Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 147 of 240
Found at i:46084929 original size:27 final size:27
Alignment explanation
Indices: 46084898--46085075 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46084888 TAAATTGTAC
46084898 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
46084925 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46084951 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
46084979 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
46085007 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46085034 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
46085061 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46085076 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:46085012 original size:82 final size:81
Alignment explanation
Indices: 46084899--46085054 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46084889 AAATTGTACA
* *
46084899 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
46084963 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
46084980 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
46085045 TGCGAGTTGA
65 TGCGAATTGA
46085055 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46085066 original size:82 final size:81
Alignment explanation
Indices: 46084895--46085075 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
46084885 GATTAAATTG
* *
46084895 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
46084960 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
46084976 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
46085040 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
46085058 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46085076 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:46092488 original size:12 final size:12
Alignment explanation
Indices: 46092471--46092496 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46092461 CATTCCGAAG
46092471 TATATATATACA
1 TATATATATACA
46092483 TATATATATACA
1 TATATATATACA
46092495 TA
1 TA
46092497 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:46093005 original size:27 final size:27
Alignment explanation
Indices: 46092974--46093151 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46092964 TAAATTGTAC
46092974 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
46093001 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46093027 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
46093055 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
46093083 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46093110 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
46093137 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46093152 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:46093088 original size:82 final size:81
Alignment explanation
Indices: 46092975--46093130 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46092965 AAATTGTACA
* *
46092975 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
46093039 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
46093056 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
46093121 TGCGAGTTGA
65 TGCGAATTGA
46093131 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46093142 original size:82 final size:81
Alignment explanation
Indices: 46092971--46093151 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
46092961 GATTAAATTG
* *
46092971 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
46093036 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
46093052 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
46093116 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
46093134 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46093152 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:46095822 original size:20 final size:20
Alignment explanation
Indices: 46095788--46095837 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
46095778 TTTACAACAC
*
46095788 ATTTATTCATAAAATTTTAGA
1 ATTT-TTCATAAAATTTTACA
*
46095809 ATTTTTCATCAAATTTTACA
1 ATTTTTCATAAAATTTTACA
*
46095829 ACTTTTCAT
1 ATTTTTCAT
46095838 TTTAGTCCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTTTTCATAAAATTTTACA
Found at i:46109737 original size:56 final size:56
Alignment explanation
Indices: 46109670--46109786 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
46109660 TAGTTTATCT
46109670 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
*
46109726 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
46109782 CCCAT
1 CCCAT
46109787 CATCCCTTGT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
Found at i:46116278 original size:40 final size:40
Alignment explanation
Indices: 46116241--46116463 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
46116231 GCTACTCGTT
* *
46116241 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
46116281 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
46116321 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
46116361 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
46116400 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
46116441 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
46116464 AACATCATTC
Statistics
Matches: 163, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:46116425 original size:119 final size:120
Alignment explanation
Indices: 46116243--46116463 Score: 297
Period size: 119 Copynumber: 1.9 Consensus size: 120
46116233 TACTCGTTCA
*
46116243 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
46116308 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
46116363 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
46116425 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCG
46116464 AACATCATTC
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:46117682 original size:55 final size:56
Alignment explanation
Indices: 46117591--46117709 Score: 222
Period size: 55 Copynumber: 2.1 Consensus size: 56
46117581 TATTAGTTTA
46117591 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
46117647 TTGCCCATGCTTCTTA-TTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
46117702 TTGCCCAT
1 TTGCCCAT
46117710 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 46 0.74
56 16 0.26
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:46121475 original size:18 final size:18
Alignment explanation
Indices: 46121445--46121479 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46121435 AGAATACAAA
46121445 TCAACAATCTCAAAAACG
1 TCAACAATCTCAAAAACG
46121463 TCAA-AATCATCAAAAAC
1 TCAACAATC-TCAAAAAC
46121480 CGAACTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
TCAACAATCTCAAAAACG
Found at i:46123124 original size:39 final size:39
Alignment explanation
Indices: 46123076--46123204 Score: 141
Period size: 39 Copynumber: 3.3 Consensus size: 39
46123066 ATTCACTTTT
* * * *
46123076 AAGCGTATATCACATTACACATATAATAACATAACATTT
1 AAGCATATATCACAATACTCATATAATAACATAACATTC
* * * **
46123115 ACGCATATATAAAAATACTCATATAATCGCATAACATTC
1 AAGCATATATCACAATACTCATATAATAACATAACATTC
* * *
46123154 AAGCATATATCACAATACTCATATAATCACAGAATATTC
1 AAGCATATATCACAATACTCATATAATAACATAACATTC
*
46123193 AACCATATATCA
1 AAGCATATATCA
46123205 TAATCCACAC
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATAACATAACATTC
Found at i:46125224 original size:15 final size:14
Alignment explanation
Indices: 46125203--46125238 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
46125193 ATAATCCTTA
*
46125203 ATAATTATCTTAAT
1 ATAATTATCCTAAT
46125217 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
46125232 ATAATTA
1 ATAATTA
46125239 AAATAGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:46129088 original size:39 final size:39
Alignment explanation
Indices: 46129005--46129143 Score: 138
Period size: 39 Copynumber: 3.6 Consensus size: 39
46128995 ATTCACTTTT
* * * *
46129005 AAGCTTATATCACATTACACATATAATCAC-ATACATTT
1 AAGCATATATCACAATACACATATAATCACAAAACATTC
* * * *
46129043 ACGCATATACCACAATACTCATACAATCACAAAACATTC
1 AAGCATATATCACAATACACATATAATCACAAAACATTC
* * * *
46129082 AAGCATATATCATAGTACTCTTATAATCACATAAA-ATTC
1 AAGCATATATCACAATACACATATAATCACA-AAACATTC
*
46129121 AAGCATATATCATAATACACATA
1 AAGCATATATCACAATACACATA
46129144 ATCATATTTA
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
38 24 0.29
39 55 0.67
40 3 0.04
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACAAAACATTC
Found at i:46136153 original size:20 final size:20
Alignment explanation
Indices: 46136125--46136174 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
46136115 AAGACTATGA
*
46136125 ACCACTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
46136145 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
*
46136165 TCCATTCCAT
1 ACCATTCCAT
46136175 CTATTTAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.42
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:46136726 original size:26 final size:25
Alignment explanation
Indices: 46136676--46136726 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
46136666 TGGAATGGTC
**
46136676 GATGATTTGAGGATTGAATGGGATT
1 GATGATTTGAGGATTGAAAAGGATT
*
46136701 GATGATTTGAGTGATTGAAAATGATT
1 GATGATTTGAG-GATTGAAAAGGATT
46136727 TATAGAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.37
