Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6915314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 30
Found at i:4970679 original size:15 final size:15
Alignment explanation
Indices: 4970663--4970713 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
4970653 TTTTTGTGTT
4970663 TTATTTTATTTTATT-
1 TTATTTT-TTTTATTA
4970678 TTATTTTTTTTCATTA
1 TTATTTTTTTT-ATTA
*
4970694 TTATTATTTTTATTA
1 TTATTTTTTTTATTA
4970709 TTATT
1 TTATT
4970714 ACTTATCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
14 4 0.12
15 19 0.58
16 10 0.30
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTTTTTTATTA
Found at i:4970783 original size:28 final size:27
Alignment explanation
Indices: 4970751--4970821 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 27
4970741 TATTTTTCCT
4970751 TTCTTTT-TTGATTTTTCCCTTTGATTTA
1 TTCTTTTATT-ATTTTTCCC-TTGATTTA
*
4970779 TTCTTTTACTTATTTTTTCCTTGATTTA
1 TTCTTTTA-TTATTTTTCCCTTGATTTA
*
4970807 TTATTTTATTCATTT
1 TTCTTTTATT-ATTT
4970822 ATTTATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 2 0.05
28 26 0.68
29 8 0.21
30 2 0.05
ACGTcount: A:0.14, C:0.13, G:0.04, T:0.69
Consensus pattern (27 bp):
TTCTTTTATTATTTTTCCCTTGATTTA
Found at i:4970825 original size:20 final size:20
Alignment explanation
Indices: 4970783--4970846 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
4970773 GATTTATTCT
* *
4970783 TTTACTTATTTT-TTCCTTGA
1 TTTA-TTATTTTATTCATTTA
4970803 TTTATTATTTTATTCATTTA
1 TTTATTATTTTATTCATTTA
* *
4970823 TTTATTTTATTTATT-ATTTT
1 TTTATTAT-TTTATTCATTTA
4970843 TTTA
1 TTTA
4970847 CTAACATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.18
20 25 0.66
21 6 0.16
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTATTATTTTATTCATTTA
Found at i:4971810 original size:2 final size:2
Alignment explanation
Indices: 4971803--4971829 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4971793 TTAGTTAAAC
4971803 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4971830 TCACTTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4978036 original size:34 final size:34
Alignment explanation
Indices: 4977980--4978051 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
4977970 CAAGTTCAAA
4977980 AAAATCAAAAAAATCATAAATAAAAT-CAAGTT-
1 AAAATCAAAAAAATCATAAATAAAATACAAGTTC
**
4978012 AAAATCATAAAATAATTTTAAATAAAATACAAGTTC
1 AAAATCA-AAAA-AATCATAAATAAAATACAAGTTC
4978048 AAAA
1 AAAA
4978052 AAATCATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 7 0.21
33 4 0.12
34 13 0.38
35 6 0.18
36 4 0.12
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.25
Consensus pattern (34 bp):
AAAATCAAAAAAATCATAAATAAAATACAAGTTC
Found at i:4982507 original size:32 final size:31
Alignment explanation
Indices: 4982439--4982507 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
4982429 ATTCAAGAGA
*
4982439 CAATTTGAAAAAAAAATCGAACTTTAATAGT
1 CAATTTGAAAAAAAAATCGAAATTTAATAGT
* * *
4982470 TAATTTGAAAAACAATTATC-AAATTTAATGGT
1 CAATTTGAAAAA-AA-AATCGAAATTTAATAGT
4982502 CAATTT
1 CAATTT
4982508 CTGTGTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
31 11 0.35
32 17 0.55
33 3 0.10
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (31 bp):
CAATTTGAAAAAAAAATCGAAATTTAATAGT
Found at i:4987094 original size:2 final size:2
Alignment explanation
Indices: 4987087--4987116 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4987077 CGGTAAGGGA
4987087 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4987117 TTGCGGTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4991968 original size:21 final size:21
Alignment explanation
Indices: 4991934--4991974 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4991924 ACCGTGATTA
* *
4991934 TGGCCGTCATGGGCTCTATTG
1 TGGCCGTCACGGGCGCTATTG
*
4991955 TGGCCGTCGCGGGCGCTATT
1 TGGCCGTCACGGGCGCTATT
4991975 ACGGGTGTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.27, G:0.37, T:0.29
Consensus pattern (21 bp):
TGGCCGTCACGGGCGCTATTG
Found at i:4995313 original size:49 final size:49
Alignment explanation
Indices: 4995241--4995339 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
4995231 CACCATTTTG
* *
4995241 TATTTTCATTTGGGCATCCTTTCATGCCCATTTTGTCCCGTTTACGTTT
1 TATTTTCATTTGGGCATCATTTCATGCCCATTTTATCCCGTTTACGTTT
*
4995290 TATTTTCATTTGGGCATCATTTCATGCCCATTTTATTCCGTTTACGTTT
1 TATTTTCATTTGGGCATCATTTCATGCCCATTTTATCCCGTTTACGTTT
4995339 T
1 T
4995340 CCTTATAACA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.14, C:0.22, G:0.13, T:0.51
Consensus pattern (49 bp):
TATTTTCATTTGGGCATCATTTCATGCCCATTTTATCCCGTTTACGTTT
Found at i:4995502 original size:29 final size:29
Alignment explanation
Indices: 4995456--4995512 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
4995446 ATTCCTTTAT
* *
4995456 TCTTTTATTCAACCGTGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
*
4995485 TCTTTTACTCAATAGTGTTTAACCGTTC
1 TCTTTTACTCAACAGTGTTTAACCGTTC
4995513 CCCTAACTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.46
Consensus pattern (29 bp):
TCTTTTACTCAACAGTGTTTAACCGTTCA
Found at i:4995712 original size:81 final size:81
Alignment explanation
Indices: 4995485--4996015 Score: 783
Period size: 81 Copynumber: 6.5 Consensus size: 81
4995475 TAACCGTTCA
** ** ** *
4995485 TCTTTTACTCAATAGTGTTTAACCGTTCCCCTAACTGGCATAATTGACAAATTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
4995550 ACAGCTAGGCTATTAT
66 ACAGCTAGGCTATTAT
* * * *
4995566 TCTTTTACTCAATAGTGTACTTAATCGTTCATCTAACTGGCATAAGTGACACCTTTCTGTCAAAT
1 TCTTTTACTCAA-CG-GTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAT
*
4995631 GCATAGCTAGGCTATTAT
64 GCACAGCTAGGCTATTAT
* *
4995649 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGAATAATTGACACATTTCTATCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
*
4995714 ACAACTAGGCTATTAT
66 ACAGCTAGGCTATTAT
*
4995730 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACATATTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
4995795 ACAGCTAGGCTATTAT
66 ACAGCTAGGCTATTAT
* * ** *
4995811 TTTTTTACTCAACTGTACTTAACAATTCATCTAACTGGCATAATTGACACCTTTTCTGTCAAATG
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACA-CATTTCTGTCAAATG
4995876 CACAGCTAGGCTATTAT
65 CACAGCTAGGCTATTAT
* * * * *
4995893 TATTTTACTCAACGGTACTTAATCGTTCATCTAACTAGCATAATTAACACCTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
*
4995958 ACAACTAGGCTATTAT
66 ACAGCTAGGCTATTAT
*
4995974 TCTTTTACTCAACGGTACTTAACCGTTCATCTAATTGGCATA
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATA
4996016 TGTTAGGATT
Statistics
Matches: 405, Mismatches: 42, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
81 262 0.65
82 73 0.18
83 70 0.17
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
ACAGCTAGGCTATTAT
Found at i:4995952 original size:163 final size:162
Alignment explanation
Indices: 4995485--4996015 Score: 801
Period size: 163 Copynumber: 3.3 Consensus size: 162
4995475 TAACCGTTCA
** ** ** *
4995485 TCTTTTACTCAATAGTGTTTAACCGTTCCCCTAACTGGCATAATTGACAAATTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
4995550 ACAGCTAGGCTATTATTCTTTTACTCAATAGTGTACTTAATCGTTCATCTAACTGGCATAAGTGA
66 ACAGCTAGGCTATTATTCTTTTACTCAA-CG-GTACTTAATCGTTCATCTAACTGGCATAATTGA
*
4995615 CACCTTTCTGTCAAATGCATAGCTAGGCTATTAT
129 CACCTTTCTGTCAAATGCACAGCTAGGCTATTAT
* *
4995649 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGAATAATTGACACATTTCTATCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
4995714 ACAACTAGGCTATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACA
66 ACAGCTAGGCTATTATTCTTTTACTCAACGGTACTTAATCGTTCATCTAACTGGCATAATTGACA
**
4995779 TATTTCTGTCAAATGCACAGCTAGGCTATTAT
131 CCTTTCTGTCAAATGCACAGCTAGGCTATTAT
* * ** *
4995811 TTTTTTACTCAACTGTACTTAACAATTCATCTAACTGGCATAATTGACACCTTTTCTGTCAAATG
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACA-CATTTCTGTCAAATG
* * *
4995876 CACAGCTAGGCTATTATTATTTTACTCAACGGTACTTAATCGTTCATCTAACTAGCATAATTAAC
65 CACAGCTAGGCTATTATTCTTTTACTCAACGGTACTTAATCGTTCATCTAACTGGCATAATTGAC
*
4995941 ACCTTTCTGTCAAATGCACAACTAGGCTATTAT
130 ACCTTTCTGTCAAATGCACAGCTAGGCTATTAT
*
4995974 TCTTTTACTCAACGGTACTTAACCGTTCATCTAATTGGCATA
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATA
4996016 TGTTAGGATT
Statistics
Matches: 330, Mismatches: 36, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
162 106 0.32
163 141 0.43
164 83 0.25
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (162 bp):
TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
ACAGCTAGGCTATTATTCTTTTACTCAACGGTACTTAATCGTTCATCTAACTGGCATAATTGACA
CCTTTCTGTCAAATGCACAGCTAGGCTATTAT
Found at i:4995969 original size:244 final size:245
Alignment explanation
Indices: 4995485--4996015 Score: 843
Period size: 244 Copynumber: 2.2 Consensus size: 245
4995475 TAACCGTTCA
** ** **
4995485 TCTTTTACTCAATAGTGTTTAACCGTTCCCCTAACTGGCATAATTGACAAATTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACAAATTTCTGTCAAATGC
* *
4995550 ACAGCTAGGCTATTATTCTTTTACTCAATAGTGTACTTAATCGTTCATCTAACTGGCATAAGTGA
66 ACAGCTAGGCTATTATTCTTTTACTCAATACTGTACTTAATCATTCATCTAACTGGCATAAGTGA
* *
4995615 CACCTTTCTGTCAAATGCATAGCTAGGCTATTATTCTTTTACTCAACGGTACTTAACCGTTCATC
131 CACCTTTCTGTCAAATGCACAGCTAGGCTATTATTATTTTACTCAACGGTACTTAACCGTTCATC
* *
4995680 TAACTGGAATAATTGACACATTTCTATCAAATGCACAACTAGGCTATTAT
196 TAACTAGAATAATTAACACATTTCTATCAAATGCACAACTAGGCTATTAT
*
4995730 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACATATTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACAAATTTCTGTCAAATGC
