG
Found at i:5804596 original size:16 final size:17
Alignment explanation
Indices: 5804566--5804708 Score: 141
Period size: 17 Copynumber: 8.3 Consensus size: 17
5804556 CGTCCTTTTA
5804566 AAAAATTTCTCGTGTTTC
1 AAAAATTT-TCGTGTTTC
5804584 -AAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
5804601 AAAAATTTTTCGTGTTTC
1 AAAAA-TTTTCGTGTTTC
*
5804619 -AAAAGTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
5804635 AAAAAATTCCTGTGTTTC
1 AAAAATTTTC-GTGTTTC
*
5804653 AAAAATTTCCGTGTCTTC
1 AAAAATTTTCGTGT-TTC
*
5804671 AAAAAATATT-GTGTTTC
1 -AAAAATTTTCGTGTTTC
* *
5804688 -AAAATTATCGTGTTTT
1 AAAAATTTTCGTGTTTC
5804704 AAAAA
1 AAAAA
5804709 AAATTTCGTA
Statistics
Matches: 107, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.06
16 22 0.21
17 33 0.31
18 31 0.29
19 15 0.14
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:5804614 original size:35 final size:35
Alignment explanation
Indices: 5804561--5804724 Score: 183
Period size: 35 Copynumber: 4.7 Consensus size: 35
5804551 CGATACGTCC
5804561 TTTT-AAAAAATTTCTCGTGTTTCAAAATTTTCGTG
1 TTTTCAAAAAATTT-TCGTGTTTCAAAATTTTCGTG
* *
5804596 TTTTCAAAAATTTTTCGTGTTTCAAAAGTTTCGTG
1 TTTTCAAAAAATTTTCGTGTTTCAAAATTTTCGTG
* *
5804631 -TTTCAAAAAA-TTCCTGTGTTTCAAAAATTTCCGTG
1 TTTTCAAAAAATTTTC-GTGTTTC-AAAATTTTCGTG
* * *
5804666 TCTTCAAAAAATATT-GTGTTTCAAAATTATCGTG
1 TTTTCAAAAAATTTTCGTGTTTCAAAATTTTCGTG
* * *
5804700 TTTTAAAAAAAATTTCGTATTTCAA
1 TTTTCAAAAAATTTTCGTGTTTCAA
5804725 TCGGATCACG
Statistics
Matches: 107, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
33 3 0.03
34 37 0.35
35 49 0.46
36 17 0.16
37 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (35 bp):
TTTTCAAAAAATTTTCGTGTTTCAAAATTTTCGTG
Found at i:5808109 original size:4 final size:4
Alignment explanation
Indices: 5808084--5808120 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
5808074 CATAACTAAT
*
5808084 ATTC ATT- ATTC ATT- AGTC ATTC ATTC ATTC ATTC ATT
1 ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATT
5808121 GCATGTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 5 0.17
4 24 0.83
ACGTcount: A:0.27, C:0.19, G:0.03, T:0.51
Consensus pattern (4 bp):
ATTC
Found at i:5819950 original size:16 final size:17
Alignment explanation
Indices: 5819929--5819960 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5819919 AAATGTGCAA
5819929 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
5819945 TCACATAACTTCATAT
1 TCACATAACTTCATAT
5819961 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:5820187 original size:43 final size:43
Alignment explanation
Indices: 5820140--5820290 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 43
5820130 TCCCAAACGT
* *
5820140 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGAAAACACATATCGATGCCACTGTCCCAGACAG
* * * * * *
5820183 GGTCTTATA-CAAATCAAATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACATGAAAACACATATCGATGCCACTGTCCCAGACAG
*
5820224 GGTCTTACA-CATAAACACA-AGTCGATGCCAAC-GTCCCAGAC-G
1 GGTCTTACATGA-AAACACATA-TCGATGCC-ACTGTCCCAGACAG
*
5820266 TGGTCTTTCATGAAAACAC-TATCGA
1 -GGTCTTACATGAAAACACATATCGA
5820291 AATCCTAGGT
Statistics
Matches: 88, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
41 30 0.34
42 17 0.19
43 39 0.44
44 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
GGTCTTACATGAAAACACATATCGATGCCACTGTCCCAGACAG
Found at i:5820216 original size:41 final size:42
Alignment explanation
Indices: 5820121--5820272 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 42
5820111 GACTCGTACA
* * ** *
5820121 ATGCCAACGTCCCAAAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACATAATCAAATA-CG
* *
5820164 ATGCCACTGTCCCAGACAGGGTCTTATACA-AATCAAATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACATAATCAAATACG
* *
5820205 ATGCCAATGTCCCAGACATGGTCTTACACATAAACACAAGT-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACATAATCA-AA-TACG
*
5820248 ATGCCAACGTCCCAGAC-GTGGTCTT
1 ATGCCAATGTCCCAGACAG-GGTCTT
5820273 TCATGAAAAC
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
41 29 0.32
42 12 0.13
43 48 0.53
44 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACATAATCAAATACG
Found at i:5822427 original size:78 final size:76
Alignment explanation
Indices: 5822306--5823082 Score: 865
Period size: 78 Copynumber: 10.1 Consensus size: 76
5822296 AAGAATTAAT
* * *
5822306 TTTCAATTTTTGC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCGCACGCCGA
1 TTTCTATTTTT-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGA
5822370 GGTATTTTTCAAA
65 GGTATTTTTC-AA
* * * *
5822383 TTTCTATTTTTCAAAAAAATCAACTCGTATTGCGAGAAGTGAGTTGAGCCTCGGACACATGCCGA
1 TTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGA
*
5822448 GGTATTTCTTTTAAA
65 GGTA--T-TTTTCAA
* * *
5822463 TTTCTATTTTTC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGACACATGCCGAG
1 TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAG
*
5822527 GTATTTCTTTTAAA
66 GTA--T-TTTTCAA
* *
5822541 TTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACATC-CTG
1 TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACA-CGCCG
*
5822604 AGGTATTTTTCAG
64 AGGTATTTTTCAA
* ** * *
5822617 TTTCTGTTTTTCAAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTTGGGTCACATC-CTG
1 TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACA-CGCCG
*
5822681 AGGTATTTTTCAG
64 AGGTATTTTTCAA
* *
5822694 TTTCTATTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATC-CTG
1 TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACA-CGCCG
*
5822758 AGGTA-TTTTCAG
64 AGGTATTTTTCAA
* * * * * *
5822770 TTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGACAAATGCCGAT
1 TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAG
*
5822835 GTATTTCTTTTAAA
66 GTA--T-TTTTCAA
* * *
5822849 TTTCTGTTTTTC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATC-CTG
1 TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACA-CGCCG
*
5822912 AGGTA-TTTTCAG
64 AGGTATTTTTCAA
* * * * * *
5822924 TTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGACAAATGCCGAT
1 TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAG
*
5822989 GTATTTCTTTTAAA
66 GTA--T-TTTTCAA
* *
5823003 TTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACACGCCGA
1 TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACACGCCGA
5823067 GGTATTTTTCAA
65 GGTATTTTTCAA
5823079 TTTC
1 TTTC
5823083 AGTTAAAAAA
Statistics
Matches: 614, Mismatches: 64, Indels: 45
0.85 0.09 0.06
Matches are distributed among these distances:
75 35 0.06
76 122 0.20
77 136 0.22
78 236 0.38
79 66 0.11
80 15 0.02
81 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (76 bp):
TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCCGAG
GTATTTTTCAA
Found at i:5823094 original size:154 final size:155
Alignment explanation
Indices: 5822319--5823082 Score: 1066
Period size: 154 Copynumber: 4.9 Consensus size: 155
5822309 CAATTTTTGC
* * * * *
5822319 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCGCACGCCGAGGTA-TT-TTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAA
* * *
5822382 ATTTCTATTTTTCAAAAAAATCAACTCGTATTGCGAGAAGTGAGTTGAGCCTC-GGACACATGCC
66 ATTTCTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT-CC
* * *
5822446 -GAGGTATTTCTTTTAAATTTCTATTTTTC-
128 TGAGGTA--T-TTTTCAGTTTCTGTTTTTCA
*
5822475 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAA
*
5822540 ATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACATCCTGA
66 ATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCCTGA
5822605 GGTATTTTTCAGTTTCTGTTTTTCA
131 GGTATTTTTCAGTTTCTGTTTTTCA
** * *
5822630 AAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTTGGGTCACAT-CCTGAGGTA--T-TTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGACACATGCC-GAGGTATTTCTTTT
* * *
5822691 CAGTTTCTATTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCC
64 AAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCC
5822756 TGAGGTA-TTTTCAGTTTCTGTTTTTCA
128 TGAGGTATTTTTCAGTTTCTGTTTTTCA
* * *
5822783 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGACAAATGCCGATGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAA
* *
5822848 ATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATCCTGA
66 ATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCCTGA
5822913 GGTA-TTTTCAGTTTCTGTTTTTCA
131 GGTATTTTTCAGTTTCTGTTTTTCA
* * *
5822937 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGACAAATGCCGATGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAA
* * *
5823002 ATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACA-CGCCG
66 ATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATC-CTG
*
5823066 AGGTATTTTTCAATTTC
130 AGGTATTTTTCAGTTTC
5823083 AGTTAAAAAA
Statistics
Matches: 556, Mismatches: 38, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
152 12 0.02
153 73 0.13
154 273 0.49
155 64 0.12
156 101 0.18
157 15 0.03
158 18 0.03
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (155 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAA
ATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCCTGA
GGTATTTTTCAGTTTCTGTTTTTCA
Found at i:5823332 original size:30 final size:30
Alignment explanation
Indices: 5823271--5823397 Score: 114
Period size: 30 Copynumber: 4.3 Consensus size: 30
5823261 GTTTCTAAAA
* * **
5823271 AAAATTGCATTTTGACCCCT-AACTTTTTT
1 AAAATTACATTTTAACCCCTAAACTTTCCT
* *
5823300 AAAATTACATTTCAACCCCTAAACTTTCTT
1 AAAATTACATTTTAACCCCTAAACTTTCCT
** * *
5823330 AAAATTGTATTTTAACCCTTGAACTTTCCT
1 AAAATTACATTTTAACCCCTAAACTTTCCT
* * * *
5823360 AGAATTACATTTTGA-CCCTAAATTTTCCC
1 AAAATTACATTTTAACCCCTAAACTTTCCT
5823389 AAAATTACA
1 AAAATTACA
5823398 CTTTGGCCAC
Statistics
Matches: 78, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
29 35 0.45
30 43 0.55
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAACTTTCCT
Found at i:5823393 original size:59 final size:59
Alignment explanation
Indices: 5823271--5823394 Score: 133
Period size: 59 Copynumber: 2.1 Consensus size: 59
5823261 GTTTCTAAAA
* ** **
5823271 AAAATTGCATTTTGACCCCTAACTTTTTTAAAATTACATTTCAACCCCTAAACTTTCTT
1 AAAATTGCATTTTAACCCCTAACTTTCCTAAAATTACATTTCAACCCCTAAACTTTCCC
* * * ** *
5823330 AAAATTGTATTTTAACCCTTGAACTTTCCTAGAATTACATTTTGA-CCCTAAATTTTCCC
1 AAAATTGCATTTTAACCCCT-AACTTTCCTAAAATTACATTTCAACCCCTAAACTTTCCC
5823389 AAAATT
1 AAAATT
5823395 ACACTTTGGC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
59 34 0.64
60 19 0.36
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (59 bp):
AAAATTGCATTTTAACCCCTAACTTTCCTAAAATTACATTTCAACCCCTAAACTTTCCC
Found at i:5823926 original size:23 final size:21
Alignment explanation
Indices: 5823900--5823979 Score: 72
Period size: 23 Copynumber: 3.6 Consensus size: 21
5823890 CTGATCGTGA
*
5823900 AAGAAAGAAAGAAAGAAAAAGAG
1 AAGAAAGAAAAAAAG-AAAA-AG
*
5823923 AAGAAAGAAAAAAAGAAGAAG
1 AAGAAAGAAAAAAAGAAAAAG
*
5823944 AAGAAAGAAGAAGGAAGAAGAAAG
1 AAGAAAGAA-AA-AAAGAA-AAAG
*
5823968 -GGAAAGAAAAAA
1 AAGAAAGAAAAAA
5823980 TTTTAATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 12 0.25
22 7 0.15
23 26 0.54
24 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AAGAAAGAAAAAAAGAAAAAG
Found at i:5823965 original size:13 final size:13
Alignment explanation
Indices: 5823904--5823962 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 13
5823894 TCGTGAAAGA
*
5823904 AAGAAAGAAAGAAA
1 AAGAAAG-AAGAAG
5823918 AAGAGAAGAAAGAA-
1 AAGA-AAG-AAGAAG