Consensus pattern (25 bp):
GATGATTTGAGGATTGAAAAGGATT
Found at i:46141935 original size:40 final size:40
Alignment explanation
Indices: 46141835--46142059 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
46141825 GCTCCTCGTT
* * * *
46141835 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
46141875 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
46141914 CGAATGCCTTCAGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
46141954 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
46141994 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
46142035 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
46142060 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.25
40 102 0.65
41 15 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:46142068 original size:41 final size:41
Alignment explanation
Indices: 46141991--46142068 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
46141981 TTTGTATCTC
* * *
46141991 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
46142032 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
46142069 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:46154601 original size:16 final size:16
Alignment explanation
Indices: 46154580--46154623 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
46154570 TCTCCCATGG
46154580 TTTCACAATCTATAAT
1 TTTCACAATCTATAAT
*
46154596 TTTCACAGTTCTATAAT
1 TTTCACA-ATCTATAAT
46154613 TTTCAC-ATCTA
1 TTTCACAATCTA
46154624 AAGATCACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 7 0.28
17 14 0.56
ACGTcount: A:0.32, C:0.20, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTCACAATCTATAAT
Found at i:46157661 original size:20 final size:20
Alignment explanation
Indices: 46157614--46157664 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
46157604 CAAGCTACGA
*
46157614 CTCAACAAAGGCTGATATGG
1 CTCAACACAGGCTGATATGG
* *
46157634 CTCAACACAGGTTGCTATGG
1 CTCAACACAGGCTGATATGG
46157654 CTCAACACAGG
1 CTCAACACAGG
46157665 AGTCATGTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (20 bp):
CTCAACACAGGCTGATATGG
Found at i:46158587 original size:27 final size:27
Alignment explanation
Indices: 46158527--46158844 Score: 213
Period size: 27 Copynumber: 11.9 Consensus size: 27
46158517 TTTAAGGATT
* * * *
46158527 AGGGTAAAATAACCGAAATACTCTAGA
1 AGGGTAAAATTACTGAAATACCCTTGA
* *
46158554 TGTGTAAAATTACTGAAATACCCTTGA
1 AGGGTAAAATTACTGAAATACCCTTGA
** *
46158581 AGGGTAAAATTACCAAAATGCCCTTGA
1 AGGGTAAAATTACTGAAATACCCTTGA
* * * *
46158608 TGGGTAAAATTATTGAAACACCC-TAA
1 AGGGTAAAATTACTGAAATACCCTTGA
**
46158634 AGGGTAAAATTA-TCGAAATACCCTCAA
1 AGGGTAAAATTACT-GAAATACCCTTGA
*
46158661 AGGGTAAAATTA-TCGAAATACCCTCGA
1 AGGGTAAAATTACT-GAAATACCCTTGA
* *
46158688 TGGGTAAAATTACCGAAATA-CCTTCGA
1 AGGGTAAAATTACTGAAATACCCTT-GA
* * *
46158715 TGGGTAAAATTACTAAAATACCCTCG-
1 AGGGTAAAATTACTGAAATACCCTTGA
* *
46158741 ATGGTAAAATTA-TCGAAATACCC-TCA
1 AGGGTAAAATTACT-GAAATACCCTTGA
* * **
46158767 ATAGGTAAAATTA-TCAAAATACCCCCGA
1 A-GGGTAAAATTACT-GAAATACCCTTGA
* * * * *
46158795 ACGGTAAAATGACCGGAATACCC-TCA
1 AGGGTAAAATTACTGAAATACCCTTGA
*
46158821 ATGGGTAAAATTACTAAAATACCC
1 A-GGGTAAAATTACTGAAATACCC
46158845 CTATAGGGAA
Statistics
Matches: 231, Mismatches: 49, Indels: 22
0.76 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 45 0.19
27 179 0.77
28 5 0.02
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (27 bp):
AGGGTAAAATTACTGAAATACCCTTGA
Found at i:46158616 original size:54 final size:54
Alignment explanation
Indices: 46158527--46158844 Score: 340
Period size: 54 Copynumber: 5.9 Consensus size: 54
46158517 TTTAAGGATT
* * * * *
46158527 AGGGTAAAATAACCGAAATACTCT-AGATGTGTAAAATTACTGAAATACCCTTGA
1 AGGGTAAAATTACCGAAATACCCTCA-ATGGGTAAAATTACTAAAATACCCTCGA
* * ** * * * *
46158581 AGGGTAAAATTACCAAAATGCCCTTGATGGGTAAAATTATTGAAACACCCT-AA
1 AGGGTAAAATTACCGAAATACCCTCAATGGGTAAAATTACTAAAATACCCTCGA
* * *
46158634 AGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTA-TCGAAATACCCTCGA
1 AGGGTAAAATTACCGAAATACCCTCAATGGGTAAAATTACT-AAAATACCCTCGA
* * *
46158688 TGGGTAAAATTACCGAAATACCTTCGATGGGTAAAATTACTAAAATACCCTCG-
1 AGGGTAAAATTACCGAAATACCCTCAATGGGTAAAATTACTAAAATACCCTCGA
* * * *
46158741 ATGGTAAAATTATCGAAATACCCTCAATAGGTAAAATTA-TCAAAATACCCCCGA
1 AGGGTAAAATTACCGAAATACCCTCAATGGGTAAAATTACT-AAAATACCCTCGA
* * *
46158795 ACGGTAAAATGACCGGAATACCCTCAATGGGTAAAATTACTAAAATACCC
1 AGGGTAAAATTACCGAAATACCCTCAATGGGTAAAATTACTAAAATACCC
46158845 CTATAGGGAA
Statistics
Matches: 222, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
52 2 0.01
53 87 0.39
54 131 0.59
55 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (54 bp):
AGGGTAAAATTACCGAAATACCCTCAATGGGTAAAATTACTAAAATACCCTCGA
Found at i:46158654 original size:107 final size:107
Alignment explanation
Indices: 46158557--46158858 Score: 358
Period size: 107 Copynumber: 2.8 Consensus size: 107
46158547 CTCTAGATGT
* *
46158557 GTAAAATTA-CTGAAATACCCTTGAAGGGTAAAATTACCAAAATGCCCTT-GATGGGTAAAATTA
1 GTAAAATTATC-GAAATACCCTCGAAGGGTAAAATTACCAAAAT-ACCTTCGATGGGTAAAATTA
* *
46158620 TTGAAACACCCTAAAGGGTAAAATTATCGAAATACCCTCAAAGG
64 CTAAAACACCCTAAAGGGTAAAATTATCGAAATACCCTCAAAGG
* *
46158664 GTAAAATTATCGAAATACCCTCGATGGGTAAAATTACCGAAATACCTTCGATGGGTAAAATTACT
1 GTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCAAAATACCTTCGATGGGTAAAATTACT
* ** *
46158729 AAAATACCCTCGATGGTAAAATTATCGAAATACCCTCAATA-G
66 AAAACACCCTAAAGGGTAAAATTATCGAAATACCCTCAA-AGG
* * * * ** * *
46158771 GTAAAATTATCAAAATACCCCCGAACGGTAAAATGACCGGAATACCCTCAATGGGTAAAATTACT
1 GTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCAAAATACCTTCGATGGGTAAAATTACT
* * *
46158836 AAAATACCCCTATAGGGAAAAAT
66 AAAACA-CCCTAAAGGGTAAAAT
46158859 GACCGTTATA
Statistics
Matches: 169, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
106 4 0.02
107 151 0.89
108 14 0.08
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (107 bp):
GTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCAAAATACCTTCGATGGGTAAAATTACT
AAAACACCCTAAAGGGTAAAATTATCGAAATACCCTCAAAGG
Found at i:46158747 original size:80 final size:79
Alignment explanation
Indices: 46158528--46158789 Score: 283
Period size: 80 Copynumber: 3.3 Consensus size: 79
46158518 TTAAGGATTA
* * * *
46158528 GGGTAAAATAACCGAAATACTCTAGATGTGTAAAATTACTGAAATACCCTTGAAGGGTAAAATTA
1 GGGTAAAATTACCGAAATAC-CTTGATGGGTAAAATTACTGAAATACCCTCG-AGGGTAAAATTA
* * * *
46158593 CCAAAATGCCCTTGAT
64 TCGAAATACCCTCGAT
** * * * * *
46158609 GGGTAAAATTATTGAAACACCCTAAAGGGTAAAATTA-TCGAAATACCCTCAAAGGGTAAAATTA
1 GGGTAAAATTACCGAAATACCTTGATGGGTAAAATTACT-GAAATACCCTC-GAGGGTAAAATTA
46158673 TCGAAATACCCTCGAT
64 TCGAAATACCCTCGAT
* *
46158689 GGGTAAAATTACCGAAATACCTTCGATGGGTAAAATTACTAAAATACCCTCGATGGTAAAATTAT
1 GGGTAAAATTACCGAAATACCTT-GATGGGTAAAATTACTGAAATACCCTCGAGGGTAAAATTAT
*
46158754 CGAAATACCCTCAAT
65 CGAAATACCCTCGAT
* * *
46158769 AGGTAAAATTATCAAAATACC
1 GGGTAAAATTACCGAAATACC
46158790 CCCGAACGGT
Statistics
Matches: 149, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
79 1 0.01
80 109 0.73
81 38 0.26
82 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (79 bp):
GGGTAAAATTACCGAAATACCTTGATGGGTAAAATTACTGAAATACCCTCGAGGGTAAAATTATC
GAAATACCCTCGAT
Found at i:46158801 original size:80 final size:80
Alignment explanation
Indices: 46158557--46158833 Score: 297
Period size: 80 Copynumber: 3.4 Consensus size: 80
46158547 CTCTAGATGT
* * * * * *
46158557 GTAAAATTACTGAAATACCCTTGAAGGGTAAAATTACCAAAATGCCCTTGATGGGTAAAATTATT
1 GTAAAATTACTGAAATACCC-TCAAGGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTATC
* **
46158622 GAAACA-CCCTAAAGG
65 GAAATACCCCCGAAGG
*
46158637 GTAAAATTA-TCGAAATACCCTCAAAGGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTAC
1 GTAAAATTACT-GAAATACCCTC-AAGGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTAT
** *
46158701 CGAAATACCTTCGATGG
64 CGAAATACCCCCGAAGG
* * * * * *
46158718 GTAAAATTACTAAAATACCCTCGATGGTAAAATTATCGAAATACCCTCAATAGGTAAAATTATCA
1 GTAAAATTACTGAAATACCCTCAAGGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTATCG
*
46158783 AAATACCCCCGAACG
66 AAATACCCCCGAAGG
* * *
46158798 GTAAAATGACCGGAATACCCTCAATGGGTAAAATTA
1 GTAAAATTACTGAAATACCCTCAA-GGGTAAAATTA
46158834 CTAAAATACC
Statistics
Matches: 162, Mismatches: 30, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
79 2 0.01
80 126 0.78
81 33 0.20
82 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (80 bp):
GTAAAATTACTGAAATACCCTCAAGGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTATCG
AAATACCCCCGAAGG
Found at i:46159156 original size:26 final size:26
Alignment explanation
Indices: 46159057--46159148 Score: 121
Period size: 26 Copynumber: 3.5 Consensus size: 26
46159047 CCACAAATAT
* * *
46159057 TGTTACTGGCAGCTTTACTACGTTAT
1 TGTTACTGGCAGCTCTACTGCGTTAC
* **
46159083 TGATACTGGCAGCTCTGTTGCGTTAC
1 TGTTACTGGCAGCTCTACTGCGTTAC
*
46159109 TGTTACTAGCAGCTCTACTGCGTTAC
1 TGTTACTGGCAGCTCTACTGCGTTAC
46159135 TGTTACTGGCAGCT
1 TGTTACTGGCAGCT
46159149 TTGCTGCGAT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
TGTTACTGGCAGCTCTACTGCGTTAC
Found at i:46159364 original size:30 final size:30
Alignment explanation
Indices: 46159276--46159378 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 30
46159266 AAATACTATT
46159276 TTGGGCTAAGG-CC-CACACTGTTACTGTA