* *
4995795 ACAGCTAGGCTATTATTTTTTTACTC-A-ACTGTACTTAA-CAATTCATCTAACTGGCATAATTG
66 ACAGCTAGGCTATTATTCTTTTACTCAATACTGTACTTAATC-ATTCATCTAACTGGCATAAGTG
*
4995857 ACACCTTTTCTGTCAAATGCACAGCTAGGCTATTATTATTTTACTCAACGGTACTTAATCGTTCA
130 ACACC-TTTCTGTCAAATGCACAGCTAGGCTATTATTATTTTACTCAACGGTACTTAACCGTTCA
* * *
4995922 TCTAACTAGCATAATTAACACCTTTCTGTCAAATGCACAACTAGGCTATTAT
194 TCTAACTAGAATAATTAACACATTTCTATCAAATGCACAACTAGGCTATTAT
*
4995974 TCTTTTACTCAACGGTACTTAACCGTTCATCTAATTGGCATA
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATA
4996016 TGTTAGGATT
Statistics
Matches: 264, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
242 1 0.00
243 35 0.13
244 145 0.55
245 83 0.31
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (245 bp):
TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACAAATTTCTGTCAAATGC
ACAGCTAGGCTATTATTCTTTTACTCAATACTGTACTTAATCATTCATCTAACTGGCATAAGTGA
CACCTTTCTGTCAAATGCACAGCTAGGCTATTATTATTTTACTCAACGGTACTTAACCGTTCATC
TAACTAGAATAATTAACACATTTCTATCAAATGCACAACTAGGCTATTAT
Found at i:4996694 original size:20 final size:21
Alignment explanation
Indices: 4996669--4996731 Score: 92
Period size: 20 Copynumber: 3.0 Consensus size: 21
4996659 CCGTTAGACA
* *
4996669 GGGGGGAATCGGTACCCCTTG
1 GGGGGGAATCTGTACCCCCTG
*
4996690 GGGGGGAATCTGTTCCCCCT-
1 GGGGGGAATCTGTACCCCCTG
4996710 GGGGGGAATCTGTACCCCCTG
1 GGGGGGAATCTGTACCCCCTG
4996731 G
1 G
4996732 ACAATCTGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 19 0.51
21 18 0.49
ACGTcount: A:0.13, C:0.27, G:0.40, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCTGTACCCCCTG
Found at i:4997080 original size:67 final size:68
Alignment explanation
Indices: 4996972--4997143 Score: 276
Period size: 67 Copynumber: 2.5 Consensus size: 68
4996962 ATTTTCAACA
* *
4996972 GCATAATTGACACCTTTTTGTCAAATGCACAGTTATGCCTCAAA-AGCACTTAGCC-TTCATCTA
1 GCATAATTGACACCTTTATGTCAAATGCACAGTTAGGCCTCAAAGA-CACTTAGCCTTTCATCTA
4997035 ACTG
65 ACTG
* * *
4997039 GCATAATTGACACCTTTCTGCCAAATACACAGTTAGGCCTCAAAGACACTTAGCCTTTCATCTAA
1 GCATAATTGACACCTTTATGTCAAATGCACAGTTAGGCCTCAAAGACACTTAGCCTTTCATCTAA
4997104 CTG
66 CTG
4997107 GCATAATTGACACCTTTATGTCAAATGCACAGTTAGG
1 GCATAATTGACACCTTTATGTCAAATGCACAGTTAGG
4997144 TCATTAATAT
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
67 49 0.51
68 47 0.49
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (68 bp):
GCATAATTGACACCTTTATGTCAAATGCACAGTTAGGCCTCAAAGACACTTAGCCTTTCATCTAA
CTG
Found at i:4997682 original size:59 final size:58
Alignment explanation
Indices: 4997495--4997698 Score: 318
Period size: 58 Copynumber: 3.5 Consensus size: 58
4997485 TCCCATATGG
* *
4997495 AAATTCATACACTTAGTATGATTTTCTTATCATTTAGCACACAAAGTGCCCAATACAA
1 AAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAAGTGCCCAATACGA
* * * *
4997553 AAATTCATACACTTAGTATGAATTTCTTATCATTTAACACACAAAGTACCAAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAAGTGCCCAATACGA
* * *
4997611 AAATTCATACACTTAGTTTGAATTTCTTATCATTTTAGCACACGAAGTGCCCTATACGA
1 AAATTCATACACTTAGTATGAATTTCTTATCA-TTTAGCACACAAAGTGCCCAATACGA
4997670 AAATTCATACACTTAGTATGAATTTCTTA
1 AAATTCATACACTTAGTATGAATTTCTTA
4997699 ACTTTGCACA
Statistics
Matches: 131, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
58 83 0.63
59 48 0.37
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.34
Consensus pattern (58 bp):
AAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAAGTGCCCAATACGA
Found at i:4998158 original size:20 final size:20
Alignment explanation
Indices: 4998133--4998188 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
4998123 TCGATGTTCA
*
4998133 ATGGTATCGATACCATCCTC
1 ATGGTATCGATACCACCCTC
4998153 ATGGTATCGATACTC-CCCTC
1 ATGGTATCGATAC-CACCCTC
* *
4998173 TTGGTATTGATACCAC
1 ATGGTATCGATACCAC
4998189 TTGAATAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (20 bp):
ATGGTATCGATACCACCCTC
Found at i:4998753 original size:3 final size:3
Alignment explanation
Indices: 4998739--4998785 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
4998729 CTACTCACGT
* * *
4998739 GAA GAT GAA GAA GAA GAA AAA TAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
4998786 GAAATGCTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.04
Consensus pattern (3 bp):
GAA
Found at i:5002185 original size:77 final size:77
Alignment explanation
Indices: 5002058--5002212 Score: 265
Period size: 77 Copynumber: 2.0 Consensus size: 77
5002048 CAAGTCTCCT
* * * * *
5002058 TGATCAGCAACGCCTCGGTGCCAGGACTCACATTCCTTGTTCTCTAACCGAAATTGTTTATGATT
1 TGATCAGCAACGCCTCAGTGCCACGACTAACATTCCTTGCTCTCCAACCGAAATTGTTTATGATT
5002123 CGATAAACATGA
66 CGATAAACATGA
5002135 TGATCAGCAACGCCTCAGTGCCACGACTAACATTCCTTGCTCTCCAACCGAAATTGTTTATGATT
1 TGATCAGCAACGCCTCAGTGCCACGACTAACATTCCTTGCTCTCCAACCGAAATTGTTTATGATT
5002200 CGATAAACATGA
66 CGATAAACATGA
5002212 T
1 T
5002213 ATGTTGGCAC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (77 bp):
TGATCAGCAACGCCTCAGTGCCACGACTAACATTCCTTGCTCTCCAACCGAAATTGTTTATGATT
CGATAAACATGA
Found at i:5006516 original size:107 final size:106
Alignment explanation
Indices: 5006399--5006604 Score: 340
Period size: 107 Copynumber: 1.9 Consensus size: 106
5006389 TATATATTTC
* ** *
5006399 AAACAAAATAAATATACCATTAACGTGTTTAATTTCAACTAATAAATAATAATATATTAAAAATC
1 AAACAAAATAAATATACCACTAACGTACTTAATTTCAACTAATAAATAAAAATATATTAAAAA-C
*
5006464 ATATTACTTTAAAACCATTAAAGTTCTAAACAAAAATAATTA
65 ATATTACTTGAAAACCATTAAAGTTCTAAACAAAAATAATTA
* *
5006506 AAACAAAATAAATATACCACTAATGTACTTAATTTCAACTAATAAATAAAAATATATTAGAAACA
1 AAACAAAATAAATATACCACTAACGTACTTAATTTCAACTAATAAATAAAAATATATTAAAAACA
5006571 TATTACTTGAAAACCATTAAAGTTCTAAACAAAA
66 TATTACTTGAAAACCATTAAAGTTCTAAACAAAA
5006605 TTAAGACATA
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
106 35 0.38
107 57 0.62
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (106 bp):
AAACAAAATAAATATACCACTAACGTACTTAATTTCAACTAATAAATAAAAATATATTAAAAACA
TATTACTTGAAAACCATTAAAGTTCTAAACAAAAATAATTA
Found at i:5007138 original size:18 final size:19
Alignment explanation
Indices: 5007111--5007146 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5007101 GCAGGGGCTG
*
5007111 AAATATTAATTT-TTAGAA
1 AAATAATAATTTATTAGAA
5007129 AAATAATAATTTATTAGA
1 AAATAATAATTTATTAGA
5007147 TATATAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (19 bp):
AAATAATAATTTATTAGAA
Found at i:5007786 original size:2 final size:2
Alignment explanation
Indices: 5007776--5007817 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
5007766 CGATAAAAAA
*
5007776 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5007818 GTTATGGAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5008080 original size:3 final size:3
Alignment explanation
Indices: 5008072--5008096 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5008062 AAACTCCCCT
5008072 TCC TCC TCC TCC TCC TCC TCC TCC T
1 TCC TCC TCC TCC TCC TCC TCC TCC T
5008097 TCTTCCCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
TCC
Found at i:5020488 original size:23 final size:23
Alignment explanation
Indices: 5020458--5020525 Score: 84
Period size: 23 Copynumber: 2.9 Consensus size: 23
5020448 ACCCTCATGT
*
5020458 GGGGGTATCGATACCCATTC-AA
1 GGGGGTATCGATACCCATGCAAA
*
5020480 GGAGGGTATCGGTACCCATGCAAA
1 GG-GGGTATCGATACCCATGCAAA
*
5020504 TGGGGTATCGATACCTCATGCA
1 GGGGGTATCGATACC-CATGCA
5020526 CCAAAATGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.05
23 28 0.72
24 9 0.23
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (23 bp):
GGGGGTATCGATACCCATGCAAA
Found at i:5024441 original size:22 final size:21
Alignment explanation
Indices: 5024399--5024438 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5024389 AAGACTATTT
5024399 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
5024420 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
5024439 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:5030201 original size:2 final size:2
Alignment explanation
Indices: 5030194--5030221 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5030184 ATGTATTACA
5030194 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5030222 TACCAACGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5042452 original size:15 final size:15
Alignment explanation
Indices: 5042432--5042464 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
5042422 AAGGGTTTAA
5042432 TTAAAAAATAA-TATT
1 TTAAAAAA-AACTATT
5042447 TTAAAAAAAACTATT
1 TTAAAAAAAACTATT
5042462 TTA
1 TTA
5042465 TATTATTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
TTAAAAAAAACTATT
Found at i:5043286 original size:21 final size:21
Alignment explanation
Indices: 5043262--5043301 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5043252 GATTATTGCA
5043262 TTGTGATTTTCCAAATTCGTG
1 TTGTGATTTTCCAAATTCGTG
*
5043283 TTGTGATTTTCCTAATTCG
1 TTGTGATTTTCCAAATTCG
5043302 CAATGTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.50
Consensus pattern (21 bp):
TTGTGATTTTCCAAATTCGTG
Found at i:5043308 original size:21 final size:21
Alignment explanation
Indices: 5043263--5043309 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
5043253 ATTATTGCAT
***
5043263 TGTGATTTTCCAAATTCGTGT
1 TGTGATTTTCCAAATTCGCAA
*
5043284 TGTGATTTTCCTAATTCGCAA
1 TGTGATTTTCCAAATTCGCAA
5043305 TGTGA
1 TGTGA
5043310 ATACGTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (21 bp):
TGTGATTTTCCAAATTCGCAA
Found at i:5043324 original size:20 final size:20