5823932 AA-AAAGAAGAAG
1 AAGAAAGAAGAAG
5823944 AAGAAAGAAGAAGG
1 AAGAAAGAAGAA-G
5823958 AAGAA
1 AAGAA
5823963 GAAAGGGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
11 5 0.12
12 5 0.12
13 10 0.24
14 12 0.29
15 9 0.22
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAGAAG
Found at i:5823976 original size:4 final size:4
Alignment explanation
Indices: 5823898--5823952 Score: 57
Period size: 4 Copynumber: 14.8 Consensus size: 4
5823888 CGCTGATCGT
*
5823898 GAAA GAAA GAAA GAAA G-AA -AAA GAGAA GAAA GAAA AAAA G-AA G-AA
1 GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA GAAA GAAA GAAA GAAA
5823943 G-AA GAAA GAA
1 GAAA GAAA GAA
5823953 GAAGGAAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
3 13 0.29
4 28 0.62
5 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:5824241 original size:14 final size:14
Alignment explanation
Indices: 5824205--5824250 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
5824195 AGCAGTCCAG
*
5824205 AAAAAAAAGAGGAA
1 AAAAAAAAAAGGAA
*
5824219 GAAAAAAAAA-GAA
1 AAAAAAAAAAGGAA
5824232 AAAAAGAAAAAGGAA
1 AAAAA-AAAAAGGAA
5824247 AAAA
1 AAAA
5824251 CCAAGCTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 7 0.26
14 13 0.48
15 7 0.26
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGGAA
Found at i:5824753 original size:18 final size:17
Alignment explanation
Indices: 5824713--5824836 Score: 94
Period size: 18 Copynumber: 7.2 Consensus size: 17
5824703 GTCCTTTTAA
* *
5824713 AAAAATTCTCGTGTTTC
1 AAAAATTTTTGTGTTTC
5824730 --AAATTTTTGTGTTTTC
1 AAAAATTTTTGTG-TTTC
5824746 AAAAATTTTTTGTGTTTC
1 AAAAA-TTTTTGTGTTTC
* *
5824764 -AAAAGTTTCGTGTTTC
1 AAAAATTTTTGTGTTTC
**
5824780 AAAAAATTCCTGTGTTTC
1 -AAAAATTTTTGTGTTTC
*
5824798 AAAAATTTCCTTGT-CTTC
1 AAAAATTT--TTGTGTTTC
* *
5824816 AAAAAATATTGTGTTTC
1 AAAAATTTTTGTGTTTC
5824833 AAAA
1 AAAA
5824837 TTATCGAGTT
Statistics
Matches: 84, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
15 9 0.11
16 18 0.21
17 18 0.21
18 28 0.33
19 11 0.13
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (17 bp):
AAAAATTTTTGTGTTTC
Found at i:5824761 original size:34 final size:33
Alignment explanation
Indices: 5824712--5824854 Score: 103
Period size: 34 Copynumber: 4.2 Consensus size: 33
5824702 CGTCCTTTTA
* *
5824712 AAAAAATT-CTCGTGTTTCAAATTTTTGTGTTTTC
1 AAAAAATTCCT-GTGTTTCAAAGTTTCGTG-TTTC
* **
5824746 AAAAATTTTTTGTGTTTCAAAAGTTTCGTGTTTC
1 AAAAAATTCCTGTGTTTC-AAAGTTTCGTGTTTC
* *
5824780 AAAAAATTCCTGTGTTTCAAAAATTTCCTTGTCTTC
1 AAAAAATTCCTGTGTTTC-AAAGTTT-CGTGT-TTC
* * *
5824816 AAAAAATAT--TGTGTTTCAAAATTATCGAGTTTT
1 AAAAAAT-TCCTGTGTTTCAAAGTT-TCGTGTTTC
5824849 AAAAAA
1 AAAAAA
5824855 AATTTCGTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
33 8 0.09
34 49 0.54
35 23 0.25
36 10 0.11
37 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (33 bp):
AAAAAATTCCTGTGTTTCAAAGTTTCGTGTTTC
Found at i:5824778 original size:16 final size:16
Alignment explanation
Indices: 5824713--5824836 Score: 90
Period size: 16 Copynumber: 7.2 Consensus size: 16
5824703 GTCCTTTTAA
5824713 AAAAATTCTCGTGTTTC
1 AAAAATT-TCGTGTTTC
* *
5824730 -AAATTTTTGTGTTTTC
1 AAAAATTTCGTG-TTTC
*
5824746 AAAAATTTTTTGTGTTTC
1 AAAAA--TTTCGTGTTTC
*
5824764 AAAAGTTTCGTGTTTC
1 AAAAATTTCGTGTTTC
*
5824780 AAAAAATTCCTGTGTTTC
1 -AAAAATTTC-GTGTTTC
*
5824798 AAAAATTTCCTTGTCTTC
1 AAAAATTT-CGTGT-TTC
5824816 AAAAAATATT-GTGTTTC
1 -AAAAAT-TTCGTGTTTC
5824833 AAAA
1 AAAA
5824837 TTATCGAGTT
Statistics
Matches: 87, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
15 4 0.05
16 23 0.26
17 23 0.26
18 22 0.25
19 13 0.15
20 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (16 bp):
AAAAATTTCGTGTTTC
Found at i:5824855 original size:34 final size:32
Alignment explanation
Indices: 5824707--5824869 Score: 112
Period size: 35 Copynumber: 4.7 Consensus size: 32
5824697 CGATACGTCC
* *
5824707 TTTTAAAAAAATTCTCGTGTTTCAAATTTTTGTG
1 TTTTAAAAAAATT-T-GTGTTTCAAAATTTCGTG
**
5824741 TTTTCAAAAATTTTTTGTGTTTCAAAAGTTTCGTG
1 TTTT-AAAAA-AATTTGTGTTTCAAAA-TTTCGTG
* *
5824776 -TTTCAAAAAATTCCTGTGTTTCAAAAATTTCCTTG
1 TTTTAAAAAAATT--TGTGTTTC-AAAATTT-CGTG
* * *
5824811 TCTTCAAAAAATATTGTGTTTCAAAATTATCGAG
1 TTTTAAAAAAAT-TTGTGTTTCAAAATT-TCGTG
*
5824845 TTTTAAAAAAAATTTCGTATTTCAA
1 TTTT-AAAAAAATTT-GTGTTTCAA
5824870 TCGGATCACG
Statistics
Matches: 103, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
32 2 0.02
33 4 0.04
34 41 0.40
35 43 0.42
36 12 0.12
37 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.45
Consensus pattern (32 bp):
TTTTAAAAAAATTTGTGTTTCAAAATTTCGTG
Found at i:5832200 original size:21 final size:21
Alignment explanation
Indices: 5832174--5832217 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
5832164 AGACGAGCAA
* *
5832174 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5832195 TACTCCAAAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5832216 TA
1 TA
5832218 ACAGCCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:5845370 original size:132 final size:133
Alignment explanation
Indices: 5845221--5846474 Score: 1500
Period size: 132 Copynumber: 9.5 Consensus size: 133
5845211 AGATAGGGTA
*** *
5845221 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCATTATCTTTGATCTACTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
* * *
5845286 CTACTGCTTAGAGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCTAGGGAGA-TAGA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGAGTAGA
5845350 ATT
131 ATT
* * ** * *
5845353 ACTGGCTTCAATATACTCCACTATAACCACAATGAGGTAAAATTCACCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
* *
5845418 CTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTTCACTGCTGCCCAGGGA-AGTAGA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGAGTAGA
5845482 ATT
131 ATT
* * *
5845485 ACTGGCTTCAATG---T--ACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATATGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
*
5845545 CTACTGCTTAGGGAGACAAGATCTGAAATATTCAATCTATTCCACTGCTGCCCAGGGA-AGTAGA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGAGTAGA
5845609 ATT
131 ATT
** *
5845612 ACTGGCTTCAATGTACTCCGTTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
* *** *
5845677 CTACTGCTTGGGGAGACAAGATCTGTTTTCCTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGAGTAGA
5845741 ATT
131 ATT
* * * *
5845744 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
* * *
5845809 CTACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGTTGCCCAGGGAGA-TAGA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGAGTAGA
5845873 ATT
131 ATT
* * * *
5845876 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTACTTTC
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGC--TC
* ** **
5845941 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTT-CAC-GC-
64 --C-A-CTAC-T-G----C-TTA-GGG-AGACAAGATCTGAAATCTTCAATCTA-TTCCACTGCT
*
5846003 -CAACAGGG-GAAGTAGAATT
115 GC-CCAGGGAG-AGTAGAATT
* * ** * *
5846022 A----C-T-AATATACTCCACTGCAACTTCAGAGAGGTAAAATCCGCCATCTTCGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
* * * *
5846081 CTACTGCTTAGGGAGGCAAGATCTGAAATCTCCAATCTATTCCATTG-TCGCCCAAGGAGA-TAG
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCT-GCCCAGGGAGAGTAG
5846144 AATT
130 AATT
* ** *
5846148 ACTGGCTTCAATGTACTGCACTGTAACCTTAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
*
5846213 CTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA-AGTAGA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGAGTAGA
5846277 ATT
131 ATT
* * *
5846280 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCA
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
* * * * *
5846345 TTGTCGATGC--AAGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA-AGT
66 CT-AC--TGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGAGT
5846407 AGAATT
128 AGAATT
* *
5846413 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCATCTTTGATCTGCT
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCT
5846475 TCGCTGTCTA
Statistics
Matches: 982, Mismatches: 97, Indels: 85
0.84 0.08 0.07
Matches are distributed among these distances:
124 2 0.00
125 22 0.02
126 12 0.01
127 126 0.13
128 3 0.00
129 1 0.00
130 2 0.00
131 3 0.00
132 576 0.59
133 118 0.12
134 6 0.01
135 4 0.00
136 2 0.00
137 1 0.00
138 6 0.01
139 1 0.00
140 47 0.05
141 1 0.00
142 1 0.00
144 3 0.00
145 7 0.01
146 12 0.01
147 25 0.03
148 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (133 bp):
ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGAGTAGA
ATT
Found at i:5846256 original size:536 final size:522
Alignment explanation
Indices: 5845221--5846471 Score: 1597
Period size: 536 Copynumber: 2.4 Consensus size: 522
5845211 AGATAGGGTA
* * * *
5845221 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCATTATCTTTGATCTACTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCTTTGATCTGCTCCA
* * * *
5845286 CTACTGCTTAGAGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCTAGGGAGATAGAA
66 CTACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAA
* * ** * *
5845351 TTACTGGCTTCAATATACTCCACTATAACCACAATGAGGTAAAATTCACCATCTTTGATCTGCTC
131 TTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTACTC
* * *
5845416 CACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTTCACTGCTGCCCAGGGAAGTAG
196 CACTACTGCGTAGGGAGACAAGATCTGAAATCTTTAATCTACTTCACTGC-GCACAGGGAAGTAG
** ** * * * *
5845481 AATTACTGGCTTCAATGTACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATATGCTCCAC
260 AATTACTGAATTCAATCCACTGCAACCACAGAGAGGTAAAATCCACCATCTTCGATATGCTCCAC
* *
5845546 TACTGCTTAGGGAGACAAGATCTGAAATATTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
325 TACTGCTTAGGGAGACAAGATCTGAAATATCCAATCTATTCCACTGCTGCCCAAGGAAGTAGAAT
**
5845611 TACTGGCTTCAATGTACTCCGTTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCC
390 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCC
* ***
5845676 ACTACTGCTTGGGGAGACAAGATCTGTTTTCCTCAATCTATTCCACTGCTGCCCAGGG-AGATAG
455 ACTACTGCTTAGGGAGACAAGATCTGAAATCCTCAATCTATTCCACTGCTGCCCAGGGAAG-TAG
5845740 AATT
519 AATT
* *
5845744 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCTTTGATCTGCTCCA
* *
5845809 CTACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGTTGCCCAGGGAGATAGAA
66 CTACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAA
* *
5845874 TTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTACTT
131 TTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTAC--
** *
5845939 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GC
194 TC--C-A-CTAC-T-G----C-GTA-GGG-AGACAAGATCTGAAATCTTTAATCTACTTCACTGC
* ** *
5846003 -CAACAGGGGAAGTAGAATTACT-AATAT-ACTCCACTGCAACTTCAGAGAGGTAAAATCCGCCA
246 GC-ACA-GGGAAGTAGAATTACTGAAT-TCAATCCACTGCAACCACAGAGAGGTAAAATCCACCA
* * * *
5846065 TCTTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTCCAATCTATTCCATTG-T
308 TCTTCGATATGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATATCCAATCTATTCCACTGCT
* **
5846129 CGCCCAAGG-AGATAGAATTACTGGCTTCAATGTACTGCACTGTAACCTTAGGGAGGTAAAATCT
373 -GCCCAAGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT
* *
5846193 GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCAC
436 GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCCTCAATCTATTCCAC
5846258 TGCTGCCCAGGGAAGTAGAATT
501 TGCTGCCCAGGGAAGTAGAATT
* * *
5846280 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCTTTGATCTGCTCCA
* * * *
