Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 143 of 208
Found at i:46616800 original size:27 final size:28
Alignment explanation
Indices: 46616770--46616841 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 28
46616760 GACTATTGTT
*
46616770 TTGGGCTAAGGCCC-CACTGTTACTGTA
1 TTGGGCTAAGGCCCACACTGCTACTGTA
*
46616797 TTGGGCTATGGCCCATACACTGCTACTGTA
1 TTGGGCTAAGGCCC--ACACTGCTACTGTA
* *
46616827 TAGGGCTCAGGCCCA
1 TTGGGCTAAGGCCCA
46616842 GATTGATTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 13 0.35
28 1 0.03
30 23 0.62
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (28 bp):
TTGGGCTAAGGCCCACACTGCTACTGTA
Found at i:46624144 original size:11 final size:11
Alignment explanation
Indices: 46624106--46624144 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
46624096 TGAGAATGAA
*
46624106 TGAGGAATGCT
1 TGAGGGATGCT
*
46624117 TGAGGGAAGCT
1 TGAGGGATGCT
46624128 TGAGGGATGCT
1 TGAGGGATGCT
46624139 TGAGGG
1 TGAGGG
46624145 TTGATTAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.23, C:0.08, G:0.46, T:0.23
Consensus pattern (11 bp):
TGAGGGATGCT
Found at i:46634776 original size:11 final size:11
Alignment explanation
Indices: 46634747--46634785 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
46634737 AATGATGAGA
* *
46634747 ATGAATGAGGA
1 ATGATTGAGGG
46634758 ATGATTGAGGG
1 ATGATTGAGGG
*
46634769 ATGCTTGAGGG
1 ATGATTGAGGG
46634780 ATGATT
1 ATGATT
46634786 AATGAAGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.31, C:0.03, G:0.38, T:0.28
Consensus pattern (11 bp):
ATGATTGAGGG
Found at i:46645468 original size:23 final size:23
Alignment explanation
Indices: 46645438--46645542 Score: 122
Period size: 23 Copynumber: 4.6 Consensus size: 23
46645428 CGATAAGATC
**
46645438 TATTCTGTGATGCCTTTGTGGTG
1 TATTCTGTGATGCCTTTGTGGCA
* *
46645461 TATTCTGTGATGCCTTTGTGACT
1 TATTCTGTGATGCCTTTGTGGCA
* * *
46645484 TATTCTATGATTCCTTCGTGGCA
1 TATTCTGTGATGCCTTTGTGGCA
*
46645507 TATT-TGTGATGCCTTTGTAGCA
1 TATTCTGTGATGCCTTTGTGGCA
*
46645529 TATTCTGTAATGCC
1 TATTCTGTGATGCC
46645543 CTCGAGGAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
22 18 0.26
23 50 0.74
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (23 bp):
TATTCTGTGATGCCTTTGTGGCA
Found at i:46649265 original size:16 final size:16
Alignment explanation
Indices: 46649244--46649281 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
46649234 AGTAGGTAAG
46649244 CCAAAGGGCTTACAAA
1 CCAAAGGGCTTACAAA
46649260 CCAAAGGGCTTACAAA
1 CCAAAGGGCTTACAAA
*
46649276 CTAAAG
1 CCAAAG
46649282 TTGGTGGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.24, G:0.18, T:0.13
Consensus pattern (16 bp):
CCAAAGGGCTTACAAA
Found at i:46650962 original size:84 final size:82
Alignment explanation
Indices: 46650771--46650971 Score: 251
Period size: 83 Copynumber: 2.4 Consensus size: 82
46650761 CAAGTTGGAT
* * * *
46650771 AGCTTTAAGGTTGAATTGAAAATAAGAGAGTCGATTAACTTGAAATTTTTACCCTTTAAAGAGGA
1 AGCTTTAAGGTTG-ATTGAAACTAAGAGAGTCAATTAAATGGAAATTTTTACCCTTTAAAGAGGA
* * *
46650836 ACTGAAGTTATGATTTAG
65 ACTCAAGTTATCAATTAG
* * * *
46650854 AGTTTTAAGGTTGCATTGAAACTAAAAGAGTCAATTAAATGGAAATTTAATTATCCTTTAATGAG
1 AGCTTTAAGGTTG-ATTGAAACTAAGAGAGTCAATTAAATGGAAATTT--TTACCCTTTAAAGAG
46650919 GAACTCAAGTTA-CAATTAG
63 GAACTCAAGTTATCAATTAG
46650938 AGCTTTAAGGTTGATTTGAAACTAAGAGAGTCAA
1 AGCTTTAAGGTTGA-TTGAAACTAAGAGAGTCAA
46650972 ATTGAAAATT
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
83 42 0.42
84 35 0.35
85 24 0.24
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (82 bp):
AGCTTTAAGGTTGATTGAAACTAAGAGAGTCAATTAAATGGAAATTTTTACCCTTTAAAGAGGAA
CTCAAGTTATCAATTAG
Found at i:46651141 original size:82 final size:83
Alignment explanation
Indices: 46651040--46651215 Score: 239
Period size: 82 Copynumber: 2.1 Consensus size: 83
46651030 CTTAAAGAGT
46651040 GAAGTTAGAATTTAGAGCTTTAAGGTGGAATTGAAACTAAAAGAGTCAATTA-AGTTGAAAATTT
1 GAAGTTAGAATTTAGAGCTTTAAGGTGGAATTGAAACTAAAAGAGTCAATTACA-TTGAAAATTT
*
46651104 TA-CCTTTAATGAGGAACC
65 TATCCTATAATGAGGAACC
* * * * * * *
46651122 GAAGTTAGAATTTAGAGCTTTAAGGTTGAATTGAAACTTAAATATTGAATTACATTTAAAGTTTT
1 GAAGTTAGAATTTAGAGCTTTAAGGTGGAATTGAAACTAAAAGAGTCAATTACATTGAAAATTTT
*
46651187 ATCCTATAATGAGGAACT
66 ATCCTATAATGAGGAACC
*
46651205 GAAGCTAGAAT
1 GAAGTTAGAAT
46651216 GAAGTTTCAA
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
82 57 0.70
83 25 0.30
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (83 bp):
GAAGTTAGAATTTAGAGCTTTAAGGTGGAATTGAAACTAAAAGAGTCAATTACATTGAAAATTTT
ATCCTATAATGAGGAACC
Found at i:46664128 original size:28 final size:27
Alignment explanation
Indices: 46664089--46664142 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
46664079 ACGATAAATA
46664089 TAAAACAGAGATAGTCCGTTGGGACAG
1 TAAAACAGAGATAGTCCGTTGGGACAG
*
46664116 TAAACACAGAGATAGTCTGTTGGGACA
1 TAAA-ACAGAGATAGTCCGTTGGGACA
46664143 ATAACACGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (27 bp):
TAAAACAGAGATAGTCCGTTGGGACAG
Found at i:46666051 original size:58 final size:58
Alignment explanation
Indices: 46665955--46666134 Score: 242
Period size: 57 Copynumber: 3.1 Consensus size: 58
46665945 ATAGAAAAGG
* *
46665955 TGAAAATGGATAAATGAAAATTTATTTGGAAATGATTATGGTTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAAAA--CATTTGGAAATGATTATGGTTTTTCTCCAAAATGAAAA
* * *
46666015 TGAAAACGGAGAAATGAAAACATTTGAAAATGATTAT--TATTTCTTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAAAACATTTGGAAATGATTATGGTTTTTC-TCCAAAATGAAAA
*
46666072 TGAAAATGGAGAAATGAAAACATTTGGAAATGAATT-TGG-TTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAATGAAAACATTTGGAAATG-ATTATGGTTTTTCTCCAAAATGAAAA
46666129 TGAAAA
1 TGAAAA
46666135 AGATTTGAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
56 5 0.05
57 62 0.58
58 22 0.21
60 18 0.17
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAAAACATTTGGAAATGATTATGGTTTTTCTCCAAAATGAAAA
Found at i:46672895 original size:27 final size:27
Alignment explanation
Indices: 46672857--46673101 Score: 298
Period size: 27 Copynumber: 9.1 Consensus size: 27
46672847 TGGGCCTAAT
*
46672857 ATGACTGAAATACACTCGAAGGGTAAA
1 ATGACTGAAATACCCTCGAAGGGTAAA
46672884 ATGACTGAAATACCCTCGAAGGGTAAA
1 ATGACTGAAATACCCTCGAAGGGTAAA
*
46672911 ATGATTGAAATACCCTCGAAGGGTAAA
1 ATGACTGAAATACCCTCGAAGGGTAAA
*
46672938 ATGACCGAAATACCCTCGAAGGGTAAA
1 ATGACTGAAATACCCTCGAAGGGTAAA
* *
46672965 ATGA-TCGAAATACCTTCAAAGGGTAAA
1 ATGACT-GAAATACCCTCGAAGGGTAAA
** * *
46672992 ATGACCAAAAGACCCTCGAAGGGTAGA
1 ATGACTGAAATACCCTCGAAGGGTAAA
*
46673019 ATGACTGAAATACCC-CTGAAAGG-AAA
1 ATGACTGAAATACCCTC-GAAGGGTAAA
* *
46673045 ATTGACTGAAATACCCTCGAATGATAAA
1 A-TGACTGAAATACCCTCGAAGGGTAAA
** * *
46673073 ATGACCAAAATACCCCCAAAGGGTAAA
1 ATGACTGAAATACCCTCGAAGGGTAAA
46673100 AT
1 AT
46673102 AATTGTTATA
Statistics
Matches: 186, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 4 0.02
27 177 0.95
28 5 0.03
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
ATGACTGAAATACCCTCGAAGGGTAAA
Found at i:46674316 original size:17 final size:18
Alignment explanation
Indices: 46674294--46674336 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
46674284 CCTAAATTAG
*
46674294 AGAAAACT-GAGACTGTA
1 AGAAAACTGGAAACTGTA
46674311 AGAAAACTGGAAACTGTA
1 AGAAAACTGGAAACTGTA
*
46674329 AGGAAACT
1 AGAAAACT
46674337 CTTGAATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.49, C:0.12, G:0.23, T:0.16
Consensus pattern (18 bp):
AGAAAACTGGAAACTGTA
Found at i:46679820 original size:13 final size:13
Alignment explanation
Indices: 46679802--46679844 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
46679792 TCCAGCAACT
46679802 ATGAATTTATTTC
1 ATGAATTTATTTC
46679815 ATGAATTTATTTC
1 ATGAATTTATTTC
*
46679828 ATGAATTTATTTG
1 ATGAATTTATTTC
46679841 ATGA
1 ATGA
46679845 TGATCCAAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:46680001 original size:50 final size:50
Alignment explanation
Indices: 46679939--46680131 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
46679929 ATTTGGGTAA
46679939 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATG
* * * * *
46679989 AGAGGTCCCATGTAAGACTATGTCTGGGACATGACGTTGGCAGCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATG
** * * * *
46680039 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATG
** *
46680089 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGACA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACA
46680132 TGTTACTATC
Statistics
Matches: 121, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 88 0.73
51 33 0.27
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATG
Found at i:46682490 original size:27 final size:27
Alignment explanation
Indices: 46682253--46682482 Score: 309
Period size: 27 Copynumber: 8.5 Consensus size: 27
46682243 GCCGTAATGG
46682253 GGGTAAAATGA-TCGAAATACCCTCGAA
1 GGGTAAAATGACT-GAAATACCCTCGAA
* *
46682280 GGGTAAAATGATTGAAATACACTCGAA
1 GGGTAAAATGACTGAAATACCCTCGAA
* *
46682307 GGGTAAAATGGCTGAAATGCCCTCGAA
1 GGGTAAAATGACTGAAATACCCTCGAA
* **
46682334 GCGTAAAATGACCAAAATACCCTCGAA
1 GGGTAAAATGACTGAAATACCCTCGAA
** *
46682361 GGGTAAAATGACCAAAATACCCTCAAA
1 GGGTAAAATGACTGAAATACCCTCGAA
*
46682388 GGGTAAAATGACCGAAATACCCTCGAA
1 GGGTAAAATGACTGAAATACCCTCGAA
*
46682415 GGATAAAATGACTGAAATACCCTCGAA
1 GGGTAAAATGACTGAAATACCCTCGAA
* * *
46682442 TGGTAAAATGACTAAAATACCCTCAAA
1 GGGTAAAATGACTGAAATACCCTCGAA
46682469 GGGTAAAATGACTG
1 GGGTAAAATGACTG
46682483 TTATACCCCT
Statistics
Matches: 180, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
27 179 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
GGGTAAAATGACTGAAATACCCTCGAA
Found at i:46682790 original size:28 final size:28
Alignment explanation
Indices: 46682748--46682858 Score: 177
Period size: 28 Copynumber: 3.9 Consensus size: 28
46682738 CATTGCACTA
*
46682748 TTACTGTATTAGGCTAAGGCCCACAATG
1 TTACTGTATTGGGCTAAGGCCCACAATG
46682776 TTACTGTATTGGGCTAAGGCCCACAATG
1 TTACTGTATTGGGCTAAGGCCCACAATG
*