Alignment explanation
Indices: 5043299--5043371 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
5043289 TTTTCCTAAT
*
5043299 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
5043319 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
5043339 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
5043359 TCGCAACGCGAAT
1 TCGCAATGCGAAT
5043372 CTGACTATCG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:5043382 original size:40 final size:40
Alignment explanation
Indices: 5043299--5043389 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
5043289 TTTTCCTAAT
* *
5043299 TCGCAATGTGAATACGTAAATCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATATGTAAA
* *
5043339 TCGCAATGCGAATACGTAAATCGCAACGCGAATCTG-ACTA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATATGTA-AA
5043379 TCGCAATGCGA
1 TCGCAATGCGA
5043390 TTTACATAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.02
40 45 0.98
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCGCAACGCGAATATGTAAA
Found at i:5043594 original size:22 final size:22
Alignment explanation
Indices: 5043569--5043634 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
5043559 GGCGACATCC
*
5043569 GTCCCCATCTCCGATGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
5043591 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
5043613 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
5043635 TTCACGGTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:5044095 original size:20 final size:20
Alignment explanation
Indices: 5043970--5044112 Score: 115
Period size: 20 Copynumber: 7.6 Consensus size: 20
5043960 GCGATTCTGT
5043970 CGTTGCGATTTTCATTTT-G
1 CGTTGCGATTTTCATTTTCG
**
5043989 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
5044009 TGTTG-GATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCG
*
5044027 CGTTGCGA--TTC---TT-A
1 CGTTGCGATTTTCATTTTCG
** **
5044041 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTTTCATTTTCG
**
5044061 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
5044081 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
5044101 TGTTGCGATTTT
1 CGTTGCGATTTT
5044113 AAGTTTAAGG
Statistics
Matches: 102, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
14 8 0.08
15 2 0.02
16 2 0.02
17 3 0.03
18 9 0.09
19 26 0.25
20 52 0.51
ACGTcount: A:0.14, C:0.17, G:0.23, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:5045989 original size:20 final size:20
Alignment explanation
Indices: 5045964--5046105 Score: 114
Period size: 20 Copynumber: 7.8 Consensus size: 20
5045954 AGAATAGTTT
5045964 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
5045984 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
5046004 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
5046020 A--ATCGCAATGC-AAAATG
1 ACTATCGCAATGCGAAAATG
**
5046037 AAAATCGCAAT---AACAA--
1 ACTATCGCAATGCGAA-AATG
*
5046053 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
5046071 ACTATCGTAATGCAAAAATG
1 ACTATCGCAATGCGAAAATG
5046091 ACTATCGCAATGCGA
1 ACTATCGCAATGCGA
5046106 TAGTCATTTT
Statistics
Matches: 99, Mismatches: 9, Indels: 28
0.73 0.07 0.21
Matches are distributed among these distances:
14 14 0.14
16 8 0.08
17 8 0.08
18 5 0.05
19 8 0.08
20 56 0.57
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:5046037 original size:33 final size:34
Alignment explanation
Indices: 5045987--5046077 Score: 112
Period size: 33 Copynumber: 2.7 Consensus size: 34
5045977 GAAAATGACT
* * *
5045987 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCGAAAATGACTATCGCAACAACAAA
* ** *
5046021 ATCGCAATGC-AAAATGAAAATCGCAATAACAAA
1 ATCGCAACGCGAAAATGACTATCGCAACAACAAA
5046054 ATCGCAACGCGAAAATGACTATCG
1 ATCGCAACGCGAAAATGACTATCG
5046078 TAATGCAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
33 26 0.57
34 20 0.43
ACGTcount: A:0.45, C:0.22, G:0.19, T:0.14
Consensus pattern (34 bp):
ATCGCAACGCGAAAATGACTATCGCAACAACAAA
Found at i:5046118 original size:20 final size:20
Alignment explanation
Indices: 5046101--5046162 Score: 115
Period size: 20 Copynumber: 3.1 Consensus size: 20
5046091 ACTATCGCAA
5046101 TGCGATAGTCATTTTCGCGT
1 TGCGATAGTCATTTTCGCGT
*
5046121 TGCGATAGTCATTGTCGCGT
1 TGCGATAGTCATTTTCGCGT
5046141 TGCGATAGTCATTTTCGCGT
1 TGCGATAGTCATTTTCGCGT
5046161 TG
1 TG
5046163 GGATTTTAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.15, C:0.19, G:0.27, T:0.39
Consensus pattern (20 bp):
TGCGATAGTCATTTTCGCGT
Found at i:5046741 original size:21 final size:21
Alignment explanation
Indices: 5046650--5046754 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
5046640 GACTCACCTG
*
5046650 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
5046672 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
5046692 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
5046713 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
5046734 TCATCGTTGAAGAGGGCCCTC
1 TCATCGTTCAAGAGGCCCCTC
5046755 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:5046747 original size:42 final size:42
Alignment explanation
Indices: 5046647--5046757 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
5046637 CCCGACTCAC
* * *
5046647 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGCC-CCTCCCACCGTTCAAGAGGCCA
* ** *
5046689 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCA
* *
5046731 CTGTCATCGTTGAAGAGGGCCCTCCCA
1 CTGTCATCGTTCAAGAGGCCCCTCCCA
5046758 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
41 2 0.04
42 53 0.96
ACGTcount: A:0.21, C:0.38, G:0.20, T:0.22
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCA
Found at i:5048310 original size:20 final size:20
Alignment explanation
Indices: 5048282--5048347 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
5048272 CACAACGCAG
*
5048282 TCGCGTTGCGATTTTCATTT
1 TCGCATTGCGATTTTCATTT
*
5048302 TCGCATTGCGA--TTC--TC
1 TCGCATTGCGATTTTCATTT
5048318 TCG--TTGCGATTTTCATTT
1 TCGCATTGCGATTTTCATTT
5048336 T-GCATTGCGATT
1 TCGCATTGCGATT
5048348 CTCTCGTTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 13
0.70 0.06 0.25
Matches are distributed among these distances:
14 6 0.16
16 7 0.19
17 1 0.03
18 5 0.14
19 8 0.22
20 10 0.27
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.47
Consensus pattern (20 bp):
TCGCATTGCGATTTTCATTT
Found at i:5048346 original size:33 final size:34
Alignment explanation
Indices: 5048285--5048380 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 34
5048275 AACGCAGTCG
5048285 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
5048319 CGTTGCGATTTTCATTTT-GCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
* ** *
5048352 CGTTGCAATAGTCATTTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
5048381 AGTCATTTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 30 0.53
34 27 0.47
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.45
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:5048377 original size:20 final size:20
Alignment explanation
Indices: 5048352--5048440 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
5048342 GCGATTCTCT
*
5048352 CGTTGCAATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
5048372 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTTCG
5048392 CGTTGCGATAGTCA-TTTCTG
1 CGTTGCGATAGTCATTTTC-G
* *
5048412 TGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCATTTTCG
5048432 CGTTGCGAT
1 CGTTGCGAT
5048441 TTCCGCATTG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.05
20 55 0.90
21 3 0.05
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:5050907 original size:24 final size:24
Alignment explanation
Indices: 5050873--5050926 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
5050863 CTGAAAAATC
5050873 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
5050897 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
5050921 ATCAAA
1 ATCAAA
5050927 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:5050940 original size:24 final size:24
Alignment explanation
Indices: 5050873--5050940 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
5050863 CTGAAAAATC
* * *
5050873 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
5050897 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
5050921 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
5050941 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:5051796 original size:20 final size:20
Alignment explanation
Indices: 5051771--5051881 Score: 195
Period size: 20 Copynumber: 5.5 Consensus size: 20
5051761 TTCAGTATTA
5051771 CGATAGTCAGAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
*
5051791 CGATAGTCAGAATCTCGTTG
1 CGATAGTCAGAATCGCGTTG
5051811 CGATAGTCAGAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
*
5051831 CGATAGTCAGAATCTCGTTG
1 CGATAGTCAGAATCGCGTTG
*
5051851 CGATAGTCAGAATTGCGTTG
1 CGATAGTCAGAATCGCGTTG
5051871 CGATAGTCAGA
1 CGATAGTCAGA
5051882 TTTGCGTTGT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (20 bp):
CGATAGTCAGAATCGCGTTG
Found at i:5051934 original size:21 final size:21
Alignment explanation
Indices: 5051910--5051955 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
5051900 TATTCGCATT
5051910 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
5051931 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
5051952 GCGA
1 GCGA
5051956 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:5054213 original size:36 final size:37
