Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 158 of 433
Found at i:49329242 original size:20 final size:20
Alignment explanation
Indices: 49329219--49329256 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49329209 CACATCCAAA
*
49329219 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
49329239 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
49329257 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:49335576 original size:28 final size:28
Alignment explanation
Indices: 49335530--49335598 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
49335520 TTTAAAACCC
*
49335530 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
49335557 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
49335585 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
49335599 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:49337248 original size:20 final size:20
Alignment explanation
Indices: 49337225--49337262 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49337215 CACATCCAAA
*
49337225 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
49337245 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
49337263 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:49338565 original size:16 final size:15
Alignment explanation
Indices: 49338525--49338566 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
49338515 AGATGATAAT
49338525 TATTAATATATAATTA
1 TATTAAT-TATAATTA
49338541 TA-TACATTATAATATA
1 TATTA-ATTATAAT-TA
49338557 TATTAATTAT
1 TATTAATTAT
49338567 TATCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 8 0.35
16 13 0.57
17 2 0.09
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:49338773 original size:17 final size:18
Alignment explanation
Indices: 49338747--49338780 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
49338737 TTTTTGTTTA
49338747 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
49338764 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
49338781 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:49342747 original size:24 final size:24
Alignment explanation
Indices: 49342720--49342794 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
49342710 AACATGCATT
49342720 TGTGTGCTAAGGCCGAATGGCAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
* * **
49342744 TGTGATG--AATG-TGAACAT-GCATT
1 TGTG-TGCTAAGGCCG-A-ATGGCAAA
49342767 TGTGTGCTAAGGCCGAATGGCAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
49342791 TGTG
1 TGTG
49342795 ATGAATGTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 13 0.36
24 17 0.47
25 3 0.08
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (24 bp):
TGTGTGCTAAGGCCGAATGGCAAA
Found at i:49342984 original size:22 final size:22
Alignment explanation
Indices: 49342909--49342986 Score: 63
Period size: 22 Copynumber: 3.4 Consensus size: 22
49342899 ACATGCATAT
*
49342909 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
49342931 ATGTGATAAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
49342955 CATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
49342978 ATGTGATAA
1 ATGTGATAA
49342987 ACGTGGATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 18
0.68 0.05 0.28
Matches are distributed among these distances:
22 17 0.39
23 10 0.23
24 9 0.20
25 8 0.18
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:49342987 original size:47 final size:47
Alignment explanation
Indices: 49342680--49342984 Score: 457
Period size: 47 Copynumber: 6.5 Consensus size: 47
49342670 ATACATGAGC
* * *
49342680 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
49342727 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
49342774 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
49342821 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
49342868 TAAGGCCGAATGGCCAATGTGAAGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* **
49342915 TAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATACATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
*
49342962 TAAGGCAGAATGGCCAATGTGAT
1 TAAGGCCGAATGGCCAATGTGAT
49342985 AAACGTGGAT
Statistics
Matches: 243, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 243 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:49343017 original size:94 final size:94
Alignment explanation
Indices: 49342680--49343021 Score: 393
Period size: 94 Copynumber: 3.6 Consensus size: 94
49342670 ATACATGAGC
* * * * ** * *
49342680 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAAAT
1 TAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGAGAAAGCCGAATGGCCAAT
* *
49342745 GTGATGAATGTGAACATGCATTTGTGTGC
66 GTGATGAATGTGAACATGCATATGTGTGA
* * *
49342774 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCAT-T-TGTGTGATAAGACCGAATGGCCA
1 TAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGAGA-AAG-CCGAATGGCCA
*
49342837 ATGTGATGAATGTGAACATGTATATGTGTGA
64 ATGTGATGAATGTGAACATGCATATGTGTGA
* * *
49342868 TAAGGCCGAATGGCCAATGTGA-AGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAA
1 TAAGGCCGAATGGCCAATGTGATA-AATGTGAACATGCATATATGTGAGAAAGCCGAATGGCCAA
* **
49342932 TGTGATAAATGTGAACATGCATACATGTGA
65 TGTGATGAATGTGAACATGCATATGTGTGA
* * * ** * *
49342962 TAAGGCAGAATGGCCAATGTGATAAACGTGGATGTGTATATATGTGGGAAAGCCGAATGG
1 TAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGAGAAAGCCGAATGG
49343022 TTAATGCGAA
Statistics
Matches: 215, Mismatches: 27, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
92 5 0.02
93 3 0.01
94 198 0.92
95 4 0.02
96 5 0.02
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (94 bp):
TAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGAGAAAGCCGAATGGCCAAT
GTGATGAATGTGAACATGCATATGTGTGA
Found at i:49343017 original size:141 final size:141
Alignment explanation
Indices: 49342687--49343021 Score: 391
Period size: 141 Copynumber: 2.4 Consensus size: 141
49342677 AGCTAAGGCC
* * * * * * ** * *
49342687 GAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAAATGTGATGA
1 GAATGGCCAATGTGATAAACGTGAACATGTATATATGTGAGAAAGCCGAATGGCAAATGTGAAGA
* * * * * ***
49342752 ATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGT
66 ATATGAACATGCATATATGTGATAAGGCCGAATGGCAAATGTGATAAATGTGAACATGCATACAT
*
49342817 GTGATAAGACC
131 GTGATAAGACA
* * * * * *
49342828 GAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGAAGA
1 GAATGGCCAATGTGATAAACGTGAACATGTATATATGTGAGAAAGCCGAATGGCAAATGTGAAGA
*
49342893 ATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATACAT
66 ATATGAACATGCATATATGTGATAAGGCCGAATGGCAAATGTGATAAATGTGAACATGCATACAT
*
49342958 GTGATAAGGCA
131 GTGATAAGACA
* ** *
49342969 GAATGGCCAATGTGATAAACGTGGATGTGTATATATGTGGGAAAGCCGAATGG
1 GAATGGCCAATGTGATAAACGTGAACATGTATATATGTGAGAAAGCCGAATGG
49343022 TTAATGCGAA
Statistics
Matches: 168, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
141 168 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (141 bp):
GAATGGCCAATGTGATAAACGTGAACATGTATATATGTGAGAAAGCCGAATGGCAAATGTGAAGA
ATATGAACATGCATATATGTGATAAGGCCGAATGGCAAATGTGATAAATGTGAACATGCATACAT
GTGATAAGACA
Found at i:49343054 original size:46 final size:46
Alignment explanation
Indices: 49343001--49343091 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
49342991 GGATGTGTAT
* * *
49343001 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
49343047 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
49343092 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:49346385 original size:22 final size:19
Alignment explanation
Indices: 49346360--49346407 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
49346350 TACCATTTCG
49346360 ATTAAATTCTTGTCAAAAAATA
1 ATTAAATT-TT-T-AAAAAATA
*
49346382 ATT-AATTTTTATAAAATA
1 ATTAAATTTTTAAAAAATA
49346400 ATTAAATT
1 ATTAAATT
49346408 ATACTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.42
19 5 0.21
20 2 0.08
21 4 0.17
22 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTTTTAAAAAATA
Found at i:49350860 original size:27 final size:27
Alignment explanation
Indices: 49350822--49351434 Score: 487
Period size: 27 Copynumber: 22.9 Consensus size: 27
49350812 TAAGACCATT
* *
49350822 GTTTGCAAAATTACCGAAATACCCCCA
1 GTTTGTAAAATTACCAAAATACCCCCA
* * *
49350849 GTTTGTAAAATTACCGAAATACTCTC-
1 GTTTGTAAAATTACCAAAATACCCCCA
* *
49350875 GAATTGTAAAATTACCAAAATACCCTC-
1 G-TTTGTAAAATTACCAAAATACCCCCA
*
49350902 GATTTGTAAAATTACCAAAATACCTCC-
1 G-TTTGTAAAATTACCAAAATACCCCCA
* *
49350929 GATTTGTAAAATTATCGAAATACCCCCA
1 G-TTTGTAAAATTACCAAAATACCCCCA
* * **
49350957 TTTTGTAAAATTATCAAAATA-CCCTT
1 GTTTGTAAAATTACCAAAATACCCCCA
* * *
49350983 GAATTGTAAAATTACCGAAA-ACCCTCA
1 G-TTTGTAAAATTACCAAAATACCCCCA
* *
49351010 GTTTGTAAAATTACCAAAATACGCAC-
1 GTTTGTAAAATTACCAAAATACCCCCA
** * **
49351036 GATTTGTAAAATTACTGAAATACTCTTA
1 G-TTTGTAAAATTACCAAAATACCCCCA
**
49351064 -TATTGTAAAATTACTGAAATACCCCCA
1 GT-TTGTAAAATTACCAAAATACCCCCA
* * *
49351091 GTTTGTAAAATTATCAAAATACCCTCT
1 GTTTGTAAAATTACCAAAATACCCCCA
* *
49351118 GTTTGTAAAATTACCGAAATA-CCCCG
1 GTTTGTAAAATTACCAAAATACCCCCA
* * **
49351144 GTTTATAAAATTACTAAAATACCATCA
1 GTTTGTAAAATTACCAAAATACCCCCA
* *
49351171 GTTTGTAAAATTACCAAAATGCCCTCA
1 GTTTGTAAAATTACCAAAATACCCCCA
** * * *
49351198 AATTGTAAAATTATCGAAATA-CCCTA
1 GTTTGTAAAATTACCAAAATACCCCCA
49351224 G-TTGTAAAATTACCAAAATACCCCCA
1 GTTTGTAAAATTACCAAAATACCCCCA
* *
49351250 GTTTGTAAAATTACCAAAATACTCTC-
1 GTTTGTAAAATTACCAAAATACCCCCA
*** * *
49351276 GATTTGTAAAATTATTGAAATACCCTCT
1 G-TTTGTAAAATTACCAAAATACCCCCA
** * * *
49351304 GACTGTAAAATTATCGAAATACCCCGA
1 GTTTGTAAAATTACCAAAATACCCCCA
* * *
49351331 -TTTGTAAAATTATCGAAATACCCTCA
1 GTTTGTAAAATTACCAAAATACCCCCA
** * * **
49351357 AATTATAAAATTATCAAAATA-CCCTT
1 GTTTGTAAAATTACCAAAATACCCCCA
49351383 GATTTGTAAAATTACCAAAATACCCCCA
1 G-TTTGTAAAATTACCAAAATACCCCCA
*
49351411 GTTTGTAAAATTACTAAAATACCC
1 GTTTGTAAAATTACCAAAATACCC
49351435 TTATAGTGTA
Statistics
Matches: 475, Mismatches: 94, Indels: 34
0.79 0.16 0.06
Matches are distributed among these distances:
25 17 0.04
26 77 0.16
27 375 0.79
28 6 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
GTTTGTAAAATTACCAAAATACCCCCA
Found at i:49351387 original size:107 final size:107
Alignment explanation
Indices: 49350823--49351423 Score: 550
Period size: 107 Copynumber: 5.6 Consensus size: 107
49350813 AAGACCATTG
* * * *
49350823 TTTGCAAAATTACCGAAATACCC-CCAGTTTGTAAAATTACCGAAATACTCTC-GAATTGTAAAA
1 TTTGTAAAATTA-CAAAATACCCTTCA-TTTGTAAAATTACCGAAATACCCTCAG-ATTGTAAAA
* *
49350886 TTACCAAAATACCCTCGATTTGTAAAATTACCAAAATA-CCTCCGA
63 TTATCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCT-CGA
* * * * *
49350931 TTTGTAAAATTATCGAAATACCC-CCATTTTGTAAAATTATCAAAATACCCT-TGAATTGTAAAA
1 TTTGTAAAATTA-CAAAATACCCTTCA-TTTGTAAAATTACCGAAATACCCTCAG-ATTGTAAAA
* * *
49350994 TTACCGAAA-ACCCTC-AGTTTGTAAAATTACCAAAATACGCACGA
63 TTATCGAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCTCGA
* * * * *
49351038 TTTGTAAAATTACTGAAATACTCTT-ATATTGTAAAATTACTGAAATACCCCCAGTTTGTAAAAT
1 TTTGTAAAATTAC-AAAATACCCTTCAT-TTGTAAAATTACCGAAATACCCTCAGATTGTAAAAT