46682804 TTACTGTATTGGGCTAAGGCCCACACACTA
1 TTACTGTATTGGGCTAAGGCCCACA-A-TG
*
46682834 TTACTGTAATGGGCTAAGGCCCACA
1 TTACTGTATTGGGCTAAGGCCCACA
46682859 CAGTACTGCT
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
28 52 0.67
29 1 0.01
30 25 0.32
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACAATG
Found at i:46682872 original size:58 final size:56
Alignment explanation
Indices: 46682748--46682858 Score: 177
Period size: 58 Copynumber: 1.9 Consensus size: 56
46682738 CATTGCACTA
* * *
46682748 TTACTGTATTAGGCTAAGGCCCACAATGTTACTGTATTGGGCTAAGGCCCACAATG
1 TTACTGTATTGGGCTAAGGCCCACAATATTACTGTAATGGGCTAAGGCCCACAATG
46682804 TTACTGTATTGGGCTAAGGCCCACACACTATTACTGTAATGGGCTAAGGCCCACA
1 TTACTGTATTGGGCTAAGGCCCACA-A-TATTACTGTAATGGGCTAAGGCCCACA
46682859 CAGTACTGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 24 0.48
57 1 0.02
58 25 0.50
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (56 bp):
TTACTGTATTGGGCTAAGGCCCACAATATTACTGTAATGGGCTAAGGCCCACAATG
Found at i:46683215 original size:30 final size:32
Alignment explanation
Indices: 46683141--46683203 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
46683131 GGTTTTTCCT
* *
46683141 TGAATATTTGAAACTGGTAGATTAGGAGATGA
1 TGAATATTTTAAACTGCTAGATTAGGAGATGA
46683173 TGAATATTTTAAACTGCTAGATTAGGAGATG
1 TGAATATTTTAAACTGCTAGATTAGGAGATG
46683204 TCGAATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (32 bp):
TGAATATTTTAAACTGCTAGATTAGGAGATGA
Found at i:46696875 original size:15 final size:15
Alignment explanation
Indices: 46696852--46696881 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46696842 GATTTCTTGT
*
46696852 TTTTTATTTATTTAC
1 TTTTCATTTATTTAC
46696867 TTTTCATTTATTTAC
1 TTTTCATTTATTTAC
46696882 CTATCTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCATTTATTTAC
Found at i:46698842 original size:73 final size:73
Alignment explanation
Indices: 46698705--46698842 Score: 177
Period size: 73 Copynumber: 1.9 Consensus size: 73
46698695 ACACCAGGTC
* * **
46698705 CTGTGTCACTACATCGAGGGCAGTATGCTCCATCTTTAGGGCATATACAAAGGTGTGTCTCGACA
1 CTGTGTCACGACACCGAGGGCAGTATGCTCCATCTTTAGGGCATATACAAAGGTGTGTAGCGACA
46698770 TCCTCAAG
66 TCCTCAAG
* * ** * * *
46698778 CTGTGTCACGACACCGAGGGTAGTATGCTCCATGTTTAGGGTGTCTTCAAGGGTGTGTAGCGACA
1 CTGTGTCACGACACCGAGGGCAGTATGCTCCATCTTTAGGGCATATACAAAGGTGTGTAGCGACA
46698843 CCGAAGGCAG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
73 54 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (73 bp):
CTGTGTCACGACACCGAGGGCAGTATGCTCCATCTTTAGGGCATATACAAAGGTGTGTAGCGACA
TCCTCAAG
Found at i:46703134 original size:16 final size:16
Alignment explanation
Indices: 46703110--46703142 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46703100 TGTATTGGGT
*
46703110 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
46703126 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
46703142 T
1 T
46703143 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:46703187 original size:45 final size:44
Alignment explanation
Indices: 46703121--46703215 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
46703111 GGATTAGAGG
* *
46703121 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
46703166 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
46703210 TGTAAT
1 TGTAAT
46703216 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:46703398 original size:18 final size:17
Alignment explanation
Indices: 46703377--46703411 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46703367 TTATTATTTA
*
46703377 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46703395 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46703412 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:46703405 original size:28 final size:27
Alignment explanation
Indices: 46703335--46703407 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
46703325 TTTATTATCA
*
46703335 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
46703363 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
46703390 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
46703408 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:46703539 original size:16 final size:17
Alignment explanation
Indices: 46703513--46703554 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
46703503 AAACATAATT
46703513 ATTATAAATATAT-TTTA
1 ATTA-AAATATATATTTA
46703530 ATTAAAATATATAATTTA
1 ATTAAAATATAT-ATTTA
46703548 A-TAAAAT
1 ATTAAAAT
46703555 TCTTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 10 0.43
18 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAAAATATATATTTA
Found at i:46703547 original size:18 final size:17
Alignment explanation
Indices: 46703520--46703554 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46703510 ATTATTATAA
*
46703520 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46703538 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46703555 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:46703560 original size:143 final size:147
Alignment explanation
Indices: 46703296--46703566 Score: 478
Period size: 143 Copynumber: 1.9 Consensus size: 147
46703286 ATGATTATTG
46703296 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
46703361 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
46703426 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
46703445 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
46703507 ATAATTATTA-TAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
46703567 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
143 49 0.41
144 42 0.35
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:46703742 original size:17 final size:16
Alignment explanation
Indices: 46703720--46703766 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
46703710 ACTCAAATCA
46703720 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
46703737 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
46703751 TAAATATATGATTTAA
1 T-AATATATGATTTAA
46703767 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:46703767 original size:17 final size:17
Alignment explanation
Indices: 46703739--46703772 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46703729 ATTATAACTA
*
46703739 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
46703756 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
46703773 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:46703915 original size:93 final size:91
Alignment explanation
Indices: 46703805--46703998 Score: 284
Period size: 92 Copynumber: 2.1 Consensus size: 91
46703795 GATTATAGTT
* *
46703805 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAATTAT-ATAATAATATATAATTTC
* *
46703868 ATAAAATTCTTGATAATAAAAATTTTCTTA
63 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
46703898 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
46703963 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
46703989 TATGAATTTA
1 TATGAATTTA
46703999 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 21 0.23
92 40 0.43
93 29 0.31
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:46705415 original size:11 final size:11
Alignment explanation
Indices: 46705401--46705427 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
46705391 AAAAATAAAT
46705401 ACAAAAGTTTC
1 ACAAAAGTTTC
46705412 ACAAAAGTTTC
1 ACAAAAGTTTC
46705423 ACAAA
1 ACAAA
46705428 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:46712363 original size:26 final size:26
Alignment explanation
Indices: 46712334--46712395 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
46712324 TACCCTAAAC
46712334 AAAATTTTGATAATTTTACCCCTAGT
1 AAAATTTTGATAATTTTACCCCTAGT
* * *
46712360 AAAATTTTGATAATTTTGCCTCTGGT
1 AAAATTTTGATAATTTTACCCCTAGT
46712386 AAAATTTTGA
1 AAAATTTTGA
46712396 CGATCTTGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (26 bp):
AAAATTTTGATAATTTTACCCCTAGT
Found at i:46712413 original size:25 final size:26
Alignment explanation
Indices: 46712334--46712417 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 26
46712324 TACCCTAAAC
* * * * *
46712334 AAAATTTTGATAATTTTACCCCTAGT
1 AAAATTTTGACAATCTTGCCTCTGGT
* *
46712360 AAAATTTTGATAATTTTGCCTCTGGT
1 AAAATTTTGACAATCTTGCCTCTGGT
* *
46712386 AAAATTTTGACGATCTTG-CTCTGTT
1 AAAATTTTGACAATCTTGCCTCTGGT
46712411 AAAATTT
1 AAAATTT
46712418 CAAGAAAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 13 0.25
26 38 0.75
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (26 bp):
AAAATTTTGACAATCTTGCCTCTGGT
Found at i:46717477 original size:51 final size:50
Alignment explanation
Indices: 46717397--46717541 Score: 177
Period size: 50 Copynumber: 2.9 Consensus size: 50
46717387 GATACCGGTT
* *
46717397 CACATAGTAGCCTGCAGATAGTACTACACATGTGACCATCATTATCCGATA
1 CACATAGTAGCCTGCACATATTACTACACATGTGACCATCATT-TCCGATA
* * * *
46717448 CACGTAGTAGCCTGCACATATTACTACACATGCGACCTATCA-TTCTGGTA
1 CACATAGTAGCCTGCACATATTACTACACATGTGACC-ATCATTTCCGATA
* *
46717498 CACATAGTAGCCTGCACAT-TGTACTACACACGTGATCATCATTT
1 CACATAGTAGCCTGCACATAT-TACTACACATGTGACCATCATTT
46717542 TCACTTTCAT
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
49 5 0.06
50 38 0.47
51 34 0.42
52 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATATTACTACACATGTGACCATCATTTCCGATA
Found at i:46717514 original size:50 final size:51
Alignment explanation
Indices: 46717397--46717527 Score: 169
Period size: 51 Copynumber: 2.6 Consensus size: 51
46717387 GATACCGGTT
* * *
46717397 CACATAGTAGCCTGCAGATAGTACTACACATGTGACCATCATTATCCGATA
1 CACATAGTAGCCTGCACATATTACTACACATGCGACCATCATTATCCGATA
* * *
46717448 CACGTAGTAGCCTGCACATATTACTACACATGCGACCTATCA-T-TCTGGTA
1 CACATAGTAGCCTGCACATATTACTACACATGCGACC-ATCATTATCCGATA
46717498 CACATAGTAGCCTGCACAT-TGTACTACACA
1 CACATAGTAGCCTGCACATAT-TACTACACA
46717528 CGTGATCATC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
49 1 0.01
50 32 0.45
51 34 0.48
52 4 0.06
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATATTACTACACATGCGACCATCATTATCCGATA