Alignment explanation
Indices: 5054173--5054251 Score: 124
Period size: 36 Copynumber: 2.2 Consensus size: 37
5054163 AATCATACTT
*
5054173 AAATTTTAGTTTTTGTTTAATTTTAGTA-CCCGTTAA
1 AAATTTTAGTTTTTGTTTAATTTTAGTATCACGTTAA
* *
5054209 AAATTTTAGTTTTTGTTTCATTTTAGTATCACGTTCA
1 AAATTTTAGTTTTTGTTTAATTTTAGTATCACGTTAA
5054246 AAATTT
1 AAATTT
5054252 GACATTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 27 0.69
37 12 0.31
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.53
Consensus pattern (37 bp):
AAATTTTAGTTTTTGTTTAATTTTAGTATCACGTTAA
Found at i:5054789 original size:19 final size:20
Alignment explanation
Indices: 5054767--5054835 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 20
5054757 ATTTTGATAT
**
5054767 TTTAATAAT-TTTTTTTAAA
1 TTTAATAATATTTTACTAAA
5054786 TTT-ATAATATTTTACTAAA
1 TTTAATAATATTTTACTAAA
*
5054805 TTTAATGATAATTTTA-TAATAA
1 TTTAATAAT-ATTTTACT-A-AA
5054827 TTTAATAAT
1 TTTAATAAT
5054836 TGTAAAGGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 5 0.12
19 14 0.34
20 5 0.12
21 7 0.17
22 10 0.24
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (20 bp):
TTTAATAATATTTTACTAAA
Found at i:5057316 original size:18 final size:19
Alignment explanation
Indices: 5057293--5057345 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
5057283 ATGTTAAAAT
5057293 GGTATCGGTACTGAAGTG-
1 GGTATCGGTACTGAAGTGA
*
5057311 GGTATCGATACCATAGAAGTGA
1 GGTATCGGTA-C-T-GAAGTGA
*
5057333 AGTATCGGTACTG
1 GGTATCGGTACTG
5057346 TAGGCAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 9 0.32
19 2 0.07
20 2 0.07
21 7 0.25
22 8 0.29
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.26
Consensus pattern (19 bp):
GGTATCGGTACTGAAGTGA
Found at i:5058235 original size:21 final size:22
Alignment explanation
Indices: 5058162--5058257 Score: 108
Period size: 23 Copynumber: 4.3 Consensus size: 22
5058152 CAAGATAAAC
5058162 TTATGTGGCACTTCGGTGCAAA
1 TTATGTGGCACTTCGGTGCAAA
* * *
5058184 CCTATGTGGCACTTTGGTGAAAA
1 -TTATGTGGCACTTCGGTGCAAA
5058207 TCTATGTGGTC-CTTCGG-G-ACAA
1 T-TATGTGG-CACTTCGGTGCA-AA
5058229 TTATGTGGCACTTCGGTGCAAA
1 TTATGTGGCACTTCGGTGCAAA
5058251 TTATGTG
1 TTATGTG
5058258 AGTTGTAGTG
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
20 1 0.02
21 14 0.23
22 14 0.23
23 32 0.52
24 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (22 bp):
TTATGTGGCACTTCGGTGCAAA
Found at i:5061059 original size:16 final size:17
Alignment explanation
Indices: 5061034--5061067 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5061024 ATGAGGTGTC
5061034 ACATTGACTTTT-CAAA
1 ACATTGACTTTTACAAA
*
5061050 ACATTTACTTTTACAAA
1 ACATTGACTTTTACAAA
5061067 A
1 A
5061068 GAATGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (17 bp):
ACATTGACTTTTACAAA
Found at i:5065053 original size:158 final size:158
Alignment explanation
Indices: 5064802--5065117 Score: 596
Period size: 158 Copynumber: 2.0 Consensus size: 158
5064792 AAAGAATTTC
* *
5064802 AAATTCACCTTTAAATCAAAACTGAATAATTTATATTAAATAAAAATAATTATTTTTACAAAACA
1 AAATTCACCTTTAAATCAAAACTGAATAATTTATATTAAATAAAAACAATTAGTTTTACAAAACA
*
5064867 TCTCAAACCACAATCAACTCAAATATCTTATTACATGCCAACTATATTCAATATAACAAAATATA
66 TCTCAAACCAAAATCAACTCAAATATCTTATTACATGCCAACTATATTCAATATAACAAAATATA
5064932 TATAGTTCAAATTCTTTTCTGATATGAT
131 TATAGTTCAAATTCTTTTCTGATATGAT
*
5064960 AAATTCACCTTTAAATCAAAACTGAATAATTTATATTAAATAAAAACAATTGGTTTTACAAAACA
1 AAATTCACCTTTAAATCAAAACTGAATAATTTATATTAAATAAAAACAATTAGTTTTACAAAACA
5065025 TCTCAAACCAAAATCAACTCAAATATCTTATTACATGCCAACTATATTCAATATAACAAAATATA
66 TCTCAAACCAAAATCAACTCAAATATCTTATTACATGCCAACTATATTCAATATAACAAAATATA
5065090 TATAGTTCAAATTCTTTTCTGATATGAT
131 TATAGTTCAAATTCTTTTCTGATATGAT
5065118 CTTTTGGAAA
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 154 1.00
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.35
Consensus pattern (158 bp):
AAATTCACCTTTAAATCAAAACTGAATAATTTATATTAAATAAAAACAATTAGTTTTACAAAACA
TCTCAAACCAAAATCAACTCAAATATCTTATTACATGCCAACTATATTCAATATAACAAAATATA
TATAGTTCAAATTCTTTTCTGATATGAT
Found at i:5066726 original size:21 final size:21
Alignment explanation
Indices: 5066656--5066732 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
5066646 TTGATGCATG
* *
5066656 GGGTATCGATACCTGTAAGAA
1 GGGTATCGATACCTATATGAA
**
5066677 CAGTATCGATACC-ATATGGAA
1 GGGTATCGATACCTATAT-GAA
*
5066698 GAGGTATCAATACCTATATGAA
1 G-GGTATCGATACCTATATGAA
5066720 GGGTATCGATACC
1 GGGTATCGATACC
5066733 AAGGAACATT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.04
21 25 0.56
22 14 0.31
23 4 0.09
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (21 bp):
GGGTATCGATACCTATATGAA
Found at i:5066798 original size:21 final size:19
Alignment explanation
Indices: 5066755--5066801 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
5066745 AGCTAATTTT
*
5066755 GGTATCGATACCTGGGTAG
1 GGTATCGATACCTGGGAAG
*
5066774 GGTATCGATACCATATGGAAG
1 GGTATCGATACC-T-GGGAAG
5066795 GGTATCG
1 GGTATCG
5066802 GTAATGTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 12 0.50
20 1 0.04
21 11 0.46
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.26
Consensus pattern (19 bp):
GGTATCGATACCTGGGAAG
Found at i:5071199 original size:21 final size:20
Alignment explanation
Indices: 5071129--5071204 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
5071119 TTGATGCATG
* *
5071129 GGGTATCGATACCTGTATGAA
1 GGGTATCGATA-CTATATGGA
** *
5071150 CAGTATCGATACCATATGGAA
1 GGGTATCGATACTATATGG-A
5071171 GAGGTATCGATACTTATATGGA
1 G-GGTATCGATAC-TATATGGA
*
5071193 GGGTATCAATAC
1 GGGTATCGATAC
5071205 CAGGGAACAT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
20 5 0.12
21 20 0.47
22 12 0.28
23 6 0.14
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (20 bp):
GGGTATCGATACTATATGGA
Found at i:5076221 original size:16 final size:17
Alignment explanation
Indices: 5076196--5076229 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5076186 CCAAGGTGTC
5076196 ACATTGACTTTT-CAAA
1 ACATTGACTTTTACAAA
*
5076212 ACATTTACTTTTACAAA
1 ACATTGACTTTTACAAA
5076229 A
1 A
5076230 GAATGATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (17 bp):
ACATTGACTTTTACAAA
Found at i:5076309 original size:21 final size:21
Alignment explanation
Indices: 5076270--5076309 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5076260 TATCTTGCAA
* **
5076270 TTTATTTTAATTTTGATTTGT
1 TTTATTTCAATTTCAATTTGT
5076291 TTTATTTCAATTTCAATTT
1 TTTATTTCAATTTCAATTT
5076310 AGTCGCTAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTATTTCAATTTCAATTTGT
Found at i:5076682 original size:15 final size:15
Alignment explanation
Indices: 5076664--5076699 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
5076654 AACATTTAAT
*
5076664 TTTATTTTATTTACA
1 TTTATGTTATTTACA
5076679 TTTATGTTATTTACA
1 TTTATGTTATTTACA
5076694 TTTATG
1 TTTATG
5076700 CACTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTATGTTATTTACA
Found at i:5076734 original size:29 final size:30
Alignment explanation
Indices: 5076685--5076748 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
5076675 TACATTTATG
* *
5076685 TTATTTACATTTATGCACTTT-ATTTTCTA
1 TTATTTACATTTATACACTTTAACTTTCTA
*
5076714 TTATTTACATTTCA-ACTCTTTAACTTTCTA
1 TTATTTACATTT-ATACACTTTAACTTTCTA
5076744 -TATTT
1 TTATTT
5076749 TAATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.25, C:0.16, G:0.02, T:0.58
Consensus pattern (30 bp):
TTATTTACATTTATACACTTTAACTTTCTA
Found at i:5085386 original size:23 final size:22
Alignment explanation
Indices: 5085361--5085431 Score: 85
Period size: 21 Copynumber: 3.2 Consensus size: 22
5085351 AGGACAAGCC
*
5085361 TATGTGGCACTTTGGTGCAAAT
1 TATGTGGCACTTCGGTGCAAAT
5085383 CTATGTGGTC-CTTCGG-G-ACAAT
1 -TATGTGG-CACTTCGGTGCA-AAT
5085405 TATGTGGCACTTCGGTGCAAAT
1 TATGTGGCACTTCGGTGCAAAT
5085427 TATGT
1 TATGT
5085432 AAGTTGTGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
20 1 0.02
21 14 0.33
22 13 0.31
23 13 0.31
24 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (22 bp):
TATGTGGCACTTCGGTGCAAAT
Found at i:5085424 original size:44 final size:45
Alignment explanation
Indices: 5085334--5085431 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 45
5085324 CCTTCGAGAC
* *
5085334 AATCTATGTTGTCCTTCAGGACAAGCCTATGTGGCACTTTGGTGCA
1 AATCTATGTGGTCCTTCAGGACAA-CCTATGTGGCACTTCGGTGCA
* *
5085380 AATCTATGTGGTCCTTCGGGACAA-TTATGTGGCACTTCGGTGCA
1 AATCTATGTGGTCCTTCAGGACAACCTATGTGGCACTTCGGTGCA
5085424 AAT-TATGT
1 AATCTATGT
5085432 AAGTTGTGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 5 0.10
44 21 0.44
46 22 0.46
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (45 bp):
AATCTATGTGGTCCTTCAGGACAACCTATGTGGCACTTCGGTGCA
Found at i:5090787 original size:11 final size:11
Alignment explanation
Indices: 5090773--5090797 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5090763 TAATTAAAAA
5090773 AATTCTAAACT
1 AATTCTAAACT
5090784 AATTCTAAACT
1 AATTCTAAACT
5090795 AAT
1 AAT
5090798 AGAAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTCTAAACT
Found at i:5090839 original size:146 final size:146
Alignment explanation
Indices: 5090654--5090919 Score: 433
Period size: 146 Copynumber: 1.8 Consensus size: 146
5090644 TCAATGTATC
* * * * *
5090654 AAAATATTTATTTAATTAAAATCTATCACGTGGTTTTAGTGGTAAACATTCTTTTTAAGAGTTTC
1 AAAATATTTATTTAATTAAAATCTATCAAGTGATTTTAGTGGTAAACATTATCTTTAAAAGTTTC
* *
5090719 GAATTCGAACAATTACATTTATAGAGTATATATACGTTTTCAATTAATTAAAAAAATTCTAAACT