5846345 -T--TGTCGATGCAAGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA-AG
66 CTACTG-C-TTG--GGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-
***
5846406 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCATCTTTGATC
126 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATC
5846471 T
191 T
5846472 GCTTCGCTGT
Statistics
Matches: 631, Mismatches: 71, Indels: 38
0.85 0.10 0.05
Matches are distributed among these distances:
523 173 0.27
525 2 0.00
527 1 0.00
528 1 0.00
529 4 0.01
530 1 0.00
531 1 0.00
533 2 0.00
534 1 0.00
535 8 0.01
536 281 0.45
537 128 0.20
538 28 0.04
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (522 bp):
ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCTTTGATCTGCTCCA
CTACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAA
TTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTACTC
CACTACTGCGTAGGGAGACAAGATCTGAAATCTTTAATCTACTTCACTGCGCACAGGGAAGTAGA
ATTACTGAATTCAATCCACTGCAACCACAGAGAGGTAAAATCCACCATCTTCGATATGCTCCACT
ACTGCTTAGGGAGACAAGATCTGAAATATCCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATT
ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCA
CTACTGCTTAGGGAGACAAGATCTGAAATCCTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
TT
Found at i:5847842 original size:8 final size:8
Alignment explanation
Indices: 5847829--5847857 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
5847819 GGCCTCTCCA
5847829 TTTTTCTC
1 TTTTTCTC
5847837 TTTTTCTC
1 TTTTTCTC
5847845 TTTTTCTC
1 TTTTTCTC
5847853 TTTTT
1 TTTTT
5847858 ATTTTTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTCTC
Found at i:5847865 original size:16 final size:16
Alignment explanation
Indices: 5847829--5847864 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
5847819 GGCCTCTCCA
*
5847829 TTTTTCTCTTTTTCTC
1 TTTTTCTCTTTTTATC
5847845 TTTTTCTCTTTTTAT-
1 TTTTTCTCTTTTTATC
5847860 TTTTT
1 TTTTT
5847865 TGGACTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTCTCTTTTTATC
Found at i:5849167 original size:32 final size:32
Alignment explanation
Indices: 5849123--5849183 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
5849113 ATTATCCGTA
5849123 TGATTGAATAGCGGGTTTTCTGTACTGAAAGG
1 TGATTGAATAGCGGGTTTTCTGTACTGAAAGG
*
5849155 TGATTGAGTAGCGGGTTTTCTGTACTGAA
1 TGATTGAATAGCGGGTTTTCTGTACTGAA
5849184 TGAATCCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.23, C:0.10, G:0.31, T:0.36
Consensus pattern (32 bp):
TGATTGAATAGCGGGTTTTCTGTACTGAAAGG
Found at i:5852203 original size:62 final size:62
Alignment explanation
Indices: 5852127--5852250 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
5852117 AGGAAAATTC
5852127 GTATGTACTATAAAATAAAAGTGTATGTACATGTATATATATATACTTGTTTATAAAAACTA
1 GTATGTACTATAAAATAAAAGTGTATGTACATGTATATATATATACTTGTTTATAAAAACTA
5852189 GTATGTACTATAAAATAAAAGTGTATGTACATGTATATATATATACTTGTTTATAAAAACTA
1 GTATGTACTATAAAATAAAAGTGTATGTACATGTATATATATATACTTGTTTATAAAAACTA
5852251 TGGAATCAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (62 bp):
GTATGTACTATAAAATAAAAGTGTATGTACATGTATATATATATACTTGTTTATAAAAACTA
Found at i:5853567 original size:12 final size:12
Alignment explanation
Indices: 5853550--5853576 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5853540 TGAAAATTGG
5853550 CTATTGGGCCTA
1 CTATTGGGCCTA
5853562 CTATTGGGCCTA
1 CTATTGGGCCTA
5853574 CTA
1 CTA
5853577 GTGTTGGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (12 bp):
CTATTGGGCCTA
Found at i:5853790 original size:12 final size:12
Alignment explanation
Indices: 5853773--5853799 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5853763 TCTAAATCTC
5853773 TTAACATATGGG
1 TTAACATATGGG
5853785 TTAACATATGGG
1 TTAACATATGGG
5853797 TTA
1 TTA
5853800 TGACATAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (12 bp):
TTAACATATGGG
Found at i:5853864 original size:19 final size:19
Alignment explanation
Indices: 5853836--5853904 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
5853826 GTTAATATAT
5853836 GAAT-ATTAAATTATTGTA
1 GAATAATTAAATTATTGTA
*
5853854 GAATAATTAAATTACTGCT-
1 GAATAATTAAATTATTG-TA
*
5853873 -AATAATT--TTTATTGTA
1 GAATAATTAAATTATTGTA
*
5853889 AAATAATTAAATTATT
1 GAATAATTAAATTATT
5853905 TGTTTCACTA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
15 1 0.02
16 5 0.12
17 7 0.17
18 11 0.27
19 16 0.39
20 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (19 bp):
GAATAATTAAATTATTGTA
Found at i:5854135 original size:101 final size:100
Alignment explanation
Indices: 5853974--5854155 Score: 319
Period size: 101 Copynumber: 1.8 Consensus size: 100
5853964 TAGATTATAT
* * * *
5853974 ATTATTTTTATATTATTATATATTATGATTTTAGTATATTTATATAAGAATAATTATAGTAAGAA
1 ATTATTTTTATAGTATTATAGATTATGATTTTAGTAAATTCATATAAGAATAATTATAGTAAGAA
5854039 TTTTATTAAATTATATTTAATAATTATTATTTTAA
66 TTTTATTAAATTATATTTAATAATTATTATTTTAA
5854074 ATTATATTTTATAGTATTATAGATTATGATTTTAGTAAATTCATATAAGAATAATTATAGTAAGA
1 ATTAT-TTTTATAGTATTATAGATTATGATTTTAGTAAATTCATATAAGAATAATTATAGTAAGA
5854139 ATTTTATTAAATTATAT
65 ATTTTATTAAATTATAT
5854156 ATTTTTATTA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
100 5 0.06
101 72 0.94
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.51
Consensus pattern (100 bp):
ATTATTTTTATAGTATTATAGATTATGATTTTAGTAAATTCATATAAGAATAATTATAGTAAGAA
TTTTATTAAATTATATTTAATAATTATTATTTTAA
Found at i:5854168 original size:119 final size:119
Alignment explanation
Indices: 5854039--5854431 Score: 750
Period size: 119 Copynumber: 3.3 Consensus size: 119
5854029 ATAGTAAGAA
*
5854039 TTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATAGATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATAGATTATGAT
* *
5854104 TTTAGTAAATTCATATAAGAATAATTATAGTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATCCATATAAGCATAATTATAGTAAGAATTTTATTAAATTATATAT
5854158 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATAGATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATAGATTATGAT
5854223 TTTAGTAAATCCATATAAGCATAATTATAGTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATCCATATAAGCATAATTATAGTAAGAATTTTATTAAATTATATAT
5854277 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATAGATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATAGATTATGAT
5854342 TTTAGTAAATCCATATAAGCATAATTATAGTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATCCATATAAGCATAATTATAGTAAGAATTTTATTAAATTATATAT
*
5854396 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAA
5854432 ATATGATTAA
Statistics
Matches: 270, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 270 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (119 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATAGATTATGAT
TTTAGTAAATCCATATAAGCATAATTATAGTAAGAATTTTATTAAATTATATAT
Found at i:5854664 original size:16 final size:16
Alignment explanation
Indices: 5854645--5854698 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
5854635 TTGAATTACT
*
5854645 ATTACGCCTTTATTCT
1 ATTACGCCTTTATTCC
5854661 ATTACAG-CTTTATTCC
1 ATTAC-GCCTTTATTCC
*
5854677 ATTA-GACCTCTATTCC
1 ATTACG-CCTTTATTCC
5854693 ATTACG
1 ATTACG
5854699 GCGAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 1 0.03
16 29 0.91
17 2 0.06
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.43
Consensus pattern (16 bp):
ATTACGCCTTTATTCC
Found at i:5856625 original size:25 final size:26
Alignment explanation
Indices: 5856597--5856649 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
5856587 TTAAAAACTC
5856597 TTCTAAAAAG-AAAC-TCAAAAGGAAT
1 TTCTAAAAAGAAAACAT-AAAAGGAAT
*
5856622 TTCTGAAAAGAAAACATAAAAGGAAT
1 TTCTAAAAAGAAAACATAAAAGGAAT
5856648 TT
1 TT
5856650 ATTAACTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 15 0.60
27 1 0.04
ACGTcount: A:0.55, C:0.09, G:0.13, T:0.23
Consensus pattern (26 bp):
TTCTAAAAAGAAAACATAAAAGGAAT
Found at i:5857692 original size:25 final size:28
Alignment explanation
Indices: 5857631--5857695 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 28
5857621 GTTTTTGAAT
*
5857631 TATGCTTTTGGTATATTTATGCTATTCAAA
1 TATG-TTTTGGTATATTTATGATATT-AAA
5857661 TAATGTTTTGGTATATTTAT-ATA-T-AA
1 T-ATGTTTTGGTATATTTATGATATTAAA
5857687 TATGTTTTG
1 TATGTTTTG
5857696 AGGGAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 8 0.24
26 3 0.09
28 1 0.03
29 2 0.06
30 16 0.48
31 3 0.09
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.54
Consensus pattern (28 bp):
TATGTTTTGGTATATTTATGATATTAAA
Found at i:5863955 original size:21 final size:22
Alignment explanation
Indices: 5863929--5863975 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
5863919 CTCTGCTCAA
*
5863929 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
5863950 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
5863972 ACTC
1 ACTC
5863976 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:5867678 original size:36 final size:36
Alignment explanation
Indices: 5867631--5867705 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
5867621 TATTAATGTG
5867631 TTATTTCTATTAAATTAAAATGTAAATTAATTTATC
1 TTATTTCTATTAAATTAAAATGTAAATTAATTTATC
5867667 TTATTTCTATTAAATTAAAATGTAAATTAATTTATC
1 TTATTTCTATTAAATTAAAATGTAAATTAATTTATC
5867703 TTA
1 TTA
5867706 GTAAATAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (36 bp):
TTATTTCTATTAAATTAAAATGTAAATTAATTTATC
Found at i:5873180 original size:21 final size:21
Alignment explanation
Indices: 5873137--5873180 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5873127 ACACATATTT
* *
5873137 TATTATTAATTTTAATTTTAC
1 TATTATTAATTTTAATCTCAC
5873158 TATTA-TAATATTTAATCTCAC
1 TATTATTAAT-TTTAATCTCAC
5873179 TA
1 TA
5873181 CTAAAATGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTAATTTTAATCTCAC
Found at i:5876587 original size:35 final size:35
Alignment explanation
Indices: 5876541--5876611 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
5876531 AGATTAAGAT
*
5876541 CAGTGGCGGAGCCAAGGAATAGGCAGGGGCCTCGA
1 CAGTGGCGGAGCCAAGGAATAGGCAAGGGCCTCGA
5876576 CAGTGGCGGAGCCAAGGAATAGGCAAGGGCCTCGA
1 CAGTGGCGGAGCCAAGGAATAGGCAAGGGCCTCGA
5876611 C
1 C
5876612 CCCCCTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.27, C:0.24, G:0.41, T:0.08
Consensus pattern (35 bp):
CAGTGGCGGAGCCAAGGAATAGGCAAGGGCCTCGA
Found at i:5892045 original size:11 final size:11
Alignment explanation
Indices: 5892029--5892054 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5892019 AACCATCTGT
5892029 ATATAACCAAA
1 ATATAACCAAA
5892040 ATATAACCAAA
1 ATATAACCAAA
5892051 ATAT
1 ATAT
5892055 CATCCAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (11 bp):
ATATAACCAAA
Found at i:5892253 original size:14 final size:14
Alignment explanation
Indices: 5892231--5892287 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
5892221 GAATATGCTG
* *
5892231 AGAAGAGAAGATGA
1 AGAACAGAAGAAGA
5892245 AGAACAGAAGAAGA
1 AGAACAGAAGAAGA
5892259 A-AA-AG--GAATGA
1 AGAACAGAAGAA-GA
*
5892270 AGAACGGAAGAAGA
1 AGAACAGAAGAAGA
5892284 AGAA
1 AGAA
5892288 GGAGCCTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
10 3 0.09
11 3 0.09
12 4 0.11
13 3 0.09
14 19 0.54
15 3 0.09
ACGTcount: A:0.61, C:0.04, G:0.32, T:0.04
Consensus pattern (14 bp):
AGAACAGAAGAAGA
Found at i:5892289 original size:25 final size:25
Alignment explanation
Indices: 5892241--5892290 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
5892231 AGAAGAGAAG
5892241 ATGAAGAACAGAAGAAGAAAAAGGA