* * *
49351102 TATCAAAATACCCTCTG-TTTGTAAAATTACCGAAATACCC-CGG
64 TATCGAAATACCCTC-GATTTGTAAAATTACCAAAATACCCTCGA
* * * * *
49351145 TTTATAAAATTACTAAAATA-CCATCAGTTTGTAAAATTACCAAAATGCCCTCAAATTGTAAAAT
1 TTTGTAAAATTAC-AAAATACCCTTCA-TTTGTAAAATTACCGAAATACCCTCAGATTGTAAAAT
* *
49351209 TATCGAAATACCCT--AGTTGTAAAATTACCAAAATACCC-CCA
64 TATCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGA
* ** * *
49351250 GTTTGTAAAATTACCAAAATACTC-TCGATTTGTAAAATTATTGAAATACCCTCTGACTGTAAAA
1 -TTTGTAAAATTA-CAAAATACCCTTC-ATTTGTAAAATTACCGAAATACCCTCAGATTGTAAAA
* * *
49351314 TTATCGAAATACCC-CGATTTGTAAAATTATCGAAATACCCTCAA
63 TTATCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGA
* * * * * *
49351358 ATTATAAAATTATCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCCAGTTTGTAAAATT
1 TTTGTAAAATTA-CAAAATACCCTTCATTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATT
49351423 A
65 A
49351424 CTAAAATACC
Statistics
Matches: 410, Mismatches: 62, Indels: 43
0.80 0.12 0.08
Matches are distributed among these distances:
105 22 0.05
106 67 0.16
107 224 0.55
108 97 0.24
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (107 bp):
TTTGTAAAATTACAAAATACCCTTCATTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATTA
TCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGA
Found at i:49351445 original size:134 final size:132
Alignment explanation
Indices: 49350850--49351462 Score: 659
Period size: 134 Copynumber: 4.6 Consensus size: 132
49350840 ATACCCCCAG
* * *
49350850 TTTGTAAAATTACCGAAATACTCTCGAATTGTAAAATTACCAAAATACCCTCGATTTGTAAAATT
1 TTTGTAAAATTACCGAAATACCCTCG-TTTGTAAAATTACTAAAATACCCT-GATTTGTAAAATT
* *
49350915 ACCAAAATACCTCCGATTTGTAAAATTATCGAAATACCCCCATTTTGTAAAATTATCAAAATACC
64 ACCGAAATACC-CCGATTTGTAAAATTATCGAAATACCCCCAATTTGTAAAATTATCAAAATACC
49350980 CTTGA
128 CTTGA
* *
49350985 ATTGTAAAATTACCGAAA-ACCCTCAGTTTGTAAAATTACCAAAATACGCAC-GATTTGTAAAAT
1 TTTGTAAAATTACCGAAATACCCTC-GTTTGTAAAATTACTAAAATAC-C-CTGATTTGTAAAAT
* * ** *
49351048 TACTGAAATACTCTTATATTGTAAAATTA-CTGAAATACCCCCAGTTTGTAAAATTATCAAAATA
63 TACCGAAATACCCCGAT-TTGTAAAATTATC-GAAATACCCCCAATTTGTAAAATTATCAAAATA
49351112 CCCTCTG-
126 CCCT-TGA
* * *
49351119 TTTGTAAAATTACCGAAATACCC-CGGTTTATAAAATTACTAAAATACCATCAGTTTGTAAAATT
1 TTTGTAAAATTACCGAAATACCCTC-GTTTGTAAAATTACTAAAATACCCTGA-TTTGTAAAATT
* * * * * * *
49351183 ACCAAAATGCCCTCAAATTGTAAAATTATCGAAATA--CCCTAGTTGTAAAATTACCAAAATACC
64 ACCGAAATACCC-CGATTTGTAAAATTATCGAAATACCCCCAATTTGTAAAATTATCAAAATACC
**
49351246 C-CCA
128 CTTGA
* * * * *
49351250 GTTTGTAAAATTACCAAAATACTCTCGATTTGTAAAATTATTGAAATACCCTCTGA-CTGTAAAA
1 -TTTGTAAAATTACCGAAATACCCTCG-TTTGTAAAATTACTAAAATA-CC-CTGATTTGTAAAA
* * * *
49351314 TTATCGAAATACCCCGATTTGTAAAATTATCGAAATACCCTCAAATTATAAAATTATCAAAATAC
62 TTACCGAAATACCCCGATTTGTAAAATTATCGAAATACCCCCAATTTGTAAAATTATCAAAATAC
49351379 CCTTGA
127 CCTTGA
* * * *
49351385 TTTGTAAAATTACCAAAATACCCCCAGTTTGTAAAATTACTAAAATACCCTTATAGTGTAAAATT
1 TTTGTAAAATTACCGAAATACCCTC-GTTTGTAAAATTACTAAAATACCCTGAT-TTGTAAAATT
*
49351450 ACCGAAACACCCC
64 ACCGAAATACCCC
49351463 TTAGGGTAAA
Statistics
Matches: 399, Mismatches: 56, Indels: 47
0.79 0.11 0.09
Matches are distributed among these distances:
132 70 0.18
133 44 0.11
134 253 0.63
135 31 0.08
136 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (132 bp):
TTTGTAAAATTACCGAAATACCCTCGTTTGTAAAATTACTAAAATACCCTGATTTGTAAAATTAC
CGAAATACCCCGATTTGTAAAATTATCGAAATACCCCCAATTTGTAAAATTATCAAAATACCCTT
GA
Found at i:49351461 original size:27 final size:26
Alignment explanation
Indices: 49351387--49351474 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
49351377 ACCCTTGATT
* *
49351387 TGTAAAATTACCAAAATACCCC-CAG
1 TGTAAAATTACCAAAACACCCCTTAG
* * *
49351412 TTTGTAAAATTACTAAAATACCCTTATAG
1 --TGTAAAATTACCAAAACACCCCT-TAG
*
49351441 TGTAAAATTACCGAAACACCCCTTAG
1 TGTAAAATTACCAAAACACCCCTTAG
*
49351467 GGTAAAAT
1 TGTAAAAT
49351475 GGCTGTTTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
26 10 0.20
27 39 0.76
29 2 0.04
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.27
Consensus pattern (26 bp):
TGTAAAATTACCAAAACACCCCTTAG
Found at i:49351859 original size:22 final size:22
Alignment explanation
Indices: 49351829--49351870 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
49351819 GCAGCTTAAT
*
49351829 CTAATTATGGCTCTGTGCCAAC
1 CTAAATATGGCTCTGTGCCAAC
*
49351851 CTAAATATGGCTTTGTGCCA
1 CTAAATATGGCTCTGTGCCA
49351871 TCTTGTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (22 bp):
CTAAATATGGCTCTGTGCCAAC
Found at i:49359585 original size:33 final size:32
Alignment explanation
Indices: 49359494--49359587 Score: 97
Period size: 33 Copynumber: 3.0 Consensus size: 32
49359484 ACATGACTAC
* *
49359494 ACTGTACTGATACTGAATTGGGCTTTGGCCC-
1 ACTGTACTGTTACTGAATAGGGCTTTGGCCCA
* * **
49359525 A---TACTGTTTCTGTATAGGGCTAAGGCCCA
1 ACTGTACTGTTACTGAATAGGGCTTTGGCCCA
49359554 GACTGTACTGTTACTGAATAGGGCTTTGGCCCA
1 -ACTGTACTGTTACTGAATAGGGCTTTGGCCCA
49359587 A
1 A
49359588 ACTATTATTG
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
28 21 0.44
30 1 0.02
31 1 0.02
32 1 0.02
33 24 0.50
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (32 bp):
ACTGTACTGTTACTGAATAGGGCTTTGGCCCA
Found at i:49362615 original size:23 final size:23
Alignment explanation
Indices: 49362518--49362627 Score: 86
Period size: 23 Copynumber: 4.8 Consensus size: 23
49362508 TTGAGCTAGT
49362518 GGTAAGCTCCGT-AGAGCTGAAAC
1 GGTAAGCT-CGTAAGAGCTGAAAC
*
49362541 GATAAGCCTC-TAAG-GACTGAAAC
1 GGTAAG-CTCGTAAGAG-CTGAAAC
* * * *
49362564 AGTATGATCCG-AAGAGCT-AAAT
1 GGTAAGCT-CGTAAGAGCTGAAAC
49362586 GGTAAGCTCGTAAGAGCTGAAAC
1 GGTAAGCTCGTAAGAGCTGAAAC
* *
49362609 GGTAAGCTCATACGAGCTG
1 GGTAAGCTCGTAAGAGCTG
49362628 TGGTGTGTCT
Statistics
Matches: 67, Mismatches: 12, Indels: 16
0.71 0.13 0.17
Matches are distributed among these distances:
21 2 0.03
22 18 0.27
23 44 0.66
24 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (23 bp):
GGTAAGCTCGTAAGAGCTGAAAC
Found at i:49367122 original size:11 final size:11
Alignment explanation
Indices: 49367106--49367131 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49367096 ATACTTTAAT
49367106 TAAAAACTTTA
1 TAAAAACTTTA
49367117 TAAAAACTTTA
1 TAAAAACTTTA
49367128 TAAA
1 TAAA
49367132 CTTAACATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAAACTTTA
Found at i:49367730 original size:13 final size:13
Alignment explanation
Indices: 49367712--49367737 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49367702 TCTACAGATC
49367712 TCTTTCTGAAGTA
1 TCTTTCTGAAGTA
49367725 TCTTTCTGAAGTA
1 TCTTTCTGAAGTA
49367738 AAAACGGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
TCTTTCTGAAGTA
Found at i:49370316 original size:17 final size:18
Alignment explanation
Indices: 49370294--49370327 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49370284 TTTTGGGCTT
49370294 TGTGGG-CCACACGGGCG
1 TGTGGGACCACACGGGCG
*
49370311 TGTGGGACCACATGGGC
1 TGTGGGACCACACGGGC
49370328 CCGCAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.26, G:0.44, T:0.15
Consensus pattern (18 bp):
TGTGGGACCACACGGGCG
Found at i:49370485 original size:27 final size:27
Alignment explanation
Indices: 49370453--49370641 Score: 211
Period size: 27 Copynumber: 7.0 Consensus size: 27
49370443 GATAAATGTT
* *
49370453 TATTTTGCCCTTACGTGGTAAAAAGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
* * *
49370480 TATTTTGCCCTTATGGGGTAAAATTAT
1 TATTTTGCCCTTATGTGGTAAAATGAC
* * * *
49370507 TGTTTTGCCCTTATGAGGTGAAATAAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
* *
49370534 TGTTTTGTCCTTATGTGGTAAAATGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
**
49370561 -AGTTTT-CCCCCATGTGGTAAAATGAC
1 TA-TTTTGCCCTTATGTGGTAAAATGAC
*
49370587 TATTTTGCCCTTATGAGGTAAAATGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
* *
49370614 TTTTTTACCCTTATGTGGTAAAATGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
49370641 T
1 T
49370642 GAAATGCCCT
Statistics
Matches: 135, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
26 21 0.16
27 114 0.84
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.39
Consensus pattern (27 bp):
TATTTTGCCCTTATGTGGTAAAATGAC
Found at i:49370599 original size:80 final size:81
Alignment explanation
Indices: 49370455--49370641 Score: 234
Period size: 80 Copynumber: 2.3 Consensus size: 81
49370445 TAAATGTTTA
* * ** * * *
49370455 TTTTGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATGGGGTAAAATTATTGTTTTGCCCTTA
1 TTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCCCATGGGGTAAAATGACTATTTTGCCCTTA
*
49370520 TGAGGTGAAATAACTG
66 TGAGGTAAAATAACTG
* *
49370536 TTTTGTCCTTATGTGGTAAAATGAC-AGTTTT-CCCCCATGTGGTAAAATGACTATTTTGCCCTT
1 TTTTGCCCTTATGTGGTAAAATGACTA-TTTTGCCCCCATGGGGTAAAATGACTATTTTGCCCTT
* *
49370599 ATGAGGTAAAATGACTT
65 ATGAGGTAAAATAACTG
*
49370616 TTTTACCCTTATGTGGTAAAATGACT
1 TTTTGCCCTTATGTGGTAAAATGACT
49370642 GAAATGCCCT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 64 0.71
81 26 0.29
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (81 bp):
TTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCCCATGGGGTAAAATGACTATTTTGCCCTTA
TGAGGTAAAATAACTG
Found at i:49370651 original size:27 final size:27
Alignment explanation
Indices: 49370456--49370676 Score: 171
Period size: 27 Copynumber: 8.3 Consensus size: 27
49370446 AAATGTTTAT
* *
49370456 TTTGCCCTTACGTGGTAAAAAGACT-A
1 TTTGCCCTTATGTGGTAAAATGACTGA
* * * *
49370482 TTTTGCCCTTATGGGGTAAAATTATTGT
1 -TTTGCCCTTATGTGGTAAAATGACTGA
* * * *
49370510 TTTGCCCTTATGAGGTGAAATAACTGT
1 TTTGCCCTTATGTGGTAAAATGACTGA
* *
49370537 TTTGTCCTTATGTGGTAAAATGACAG-
1 TTTGCCCTTATGTGGTAAAATGACTGA
* **
49370563 TTTTCCCCCATGTGGTAAAATGACT-A
1 TTTGCCCTTATGTGGTAAAATGACTGA
* **
49370589 TTTTGCCCTTATGAGGTAAAATGACTTT
1 -TTTGCCCTTATGTGGTAAAATGACTGA
*
49370617 TTTACCCTTATGTGGTAAAATGACTGA
1 TTTGCCCTTATGTGGTAAAATGACTGA
** ** * *
49370644 AATGCCC-TACATGGTAAATTGACTGT
1 TTTGCCCTTATGTGGTAAAATGACTGA
49370670 TTTGCCC
1 TTTGCCC
49370677 CTATATGAGT
Statistics
Matches: 152, Mismatches: 38, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
26 40 0.26
27 112 0.74
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (27 bp):
TTTGCCCTTATGTGGTAAAATGACTGA
Found at i:49370659 original size:80 final size:80
Alignment explanation
Indices: 49370509--49370685 Score: 201
Period size: 80 Copynumber: 2.2 Consensus size: 80
49370499 AAAATTATTG
* ** *** *
49370509 TTTTGCCCTTATGAGGTGAAATAACTGTTTTGTCCTTATGTGGTAAAATGACAGTTTTCCCCCAT
1 TTTTGCCCTTATGAGGTAAAATAACTGTTTTACCCTTATGTGGTAAAATGACAGAAATCCCCCAC
*
49370574 GTGGTAAAATGACTA
66 ATGGTAAAATGACTA
* * * * *
49370589 TTTTGCCCTTATGAGGTAAAATGACTTTTTTACCCTTATGTGGTAAAATGACTGAAATGCCCTAC
1 TTTTGCCCTTATGAGGTAAAATAACTGTTTTACCCTTATGTGGTAAAATGACAGAAATCCCCCAC
* *
49370654 ATGGTAAATTGACTG
66 ATGGTAAAATGACTA
49370669 TTTTGCCCCTATATGAG
1 TTTTG-CCCT-TATGAG
49370686 TTATTTATAT
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
80 70 0.88
81 4 0.05
82 6 0.08