66 GAACTCGAACAATTACATTTATAGAGTATATATACATTTTCAATTAATTAAAAAAATTCTAAACT
5090784 AATTCTAAACTAATAG
131 AATTCTAAACTAATAG
* *
5090800 AAAATATTTATTTAGTTAAAATCTATCAAGTGATTTTAGTGGTAAACATTATCTTTAAAAGTTTT
1 AAAATATTTATTTAATTAAAATCTATCAAGTGATTTTAGTGGTAAACATTATCTTTAAAAGTTTC
* *
5090865 GAACTCGGACAATTATATTTATAGAGTATATATACATTTTCAATTAATTAAAAAA
66 GAACTCGAACAATTACATTTATAGAGTATATATACATTTTCAATTAATTAAAAAA
5090920 TTAAATTAAT
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
146 109 1.00
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (146 bp):
AAAATATTTATTTAATTAAAATCTATCAAGTGATTTTAGTGGTAAACATTATCTTTAAAAGTTTC
GAACTCGAACAATTACATTTATAGAGTATATATACATTTTCAATTAATTAAAAAAATTCTAAACT
AATTCTAAACTAATAG
Found at i:5100905 original size:24 final size:24
Alignment explanation
Indices: 5100878--5100925 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
5100868 CATGTGTGGA
*
5100878 TGAAATTGAAA-CAATTATAAAATG
1 TGAAACTGAAATCAA-TATAAAATG
*
5100902 TGAAGCTGAAATCAATATAAAATG
1 TGAAACTGAAATCAATATAAAATG
5100926 GACTAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.52, C:0.06, G:0.15, T:0.27
Consensus pattern (24 bp):
TGAAACTGAAATCAATATAAAATG
Found at i:5102076 original size:26 final size:26
Alignment explanation
Indices: 5102047--5102103 Score: 100
Period size: 24 Copynumber: 2.3 Consensus size: 26
5102037 GTCCTAATTC
5102047 TGTGTAAAACTAAAAGAGTTTTACAT
1 TGTGTAAAACTAAAAGAGTTTTACAT
5102073 TGTGT--AACTAAAAGAGTTTTACAT
1 TGTGTAAAACTAAAAGAGTTTTACAT
5102097 TGTGTAA
1 TGTGTAA
5102104 CATGATCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 24 0.83
26 5 0.17
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.37
Consensus pattern (26 bp):
TGTGTAAAACTAAAAGAGTTTTACAT
Found at i:5102084 original size:24 final size:24
Alignment explanation
Indices: 5102054--5102104 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
5102044 TTCTGTGTAA
5102054 AACTAAAAGAGTTTTACATTGTGT
1 AACTAAAAGAGTTTTACATTGTGT
5102078 AACTAAAAGAGTTTTACATTGTGT
1 AACTAAAAGAGTTTTACATTGTGT
5102102 AAC
1 AAC
5102105 ATGATCCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (24 bp):
AACTAAAAGAGTTTTACATTGTGT
Found at i:5102925 original size:20 final size:21
Alignment explanation
Indices: 5102882--5102926 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
5102872 ACCGGCCACT
* *
5102882 TTGAGCCGCCTCCGTTGACTG
1 TTGAGCCGCCTCCGTTAACCG
*
5102903 TTGA-CCGCCTCTGTTAACCG
1 TTGAGCCGCCTCCGTTAACCG
5102923 TTGA
1 TTGA
5102927 TCGACGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.13, C:0.31, G:0.24, T:0.31
Consensus pattern (21 bp):
TTGAGCCGCCTCCGTTAACCG
Found at i:5104347 original size:18 final size:19
Alignment explanation
Indices: 5104312--5104348 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
5104302 ATTAACTTTA
5104312 TCAATAATAAGTTATTAGT
1 TCAATAATAAGTTATTAGT
*
5104331 TCAATAA-AAGTTTTTAGT
1 TCAATAATAAGTTATTAGT
5104349 ATATTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (19 bp):
TCAATAATAAGTTATTAGT
Found at i:5107699 original size:19 final size:20
Alignment explanation
Indices: 5107669--5107706 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
5107659 ATATAAAATC
5107669 ATTTTATTAATAAATATATA
1 ATTTTATTAATAAATATATA
*
5107689 ATTTT-TTAATAATTATAT
1 ATTTTATTAATAAATATAT
5107707 GTATTCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTATTAATAAATATATA
Found at i:5110574 original size:3 final size:3
Alignment explanation
Indices: 5110566--5110655 Score: 173
Period size: 3 Copynumber: 30.3 Consensus size: 3
5110556 ATATGTTGGA
5110566 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5110613 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
5110656 AGATCATTAC
Statistics
Matches: 86, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 84 0.98
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:5110835 original size:30 final size:30
Alignment explanation
Indices: 5110801--5110862 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
5110791 CTAGGAAAAT
* *
5110801 GTCAAGTGATTTATGTATCTTCTCAAAGAC
1 GTCAAGTGATATATGCATCTTCTCAAAGAC
*
5110831 GTCAAGTGGTATATGCATCTTCTCAAAGAC
1 GTCAAGTGATATATGCATCTTCTCAAAGAC
5110861 GT
1 GT
5110863 ATAGACTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (30 bp):
GTCAAGTGATATATGCATCTTCTCAAAGAC
Found at i:5114676 original size:36 final size:37
Alignment explanation
Indices: 5114606--5114676 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
5114596 CCAGATTCAA
* *
5114606 TTCGAGTGGAAAATATATATTTTTTAAGTTGAATCAG
1 TTCGAGTGGAAAATATAAATTTTTTAAGTCGAATCAG
*
5114643 TTCGAGT-GAAAGATGTAAATTTTTTAA-TCGAATC
1 TTCGAGTGGAAA-ATATAAATTTTTTAAGTCGAATC
5114677 GAATTGATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 10 0.33
37 20 0.67
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.39
Consensus pattern (37 bp):
TTCGAGTGGAAAATATAAATTTTTTAAGTCGAATCAG
Found at i:5115478 original size:21 final size:21
Alignment explanation
Indices: 5115449--5115488 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5115439 AGAATTATTA
*
5115449 TAATATTTTAAAATTAATAAT
1 TAATATTTTAAAATAAATAAT
* *
5115470 TAATTTTTTATAATAAATA
1 TAATATTTTAAAATAAATA
5115489 TTATAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATATTTTAAAATAAATAAT
Found at i:5120959 original size:22 final size:21
Alignment explanation
Indices: 5120929--5120973 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
5120919 AGTTAACCAC
*
5120929 TAAATACAAGAGGATTTAGGT
1 TAAATACAAAAGGATTTAGGT
5120950 TAAATTACAAAAGGATTTAGGT
1 TAAA-TACAAAAGGATTTAGGT
5120972 TA
1 TA
5120974 TAGTATACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.31
Consensus pattern (21 bp):
TAAATACAAAAGGATTTAGGT
Found at i:5132643 original size:23 final size:23
Alignment explanation
Indices: 5132617--5132669 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
5132607 ATTGCACTGA
5132617 AGTGCCACGTAGAATTACACCGG
1 AGTGCCACGTAGAATTACACCGG
* * *
5132640 AGTGCCGCGTAGAATTGCACCGT
1 AGTGCCACGTAGAATTACACCGG
5132663 AGTGCCA
1 AGTGCCA
5132670 TATAATAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (23 bp):
AGTGCCACGTAGAATTACACCGG
Found at i:5132856 original size:103 final size:103
Alignment explanation
Indices: 5132685--5132902 Score: 393
Period size: 103 Copynumber: 2.1 Consensus size: 103
5132675 TAATGTCCAT
*
5132685 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGAATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACAAGGAATCAAGTATGTGTCTCACCA
5132750 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
5132788 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGG-ATCAAGTATGTGTCTCATC
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAT-ACAAGGAATCAAGTATGTGTCTCACC
5132852 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
5132891 AAGGACCACATA
1 AAGGACCACATA
5132903 GACCCTCGAC
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
103 107 0.96
104 4 0.04
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACAAGGAATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:5133761 original size:64 final size:64
Alignment explanation
Indices: 5133689--5133845 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 64
5133679 TTCCCTATCG
* * * ** *
5133689 GTGCATCGATGCACTACCTGTGCATCGGTGCATAAAATACATTCGATGTTTGTT-TATT-ACTGG
1 GTGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTT-TTAGATTAAAAGA
* * * * *
5133752 GATGCATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTTAGATTAAAAG
1 G-TGCATCGATGCACTACC-TGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAG
5133816 A
64 A
5133817 GTGCATCGATGCACTACCTGTGCATCGAT
1 GTGCATCGATGCACTACCTGTGCATCGAT
5133846 ACACCTTCAA
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
63 6 0.08
64 64 0.84
65 6 0.08
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAGA
Found at i:5137292 original size:45 final size:49
Alignment explanation
Indices: 5137234--5137369 Score: 192
Period size: 45 Copynumber: 2.8 Consensus size: 49
5137224 TTAATAAGGT
5137234 TATTTATTTTAAAATAATTTATTTTAAAATAATTTATTAT-AAA-AT-A
1 TATTTATTTTAAAATAATTTATTTTAAAATAATTTATTATAAAATATGA
* *
5137280 -ATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGA
1 TATTTATTTTAAAATAATTTATTTTAAAATAATTTATTATAAAATAT-GA
5137329 TTGATTTATTTTAAAATAATTTATTTT-AAATAATTTATTAT
1 -T-ATTTATTTTAAAATAATTTATTTTAAAATAATTTATTAT
5137370 TATGGATTGA
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
45 37 0.47
46 3 0.04
47 2 0.03
49 1 0.01
51 13 0.16
52 23 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (49 bp):
TATTTATTTTAAAATAATTTATTTTAAAATAATTTATTATAAAATATGA
Found at i:5137361 original size:14 final size:15
Alignment explanation
Indices: 5137235--5137367 Score: 160
Period size: 15 Copynumber: 8.5 Consensus size: 15
5137225 TAATAAGGTT
5137235 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
5137250 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
5137265 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
5137280 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
5137295 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
5137310 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
5137329 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
5137347 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
5137361 ATTTATT
1 ATTTATT
5137368 ATTATGGATT
Statistics
Matches: 105, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
14 12 0.11
15 73 0.70
16 4 0.04