1 ATGAAGAACAGAAGAAGAAAAAGGA
* *
5892266 ATGAAGAACGGAAGAAGAAGAAGGA
1 ATGAAGAACAGAAGAAGAAAAAGGA
5892291 GCCTTACCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.32, T:0.04
Consensus pattern (25 bp):
ATGAAGAACAGAAGAAGAAAAAGGA
Found at i:5892373 original size:18 final size:19
Alignment explanation
Indices: 5892350--5892393 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
5892340 TTTGCAATCC
5892350 AAGGGGAAGGGAAAAGGG-
1 AAGGGGAAGGGAAAAGGGA
*
5892368 AAGGGGAAGGGAAAGGGGA
1 AAGGGGAAGGGAAAAGGGA
5892387 AAGGGGA
1 AAGGGGA
5892394 GAAGAAGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (19 bp):
AAGGGGAAGGGAAAAGGGA
Found at i:5892374 original size:6 final size:6
Alignment explanation
Indices: 5892350--5892393 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
5892340 TTTGCAATCC
* * *
5892350 AAGGGG AAGGGA AAAGGG AAGGGG AAGGGA AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
5892394 GAAGAAGGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:5892400 original size:24 final size:24
Alignment explanation
Indices: 5892350--5892401 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
5892340 TTTGCAATCC
* **
5892350 AAGGGGAAGGGAAAAGGGAAGGGG
1 AAGGGAAAGGGAAAAGGGAAGAAG
* *
5892374 AAGGGAAAGGGGAAAGGGGAGAAG
1 AAGGGAAAGGGAAAAGGGAAGAAG
5892398 AAGG
1 AAGG
5892402 CATCATTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (24 bp):
AAGGGAAAGGGAAAAGGGAAGAAG
Found at i:5894768 original size:17 final size:16
Alignment explanation
Indices: 5894746--5894799 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
5894736 GAATCTCTTG
5894746 TTTTGAAAACACGAGAA
1 TTTTGAAAACACGA-AA
5894763 TTTTG-AAACAC-AATA
1 TTTTGAAAACACGAA-A
5894778 TTTTTTGAAAACACGAAA
1 --TTTTGAAAACACGAAA
5894796 TTTT
1 TTTT
5894800 TTTTTTGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 1 0.03
15 2 0.06
16 10 0.31
17 10 0.31
18 7 0.22
19 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (16 bp):
TTTTGAAAACACGAAA
Found at i:5894791 original size:18 final size:17
Alignment explanation
Indices: 5894746--5895136 Score: 105
Period size: 17 Copynumber: 22.1 Consensus size: 17
5894736 GAATCTCTTG
5894746 TTTTGAAAACACGAGAA--
1 TTTTG-AAACACGA-AATT
5894763 TTTTGAAACAC-AATATT
1 TTTTGAAACACGAA-ATT
5894780 TTTTGAAAACACGAAATTTTTT
1 TTTTG-AAACACGAAA----TT
5894802 TTTTGAAAACACGAGAA-T
1 TTTTG-AAACACGA-AATT
*
5894820 TTTAGAAACACGAAATTTT
1 TTTTGAAACACGAAA--TT
* * *
5894839 TTTTAAAAAACCTGAAAAT
1 TTTTGAAACA-C-GAAATT
* *
5894858 TTTT-ACAATACGAAAAT
1 TTTTGA-AACACGAAATT
** *
5894875 TTGCGAAACATGACAA-T
1 TTTTGAAACACGA-AATT
*
5894892 TTTCGAAACACGAGAATT
1 TTTTGAAACACGA-AATT
5894910 TTTTGAGAACAC-AAA--
1 TTTTGA-AACACGAAATT
* *
5894925 --ATAAAACACGGAAA-T
1 TTTTGAAACAC-GAAATT
*
5894940 TTGTGAAACACGAGAAATTT
1 TTTTGAAACAC--GAAA-TT
* *
5894960 TTTTAAAACACGGAAA-C
1 TTTTGAAACAC-GAAATT
* *
5894977 TTTTGAAATACGAAAAT
1 TTTTGAAACACGAAATT
** *
5894994 TTTAAAAACACGAAAAT
1 TTTTGAAACACGAAATT
**
5895011 TTGCGAAACACGACAATT
1 TTTTGAAACACGA-AATT
5895029 GTTTTGAAACACGAGAAATT
1 -TTTTGAAACAC--GAAATT
* *
5895049 TTTGTG-AACGCGAAA-A
1 TTT-TGAAACACGAAATT
*
5895065 TTTTAAAACACGGAAA-T
1 TTTTGAAACAC-GAAATT
* *
5895082 TTTTAAAACACGAGGATT
1 TTTTGAAACACGA-AATT
*
5895100 TTTTTAAAGCACGGAAA-T
1 TTTTGAAA-CAC-GAAATT
*
5895118 TTTTGAAATACGAGAATT
1 TTTTGAAACACGA-AATT
5895136 T
1 T
5895137 AAAAGAACAT
Statistics
Matches: 287, Mismatches: 45, Indels: 83
0.69 0.11 0.20
Matches are distributed among these distances:
12 5 0.02
13 2 0.01
14 4 0.01
15 3 0.01
16 23 0.08
17 111 0.39
18 49 0.17
19 47 0.16
20 19 0.07
21 6 0.02
22 16 0.06
23 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (17 bp):
TTTTGAAACACGAAATT
Found at i:5894800 original size:17 final size:17
Alignment explanation
Indices: 5894746--5895480 Score: 115
Period size: 18 Copynumber: 41.9 Consensus size: 17
5894736 GAATCTCTTG
5894746 TTTTGAAAACACGAGAA-
1 TTTTGAAAACACGA-AAT
5894763 TTTTG-AAACAC-AATATT
1 TTTTGAAAACACGAA-A-T
5894780 TTTTGAAAACACGAAATTTTTT
1 TTTTGAAAACACGAAA-----T
5894802 TTTTGAAAACACGAGAAT
1 TTTTGAAAACACGA-AAT
*
5894820 TTTAG-AAACACGAAATTT
1 TTTTGAAAACACGAAA--T
* *
5894838 TTTTTAAAAAACCTGAAAAT
1 TTTTGAAAACA-C-G-AAAT
* *
5894858 TTTT-ACAATACGAAA-
1 TTTTGAAAACACGAAAT
* * *
5894873 ATTTGCGAAACATGACAAT
1 TTTTG-AAAACACGA-AAT
*
5894892 TTTCG-AAACACGAGAATT
1 TTTTGAAAACACGA-AA-T
*
5894910 TTTTGAGAACAC-AAA-
1 TTTTGAAAACACGAAAT
*
5894925 --AT-AAAACACGGAAAT
1 TTTTGAAAACAC-GAAAT
*
5894940 TTGTG-AAACACGAGAAATT
1 TTTTGAAAACAC--GAAA-T
* *
5894959 TTTTTAAAACACGGAAAC
1 TTTTGAAAACAC-GAAAT
* *
5894977 TTTTG-AAATACGAAAA
1 TTTTGAAAACACGAAAT
*
5894993 TTTTAAAAACACGAAA-
1 TTTTGAAAACACGAAAT
* *
5895009 ATTTGCGAAACACGACAATT
1 TTTTG-AAAACACGA-AA-T
5895029 GTTTTG-AAACACGAGAAAT
1 -TTTTGAAAACAC--GAAAT
** * *
5895048 TTTTGTGAACGCGAAAA
1 TTTTGAAAACACGAAAT
5895065 TTTT-AAAACACGGAAAT
1 TTTTGAAAACAC-GAAAT
*
5895082 TTTT-AAAACACGAGGATT
1 TTTTGAAAACACGA--AAT
* *
5895100 TTTTTAAAGCACGGAAAT
1 TTTTGAAAACAC-GAAAT
*
5895118 TTTTG-AAATACGAGAA-
1 TTTTGAAAACACGA-AAT
** * *
5895134 TTTAAAAGAACATGAAAG
1 TTTTGAA-AACACGAAAT
**
5895152 TTTACAAAACACGAGAAGTTTT
1 TTTTGAAAACACGA-AA----T
* * *
5895174 TTTTTAAAATACAAAAAT
1 TTTTGAAAACAC-GAAAT
* **
5895192 TTTTG-AAACAATAGATTT
1 TTTTGAAAAC-A-CGAAAT
* *
5895210 TTTTGATAACACTAGAAT
1 TTTTGAAAACACGA-AAT
*
5895228 TTTTTAAAA-A--AAAT
1 TTTTGAAAACACGAAAT
* *
5895242 TTGTG-AAATACGAGAAT
1 TTTTGAAAACACGA-AAT
*
5895259 TTTT---AATACGAGAA-
1 TTTTGAAAACACGA-AAT
* * *
5895273 --TTCAAAAAACGAAAA
1 TTTTGAAAACACGAAAT
* **
5895288 TGTACAAAACACGAAAAT
1 TTTTGAAAACACG-AAAT
5895306 TTTTGAAAACACGATAAT
1 TTTTGAAAACACGA-AAT
* *
5895324 TTTTGAAAAC-CTGGAAC
1 TTTTGAAAACAC-GAAAT
* *
5895341 TTTT-AAAATACGGGAATT
1 TTTTGAAAACAC--GAAAT
5895359 TTTTG-AAACACCGAAATT
1 TTTTGAAAACA-CGAAA-T
5895377 TTTTGAAAACACGAAGA-
1 TTTTGAAAACACGAA-AT
*
5895394 TTTT-AAAACACGCAAAA
1 TTTTGAAAACACG-AAAT
*
5895411 TTTTGGAAACACGAAAAT
1 TTTTGAAAACACG-AAAT
* *
5895429 TTTTG-AAATACGAATT
1 TTTTGAAAACACGAAAT
* *
5895445 TTTTTAAAATCGCGGAAATT
1 TTTTGAAAA-CAC-GAAA-T
5895465 CTTTTG-AAACACGAAA
1 -TTTTGAAAACACGAAA
5895481 ACTCTTGAAA
Statistics
Matches: 530, Mismatches: 101, Indels: 173
0.66 0.13 0.22
Matches are distributed among these distances:
12 8 0.02
13 4 0.01
14 13 0.02
15 22 0.04
16 54 0.10
17 153 0.29
18 154 0.29
19 58 0.11
20 20 0.04
21 11 0.02
22 30 0.06
23 3 0.01
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (17 bp):
TTTTGAAAACACGAAAT
Found at i:5894805 original size:22 final size:23
Alignment explanation
Indices: 5894778--5894822 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
5894768 AAACACAATA
5894778 TTTTTTGAAAACACGA-AATTTT
1 TTTTTTGAAAACACGAGAATTTT
5894800 TTTTTTGAAAACACGAGAATTTT
1 TTTTTTGAAAACACGAGAATTTT
5894823 AGAAACACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (23 bp):
TTTTTTGAAAACACGAGAATTTT
Found at i:5894862 original size:39 final size:41
Alignment explanation
Indices: 5894768--5894862 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 41
5894758 GAGAATTTTG
* * **
5894768 AAACAC-AATATTTTTTGAAAACACGAAATTTTTTTTTTGA
1 AAACACGAAAATTTTTAGAAAACACGAAATTTTTTTTTAAA
*
5894808 AAACACGAGAA-TTTTAG-AAACACGAAA-TTTTTTTTAAA
1 AAACACGAAAATTTTTAGAAAACACGAAATTTTTTTTTAAA
5894846 AAAC-CTGAAAATTTTTA
1 AAACAC-GAAAATTTTTA
5894863 CAATACGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
37 1 0.02
38 17 0.37
39 15 0.33
40 11 0.24
41 2 0.04
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (41 bp):
AAACACGAAAATTTTTAGAAAACACGAAATTTTTTTTTAAA
Found at i:5895003 original size:119 final size:120
Alignment explanation
Indices: 5894807--5895040 Score: 289
Period size: 119 Copynumber: 2.0 Consensus size: 120
5894797 TTTTTTTTTG
* * *
5894807 AAAACACGAGAATTTTAGAAACACGAAATTTTTTTTAAAAAACCTGAAAATTTTTACAATACGAA
1 AAAACACGAGAATTTTAGAAACACGAAAATTTTTTTAAAAAACCGGAAAATTTTGACAATACGAA
** * * * *
5894872 AATTTGCGAAACATGACAATTTTCGAAACACGAGAATT-TTTTGAGAACACAAAAT
66 AATTTGAAAAACACGAAAATTTGCGAAACACGACAATTGTTTTGA-AACACAAAAT
* *
5894927 AAAACACG-GAAATTTGT-GAAACACGAGAAATTTTTTTAAAACA-CGGAAACTTTTGA-AATAC
1 AAAACACGAG-AATTT-TAGAAACACGA-AAATTTTTTTAAAAAACCGGAAAATTTTGACAATAC
*
5894988 GAAAATTTTAAAAACACGAAAATTTGCGAAACACGACAATTGTTTTGAAACAC
63 GAAAATTTGAAAAACACGAAAATTTGCGAAACACGACAATTGTTTTGAAACAC
5895041 GAGAAATTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
119 45 0.46
120 38 0.39
121 15 0.15
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.27
Consensus pattern (120 bp):
AAAACACGAGAATTTTAGAAACACGAAAATTTTTTTAAAAAACCGGAAAATTTTGACAATACGAA
AATTTGAAAAACACGAAAATTTGCGAAACACGACAATTGTTTTGAAACACAAAAT
Found at i:5895011 original size:71 final size:71
Alignment explanation
Indices: 5894927--5895199 Score: 255
Period size: 71 Copynumber: 3.8 Consensus size: 71
5894917 AACACAAAAT
* ** *
5894927 AAAACACGGAAATTTGTGAAACACGAGAAATTTTTTTAAAACACGGAAACTTTTGAAATACGAAA
1 AAAACACGAAAATTTGCAAAACACGAGAAATTTTTTTAAAACACGGAAATTTTTGAAATACGAAA
5894992 ATTTTA
66 ATTTTA
* * * * * **
5894998 AAAACACGAAAATTTGCGAAACACGA-CAATTGTTTTGAAACACGAGAAATTTTTGTGAACGCGA
1 AAAACACGAAAATTTGCAAAACACGAGAAATTTTTTTAAAACACG-GAAATTTTTG-AAATACGA
5895062 AAATTTT-
64 AAATTTTA
* ** * * *
5895069 AAAACACGGAAATTTTTAAAACACGAG-GATTTTTTTAAAGCACGGAAATTTTTGAAATACGAGA
1 AAAACACGAAAATTTGCAAAACACGAGAAATTTTTTTAAAACACGGAAATTTTTGAAATACGAAA
*
5895133 ATTTAA
66 ATTTTA
* * * * * **
5895139 AAGAACATGAAAGTTTACAAAACACGAGAAGTTTTTTTTTAAAATACAAAAATTTTTGAAA
1 AA-AACACGAAAATTTGCAAAACACGAGAA--ATTTTTTTAAAACACGGAAATTTTTGAAA
5895200 CAATAGATTT
Statistics
Matches: 161, Mismatches: 33, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
69 10 0.06
70 27 0.17
71 88 0.55
72 12 0.07
74 24 0.15
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (71 bp):
AAAACACGAAAATTTGCAAAACACGAGAAATTTTTTTAAAACACGGAAATTTTTGAAATACGAAA
ATTTTA
Found at i:5895113 original size:36 final size:36
Alignment explanation
Indices: 5894926--5895136 Score: 162
Period size: 36 Copynumber: 5.9 Consensus size: 36
5894916 GAACACAAAA
* *
5894926 TAAAACACGGAAATTTGTGAAACACGAGAAATTTTTT
1 TAAAACACGGAAATTTTTAAAACACGAG-AATTTTTT
* * * *
5894963 TAAAACACGGAAACTTTTGAAATACGA-AA-ATTTT
1 TAAAACACGGAAATTTTTAAAACACGAGAATTTTTT
* * *** * *
5894997 AAAAACACGAAAATTTGCGAAACACGACAATTGTTT
1 TAAAACACGGAAATTTTTAAAACACGAGAATTTTTT
* ** * *
5895033 TGAAACACGAGAAATTTTTGTGAACGCGA-AA--ATTT
1 TAAAACACG-GAAATTTTT-AAAACACGAGAATTTTTT
*
5895068 TAAAACACGGAAATTTTTAAAACACGAGGATTTTTT
1 TAAAACACGGAAATTTTTAAAACACGAGAATTTTTT
* * *
5895104 TAAAGCACGGAAATTTTTGAAATACGAGAATTT
1 TAAAACACGGAAATTTTTAAAACACGAGAATTT
5895137 AAAAGAACAT
Statistics
Matches: 136, Mismatches: 31, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
33 6 0.04
34 35 0.26
35 15 0.11
36 42 0.31
37 32 0.24
38 6 0.04
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (36 bp):
TAAAACACGGAAATTTTTAAAACACGAGAATTTTTT
Found at i:5895122 original size:88 final size:88
Alignment explanation
Indices: 5894928--5895133 Score: 211
Period size: 88 Copynumber: 2.3 Consensus size: 88
5894918 ACACAAAATA
* * * * *
5894928 AAACACGGAAATTTGTGAAACACGAGAAATTTTTTTAAAACACGGAAACTTTTGAAATACGAAAA
1 AAACACGGAAATTTTTGAAACACGAGAAATTTTTGTAAAACACGGAAAATTTTAAAACACGAAAA
*
5894993 TTTTAAAAACACGAAAATTTGCG
66 TTTTAAAAACACGAAAATTTGCT
* * *
5895016 AAACAC-GACAATTGTTTTGAAACACGAGAAATTTTTGT-GAACGC-GAAAATTTTAAAACACGG