1 TTGGGCTAAGGCCCACACACTGTTACTGTA
* * *
46159304 TTTGGCTAAGGCCCACACTCTGTTATTGTA
1 TTGGGCTAAGGCCCACACACTGTTACTGTA
* **
46159334 TTGGGCTATGGCCCACACACTACTACTGTA
1 TTGGGCTAAGGCCCACACACTGTTACTGTA
*
46159364 TAGGGCTCAA-GCCCA
1 TTGGGCT-AAGGCCCA
46159379 GACTGATTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 10 0.16
29 2 0.03
30 48 0.79
31 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (30 bp):
TTGGGCTAAGGCCCACACACTGTTACTGTA
Found at i:46165652 original size:3 final size:3
Alignment explanation
Indices: 46165638--46165674 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
46165628 AAAATAAAAC
*
46165638 TAA TAA TGA TAA TAA CTAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
46165675 CATTGATGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:46170325 original size:15 final size:16
Alignment explanation
Indices: 46170298--46170327 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46170288 CAAAAACTAA
46170298 TCTTTTGTTTTTGATT
1 TCTTTTGTTTTTGATT
46170314 TCTTTT-TTTTTGAT
1 TCTTTTGTTTTTGAT
46170328 ACAGTATGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.77
Consensus pattern (16 bp):
TCTTTTGTTTTTGATT
Found at i:46171114 original size:50 final size:49
Alignment explanation
Indices: 46171060--46171915 Score: 397
Period size: 50 Copynumber: 17.1 Consensus size: 49
46171050 TTGTACCTTC
* *
46171060 AATCTTTTTAACTGCGATGTCGGGGATGCAAGATTTACCATTGTGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
* ** *** * * **** * *
46171110 AATCTGTTCCACTGCACCACCTGGGAAGTAAGATTCGTTGTTGTAGCCTT
1 AATCTTTTTAACTGCA-TGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
*
46171160 AATCTTTTTGACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
* **** * * * * * *
46171210 AATCTGTACCGCTGCATTGCCTAGGG-AGTAAGATTCACTATTATAGCTTT
1 AATCTTTTTAACTGCA-TGTC-GGGGAAGCAAGATTCACCATTGTGGCTTT
*
46171260 AGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATT-TGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
* *** * * *
46171310 AATCTATTCCGCTGCATCGCCTGGGG-AGTAAGATTC-CCTATTGTAGCTTT
1 AATCTTTTTAACTGCAT-GTC-GGGGAAGCAAGATTCACC-ATTGTGGCTTT
*
46171360 AATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGA-TGTGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
* ** * * * * ** * *
46171410 AATCTGTTCCACTGCATCGCCTAGGG-AGTAAGATTCGCTGTTATAGCTTT
1 AATCTTTTTAACTGCAT-GTC-GGGGAAGCAAGATTCACCATTGTGGCTTT
*
46171460 AATCTTTTTAACTGGAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTT
1 AATCTTTTTAACT-GCATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
** *** ** * **
46171510 AATCTGCTCCGCTGCATCACCTGGGG-AGTAAGATTCACTGTTGTGGCTTT
1 AATCTTTTTAACTGCAT-GTC-GGGGAAGCAAGATTCACCATTGTGGCTTT
* * *
46171560 AATCTTTTTAACTACAGTGT-GGGGAAAGCAAGATTCACCGTTATGGCTTT
1 AATCTTTTTAACTGCA-TGTCGGGG-AAGCAAGATTCACCATTGTGGCTTT
** ** * * * ** * *
46171610 AATCTGCTCCACTGCACTGGCTGGGAGAGTAAGATTCGTCGTTGTGACTTT
1 AATCTTTTTAACTGCA-TGTCGGGGA-AGCAAGATTCACCATTGTGGCTTT
*
46171661 AATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTAGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
** * * * **** **
46171711 AAT-TTGTTCCACTGCATCGCCTGGGAAGTAAGATTCGTTGTTGCAGCTTT
1 AATCTT-TTTAACTGCAT-GTCGGGGAAGCAAGATTCACCATTGTGGCTTT
*
46171761 AATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCATCGA-TGTGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCA-CCATTGTGGCTTT
* ** * * * ** * ** *
46171811 AATCTGTTCCACTGCACCGCCAGGGAAATAAGATTCGCTGTTGTAGCTTT
1 AATCTTTTTAACTGCA-TGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
* * * * * **
46171861 AATCTTTTTAACTGTAATGTCAGGAAAGCATGATTCGCTGTTGTGGCTTT
1 AATCTTTTTAACTG-CATGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
46171911 AATCT
1 AATCT
46171916 GTTCCACTGC
Statistics
Matches: 583, Mismatches: 183, Indels: 80
0.69 0.22 0.09
Matches are distributed among these distances:
48 4 0.01
49 30 0.05
50 474 0.81
51 74 0.13
52 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (49 bp):
AATCTTTTTAACTGCATGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
Found at i:46171208 original size:100 final size:100
Alignment explanation
Indices: 46171035--46171945 Score: 1170
Period size: 100 Copynumber: 9.1 Consensus size: 100
46171025 AACTTTTGGA
* ** * * * * *
46171035 AAGTAAGATTTGCCATTGTACCTTCAATCTTTTTAACTGCGATGTCGGGGATGCAAGATTTACC-
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* *
46171099 ATTGTGGCTTTAATCTGTTCCACTGCACCACCTGGG
66 A-TGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * *
46171135 AAGTAAGATTCGTTGTTGTAGCCTTAATCTTTTTGACTGCAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
46171200 ATGTGGCTTTAATCTGTACCGCTGCATTGCCTAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCT-GGG
* * * *
46171236 -AGTAAGATTCACTATTATAGCTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
46171300 ATTTGGCTTTAATCTATTCCGCTGCATCGCCTGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * *
46171335 GAGTAAGATTCCCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
46171400 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCT-GGG
* *
46171436 -AGTAAGATTCGCTGTTATAGCTTTAATCTTTTTAACTGGAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
46171500 ATGTGGCTTTAATCTGCTCCGCTGCATCACCTGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * * *
46171535 GAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTACAGTGT-GGGGAAAGCAAGATTCACC
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG-AAGCAAGATTCACC
* * * *
46171599 GTTATGGCTTTAATCTGCTCCACTGCA-CTGGCTGGG
65 GATGTGGCTTTAATCTGTTCCACTGCATC-GCCTGGG
46171635 AGAGTAAGATTCG-TCGTTGT-GACTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCA
1 A-AGTAAGATTCGCT-GTTGTAG-CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCA
* *
46171698 CCGATGTAGCTTTAATTTGTTCCACTGCATCGCCTGGG
63 CCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * *
46171736 AAGTAAGATTCGTTGTTGCAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCATCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* *
46171801 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * * * * *
46171836 AAATAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGTAATGTCAGGAAAGCATGATTCGCTG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
46171901 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTAGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
46171936 AGAGTAAGAT
1 A-AGTAAGAT
46171946 ATGTAATTCT
Statistics
Matches: 713, Mismatches: 83, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
99 11 0.02
100 601 0.84
101 96 0.13
102 5 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (100 bp):
AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
Found at i:46172103 original size:44 final size:44
Alignment explanation
Indices: 46172043--46172165 Score: 176
Period size: 44 Copynumber: 2.8 Consensus size: 44
46172033 CCTTTATTTT
* * *
46172043 AATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * *
46172087 AATCTGTTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
46172131 AATCTGCTCCACTGTAA-CATCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT
46172166 CACCATTTCC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
43 1 0.01
44 69 0.99
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
Found at i:46172468 original size:129 final size:129
Alignment explanation
Indices: 46172238--46172491 Score: 427
Period size: 129 Copynumber: 2.0 Consensus size: 129
46172228 AATCTTCAAT
* *
46172238 CTATTCCACTGCTGACTAGGGATATCGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
1 CTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
* * * * *
46172303 AAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTTAGGGATACAAGATCTGTAATTTCCCAAC
66 AAGATTTGTCGTATTCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGTAATTTCCCAAC
*
46172367 CTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGAT
1 CTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
*
46172432 AAGATTTGTCGTATTCGATCTGCTTCACTACTGCTTAAGGAGACAAGATCTGTAATTTCC
66 AAGATTTGTCGTATTCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGTAATTTCC
46172492 TAGATCTGTT
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 116 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (129 bp):
CTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
AAGATTTGTCGTATTCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGTAATTTCCCAAC
Found at i:46174641 original size:14 final size:14
Alignment explanation
Indices: 46174622--46174660 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
46174612 TTTTTTGTCA
46174622 TTTTTTATTTTGAT
1 TTTTTTATTTTGAT
* *
46174636 TTTTTTATCTAGAT
1 TTTTTTATTTTGAT
46174650 TTTTTTATTTT
1 TTTTTTATTTT
46174661 TTCTTCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTTTTATTTTGAT
Found at i:46178946 original size:40 final size:42
Alignment explanation
Indices: 46178838--46178958 Score: 113
Period size: 46 Copynumber: 2.8 Consensus size: 42
46178828 ATAAATGAAG
* * * *
46178838 AAAATAAATAAAAGATATGTATATGGATTATAAAATACAAAAGC
1 AAAATATATAAAATATAAGTATATAGATTATAAAATAC-AAA-C
* * *
46178882 ATAAATATTTACATATATAGGTATATAGATTATAAAATAC-AA-
1 A-AAATATATA-AAATATAAGTATATAGATTATAAAATACAAAC
46178924 AAAATATATAAAATATAAGTATATACG-TTATAAAA
1 AAAATATATAAAATATAAGTATATA-GATTATAAAA