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.04
22 6 0.06
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:5137400 original size:69 final size:67
Alignment explanation
Indices: 5137265--5137422 Score: 203
Period size: 69 Copynumber: 2.3 Consensus size: 67
5137255 TTTTAAAATA
* *
5137265 ATTTATTATAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATAGAT
5137330 TG
66 TG
* * * * * *
5137332 ATTTATTTTAAAATAATTTATT-TTAAATAATTTATTATTATGGATTGATTTATTTTAAAATATA
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATT-TTA--AAATAAATTATTATAAAATATA
5137396 GATTG
63 GATTG
5137401 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
5137423 GTATGGATTG
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
66 13 0.16
67 24 0.30
68 12 0.15
69 30 0.38
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATAGAT
TG
Found at i:5137408 original size:54 final size:54
Alignment explanation
Indices: 5137347--5138123 Score: 563
Period size: 54 Copynumber: 14.4 Consensus size: 54
5137337 TTTTAAAATA
* *
5137347 ATTTATTTTAAATAATTTATTATTATGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
5137401 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
5137455 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * *
5137509 ACTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * *
5137553 ATTAGTATGGATTGATTTATTTGA-AAATATGGATTGATTTATTTT-AAATA---ATTT
1 ATT--TAT--TTTAAATAATTT-ATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * **
5137607 ATTAGTATGGATTGATTTATTTGA-AAATATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATT--TAT--TTTAAATAATTT-ATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * * ***
5137666 TATGGA-TTGATTTATTTTA-AAATATGAATTGATTTATTATTGTAGTTGTATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
5137723 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
5137777 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
** *
5137831 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGCAGT-TGTATGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT-TTAAAATATG---GATTG
**
5137888 ATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * **
5137942 ATTTA--TT--AT--TGTAATT-GTATGGATTAATTTATTTT-AAATAATTTATT-
1 ATTTATTTTAAATAAT-TTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATTG
* * * * * * * ***
5137989 AGTATATATTGATTTATTT-TAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 A-TTTATTTTAAATAATTTAT-TAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
* *
5138048 ATTTATTTTAAATAATTTATTAGTATGAATTGGTTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
5138102 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
5138124 TTGTAGTTGT
Statistics
Matches: 594, Mismatches: 80, Indels: 98
0.77 0.10 0.13
Matches are distributed among these distances:
44 5 0.01
46 2 0.00
47 10 0.02
48 46 0.08
49 6 0.01
50 8 0.01
52 7 0.01
53 1 0.00
54 359 0.60
55 18 0.03
56 15 0.03
57 58 0.10
58 53 0.09
59 4 0.01
60 2 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:5137449 original size:22 final size:22
Alignment explanation
Indices: 5137424--5137466 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
5137414 AATTTATTAG
*
5137424 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
5137446 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
5137467 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:5137544 original size:134 final size:136
Alignment explanation
Indices: 5137396--5137820 Score: 555
Period size: 134 Copynumber: 3.1 Consensus size: 136
5137386 TTAAAATATA
*
5137396 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
* *
5137461 TTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGACTTATT-AT-TGTAGT
66 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTAATATGTA-T
5137524 T-GTATG
130 TAGTATG
*
5137530 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTGAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
* *
5137595 TTTAAATAATTTATTAGTATGGATTGATTTATTTGAAAATATGGATTGATTTATTTTAAATAATT
66 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT-AAT-ATG
5137660 TATTAGTATG
127 TATTAGTATG
* * * * ***
5137670 GATTGATTTATTTT-AA-AA--TA-T-GAATTGATTTA-TTATTGTAGTTGTATGGATTGATTTA
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGATTTA
5137728 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAAT
65 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT-AAT-AT
* *
5137793 TTATTAGTATA
126 GTATTAGTATG
5137804 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
5137821 ATATGGATTG
Statistics
Matches: 266, Mismatches: 16, Indels: 17
0.89 0.05 0.06
Matches are distributed among these distances:
133 6 0.02
134 223 0.84
135 3 0.01
136 4 0.02
138 4 0.02
139 4 0.02
140 22 0.08
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.52
Consensus pattern (136 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTAATATGTATT
AGTATG
Found at i:5137549 original size:188 final size:188
Alignment explanation
Indices: 5137347--5138028 Score: 968
Period size: 188 Copynumber: 3.6 Consensus size: 188
5137337 TTTTAAAATA
* *
5137347 ATTTATTTTAAATAATTTATTATTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
*
5137412 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTA
66 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
* *
5137477 GTATAGATTGATTTATTTTAAAATATGGATTGACTTATTATTGTAGTTGTATGGATTG
131 GTATGGATTGATTTATTTTAAAATATGAATTGACTTATTATTGTAGTTGTATGGATTG
*
5137535 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTGAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
*
5137600 ATAATTTATTAGTATGGATTGATTTATTTGAAAATATGGATTGATTTATTTTAAATAATTTATTA
66 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
*
5137665 GTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTG
131 GTATGGATTGATTTATTTTAAAATATGAATTGACTTATTATTGTAGTTGTATGGATTG
5137723 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
*
5137788 ATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
66 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
** * * * **
5137853 GTATGGATTGATTTATTATTGCAGT-TGTATGATTGATTTATTTTAAATAATTTA-TTAGTATAT
131 GTATGGATTGATTTATT-TTAAAATATG-A--ATTGACTTA--TT--AT--TGTAGTT-GTATGG
5137916 ATTG
185 ATTG
* * * * ** *
5137920 ATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAATTGTATGGATTAATTTATTTTA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA-AATATGGATTGATTTATTTTA
**
5137978 AATAATTTATTAGTATATATTGATTTATTTTAAAATATGGATTGATTTATT
65 AATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
5138029 ATTGTAGTTG
Statistics
Matches: 457, Mismatches: 25, Indels: 21
0.91 0.05 0.04
Matches are distributed among these distances:
188 326 0.71
189 5 0.01
190 8 0.02
191 85 0.19
192 1 0.00
193 4 0.01
195 4 0.01
196 4 0.01
197 20 0.04
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (188 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
GTATGGATTGATTTATTTTAAAATATGAATTGACTTATTATTGTAGTTGTATGGATTG
Found at i:5137551 original size:80 final size:80
Alignment explanation
Indices: 5137446--5137595 Score: 264
Period size: 80 Copynumber: 1.9 Consensus size: 80
5137436 TATTTTAAAA
*
5137446 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAC
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTGAAAATATGGATTGAC
5137511 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* * *
5137526 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTGAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTGAAAATATGGATTGAC
5137591 TTATT
66 TTATT
5137596 TTAAATAATT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.51
Consensus pattern (80 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTGAAAATATGGATTGAC
TTATTATTGTAGTTG
Found at i:5137767 original size:80 final size:80
Alignment explanation
Indices: 5137634--5138108 Score: 636
Period size: 80 Copynumber: 5.9 Consensus size: 80
5137624 TATTTGAAAA
* *
5137634 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGAT
5137699 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
5137714 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGAT
*
5137779 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
* ** * * ** * * *
5137800 TATAGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGTA-TTGATTTATTTTA-AAATATGGATT
*
5137862 GATTTATTATTGCAGTTG
63 GATTTATTATTGTAGTTG
*
5137880 TAT-GATTGATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGAT
*
5137944 TTATTATTGTAATTG
66 TTATTATTGTAGTTG
* *
5137959 TATGGATTAATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGAT
5138024 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* *
5138039 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGGTTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGAT
5138104 TTATT
66 TTATT
5138109 TTAAATAATT
Statistics
Matches: 348, Mismatches: 32, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
79 50 0.14
80 224 0.64
81 6 0.02
82 4 0.01
84 7 0.02
85 13 0.04
86 44 0.13
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:5137771 original size:22 final size:22
Alignment explanation
Indices: 5137746--5137788 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
5137736 AATTTATTAG
5137746 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
5137768 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
5137789 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:5137963 original size:26 final size:26
Alignment explanation
Indices: 5137933--5138054 Score: 90