1 AAACACGGA-AA-T-TTTTGAAACACGAGAAATTTTTGTAAAACACGGAAAATTTTAAAACACGA
* * * **
5895078 AAATTTTTAAAACACGAGGATTTTTTT
63 AAATTTTAAAAACACGA-AAATTTGCT
*
5895105 AAAGCACGGAAATTTTTGAAATACGAGAA
1 AAA-CACGGAAATTTTTGAAACACGAGAA
5895134 TTTAAAAGAA
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
87 2 0.02
88 53 0.55
89 13 0.13
90 27 0.28
91 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (88 bp):
AAACACGGAAATTTTTGAAACACGAGAAATTTTTGTAAAACACGGAAAATTTTAAAACACGAAAA
TTTTAAAAACACGAAAATTTGCT
Found at i:5895210 original size:142 final size:142
Alignment explanation
Indices: 5894867--5895165 Score: 342
Period size: 142 Copynumber: 2.1 Consensus size: 142
5894857 TTTTTACAAT
* * * ** ** *
5894867 ACGAAAATTTGCGAAACATGACAA-T-TTTCGAAACACGAGAATTTTTTGAGAACAC-AAAA---
1 ACGAAAATTTACAAAACACGACAATTGTTTTAAAACACGAGAAAATTTTGTGAACACGAAAATTT
*
5894926 TAAAACACGGAAATTTGTGAAACACGAGAAATTTTTTTAAAACACGGAAACTTTTGAAATACGAA
66 TAAAACACGGAAATTTGTAAAACACGAGAAATTTTTTTAAAACACGGAAACTTTTGAAATACGAA
*
5894991 AATTTTAAAAAC
131 AATTTAAAAAAC
* * * * *
5895003 ACGAAAATTTGCGAAACACGACAATTGTTTTGAAACACGAGAAATTTTTGTGAACGCGAAAATTT
1 ACGAAAATTTACAAAACACGACAATTGTTTTAAAACACGAGAAAATTTTGTGAACACGAAAATTT
* * * * *
5895068 TAAAACACGGAAATTTTTAAAACACGAG-GATTTTTTTAAAGCACGGAAATTTTTGAAATACGAG
66 TAAAACACGGAAATTTGTAAAACACGAGAAATTTTTTTAAAACACGGAAACTTTTGAAATACGAA
5895132 AATTTAAAAGAAC
131 AATTTAAAA-AAC
* *
5895145 ATGAAAGTTTACAAAACACGA
1 ACGAAAATTTACAAAACACGA
5895166 GAAGTTTTTT
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
136 23 0.16
137 1 0.01
138 26 0.19
139 4 0.03
141 40 0.29
142 46 0.33
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.26
Consensus pattern (142 bp):
ACGAAAATTTACAAAACACGACAATTGTTTTAAAACACGAGAAAATTTTGTGAACACGAAAATTT
TAAAACACGGAAATTTGTAAAACACGAGAAATTTTTTTAAAACACGGAAACTTTTGAAATACGAA
AATTTAAAAAAC
Found at i:5895212 original size:18 final size:19
Alignment explanation
Indices: 5895191--5895232 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
5895181 AATACAAAAA
*
5895191 TTTTTGA-AACAATAGATT
1 TTTTTGATAACAATAGAAT
*
5895209 TTTTTGATAACACTAGAAT
1 TTTTTGATAACAATAGAAT
5895228 TTTTT
1 TTTTT
5895233 AAAAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (19 bp):
TTTTTGATAACAATAGAAT
Found at i:5895316 original size:18 final size:18
Alignment explanation
Indices: 5895293--5895436 Score: 122
Period size: 18 Copynumber: 8.2 Consensus size: 18
5895283 GAAAATGTAC
5895293 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
5895311 AAAACACGATAATTTTTG
1 AAAACACGAAAATTTTTG
* *
5895329 AAAAC-CTG-GAACTTTT-
1 AAAACAC-GAAAATTTTTG
* * *
5895345 AAAATACGGGAATTTTTTG
1 AAAACAC-GAAAATTTTTG
*
5895364 -AAACACCGAAATTTTTTG
1 AAAACA-CGAAAATTTTTG
*
5895382 AAAACACGAAGA-TTTT-
1 AAAACACGAAAATTTTTG
5895398 AAAACACGCAAAA-TTTTG
1 AAAACACG-AAAATTTTTG
*
5895416 GAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
5895434 AAA
1 AAA
5895437 TACGAATTTT
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
16 12 0.12
17 24 0.24
18 60 0.59
19 6 0.06
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.29
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:5896215 original size:4 final size:4
Alignment explanation
Indices: 5896191--5896231 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
5896181 TGTGGGCTGC
*
5896191 TTCT TTC- TTC- TTCT TTTT TTCT TTCT TTCT TTCT TT-T TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
5896232 GCTGCTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 9 0.27
4 24 0.73
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTCT
Found at i:5896245 original size:22 final size:22
Alignment explanation
Indices: 5896186--5896251 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 22
5896176 CTGTATGTGG
*
5896186 GCTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTT-TTCTT-TTTTCT
*
5896210 TCT--TTCTTTCTTTCTTTTTTCT
1 GCTGCTTC-TT-TTTCTTTTTTCT
*
5896232 GCTGCTTCTTTTTCTGTTTT
1 GCTGCTTCTTTTTCTTTTTT
5896252 GGTTTTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
22 19 0.56
23 9 0.26
24 6 0.18
ACGTcount: A:0.00, C:0.23, G:0.08, T:0.70
Consensus pattern (22 bp):
GCTGCTTCTTTTTCTTTTTTCT
Found at i:5896388 original size:12 final size:11
Alignment explanation
Indices: 5896359--5896426 Score: 54
Period size: 12 Copynumber: 6.3 Consensus size: 11
5896349 ACTGTTGACT
5896359 TTTC-TTTTT-
1 TTTCTTTTTTC
5896368 TTTCTTTTTTC
1 TTTCTTTTTTC
5896379 TTTCCTTTTTTC
1 TTT-CTTTTTTC
**
5896391 TCAC-TTTTTC
1 TTTCTTTTTTC
5896401 -TTCTTCTTTTTC
1 TTTC-T-TTTTTC
*
5896413 TTTCTTTGTTC
1 TTTCTTTTTTC
5896424 TTT
1 TTT
5896427 TTCTTCGGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
9 5 0.11
10 11 0.23
11 12 0.26
12 16 0.34
13 3 0.06
ACGTcount: A:0.01, C:0.21, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:5896415 original size:29 final size:30
Alignment explanation
Indices: 5896366--5896432 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
5896356 ACTTTTCTTT
5896366 TTTTTCTT-TTTTCTTTCCTTT-TTTCTCAC
1 TTTTTCTTCTTTTCTTTCCTTTCTTTCT-AC
* *
5896395 TTTTTCTTCTTCTT-TTT-CTTTCTTTGTTC
1 TTTTTCTTCTT-TTCTTTCCTTTCTTTCTAC
5896424 TTTTTCTTC
1 TTTTTCTTC
5896433 GGGTCGCACC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 22 0.67
30 9 0.27
31 2 0.06
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.75
Consensus pattern (30 bp):
TTTTTCTTCTTTTCTTTCCTTTCTTTCTAC
Found at i:5897032 original size:30 final size:30
Alignment explanation
Indices: 5896959--5897155 Score: 154
Period size: 30 Copynumber: 6.6 Consensus size: 30
5896949 CAAAATATTT
* * *
5896959 GGGGTAAAAATGTAA-TTTTAGGAAAATATA
1 GGGGTCAAAATGTAATTTTTA-GAAAGTTTA
* *
5896989 -GGGCCAAGATGTAATTTTTAGAAAGTTTA
1 GGGGTCAAAATGTAATTTTTAGAAAGTTTA
* * *
5897018 GTGGTCAAAGTGTAATTTTGAGAAAGTTTA
1 GGGGTCAAAATGTAATTTTTAGAAAGTTTA
** ** * *
5897048 ATGGTTGAAATGTAA-TTTTAGAAAATTTT
1 GGGGTCAAAATGTAATTTTTAGAAAGTTTA
* *
5897077 GGGGTCAAAATTTAAATTTTAGAAAAGTTT-
1 GGGGTCAAAATGTAATTTTTAG-AAAGTTTA
* *
5897107 GGGGTCAAAATGTAATTTTT-GAAAAGATCA
1 GGGGTCAAAATGTAATTTTTAG-AAAGTTTA
5897137 GGGG-CTAAAATGTAATTTT
1 GGGGTC-AAAATGTAATTTT
5897156 CATTTTTTTT
Statistics
Matches: 134, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
29 47 0.35
30 81 0.60
31 6 0.04
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.36
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTTAGAAAGTTTA
Found at i:5897118 original size:59 final size:58
Alignment explanation
Indices: 5896950--5897131 Score: 170
Period size: 59 Copynumber: 3.1 Consensus size: 58
5896940 TAGAAGACAC
* * * *
5896950 AAAATATTTGGGGTAAAAATGTAATTTTAGGAAAA-TATAGGGCCAAGATGTAATTTTTAG
1 AAAAT-TTTGGGGTCAAAATGTAATTTTA-GAAAAGTTTAGGGTCAAAATGTAA-TTTTAG
* * * * * **
5897010 AAAGTTTAGTGGTCAAAGTGTAATTTT-GAGAAAGTTTAATGGTTGAAATGTAATTTTAG
1 AAAATTTTGGGGTCAAAATGTAATTTTAGA-AAAGTTT-AGGGTCAAAATGTAATTTTAG
* * *
5897069 AAAATTTTGGGGTCAAAATTTAAATTTTAGAAAAGTTTGGGGTCAAAATGTAATTTTTG
1 AAAATTTTGGGGTCAAAATGT-AATTTTAGAAAAGTTTAGGGTCAAAATGTAATTTTAG
5897128 AAAA
1 AAAA
5897132 GATCAGGGGC
Statistics
Matches: 96, Mismatches: 21, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
57 2 0.02
58 3 0.03
59 62 0.65
60 27 0.28
61 2 0.02
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (58 bp):
AAAATTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGTCAAAATGTAATTTTAG
Found at i:5897148 original size:89 final size:89
Alignment explanation
Indices: 5896965--5897155 Score: 208
Period size: 89 Copynumber: 2.1 Consensus size: 89
5896955 ATTTGGGGTA
* * * *
5896965 AAAATGTAATTTTAGGAAAATATAGGGCCAAGATGTAATTTTTAGAAAGTTTAGTGGTCAAAGTG
1 AAAATGTAATTTTAGGAAAATATAGGGCCAAAATGTAAATTTTAGAAAGTTTAGGGGTCAAAATG
* * * *
5897030 TAATTTTGAGAAAGTTTAATGGTT
66 TAATTTTGAGAAAGATCAAGGGCT
* * * * *
5897054 GAAATGTAATTTTA-GAAAATTTTGGGGTCAAAATTTAAATTTTAGAAAAGTTT-GGGGTCAAAA
1 AAAATGTAATTTTAGGAAAA-TATAGGGCCAAAATGTAAATTTTAG-AAAGTTTAGGGGTCAAAA
*
5897117 TGTAATTTTTGA-AAAGATCAGGGGCT
64 TGTAA-TTTTGAGAAAGATCAAGGGCT
5897143 AAAATGTAATTTT
1 AAAATGTAATTTT
5897156 CATTTTTTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
88 5 0.06
89 66 0.79
90 13 0.15
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (89 bp):
AAAATGTAATTTTAGGAAAATATAGGGCCAAAATGTAAATTTTAGAAAGTTTAGGGGTCAAAATG
TAATTTTGAGAAAGATCAAGGGCT
Found at i:5897415 original size:50 final size:50
Alignment explanation
Indices: 5897339--5897487 Score: 226
Period size: 50 Copynumber: 3.0 Consensus size: 50
5897329 AGTTATTACA
5897339 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGAC
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGAC
* * *
5897389 GTGGCGTTGGCACCGAGATGAGAGGTCCCTTGTAAGACCATGTCTGGGAC
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGAC
* * * **
5897439 ATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTGGGA
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGA
5897488 TATGACATTG
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.21
Consensus pattern (50 bp):
ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGAC
Found at i:5898256 original size:21 final size:22
Alignment explanation
Indices: 5898226--5898266 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5898216 TTCGTGTAAC
* *
5898226 TTGAATTATAT-TCTTAGATGA
1 TTGAAATATATATATTAGATGA
5898247 TTGAAATATATATATTAGAT
1 TTGAAATATATATATTAGAT
5898267 TGAGAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.46
Consensus pattern (22 bp):
TTGAAATATATATATTAGATGA
Found at i:5899338 original size:16 final size:15
Alignment explanation
Indices: 5899313--5899365 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 15
5899303 TAAATAAATT
*
5899313 AAAAATTAATTATAA
1 AAAAAATAATTATAA
5899328 AAAAGAATAATTTATTAA
1 AAAA-AATAA-TTA-TAA
5899346 AAATAAATAA-TATAA
1 AAA-AAATAATTATAA
5899361 AAAAA
1 AAAAA
5899366 TTCAATATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
14 2 0.06
15 10 0.30
16 6 0.18
17 3 0.09
18 11 0.33
19 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
AAAAAATAATTATAA
Found at i:5901715 original size:35 final size:35
Alignment explanation
Indices: 5901676--5901744 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
5901666 ACTTGCCTCT
5901676 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
5901711 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
5901745 TCACACACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.51, G:0.12, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:5901771 original size:34 final size:35
Alignment explanation
Indices: 5901693--5901772 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
5901683 CTCCCATGCT
* * * * *
5901693 GTCTGCCACCAGCACCACTCCCACTCTCCCATGCT
1 GTCTGCCACCAGCACCACTCACACACCCCCATACC
5901728 GTCTGCCACCAGCACCA-TCACACACCCCCATACC
1 GTCTGCCACCAGCACCACTCACACACCCCCATACC
*
5901762 GTCTACCACCA
1 GTCTGCCACCA
5901773 CCATGCCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 22 0.56
35 17 0.44
ACGTcount: A:0.23, C:0.51, G:0.10, T:0.16
Consensus pattern (35 bp):
GTCTGCCACCAGCACCACTCACACACCCCCATACC
Found at i:5910678 original size:86 final size:87
Alignment explanation
Indices: 5910533--5910713 Score: 283
Period size: 86 Copynumber: 2.1 Consensus size: 87
5910523 ATCAGTAAAA
* * *
5910533 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGTTGGTTGAAGATAGCAAATCTTGCCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAAATCTTACCTT
5910598 CCTGCA-TTGACAGCGAAGCAG