46178959 AAATGTGTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
40 21 0.32
41 9 0.14
42 1 0.02
44 3 0.05
45 7 0.11
46 24 0.37
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (42 bp):
AAAATATATAAAATATAAGTATATAGATTATAAAATACAAAC
Found at i:46179280 original size:3 final size:3
Alignment explanation
Indices: 46179266--46179299 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
46179256 CAAATAAAAC
*
46179266 TAA TAA TGA TAA TAA CTAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
46179300 CATTGATGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:46179282 original size:16 final size:16
Alignment explanation
Indices: 46179258--46179296 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
46179248 TAAAAGGGCA
46179258 AATAA-AACTAATAAT
1 AATAATAACTAATAAT
*
46179273 GATAATAACTAATAAT
1 AATAATAACTAATAAT
46179289 AATAATAA
1 AATAATAA
46179297 TAACATTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (16 bp):
AATAATAACTAATAAT
Found at i:46193970 original size:22 final size:24
Alignment explanation
Indices: 46193945--46193999 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
46193935 ATAAGAAGAG
46193945 AAATATTTTAAAAATTACAA-AA-A
1 AAATATTTTAAAAATTA-AAGAATA
* * *
46193968 AATTCTTTTAAAATTTAAAGAATA
1 AAATATTTTAAAAATTAAAGAATA
46193992 AAATATTT
1 AAATATTT
46194000 AATTAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
24 7 0.28
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATTTTAAAAATTAAAGAATA
Found at i:46196973 original size:16 final size:16
Alignment explanation
Indices: 46196952--46196991 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
46196942 TTTGGTTCGC
46196952 TGTAATAGAATAGAGG
1 TGTAATAGAATAGAGG
46196968 TGTAATAGAATAGAGG
1 TGTAATAGAATAGAGG
*
46196984 CGTAATAG
1 TGTAATAG
46196992 GTAATCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.42, C:0.03, G:0.30, T:0.25
Consensus pattern (16 bp):
TGTAATAGAATAGAGG
Found at i:46197262 original size:16 final size:16
Alignment explanation
Indices: 46197237--46197268 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46197227 AAAAATATAT
*
46197237 TTTTATATTTTTTAAA
1 TTTTAAATTTTTTAAA
46197253 TTTTAAATTTTTTAAA
1 TTTTAAATTTTTTAAA
46197269 AATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAAATTTTTTAAA
Found at i:46197278 original size:12 final size:12
Alignment explanation
Indices: 46197257--46197306 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
46197247 TTTAAATTTT
46197257 AAAT-TTTTTAA
1 AAATATTTTTAA
46197268 AAATATTTTT-A
1 AAATATTTTTAA
**
46197279 AAATACTTTTTTT
1 AAATA-TTTTTAA
*
46197292 AAATTTTTTTAA
1 AAATATTTTTAA
46197304 AAA
1 AAA
46197307 GTTGGTGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 10 0.31
12 18 0.56
13 4 0.12
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
AAATATTTTTAA
Found at i:46197299 original size:11 final size:11
Alignment explanation
Indices: 46197253--46197305 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
46197243 ATTTTTTAAA
46197253 TTTT-AAATTT
1 TTTTAAAATTT
* *
46197263 TTTAAAAATAT
1 TTTTAAAATTT
46197274 TTTTAAAATACTT
1 TTTTAAAAT--TT
*
46197287 TTTTTAAATTT
1 TTTTAAAATTT
46197298 TTTTAAAA
1 TTTTAAAA
46197306 AGTTGGTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
10 3 0.09
11 22 0.65
13 9 0.26
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:46197358 original size:16 final size:16
Alignment explanation
Indices: 46197330--46197371 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
46197320 TTTAAAAAAT
*
46197330 GGGC-CGGGTCGGGTC
1 GGGCTCGGGCCGGGTC
*
46197345 GGGCTCGGGCCGGGTT
1 GGGCTCGGGCCGGGTC
*
46197361 GGGCTTGGGCC
1 GGGCTCGGGCC
46197372 CAGTATGCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.00, C:0.26, G:0.57, T:0.17
Consensus pattern (16 bp):
GGGCTCGGGCCGGGTC
Found at i:46198404 original size:13 final size:13
Alignment explanation
Indices: 46198388--46198413 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46198378 ATGACTTTTA
46198388 AATGATAATAAGT
1 AATGATAATAAGT
46198401 AATGATAATAAGT
1 AATGATAATAAGT
46198414 TACGATATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
AATGATAATAAGT
Found at i:46205295 original size:79 final size:81
Alignment explanation
Indices: 46205159--46205343 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
46205149 TTGAATGATG
* *
46205159 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
46205223 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* **
46205238 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGAT-ACTAAATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TGACCAAATCCGGACTAAGAT-CCGAAGGC
*
46205299 ATTTGTGCGAGTTACTATA
63 ATTTGTGCGAGATACTATA
* *
46205318 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46205344 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 1 0.01
79 57 0.62
80 34 0.37
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:46205357 original size:40 final size:40
Alignment explanation
Indices: 46205160--46205343 Score: 209
Period size: 40 Copynumber: 4.6 Consensus size: 40
46205150 TGAATGATGT
* * *
46205160 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAA
* *
46205200 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-A
46205240 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
* *
46205278 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
*
46205319 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46205344 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 16
0.84 0.06 0.11
Matches are distributed among these distances:
39 36 0.28
40 78 0.61
41 12 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
Found at i:46205365 original size:79 final size:79
Alignment explanation
Indices: 46205212--46205376 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
46205202 GGACTAAGAT
* **
46205212 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
*
46205277 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
46205291 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGATA-C
* *
46205354 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
46205370 CCGAAGG
1 CCGAAGG
46205377 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
ATCCGGGTTAAATC
Found at i:46213248 original size:79 final size:81
Alignment explanation
Indices: 46213112--46213296 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
46213102 TTGAATGATG
* *
46213112 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
46213176 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* **
46213191 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGAT-ACTAAATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TGACCAAATCCGGACTAAGAT-CCGAAGGC
*
46213252 ATTTGTGCGAGTTACTATA
63 ATTTGTGCGAGATACTATA
* *
46213271 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46213297 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 1 0.01
79 57 0.62
80 34 0.37
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:46213310 original size:40 final size:40
Alignment explanation
Indices: 46213113--46213296 Score: 209
Period size: 40 Copynumber: 4.6 Consensus size: 40
46213103 TGAATGATGT
* * *
46213113 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAA
* *
46213153 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-A
46213193 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
* *
46213231 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
*
46213272 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46213297 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 16
0.84 0.06 0.11
Matches are distributed among these distances:
39 36 0.28
40 78 0.61
41 12 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
Found at i:46213318 original size:79 final size:79
Alignment explanation
Indices: 46213165--46213329 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
46213155 GGACTAAGAT
* **
46213165 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
*
46213230 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
46213244 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGATA-C
* *
46213307 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
46213323 CCGAAGG
1 CCGAAGG
46213330 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
ATCCGGGTTAAATC
Found at i:46225617 original size:10 final size:10
Alignment explanation
Indices: 46225602--46225643 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
46225592 TTTGCAAGTT
46225602 TTGAGCTAAA
1 TTGAGCTAAA
* *
46225612 TTGAGCTGAT
1 TTGAGCTAAA
*
46225622 TTGAGCT-CA
1 TTGAGCTAAA
46225631 TTGAGCTAAA
1 TTGAGCTAAA
46225641 TTG
1 TTG
46225644 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:46230197 original size:16 final size:16
Alignment explanation
Indices: 46230176--46230206 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46230166 TCTTGGAGAA
*
46230176 ACTCAAAGAGAATTTT
1 ACTCAAAAAGAATTTT
46230192 ACTCAAAAAGAATTT
1 ACTCAAAAAGAATTT
46230207 GACTTTATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (16 bp):
ACTCAAAAAGAATTTT
Found at i:46231324 original size:33 final size:34
Alignment explanation
Indices: 46231273--46231336 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 34
46231263 AGATTTAAAC
46231273 AAATTAATTACTAACACTTATTTAAGCTGAATTG
1 AAATTAATTACTAACACTTATTTAAGCTGAATTG
*