Period size: 26 Copynumber: 4.6 Consensus size: 26
5137923 TATTTTAAAA
5137933 TATGGATTGATTTATTATTGTAATTG
1 TATGGATTGATTTATTATTGTAATTG
* *
5137959 TATGGATTAATTTATT-TTAAATAATT-
1 TATGGATTGATTTATTATT--GTAATTG
* * * **
5137985 TATTAGTATAT-ATTGATTTATTTTAA-AA
1 TA-T-GGAT-TGATTTA-TTATTGTAATTG
*
5138013 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTATTGTAATTG
5138039 TATGGATTGATTTATT
1 TATGGATTGATTTATT
5138055 TTAAATAATT
Statistics
Matches: 74, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
25 10 0.14
26 40 0.54
27 7 0.09
28 12 0.16
29 3 0.04
30 2 0.03
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (26 bp):
TATGGATTGATTTATTATTGTAATTG
Found at i:5138096 original size:22 final size:22
Alignment explanation
Indices: 5138071--5138113 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
5138061 AATTTATTAG
*
5138071 TATGAATTGGTTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
5138093 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
5138114 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:5138173 original size:31 final size:31
Alignment explanation
Indices: 5138138--5138196 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
5138128 AGTTGTATGG
* * *
5138138 ATTATTTAAATTTCTGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
5138169 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
5138197 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:5138950 original size:30 final size:30
Alignment explanation
Indices: 5138927--5138983 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
5138917 TTTAATTAGG
*
5138927 AATAATTAAATAATATTTTATTTAATTCAA
1 AATAATTAAATAAGATTTTATTTAATTCAA
* *
5138957 AATAATTAAATTAGATTTTAATTAATT
1 AATAATTAAATAAGATTTTATTTAATT
5138984 TGAAATTACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
AATAATTAAATAAGATTTTATTTAATTCAA
Found at i:5144930 original size:20 final size:20
Alignment explanation
Indices: 5144905--5144944 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5144895 TTTGTTCATA
5144905 AATATTATATTTAT-TATTAT
1 AATATTA-ATTTATATATTAT
*
5144925 AATATTAGTTTATATATTAT
1 AATATTAATTTATATATTAT
5144945 TACAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
AATATTAATTTATATATTAT
Found at i:5146781 original size:20 final size:20
Alignment explanation
Indices: 5146756--5146799 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
5146746 ATCCTCAAAT
5146756 GGCTCCAAAACATCCCCAAC
1 GGCTCCAAAACATCCCCAAC
5146776 GGCTCCAAAACATCCCCAAC
1 GGCTCCAAAACATCCCCAAC
5146796 GGCT
1 GGCT
5146800 ATATACGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.43, G:0.14, T:0.11
Consensus pattern (20 bp):
GGCTCCAAAACATCCCCAAC
Found at i:5161788 original size:3 final size:3
Alignment explanation
Indices: 5161782--5161811 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
5161772 TGTTTTTGTT
5161782 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
5161812 ACAGAGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:5169114 original size:24 final size:24
Alignment explanation
Indices: 5169048--5169118 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 24
5169038 AAACATAATT
* * * *
5169048 CAGGTCAAGTAGCAGATCAGAATC
1 CAGGTCAAGTATCATATCAAAATA
*
5169072 CAGGTC-A--ATCATATAAAAATA
1 CAGGTCAAGTATCATATCAAAATA
5169093 CAGGTCAAGTATCATATCAAAATA
1 CAGGTCAAGTATCATATCAAAATA
5169117 CA
1 CA
5169119 AATCGAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 15 0.39
22 1 0.03
23 1 0.03
24 21 0.55
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.21
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAAAATA
Found at i:5173852 original size:24 final size:24
Alignment explanation
Indices: 5173825--5173895 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
5173815 CATAATTCAT
* *
5173825 GTCAAGTAGCATATAAAAATCCAG
1 GTCAAGTATCATATCAAAATCCAG
5173849 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCATATCAAAATCCAG
5173873 GTCAAGTATCATATCAAAATCCA
1 GTCAAGTATCATATCAAAATCCA
5173896 AATCGAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCATATCAAAATCCAG
Found at i:5173907 original size:24 final size:24
Alignment explanation
Indices: 5173834--5173907 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
5173824 TGTCAAGTAG
* ** *
5173834 CATATAAAAATCCAGGTCAAGTAT
1 CATATCAAAATCCAAATCAAGAAT
** *
5173858 CATATCAAAATCCAGGTCAAGTAT
1 CATATCAAAATCCAAATCAAGAAT
5173882 CATATCAAAATCCAAATCGAA-AAT
1 CATATCAAAATCCAAATC-AAGAAT
5173906 CA
1 CA
5173908 GATAAACTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 43 0.96
25 2 0.04
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.23
Consensus pattern (24 bp):
CATATCAAAATCCAAATCAAGAAT
Found at i:5178342 original size:35 final size:35
Alignment explanation
Indices: 5178303--5178403 Score: 157
Period size: 35 Copynumber: 2.9 Consensus size: 35
5178293 CGTCAAGTCT
*
5178303 AGTAAGGCCCTGAGCATACAGCCGAGGAGCCGATA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAGCCGATA
* *
5178338 AGTAAGGCCCTGAGCACACAGTCGAGGAGCCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAGCCGATA
* *
5178373 AGTAAGGCCTTGAGCACACAGCCGATGAGCC
1 AGTAAGGCCCTGAGCACACAGCCGAGGAGCC
5178404 TCCAGGTATA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 60 1.00
ACGTcount: A:0.30, C:0.27, G:0.32, T:0.12
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAGCCGATA
Found at i:5178522 original size:24 final size:24
Alignment explanation
Indices: 5178490--5178587 Score: 169
Period size: 24 Copynumber: 4.1 Consensus size: 24
5178480 AAACATAATT
* *
5178490 CAGGTCAAGTAGCATATCAGAATC
1 CAGGTCAAGTATCATATCAAAATC
*
5178514 CAGGTCAAGTATCATATAAAAATC
1 CAGGTCAAGTATCATATCAAAATC
5178538 CAGGTCAAGTATCATATCAAAATC
1 CAGGTCAAGTATCATATCAAAATC
5178562 CAGGTCAAGTATCATATCAAAATC
1 CAGGTCAAGTATCATATCAAAATC
5178586 CA
1 CA
5178588 AATCGAAAAC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.23
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAAAATC
Found at i:5182499 original size:12 final size:12
Alignment explanation
Indices: 5182482--5182508 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5182472 CGGTTCCGAC
5182482 CCGACCCGTTGA
1 CCGACCCGTTGA
5182494 CCGACCCGTTGA
1 CCGACCCGTTGA
5182506 CCG
1 CCG
5182509 TTGACCGGGT
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:0.15, C:0.44, G:0.26, T:0.15
Consensus pattern (12 bp):
CCGACCCGTTGA
Found at i:5185996 original size:104 final size:106
Alignment explanation
Indices: 5185868--5186097 Score: 268
Period size: 106 Copynumber: 2.2 Consensus size: 106
5185858 TGACCATCTA
* * * * *
5185868 TTTGACACAATTGTCAATATAAATTGTAATGAATTTGTTTGACACT-AAA-TATATTTTGTGACC
1 TTTGACACTATTATCAATAAAAATTATAATAAATTTGTTTGACACTGAAAGTATATTTTGTGACC
* ** *
5185931 A-TCAATATTGACATTCTAAGTATTTTTTTAGTAACTAAATG
66 ACT-AATATCGACACACTAAGTATTTTTTTAGTAACCAAATG
* * *
5185972 TTTGATACTATTATCAATAAAAATTATGATAAATTTGTTTGACAGTGAAAGTATATTTTGTGACC
1 TTTGACACTATTATCAATAAAAATTATAATAAATTTGTTTGACACTGAAAGTATATTTTGTGACC
* * * *
5186037 ACTAATGTCGTCACACTAAGTATTTTTTTTGTGACCAAATG
66 ACTAATATCGACACACTAAGTATTTTTTTAGTAACCAAATG
* *
5186078 TTTGACACTGTTAGCAATAA
1 TTTGACACTATTATCAATAA
5186098 CTATGTCACT
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
104 38 0.37
105 3 0.03
106 62 0.60
107 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (106 bp):
TTTGACACTATTATCAATAAAAATTATAATAAATTTGTTTGACACTGAAAGTATATTTTGTGACC
ACTAATATCGACACACTAAGTATTTTTTTAGTAACCAAATG
Found at i:5190308 original size:13 final size:13
Alignment explanation
Indices: 5190292--5190340 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
5190282 CTTCAATGAA
5190292 CGTCATAAATGCG
1 CGTCATAAATGCG
*
5190305 CGTCATAAATGTG
1 CGTCATAAATGCG
*
5190318 TGTCATAAATGCG
1 CGTCATAAATGCG
5190331 CGTCATAAAT
1 CGTCATAAAT
5190341 TTATGACGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:5190315 original size:26 final size:26
Alignment explanation
Indices: 5190286--5190340 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
5190276 CGGGGGCTTC
5190286 AATGAACGTCATAAATGCGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
***
5190312 AATGTGTGTCATAAATGCGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
5190338 AAT
1 AAT
5190341 TTATGACGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (26 bp):
AATGAACGTCATAAATGCGCGTCATA
Found at i:5192033 original size:41 final size:42
Alignment explanation
Indices: 5191945--5192033 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
5191935 ACTACAAAAA
5191945 TGACAAAAATAATTGTCATCACAAATAACCAACTAAGACTAG
1 TGACAAAAATAATTGTCATCACAAATAACCAACTAAGACTAG
* * * *
5191987 TGACAAAAATAATTGTCGTGACAAA-CACCGACTAAGACTAG
1 TGACAAAAATAATTGTCATCACAAATAACCAACTAAGACTAG
5192028 TGACAA
1 TGACAA
5192034 TATTTTCGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 20 0.47
42 23 0.53
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.20
Consensus pattern (42 bp):
TGACAAAAATAATTGTCATCACAAATAACCAACTAAGACTAG
Found at i:5194278 original size:19 final size:20
Alignment explanation
Indices: 5194232--5194280 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
5194222 TAATAAAGGG
5194232 AATAATAAT-ATAAGTAATGA
1 AATAA-AATAATAAGTAATGA
5194252 AA-ATAAATAATAAG-AATGA
1 AATA-AAATAATAAGTAATGA
5194271 AATAAAATAA
1 AATAAAATAA
5194281 AGAAAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
AATAAAATAATAAGTAATGA
Found at i:5200210 original size:2 final size:2
Alignment explanation