Found at i:46719661 original size:28 final size:28
Alignment explanation
Indices: 46719630--46719722 Score: 71
Period size: 28 Copynumber: 3.2 Consensus size: 28
46719620 AAGGCTTTTC
*
46719630 TTTCAGAGATTTTCCACAAAGGCATCCT
1 TTTCACAGATTTTCCACAAAGGCATCCT
* ** * **
46719658 TTTCATTCAGTACTGGCCACAAGGAGTTTCC-
1 TTTCA--CAG-ATTTTCCACAAAG-GCATCCT
*
46719689 TTTCATAGATTTTCCACAAAGGCATCCT
1 TTTCACAGATTTTCCACAAAGGCATCCT
46719717 TTTCAC
1 TTTCAC
46719723 TACTCCTAAG
Statistics
Matches: 45, Mismatches: 15, Indels: 10
0.64 0.21 0.14
Matches are distributed among these distances:
27 4 0.09
28 19 0.42
29 2 0.04
30 2 0.04
31 14 0.31
32 4 0.09
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (28 bp):
TTTCACAGATTTTCCACAAAGGCATCCT
Found at i:46719667 original size:32 final size:32
Alignment explanation
Indices: 46719624--46719721 Score: 80
Period size: 32 Copynumber: 3.2 Consensus size: 32
46719614 GCCACAAAGG
*
46719624 CTTTTCTTTCAGAGATTTTCCACAAAGGCATC
1 CTTTTCATTCAGAGATTTTCCACAAAGGCATC
* * **
46719656 CTTTTCATTCAG-TACTGGCCAC-AAGG-A--
1 CTTTTCATTCAGAGATTTTCCACAAAGGCATC
* * * *
46719683 GTTTCCTTTCATAGATTTTCCACAAAGGCATC
1 CTTTTCATTCAGAGATTTTCCACAAAGGCATC
46719715 CTTTTCA
1 CTTTTCA
46719722 CTACTCCTAA
Statistics
Matches: 45, Mismatches: 16, Indels: 10
0.63 0.23 0.14
Matches are distributed among these distances:
27 8 0.18
28 6 0.13
29 5 0.11
30 5 0.11
31 6 0.13
32 15 0.33
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (32 bp):
CTTTTCATTCAGAGATTTTCCACAAAGGCATC
Found at i:46720199 original size:17 final size:19
Alignment explanation
Indices: 46720177--46720212 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
46720167 AACTCTAACA
46720177 ATTAAT-CAATT-AAAAAT
1 ATTAATACAATTGAAAAAT
46720194 ATTAATACAATTGAAAAAT
1 ATTAATACAATTGAAAAAT
46720213 GCAAAATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (19 bp):
ATTAATACAATTGAAAAAT
Found at i:46721050 original size:59 final size:59
Alignment explanation
Indices: 46720981--46721372 Score: 590
Period size: 59 Copynumber: 6.6 Consensus size: 59
46720971 GGCAGATTAA
* *
46720981 CTTTCCTTTCAATGATTTGCCACAAAGGCATCCTTTTCATCTAGTACTCGCCACAGAGG
1 CTTTCCTTTCAATGATTTGCCACAAAGGCATCCTTTTCATTTAGTACTCACCACAGAGG
* *
46721040 CTTTCCTTTCAATGATTTGCCACAAAGGCATCCTTTTCATTCAGTACTAACCACAGAGG
1 CTTTCCTTTCAATGATTTGCCACAAAGGCATCCTTTTCATTTAGTACTCACCACAGAGG
* * * *
46721099 CTTTCCTTTTAATGATTTGCTATAAAGGCATCCTTTTCATTTAGTACTCACCACAAAGG
1 CTTTCCTTTCAATGATTTGCCACAAAGGCATCCTTTTCATTTAGTACTCACCACAGAGG
* *
46721158 CTTTCCTTTCAGA-GATTTGCCGCAAAGGCATCCTTTTCATTTAGTACTCGCCACAGAGG
1 CTTTCCTTTCA-ATGATTTGCCACAAAGGCATCCTTTTCATTTAGTACTCACCACAGAGG
* *
46721217 CTTTCCTTTCAATGATTTGCCATAAAGGCATCCTTTTCATTTAGTACTCACCACAGGGG
1 CTTTCCTTTCAATGATTTGCCACAAAGGCATCCTTTTCATTTAGTACTCACCACAGAGG
* * *
46721276 CTTTCCTTTTAGA-GATTTGCCACAAAGGCATCCTTTTCATTTAGTACTCGCCACAAAGG
1 CTTTCCTTTCA-ATGATTTGCCACAAAGGCATCCTTTTCATTTAGTACTCACCACAGAGG
** *
46721335 CTTTCCTTTCAAAAATTTTCCACAAAGGCATCCTTTTC
1 CTTTCCTTTCAATGATTTGCCACAAAGGCATCCTTTTC
46721373 TGGTGTTTTA
Statistics
Matches: 301, Mismatches: 28, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
58 2 0.01
59 297 0.99
60 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (59 bp):
CTTTCCTTTCAATGATTTGCCACAAAGGCATCCTTTTCATTTAGTACTCACCACAGAGG
Found at i:46721309 original size:27 final size:27
Alignment explanation
Indices: 46721279--46721371 Score: 69
Period size: 31 Copynumber: 3.3 Consensus size: 27
46721269 ACAGGGGCTT
*
46721279 TCCTTTTAGAGATTTGCCACAAAGGCA
1 TCCTTTTAAAGATTTGCCACAAAGGCA
* * * *
46721306 TCCTTTTCATTTAGTACTCGCCACAAAGGCTT
1 TCCTTTT-A--AAG-ATTTGCCACAAAGGC-A
* * *
46721338 TCCTTTCAAAAATTTTCCACAAAGGCA
1 TCCTTTTAAAGATTTGCCACAAAGGCA
46721365 TCCTTTT
1 TCCTTTT
46721372 CTGGTGTTTT
Statistics
Matches: 49, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
27 13 0.27
28 13 0.27
29 1 0.02
30 2 0.04
31 14 0.29
32 6 0.12
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (27 bp):
TCCTTTTAAAGATTTGCCACAAAGGCA
Found at i:46724779 original size:12 final size:12
Alignment explanation
Indices: 46724762--46724787 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46724752 TTTCCACTCG
46724762 ATCTTGATCTAA
1 ATCTTGATCTAA
46724774 ATCTTGATCTAA
1 ATCTTGATCTAA
46724786 AT
1 AT
46724788 TAATAATTTC
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:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (12 bp):
ATCTTGATCTAA
Found at i:46724801 original size:18 final size:18
Alignment explanation
Indices: 46724780--46724814 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46724770 CTAAATCTTG
46724780 ATCTAAATTAATAATTTC
1 ATCTAAATTAATAATTTC
* *
46724798 ATCTAATTTATTAATTT
1 ATCTAAATTAATAATTT
46724815 ATATAGTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
ATCTAAATTAATAATTTC
Found at i:46725406 original size:21 final size:21
Alignment explanation
Indices: 46725366--46725404 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46725356 TTATGTTTTC
*
46725366 TTTATTTTATTAACCTTTTAT
1 TTTATTGTATTAACCTTTTAT
46725387 TTTATTGTATT-ACCTTTT
1 TTTATTGTATTAACCTTTT
46725405 TAATTAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.67
Consensus pattern (21 bp):
TTTATTGTATTAACCTTTTAT
Found at i:46726313 original size:23 final size:23
Alignment explanation
Indices: 46726279--46726323 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
46726269 ATAGGAGTTC
*
46726279 TGTAATATCCCGAAAATTACTAT
1 TGTAATACCCCGAAAATTACTAT
46726302 TGTAATACCCCGAAAATTACTA
1 TGTAATACCCCGAAAATTACTA
46726324 CAGTAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAT
Found at i:46726329 original size:23 final size:23
Alignment explanation
Indices: 46726280--46726329 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
46726270 TAGGAGTTCT
* **
46726280 GTAATATCCCGAAAATTACTATT
1 GTAATACCCCGAAAATTACTACA
46726303 GTAATACCCCGAAAATTACTACA
1 GTAATACCCCGAAAATTACTACA
46726326 GTAA
1 GTAA
46726330 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (23 bp):
GTAATACCCCGAAAATTACTACA
Found at i:46737612 original size:43 final size:41
Alignment explanation
Indices: 46737537--46737667 Score: 120
Period size: 41 Copynumber: 3.1 Consensus size: 41
46737527 AAACACATAT
* * * * * *
46737537 ATCACATACAATGTC-ATATCCCAGATATGGTCTTACATGTT
1 ATCACATACGATGCCAATGTCCCAGACATGGTCTTACACG-A
** *
46737578 ATCACATATCGATGCCTCTGTCCCAGACAGGGTCTTACACGA
1 ATCACATA-CGATGCCAATGTCCCAGACATGGTCTTACACGA
* * *
46737620 ATCATATACGGTGCCAATGTCCCAGACATGGTCTTACAAGAA
1 ATCACATACGATGCCAATGTCCCAGACATGGTCTTACACG-A
46737662 ATCACA
1 ATCACA
46737668 CCTCGAAAGT
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
41 35 0.49
42 18 0.25
43 19 0.26
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (41 bp):
ATCACATACGATGCCAATGTCCCAGACATGGTCTTACACGA
Found at i:46741787 original size:25 final size:26
Alignment explanation
Indices: 46741721--46741789 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
46741711 AGTATATGTT
46741721 TATTTAGCAGGCTTTGAGTCGATGAC
1 TATTTAGCAGGCTTTGAGTCGATGAC
* * *
46741747 TATTTAGTAGGTTTTGAGTCGAT-TC
1 TATTTAGCAGGCTTTGAGTCGATGAC
46741772 T-TATTAGCAGGCTTTGAG
1 TAT-TTAGCAGGCTTTGAG
46741790 CCAGTAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 1 0.03
25 15 0.41
26 21 0.57
ACGTcount: A:0.22, C:0.12, G:0.26, T:0.41
Consensus pattern (26 bp):
TATTTAGCAGGCTTTGAGTCGATGAC
Found at i:46743500 original size:10 final size:10
Alignment explanation
Indices: 46743476--46743508 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
46743466 AATGAGTAAT
46743476 CATTTTA-AA
1 CATTTTATAA
46743485 -ATTTTATAA
1 CATTTTATAA
46743494 CATTTTATAA
1 CATTTTATAA
46743504 CATTT
1 CATTT
46743509 AATCATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.27
9 2 0.09
10 14 0.64
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (10 bp):
CATTTTATAA
Found at i:46743940 original size:30 final size:30
Alignment explanation
Indices: 46743905--46743977 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 30
46743895 AAGTTTTTAG
46743905 AATTTTTTTATAGA-CT-TTTATCATTTCAA
1 AATTTTTTTATA-ATCTCTTTATCATTTCAA
* * *
46743934 ATATTTTTATATAATTTCTTTATCATTTCTA
1 A-ATTTTTTTATAATCTCTTTATCATTTCAA
46743965 AA-TTTTTTATAAT
1 AATTTTTTTATAAT
46743978 ATTTTCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
29 12 0.32
30 12 0.32
31 13 0.35
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (30 bp):
AATTTTTTTATAATCTCTTTATCATTTCAA
Found at i:46744148 original size:14 final size:15
Alignment explanation
Indices: 46744129--46744157 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46744119 TTTTATAATA
46744129 ATTTTAATA-TTTTC
1 ATTTTAATAGTTTTC
46744143 ATTTTAATAGTTTTC
1 ATTTTAATAGTTTTC
46744158 TATAAATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTTAATAGTTTTC
Found at i:46753623 original size:28 final size:27
Alignment explanation
Indices: 46753582--46753745 Score: 166
Period size: 28 Copynumber: 5.9 Consensus size: 27
46753572 CCCAAGCGGA
*
46753582 CATTCCACCTAAGATAGTCCTTGGTAGG
1 CATTCCACTTAAGATAGTCCTTGGT-GG
* * *
46753610 CATTGCACTTAAGATAGTCCTTGGCAGA
1 CATTCCACTTAAGATAGTCCTTGG-TGG
* * *
46753638 CTTTCCACTTAAGATAGTCTTTAGTGG
1 CATTCCACTTAAGATAGTCCTTGGTGG
*
46753665 ACATTCCACTTAAGATAGTTCTTGGTGGG
1 -CATTCCACTTAAGATAGTCCTTGGT-GG
* * * *
46753694 CTTTCCACTTAAGATAGTCATTGATGAA
1 CATTCCACTTAAGATAGTCCTTGGTG-G
*
46753722 CATTCCAGTTAAGATAGTCCTTGG
1 CATTCCACTTAAGATAGTCCTTGG
46753746 AGGACTTCCT
Statistics
Matches: 109, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
27 2 0.02
28 105 0.96
29 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (27 bp):
CATTCCACTTAAGATAGTCCTTGGTGG
Found at i:46753651 original size:56 final size:55
Alignment explanation
Indices: 46753584--46753745 Score: 189
Period size: 56 Copynumber: 2.9 Consensus size: 55
46753574 CAAGCGGACA
* * *
46753584 TTCCACCTAAGATAGTCCTTGGTAGGCATTGCACTTAAGATAGTCCTTGGCAGACT