46231307 AAATTAATT-CTAACACTTATTTGAGCTGAA
1 AAATTAATTACTAACACTTATTTAAGCTGAA
46231337 CTAAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 20 0.69
34 9 0.31
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAATTG
Found at i:46234089 original size:11 final size:11
Alignment explanation
Indices: 46234060--46234090 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
46234050 ACGAGATTAT
*
46234060 AAAAAAAATCG
1 AAAAAAATTCG
46234071 AAAAAAATTCG
1 AAAAAAATTCG
46234082 AAAAAAATT
1 AAAAAAATT
46234091 ATTGTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.16
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:46255523 original size:6 final size:6
Alignment explanation
Indices: 46255505--46255542 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
46255495 AAAAAAATAA
46255505 AAAAAG AATAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AA-AAAG AAAAAG AAAAAG AAAAAG AAAAAG A
46255543 GACATATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:46261053 original size:30 final size:30
Alignment explanation
Indices: 46261014--46261070 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
46261004 TTTTATAAAT
46261014 AATTAATATTT-AT-TGCTTAAAAATATTTAA
1 AATTAATATTTCATATG-TT-AAAATATTTAA
*
46261044 AATTTATATTTCATATGTTAAAATATT
1 AATTAATATTTCATATGTTAAAATATT
46261071 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATGTTAAAATATTTAA
Found at i:46261262 original size:13 final size:13
Alignment explanation
Indices: 46261246--46261311 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
46261236 TTTAAACCGA
46261246 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
46261259 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
*
46261272 ACTTTTCCATAA-C
1 ACTTTT-CAAAAGC
46261285 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
46261298 AGTTTTCAAAAGC
1 ACTTTTCAAAAGC
46261311 A
1 A
46261312 ATGAAGAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 4 0.09
13 36 0.82
14 4 0.09
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:46270081 original size:9 final size:9
Alignment explanation
Indices: 46270067--46270096 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46270057 TTTACTGTTG
46270067 TTTTTATTA
1 TTTTTATTA
46270076 TTTTTATTA
1 TTTTTATTA
46270085 -TTTTATTA
1 TTTTTATTA
46270093 TTTT
1 TTTT
46270097 CCTTATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATTA
Found at i:46270102 original size:17 final size:17
Alignment explanation
Indices: 46270068--46270103 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46270058 TTACTGTTGT
*
46270068 TTTTATTATTTTTATTA
1 TTTTATTATTTTCATTA
*
46270085 TTTTATTATTTTCCTTA
1 TTTTATTATTTTCATTA
46270102 TT
1 TT
46270104 GATTAAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTATTTTCATTA
Found at i:46274035 original size:65 final size:65
Alignment explanation
Indices: 46273916--46274043 Score: 157
Period size: 65 Copynumber: 2.0 Consensus size: 65
46273906 GTTCTTATCT
* * ** *
46273916 AGACAGCTATCAGGTGCGATGATAATTCTAAACATAATCTGGAATTAACCCATGCAGCGACATGC
1 AGACAGCTATCAGGTGCGATGACAATTCTAAACACAATCCAGAATGAACCCATGCAGCGACATGC
* ** ** *
46273981 AGACATCTATCAGGTGCGATGACAATTCTGGATGCAATCCAGAATGAACTCATGCAGCGACAT
1 AGACAGCTATCAGGTGCGATGACAATTCTAAACACAATCCAGAATGAACCCATGCAGCGACAT
46274044 TAATGCAATA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
65 52 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (65 bp):
AGACAGCTATCAGGTGCGATGACAATTCTAAACACAATCCAGAATGAACCCATGCAGCGACATGC
Found at i:46286113 original size:17 final size:17
Alignment explanation
Indices: 46286091--46286123 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
46286081 AACTAACATT
46286091 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
46286108 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
46286124 GTGCACTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:46291535 original size:54 final size:54
Alignment explanation
Indices: 46291437--46291647 Score: 223
Period size: 54 Copynumber: 3.9 Consensus size: 54
46291427 ATAATTTCGG
* * * * * *
46291437 AGGGTAAACTGACCGAAATA-TCCCGAAGGATAAAATCATCGAAATACCTTC-AA
1 AGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACC-CCGAA
* * * *
46291490 AGGGTAAAATAACCGAAATAACCCTGAAGGGTAAAATAACCGAAATACCCCTG-A
1 AGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCC-GAA
* * * *
46291544 AGGGTAAAATGATCGAAATACCCCCGAAAGGTAAAATGATCAAAATACCCCGGAA
1 AGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCC-GAA
* *
46291599 A-GGTAAAATGACCAAAATACCCCCGAAGGTTAAAATGACCGAAATACCC
1 AGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCC
46291648 TTCAACGATA
Statistics
Matches: 131, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
53 19 0.15
54 110 0.84
55 2 0.02
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (54 bp):
AGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCCGAA
Found at i:46291577 original size:81 final size:80
Alignment explanation
Indices: 46291398--46291647 Score: 252
Period size: 81 Copynumber: 3.1 Consensus size: 80
46291388 GTTATGACCA
* * * * ** * *
46291398 AAATATCCCCATAGGGTAATATGACCAAAATAATTTCGG-AGGGTAAACTGACCGAAATATCCCG
1 AAATACCCCCAAAGGGTAAAATAACCAAAATAA-CCCGGAAGGGTAAAATGACCGAAATACCCCG
*
46291462 AAGGATAAAATCATCG
65 AAGGATAAAATGATCG
** * * *
46291478 AAATACCTTCAAAGGGTAAAATAACCGAAATAACCCTGAAGGGTAAAATAACCGAAATACCCCTG
1 AAATACCCCCAAAGGGTAAAATAACCAAAATAACCCGGAAGGGTAAAATGACCGAAATACCCC-G
*
46291543 AAGGGTAAAATGATCG
65 AAGGATAAAATGATCG
* * * * *
46291559 AAATACCCCCGAAA-GGTAAAATGATCAAAATACCCCGGAAAGGTAAAATGACCAAAATACCCCC
1 AAATACCCCC-AAAGGGTAAAATAACCAAAATAACCCGGAAGGGTAAAATGACCGAAATA-CCCC
* *
46291623 GAAGGTTAAAATGACCG
64 GAAGGATAAAATGATCG
46291640 AAATACCC
1 AAATACCC
46291648 TTCAACGATA
Statistics
Matches: 139, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
79 2 0.01
80 47 0.34
81 83 0.60
82 7 0.05
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (80 bp):
AAATACCCCCAAAGGGTAAAATAACCAAAATAACCCGGAAGGGTAAAATGACCGAAATACCCCGA
AGGATAAAATGATCG
Found at i:46291659 original size:27 final size:26
Alignment explanation
Indices: 46291437--46291648 Score: 167
Period size: 27 Copynumber: 7.9 Consensus size: 26
46291427 ATAATTTCGG
* *
46291437 AGGGTAAACTGACCGAAATATCCC-GA
1 AGGGTAAAATGACCGAAATA-CCCTCA
* * * *
46291463 AGGATAAAATCATCGAAATACCTTCAA
1 AGGGTAAAATGACCGAAATACCCTC-A
* *
46291490 AGGGTAAAATAACCGAAATAACCCTGA
1 AGGGTAAAATGACCGAAAT-ACCCTCA
* *
46291517 AGGGTAAAATAACCGAAATACCCCTGA
1 AGGGTAAAATGACCGAAATA-CCCTCA
* *
46291544 AGGGTAAAATGATCGAAATACCCCCGA
1 AGGGTAAAATGACCGAAATACCCTC-A
* * *
46291571 AAGGTAAAATGATCAAAATACCC-CGGA
1 AGGGTAAAATGACCGAAATACCCTC--A
* * *
46291598 AAGGTAAAATGACCAAAATACCCCCGA
1 AGGGTAAAATGACCGAAATACCCTC-A
*
46291625 AGGTTAAAATGACCGAAATACCCT
1 AGGGTAAAATGACCGAAATACCCT
46291649 TCAACGATAA
Statistics
Matches: 157, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.01
26 21 0.13
27 129 0.82
28 5 0.03
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (26 bp):
AGGGTAAAATGACCGAAATACCCTCA
Found at i:46294222 original size:22 final size:22
Alignment explanation
Indices: 46294179--46294224 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
46294169 ACAATTTGTC
*
46294179 TTAATTTAGAACAAATATTCAA
1 TTAATTTAAAACAAATATTCAA
*
46294201 TTAATTTATAAACATATA-TCAA
1 TTAATTTA-AAACAAATATTCAA
46294223 TT
1 TT
46294225 CATAGAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (22 bp):
TTAATTTAAAACAAATATTCAA
Found at i:46295562 original size:14 final size:14
Alignment explanation
Indices: 46295543--46295569 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46295533 GTGATCCAAT
46295543 TGAACTGAACCGAG
1 TGAACTGAACCGAG
46295557 TGAACTGAACCGA
1 TGAACTGAACCGA
46295570 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:46309382 original size:17 final size:17
Alignment explanation
Indices: 46309344--46309382 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
46309334 TTTATTTTCC
*
46309344 ATTTTCAGTTTTTTTTT
1 ATTTTCAGTTTTTATTT
* *
46309361 GTTTTCGGTTTTTATTT
1 ATTTTCAGTTTTTATTT
46309378 ATTTT
1 ATTTT
46309383 GTTTTTGTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.10, C:0.05, G:0.10, T:0.74
Consensus pattern (17 bp):
ATTTTCAGTTTTTATTT
Found at i:46326015 original size:30 final size:30
Alignment explanation
Indices: 46325958--46326016 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
46325948 TTATCTCTGT
* *
46325958 CATCTGTCACTTGATGAATAGTAATATTAA
1 CATCTGTCACTCGATGAATAGCAATATTAA
*
46325988 CATCTGTCACTCGATGAATAGCCATATTA
1 CATCTGTCACTCGATGAATAGCAATATTA
46326017 CGTAATTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (30 bp):
CATCTGTCACTCGATGAATAGCAATATTAA
Found at i:46334680 original size:18 final size:18
Alignment explanation
Indices: 46334643--46334676 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46334633 AAATCACAAA
46334643 AATTAAAGAATAAATAAT
1 AATTAAAGAATAAATAAT
*
46334661 AATTAAATAA-AAATAA
1 AATTAAAGAATAAATAA
46334677 ATAAACCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AATTAAAGAATAAATAAT
Found at i:46338099 original size:21 final size:20
Alignment explanation
Indices: 46338050--46338095 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
46338040 GTTTTAATTG
*
46338050 AAAAGTAAGGATCTATTTGA
1 AAAAGGAAGGATCTATTTGA
46338070 AAAAGGAAGGATCTATTTGA