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (80 bp):
TTTTGCCCTTATGAGGTAAAATAACTGTTTTACCCTTATGTGGTAAAATGACAGAAATCCCCCAC
ATGGTAAAATGACTA
Found at i:49370771 original size:5 final size:5
Alignment explanation
Indices: 49370761--49370785 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
49370751 GTATGATTCT
49370761 ATGAC ATGAC ATGAC ATGAC ATGAC
1 ATGAC ATGAC ATGAC ATGAC ATGAC
49370786 TGTACGATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
ATGAC
Found at i:49373429 original size:22 final size:23
Alignment explanation
Indices: 49373404--49373455 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
49373394 GTAACCTCTG
*
49373404 AAGAGCT-TAATGGTAAGCTCAT
1 AAGAGCTAAAATGGTAAGCTCAT
49373426 AAGAGCTAAAATGGTAAGCTCAT
1 AAGAGCTAAAATGGTAAGCTCAT
*
49373449 ATGAGCT
1 AAGAGCT
49373456 GTGGTGAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (23 bp):
AAGAGCTAAAATGGTAAGCTCAT
Found at i:49375411 original size:27 final size:27
Alignment explanation
Indices: 49375381--49375468 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
49375371 ATTACCAAAG
*
49375381 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
49375408 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
49375435 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
49375462 TACCCTC
1 TACCCTC
49375469 AATTGTGAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:49375494 original size:27 final size:26
Alignment explanation
Indices: 49375464--49375606 Score: 103
Period size: 27 Copynumber: 5.3 Consensus size: 26
49375454 TACCGTTTTA
**
49375464 CCCTCAATTGTGAAATTACTGAAATAC
1 CCCT-AATTGTGAAATTACCAAAATAC
**
49375491 CCCTATAGAGTTG-AATTACCAAAATAC
1 CCCTA-ATTG-TGAAATTACCAAAATAC
*
49375518 CCCTAGTT-TGTAAAGTTACCAAAATAC
1 CCCTAATTGTG-AAA-TTACCAAAATAC
* ** *
49375545 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-AATTGTGAAATTACCAAAATAC
*
49375571 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-AA-TTGTGAAATTACCAAAATAC
49375599 CCCTAATT
1 CCCTAATT
49375607 TACAAAATTA
Statistics
Matches: 90, Mismatches: 17, Indels: 19
0.71 0.13 0.15
Matches are distributed among these distances:
24 2 0.02
26 8 0.09
27 67 0.74
28 11 0.12
29 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (26 bp):
CCCTAATTGTGAAATTACCAAAATAC
Found at i:49375607 original size:27 final size:27
Alignment explanation
Indices: 49375504--49375616 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
49375494 TATAGAGTTG
*
49375504 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * ** *
49375531 AGTTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
49375558 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
49375585 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
49375612 AATTA
1 AATTA
49375617 TAGAAATACC
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
26 3 0.04
27 64 0.90
28 4 0.06
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:49375615 original size:54 final size:53
Alignment explanation
Indices: 49375443--49375628 Score: 133
Period size: 54 Copynumber: 3.5 Consensus size: 53
49375433 TTTACCCTCG
*** * **
49375443 ATTTACAAAATTACCGTTTTACCCTCAA-TTGTGAAATTACTGAAATACCCCT
1 ATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
** *** * * * *
49375495 ATAGAGTTGAATTACCAAAATACCC-CTAGTTTGTAAAGTTACCAAAATACCACT
1 ATTTA-CAAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCT
* ***
49375549 GGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 -ATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
**
49375603 AATTTACAAAATTATAGAAATACCCT
1 -ATTTACAAAATTACCGAAATACCCT
49375629 TGACTTTCTA
Statistics
Matches: 97, Mismatches: 32, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
52 4 0.04
53 13 0.13
54 78 0.80
55 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (53 bp):
ATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
Found at i:49375623 original size:27 final size:27
Alignment explanation
Indices: 49375565--49375685 Score: 95
Period size: 27 Copynumber: 4.4 Consensus size: 27
49375555 TGAAATTACC
* ** *
49375565 GAAATACCCTCAATTTGTAAAATTACCA
1 GAAATACCCTTAATTTACAAAATTA-TA
*
49375593 -AAATACCCCTAATTTACAAAATTATA
1 GAAATACCCTTAATTTACAAAATTATA
*
49375619 GAAATACCCTTGACTTT-CTAAAAATTATA
1 GAAATACCCTT-AATTTAC--AAAATTATA
* **
49375648 GAAATACCATTGGTTTACAAAATTACT-
1 GAAATACCCTTAATTTACAAAATTA-TA
49375675 GAAATACCCTT
1 GAAATACCCTT
49375686 GGTTTGTAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
26 1 0.01
27 47 0.62
28 8 0.11
29 20 0.26
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
GAAATACCCTTAATTTACAAAATTATA
Found at i:49375687 original size:27 final size:27
Alignment explanation
Indices: 49375605--49375690 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
49375595 ATACCCCTAA
*
49375605 TTTACAAAATTATAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCCTTG-G
*
49375633 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCCTTGG
49375661 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTACAAAATTA-TAGAAATACCCTTGG
49375688 TTT
1 TTT
49375691 GTAGATTTAC
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
27 23 0.45
28 7 0.14
29 21 0.41
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCCTTGG
Found at i:49375773 original size:27 final size:27
Alignment explanation
Indices: 49375743--49375808 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
49375733 TACCCCTAAT
49375743 AGGTAAA-TAGACCGTAA-AGCCCCTGTA
1 AGGTAAAGT-GACCGTAATA-CCCCTGTA
49375770 AGGTAAAGTGACCGTAATACCCCTGTA
1 AGGTAAAGTGACCGTAATACCCCTGTA
* *
49375797 TGGTAAAATGAC
1 AGGTAAAGTGAC
49375809 GAATATGCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
AGGTAAAGTGACCGTAATACCCCTGTA
Found at i:49376914 original size:31 final size:31
Alignment explanation
Indices: 49376865--49376947 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
49376855 CGCTTACAGT
49376865 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
49376895 AAGGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
49376926 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
49376948 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 15 0.31
31 34 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:49381588 original size:40 final size:39
Alignment explanation
Indices: 49381461--49381590 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
49381451 CAGAATATAA
49381461 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCAC-AATGCCTTCGGGTCTTAGC
* ** *
49381501 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCAC-AATGCCTTCGGGTCTTAGC
* *
49381541 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAA-TGCCTTCGGGTCTTAGC
49381581 CCGGATATAA
1 CCGGATATAA
49381591 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.03
40 73 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTTGCACAATGCCTTCGGGTCTTAGC
Found at i:49381605 original size:40 final size:39
Alignment explanation
Indices: 49381477--49381627 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
49381467 ATAACCATGT
* * *
49381477 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
49381517 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
49381557 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
49381596 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
49381628 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:49381611 original size:80 final size:79
Alignment explanation
Indices: 49381461--49381627 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
49381451 CAGAATATAA
*
49381461 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
49381526 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
49381541 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
49381603 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
49381620 CCGGATAT
1 CCGGATAT
49381628 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:49385578 original size:50 final size:49
Alignment explanation
Indices: 49385419--49385687 Score: 185
Period size: 46 Copynumber: 5.7 Consensus size: 49
49385409 ATATGTCTGT
* * * * *
49385419 GCTAGTGTAAGA-CATGTATGGGACAT-GCATCGACATTGAGA--CGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATATGTGAGA
*
49385465 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT----
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATATGTGAGA
* * *
49385509 GTTAGTATAAGACCATGTCTAGGACATGGCATCGGCACGGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATATGTGAGA
* * * *
49385559 GCTAGTGTAAGACCATGTCTGGGACATAGCGTCGGCCTCGAT-T-TCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATGT-GAGA
* *
49385608 G-TCAGTGTAAGACCATGTCTGGGACATGGCATC--AAC-TTGATG-GATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAT-ATGTGA-GA
* * *
49385655 TCCAGTGTAAGACGATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
49385688 AGCATTATAC
Statistics
Matches: 181, Mismatches: 24, Indels: 35
0.75 0.10 0.15
Matches are distributed among these distances:
44 10 0.06
45 16 0.09
46 53 0.29
47 32 0.18
48 2 0.01
49 33 0.18
50 33 0.18
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGTGAGA
Found at i:49385626 original size:99 final size:94
Alignment explanation
Indices: 49385461--49385640 Score: 245
Period size: 99 Copynumber: 1.9 Consensus size: 94
49385451 ACATTGAGAC
*
49385461 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTTAGTATAAGACCATG
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAGTATAAGACCATG
49385526 TCTAGGACATGGCATCGGCACGGATATGT
66 TCTAGGACATGGCATCGGCACGGATATGT
* ** *
49385555 GAGAGCTAGTGTAAGACCATGTCTGGGACATAGCGTCGGCCT-CGATTTCGATAGTCAGTGTAAG
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGAT-G-T-GTCAGTATAAG
*
49385619 ACCATGTCTGGGACATGGCATC
60 ACCATGTCTAGGACATGGCATC
49385641 AACTTGATGG
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
94 16 0.22
95 14 0.19
96 10 0.14
97 3 0.04
98 1 0.01
99 30 0.41
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (94 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAGTATAAGACCATG
TCTAGGACATGGCATCGGCACGGATATGT
Found at i:49387629 original size:24 final size:22
Alignment explanation
Indices: 49387589--49387634 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
49387579 ATGCCAAAGG
*
49387589 CACACGGGTGTGGCCCTATTTC
1 CACACGGGTGTGACCCTATTTC
*
49387611 CACACGGGCGTGTGACCCTGTTTC
1 CACAC-GG-GTGTGACCCTATTTC
49387635 ATGGGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 2 0.10
24 13 0.65
ACGTcount: A:0.13, C:0.33, G:0.28, T:0.26
Consensus pattern (22 bp):
CACACGGGTGTGACCCTATTTC
Found at i:49391748 original size:2 final size:2
Alignment explanation
Indices: 49391741--49391769 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49391731 GAGACTAGTC
49391741 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49391770 CATGTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49395343 original size:79 final size:79
Alignment explanation
Indices: 49395203--49395424 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 79
49395193 TATTCGAATG