1 TTCCACTTAAGATAGTCATTGGT-GGCATTCCACTTAAGATAGTCCTTGGCAGACT
* * * ** *
46753640 TTCCACTTAAGATAGTCTTTAGTGGACATTCCACTTAAGATAGTTCTTGGTGGGCT
1 TTCCACTTAAGATAGTCATTGGTGG-CATTCCACTTAAGATAGTCCTTGGCAGACT
* * *
46753696 TTCCACTTAAGATAGTCATTGATGAACATTCCAGTTAAGATAGTCCTTGG
1 TTCCACTTAAGATAGTCATTGGTG-GCATTCCACTTAAGATAGTCCTTGG
46753746 AGGACTTCCT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
55 2 0.02
56 88 0.98
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (55 bp):
TTCCACTTAAGATAGTCATTGGTGGCATTCCACTTAAGATAGTCCTTGGCAGACT
Found at i:46753728 original size:84 final size:84
Alignment explanation
Indices: 46753579--46753740 Score: 220
Period size: 84 Copynumber: 1.9 Consensus size: 84
46753569 CATCCCAAGC
* * *
46753579 GGACATTCCACCTAAGATAGTCCTTGGTAGGCATTGCACTTAAGATAGTCCTTGGCAGACTTTCC
1 GGACATTCCACCTAAGATAGTCCTTGGTAGGCATTCCACTTAAGATAGTCATTGGCAGACATTCC
46753644 ACTTAAGATAGTCTTTAGT
66 ACTTAAGATAGTCTTTAGT
* * * *
46753663 GGACATTCCACTTAAGATAGTTCTTGGTGGGCTTTCCACTTAAGATAGTCATT-G-ATGAACATT
1 GGACATTCCACCTAAGATAGTCCTTGGTAGGCATTCCACTTAAGATAGTCATTGGCA-G-ACATT
*
46753726 CCAGTTAAGATAGTC
64 CCACTTAAGATAGTC
46753741 CTTGGAGGAC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
82 1 0.01
83 2 0.03
84 65 0.96
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (84 bp):
GGACATTCCACCTAAGATAGTCCTTGGTAGGCATTCCACTTAAGATAGTCATTGGCAGACATTCC
ACTTAAGATAGTCTTTAGT
Found at i:46754374 original size:17 final size:18
Alignment explanation
Indices: 46754322--46754375 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
46754312 ATTCAAAATT
*
46754322 TTTATAAAAATTTAAAAA
1 TTTATAAATATTTAAAAA
* *
46754340 TTTATATATTTTTAAAAA
1 TTTATAAATATTTAAAAA
46754358 -TTATAAATATTTCAAAAA
1 TTTATAAATATTT-AAAAA
46754376 AGATTATGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 10 0.33
18 20 0.67
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTATAAATATTTAAAAA
Found at i:46754941 original size:35 final size:35
Alignment explanation
Indices: 46754845--46754943 Score: 126
Period size: 35 Copynumber: 2.8 Consensus size: 35
46754835 TAAGTTAGTA
* *
46754845 ACCATTTTCATGGTTTCGCTCCATAGAGCTTATAG
1 ACCATTTTCATGGTGTCGCTCCGTAGAGCTTATAG
* * * *
46754880 ACCATTTTCATGGTGTTGTTCCGTAGATCTTGTAG
1 ACCATTTTCATGGTGTCGCTCCGTAGAGCTTATAG
* *
46754915 ACCATTTTCATGGTGTCACTCTGTAGAGC
1 ACCATTTTCATGGTGTCGCTCCGTAGAGC
46754944 CAGAAGATTA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (35 bp):
ACCATTTTCATGGTGTCGCTCCGTAGAGCTTATAG
Found at i:46767861 original size:40 final size:40
Alignment explanation
Indices: 46767761--46768025 Score: 277
Period size: 40 Copynumber: 6.7 Consensus size: 40
46767751 GCTCCTCGTT
* * * *
46767761 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
46767801 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
46767840 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
46767880 CGAATGCCTACGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
46767920 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
46767960 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
46768001 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
46768026 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 24, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 141 0.72
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:46768034 original size:41 final size:41
Alignment explanation
Indices: 46767957--46768034 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
46767947 TTTGTATCTC
* * *
46767957 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
46767998 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
46768035 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:46775429 original size:40 final size:40
Alignment explanation
Indices: 46775329--46775593 Score: 277
Period size: 40 Copynumber: 6.7 Consensus size: 40
46775319 GCTCCTCGTT
* * * *
46775329 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
46775369 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
46775408 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
46775448 CGAATGCCTACGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
46775488 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
46775528 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
46775569 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
46775594 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 24, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 141 0.72
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:46775602 original size:41 final size:41
Alignment explanation
Indices: 46775525--46775602 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
46775515 TTTGTATCTC
* * *
46775525 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
46775566 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
46775603 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:46789110 original size:30 final size:30
Alignment explanation
Indices: 46789076--46789137 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
46789066 GCCATTATAA
*
46789076 TTTGGGAATTATGCCTACATTTAAACACCT
1 TTTGGGAATCATGCCTACATTTAAACACCT
46789106 TTTGGGAATCATGCCTACATTTAAACACCT
1 TTTGGGAATCATGCCTACATTTAAACACCT
46789136 TT
1 TT
46789138 ATCTCTCTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (30 bp):
TTTGGGAATCATGCCTACATTTAAACACCT
Found at i:46800978 original size:27 final size:27
Alignment explanation
Indices: 46800926--46801066 Score: 176
Period size: 27 Copynumber: 5.3 Consensus size: 27
46800916 AGAGGTCAAT
*
46800926 AAATGATCGAATTA-CCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* *
46800952 AAATGACCAAATTACCCCCACAAGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
*
46800979 AAATGATCGAATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* ** *
46801006 AAATGACTGAATTACCCTTATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * *
46801033 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
46801060 AAATGAC
1 AAATGAC
46801067 TGTTATACCC
Statistics
Matches: 98, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 12 0.12
27 86 0.88
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCACAGGGTA
Found at i:46801480 original size:27 final size:28
Alignment explanation
Indices: 46801431--46801509 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 28
46801421 ACTATACCGA
* **
46801431 TATTGTATTAGGCTAAGATCCACATTGT
1 TATTATATTAGGCTAAGGCCCACATTGT
46801459 TATTATATT-GGCTAAGGCCCACATTGT
1 TATTATATTAGGCTAAGGCCCACATTGT
* *
46801486 TACTATATTGGGCTAAGGCCCACA
1 TATTATATTAGGCTAAGGCCCACA
46801510 CTGTACTGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 24 0.52
28 22 0.48
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (28 bp):
TATTATATTAGGCTAAGGCCCACATTGT
Found at i:46811077 original size:17 final size:18
Alignment explanation
Indices: 46811055--46811090 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
46811045 AACTTAATTT
*
46811055 TTATATAA-ATTCTTTTA
1 TTATATAATATTATTTTA
46811072 TTATATAATATTATTTTA
1 TTATATAATATTATTTTA
46811090 T
1 T
46811091 GTATTCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATATAATATTATTTTA
Found at i:46815541 original size:14 final size:13
Alignment explanation
Indices: 46815522--46815582 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 13
46815512 AAATTCAATC
46815522 AATAAAAAAATCGA
1 AATAAAAAAAT-GA
*
46815536 AATAAAAAAAT-T
1 AATAAAAAAATGA
46815548 AATCAAAAAAATGAA
1 AAT-AAAAAAATG-A
46815563 AATGAAAAAAATGA
1 AAT-AAAAAAATGA
46815577 AA-AAAA
1 AATAAAA
46815583 CAAAAACAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.17
13 8 0.20
14 14 0.34
15 12 0.29
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (13 bp):
AATAAAAAAATGA
Found at i:46815587 original size:15 final size:14
Alignment explanation
Indices: 46815552--46815615 Score: 56
Period size: 15 Copynumber: 4.3 Consensus size: 14
46815542 AAAATTAATC
*
46815552 AAAAAAATGAAAATG
1 AAAAAAATGAAAA-A
46815567 AAAAAAATGAAAAA
1 AAAAAAATGAAAAA
**
46815581 AACAAAAACAAAAAA
1 AA-AAAAATGAAAAA
*
46815596 AAGAAAAAAGAAAGAA
1 AA-AAAAATGAAA-AA
46815612 AAAA
1 AAAA
46815616 GAAAAAAGTC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
14 2 0.05
15 35 0.85
16 4 0.10
ACGTcount: A:0.83, C:0.03, G:0.09, T:0.05
Consensus pattern (14 bp):
AAAAAAATGAAAAA
Found at i:46815604 original size:11 final size:11
Alignment explanation
Indices: 46815567--46815620 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
46815557 AATGAAAATG
*
46815567 AAAAAAATGAA
1 AAAAAAAAGAA
46815578 AAAAACAAA-AA
1 AAAAA-AAAGAA
46815589 CAAAAAAAAGAA
1 -AAAAAAAAGAA
*
46815601 AAAAGAAAGAA
1 AAAAAAAAGAA
46815612 AAAAGAAAA
1 AAAA-AAAA
46815621 AAGTCAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
11 24 0.67
12 12 0.33
ACGTcount: A:0.85, C:0.04, G:0.09, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:46815623 original size:7 final size:7
Alignment explanation
Indices: 46815568--46815662 Score: 56
Period size: 7 Copynumber: 13.6 Consensus size: 7
46815558 ATGAAAATGA
46815568 AAAAAATG
1 AAAAAA-G
46815576 AAAAAA-
1 AAAAAAG
*
46815582 ACAAAAAC
1 A-AAAAAG
46815590 AAAAAA-
1 AAAAAAG
46815596 AAGAAAA-
1 AA-AAAAG
*
46815603 AAGAAAG
1 AAAAAAG
46815610 AAAAAAG
1 AAAAAAG
46815617 AAAAAAG
1 AAAAAAG
* *
46815624 TCAAAATG
1 -AAAAAAG
*
46815632 -AAAATG
1 AAAAAAG
*
46815638 -AAAATG
1 AAAAAAG
46815644 ATAAAAAG
1 A-AAAAAG
46815652 AAAAAAG
1 AAAAAAG
46815659 AAAA
1 AAAA
46815663 GGAGAGGCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
6 18 0.24
7 39 0.52
8 18 0.24
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (7 bp):
AAAAAAG
Found at i:46816550 original size:8 final size:8
Alignment explanation
Indices: 46816537--46816582 Score: 60
Period size: 8 Copynumber: 6.0 Consensus size: 8
46816527 CTTTGAGTCA
46816537 AAAAAATG
1 AAAAAATG
46816545 AAAAAATG
1 AAAAAATG
46816553 -AAAAATG
1 AAAAAATG
*
46816560 AAAAATTG
1 AAAAAATG
46816568 AAAAAA-G