1 AAAAGGAAGGATCTATTTGA
46338090 AAAAGG
1 AAAAGG
46338096 GAAGAAACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.24
Consensus pattern (20 bp):
AAAAGGAAGGATCTATTTGA
Found at i:46340163 original size:20 final size:20
Alignment explanation
Indices: 46340138--46340180 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
46340128 TGCATTGAAA
46340138 AGATAGCGTGGTATGTTTGC
1 AGATAGCGTGGTATGTTTGC
46340158 AGATAGCGTGGTATGTTTGC
1 AGATAGCGTGGTATGTTTGC
46340178 AGA
1 AGA
46340181 GTGTGAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.35, T:0.33
Consensus pattern (20 bp):
AGATAGCGTGGTATGTTTGC
Found at i:46340440 original size:17 final size:17
Alignment explanation
Indices: 46340420--46340455 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46340410 GAACTATTAA
46340420 TTGGAATGAACTGTCAT
1 TTGGAATGAACTGTCAT
* *
46340437 TTGGTATGAACTGTTAT
1 TTGGAATGAACTGTCAT
46340454 TT
1 TT
46340456 CATATGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.44
Consensus pattern (17 bp):
TTGGAATGAACTGTCAT
Found at i:46340461 original size:17 final size:17
Alignment explanation
Indices: 46340425--46340463 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
46340415 ATTAATTGGA
**
46340425 ATGAACTGTCATTTGGT
1 ATGAACTGTCATTTCAT
*
46340442 ATGAACTGTTATTTCAT
1 ATGAACTGTCATTTCAT
46340459 ATGAA
1 ATGAA
46340464 AAGATGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (17 bp):
ATGAACTGTCATTTCAT
Found at i:46349018 original size:23 final size:22
Alignment explanation
Indices: 46348988--46349034 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
46348978 GTAGAGCGGT
*
46348988 GGTGGGG-AGGGGGAGAAGGGCAA
1 GGTGGGGAAGGAGGAG-AGGG-AA
46349011 GGTGGGGAAGGAGGAGAGGGAA
1 GGTGGGGAAGGAGGAGAGGGAA
46349033 GG
1 GG
46349035 GAAGGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
24 7 0.32
ACGTcount: A:0.28, C:0.02, G:0.66, T:0.04
Consensus pattern (22 bp):
GGTGGGGAAGGAGGAGAGGGAA
Found at i:46349221 original size:24 final size:23
Alignment explanation
Indices: 46349180--46349227 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
46349170 TCAACAATAT
**
46349180 TTTTATATATTTTTAAATATATTA
1 TTTTATATATTTGAAAATAT-TTA
*
46349204 TTTTATTTATTTGAAAATATTTA
1 TTTTATATATTTGAAAATATTTA
46349227 T
1 T
46349228 GCATTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTATATATTTGAAAATATTTA
Found at i:46349479 original size:29 final size:30
Alignment explanation
Indices: 46349446--46349506 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
46349436 GTAGTGTGGA
* *
46349446 TGCTTAAATTGCAAA-CTTTTTAT-TTTGAG
1 TGCTTAAAATG-AAATCTTTTTATAATTGAG
46349475 TGCTTAAAATGAAATCTTTTTATAATTGAG
1 TGCTTAAAATGAAATCTTTTTATAATTGAG
46349505 TG
1 TG
46349507 ACTATCAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 3 0.11
29 18 0.64
30 7 0.25
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (30 bp):
TGCTTAAAATGAAATCTTTTTATAATTGAG
Found at i:46353554 original size:20 final size:21
Alignment explanation
Indices: 46353524--46353576 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
46353514 AATCTTGGAT
*
46353524 GAAATTGAGAGAAGAA-AAAAA
1 GAAA-TGAGAGAAAAAGAAAAA
46353545 GAAATGAGAGAAAAAGAAAAA
1 GAAATGAGAGAAAAAGAAAAA
46353566 GAAAATGAGAG
1 G-AAATGAGAG
46353577 TGAGAGTGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 10 0.34
21 10 0.34
22 9 0.31
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.08
Consensus pattern (21 bp):
GAAATGAGAGAAAAAGAAAAA
Found at i:46353614 original size:39 final size:38
Alignment explanation
Indices: 46353551--46353634 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 38
46353541 AAAAGAAATG
46353551 AGAGAAAAAGAAAAAGAAAATGAGAGTGAGAGTGAGAAA
1 AGAGAAAAAGAAAAAGAAAATGAGAGTGAGAGTGA-AAA
** * *
46353590 A-AGAAAAAGAAAAAAGAATTTGAGATTGAGATTGAAAA
1 AGAGAAAAAG-AAAAAGAAAATGAGAGTGAGAGTGAAAA
46353628 AGAGAAA
1 AGAGAAA
46353635 GATGAAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 12 0.31
39 27 0.69
ACGTcount: A:0.62, C:0.00, G:0.26, T:0.12
Consensus pattern (38 bp):
AGAGAAAAAGAAAAAGAAAATGAGAGTGAGAGTGAAAA
Found at i:46353692 original size:12 final size:12
Alignment explanation
Indices: 46353675--46353714 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
46353665 AGTGAAAAGC
46353675 AAAAAGAGATTG
1 AAAAAGAGATTG
*
46353687 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
46353699 AAAGAGAGCTTG
1 AAAAAGAGATTG
46353711 AAAA
1 AAAA
46353715 GAAATCGAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.60, C:0.03, G:0.23, T:0.15
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:46356387 original size:157 final size:157
Alignment explanation
Indices: 46356180--46356493 Score: 592
Period size: 157 Copynumber: 2.0 Consensus size: 157
46356170 GGCATTTAAA
46356180 GGGAAGGTTTAATTCTTTGCTGCCGAATTTAATGCTGAATCAATTCATGATGCATGCACTTTGAC
1 GGGAAGGTTTAATTCTTTGCTGCCGAATTTAATGCTGAATCAATTCATGATGCATGCACTTTGAC
* *
46356245 TTGCATTGAAGAAGAGGCTGCTGATTCTCTCCACGTACCTTTTTCGTGGGGAATACATGAATTAA
66 TTGCATTGAAGAAGAGGCTACTGATTCTCTCCAAGTACCTTTTTCGTGGGGAATACATGAATTAA
*
46356310 AGGATGTGATAAGTTCTATTGGCTTTC
131 AGGATATGATAAGTTCTATTGGCTTTC
46356337 GGGAAGGTTTAATTCTTTGCTGCCGAATTTAATGCTGAATCAATTCATGATGCATGCACTTTGAC
1 GGGAAGGTTTAATTCTTTGCTGCCGAATTTAATGCTGAATCAATTCATGATGCATGCACTTTGAC
*
46356402 TTGCATTGAAGAAGAGGCTACTGATTCTCTCCAAGTACCTTTTTCGTGGGGAATACATGTATTAA
66 TTGCATTGAAGAAGAGGCTACTGATTCTCTCCAAGTACCTTTTTCGTGGGGAATACATGAATTAA
46356467 AGGATATGATAAGTTCTATTGGCTTTC
131 AGGATATGATAAGTTCTATTGGCTTTC
46356494 CAAGGCTTGG
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (157 bp):
GGGAAGGTTTAATTCTTTGCTGCCGAATTTAATGCTGAATCAATTCATGATGCATGCACTTTGAC
TTGCATTGAAGAAGAGGCTACTGATTCTCTCCAAGTACCTTTTTCGTGGGGAATACATGAATTAA
AGGATATGATAAGTTCTATTGGCTTTC
Found at i:46357549 original size:29 final size:29
Alignment explanation
Indices: 46357512--46357568 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
46357502 CACCTTGACA
* * *
46357512 CGAATTCTCAATGAACAAGTTCTTCATCG
1 CGAACTCTCAACGAACAAGTTCTCCATCG
46357541 CGAACTCTCAACGAACAAGTTCTCCATC
1 CGAACTCTCAACGAACAAGTTCTCCATC
46357569 TCTTCTATAA
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:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAGTTCTCCATCG
Found at i:46358946 original size:24 final size:24
Alignment explanation
Indices: 46358919--46358965 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
46358909 CCACTCCTGG
46358919 AATTTGGCTGTAACCCTTTGCAAA
1 AATTTGGCTGTAACCCTTTGCAAA
46358943 AATTTGGCTGTAACCCTTTGCAA
1 AATTTGGCTGTAACCCTTTGCAA
46358966 CAAGTCTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
AATTTGGCTGTAACCCTTTGCAAA
Found at i:46362213 original size:28 final size:28
Alignment explanation
Indices: 46362159--46362218 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
46362149 AACTCTCCAA
*
46362159 AATTTTAAAAAATAAAAATAATTTAAAT
1 AATTTTAAAAAATAAAAATAATATAAAT
*
46362187 AATTTTAAAATATATGAAAAAT-ATAAAAAT
1 AATTTTAAAA-A-AT-AAAAATAATATAAAT
46362217 AA
1 AA
46362219 AAAAAGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 10 0.37
29 1 0.04
30 10 0.37
31 6 0.22
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (28 bp):
AATTTTAAAAAATAAAAATAATATAAAT
Found at i:46363236 original size:33 final size:32
Alignment explanation
Indices: 46363199--46363293 Score: 86
Period size: 33 Copynumber: 2.9 Consensus size: 32
46363189 AAACTACTTT
*
46363199 ATATTTTATATATCATTATATTAAATTATTTGA
1 ATATTTTAT-TATCATTATATTAAATTATTTAA
* * * *
46363232 ATATTTCATGTATTATTAAATTAAATTAATTAA
1 ATATTTTAT-TATCATTATATTAAATTATTTAA
* *
46363265 ATATTATT-TT-TCATCATATTAATTTATTT
1 ATATT-TTATTATCATTATATTAAATTATTT
46363294 TAGATATCCT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
31 14 0.29
32 1 0.02
33 33 0.67
34 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (32 bp):
ATATTTTATTATCATTATATTAAATTATTTAA
Found at i:46365077 original size:79 final size:78
Alignment explanation
Indices: 46364791--46365227 Score: 457
Period size: 77 Copynumber: 5.5 Consensus size: 78
46364781 GGAAATTTAA
* * ** * * *
46364791 AGTAAAATAAAAATCATTTTGGGATTGATTCGTGCCATTCAATGATTTTATTCCAAATTTTTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAA---TTTGT
*
46364856 TTTATTTCCTAAAACG
63 TTTATTTCCAAAAACG
* * * * * * *
46364872 AGTAAAAT-AAAATCGTTCCGAGATCGATTCCTGTCGTTCAACGATTTTATTCTAAAATTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
46364936 ATTTCCAAAAACG
66 ATTTCCAAAAACG
* ** **
46364949 AGTAAAAT-AAAATTGTTTCGGGATAAATTCCCGCCGTTCAAAAATTTTATTCCAAATTTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
* *
46365013 ATTTCTAAAAACA
66 ATTTCCAAAAACG
*
46365026 AGTAAAATAAAAAATTGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
1 AGTAAAAT-AAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
*
46365091 TATTTCCAAAAATG
65 TATTTCCAAAAACG
* * * * * * *
46365105 AGAAAAATAAAAAAAATCCTTTCGAGATTGATTTCCGCTGTTCAACTATTTTATTTCAAATTTGT
1 AGTAAAAT---AAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGT
46365170 TTTATTTCCAAAAACG
63 TTTATTTCCAAAAACG
* * * * *
46365186 AGTAACAT-AAAATCCATTTCGAGATTGATTACCGCCATTCAA
1 AGTAAAATAAAAAT-CGTTTCGGGATTGATTCCCGCCGTTCAA
46365228 TAGATTTATT
Statistics
Matches: 303, Mismatches: 48, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
77 95 0.31
78 24 0.08
79 69 0.23
80 38 0.13
81 77 0.25