* * * **
49395203 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGC
49395268 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* *
49395284 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGC
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGC
49395347 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * * *
49395363 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGG
49395425 TATGTGATTC
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 64 0.52
80 45 0.37
81 12 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:49395405 original size:40 final size:40
Alignment explanation
Indices: 49395203--49395410 Score: 262
Period size: 40 Copynumber: 5.2 Consensus size: 40
49395193 TATTCGAATG
* * *
49395203 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
49395244 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
*
49395284 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
49395323 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
49395363 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
49395403 ATATCCGG
1 ATATCCGG
49395411 TTAAATTCCG
Statistics
Matches: 147, Mismatches: 14, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
39 37 0.25
40 81 0.55
41 28 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:49403509 original size:79 final size:79
Alignment explanation
Indices: 49403369--49403590 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 79
49403359 TATTCGAATG
* * * **
49403369 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGC
49403434 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* *
49403450 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGC
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGC
49403513 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * * *
49403529 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGG
49403591 TATGTGATTC
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 64 0.52
80 45 0.37
81 12 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:49403571 original size:40 final size:40
Alignment explanation
Indices: 49403369--49403576 Score: 262
Period size: 40 Copynumber: 5.2 Consensus size: 40
49403359 TATTCGAATG
* * *
49403369 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
49403410 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
*
49403450 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
49403489 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
49403529 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
49403569 ATATCCGG
1 ATATCCGG
49403577 TTAAATTCCG
Statistics
Matches: 147, Mismatches: 14, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
39 37 0.25
40 81 0.55
41 28 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:49404437 original size:17 final size:19
Alignment explanation
Indices: 49404416--49404461 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
49404406 CAAGAGCATG
49404416 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
49404434 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
49404452 AATCATGCTC
1 AATCATGCTC
49404462 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:49411457 original size:40 final size:40
Alignment explanation
Indices: 49411412--49411578 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
49411402 CGGAATATAA
49411412 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
49411452 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
49411492 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
49411532 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
49411571 CCGGATAT
1 CCGGATAT
49411579 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49411562 original size:80 final size:79
Alignment explanation
Indices: 49411412--49411578 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
49411402 CGGAATATAA
* *
49411412 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
49411477 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
49411492 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
49411554 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
49411571 CCGGATAT
1 CCGGATAT
49411579 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:49412426 original size:17 final size:19
Alignment explanation
Indices: 49412403--49412448 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
49412393 AAGAAGCATG
49412403 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
49412421 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
49412439 AATCATGCTC
1 AATCATGCTC
49412449 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:49418412 original size:40 final size:40
Alignment explanation
Indices: 49418368--49418497 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
49418358 TCGAATATAA
49418368 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49418408 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
49418448 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
*
49418488 CCAGATATAA
1 CCGGATATAA
49418498 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
40 73 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:49418518 original size:80 final size:79
Alignment explanation
Indices: 49418368--49418534 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
49418358 TCGAATATAA
* *
49418368 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGACTCGCACGAATG
49418433 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
49418448 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCAGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGACTC-GCACGAA
*
49418510 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
49418527 CCGGATAT
1 CCGGATAT
49418535 CATTCAATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 17 0.23
80 57 0.76
81 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:49423008 original size:29 final size:29
Alignment explanation
Indices: 49422975--49423077 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
49422965 GGGACGAGAT
* *
49422975 TGGCACTGAA-TGTGCGAGCTTGTAATGTA
1 TGGCACT-AAGTGTGCGAGCTTGGAATATA
* *
49423004 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
49423033 TGGCACTATGTGTGCGGGCTT-GAATCACA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
49423062 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49423078 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 5 0.08
29 57 0.92
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:49424941 original size:43 final size:43
Alignment explanation
Indices: 49424893--49425098 Score: 220
Period size: 43 Copynumber: 4.8 Consensus size: 43
49424883 AGGTCCTTGT
*
49424893 CTTTAGCGGTGCTTTTTAAAAAAACGCCGCTAAAGA-CAGGGAC
1 CTTTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGACCA-GGAC
* ** * * *
49424936 TTTTAGCCACGCTTTTTTAAAACACGCCGCTAATGACCAGGAC
1 CTTTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGACCAGGAC
*
49424979 CTTTAGCGGCGCTTTTTTAAAAAAACGCCG-TGAATGACCAGGAC
1 CTTTAGCGGCGC-TTTTTAAAAAAACGCCGCT-AAAGACCAGGAC
* * * * *
49425023 TTTTAGCGACACTTTTTTAAAAAACGCCGCTAAAGACAAGGAC
1 CTTTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGACCAGGAC
* *
49425066 CTTTAGCAGCGC-TTTTATAAAAAACGCTGCTAA
1 CTTTAGCGGCGCTTTTTA-AAAAAACGCCGCTAA
49425099 TTTGCCCAGT
Statistics
Matches: 134, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
42 4 0.03
43 91 0.68
44 39 0.29
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGACCAGGAC
Found at i:49425027 original size:87 final size:87
Alignment explanation
Indices: 49424893--49425098 Score: 276
Period size: 87 Copynumber: 2.4 Consensus size: 87
49424883 AGGTCCTTGT
* *
49424893 CTTTAGCGGTGC-TTTTTAAAAAAACGCCGCTAAAGACAGGGACTTTTAGCCACGCTTTTTTAAA
1 CTTTAGCGGCGCTTTTTTAAAAAAACGCCGCTAAAGACAGGGACTTTTAGCCACACTTTTTTAAA
* * *
49424957 ACACGCCGCTAATGACCAGGAC
66 AAACGCCGCTAAAGACAAGGAC
* *
49424979 CTTTAGCGGCGCTTTTTTAAAAAAACGCCG-TGAATGACCA-GGACTTTTAGCGACACTTTTTTA
1 CTTTAGCGGCGCTTTTTTAAAAAAACGCCGCT-AAAGA-CAGGGACTTTTAGCCACACTTTTTTA
49425042 AAAAACGCCGCTAAAGACAAGGAC
64 AAAAACGCCGCTAAAGACAAGGAC
* * *
49425066 CTTTAGCAGCGCTTTTAT-AAAAAACGCTGCTAA
1 CTTTAGCGGCGCTTTTTTAAAAAAACGCCGCTAA
49425099 TTTGCCCAGT
Statistics
Matches: 106, Mismatches: 10, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
86 24 0.23
87 80 0.75
88 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (87 bp):
CTTTAGCGGCGCTTTTTTAAAAAAACGCCGCTAAAGACAGGGACTTTTAGCCACACTTTTTTAAA
AAACGCCGCTAAAGACAAGGAC
Found at i:49425405 original size:21 final size:21
Alignment explanation
Indices: 49425381--49425424 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
49425371 ATTCTGCTCT
*
49425381 GCCTCCCTCGCTGCTGCCTCC
1 GCCTCCCGCGCTGCTGCCTCC
49425402 GCCTCCCGCGCTGCTGCCTCC
1 GCCTCCCGCGCTGCTGCCTCC
49425423 GC
1 GC
49425425 TCTAAGTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.57, G:0.23, T:0.20
Consensus pattern (21 bp):
GCCTCCCGCGCTGCTGCCTCC
Found at i:49427730 original size:27 final size:28
Alignment explanation
Indices: 49427708--49427829 Score: 171
Period size: 27 Copynumber: 4.5 Consensus size: 28
49427698 TATAATATGA
*
49427708 CAGAGTCACCAGATACAGATA-ATCGTGG
1 CAGAGCCACCAGATACAGATATAT-GTGG
49427736 CAGAGCCACCAGA-ACAGATATATGTGG
1 CAGAGCCACCAGATACAGATATATGTGG
*
49427763 CAGAGCCACCAGAT-CAGATATTTGTGG
1 CAGAGCCACCAGATACAGATATATGTGG
*
49427790 CAGAGCCACCAGAT-CAGATATTTGTGG
1 CAGAGCCACCAGATACAGATATATGTGG
*
49427817 CATAGCCACCAGA
1 CAGAGCCACCAGA
49427830 ACTCTTCCCC
Statistics
Matches: 89, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
27 75 0.84
28 14 0.16
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.18
Consensus pattern (28 bp):
CAGAGCCACCAGATACAGATATATGTGG
Found at i:49427749 original size:54 final size:54
Alignment explanation
Indices: 49427690--49427829 Score: 165
Period size: 54 Copynumber: 2.6 Consensus size: 54
49427680 AGCATGGCTG
* *
49427690 CCAGAACATATA-ATATGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATATGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
49427744 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
* * * * *
49427798 CCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATATGACAGAGCCACCAGA
49427830 ACTCTTCCCC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 59 0.78
55 17 0.22
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATATATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:49429482 original size:26 final size:26
Alignment explanation
Indices: 49429446--49429581 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
49429436 CATGATATTC
*
49429446 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
49429472 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* **
49429498 TTATCATGGAACATTTACCTAACATA
1 TTATCATGAAACATTTACCTAACCCA
*
49429524 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
49429550 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
49429576 TTATCA
1 TTATCA
49429582 ATTTGTATCA