66 CCTGCATTTGACAGCGAAGCAG
* * *
5910619 ATCGAAGACAAACCTTGCCTCTCTTGTTTGTAGCAGAGCTGGTTGAAGATAATAGATCTTACCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAAATCTTACCTT
* *
5910684 CCTGTATTTGGCAGCGAAGCAG
66 CCTGCATTTGACAGCGAAGCAG
5910706 ATCGAAGA
1 ATCGAAGA
5910714 TGGCCGATTT
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 64 0.74
87 22 0.26
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (87 bp):
ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAAATCTTACCTT
CCTGCATTTGACAGCGAAGCAG
Found at i:5910902 original size:134 final size:134
Alignment explanation
Indices: 5910672--5912655 Score: 2038
Period size: 134 Copynumber: 14.8 Consensus size: 134
5910662 TGAAGATAAT
*
5910672 AGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCCGATTTTACCTCCCTGACT
1 AGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACT
5910737 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
5910802 TTGC
131 TTGC
* *
5910806 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCCGATTTTACCTCCCTGACT
1 AGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACT
* **
5910871 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAAAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
5910936 TTGC
131 TTGC
*
5910940 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACT
5911005 ACAGTGGAGTACATTGAAGCCGAT-ATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
5911069 TTGC
131 TTGC
* * * *
5911073 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCTGATTTTACCTCTCTGACT
1 AGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACT
* *
5911138 ACAGTGGAGTATATTGAAGCCGATAATTCTACCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
5911203 TTGC
131 TTGC
* * *
5911207 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCTCTGACT
1 AGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACT
* *
5911272 ACAGTGGAGTATATTGAAGCCGATAATTCTACCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
5911337 TTGC
131 TTGC
* * * *
5911341 AGATCTTGCCTTCCTGTATTTGGCAGCGACA-CAGATCAAAGATGGCTGATTTTACCTCTCTGAC
1 AGATCTTACCTTCCTGTATTTGGCAGCGA-AGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
* * *
5911405 TACAGTGGAGAATATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCGGTGGAATAGATTGAAG
65 TACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAG
5911470 ATTGC
130 ATTGC
* *
5911475 AGATCTTGCCTTCCTGTATTTGGCAGCGACA-CAGATCAAAGATGGCAGATTTTACCTCCCTGAC
1 AGATCTTACCTTCCTGTATTTGGCAGCGA-AGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
*
5911539 TACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGTAGTGGAATAGATTGAAG
65 TACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAG
5911604 ATTGC
130 ATTGC
* * *
5911609 AGATCTTGCCTTCCTGTATTTGGCAGCGAAACAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACT
*
5911674 ACAGTGGAGTACATTGAAACCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
*
5911739 TTAC
131 TTGC
* * **** * * * * *
5911743 AGATCTTATC-TCC-CTAAGCAGTAGTGGAGTAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACT
*
5911806 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
5911871 TCAAAGATGGC
131 T------T-GC
* * * * * * * * ** ** * * *
5911882 AGATTTTACC-TCCATGTGA-CT-ACAGTGGAGTACATTGAAGCCGATA-ACTCTATCTCCCTGT
1 AGATCTTACCTTCC-TGT-ATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTG-
* * * * * * * * *
5911943 ATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-ACAGTGG
63 A-CT-ACAGTGGAGTACATTGAAG--C--CGAT---A-ATTCTATCTCCCTGTATTTGGCAGTGG
* * **
5912005 AGTACATTGAAG-CCG-
118 AATAGATTGAAGATTGC
* * * * * *
5912020 ATAACTCTATCTTCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGAGTTTACCT
1 AGATCT-TACCTTCCTGTATTTGGCAG-CG---A-A--GCAGATCGAAGATGGCAGATTTTACCT
* * *
5912085 CCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGCAGTGGAATAG
58 CCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAG
*
5912150 ATTGAAGATTAC
123 ATTGAAGATTGC
* * * * * * * * * * *
5912162 AGATCTTATCTCCCTAAGCA-AT---AGTGGAGCAGGTTGAAGACGGCGGATTTTACCTCCCTAA
1 AGATCTTACCTTCCT--GTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGA
* * * * ***** *
5912223 TTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTG--GGCAACAGTGGAATAGATCGAA
64 CTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAA
*
5912286 GATTAC
129 GATTGC
* * * * * * *
5912292 AGATCTTATCTCCCTAAGCA-AT---AGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCCTGA
1 AGATCTTACCTTCCT--GTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGA
* *
5912353 CTCCAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAA
64 CTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAA
*
5912418 GATTAC
129 GATTGC
* * * * * * * * * *
5912424 AGATCTTATCTCCCTAAGCA-AT---AGTGGAGCAGGTCGAAGACGACGGATTTTACCTCCCTGA
1 AGATCTTACCTTCCT--GTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGA
* * * * ***** *
5912485 TTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTG--GGCAACAGTGGAATAGATCGAA
64 CTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAA
*
5912548 GATTAC
129 GATTGC
* * * * * * * * * *
5912554 AGATATTATCTCCCTAAGCA-AT---AGTGGAGCAGGTCGAAGACGGCGGATTTTACCTCCCTGA
1 AGATCTTACCTTCCT--GTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGA
* * * *
5912615 TTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTG
64 CTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTG
5912656 GACAACAGTG
Statistics
Matches: 1639, Mismatches: 166, Indels: 94
0.86 0.09 0.05
Matches are distributed among these distances:
130 236 0.14
132 281 0.17
133 130 0.08
134 788 0.48
135 1 0.00
137 10 0.01
138 8 0.00
139 34 0.02
140 39 0.02
141 14 0.01
142 22 0.01
143 3 0.00
144 1 0.00
145 17 0.01
146 4 0.00
147 27 0.02
148 11 0.01
149 2 0.00
150 11 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (134 bp):
AGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACT
ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
TTGC
Found at i:5911189 original size:45 final size:45
Alignment explanation
Indices: 5910738--5911335 Score: 146
Period size: 46 Copynumber: 13.4 Consensus size: 45
5910728 TCCCTGACTA
* *
5910738 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGCCGATAATTCTACCTCCCTGTATTTGG
* ** * * *
5910783 CAGTGGAATAGATTGAAGATTGCA-GA-TCTTGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAG-CCG-ATAATTC-TACCTCCCTGTATTTGG
* * * * * *
5910829 CAGCGAAGCAGATCGAAGATGGCCGAT--TT-TACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTG-A-A--GCCGATAATTCTACCTCCCTGTATTTGG
* * *
5910872 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGCCGATAATTCTACCTCCCTGTATTTGG
** * ** * * *
5910917 CAGTAAAATAGATTGAAGATTGCA-GA-TCTTGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAG-CCG-ATAATTC-TACCTCCCTGTATTTGG
* * * * ** ** * * *
5910963 CAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGCCGATA-ATTCTACCTCCCTGTATTTGG
* *
5911006 CAGTGGAGTACATTGAAGCCGAT-ATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGCCGATAATTCTACCTCCCTGTATTTGG
* ** * * *
5911050 CAGTGGAATAGATTGAAGATTGCA-GA-TCTTGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAG-CCG-ATAATTC-TACCTCCCTGTATTTGG
* * * ** ** * * * * * *
5911096 CAGCGAAGCAGATCAAAGATGGCTGATTTTACCTCTCTG-A-CT-A
1 CAGTGGAGTAGATTGAAG-CCGATAATTCTACCTCCCTGTATTTGG
*
5911139 CAGTGGAGTATATTGAAGCCGATAATTCTACCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGCCGATAATTCTACCTCCCTGTATTTGG
* ** * * *
5911184 CAGTGGAATAGATTGAAGATTGCA-GA-TCTTGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAG-CCG-ATAATTC-TACCTCCCTGTATTTGG
* * * ** ** ** * * * *
5911230 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCTCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGCCGATA-ATTCTACCTCCCTGTATTTGG
*
5911273 CAGTGGAGTATATTGAAGCCGATAATTCTACCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGCCGATAATTCTACCTCCCTGTATTTGG
*
5911318 CAGTGGAATAGATTGAAG
1 CAGTGGAGTAGATTGAAG
5911336 ATTGCAGATC
Statistics
Matches: 374, Mismatches: 137, Indels: 84
0.63 0.23 0.14
Matches are distributed among these distances:
39 6 0.02
41 14 0.04
42 37 0.10
43 54 0.14
44 23 0.06
45 79 0.21
46 149 0.40
47 7 0.02
48 3 0.01
49 1 0.00
50 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (45 bp):
CAGTGGAGTAGATTGAAGCCGATAATTCTACCTCCCTGTATTTGG
Found at i:5911883 original size:95 final size:95
Alignment explanation
Indices: 5911773--5912158 Score: 700
Period size: 95 Copynumber: 4.0 Consensus size: 95
5911763 GTAGTGGAGT
5911773 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
5911838 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
*
5911868 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
5911933 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
5911965 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
5912030 CTTCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* * *
5912060 AGATCGAAGATGGCAGAGTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
5912125 CTCTCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
5912155 AGAT
1 AGAT
5912159 TACAGATCTT
Statistics
Matches: 281, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
95 187 0.67
97 94 0.33
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:5912372 original size:130 final size:130
Alignment explanation
Indices: 5912139--5912679 Score: 884
Period size: 130 Copynumber: 4.1 Consensus size: 130
5912129 CTGTATTTGG
* *
5912139 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTTGAAGACG
1 CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
*
5912204 GCGGATTTTACCTCCCTAATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAA
66 GCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAA
*
5912269 CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATG
1 CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
* * * * * ** ***
5912334 GCAGATTTTACCTCCCTGACTCCAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTT
66 GCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTG--GGC
**
5912399 GG
129 AA
*
5912401 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
1 CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
*
5912466 ACGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAA
66 GCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAA
*
5912531 CAGTGGAATAGATCGAAGATTACAGATATTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
1 CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
*
5912596 GCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGACAA
66 GCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAA
5912661 CAGTGGAATAGATCGAAGA
1 CAGTGGAATAGATCGAAGA
5912680 AAACAACATT
Statistics
Matches: 374, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
130 259 0.69
132 115 0.31
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (130 bp):
CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
GCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAA
Found at i:5912534 original size:43 final size:44
Alignment explanation
Indices: 5912487--5912678 Score: 117
Period size: 43 Copynumber: 4.4 Consensus size: 44
5912477 CTCCCTGATT
* * *
5912487 ACAGTGGAGTACATTGAAGCTGGTAG-TTCTATCTCCCTGGGCA
1 ACAGTGGAGTACATCGAAGCTGGCAGATTCTATCTCCCTGGACA
* * * ** *
5912530 ACAGTGGAATAGATCGAAGATTACAGATAT-TATCTCCCT-AAGCA
1 ACAGTGGAGTACATCGAAGCTGGCAGAT-TCTATCTCCCTGGA-CA
* * ** * * * **
5912574 ATAGTGGAGCAGGTCGAAGAC-GGCGGATTTTACCTCCCT-GATT