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (78 bp):
AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
ATTTCCAAAAACG
Found at i:46365368 original size:85 final size:85
Alignment explanation
Indices: 46365265--46365431 Score: 273
Period size: 85 Copynumber: 2.0 Consensus size: 85
46365255 CCAAAAATGA
* **
46365265 GAAATTAAATTAAATAAAATCTGTTTCGAA-ATTTATTCTCGTTGTTTAACAAGATTTTATTTGA
1 GAAATTAAATTAAATAAAATCTGTTTC-AAGATTTATTCCCGCAGTTTAACAAGATTTTATTTGA
*
46365329 TTTTATTTTGTTTCCAAATTC
65 TATTATTTTGTTTCCAAATTC
46365350 GAAATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCAGTTTAACAAGATTTTATTTGAT
1 GAAATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCAGTTTAACAAGATTTTATTTGAT
*
46365415 ATTGTTTTGTTTCCAAA
66 ATTATTTTGTTTCCAAA
46365432 CAAAGAAATA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
84 2 0.03
85 74 0.97
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (85 bp):
GAAATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCAGTTTAACAAGATTTTATTTGAT
ATTATTTTGTTTCCAAATTC
Found at i:46369225 original size:23 final size:24
Alignment explanation
Indices: 46369181--46369225 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
46369171 TCAATTTTCC
*
46369181 TTTATTTCAATTATTTATTTTGGT
1 TTTATTTCAATTATTCATTTTGGT
46369205 TTTATTT-AATT-TTCATATTTG
1 TTTATTTCAATTATTCAT-TTTG
46369226 ATAAATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 8 0.42
24 7 0.37
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (24 bp):
TTTATTTCAATTATTCATTTTGGT
Found at i:46383224 original size:12 final size:12
Alignment explanation
Indices: 46383209--46383234 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46383199 CAGTAGTGTT
46383209 TGCTATTCATTA
1 TGCTATTCATTA
46383221 TGCTATTCATTA
1 TGCTATTCATTA
46383233 TG
1 TG
46383235 TGTTGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (12 bp):
TGCTATTCATTA
Found at i:46393272 original size:146 final size:146
Alignment explanation
Indices: 46393070--46393372 Score: 570
Period size: 146 Copynumber: 2.1 Consensus size: 146
46393060 TTAAGATAAC
46393070 CAGTGTGACTAAGGCATCAATATATACATACATAAATATATCTTAGCATCCAATGTACTTTACCT
1 CAGTGTGACTAAGGCATCAATATATACATACATAAATATATCTTAGCATCCAATGTACTTTACCT
*
46393135 ATTAAAAATACTCTAATAGAATGAATATAAGTTGCAGCTTTTGAAAATTTACACTTCTCTTCATT
66 ATTAAAAATACTCTAATAGAATGAATATAAGTTGCAGCTTTTGAAAATTTACACTTATCTTCATT
46393200 AATTATCTCTGTATTG
131 AATTATCTCTGTATTG
46393216 CAGTGTGACTAAGGCATCAATATATACATACATAAATATATCTTAGCATCCAATGTACTTTACCT
1 CAGTGTGACTAAGGCATCAATATATACATACATAAATATATCTTAGCATCCAATGTACTTTACCT
46393281 ATTAAAAATACTCTAATAGAATGAATATAAGTTGCAGCTTTTGAAAATTTACACTTATCTTCATT
66 ATTAAAAATACTCTAATAGAATGAATATAAGTTGCAGCTTTTGAAAATTTACACTTATCTTCATT
*
46393346 AATTATCTTTGTATTG
131 AATTATCTCTGTATTG
* *
46393362 CATTGAGACTA
1 CAGTGTGACTA
46393373 GAGAGTGGTA
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
146 153 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (146 bp):
CAGTGTGACTAAGGCATCAATATATACATACATAAATATATCTTAGCATCCAATGTACTTTACCT
ATTAAAAATACTCTAATAGAATGAATATAAGTTGCAGCTTTTGAAAATTTACACTTATCTTCATT
AATTATCTCTGTATTG
Found at i:46401319 original size:18 final size:18
Alignment explanation
Indices: 46401298--46401336 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
46401288 GATTGAGAGT
* *
46401298 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
46401316 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
46401334 GAA
1 GAA
46401337 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:46402734 original size:6 final size:6
Alignment explanation
Indices: 46402723--46402748 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
46402713 AGTTGTAAAG
46402723 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
46402749 ATTTATTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:46407619 original size:47 final size:47
Alignment explanation
Indices: 46407550--46407645 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
46407540 CTTATGTTTA
46407550 AAGGTAGAAAATTCACTTTTGCTCCTTTAAATCCTACTGATGTATAT
1 AAGGTAGAAAATTCACTTTTGCTCCTTTAAATCCTACTGATGTATAT
46407597 AAGGTAGAAAATTCACTTTTGCTCCTTTAAATCCTACTGATGTATAT
1 AAGGTAGAAAATTCACTTTTGCTCCTTTAAATCCTACTGATGTATAT
46407644 AA
1 AA
46407646 AAATCAATTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (47 bp):
AAGGTAGAAAATTCACTTTTGCTCCTTTAAATCCTACTGATGTATAT
Found at i:46414145 original size:95 final size:95
Alignment explanation
Indices: 46413989--46414167 Score: 340
Period size: 95 Copynumber: 1.9 Consensus size: 95
46413979 ATGAGTCTGA
46413989 AGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTGTATGCATTAGTGATCTTTCTCTTCTC
1 AGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTGTATGCATTAGTGATCTTTCTCTTCTC
46414054 TAATTCCTCTATTATCAAAGATTAGTCTAG
66 TAATTCCTCTATTATCAAAGATTAGTCTAG
*
46414084 AGTAATATTCCAAATATAAGTACCTGATAAGCAAGAGTGTATGCATTAGTGATCTTTCTCTTCTC
1 AGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTGTATGCATTAGTGATCTTTCTCTTCTC
*
46414149 TAATTCCTGTATTATCAAA
66 TAATTCCTCTATTATCAAA
46414168 TCCACACATT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (95 bp):
AGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTGTATGCATTAGTGATCTTTCTCTTCTC
TAATTCCTCTATTATCAAAGATTAGTCTAG
Found at i:46420528 original size:103 final size:98
Alignment explanation
Indices: 46420386--46420597 Score: 230
Period size: 98 Copynumber: 2.1 Consensus size: 98
46420376 ACGAAAAACG
* *
46420386 AAAA-AAAAA-TTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTACAATTTTTTTAAAAAAA
1 AAAATAAAAATTTTTGGGTGCTGACCTGTCAATGGACGGCACCCAGTACAA----CTTAAAAAAA
* * * * *
46420449 ATTTGTGTTAGAGTCAGATATCAGTATATGAAAAAATA
62 A-TCGTGTCAGAATCAGATATCAATATACGAAAAAATA
* ** * *
46420487 AAAATAAAAATTTTTGGGTGTTGGTCTGTCAATGGATGGCACCTAGTACAACTTAAAAAAAATCG
1 AAAATAAAAATTTTTGGGTGCTGACCTGTCAATGGACGGCACCCAGTACAACTTAAAAAAAATCG
*
46420552 TGTCAGAATCATATATCAATATACGAAAAAATA
66 TGTCAGAATCAGATATCAATATACGAAAAAATA
*
46420585 ATAATAATAAATT
1 AAAATAA-AAATT
46420598 CGTAAACTGA
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
98 36 0.38
99 15 0.16
101 4 0.04
102 5 0.05
103 34 0.36
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (98 bp):
AAAATAAAAATTTTTGGGTGCTGACCTGTCAATGGACGGCACCCAGTACAACTTAAAAAAAATCG
TGTCAGAATCAGATATCAATATACGAAAAAATA
Found at i:46421104 original size:15 final size:17
Alignment explanation
Indices: 46421080--46421116 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
46421070 GCTAAATTCA
46421080 AAAAATGAAA-AATTAT
1 AAAAATGAAATAATTAT
*
46421096 AAAAA-GAAATTATTAT
1 AAAAATGAAATAATTAT
46421112 AAAAA
1 AAAAA
46421117 CTAACAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAAATGAAATAATTAT
Found at i:46424004 original size:45 final size:45
Alignment explanation
Indices: 46423948--46424043 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
46423938 TACTATGTGA
* * * * *
46423948 ACCGAACATCATTGATTAGTAAGGTGGTTGTTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
*
46423993 ACCGGACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
46424038 ACCGAA
1 ACCGAA
46424044 TATCTGTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
Found at i:46424112 original size:23 final size:22
Alignment explanation
Indices: 46424086--46424129 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
46424076 AATTGACTAA
46424086 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
46424109 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
46424130 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:46431225 original size:3 final size:3
Alignment explanation
Indices: 46431217--46431242 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46431207 ATTCGATCTT
46431217 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
46431243 TTAAAAGATT
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:46432012 original size:10 final size:10
Alignment explanation
Indices: 46431960--46432016 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
46431950 TGTGTAAAAT
*
46431960 AAATAAATAT
1 AAATAAATAA
*
46431970 AAATAGACATGA
1 AAATA-A-ATAA
46431982 AAATAAATAA
1 AAATAAATAA
*
46431992 AAACGAAATAA
1 AAA-TAAATAA
*
46432003 AAATACATAA
1 AAATAAATAA
46432013 AAAT
1 AAAT
46432017 TATACAAGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 20 0.53
11 11 0.29
12 7 0.18
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.19
Consensus pattern (10 bp):
AAATAAATAA
Found at i:46432599 original size:20 final size:20
Alignment explanation
Indices: 46432558--46432627 Score: 74
Period size: 19 Copynumber: 3.5 Consensus size: 20
46432548 AAGTTCTTTC
46432558 TTTTTAGAAAAATCA--AAGTT
1 TTTTTA-AAAAATCATTAA-TT
46432578 TTTTTAAAAAATCATTAATT
1 TTTTTAAAAAATCATTAATT
* *
46432598 TTCTT-AAAAATCATTACTT
1 TTTTTAAAAAATCATTAATT
46432617 TTTCTTAAAAA
1 TTT-TTAAAAA
46432628 TTAAAACCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 23 0.53
20 14 0.33
21 6 0.14
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTTTAAAAAATCATTAATT
Found at i:46432628 original size:20 final size:19
Alignment explanation
Indices: 46432584--46432628 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
46432574 AGTTTTTTTA
46432584 AAAAATCATTAATTTTCTT
1 AAAAATCATTAATTTTCTT
*
46432603 AAAAATCATTACTTTTTCTT
1 AAAAATCATTA-ATTTTCTT
46432623 AAAAAT
1 AAAAAT