1 AAAAAATG
*
46816575 TAAAAATG
1 AAAAAATG
46816583 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
7 13 0.39
8 20 0.61
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (8 bp):
AAAAAATG
Found at i:46816558 original size:15 final size:15
Alignment explanation
Indices: 46816538--46816582 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
46816528 TTTGAGTCAA
46816538 AAAAATGAAAAAATG
1 AAAAATGAAAAAATG
*
46816553 AAAAATGAAAAATTG
1 AAAAATGAAAAAATG
* *
46816568 AAAAAAGTAAAAATG
1 AAAAATGAAAAAATG
46816583 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (15 bp):
AAAAATGAAAAAATG
Found at i:46818018 original size:43 final size:43
Alignment explanation
Indices: 46817969--46818109 Score: 126
Period size: 43 Copynumber: 3.3 Consensus size: 43
46817959 GATGGTAGAT
*
46817969 CTTGCCTTCCTGCATTGACAGCAAAGCAGATTAAAAACAAAGC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATTAAAAACAAAGC
* * * * * * * *
46818012 CTTGCCTCCCT-CGGTTG-CAGTGGAGCGGGTTAAAGATAGCAGA-T
1 CTTGCCTTCCTGC-ATTGACAGCGAAGCAGATTAAA-A-A-CAAAGC
**
46818056 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATTAAAAACAAAGC
46818099 CTTGCCTTCCT
1 CTTGCCTTCCT
46818110 TGGTTGTAGT
Statistics
Matches: 72, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
42 16 0.22
43 26 0.36
44 15 0.21
45 15 0.21
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATTAAAAACAAAGC
Found at i:46818062 original size:44 final size:44
Alignment explanation
Indices: 46817925--46818062 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
46817915 TGATACAAGC
* * *
46817925 CTTGCCTCCCTCGATTGTAGTGGAGCGGGTTAAAGATGGTAGAT
1 CTTGCCTCCCTCGATTGCAGTGGAGCGGGTTAAAGATAGCAGAT
* *** * * * *
46817969 CTTGCCTTCCT-GCATTGACAGCAAAGCAGATTAAA-A-A-CAAAGC
1 CTTGCCTCCCTCG-ATTG-CAGTGGAGCGGGTTAAAGATAGCAGA-T
*
46818012 CTTGCCTCCCTCGGTTGCAGTGGAGCGGGTTAAAGATAGCAGAT
1 CTTGCCTCCCTCGATTGCAGTGGAGCGGGTTAAAGATAGCAGAT
46818056 CTTGCCT
1 CTTGCCT
46818063 TCCTGCATTG
Statistics
Matches: 67, Mismatches: 20, Indels: 14
0.66 0.20 0.14
Matches are distributed among these distances:
42 14 0.21
43 15 0.22
44 24 0.36
45 14 0.21
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (44 bp):
CTTGCCTCCCTCGATTGCAGTGGAGCGGGTTAAAGATAGCAGAT
Found at i:46818197 original size:175 final size:173
Alignment explanation
Indices: 46817834--46818265 Score: 582
Period size: 175 Copynumber: 2.5 Consensus size: 173
46817824 TGAAATCACC
* *
46817834 AGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAA-ATAGCAGATCTTGCCTTCCTGTATCG
1 AGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTT-AAAGATAGCAGATCTTGCCTTCCTGCATCG
* * * *
46817898 ACAACGAAGCAAATCGATGATACAAGCCTTGCCTCCCTCGATTGTAGTGGAGCGGGTTAAAGATG
65 ACAGCGAAGCAAATCGA--AAACAAGCCTTGCCTCCCTCGATTGTAGTGGACCGGGTTAAAGATA
* * *
46817963 GTAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATTAAAAACAA
128 GCAGATCTTGCCTTCATGCATTGACAGCAAAGCAGATCAAAAACAA
* *
46818009 AGCCTTGCCTCCCTCGGTTGCAGTGGAGCGGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGA
1 AGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCATCGA
* * * *
46818074 CAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCCTTGGTTGTAGTGGACCGGGTTAAAGATAGC
66 CAGCGAAGCAAATCGAAAAC-AAGCCTTGCCTCCCTCGATTGTAGTGGACCGGGTTAAAGATAGC
* * *
46818139 AGATCTTGTCTTCATGCATTGACAGCGAAGCAGATCAAAGATAC-T
130 AGATCTTGCCTTCATGCATTGACAGCAAAGCAGATCAAA-A-ACAA
* **
46818184 AGCCTTTCCTCCCTTAGTTGCAGTGGAGCAGGTTAAAGATAGCAGAT-TTGGCCTTCCTGCATCG
1 AGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTT-GCCTTCCTGCATCG
*
46818248 ACAGCGAAGCATATCGAA
65 ACAGCGAAGCAAATCGAA
46818266 GATACCAGCC
Statistics
Matches: 228, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
173 3 0.01
174 78 0.34
175 145 0.64
176 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (173 bp):
AGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCATCGA
CAGCGAAGCAAATCGAAAACAAGCCTTGCCTCCCTCGATTGTAGTGGACCGGGTTAAAGATAGCA
GATCTTGCCTTCATGCATTGACAGCAAAGCAGATCAAAAACAA
Found at i:46818285 original size:88 final size:88
Alignment explanation
Indices: 46817834--46818275 Score: 545
Period size: 87 Copynumber: 5.0 Consensus size: 88
46817824 TGAAATCACC
* * * *
46817834 AGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAA-ATAGCAGATCTTGCCTTCCTGTATCG
1 AGCCTTGCCTCCCTTGGTTGTAGTGGAGCGGGTT-AAAGATAGCAGATCTTGCCTTCCTGCATTG
* * *
46817898 ACAACGAAGCAAATCGATGATACA
65 ACAGCGAAGCAGATCGAAGATACA
* * * *
46817922 AGCCTTGCCTCCCTCGATTGTAGTGGAGCGGGTTAAAGATGGTAGATCTTGCCTTCCTGCATTGA
1 AGCCTTGCCTCCCTTGGTTGTAGTGGAGCGGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGA
* * *
46817987 CAGCAAAGCAGAT-TAA-AAACAA
66 CAGCGAAGCAGATCGAAGATAC-A
* *
46818009 AGCCTTGCCTCCCTCGGTTGCAGTGGAGCGGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGA
1 AGCCTTGCCTCCCTTGGTTGTAGTGGAGCGGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGA
46818074 CAGCGAAGCAGATCGAA-A-ACAA
66 CAGCGAAGCAGATCGAAGATAC-A
* * * *
46818096 AGCCTTGCCTTCCTTGGTTGTAGTGGACCGGGTTAAAGATAGCAGATCTTGTCTTCATGCATTGA
1 AGCCTTGCCTCCCTTGGTTGTAGTGGAGCGGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGA
* *
46818161 CAGCGAAGCAGATCAAAGATACT
66 CAGCGAAGCAGATCGAAGATACA
* * * * *
46818184 AGCCTTTCCTCCCTTAGTTGCAGTGGAGCAGGTTAAAGATAGCAGAT-TTGGCCTTCCTGCATCG
1 AGCCTTGCCTCCCTTGGTTGTAGTGGAGCGGGTTAAAGATAGCAGATCTT-GCCTTCCTGCATTG
* *
46818248 ACAGCGAAGCATATCGAAGATACC
65 ACAGCGAAGCAGATCGAAGATACA
46818272 AGCC
1 AGCC
46818276 CTATCTCCCT
Statistics
Matches: 310, Mismatches: 38, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
86 3 0.01
87 159 0.51
88 146 0.47
89 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.25
Consensus pattern (88 bp):
AGCCTTGCCTCCCTTGGTTGTAGTGGAGCGGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGA
CAGCGAAGCAGATCGAAGATACA
Found at i:46818369 original size:44 final size:43
Alignment explanation
Indices: 46818321--46818838 Score: 157
Period size: 44 Copynumber: 11.8 Consensus size: 43
46818311 TTTTGAATTC
* *
46818321 TATCTCCCTAGGCAGCAGTGGAATAGATTAAAGATTACAGATCT
1 TATCTCCCTAGGCAGTAGTGGAATAGATTGAAGATTACA-ATCT
* ** * ***
46818365 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCT
1 TATCTCCCTAGGCAGTAGTGGAATAGATTGAAGATTAC-AATCT
* * * ** *
46818409 TATCTTCCCCAGG-AGTAG-GGAAGCAGATTTAAG-CCACTAATCC
1 TATC-TCCCTAGGCAGTAGTGGAA-TAGATTGAAGATTAC-AATCT
* * * *
46818452 TATCTCCCT-GTTCAGCAGTGGAATAGGTTGAAGATGGT-GAAT-T
1 TATCTCCCTAG-GCAGTAGTGGAATAGATTGAAGAT--TACAATCT
* *
46818495 CTATCTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCT
1 -TATCTCCCTAGGCAGTAGTGGAATAGATTGAAGATTACA-ATCT
* ** * ** * *
46818540 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TATCTCCCTAGGCAGTAGTGGAATAGATTGAAGATTAC-AATCT
* * * * * * *
46818584 TACCTCCCT-GTG-ATTACAGCGGAGTACATTGAAGCCAGTA-ATTC-
1 TATCTCCCTAG-GCAGT--AGTGGAATAGATTGAAG--ATTACAATCT
* * * * *
46818628 TATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTTCAGATAT
1 TATCTCCCTAGGCAGTAGTGGAATAGATTGAAGATTACA-ATCT
* ** * ** *
46818672 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGTAGTGGAATAGATTGAAGATTACA-ATCT
* * * * * *
46818716 TATCTCCCT-GTG-ATTACAGCGGAGTACATTGAAGCCAGTA-ATTC-
1 TATCTCCCTAG-GCAGT--AGTGGAATAGATTGAAG--ATTACAATCT
** * *
46818760 TATCTCCCT-GGTTGGCAGTGGAATAGATTGAAGATTATAGATCT
1 TATCTCCCTAGG-CAGTAGTGGAATAGATTGAAGATTACA-ATCT
* **
46818804 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAT
1 TATCTCCCTAGGCAGTAGTGGAATAGATTGAAGAT
46818839 GGTGGATTTT
Statistics
Matches: 338, Mismatches: 100, Indels: 72
0.66 0.20 0.14
Matches are distributed among these distances:
41 6 0.02
42 7 0.02
43 60 0.18
44 222 0.66
45 40 0.12
46 1 0.00
47 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (43 bp):
TATCTCCCTAGGCAGTAGTGGAATAGATTGAAGATTACAATCT
Found at i:46818940 original size:44 final size:44
Alignment explanation
Indices: 46818760--46819076 Score: 184
Period size: 44 Copynumber: 7.2 Consensus size: 44
46818750 CCAGTAATTC
*
46818760 TATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTATAGATCT
1 TATCTCCCTGGTTGGCAGTGGAGTAGATTGAAGATTATAGATCT
* ** * * ** * *
46818804 TATCTCCCTAAG-CAGTAGTGGAGCAGATTGAAGATGGTGGATTT
1 TATCTCCCT-GGTTGGCAGTGGAGTAGATTGAAGATTATAGATCT
* * * **
46818848 TACCTCCCTGTGGTT-ACAGTGGAGTACATTGAAG-CCAGTA-AT-T
1 TATCTCCC--TGGTTGGCAGTGGAGTAGATTGAAGATTA-TAGATCT
*
46818891 CTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTATAGATCT
1 -TATCTCCCTGGTTGGCAGTGGAGTAGATTGAAGATTATAGATCT
** ** * * * * * *
46818936 TATCTCCCTAATCAGTAGTGGAGCAGATCGAAGATGATGGATTT
1 TATCTCCCTGGTTGGCAGTGGAGTAGATTGAAGATTATAGATCT
* * * * * **
46818980 TACCTCCCTGTGGTT-ACAATGGAGTACATTAAAG-CCAGTA-AT-T
1 TATCTCCC--TGGTTGGCAGTGGAGTAGATTGAAGATTA-TAGATCT
*
46819023 CTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTATAGATCT
1 -TATCTCCCTGGTTGGCAGTGGAGTAGATTGAAGATTATAGATCT
46819068 TATCTCCCT
1 TATCTCCCT
46819077 AAGCAGTAGT
Statistics
Matches: 195, Mismatches: 60, Indels: 36
0.67 0.21 0.12
Matches are distributed among these distances:
42 10 0.05
43 36 0.18
44 113 0.58
45 33 0.17
46 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (44 bp):
TATCTCCCTGGTTGGCAGTGGAGTAGATTGAAGATTATAGATCT
Found at i:46819088 original size:44 final size:43
Alignment explanation
Indices: 46819040--46819254 Score: 128
Period size: 44 Copynumber: 4.9 Consensus size: 43
46819030 CCTGGTTGGC
*
46819040 AGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTACAGAT-TTATCTCCCTAAGCAGT
** * ** * ** *
46819084 AGTGGAGCAGATCGAAGATGGCAGATTTACCTCCCTGTGGTTA-T
1 AGTGGAATAGATTGAAGATTACAGATTTATCTCCCT-AAG-CAGT
* * *** * * * *
46819128 AGTGGAGTACATTGAAGCCAATA-ATTCTATCTCTCTAGGCAGA
1 AGTGGAATAGATTGAAGATTACAGATT-TATCTCCCTAAGCAGT
*
46819171 AGTGGAATAGATTGAAGATTACAAATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTACAGAT-TTATCTCCCTAAGCAGT
** * ** *
46819215 AGTGGAGCAAATTGAAGATGGCAGATTTTACCTCCCTAAG
1 AGTGGAATAGATTGAAGATTACAGA-TTTATCTCCCTAAG
46819255 GCTACAGTGG
Statistics
Matches: 125, Mismatches: 39, Indels: 14