1 ACAGTGGAGTACATCGAAG-CTGGCAGATTCTATCTCCCTGGACA
* *
5912617 ACAGTGGAGTACATTGAAGCTGGTAG-TTCTATCTCCCTGGACA
1 ACAGTGGAGTACATCGAAGCTGGCAGATTCTATCTCCCTGGACA
* *
5912660 ACAGTGGAATAGATCGAAG
1 ACAGTGGAGTACATCGAAG
5912679 AAAACAACAT
Statistics
Matches: 107, Mismatches: 35, Indels: 14
0.69 0.22 0.09
Matches are distributed among these distances:
42 11 0.10
43 55 0.51
44 40 0.37
45 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (44 bp):
ACAGTGGAGTACATCGAAGCTGGCAGATTCTATCTCCCTGGACA
Found at i:5912591 original size:44 final size:43
Alignment explanation
Indices: 5912139--5912593 Score: 148
Period size: 44 Copynumber: 10.4 Consensus size: 43
5912129 CTGTATTTGG
** * *
5912139 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAA
1 CAGTGGAGCAGATCGAAGATGACAGAT-TTATCTCCCTAAGCAA
* * * * * * * **
5912183 TAGTGGAGCAGGTTGAAGACGGCGGATTTTACCTCCCTAA-TTA
1 CAGTGGAGCAGATCGAAGATGACAGA-TTTATCTCCCTAAGCAA
* * * * ** **
5912226 CAGTGGAGTACATTGAAGCTGGTAG-TTCTATCTCCCTGGGCAA
1 CAGTGGAGCAGATCGAAGATGACAGATT-TATCTCCCTAAGCAA
** *
5912269 CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAA
1 CAGTGGAGCAGATCGAAGATGACAGAT-TTATCTCCCTAAGCAA
* * * * * **
5912313 TAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCCTGA-CTC
1 CAGTGGAGCAGATCGAAGATGACAGA-TTTATCTCCCTAAGCAA
* * * ** * * *****
5912356 CAGTGGAGTACATTGAAGCCGATA-ACTCTATCTCCCTGTATTTGG
1 CAGTGGAGCAGATCGAAGATGACAGA-TTTATCTCCC--TAAGCAA
** * *
5912401 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAA
1 CAGTGGAGCAGATCGAAGATGACAGAT-TTATCTCCCTAAGCAA
* * * * * * **
5912445 TAGTGGAGCAGGTCGAAGACGACGGATTTTACCTCCCTGA-TTA
1 CAGTGGAGCAGATCGAAGATGACAGA-TTTATCTCCCTAAGCAA
* * * * ** **
5912488 CAGTGGAGTACATTGAAGCTGGTAG-TTCTATCTCCCTGGGCAA
1 CAGTGGAGCAGATCGAAGATGACAGATT-TATCTCCCTAAGCAA
** *
5912531 CAGTGGAATAGATCGAAGATTACAGATATTATCTCCCTAAGCAA
1 CAGTGGAGCAGATCGAAGATGACAGAT-TTATCTCCCTAAGCAA
* *
5912575 TAGTGGAGCAGGTCGAAGA
1 CAGTGGAGCAGATCGAAGA
5912594 CGGCGGATTT
Statistics
Matches: 284, Mismatches: 111, Indels: 32
0.67 0.26 0.07
Matches are distributed among these distances:
41 4 0.01
42 26 0.09
43 88 0.31
44 133 0.47
45 24 0.08
46 9 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
CAGTGGAGCAGATCGAAGATGACAGATTTATCTCCCTAAGCAA
Found at i:5912611 original size:44 final size:44
Alignment explanation
Indices: 5912433--5912612 Score: 107
Period size: 44 Copynumber: 4.1 Consensus size: 44
5912423 CAGATCTTAT
* *
5912433 CTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGACGGATTTTAC
1 CTCCCTAAGCAACAGTGGAGCAGATCGAAGACGACGGATTTTAC
* ** * * * * * *
5912477 CTCCCTGA-TTACAGTGGAGTACATTGAAG-CTG--GTAGTTCTAT
1 CTCCCTAAGCAACAGTGGAGCAGATCGAAGAC-GACGGA-TTTTAC
** ** ** * * *
5912519 CTCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATATTAT
1 CTCCCTAAGCAACAGTGGAGCAGATCGAAGACGACGGATTTTAC
* * *
5912563 CTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGCGGATTTTAC
1 CTCCCTAAGCAACAGTGGAGCAGATCGAAGACGACGGATTTTAC
5912607 CTCCCT
1 CTCCCT
5912613 GATTACAGTG
Statistics
Matches: 95, Mismatches: 35, Indels: 12
0.67 0.25 0.08
Matches are distributed among these distances:
41 2 0.02
42 12 0.13
43 31 0.33
44 49 0.52
45 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (44 bp):
CTCCCTAAGCAACAGTGGAGCAGATCGAAGACGACGGATTTTAC
Found at i:5919465 original size:32 final size:32
Alignment explanation
Indices: 5919424--5919492 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
5919414 GTACATGTCA
** *
5919424 CATGTTCCATACTCTAGTGTAGTGGGATCTCT
1 CATGTTCCATACTCTAGTCCAATGGGATCTCT
*
5919456 CATGTTCCATACTCTAGTCCAATGGGATCTTT
1 CATGTTCCATACTCTAGTCCAATGGGATCTCT
5919488 CATGT
1 CATGT
5919493 ATGCTATGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (32 bp):
CATGTTCCATACTCTAGTCCAATGGGATCTCT
Found at i:5927642 original size:30 final size:30
Alignment explanation
Indices: 5927596--5927689 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
5927586 TTTTATTATG
*
5927596 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
5927627 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
5927657 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
5927687 CCA
1 CCA
5927690 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:5927651 original size:15 final size:15
Alignment explanation
Indices: 5927606--5927683 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
5927596 CCAATATCTC
5927606 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
5927621 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
5927636 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
5927651 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
5927666 GATACCCATATCTTT
1 GATACCCATATCTTT
5927681 GAT
1 GAT
5927684 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:5932295 original size:30 final size:30
Alignment explanation
Indices: 5932249--5932342 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
5932239 TTTTATTATG
*
5932249 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
5932280 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
5932310 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
5932340 CCA
1 CCA
5932343 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:5932304 original size:15 final size:15
Alignment explanation
Indices: 5932259--5932336 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
5932249 CCAATATCTC
5932259 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
5932274 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
5932289 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
5932304 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
5932319 GATACCCATATCTTT
1 GATACCCATATCTTT
5932334 GAT
1 GAT
5932337 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:5943907 original size:87 final size:86
Alignment explanation
Indices: 5943794--5944038 Score: 339
Period size: 87 Copynumber: 2.8 Consensus size: 86
5943784 AATTTACAGA
*
5943794 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATC-TAATCCCTCTAAGCATTAG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTTAA-CCC-CTAAGCAGTAG
*
5943858 GGAAACAGATCGAGGGTGACAAG
64 GGAAACAGATCGAAGGTGACAAG
*
5943881 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTTAA-CCCCTAAGCAGTAGG
**
5943946 GAAACAGATCGAAGGTGACGGG
65 GAAACAGATCGAAGGTGACAAG
* * * * * *
5943968 CTTTAACCCCCTAAGCAGTAGGGTAGCAAGTCGAATTTACAGACCTTAAACCCCTAAGCAGTAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTT-AACCCCTAAGCAGTAGG
*
5944033 GTAACA
65 GAAACA
5944039 AGTTGAATTT
Statistics
Matches: 142, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
87 134 0.94
88 8 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (86 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTTAACCCCTAAGCAGTAGGG
AAACAGATCGAAGGTGACAAG
Found at i:5944015 original size:130 final size:130
Alignment explanation
Indices: 5943881--5944169 Score: 418
Period size: 130 Copynumber: 2.2 Consensus size: 130
5943871 GGGTGACAAG
*
5943881 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTAAACCCCCTAAGCAGTAGG
* ** * * *
5943946 GAAACAGATCGAAGGTGACGGGCTTTAACCCCCTAAGCAGTAGGGTAGCAAGTCGAATTTACAGA
66 GAAACAAATCGAAGGTGACAAGCCTTAACCCCCTAAACAGTAGGGTAACAAGTCGAATTTACAGA
* * *
5944011 CCTTAAACCCCTAAGCAGTAGGGTAACAAGTTGAATTTACAGATCTAAACCCCCTAAGCATTAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTAAACCCCCTAAGCAGTAGG
* * * *
5944076 GAAACAAATCGAATGTGACAAGCCTTAACCCCTTAAACAGTAGGGTAACAGGTTGAATTTACAGA
66 GAAACAAATCGAAGGTGACAAGCCTTAACCCCCTAAACAGTAGGGTAACAAGTCGAATTTACAGA
* *
5944141 TCTT-AACCCTCTAAGCAGTAGGGAAACAG
1 CCTTAAACCC-CTAAGCAGTAGGGTAACAG
5944170 ATCGAAAGCG
Statistics
Matches: 141, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
129 5 0.04
130 136 0.96
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (130 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTAAACCCCCTAAGCAGTAGG
GAAACAAATCGAAGGTGACAAGCCTTAACCCCCTAAACAGTAGGGTAACAAGTCGAATTTACAGA
Found at i:5944102 original size:87 final size:86
Alignment explanation
Indices: 5943972--5944202 Score: 277
Period size: 87 Copynumber: 2.7 Consensus size: 86
5943962 GACGGGCTTT
* * * *
5943972 AACCCCCTAAGCAGTAGGGTAGCAAGTCGAAT-TTACAGACCTTAAACCCCTAAGCAGTAGGGTA
1 AACCCCCTAAGCAGTAGGGAAACAAATCGAATGTGACAG-CCTTAAACCCCTAAGCAGTAGGGTA
5944036 ACAAGTTGAATTTACAGATCTA
65 ACAAGTTGAATTTACAGATCTA
* *
5944058 AACCCCCTAAGCATTAGGGAAACAAATCGAATGTGACAAGCCTT-AACCCCTTAAACAGTAGGGT
1 AACCCCCTAAGCAGTAGGGAAACAAATCGAATGTGAC-AGCCTTAAACCCC-TAAGCAGTAGGGT
* *
5944122 AACAGGTTGAATTTACAGATCTT
64 AACAAGTTGAATTTACAGATCTA
* * * * ** *
5944145 AACCCTCTAAGCAGTAGGGAAACAGATCGAAAGCGATGGGCCTTAAACCTCTAAGCAG
1 AACCCCCTAAGCAGTAGGGAAACAAATCGAATGTGA-CAGCCTTAAACCCCTAAGCAG
5944203 CAGTGAAACA
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
86 34 0.28
87 82 0.67
88 7 0.06
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (86 bp):
AACCCCCTAAGCAGTAGGGAAACAAATCGAATGTGACAGCCTTAAACCCCTAAGCAGTAGGGTAA
CAAGTTGAATTTACAGATCTA
Found at i:5944137 original size:217 final size:217
Alignment explanation
Indices: 5943750--5944202 Score: 719
Period size: 217 Copynumber: 2.1 Consensus size: 217
5943740 GAACTCACGA
* *
5943750 GCCTTAAGCCCTTAAGCAGTAGGGTAGCAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAGCAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAG
* * * * *
5943815 GGTAACAGGTTGAATTTACAGATCTAATCCCTCTAAGCATTAGGGAAACAGATCGAGGGTGACAA
66 GGTAACAAGTTGAATTTACAGATCTAAACCCCCTAAGCATTAGGGAAACAAATCGAAGGTGACAA
*
5943880 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
131 GCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
* *
5943945 GGAAACAGATCGAAGGTGACGG
196 GGAAACAGATCGAAAGCGACGG
* * * *
5943967 GCTTTAACCCCCTAAGCAGTAGGGTAGCAAGTCGAATTTACAGACCTTAAACCCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAGCAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAG
*
5944032 GGTAACAAGTTGAATTTACAGATCTAAACCCCCTAAGCATTAGGGAAACAAATCGAATGTGACAA
66 GGTAACAAGTTGAATTTACAGATCTAAACCCCCTAAGCATTAGGGAAACAAATCGAAGGTGACAA
* *
5944097 GCCTT-AACCCCTTAAACAGTAGGGTAACAGGTTGAATTTACAGATCTTAACCCTCTAAGCAGTA
131 GCCTTAAACCCC-TAAACAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTA
*
5944161 GGGAAACAGATCGAAAGCGATGG
195 GGGAAACAGATCGAAAGCGACGG
*
5944184 GCCTTAAACCTCTAAGCAG
1 GCCTTAAACCCCTAAGCAG
5944203 CAGTGAAACA
Statistics
Matches: 215, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
216 6 0.03
217 209 0.97
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (217 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAGCAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAG
GGTAACAAGTTGAATTTACAGATCTAAACCCCCTAAGCATTAGGGAAACAAATCGAAGGTGACAA
GCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
GGAAACAGATCGAAAGCGACGG
Found at i:5951362 original size:21 final size:22
Alignment explanation
Indices: 5951336--5951377 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
5951326 TGACCTTTCC
*
5951336 AAGGTATGGG-TAGGTATGGGA
1 AAGGTATGGGCAAGGTATGGGA
5951357 AAGGTATGGGCAAGGTATGGG
1 AAGGTATGGGCAAGGTATGGG
5951378 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (22 bp):
AAGGTATGGGCAAGGTATGGGA
Found at i:5951363 original size:11 final size:10
Alignment explanation
Indices: 5951336--5951377 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
5951326 TGACCTTTCC
5951336 AAGGTATGGG
1 AAGGTATGGG
*
5951346 TAGGTATGGG
1 AAGGTATGGG