46432629 TAAAACCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAAATCATTAATTTTCTT
Found at i:46432827 original size:20 final size:20
Alignment explanation
Indices: 46432802--46432846 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
46432792 AATAGTTGAA
*
46432802 AAAATTCAAAACTTTATTTT
1 AAAATTCAAAACTTTACTTT
** *
46432822 AAAATTTTAAACTTTCCTTT
1 AAAATTCAAAACTTTACTTT
46432842 AAAAT
1 AAAAT
46432847 GACTAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATTCAAAACTTTACTTT
Found at i:46433159 original size:5 final size:5
Alignment explanation
Indices: 46433149--46433174 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
46433139 CTTCTCCTTT
46433149 TTTCA TTTCA TTTCA TTTCA TTTCA T
1 TTTCA TTTCA TTTCA TTTCA TTTCA T
46433175 GTTTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTCA
Found at i:46433251 original size:3 final size:3
Alignment explanation
Indices: 46433245--46433281 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
46433235 CTGCTACTAC
46433245 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
46433282 GATGATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:46433666 original size:16 final size:16
Alignment explanation
Indices: 46433645--46433675 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
46433635 TAGGCCTCTA
46433645 AATGCAATGAAAAGTC
1 AATGCAATGAAAAGTC
46433661 AATGCAATGAAAAGT
1 AATGCAATGAAAAGT
46433676 AAACTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (16 bp):
AATGCAATGAAAAGTC
Found at i:46433741 original size:42 final size:42
Alignment explanation
Indices: 46433682--46434019 Score: 405
Period size: 42 Copynumber: 8.1 Consensus size: 42
46433672 AAGTAAACTA
* * *
46433682 GAAAAGT-AAACGGACCTCTACACTTGGGTTTCTAAATGCAAT
1 GAAAAGTGAAA-GGACCTCCACACCTGGGTCTCTAAATGCAAT
* * * *
46433724 GAAAAGTCAAAGAACCTCCGCACCTGGGTCTCTAACTGCAAT
1 GAAAAGTGAAAGGACCTCCACACCTGGGTCTCTAAATGCAAT
* *
46433766 GAAAAGTG-AATGACCTCCACACCTGGGTCTCTAGATGCAAT
1 GAAAAGTGAAAGGACCTCCACACCTGGGTCTCTAAATGCAAT
* * * *
46433807 GAAAAGTGAATGGACCTCCACACCTAGGTTTCTAAATGTAAT
1 GAAAAGTGAAAGGACCTCCACACCTGGGTCTCTAAATGCAAT
* *
46433849 GAAAAGTGAATA-GACCTCTACACCTGGGTCTCTAGATGCAAT
1 GAAAAGTGAA-AGGACCTCCACACCTGGGTCTCTAAATGCAAT
* * * * * *
46433891 GAAAAGTGAATGGACTTCCAGAACTGGGTTTCTAAATGCAAC
1 GAAAAGTGAAAGGACCTCCACACCTGGGTCTCTAAATGCAAT
* * *
46433933 GAAAAGTGAATGGACCTCCACACCTGGGTCTTTGAATGCAAT
1 GAAAAGTGAAAGGACCTCCACACCTGGGTCTCTAAATGCAAT
46433975 GAAAAGT-AAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
1 GAAAAGTGAAA-GGACCTCCACACCTGGGTCTCTAAATGCAAT
46434017 GAA
1 GAA
46434020 TGTTTTCCTT
Statistics
Matches: 249, Mismatches: 42, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
41 38 0.15
42 208 0.84
43 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (42 bp):
GAAAAGTGAAAGGACCTCCACACCTGGGTCTCTAAATGCAAT
Found at i:46433980 original size:126 final size:124
Alignment explanation
Indices: 46433682--46434019 Score: 446
Period size: 126 Copynumber: 2.7 Consensus size: 124
46433672 AAGTAAACTA
* * * * * *
46433682 GAAAAGTAAACGGACCTCTACACTTGGGTTTCTAAATGCAATGAAAAGTCAA-AGAACCTCCGCA
1 GAAAAGTGAATGGACCTCCACACCTGGGTTTCTAAATGCAATGAAAAGTAAATAG-ACCTCCACA
* * *
46433746 CCTGGGTCTCTAACTGCAATGAAAAGTGAATGACCTCCACACCTGGGTCTCTAGATGCAAT
65 CCTGGGTCTCTAA-TGCAATGAAAAGTGAATGACCTCCACAACTGGGTCTCTAAATGCAAC
* * * *
46433807 GAAAAGTGAATGGACCTCCACACCTAGGTTTCTAAATGTAATGAAAAGTGAATAGACCTCTACAC
1 GAAAAGTGAATGGACCTCCACACCTGGGTTTCTAAATGCAATGAAAAGTAAATAGACCTCCACAC
* * *
46433872 CTGGGTCTCTAGATGCAATGAAAAGTGAATGGACTTCCAGAACTGGGTTTCTAAATGCAAC
66 CTGGGTCTCTA-ATGCAATGAAAAGTGAAT-GACCTCCACAACTGGGTCTCTAAATGCAAC
* *
46433933 GAAAAGTGAATGGACCTCCACACCTGGGTCTT-TGAATGCAATGAAAAGTAAATGGACCTCCACA
1 GAAAAGTGAATGGACCTCCACACCTGGGT-TTCTAAATGCAATGAAAAGTAAATAGACCTCCACA
46433997 CCTGGGTCTCTAAATGCAATGAA
65 CCTGGGTCTCT-AATGCAATGAA
46434020 TGTTTTCCTT
Statistics
Matches: 187, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
125 81 0.43
126 103 0.55
127 3 0.02
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (124 bp):
GAAAAGTGAATGGACCTCCACACCTGGGTTTCTAAATGCAATGAAAAGTAAATAGACCTCCACAC
CTGGGTCTCTAATGCAATGAAAAGTGAATGACCTCCACAACTGGGTCTCTAAATGCAAC
Found at i:46438177 original size:33 final size:33
Alignment explanation
Indices: 46438135--46438200 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
46438125 ATGGATTGAT
46438135 TTTAGGGAATATTGTTTGCACTAAAGAGATCAC
1 TTTAGGGAATATTGTTTGCACTAAAGAGATCAC
* * *
46438168 TTTAGGGAATATTGTTTGCGCTGAAGGGATCAC
1 TTTAGGGAATATTGTTTGCACTAAAGAGATCAC
46438201 GGTCGATAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (33 bp):
TTTAGGGAATATTGTTTGCACTAAAGAGATCAC
Found at i:46438672 original size:17 final size:17
Alignment explanation
Indices: 46438650--46438684 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
46438640 ACTTATTAGG
46438650 TTGATTCGATGGATTCT
1 TTGATTCGATGGATTCT
46438667 TTGATTCGATGGATTCT
1 TTGATTCGATGGATTCT
46438684 T
1 T
46438685 CTATTACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.23, T:0.49
Consensus pattern (17 bp):
TTGATTCGATGGATTCT
Found at i:46441740 original size:23 final size:23
Alignment explanation
Indices: 46441714--46441765 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
46441704 TGATTTTTAA
* *
46441714 ATTTTGAATTATTTAATGATAGT
1 ATTTAGAATTATTTAATGATAAT
*
46441737 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAT
46441760 ATTTAG
1 ATTTAG
46441766 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAT
Found at i:46443959 original size:16 final size:16
Alignment explanation
Indices: 46443938--46443973 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
46443928 TTTGGTTCGC
46443938 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
46443954 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
46443970 TGTA
1 TGTA
46443974 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:46444194 original size:26 final size:26
Alignment explanation
Indices: 46444169--46444223 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
46444159 ATTATCAATA
46444169 ATAAATATT-TT-AATCATATTTAAAT
1 ATAAATATTATTAAAT-ATATTTAAAT
* *
46444194 ATAATTATTATTAAATATATTTTAAT
1 ATAAATATTATTAAATATATTTAAAT
46444220 -TAAA
1 ATAAA
46444224 ATATATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 11 0.44
26 11 0.44
27 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
ATAAATATTATTAAATATATTTAAAT
Found at i:46444230 original size:18 final size:17
Alignment explanation
Indices: 46444208--46444242 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46444198 TTATTATTAA
*
46444208 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46444226 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46444243 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:46444300 original size:16 final size:16
Alignment explanation
Indices: 46444279--46444313 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
46444269 TGGTAAATTA
46444279 TTAAATATTGTTATTG
1 TTAAATATTGTTATTG
46444295 TTAAATATTGTTATTG
1 TTAAATATTGTTATTG
46444311 TTA
1 TTA
46444314 TTTAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (16 bp):
TTAAATATTGTTATTG
Found at i:46444300 original size:24 final size:24
Alignment explanation
Indices: 46444259--46444337 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 24
46444249 TAATGAGCAG
*
46444259 AAAT-TTGTT-TTGGTAAATTATT
1 AAATATTGTTATTGTTAAATTATT
46444281 AAATATTGTTATTGTTAAA-TATT
1 AAATATTGTTATTGTTAAATTATT
** *
46444304 -GTTATTGTTA-T-TTAATATATAAT
1 AAATATTGTTATTGTTAA-AT-TATT
46444327 AAATATTGTTA
1 AAATATTGTTA
46444338 ATAATTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 4 0.09
21 2 0.04
22 12 0.27
23 12 0.27
24 15 0.33
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (24 bp):
AAATATTGTTATTGTTAAATTATT
Found at i:46444485 original size:16 final size:16
Alignment explanation
Indices: 46444448--46444489 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46444438 TTAATCATAT
*
46444448 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
46444464 TT-AAATATATTATAA
1 TTAAAATATATTATAA
46444479 TTAAAATATAT
1 TTAAAATATAT
46444490 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:46444496 original size:14 final size:15
Alignment explanation
Indices: 46444457--46444498 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46444447 TTTAAACATA
*
46444457 ATTATTATTAAATAT
1 ATTATAATTAAATAT
46444472 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
46444486 A-TATAATTTAATA
1 ATTATAATTAAATA
46444499 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:46444583 original size:120 final size:121
Alignment explanation
Indices: 46444446--46444743 Score: 505
Period size: 120 Copynumber: 2.5 Consensus size: 121
46444436 ATTTAATCAT
*
46444446 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
46444511 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
46444568 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
46444631 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* * *
46444687 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
46444744 TAAAATAATT
Statistics
Matches: 169, Mismatches: 4, Indels: 8
0.93 0.02 0.04
Matches are distributed among these distances:
119 7 0.04
120 157 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Done.