0.70 0.22 0.08
Matches are distributed among these distances:
42 1 0.01
43 31 0.25
44 90 0.72
45 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (43 bp):
AGTGGAATAGATTGAAGATTACAGATTTATCTCCCTAAGCAGT
Found at i:46819336 original size:132 final size:132
Alignment explanation
Indices: 46818491--46819295 Score: 1195
Period size: 132 Copynumber: 6.1 Consensus size: 132
46818481 GAAGATGGTG
*** *
46818491 AATTCTATCTCCCTGGGCAGTAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCTAAGCAG
1 AATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTAT-AGATCTTATCTCCCTAAGCAG
* * *
46818555 TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGCGGAGTACATTGAAGCC
65 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
46818620 AGT
130 AGT
*** * *
46818623 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATT-TCAGATATTATCTCCCTAAGCAG
1 AATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTAT-AGATCTTATCTCCCTAAGCAG
* * *
46818687 TAGTGGAGCAGATCGAAGATGGCAGATTTTATCTCCCTGTGATTACAGCGGAGTACATTGAAGCC
65 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
46818752 AGT
130 AGT
46818755 AATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGT
1 AATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGT
* **
46818820 AGTGGAGCAGATTGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
46818885 GT
131 GT
*
46818887 AATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAATCAGT
1 AATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGT
*** * *
46818952 AGTGGAGCAGATCGAAGATGATGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTAAAGCCA
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
46819017 GT
131 GT
46819019 AATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGT
1 AATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGT
*
46819084 AGTGGAGCAGATCGAAGATGGCAGA-TTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
46819148 AT
131 GT
* ** * * *
46819150 AATTCTATCTCTCTAGG-CAGAAGTGGAATAGATTGAAGATTACAAATCTTATCTCCCTAAGCAG
1 AATTCTATCTCCCT-GGTTGGCAGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAG
* * ** * *
46819214 TAGTGGAGCAAATTGAAGATGGCAGATTTTACCTCCCTAAGGCTACAGTGGAGTACATTAAAGCC
65 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
*
46819279 ACT
130 AGT
*
46819282 AATCCTATCTCCCT
1 AATTCTATCTCCCT
46819296 AAAGTTGCAG
Statistics
Matches: 625, Mismatches: 45, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
131 116 0.19
132 508 0.81
133 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
AATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GT
Found at i:46819745 original size:17 final size:17
Alignment explanation
Indices: 46819723--46819762 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
46819713 AATCGGAAAT
*
46819723 AAATAAACAAAAATATA
1 AAATAAACAAAAATAAA
**
46819740 AAATAAATTAAAATAAA
1 AAATAAACAAAAATAAA
46819757 AAATAA
1 AAATAA
46819763 TCCATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAAACAAAAATAAA
Found at i:46820950 original size:17 final size:18
Alignment explanation
Indices: 46820928--46820963 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
46820918 AACTTAATTT
46820928 TTATATAA-ATTCTTTTA
1 TTATATAATATTCTTTTA
46820945 TTATATAATATTCTTTTA
1 TTATATAATATTCTTTTA
46820963 T
1 T
46820964 GTATTCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATATAATATTCTTTTA
Found at i:46835085 original size:6 final size:6
Alignment explanation
Indices: 46835074--46835102 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
46835064 TAGGTTTCCA
46835074 AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG
46835103 ATTCATTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:46839810 original size:29 final size:30
Alignment explanation
Indices: 46839705--46839842 Score: 100
Period size: 31 Copynumber: 4.5 Consensus size: 30
46839695 AGGTATCCAA
* * *
46839705 CACCAGTACATAGTACCTA-ATAAGTTATAAA
1 CACCGGTACATAGTACCGAGATAA--TATAAT
** * * *
46839736 CACCGACACATAGTACCTGATATAATACAAA
1 CACCGGTACATAGTACC-GAGATAATATAAT
** * *
46839767 CACCGAAACAAAGTACC-AGATAATATAGT
1 CACCGGTACATAGTACCGAGATAATATAAT
* *
46839796 CACTGGTACATAGTACCTGATATAATATAAT
1 CACCGGTACATAGTACC-GAGATAATATAAT
46839827 CACCGGTACATAGTAC
1 CACCGGTACATAGTAC
46839843 ATGATACTTT
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
29 21 0.25
31 59 0.69
32 1 0.01
33 4 0.05
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (30 bp):
CACCGGTACATAGTACCGAGATAATATAAT
Found at i:46842473 original size:116 final size:116
Alignment explanation
Indices: 46842268--46842500 Score: 394
Period size: 116 Copynumber: 2.0 Consensus size: 116
46842258 GCCAAGAAAG
*
46842268 TCAAGGCTAAGGTCTTTGGGATACCACAAGTGGGAAAGAAGAGAACCAAGAAGCCTAAATACTTA
1 TCAAGGCTAAGGTCTTTGGGATACCACAAGTGGGAAAGAAGAGAACCAAGAAGCCTAAATACCTA
* *
46842333 TCTAAGTGCAAATGCTTTTGCTACAGTAAGAAAGGGCACTTCAAGGCGAAT
66 TCTAAGTCCAAATGCTTTTGCTACAGTAAGAAAGGACACTTCAAGGCGAAT
* * *
46842384 TCAAGGCTAAGGTCTTTGGGCTACCATAAGTGGGAAAGAAGAGAACGAAGAAGCCTAAATACCTA
1 TCAAGGCTAAGGTCTTTGGGATACCACAAGTGGGAAAGAAGAGAACCAAGAAGCCTAAATACCTA
* *
46842449 TCTAAGTCCAAATGCTTTTTCTACAGTAAGAAAGGACACTTCAAGGTGAAT
66 TCTAAGTCCAAATGCTTTTGCTACAGTAAGAAAGGACACTTCAAGGCGAAT
46842500 T
1 T
46842501 GCTAAGAGTG
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 109 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (116 bp):
TCAAGGCTAAGGTCTTTGGGATACCACAAGTGGGAAAGAAGAGAACCAAGAAGCCTAAATACCTA
TCTAAGTCCAAATGCTTTTGCTACAGTAAGAAAGGACACTTCAAGGCGAAT
Found at i:46846107 original size:16 final size:16
Alignment explanation
Indices: 46846066--46846116 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
46846056 GTAATTATTT
* *
46846066 TTTTATTTATATATATG
1 TTTT-TTTATATACATA
46846083 TTGTTTTTATATACATA
1 TT-TTTTTATATACATA
*
46846100 TTTTTTTATATTCATA
1 TTTTTTTATATACATA
46846116 T
1 T
46846117 ATATACACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.47
17 14 0.47
18 2 0.07
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (16 bp):
TTTTTTTATATACATA
Found at i:46855782 original size:21 final size:21
Alignment explanation
Indices: 46855756--46855796 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46855746 TCTATATCGC
46855756 GACACAACC-AAAGGATGTTGA
1 GACAC-ACCTAAAGGATGTTGA
*
46855777 GACACACCTATAGGATGTTG
1 GACACACCTAAAGGATGTTG
46855797 CGGCACAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (21 bp):
GACACACCTAAAGGATGTTGA
Found at i:46865092 original size:50 final size:50
Alignment explanation
Indices: 46864919--46865107 Score: 171
Period size: 50 Copynumber: 3.7 Consensus size: 50
46864909 AAAAGATCCT
*
46864919 ATGTAAGACCATATCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGGTCCC
1 ATGTAAGACCATATCTGGGACATGGCATTGGCACCA---A---TATGAGAGGTCCC
* * * * * *
46864975 ATGTAAGACCATGTCTAGGACATGACGTTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATATCTGGGACATGGCATTGGCACCAATATGAGAGGTCCC
** * * * * **
46865025 CCGTAATACCATGTCTGGGGCATGGCATGGGCACCAATATGAGAACTCCC
1 ATGTAAGACCATATCTGGGACATGGCATTGGCACCAATATGAGAGGTCCC
* *
46865075 ATGTAAGACCATATCTGGGATATGGCGTTGGCA
1 ATGTAAGACCATATCTGGGACATGGCATTGGCA
46865108 GTATAGGAAA
Statistics
Matches: 106, Mismatches: 27, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
50 75 0.71
53 1 0.01
56 30 0.28
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGTAAGACCATATCTGGGACATGGCATTGGCACCAATATGAGAGGTCCC
Found at i:46871366 original size:20 final size:22
Alignment explanation
Indices: 46871327--46871366 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
46871317 AATTAATTCG
*
46871327 TATATTACGATAAACCATAAGA
1 TATATTACGATAAACAATAAGA
46871349 TATATTA-GATAAA-AATAA
1 TATATTACGATAAACAATAA
46871367 ACAACAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 6 0.35
22 7 0.41
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
TATATTACGATAAACAATAAGA
Found at i:46882187 original size:50 final size:53
Alignment explanation
Indices: 46882089--46882221 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 53
46882079 TGAGACCCCA
* * *
46882089 TGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTTTGAGAGGTCTTAC
1 TGTAAGACCATGTCTGGGACATGGCATTGG-A-TATCGAGG-TATGAGAGGTC-CAC
*
46882146 -GTAAGACCATGTCTGGGACATGGCATTGG-TATCGA-G-ATGAGAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCATTGGATATCGAGGTATGAGAGGTCCAC
* *
46882195 TGTATGACCATGTCTAGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
46882222 GGGCACCGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
49 1 0.01
50 33 0.48
52 1 0.01
53 5 0.07
56 29 0.42
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (53 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGATATCGAGGTATGAGAGGTCCAC
Found at i:46882551 original size:20 final size:20
Alignment explanation
Indices: 46882526--46882564 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
46882516 TGAGTTATTT
46882526 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
46882546 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
46882565 GAAAAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:46899117 original size:29 final size:29
Alignment explanation
Indices: 46899054--46899121 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
46899044 TAATCAACCG
46899054 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46899083 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46899112 CGCACACTTA
1 CGCACACTTA
46899122 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46899234 original size:174 final size:174
Alignment explanation
Indices: 46898943--46899272 Score: 606
Period size: 174 Copynumber: 1.9 Consensus size: 174
46898933 AACTTAAGGT
* *
46898943 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
46899008 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
46899073 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
46899117 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
46899182 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