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 99 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:49434180 original size:39 final size:39
Alignment explanation
Indices: 49434137--49434253 Score: 207
Period size: 39 Copynumber: 3.0 Consensus size: 39
49434127 CGTTATGTGA
* *
49434137 GTTATGTGAGTTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
49434176 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
*
49434215 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
49434254 ATGTAATTTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
Found at i:49434197 original size:57 final size:57
Alignment explanation
Indices: 49434104--49434257 Score: 197
Period size: 57 Copynumber: 2.7 Consensus size: 57
49434094 ATGTATTAGT
* *
49434104 TAAGTTATGTAAGTTGTTATGAGCGTTATGTGAGTTATGTGAGTTATGTAA-GTTATG
1 TAAGTTATGTAAGTTGTTATGA-AGTTATGTAAGTTATGTGAGTTATGTAATGTTATG
* *
49434161 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTTATG
1 TAAGTTATGTAAGTTGTTATG-AAGTTATGTAAGTTATGTGAGTTATGTAA--TGTTATG
* *
49434221 TAAATTATGTAAGTT-ATATG-AGTTATGTAAGTTATGT
1 TAAGTTATGTAAGTTGTTATGAAGTTATGTAAGTTATGT
49434258 AATTTATTTA
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
57 61 0.72
58 1 0.01
59 4 0.05
60 19 0.22
ACGTcount: A:0.29, C:0.01, G:0.25, T:0.45
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGAAGTTATGTAAGTTATGTGAGTTATGTAATGTTATG
Found at i:49434258 original size:9 final size:9
Alignment explanation
Indices: 49434128--49434270 Score: 142
Period size: 9 Copynumber: 15.2 Consensus size: 9
49434118 TGTTATGAGC
*
49434128 GTTATGTGA
1 GTTATGTAA
*
49434137 GTTATGTGA
1 GTTATGTAA
49434146 GTTATGTAA
1 GTTATGTAA
*
49434155 GTTATGTGA
1 GTTATGTAA
49434164 GTTATGTAA
1 GTTATGTAA
49434173 GTTGTTATGTAA
1 ---GTTATGTAA
*
49434185 ATTATGTAA
1 GTTATGTAA
*
49434194 GTTATGTGA
1 GTTATGTAA
49434203 GTTATGTAA
1 GTTATGTAA
49434212 GTTGTTATGTAA
1 ---GTTATGTAA
*
49434224 ATTATGTAA
1 GTTATGTAA
* *
49434233 GTTATATGA
1 GTTATGTAA
49434242 GTTATGTAA
1 GTTATGTAA
49434251 GTTATGTAA
1 GTTATGTAA
* *
49434260 TTTATTTAA
1 GTTATGTAA
49434269 GT
1 GT
49434271 AATGATCAAT
Statistics
Matches: 112, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
9 94 0.84
12 18 0.16
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (9 bp):
GTTATGTAA
Found at i:49434873 original size:241 final size:241
Alignment explanation
Indices: 49434450--49435176 Score: 1350
Period size: 241 Copynumber: 3.0 Consensus size: 241
49434440 TTAAGGTTAT
* *
49434450 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
* *
49434515 TCATCATACGTGGCGTTGTTACACATAGGGAGGATCCATTATTTCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
49434580 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
49434645 GGTCAACTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAACTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
49434691 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
* *
49434756 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCAATATAAGGTA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
49434821 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
49434886 GGT-AAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAA-CTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
49434932 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
* *
49434997 TCATCATACGTGGCGTTGTTACACCTAGGAAGGATCCATTATATCTTACAGTTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
49435062 ACCCGTCAGGTTTCCAGCCTATAT-CTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
49435126 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAACTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
49435172 ATAAA
1 ATAAA
49435177 ATTAATTCAT
Statistics
Matches: 473, Mismatches: 11, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
240 90 0.19
241 383 0.81
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAACTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:49439081 original size:37 final size:37
Alignment explanation
Indices: 49439031--49439121 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
49439021 TTATTACGAA
49439031 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
49439068 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
49439105 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
49439122 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:49439219 original size:48 final size:48
Alignment explanation
Indices: 49439161--49439264 Score: 181
Period size: 48 Copynumber: 2.2 Consensus size: 48
49439151 TGTTACAACA
* *
49439161 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCAATTCGACTTTACCACACATACATATCACACATATAT
*
49439209 TTCACATTAGCAATTCGACTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCAATTCGACTTTACCACACATACATATCACACATATAT
49439257 TTCACATT
1 TTCACATT
49439265 CATCACATCG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCAATTCGACTTTACCACACATACATATCACACATATAT
Found at i:49439318 original size:49 final size:49
Alignment explanation
Indices: 49439251--49439734 Score: 777
Period size: 49 Copynumber: 10.0 Consensus size: 49
49439241 CATATCACAC
*
49439251 ATATA-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
* *
49439299 ATATACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
* *
49439348 A-CT-CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTAT
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
49439395 ATACT-CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
1 ATA-TACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
* *
49439444 A-CT-CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTAT
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
*
49439491 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
* *
49439540 A-CT-CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTAT
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
*
49439587 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
*
49439636 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
* *
49439685 ATACACTTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATAT
1 ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
49439734 A
1 A
49439735 CATCTCATAC
Statistics
Matches: 410, Mismatches: 19, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
47 131 0.32
48 6 0.01
49 273 0.67
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (49 bp):
ATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATAT
Found at i:49439356 original size:96 final size:96
Alignment explanation
Indices: 49439256--49439735 Score: 861
Period size: 96 Copynumber: 5.0 Consensus size: 96
49439246 CACACATATA
* * * *
49439256 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
*
49439321 TCGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACTC
*
49439352 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
49439417 TTGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACTC
49439448 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
49439513 TTGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACTC
49439544 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
*
49439609 TTGGCCATTAGGCCTTATCACATATATATACAC
66 TTGGCCATTAGGCCTTATCAC--ATATATACTC
*
49439642 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
*
49439707 TTGGCCATTAGGCCGTATCACATATATAC
66 TTGGCCATTAGGCCTTATCACATATATAC
49439736 ATCTCATACA
Statistics
Matches: 372, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
96 279 0.75
98 93 0.25
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATACTC
Found at i:49439735 original size:145 final size:145
Alignment explanation
Indices: 49439256--49439736 Score: 808
Period size: 145 Copynumber: 3.3 Consensus size: 145
49439246 CACACATATA
* * *
49439256 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* *
49439321 TCGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTT
64 TTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
*
49439384 ATCACATGTATATACTC
129 ATCACATATATATACTC
*
49439401 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
*
49439466 GGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
49439531 CAC--ATATATACTC
131 CACATATATATACTC
49439544 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACA--TATATACACTTTCACATTCATCACA
49439609 TTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
64 TTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
*
49439674 ATCACATATATATACAC
129 ATCACATATATATACTC
*
49439691 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
49439737 TCTCATACAT
Statistics
Matches: 318, Mismatches: 12, Indels: 12
0.93 0.04 0.04
Matches are distributed among these distances:
143 90 0.28
145 182 0.57
147 46 0.14
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (145 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
CACATATATATACTC
Found at i:49443613 original size:80 final size:79
Alignment explanation
Indices: 49443509--49443807 Score: 286
Period size: 80 Copynumber: 3.8 Consensus size: 79
49443499 CCAGCATGAT
* * *
49443509 TGCTCTTCGG-ACCTAGCCCGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAC
1 TGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATAC
49443573 ATCACTAGCACGAA
66 ATCACTAGCACGAA
*
49443587 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
* *
49443652 TATCATTAGCACGAA
65 CATCACTAGCACGAA
* * * * ** * *
49443667 TGCTCTTCGGAATTTAGCCGGATATAACCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGT
1 TGCTCTTCGGAACTTAGCCGGATA-CATCACTAGCACGAA-TGCTCTTCGGAACTTAGCCCGGAT
* * *
49443730 ATAACAACTCA-CACAAA
64 ACATC-ACT-AGCACGAA
** * ** *
49443747 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGAACTTAG-CCGGATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGG
49443808 GTATCATTCA
Statistics
Matches: 185, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
78 10 0.05
79 44 0.24
80 128 0.69
81 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (79 bp):
TGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATAC
ATCACTAGCACGAA
Found at i:49443703 original size:40 final size:40
Alignment explanation
Indices: 49443509--49443690 Score: 280
Period size: 40 Copynumber: 4.6 Consensus size: 40
49443499 CCAGCATGAT
* *
49443509 TGCTCTTCGG-ACCTAG-CCCGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
49443547 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
49443587 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
49443627 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
49443667 TGCTCTTCGGAATTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
49443691 TAACCACAAG
Statistics
Matches: 136, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
38 10 0.07
39 12 0.09
40 114 0.84
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:49443733 original size:40 final size:40
Alignment explanation
Indices: 49443539--49443807 Score: 147
Period size: 40 Copynumber: 6.7 Consensus size: 40
49443529 ATACATCACT
* ** * * * *
49443539 AGCACGAATGCTCTTCGGAACTTAGTCCGGATA-CATCACT