Indices: 5200199--5200236 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
5200189 TAACTATAGG
5200199 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5200237 CAAAATAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5204486 original size:22 final size:22
Alignment explanation
Indices: 5204448--5204492 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
5204438 TTTCAGATAA
*
5204448 TTTTTTCAACGTCATCACAATT
1 TTTTTTCAAAGTCATCACAATT
*
5204470 TTTTTTCGAAAGT-ATCATAATT
1 TTTTTTC-AAAGTCATCACAATT
5204492 T
1 T
5204493 GCAAAAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.49
Consensus pattern (22 bp):
TTTTTTCAAAGTCATCACAATT
Found at i:5206428 original size:13 final size:13
Alignment explanation
Indices: 5206410--5206439 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5206400 TTGTAGGATA
*
5206410 AAAAGTATTGTTT
1 AAAAGTATAGTTT
5206423 AAAAGTATAGTTT
1 AAAAGTATAGTTT
5206436 AAAA
1 AAAA
5206440 TTTTATTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
AAAAGTATAGTTT
Found at i:5207082 original size:34 final size:33
Alignment explanation
Indices: 5207044--5207107 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
5207034 GGAAGGCGTA
*
5207044 TAAAATAAA-TTATTTTATTTTATTATTTTATGAT
1 TAAAATAAATTTA-TTTA-TTTATTATATTATGAT
5207078 TAAAATAAATTTATTTATTTATTATATTAT
1 TAAAATAAATTTATTTATTTATTATATTAT
5207108 ATAAATAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 12 0.43
34 13 0.46
35 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (33 bp):
TAAAATAAATTTATTTATTTATTATATTATGAT
Found at i:5207114 original size:30 final size:31
Alignment explanation
Indices: 5207042--5207114 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 31
5207032 GCGGAAGGCG
*
5207042 TATA-AAATAAATTATTTTATTTTATTATTT
1 TATATAAATAAATTATTTTATTTTATTATAT
5207072 TATGATTAAAATAAATT-TATTTA-TTTATTATAT
1 TAT-A-T-AAATAAATTAT-TTTATTTTATTATAT
5207105 TATATAAATA
1 TATATAAATA
5207115 GTAGTAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
30 8 0.22
31 2 0.05
32 1 0.03
33 13 0.35
34 13 0.35
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (31 bp):
TATATAAATAAATTATTTTATTTTATTATAT
Found at i:5215283 original size:21 final size:22
Alignment explanation
Indices: 5215244--5215288 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
5215234 TTATAGTATG
* *
5215244 GACGAGACGGTTCATAGT-GTT
1 GACGAGACGGTCCACAGTGGTT
*
5215265 GACGTGACGGTCCACAGTGGTT
1 GACGAGACGGTCCACAGTGGTT
5215287 GA
1 GA
5215289 TAATGTGACG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (22 bp):
GACGAGACGGTCCACAGTGGTT
Found at i:5215851 original size:7 final size:7
Alignment explanation
Indices: 5215839--5215871 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
5215829 GTACTTAAAA
5215839 TATTTTT
1 TATTTTT
5215846 TATTTTT
1 TATTTTT
5215853 TATTTTT
1 TATTTTT
5215860 TATTTTT
1 TATTTTT
5215867 TATTT
1 TATTT
5215872 ATGTACTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:5215907 original size:45 final size:45
Alignment explanation
Indices: 5215826--5215917 Score: 107
Period size: 45 Copynumber: 2.0 Consensus size: 45
5215816 ATAATAAAAA
* * * **
5215826 TATGTACTTAAAATATTTTTTATTTTTTATTTTTTAT-TTTTTATT
1 TATGTACTTAAAATATTTTTTAATGTCTATAATTTATCTTTTT-TT
5215871 TATGTACTTAAAATATTTTTTAAATGTCTA-AATTTATCTTTTTTT
1 TATGTACTTAAAATATTTTTT-AATGTCTATAATTTATCTTTTTTT
5215916 TA
1 TA
5215918 ATCAAAATAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 30 0.75
46 10 0.25
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.64
Consensus pattern (45 bp):
TATGTACTTAAAATATTTTTTAATGTCTATAATTTATCTTTTTTT
Found at i:5216097 original size:27 final size:29
Alignment explanation
Indices: 5216053--5216143 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 29
5216043 AAAAAAATTG
* *
5216053 AATACTTTAGGTATCTATTTTGA-CAAAA
1 AATACTTTAGATACCTATTTTGACCAAAA
*
5216081 AATA-TTTAGTTACCTATTTTGATCCAAAA
1 AATACTTTAGATACCTATTTTGA-CCAAAA
* * *
5216110 AGTAACTTTAAATACTTATTTTGACCAAAA
1 AAT-ACTTTAGATACCTATTTTGACCAAAA
5216140 AATA
1 AATA
5216144 TATTAGGTAC
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
27 16 0.31
28 4 0.08
29 8 0.15
30 9 0.17
31 15 0.29
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (29 bp):
AATACTTTAGATACCTATTTTGACCAAAA
Found at i:5216155 original size:29 final size:29
Alignment explanation
Indices: 5216059--5216156 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
5216049 ATTGAATACT
5216059 TTAGGTA-TCTATTTTGA-CAAAAAATAT-
1 TTAGGTACT-TATTTTGACCAAAAAATATA
* * *
5216086 TTAGTTACCTATTTTGATCCAAAAAGTA-A
1 TTAGGTACTTATTTTGA-CCAAAAAATATA
**
5216115 CTTTAAATACTTATTTTGACCAAAAAATATA
1 --TTAGGTACTTATTTTGACCAAAAAATATA
5216146 TTAGGTACTTA
1 TTAGGTACTTA
5216157 AATAAAAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
27 14 0.25
29 17 0.31
30 9 0.16
31 15 0.27
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (29 bp):
TTAGGTACTTATTTTGACCAAAAAATATA
Found at i:5221810 original size:112 final size:112
Alignment explanation
Indices: 5221613--5222075 Score: 836
Period size: 112 Copynumber: 4.1 Consensus size: 112
5221603 TTGTCGGTTT
* **
5221613 GTGTCGATACTTTATAAAAATATATTAATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
5221678 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
5221725 GTGTCGATAGTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
5221790 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
5221837 GTGTTGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
5221902 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
5221949 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAACAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
5222014 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
5222061 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
5222076 TATAAGTATC
Statistics
Matches: 338, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 338 1.00
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:5222262 original size:182 final size:182
Alignment explanation
Indices: 5221950--5222397 Score: 709
Period size: 182 Copynumber: 2.5 Consensus size: 182
5221940 ATATTGAAAG
5221950 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAACAA-ATGACAAAATC
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAA-AATATGACAAAATC
** * * *
5222014 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGATAGTGTCGATACTTTATTAT
65 GGTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATATTGAAAGTGTCGATACTTTATTAT
* * *
5222079 AAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAA
130 AAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCCCCAATAAAA
* *
5222132 TGTCAATACTTTATAAGAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCG
* * * *
5222197 ATCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCTATACTTTATTATA
66 GTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATATTGAAAGTGTCGATACTTTATTATA
* *
5222262 AGTATTGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCCCCAATAAAG
131 AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCCCCAATAAAA
*
5222314 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCG
* *
5222379 GTCTCGAAAAGATAAAACC
66 GTCTCGAAATGACAAAACC
5222398 AGTAGTAAAA
Statistics
Matches: 243, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
181 2 0.01
182 241 0.99
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (182 bp):
TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCG
GTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATATTGAAAGTGTCGATACTTTATTATA
AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCCCCAATAAAA
Found at i:5223067 original size:23 final size:23
Alignment explanation
Indices: 5223038--5223085 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
5223028 AAATATATCA
*
5223038 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
*
5223061 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATACATT
5223084 AT
1 AT
5223086 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:5223713 original size:18 final size:17
Alignment explanation
Indices: 5223687--5223743 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
5223677 TTTTAAATAT
*
5223687 TAAAATTTAGAATTTAA
1 TAAAATTTAAAATTTAA
*
5223704 CTAAAGTTTAAAATTTAA
1 -TAAAATTTAAAATTTAA
*
5223722 T-AAATCCTAAAATTTAA
1 TAAAAT-TTAAAATTTAA
5223739 TAAAA
1 TAAAA
5223744 ATAATAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 3 0.09
17 12 0.36
18 18 0.55
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (17 bp):
TAAAATTTAAAATTTAA
Found at i:5227244 original size:31 final size:31
Alignment explanation
Indices: 5227209--5227278 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
5227199 CTTTTAAAAC
*
5227209 TTGCAATACAGTCCCCCAACATTTAGTTCGT
1 TTGCAATACAGTCCCCCAACATTTAGTTCAT
* * *
5227240 TTGCAATATAGTCTCTCAACATTTAGTTCAT
1 TTGCAATACAGTCCCCCAACATTTAGTTCAT
*
5227271 TTTCAATA
1 TTGCAATA
5227279 TGGTCCCCGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (31 bp):
TTGCAATACAGTCCCCCAACATTTAGTTCAT
Found at i:5228757 original size:30 final size:31
Alignment explanation
Indices: 5228721--5228778 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
5228711 CTTTTAAAAC
5228721 TTGCAATACAGTCCCCCAACA-TTAGTCTGT
1 TTGCAATACAGTCCCCCAACATTTAGTCTGT
**
5228751 TTGCAATATGGTCCCCCAACATTTAGTC
1 TTGCAATACAGTCCCCCAACATTTAGTC
5228779 CATTTTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (31 bp):
TTGCAATACAGTCCCCCAACATTTAGTCTGT
Done.