46899247 ACTTTAAACTCGCACACTTAGTGCCA
131 ACTTTAAACTCACACACTTAGTGCCA
46899273 ATCTCATGAC
Statistics
Matches: 150, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:46907222 original size:29 final size:29
Alignment explanation
Indices: 46907159--46907226 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
46907149 TAATCAACCG
46907159 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46907188 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46907217 CGCACACTTA
1 CGCACACTTA
46907227 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46907339 original size:174 final size:174
Alignment explanation
Indices: 46907048--46907375 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
46907038 AACTCAAGGT
* *
46907048 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
46907113 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
46907178 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
46907222 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
46907287 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
46907352 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
46907376 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:46907367 original size:29 final size:30
Alignment explanation
Indices: 46907328--46907406 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
46907318 CTTAATAATC
46907328 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
46907358 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
46907387 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
46907407 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:46910047 original size:15 final size:16
Alignment explanation
Indices: 46910027--46910059 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
46910017 AAACATTATG
46910027 ATAATTATGG-TAATT
1 ATAATTATGGTTAATT
*
46910042 ATAATTTTGGTTAATT
1 ATAATTATGGTTAATT
46910058 AT
1 AT
46910060 TATGATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (16 bp):
ATAATTATGGTTAATT
Found at i:46916611 original size:14 final size:14
Alignment explanation
Indices: 46916592--46916618 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46916582 TTGTTTTCGA
46916592 TTTTCCCTCTTCTC
1 TTTTCCCTCTTCTC
46916606 TTTTCCCTCTTCT
1 TTTTCCCTCTTCT
46916619 TTACTTTGTG
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:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTCCCTCTTCTC
Found at i:46917533 original size:27 final size:27
Alignment explanation
Indices: 46917495--46917745 Score: 317
Period size: 27 Copynumber: 9.3 Consensus size: 27
46917485 TGCGATTCGT
*
46917495 GGTAAAATTAACAAAATACCCCCGAAG
1 GGTAAAATTAACGAAATACCCCCGAAG
*
46917522 GGTAAAATTAACGAAATACCCTCGAAG
1 GGTAAAATTAACGAAATACCCCCGAAG
** *
46917549 GGTAAAATTATTGAAATACCCTCGAAG
1 GGTAAAATTAACGAAATACCCCCGAAG
* **
46917576 GGTAAAATTATCGAAATACCCTTGAAG
1 GGTAAAATTAACGAAATACCCCCGAAG
* *
46917603 GGTAAAATT-ACTGAAATACCCTCGAGG
1 GGTAAAATTAAC-GAAATACCCCCGAAG
**
46917630 GGTAAAATTATTGAAATACCCCCGAAG
1 GGTAAAATTAACGAAATACCCCCGAAG
* *
46917657 GGTAAAATTACCGAAATACCACCGAAG
1 GGTAAAATTAACGAAATACCCCCGAAG
* * *
46917684 GATAAAATTACCGAAACACCCCCGAAG
1 GGTAAAATTAACGAAATACCCCCGAAG
46917711 GGTAAAA-TAAGCGAAATACCCCCGAAG
1 GGTAAAATTAA-CGAAATACCCCCGAAG
46917738 GGTAAAAT
1 GGTAAAAT
46917746 AACTGTTATA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.02
27 195 0.98
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.19
Consensus pattern (27 bp):
GGTAAAATTAACGAAATACCCCCGAAG
Found at i:46917958 original size:26 final size:26
Alignment explanation
Indices: 46917923--46917974 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
46917913 TTGCCACATA
46917923 TACTGTTACTGGCAGCCTTGCTGCGT
1 TACTGTTACTGGCAGCCTTGCTGCGT
* * *
46917949 TACTGTTACTGGTAGCTTTGTTGCGT
1 TACTGTTACTGGCAGCCTTGCTGCGT
46917975 CATTATTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.21, G:0.27, T:0.40
Consensus pattern (26 bp):
TACTGTTACTGGCAGCCTTGCTGCGT
Found at i:46924298 original size:13 final size:14
Alignment explanation
Indices: 46924280--46924310 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
46924270 TTGTTGCCAA
46924280 TTTTCCC-CTTCTC
1 TTTTCCCTCTTCTC
46924293 TTTTCCCTCTTCTC
1 TTTTCCCTCTTCTC
46924307 TTTT
1 TTTT
46924311 TTTCTCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTCCCTCTTCTC
Found at i:46925213 original size:27 final size:27
Alignment explanation
Indices: 46925152--46925266 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 27
46925142 TACGATTCGT
* *
46925152 GGTAAAATTACCGAACTACCCT-GCAG
1 GGTAAAATTACCGAAATACCCTCGAAG
* *
46925178 GGTAAAATTATCGAAATACCCTCGTAG
1 GGTAAAATTACCGAAATACCCTCGAAG
* *
46925205 GGTAAAATTACCGAAATACCCTTGAAA
1 GGTAAAATTACCGAAATACCCTCGAAG
* * *
46925232 GGTGAAATTACCAAAATACCCCCGAAG
1 GGTAAAATTACCGAAATACCCTCGAAG
46925259 GGTAAAAT
1 GGTAAAAT
46925267 AACTGTTATA
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 20 0.27
27 55 0.73
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (27 bp):
GGTAAAATTACCGAAATACCCTCGAAG
Found at i:46925502 original size:26 final size:26
Alignment explanation
Indices: 46925449--46925519 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
46925439 ACATATACTG
* * * *
46925449 TTACTGCCAGCCTTGCTGCGTTACTA
1 TTACTGGCAGCTTTGCTGCATCACTA
*
46925475 TTACTGGCAGCTTTGCTGCATCATTA
1 TTACTGGCAGCTTTGCTGCATCACTA
* *
46925501 TTACTGGTAGCTCTGCTGC
1 TTACTGGCAGCTTTGCTGC
46925520 GATATTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCATCACTA
Found at i:46935229 original size:25 final size:25
Alignment explanation
Indices: 46935201--46935265 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
46935191 GTTACCGATT
* *
46935201 TCAGCTCGTATTAGCCTA-CTGATAC
1 TCAGCTCGTATGAGCCTACCAG-TAC
*
46935226 TCAGCTCGTATGAGCTTACCAGTAC
1 TCAGCTCGTATGAGCCTACCAGTAC
*
46935251 TCAGCTCGAATGAGC
1 TCAGCTCGTATGAGC
46935266 TTACTGTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 33 0.94
26 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (25 bp):
TCAGCTCGTATGAGCCTACCAGTAC
Found at i:46938356 original size:21 final size:21
Alignment explanation
Indices: 46938338--46938380 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
46938328 AGCAACTTTT
*
46938338 TCTTTTTCAGCAACAACTTCC
1 TCTTTTGCAGCAACAACTTCC
*
46938359 TCTTTTGCAGCAGCAACTTCC
1 TCTTTTGCAGCAACAACTTCC
46938380 T
1 T
46938381 TCTCAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.09, T:0.37
Consensus pattern (21 bp):
TCTTTTGCAGCAACAACTTCC
Found at i:46948345 original size:81 final size:82
Alignment explanation
Indices: 46948210--46948371 Score: 290
Period size: 81 Copynumber: 2.0 Consensus size: 82
46948200 GATTACCTTT
* *
46948210 GTTAATTCTGGGAAAACATTCATTTAATTAAATCAACCTTTATTAAGTTAGATTAGCAAAACTAG
1 GTTAATTCTAGGAAAACATTCATTTAATTAAATCAACCTTTATTAAGTCAGATTAGCAAAACTAG
46948275 TGTGATTTTT-GAAAAA
66 TGTGATTTTTAGAAAAA
46948291 GTTAATTCTAGGAAAACATTCATTTAATTAAATCAACCTTTATTAAGTCAGATTAGCAAAACTAG
1 GTTAATTCTAGGAAAACATTCATTTAATTAAATCAACCTTTATTAAGTCAGATTAGCAAAACTAG
*
46948356 TGTGGTTTTTAGAAAA
66 TGTGATTTTTAGAAAA
46948372 CATTGCACGA
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 72 0.94
82 5 0.06
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (82 bp):
GTTAATTCTAGGAAAACATTCATTTAATTAAATCAACCTTTATTAAGTCAGATTAGCAAAACTAG
TGTGATTTTTAGAAAAA
Found at i:46952222 original size:27 final size:27
Alignment explanation
Indices: 46952192--46952369 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
46952182 TTATTGAGCC
* * * *
46952192 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
46952219 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
46952246 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCTACATAGT-CAAAT
** * *
46952274 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
46952301 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
46952328 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46952355 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46952370 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:46952331 original size:82 final size:81
Alignment explanation
Indices: 46952213--46952368 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
46952203 TGCTATATAA
* * **
46952213 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-CAAATCGCA
46952278 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
46952295 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
46952359 CACTTAGTGC
65 CACTTAGTGC
46952369 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:46960177 original size:27 final size:27
Alignment explanation
Indices: 46960147--46960324 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
46960137 ATATTGAGCC
* *
46960147 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
46960174 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
46960201 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
46960229 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
46960256 CGCACACTTAGTGCAACATATTCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* *
46960283 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
46960310 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46960325 GTACAATTTA
Statistics
Matches: 128, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:46960286 original size:82 final size:81
Alignment explanation
Indices: 46960168--46960323 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 81
46960158 TGCTATATAA
* * * *
46960168 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
46960233 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
46960250 TCAATTCGCACACTTAGTGCAACATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCAC
1 TCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
46960315 ACTTAGTGC
66 ACTTAGTGC
46960324 TGTACAATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
81 17 0.26
82 49 0.74
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:46966000 original size:47 final size:46