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* ** * * * *
49443579 AGCACGAATGCTCTTCGGAACTTAGTCCGGATA-CATCACT
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* * * **
49443619 AGCACGAATGCTCTTCGGAAT-TTAGCCCGGATAT-ATCATT
1 AGCACAAATGC-CTTCGG-GTCTTAGCCCGGATATAACCACA
* *
49443659 AGCACGAATGCTCTTCGGAAT-TTAG-CCGGATATAACCACA
1 AGCACAAATGC-CTTCGG-GTCTTAGCCCGGATATAACCACA
* * * * *
49443699 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCAC-A
** *
49443740 A-CACAAATGCCTTCGGGTCTTAGCCCGGATATATTCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
* *
49443779 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
49443808 GTATCATTCA
Statistics
Matches: 200, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.00
39 18 0.09
40 179 0.89
41 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
Found at i:49443749 original size:120 final size:118
Alignment explanation
Indices: 49443509--49443804 Score: 298
Period size: 120 Copynumber: 2.5 Consensus size: 118
49443499 CCAGCATGAT
** * *
49443509 TGCTCTTCGGACCTAGCCC-GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAC
1 TGCTCTTCGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATAA
* * ** * *
49443573 ATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65 ACCACAAGCACGAATGCTCTTCGGAACTTAACCCGGATACAACACTAGCACAAA
* *
49443627 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAATGCTCTTCGGAATTTAGCCGGATAT
1 TGCTCTTCGG-ATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATA-
** * *
49443692 AACCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAA
64 AACCACAAGCACGAA-TGCTCTTCGGAACTTAACCCGGATACAAC-ACT-AGCACAAA
* ** *
49443747 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCC
1 TGCTCTTCGGAT-TTAGCCCGGATATA-TCACTAGCACGAATGCTCTTCGGAACTTAGCC
49443805 CGGGTATCAT
Statistics
Matches: 148, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
118 11 0.07
119 67 0.45
120 69 0.47
121 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (118 bp):
TGCTCTTCGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAAA
CCACAAGCACGAATGCTCTTCGGAACTTAACCCGGATACAACACTAGCACAAA
Found at i:49445757 original size:37 final size:37
Alignment explanation
Indices: 49445707--49445797 Score: 157
Period size: 37 Copynumber: 2.4 Consensus size: 37
49445697 TTATTACGAA
49445707 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
49445744 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
49445781 GT-TTCACCCGGAACATA
1 GTCTT-ACCCGG-ACATA
49445798 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
36 2 0.04
37 45 0.87
38 5 0.10
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:49445895 original size:48 final size:48
Alignment explanation
Indices: 49445837--49445940 Score: 199
Period size: 48 Copynumber: 2.2 Consensus size: 48
49445827 TGTTACAACA
49445837 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
*
49445885 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
49445933 TTCACATT
1 TTCACATT
49445941 CATCACATCG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
Found at i:49445989 original size:49 final size:49
Alignment explanation
Indices: 49445932--49446361 Score: 737
Period size: 49 Copynumber: 8.9 Consensus size: 49
49445922 CACACATATA
*
49445932 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
49445981 CTTCACATTCATCATATTGGCCATTAGGCCTTATCAC--ATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
49446028 TTTCACATTCATCACATTGGCCATTAGGCCTTGTCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
49446075 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
49446124 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
49446171 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
49446220 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
49446269 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
49446318 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
49446362 CATCTCATAC
Statistics
Matches: 361, Mismatches: 16, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 134 0.37
49 227 0.63
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:49446033 original size:96 final size:97
Alignment explanation
Indices: 49445932--49446361 Score: 726
Period size: 96 Copynumber: 4.5 Consensus size: 97
49445922 CACACATATA
* * *
49445932 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
49445997 TTGGCCATTAGGCCTTATCACA-TATATACAC
66 TTGGCCATTAGGCCTTATCACAGTATATACAC
* *
49446028 TTTCACATTCATCACATTGGCCATTAGGCCTTGTCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
49446091 TTGGCCATTAGGCCTTATCACATGTATATACAC
66 TTGGCCATTAGGCCTTATCACA-GTATATACAC
*
49446124 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
49446187 TTGGCCATTAGGCCTTATCACATGTATATACAC
66 TTGGCCATTAGGCCTTATCACA-GTATATACAC
49446220 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
49446285 TTGGCCATTAGGCCTTATCACATATATATACAC
66 TTGGCCATTAGGCCTTATCACA-GTATATACAC
*
49446318 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
49446362 CATCTCATAC
Statistics
Matches: 321, Mismatches: 9, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
94 45 0.14
96 176 0.55
98 100 0.31
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (97 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACAGTATATACAC
Found at i:49449962 original size:2 final size:2
Alignment explanation
Indices: 49449955--49449989 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
49449945 TTAATAATCC
49449955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49449990 GACTCCCATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:49450940 original size:7 final size:7
Alignment explanation
Indices: 49450928--49451056 Score: 70
Period size: 7 Copynumber: 18.3 Consensus size: 7
49450918 ATTCCAAAAT
49450928 TAAACCC
1 TAAACCC
49450935 TAAACCC
1 TAAACCC
*
49450942 CAAACCC
1 TAAACCC
*
49450949 CAAACTCC
1 TAAAC-CC
*
49450957 -AAACTC
1 TAAACCC
49450963 TAAACCC
1 TAAACCC
*
49450970 CAAA-CC
1 TAAACCC
49450976 TCAAATCCC
1 T-AAA-CCC
49450985 -AAACACC
1 TAAAC-CC
49450992 -AAACCC
1 TAAACCC
*
49450998 TAAGCCC
1 TAAACCC
* *
49451005 CAAACCA
1 TAAACCC
49451012 TAAACCAC
1 TAAACC-C
*
49451020 AAAACCC
1 TAAACCC
* *
49451027 -AATCCA
1 TAAACCC
*
49451033 TAAACTC
1 TAAACCC
49451040 TAAACCC
1 TAAACCC
49451047 TAAAACCC
1 T-AAACCC
49451055 TA
1 TA
49451057 TATCTCCCTA
Statistics
Matches: 94, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
6 10 0.11
7 68 0.72
8 14 0.15
9 2 0.02
ACGTcount: A:0.46, C:0.42, G:0.01, T:0.12
Consensus pattern (7 bp):
TAAACCC
Found at i:49450960 original size:21 final size:20
Alignment explanation
Indices: 49450929--49451010 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 20
49450919 TTCCAAAATT
49450929 AAACCCTAAACCCCAAACCCC
1 AAACCC-AAACCCCAAACCCC
* *
49450950 AAACTCCAAACTCTAAACCCC
1 AAAC-CCAAACCCCAAACCCC
* *
49450971 AAACCTCAAATCCCAAACACC
1 AAACC-CAAACCCCAAACCCC
*
49450992 AAACCCTAAGCCCCAAACC
1 AAACCC-AAACCCCAAACC
49451011 ATAAACCACA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
20 2 0.04
21 45 0.92
22 2 0.04
ACGTcount: A:0.44, C:0.46, G:0.01, T:0.09
Consensus pattern (20 bp):
AAACCCAAACCCCAAACCCC
Found at i:49450968 original size:35 final size:35
Alignment explanation
Indices: 49450920--49451010 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 35
49450910 AGTTTTTAAT
* *
49450920 TCCAAAAT-TAAACCCTAAACCCCAAACCCCAAAC
1 TCCAAACTCTAAACCCCAAACCCCAAACCCCAAAC
* *
49450954 TCCAAACTCTAAACCCCAAACCTCAAATCCCAAAC
1 TCCAAACTCTAAACCCCAAACCCCAAACCCCAAAC
* * *
49450989 ACCAAACCCTAAGCCCCAAACC
1 TCCAAACTCTAAACCCCAAACC
49451011 ATAAACCACA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 7 0.14
35 42 0.86
ACGTcount: A:0.44, C:0.44, G:0.01, T:0.11
Consensus pattern (35 bp):
TCCAAACTCTAAACCCCAAACCCCAAACCCCAAAC
Found at i:49451220 original size:13 final size:13
Alignment explanation
Indices: 49451202--49451226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49451192 TGCTTACTAG
49451202 CTTAAACCCTGAC
1 CTTAAACCCTGAC
49451215 CTTAAACCCTGA
1 CTTAAACCCTGA
49451227 TAGCATAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (13 bp):
CTTAAACCCTGAC
Found at i:49452022 original size:40 final size:40
Alignment explanation
Indices: 49451966--49452081 Score: 133
Period size: 40 Copynumber: 2.8 Consensus size: 40
49451956 GTTTTGATTA
* *
49451966 ACCTATTAGCAGCGTTTTCCAAAAACGCCGCTAATGGGGAG
1 ACCTA-TAGCGGCGTTTTCCAAAAACGCCGCTAATGAGGAG
* *
49452007 ACCTATAGCGGCGTTTTCCAAAAATGCCACTAATGAGGAG
1 ACCTATAGCGGCGTTTTCCAAAAACGCCGCTAATGAGGAG
* * **
49452047 AACTATAGCGACGTTTTTGTAAAAAACGCCGCTAA
1 ACCTATAGCGGCG-TTTT-CCAAAAACGCCGCTAA
49452082 AGTGCGAGCT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 42 0.67
41 9 0.14
42 12 0.19
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (40 bp):
ACCTATAGCGGCGTTTTCCAAAAACGCCGCTAATGAGGAG
Found at i:49452327 original size:41 final size:41
Alignment explanation
Indices: 49452274--49452369 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
49452264 GCGTTTTACA
* *
49452274 AAAACGCTGCTAAACCTCGACCTATAGCGGCGCTTTTTTGT
1 AAAACGCCGCTAAACCTCGACCTATAGCGGCGCTTTTTTCT
*
49452315 AAAACGCCGCTAAAGCTCGACCTATAGCGGCGCTTTTTTCT
1 AAAACGCCGCTAAACCTCGACCTATAGCGGCGCTTTTTTCT
49452356 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
49452370 ACTCCATCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (41 bp):
AAAACGCCGCTAAACCTCGACCTATAGCGGCGCTTTTTTCT
Found at i:49452531 original size:30 final size:30
Alignment explanation
Indices: 49452497--49452668 Score: 161
Period size: 30 Copynumber: 5.7 Consensus size: 30
49452487 ACAGCCATCT
**
49452497 AACTATGAAAAGGGATGGCTTCGGCTATTG
1 AACTATGAAAAGGGATGGCTTCGGCTATCA
*
49452527 AACTATGAATAGGGATGGCTTCGGCTATCA
1 AACTATGAAAAGGGATGGCTTCGGCTATCA
* * *
49452557 AACTATGAAAAAGGATAGATTCGGCTATCA
1 AACTATGAAAAGGGATGGCTTCGGCTATCA
* * * *
49452587 AATTATGAAAAGGGATGG-TTACGACCATCG
1 AACTATGAAAAGGGATGGCTT-CGGCTATCA
* * *
49452617 AACAATGAAAAGGGATGG-TGAT-GACCATCA
1 AACTATGAAAAGGGATGGCT--TCGGCTATCA
* *
49452647 AATTATGAAAAGGGATAGCTTC
1 AACTATGAAAAGGGATGGCTTC
49452669 AACTGTTGAA
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
29 3 0.03
30 113 0.96
31 1 0.01
32 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (30 bp):
AACTATGAAAAGGGATGGCTTCGGCTATCA
Found at i:49452563 original size:60 final size:60
Alignment explanation
Indices: 49452472--49452634 Score: 168
Period size: 60 Copynumber: 2.7 Consensus size: 60
49452462 CCATCAACAG
* * * * **
49452472 TGAAAAGGGATTGTGAC-AGCCATCTAACTATGAAAAGGGATGGCTTCGGCTATTGAACTA
1 TGAAAAGGGATGGTTACGA-CCATCAAACTATGAAAAGGGATGGATTCGGCTATCAAACTA
* * * * * *
49452532 TGAATAGGGATGGCTT-CGGCTATCAAACTATGAAAAAGGATAGATTCGGCTATCAAATTA
1 TGAAAAGGGATGG-TTACGACCATCAAACTATGAAAAGGGATGGATTCGGCTATCAAACTA
* *
49452592 TGAAAAGGGATGGTTACGACCATCGAACAATGAAAAGGGATGG
1 TGAAAAGGGATGGTTACGACCATCAAACTATGAAAAGGGATGG
49452635 TGATGACCAT
Statistics
Matches: 81, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
59 2 0.02
60 78 0.96