5951356 AAAGGTATGGG
1 -AAGGTATGGG
5951367 CAAGGTATGGG
1 -AAGGTATGGG
5951378 GTATATTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (10 bp):
AAGGTATGGG
Found at i:5953778 original size:14 final size:15
Alignment explanation
Indices: 5953750--5953781 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5953740 AATAGAAGAG
5953750 AAGGAAAAATAAAAA
1 AAGGAAAAATAAAAA
*
5953765 AAGGAAAATTAAAAA
1 AAGGAAAAATAAAAA
5953780 AA
1 AA
5953782 TTAAATTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.09
Consensus pattern (15 bp):
AAGGAAAAATAAAAA
Found at i:5954001 original size:31 final size:29
Alignment explanation
Indices: 5953940--5954008 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
5953930 GCTATAACGT
**
5953940 AAGTGACTAAAATATAACATTTCAAACAA
1 AAGTGACTAAAATATAACATAACAAACAA
*
5953969 AAGTGACTAAAATATAACCTGAACTAAACAA
1 AAGTGACTAAAATATAACAT-AAC-AAACAA
*
5954000 AAATGACTA
1 AAGTGACTA
5954009 TTTTAGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.56
30 1 0.03
31 14 0.41
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAATATAACATAACAAACAA
Found at i:5955775 original size:21 final size:22
Alignment explanation
Indices: 5955732--5955777 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
5955722 CCGCCCTAGC
*
5955732 CTTGTCAGCCACCTGCTCCACCG
1 CTTGTCAACCACCTGC-CCACCG
5955755 CTTGTCAACCACCTG-CCACCG
1 CTTGTCAACCACCTGCCCACCG
5955776 CT
1 CT
5955778 CAAGTTGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.36
23 14 0.64
ACGTcount: A:0.15, C:0.48, G:0.15, T:0.22
Consensus pattern (22 bp):
CTTGTCAACCACCTGCCCACCG
Found at i:5957169 original size:13 final size:13
Alignment explanation
Indices: 5957153--5957211 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
5957143 TACTGTGTAA
5957153 ATATTTTAATATT
1 ATATTTTAATATT
* *
5957166 ATATTAT-GTA-T
1 ATATTTTAATATT
*
5957177 ACATTTTATATATAT
1 ATATTTTA-ATAT-T
*
5957192 ATCTTTTAATATT
1 ATATTTTAATATT
5957205 ATATTTT
1 ATATTTT
5957212 TATGTATATA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
11 6 0.18
12 2 0.06
13 15 0.44
14 4 0.12
15 7 0.21
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (13 bp):
ATATTTTAATATT
Found at i:5957175 original size:24 final size:24
Alignment explanation
Indices: 5957139--5957193 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
5957129 TTCTAATATG
* * *
5957139 TATATACTGTGTAAATATTTTA-A
1 TATATATTATGTAAACATTTTATA
*
5957162 TATTATATTATGTATACATTTTATA
1 TA-TATATTATGTAAACATTTTATA
5957187 TATATAT
1 TATATAT
5957194 CTTTTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 21 0.81
25 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (24 bp):
TATATATTATGTAAACATTTTATA
Found at i:5957198 original size:15 final size:14
Alignment explanation
Indices: 5957180--5957221 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
5957170 TATGTATACA
5957180 TTTTATATATATAT
1 TTTTATATATATAT
5957194 CTTTTA-ATATTATAT
1 -TTTTATATA-TATAT
*
5957209 TTTTATGTATATA
1 TTTTATATATATA
5957222 CCTTAATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (14 bp):
TTTTATATATATAT
Found at i:5957967 original size:57 final size:58
Alignment explanation
Indices: 5957928--5958040 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 58
5957918 TTCTGTTATG
* *
5957928 CCTGTTAATATCGGAATTTGAATTTATTCACGCATTC-TTTGTTATCTCATTTTATTA
1 CCTGTCAATATCGGAATTTGAATTTATTCACGCATTCTTTTGTTATCTCATGTTATTA
*
5957985 CCTGTCAATATCGGAATTTGAATTTATTCACGCATTC-TTTGTTATCTCATTTTATT
1 CCTGTCAATATCGGAATTTGAATTTATTCACGCATTCTTTTGTTATCTCATGTTATT
5958041 GCAACTTATG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.49
Consensus pattern (58 bp):
CCTGTCAATATCGGAATTTGAATTTATTCACGCATTCTTTTGTTATCTCATGTTATTA
Found at i:5957981 original size:28 final size:28
Alignment explanation
Indices: 5957950--5958040 Score: 71
Period size: 28 Copynumber: 3.2 Consensus size: 28
5957940 GGAATTTGAA
5957950 TTTATTCACGCATTCTTTGTTATCTCAT
1 TTTATTCACGCATTCTTTGTTATCTCAT
* ** * * *
5957978 TTTATT-AC-C-TGTCAATATCGGAATTTGAA
1 TTTATTCACGCAT-TC--T-TTGTTATCTCAT
5958007 TTTATTCACGCATTCTTTGTTATCTCAT
1 TTTATTCACGCATTCTTTGTTATCTCAT
5958035 TTTATT
1 TTTATT
5958041 GCAACTTATG
Statistics
Matches: 44, Mismatches: 12, Indels: 14
0.63 0.17 0.20
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 2 0.05
28 19 0.43
29 13 0.30
30 2 0.05
31 3 0.07
32 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.09, T:0.52
Consensus pattern (28 bp):
TTTATTCACGCATTCTTTGTTATCTCAT
Found at i:5961497 original size:18 final size:18
Alignment explanation
Indices: 5961474--5961510 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
5961464 TTTCACCTGC
5961474 ATTAATCAATAACATTAA
1 ATTAATCAATAACATTAA
5961492 ATTAATCAATAACATTAA
1 ATTAATCAATAACATTAA
5961510 A
1 A
5961511 ATATTAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (18 bp):
ATTAATCAATAACATTAA
Found at i:5963001 original size:11 final size:11
Alignment explanation
Indices: 5962974--5963020 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
5962964 TGACCTTTCC
5962974 AAGGTATGGG-
1 AAGGTATGGGA
*
5962984 TAGGTATGGGA
1 AAGGTATGGGA
*
5962995 AAGGTATGGGC
1 AAGGTATGGGA
5963006 AAGGTATGGGCA
1 AAGGTATGGG-A
5963018 AAG
1 AAG
5963021 AATGGGTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 9 0.29
11 19 0.61
12 3 0.10
ACGTcount: A:0.32, C:0.04, G:0.45, T:0.19
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:5963013 original size:22 final size:22
Alignment explanation
Indices: 5962974--5963020 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
5962964 TGACCTTTCC
*
5962974 AAGGTATGGGTAGGTATGGG-A
1 AAGGTATGGGAAGGTATGGGCA
5962995 AAGGTATGGGCAAGGTATGGGCA
1 AAGGTATGGG-AAGGTATGGGCA
5963018 AAG
1 AAG
5963021 AATGGGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.43
22 9 0.39
23 4 0.17
ACGTcount: A:0.32, C:0.04, G:0.45, T:0.19
Consensus pattern (22 bp):
AAGGTATGGGAAGGTATGGGCA
Found at i:5963025 original size:22 final size:22
Alignment explanation
Indices: 5962985--5963026 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5962975 AGGTATGGGT
*
5962985 AGGTATGGGAAAGGTATGGGCA
1 AGGTATGGGAAAGGAATGGGCA
5963007 AGGTATGGGCAAA-GAATGGG
1 AGGTATGGG-AAAGGAATGGG
5963027 TATATTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.33, C:0.05, G:0.45, T:0.17
Consensus pattern (22 bp):
AGGTATGGGAAAGGAATGGGCA
Found at i:5967147 original size:18 final size:18
Alignment explanation
Indices: 5967073--5967139 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
5967063 CCCAACTACT
*
5967073 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
*
5967091 GTATACATGAATAGTACC
1 GTATACGTGAATAGTACC
* * **
5967109 ATATATGTGAATAGTGTC
1 GTATACGTGAATAGTACC
5967127 GTATACGTGAATA
1 GTATACGTGAATA
5967140 ATAACGTAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:5967706 original size:11 final size:11
Alignment explanation
Indices: 5967679--5967725 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
5967669 TGACCTTTCC
5967679 AAGGTATGGG-
1 AAGGTATGGGA
*
5967689 TAGGTATGGGA
1 AAGGTATGGGA
*
5967700 AAGGTATGGGC
1 AAGGTATGGGA
5967711 AAGGTATGGGCA
1 AAGGTATGGG-A
5967723 AAG
1 AAG
5967726 AATGGGTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 9 0.29
11 19 0.61
12 3 0.10
ACGTcount: A:0.32, C:0.04, G:0.45, T:0.19
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:5967718 original size:22 final size:22
Alignment explanation
Indices: 5967679--5967725 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
5967669 TGACCTTTCC
*
5967679 AAGGTATGGGTAGGTATGGG-A
1 AAGGTATGGGAAGGTATGGGCA
5967700 AAGGTATGGGCAAGGTATGGGCA
1 AAGGTATGGG-AAGGTATGGGCA
5967723 AAG
1 AAG
5967726 AATGGGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.43
22 9 0.39
23 4 0.17
ACGTcount: A:0.32, C:0.04, G:0.45, T:0.19
Consensus pattern (22 bp):
AAGGTATGGGAAGGTATGGGCA
Found at i:5967730 original size:22 final size:22
Alignment explanation
Indices: 5967690--5967731 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5967680 AGGTATGGGT
*
5967690 AGGTATGGGAAAGGTATGGGCA
1 AGGTATGGGAAAGGAATGGGCA
5967712 AGGTATGGGCAAA-GAATGGG
1 AGGTATGGG-AAAGGAATGGG
5967732 TATATTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.33, C:0.05, G:0.45, T:0.17
Consensus pattern (22 bp):
AGGTATGGGAAAGGAATGGGCA
Found at i:5972346 original size:3 final size:3
Alignment explanation
Indices: 5972332--5972634 Score: 119
Period size: 3 Copynumber: 100.0 Consensus size: 3
5972322 AATAGGACAG
* * *
5972332 ATA ATA AAA ATA ATA GTA ATA ATTA A-A A-A AT- ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
5972375 ATA TTA A-A AAA AGTA A-A TATA ATG ATG ATA ATA GAAA ATA ATG ATA
1 ATA ATA ATA ATA A-TA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA ATA
5972421 ATA ATA ATGGA AGTA ATGA A-A ATA ATA ATA ATA ATA ATA ATA GA-A
1 ATA ATA AT--A A-TA AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * *
5972466 ATA AGA GTA ATA AGA GTA ATA ATA A-A ATA ACA ATG ATA CATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA
* * * *
5972512 ATA AT- ATA CGTA CTA ATA ATA ATA ACA AT- ATA A-A AAA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
5972555 CT- ATA TTA ATA AAA ATA ATA ATA GTA GATTA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA
* * * *
5972601 AAA AGGTA AAA ATA AAA ATA A-A ATA ATA AAA ATA
1 ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5972635 CTATTACGTT
Statistics
Matches: 221, Mismatches: 51, Indels: 56
0.67 0.16 0.17
Matches are distributed among these distances:
2 23 0.10
3 171 0.77
4 18 0.08
5 8 0.04
6 1 0.00
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:5972574 original size:23 final size:23
Alignment explanation
Indices: 5972541--5972600 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
5972531 TAATAACAAT
*
5972541 ATAAAAA-AATAATACTATATTA
1 ATAAAAATAATAATACTAGATTA
*
5972563 ATAAAAATAATAATAGTAGATTA
1 ATAAAAATAATAATACTAGATTA
* *
5972586 ATAATAATAGTAATA
1 ATAAAAATAATAATA
5972601 AAAAGGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 7 0.21
23 26 0.79
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (23 bp):
ATAAAAATAATAATACTAGATTA
Found at i:5983356 original size:30 final size:30
Alignment explanation
Indices: 5983322--5983379 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
5983312 AAAAAAGTTA
5983322 AAAAAAATTAAGAGATAAAATCAACATTTT
1 AAAAAAATTAAGAGATAAAATCAACATTTT
*
5983352 AAAAAAATTAAGAGATAAAATGAACATT
1 AAAAAAATTAAGAGATAAAATCAACATT
5983380 CAATCTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.62, C:0.05, G:0.09, T:0.24
Consensus pattern (30 bp):
AAAAAAATTAAGAGATAAAATCAACATTTT
Found at i:5984010 original size:7 final size:7
Alignment explanation
Indices: 5983994--5984023 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
5983984 TCCTTTTGTC
5983994 GAAAATT
1 GAAAATT
*
5984001 GAAAACT
1 GAAAATT
5984008 GAAAATT
1 GAAAATT
5984015 GAAAATT
1 GAAAATT
5984022 GA
1 GA
5984024 GAGAGTCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.03, G:0.17, T:0.23
Consensus pattern (7 bp):
GAAAATT
Found at i:5984396 original size:13 final size:13
Alignment explanation
Indices: 5984378--5984402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5984368 TTTGACAATG
5984378 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
5984391 CTTTTGAAAAGT
1 CTTTTGAAAAGT
5984403 GCTGTGAAAA
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Done.