Alignment explanation
Indices: 46965880--46966060 Score: 152
Period size: 47 Copynumber: 3.8 Consensus size: 46
46965870 ACAAATAAAA
* * *
46965880 GCTG-CTAAAATACA-TTGTGGATATACCACTAGTCAAGCAAGTGACTACT
1 GCTGACTAAAATA-AGTTGTGGATAAACCACT-GTCGAGCAGGTG---ACT
* * *
46965929 GCTGACTAAAATACGTTGTAGATAAACCACTGTTCGAGTAGGTGACT
1 GCTGACTAAAATAAGTTGTGGATAAACCACTG-TCGAGCAGGTGACT
* * * *
46965976 GTTGACTAAAATAAGTTATGGATAAACCACTAGTCAAACAGGTGACT
1 GCTGACTAAAATAAGTTGTGGATAAACCACT-GTCGAGCAGGTGACT
* *
46966023 GGC-GACTAAAATATGTTGTGGGTAAACCACTGATCGAG
1 -GCTGACTAAAATAAGTTGTGGATAAACCACTG-TCGAG
46966061 AAGATAAACT
Statistics
Matches: 107, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
46 1 0.01
47 69 0.64
48 2 0.02
49 5 0.05
50 30 0.28
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (46 bp):
GCTGACTAAAATAAGTTGTGGATAAACCACTGTCGAGCAGGTGACT
Found at i:46966022 original size:97 final size:94
Alignment explanation
Indices: 46965884--46966060 Score: 230
Period size: 97 Copynumber: 1.9 Consensus size: 94
46965874 ATAAAAGCTG
* * * *
46965884 CTAAAATACATTGTGGATATACCACTAGTCAAGCAAGTGACTACTGCTGACTAAAATACGTTGTA
1 CTAAAATACATTATGGATAAACCACTAGTCAAACAAGTGACT--GGC-GACTAAAATACGTTGTA
*
46965949 GATAAACCACTGTTCGAGTAGGTGACTGTTGA
63 GATAAACCACTGATCGAGTAGGTGACTGTTGA
* * * *
46965981 CTAAAATA-AGTTATGGATAAACCACTAGTCAAACAGGTGACTGGCGACTAAAATATGTTGTGGG
1 CTAAAATACA-TTATGGATAAACCACTAGTCAAACAAGTGACTGGCGACTAAAATACGTTGTAGA
46966045 TAAACCACTGATCGAG
65 TAAACCACTGATCGAG
46966061 AAGATAAACT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
94 31 0.44
95 2 0.03
96 1 0.01
97 36 0.51
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (94 bp):
CTAAAATACATTATGGATAAACCACTAGTCAAACAAGTGACTGGCGACTAAAATACGTTGTAGAT
AAACCACTGATCGAGTAGGTGACTGTTGA
Found at i:46970238 original size:28 final size:28
Alignment explanation
Indices: 46970183--46970238 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
46970173 TAGTTTTAAC
* *
46970183 ACGTTTTTGCTCAAATTGATCTATATCT
1 ACGTTTTTGCTCAAATTGATCCAAATCT
46970211 ACGTTTTTGCTCAAATTGATCCAAATCT
1 ACGTTTTTGCTCAAATTGATCCAAATCT
46970239 CGTGGAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.43
Consensus pattern (28 bp):
ACGTTTTTGCTCAAATTGATCCAAATCT
Found at i:46971015 original size:17 final size:17
Alignment explanation
Indices: 46970989--46971093 Score: 81
Period size: 17 Copynumber: 6.2 Consensus size: 17
46970979 CGAGCCCTGT
* *
46970989 TATGTTATATGCGAATC
1 TATGTGATATGCGAACC
*
46971006 TATGTGATATGCAAACC
1 TATGTGATATGCGAACC
*
46971023 TATACT-ATATGCGAA-C
1 TAT-GTGATATGCGAACC
*
46971039 TATACTG-TGATGCGAACC
1 TAT-GTGAT-ATGCGAACC
* **
46971057 CATGTGATATGTAAACC
1 TATGTGATATGCGAACC
*
46971074 TATGTTATATGCGAACC
1 TATGTGATATGCGAACC
46971091 TAT
1 TAT
46971094 ACTATGTGCA
Statistics
Matches: 70, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
16 8 0.11
17 57 0.81
18 5 0.07
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (17 bp):
TATGTGATATGCGAACC
Found at i:46971062 original size:51 final size:52
Alignment explanation
Indices: 46970997--46971096 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 52
46970987 GTTATGTTAT
* *
46970997 ATGCGAATCTATGTGATATGCAAACCTATACTATATGCGAA-CTATACTGTG
1 ATGCGAACCCATGTGATATGCAAACCTATACTATATGCGAACCTATACTGTG
* **
46971048 ATGCGAACCCATGTGATATGTAAACCTATGTTATATGCGAACCTATACT
1 ATGCGAACCCATGTGATATGCAAACCTATACTATATGCGAACCTATACT
46971097 ATGTGCAAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 36 0.84
52 7 0.16
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (52 bp):
ATGCGAACCCATGTGATATGCAAACCTATACTATATGCGAACCTATACTGTG
Found at i:46971067 original size:34 final size:33
Alignment explanation
Indices: 46971014--46971133 Score: 100
Period size: 34 Copynumber: 3.6 Consensus size: 33
46971004 TCTATGTGAT
* * *
46971014 ATGCAAACCTATACTATATGCGAACTATACTGTG
1 ATGCGAACCTAT-GTATATGCAAACTATACTGTG
* * ** *
46971048 ATGCGAACCCATGTGATATGTAAACCTATGTTAT-
1 ATGCGAACCTATGT-ATATGCAAA-CTATACTGTG
* *
46971082 ATGCGAACCTATACTATGTGCAAACTATACTGTG
1 ATGCGAACCTAT-GTATATGCAAACTATACTGTG
46971116 ATGCGAACCTATGT-TATG
1 ATGCGAACCTATGTATATG
46971134 TATGAATTAT
Statistics
Matches: 65, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
32 3 0.05
33 8 0.12
34 47 0.72
35 7 0.11
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (33 bp):
ATGCGAACCTATGTATATGCAAACTATACTGTG
Found at i:46971134 original size:34 final size:34
Alignment explanation
Indices: 46971036--46971134 Score: 101
Period size: 34 Copynumber: 2.9 Consensus size: 34
46971026 ACTATATGCG
* * * *
46971036 AACTATACTGTGATGCGAACCCATGTGATATGTA
1 AACTATACTGTGATGCGAACCTATGTTATGTGCA
** * **
46971070 AACCTATGTTAT-ATGCGAACCTATACTATGTGCA
1 AA-CTATACTGTGATGCGAACCTATGTTATGTGCA
46971104 AACTATACTGTGATGCGAACCTATGTTATGT
1 AACTATACTGTGATGCGAACCTATGTTATGT
46971135 ATGAATTATT
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
33 6 0.12
34 37 0.76
35 6 0.12
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (34 bp):
AACTATACTGTGATGCGAACCTATGTTATGTGCA
Found at i:46971161 original size:34 final size:34
Alignment explanation
Indices: 46971121--46971200 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 34
46971111 CTGTGATGCG
* * *
46971121 AACCTATGTTATGTATGAATTATTCTGTTATACG
1 AACCTATGTTATGTATGAATTATGCTGATATACA
* * *
46971155 AGCCTATGTTATGTATGACTTATGCTGATATGCA
1 AACCTATGTTATGTATGAATTATGCTGATATACA
46971189 AACCTATGTTAT
1 AACCTATGTTAT
46971201 AAGTGAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (34 bp):
AACCTATGTTATGTATGAATTATGCTGATATACA
Found at i:46971161 original size:68 final size:66
Alignment explanation
Indices: 46971005--46971135 Score: 183
Period size: 68 Copynumber: 2.0 Consensus size: 66
46970995 ATATGCGAAT
* * *
46971005 CTATGTGATATGCAAACCTATACTATATGCGAACTATACTGTGATGCGAACCCATGTGATATGTA
1 CTATGTTATA-GCGAACCTATACTATATGCAAACTATACTGTGATGCGAACCCATGT-ATATGTA
46971070 AAC
64 AAC
* *
46971073 CTATGTTATATGCGAACCTATACTATGTGCAAACTATACTGTGATGCGAACCTATGT-TATGTA
1 CTATGTTATA-GCGAACCTATACTATATGCAAACTATACTGTGATGCGAACCCATGTATATGTA
46971136 TGAATTATTC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 6 0.10
68 52 0.90
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (66 bp):
CTATGTTATAGCGAACCTATACTATATGCAAACTATACTGTGATGCGAACCCATGTATATGTAAA
C
Found at i:46988672 original size:79 final size:82
Alignment explanation
Indices: 46988561--46988745 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
46988551 GCTACTCGTT
* *
46988561 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCATTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCATTC-GGATCTTAACCC
* *
46988624 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * * **
46988641 CAAATGCCTTCGAG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCATTCGGATCTTAACCCG
* *
46988704 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
46988721 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46988746 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 33 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCATTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:46988745 original size:40 final size:40
Alignment explanation
Indices: 46988542--46988745 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
46988532 CGGAATTTAA
** *
46988542 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
46988582 CCGGTTATAGTAACTCGCACAAATGCATTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46988622 CCGGATTTAGTAACTCGCACAAATGCCTTCGAG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46988661 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
46988701 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
46988741 CCGGA
1 CCGGA
46988746 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 91 0.66
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:46996697 original size:40 final size:40
Alignment explanation
Indices: 46996497--46996697 Score: 218
Period size: 40 Copynumber: 5.1 Consensus size: 40
46996487 CGGAATTTAA
** *
46996497 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46996537 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
46996577 CC-GATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
46996614 CCGGATTTA-TAACTCGTACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
46996653 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
46996693 CCGGA
1 CCGGA
46996698 CATCATTCAA
Statistics
Matches: 138, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
37 28 0.20
38 8 0.06
39 38 0.28
40 54 0.39
41 10 0.07
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47006585 original size:50 final size:50
Alignment explanation
Indices: 47006469--47006711 Score: 362
Period size: 50 Copynumber: 4.8 Consensus size: 50
47006459 GATAATGACA
* * ** *
47006469 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
47006520 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTAC-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
47006570 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
47006620 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
47006670 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
47006712 TTACCCAAAT
Statistics
Matches: 174, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
49 1 0.01
50 139 0.80
51 34 0.20
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:47009852 original size:17 final size:18
Alignment explanation
Indices: 47009830--47009892 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 18
47009820 GTTTTTTTCT
*
47009830 TTATATTATTA-ATTTTA
1 TTATATTATTATATTATA
47009847 TTATATTAGTTATTATTATA
1 TTATATTA-TTA-TATTATA
*
47009867 TTATATTCATTATACTTACA
1 TTATATT-ATTATA-TTATA
47009887 TTATAT
1 TTATAT
47009893 GCGCGTATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 8 0.21
18 3 0.08
19 2 0.05
20 25 0.64
21 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (18 bp):
TTATATTATTATATTATA
Done.