61 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.23
Consensus pattern (60 bp):
TGAAAAGGGATGGTTACGACCATCAAACTATGAAAAGGGATGGATTCGGCTATCAAACTA
Found at i:49455043 original size:44 final size:45
Alignment explanation
Indices: 49454989--49455201 Score: 175
Period size: 47 Copynumber: 4.6 Consensus size: 45
49454979 TATGCGTACT
*
49454989 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTCTAGCC
* * * * * *
49455033 GATGCGTGTCCCAGACACGTCTTACACTGGCTATC-TCTGTCGAGACT
1 GATGCATGTCCCAGACATGTCTTACACTAGC-A-CATCTCTCTAG-CC
* *
49455080 GATGCATGTCCCAGACATGTCTTACTCTGGCAC-TCATCTCTATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATC-TCTCTA-GCC
* * *
49455126 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCATAATGT-GACC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACATC-T-CTCTAG-CC
* *
49455174 GAAGCATGTCCCAAACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
49455202 GGCGCACAAA
Statistics
Matches: 139, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
44 28 0.20
45 7 0.05
46 23 0.17
47 58 0.42
48 21 0.15
49 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTCTAGCC
Found at i:49455103 original size:91 final size:95
Alignment explanation
Indices: 49454986--49455155 Score: 251
Period size: 91 Copynumber: 1.8 Consensus size: 95
49454976 ATATATGCGT
*
49454986 ACTGATGCATGTCCCAGACATGTCTTACACTAGCACA-A-CTCT-TAGCCGATG-CGTGTCCCAG
1 ACTGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCTAT-GCCGATGCCATGTCCCAG
49455047 ACA-CGTCTTACACTGGCTATCTCTGTCGAG
65 ACATCGTCTTACACTGGCTATCTCTGTCGAG
* * *
49455077 ACTGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTATGCCGATGCCATGTCCCAGA
1 ACTGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCTATGCCGATGCCATGTCCCAGA
*
49455142 CATGGTCTTACACT
66 CATCGTCTTACACT
49455156 AGCTCTCATA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
91 34 0.49
92 1 0.01
93 11 0.16
94 13 0.19
95 10 0.14
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (95 bp):
ACTGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCTATGCCGATGCCATGTCCCAGA
CATCGTCTTACACTGGCTATCTCTGTCGAG
Found at i:49455194 original size:94 final size:92
Alignment explanation
Indices: 49454939--49455204 Score: 274
Period size: 94 Copynumber: 2.9 Consensus size: 92
49454929 ATATATTGCT
* * * *
49454939 GATGCCATGTCCCAGACATGGTCTTCCAC-CGATTCTCATATATGCGTACTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATA-ATGAG-ACTGATGCATGTCCCAG
*
49455003 ACATGTCTTACACTAGCACAACTCTTAGCC
63 ACATGTCTTACACTGGCACAACTCTTAGCC
* * * *
49455033 GATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-T-GTCGAGACTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC--TCTCATAAT-GAGACTGATGCATGTCCCAG
* *
49455094 ACATGTCTTACTCTGGCAC-TCATCTCTATGCC
63 ACATGTCTTACACTGGCACAAC-TCT-TA-GCC
* * * *
49455126 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGACCGAAGCATGTCCCAAACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGAGACTGATGCATGTCCCAGACA
49455191 TGTCTTACACTGGC
66 TGTCTTACACTGGC
49455205 GCACAAATCA
Statistics
Matches: 142, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
90 1 0.01
91 38 0.27
92 12 0.08
93 25 0.18
94 53 0.37
95 13 0.09
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGAGACTGATGCATGTCCCAGACA
TGTCTTACACTGGCACAACTCTTAGCC
Found at i:49462549 original size:44 final size:45
Alignment explanation
Indices: 49462496--49462614 Score: 161
Period size: 44 Copynumber: 2.6 Consensus size: 45
49462486 ATATATGCAT
49462496 GCTGATGCATGTCCTAGACATGTCTTACACTAGCACAACTCT-T-G
1 GCTGATGCATGTCCTAGACATGTCTTACACTAGC-CAACTCTGTAG
* * *
49462540 GCTGATGCATGTCCTAGACATGTCTTACACTGGCTATCTCTGTCGAG
1 GCTGATGCATGTCCTAGACATGTCTTACACTAGCCAACTCTGT--AG
*
49462587 GCCGATGCATGTCCTAGACATGTCTTAC
1 GCTGATGCATGTCCTAGACATGTCTTAC
49462615 TCTGGCACTC
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
43 5 0.07
44 34 0.51
47 28 0.42
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (45 bp):
GCTGATGCATGTCCTAGACATGTCTTACACTAGCCAACTCTGTAG
Found at i:49462612 original size:47 final size:45
Alignment explanation
Indices: 49462454--49462714 Score: 201
Period size: 47 Copynumber: 5.6 Consensus size: 45
49462444 TTGGCAATGC
* * * *
49462454 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCATGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTG-A-GCCGATG
* * * * *
49462503 CATGTCCTAGACATGTCTTACACTAGCACAACTCT-TG-GCTGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTGAGCCGATG
*
49462547 CATGTCCTAGACATGTCTTACACTGGCTATCTCTGTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTCTGT-GA-GCCGATG
* * * *
49462594 CATGTCCTAGACATGTCTTACTCTGGC-ACTCATTTTTGTA-CCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTA-TC-TCTGTG-AGCCGATG
* *
49462640 CCATGTCCCAGACATGATCTTACACTGGCTCTCATAATGTGA-CCGGA-G
1 -CATGTCCCAGACATG-TCTTACACTGGCTATC-T-CTGTGAGCC-GATG
49462688 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
49462715 GCACAAATCA
Statistics
Matches: 181, Mismatches: 18, Indels: 29
0.79 0.08 0.13
Matches are distributed among these distances:
43 5 0.03
44 34 0.19
45 1 0.01
46 19 0.10
47 66 0.36
48 37 0.20
49 19 0.10
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTCTGTGAGCCGATG
Found at i:49462700 original size:94 final size:91
Alignment explanation
Indices: 49462450--49462714 Score: 288
Period size: 94 Copynumber: 2.8 Consensus size: 91
49462440 TATATTGGCA
*
49462450 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCATG-CTGATGCATGTCCTAGA
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCATA-ATG--TGACCGATGCATGTCCTAGA
* * *
49462514 CATGTCTTACACTAGCACAACTCTTGGCTG
62 CATGTCTTACACTGGCACAACTCTTGACCG
* * *
49462544 ATG-CATGTCCTAGACATGTCTTACACTGGCTATC-T-CTGTCGAGGCCGATGCATGTCCTAGAC
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGT-GA--CCGATGCATGTCCTAGAC
* * * *
49462606 ATGTCTTACTCTGGCACTCATTTTTGTACCG
63 ATGTCTTACACTGGCAC-AACTCTTG-ACCG
*
49462637 ATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATAATGTGACCGGA-GCATGTCCCAGACA
1 ATGCCATGTCCCAGACATG-TCTTACACTGGCTCTCATAATGTGACC-GATGCATGTCCTAGACA
49462701 TGTCTTACACTGGC
64 TGTCTTACACTGGC
49462715 GCACAAATCA
Statistics
Matches: 144, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
87 1 0.01
88 1 0.01
89 2 0.01
91 33 0.23
92 21 0.15
93 18 0.12
94 45 0.31
95 17 0.12
96 3 0.02
97 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (91 bp):
ATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGACCGATGCATGTCCTAGACATG
TCTTACACTGGCACAACTCTTGACCG
Found at i:49467044 original size:3 final size:3
Alignment explanation
Indices: 49467038--49467600 Score: 457
Period size: 3 Copynumber: 188.0 Consensus size: 3
49467028 CATCATCATC
49467038 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
49467086 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT GTT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * ** *
49467132 ATT GTT A-T CTT ATT AGT A-T ATT ACT ATT TTT ATT ATC ATT ACC CTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
49467178 AGT AAT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
49467226 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
49467273 ACT ATT ATT ATT AGTG ATCT ATT ACT ATT CTT ATT CGTGT ATT GTT ATTT
1 ATT ATT ATT ATT A-TT AT-T ATT ATT ATT ATT ATT -AT-T ATT ATT A-TT
* * * * *
49467323 CTT ATT TTT CA-T ATT ATT GTT GTT ATT AGT ATAT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
* * * * *
49467369 -TCCT ATT ATT ATT ACT ATT AAT ATC ACT ATT ATC ATT -TT -TT ATT
1 AT--T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
49467413 ACT ATT ATT ATA ATT A-T ATT -TT ATT -TT -TT ATT ACT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
49467457 ACT A-T ATT ATT TTT ATT TTT ATT TTCT ATT ATT ATT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * * * * * * *
49467502 ATT AAT ACT AAT ATT AAT ATT CTT ATT ATT ACT CTT ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
49467550 AGT ATT ATT ATT TTT ACT ACT ATT ATT ATT ATC AAT ATT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
49467598 ATT
1 ATT
49467601 GTTTTCGTTA
Statistics
Matches: 440, Mismatches: 99, Indels: 42
0.76 0.17 0.07
Matches are distributed among these distances:
2 21 0.05
3 400 0.91
4 17 0.04
5 2 0.00
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:49467646 original size:2 final size:2
Alignment explanation
Indices: 49467639--49467665 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49467629 TGTCATGTTT
49467639 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
49467666 TTATGTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49472084 original size:50 final size:49
Alignment explanation
Indices: 49471968--49472156 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
49471958 TGAGGTCGCA
* * * *
49471968 TGTGTAGTACTAAGTGCAGGCCACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT-GGTCACG
* * **
49472019 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCACG
* * * * *
49472069 TGTGTAGTACTAAGTGTAGGCTACTATATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* *
49472118 TGTGTAGTACTAAGTGCAGGCAACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
49472157 GCTTTGGCTA
Statistics
Matches: 115, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
49 39 0.34
50 43 0.37
51 33 0.29
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
Found at i:49479245 original size:39 final size:40
Alignment explanation
Indices: 49479182--49479261 Score: 144
Period size: 39 Copynumber: 2.0 Consensus size: 40
49479172 CATTGCCCCA
49479182 TATCGACACCTTAGTGGACAATACGGCAGGTTACTCACTG
1 TATCGACACCTTAGTGGACAATACGGCAGGTTACTCACTG
*
49479222 TATCGACACCTT-GTGGACAATACGGCAGGTTACTTACTG
1 TATCGACACCTTAGTGGACAATACGGCAGGTTACTCACTG
49479261 T
1 T
49479262 TCTCCTTCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 27 0.69
40 12 0.31
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (40 bp):
TATCGACACCTTAGTGGACAATACGGCAGGTTACTCACTG
Found at i:49483041 original size:44 final size:44
Alignment explanation
Indices: 49482993--49483495 Score: 136
Period size: 44 Copynumber: 11.4 Consensus size: 44
49482983 GCTTAACCCT
*
49482993 CTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTGTCTCC
1 CTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTATCTCC
* * * * ** ** * *
49483037 CTAAGCAGTAGTGG-AGTA-GATCGAAGACGA-AGGGCCTTAACCCC
1 CTAAGCAGTAG-GGTAATAGGCT-AAAAATTACA-GATCTTATCTCC
*
49483081 CTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCTCC
1 CTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTATCTCC
* * * * ** ** *
49483125 CTAAGCAGTAGTGG-AGTA-GATCGAAGACGA-AGGGCCTTAAC-CC
1 CTAAGCAGTAG-GGTAATAGGCT-AAAAATTACA-GATCTTATCTCC
* * * *
49483168 CTTAAGCAGTAGGGTGACAGGCTAAAAATTATAGATCTTGTCTCC
1 C-TAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTATCTCC
** * * * ** ** * *
49483213 CTAAGCAGTAGTGG-AGCA-GATCGAAGACGA-AGGGCCTTAACCCC
1 CTAAGCAGTAG-GGTAATAGGCT-AAAAATTACA-GATCTTATCTCC
* *
49483257 CTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCC
1 CTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTATCTCC
* ** * * * ** ** ** *
49483301 CTAAACAGTAGTGG-AGCA-GATCGAAGACGATGGGCCTTAAAC-CC
1 CTAAGCAGTAG-GGTAATAGGCT-AAAAATTACAGATCTT-ATCTCC
* * *
49483345 CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCC
1 CTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTATCTCC
* * * * * * * * ** *
49483389 CTCAGCAGTAGGGGAACA-GATCGAAGATGATAGGCCTTAAC-CC
1 CTAAGCAGTAGGGTAATAGGCT-AAAAATTACAGATCTTATCTCC
* * * *
49483432 TCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATTTTTTCTCC
1 -CTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTATCTCC
*
49483477 CTAAGCAGTAGGGGAATAG
1 CTAAGCAGTAGGGTAATAG
49483496 ATCAAAGATG
Statistics
Matches: 314, Mismatches: 115, Indels: 60
0.64 0.24 0.12
Matches are distributed among these distances:
43 27 0.09
44 260 0.83
45 27 0.09
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (44 bp):
CTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTATCTCC
Found at i:49483058 original size:88 final size:87
Alignment explanation
Indices: 49482903--49483671 Score: 1031
Period size: 88 Copynumber: 8.7 Consensus size: 87
49482893 AATTCGTAAG
* * * * *
49482903 CCTAAGTAGTAGGGTAACAGGTTGGAAAATTACAGATCTTGTCTCCCTAAGCAATAGGGGAAG-A
1 CCTAAGCAGTAGGGTAACAGGCT-AAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGG-AGCA
*
49482967 GATCGAGGACGAAGAGG-CTTAACC
64 GATCGAAGACGAAG-GGCCTTAACC
* *
49482991 CTCTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAG
1 C-CTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
49483056 ATCGAAGACGAAGGGCCTTAACCC
65 ATCGAAGACGAAGGGCCTTAA-CC
* *
49483080 CCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
1 CCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
49483145 TCGAAGACGAAGGGCCTTAACC
66 TCGAAGACGAAGGGCCTTAACC
* *
49483167 CCTTAAGCAGTAGGGTGACAGGCTAAAAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
1 CC-TAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
49483232 ATCGAAGACGAAGGGCCTTAACCC
65 ATCGAAGACGAAGGGCCTTAA-CC
*
49483256 CCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGA
1 CCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
*
49483321 TCGAAGACGATGGGCCTTAAACC
66 TCGAAGACGAAGGGCCTT-AACC
* * * *
49483344 CCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTCAGCAGTAGGGGAACAGA
1 CCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
*
49483409 TCGAAGATGATA-GGCCTTAACC
66 TCGAAGACGA-AGGGCCTTAACC
* * * * **
49483431 CTCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATTTTTTCTCCCTAAGCAGTAGGGGAATAG
1 C-CTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
* * *
49483496 ATCAAAGATGATGGGCCTTAACCC
65 ATCGAAGACGAAGGGCCTTAA-CC
* * * * * * *
49483520 CCTAAGTAGTAGGATAACAGGTTGAAAATTACAGACCTTGTCTCCTTGAGCAGTAGTGGAGCAGA
1 CCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
* *
49483585 TCGAAGATGATGGGCCTTAACC
66 TCGAAGACGAAGGGCCTTAACC
* * * * *
49483607 CCGTAAACAGTAAGGTAACAGGCTAAAAATTATAGATCTTGTCTCCCTAAGCAATAGTAGAGCAG
1 CC-TAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
49483672 GTTGAAATCA
Statistics
Matches: 615, Mismatches: 54, Indels: 24
0.89 0.08 0.03
Matches are distributed among these distances:
87 17 0.03
88 567 0.92
89 31 0.05
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (87 bp):
CCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
TCGAAGACGAAGGGCCTTAACC
Found at i:49485342 original size:3 final size:3
Alignment explanation
Indices: 49485334--49485876 Score: 319
Period size: 3 Copynumber: 182.0 Consensus size: 3
49485324 ATCTAAGATG
* *
49485334 TTA TTA TTA CTC TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * *
49485382 TTA TTA TTA TTA TTA TTA TCC TTA TT- TGTA -TA TTA CTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* *** * * *
49485426 TTA TCA TTA CCC TTG GTA ATA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * **
49485473 TTA TTA TTA TT- TTA CTA TTA TTA TTA GTGA TCTA TTA CTA TCC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA
* * * * * * *
49485519 TTTG TGTA TTG TTA TTTC TTA TTT TTCA -TA TTA TTG TTC TTA TTA GTA
1 -TTA T-TA TTA TTA -TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* * * *
49485567 TATA TTA TTA TTA TT- TCCTA TTA TTA TTA TTA CTA TTA ATA TCA CTA
1 T-TA TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
49485614 TTA TCA TT- TT- TTA TTA CTA TTA TTA TTA TT- TTT TTA CTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * *
49485657 ATA -TA TTA TTA -TA CCTTT TTA TTA TTA TTA CTA TT- GTA TTA TTA
1 TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
49485701 CTA TTA TTA TTA -TA TT- TTA TT- TT- TTA TTA CTA TTA CTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
49485744 TTT TTA TTT TTA TTT TCTA TTA TTA TTA ATA TTA TTA TTA ATA CTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
49485790 ATA TTA ATA TTC TTA TTA TTA CTC TTA TTA TTA TCA TTA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
49485838 TTT TTA CTA CTA TTA TTA TTA TCA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49485877 CTATCGTTTT
Statistics
Matches: 406, Mismatches: 105, Indels: 58
0.71 0.18 0.10
Matches are distributed among these distances:
2 30 0.07
3 356 0.88
4 18 0.04
5 2 0.00
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:49485735 original size:71 final size:71
Alignment explanation
Indices: 49485624--49485783 Score: 173
Period size: 71 Copynumber: 2.3 Consensus size: 71
49485614 TTATCATTTT
* * *
49485624 TTATTACTATTATTATTATTTTTTTACTATCTAATATATTATTATA-CCTTTTTATTATTA-TTA
1 TTATTACTATTATTATTATTATTTTACTATCTAATATATTACTATATCATTTTTATTATTATTTA
49485687 CTATTGTA
66 CTA-T-TA
* * * * * *
49485695 TTATTACTATTATTATTA-TATTTTATTTTTTATTACTATTACTATATTATTTTTATTTTTATTT
1 TTATTACTATTATTATTATTATTTTACTATCTAATA-TATTACTATATCATTTTTATTATTATTT
*
49485759 TCTATTA
65 ACTATTA
*
49485766 TTATTAATATTATTATTA
1 TTATTACTATTATTATTA
49485784 ATACTAATAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
70 12 0.16
71 46 0.61
72 12 0.16
73 5 0.07
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (71 bp):
TTATTACTATTATTATTATTATTTTACTATCTAATATATTACTATATCATTTTTATTATTATTTA
CTATTA
Found at i:49485929 original size:2 final size:2
Alignment explanation
Indices: 49485922--49485946 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49485912 TCATGTTATT
49485922 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
49485947 TTTATTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49496140 original size:79 final size:80
Alignment explanation
Indices: 49495997--49496204 Score: 181
Period size: 79 Copynumber: 2.6 Consensus size: 80
49495987 ACCTTCGGAG
* * ** * * * *
49495997 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
49496061 CCAAGGCCCACGGGA
66 CCAAGGCCCACGGGA
* * * *
49496076 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * ** *
49496138 CACGAATGCCTTCGGGT
64 CACCAAGGCCCACGGGA
* * * *
49496155 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
49496205 TTATAATTTC
Statistics
Matches: 103, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
78 2 0.02
79 64 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCCACGGGA
Found at i:49496149 original size:40 final size:40
Alignment explanation
Indices: 49496097--49496204 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
49496087 TATCACGATT
** *
49496097 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
49496137 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
49496177 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
49496205 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:49506275 original size:40 final size:40
Alignment explanation
Indices: 49506230--49506395 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
49506220 CGGAATATAA
49506230 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
49506270 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
49506310 CCGGATATAGCCATTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
49506350 CCGGATATAATTTCCAGCA-AATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
49506388 CCGGATAT
1 CCGGATAT
49506396 CATTCAATTT
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
38 13 0.13
39 13 0.13
40 77 0.75
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49519887 original size:27 final size:27
Alignment explanation
Indices: 49519808--49519899 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
49519798 AAGGGCAAAA
* * * *
49519808 CAGTCATTTTACCCTACAGGGGTATGT
1 CAGTAATTTTACACTACAAGGGTATTT
* * * * *
49519835 CGGTCACTTTACACGATAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
49519862 CAGTAATTTTACACTACAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
49519889 C-GATAATTTTA
1 CAG-TAATTTTA
49519900 AAAATCGGGG
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.02
27 51 0.98
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (27 bp):
CAGTAATTTTACACTACAAGGGTATTT
Found at i:49520323 original size:27 final size:27
Alignment explanation
Indices: 49519853--49520326 Score: 493
Period size: 27 Copynumber: 17.7 Consensus size: 27
49519843 TTACACGATA
* *
49519853 AGGGTATTTCAGTAATTTTAC-ACTACA
1 AGGGTATTTCAGTAATTTTACAAAT-CG
*
49519880 AGGGTATTTC-GATAATTTTAAAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* *
49519907 -GGGATGTTTC-GATAATTTTATAAATCG
1 AGGG-TATTTCAG-TAATTTTACAAATCG
* *
49519934 AGGGTGTTTTAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
49519961 AGGGTATTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * * *
49519988 AGGGTGTTT-TGAAAATTTTACAAATAG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* *
49520015 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
49520042 AGGGTATTTCGGTAACTTCACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
49520069 AGGGTATTTCAGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
49520096 AGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
49520122 AAGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
49520149 AGGGTATTTTAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
49520176 AGGGTGTTTC-GATAATTTCACAAATC-
1 AGGGTATTTCAG-TAATTTTACAAATCG
*
49520202 AGGAGTATTTCGGTAATTTTACAAATCG
1 AGG-GTATTTCAGTAATTTTACAAATCG
49520230 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
** *
49520256 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
** *
49520283 -GGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
49520309 AGAGTATTTCAGTAATTT
1 AGGGTATTTCAGTAATTT
49520327 CTCTTTATTA
Statistics
Matches: 388, Mismatches: 44, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
26 81 0.21
27 296 0.76
28 11 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:49520694 original size:28 final size:28
Alignment explanation
Indices: 49520663--49520734 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
49520653 TCGTTCACAT
*
49520663 GGCCCATCAGGCCCAATTACATTAATAA
1 GGCCCATCAGGCCCAATCACATTAATAA
* * *
49520691 GGCCCATCAGGCCCGATCACATTCATAT
1 GGCCCATCAGGCCCAATCACATTAATAA
*
49520719 GGACCATCAGGCCCAA
1 GGCCCATCAGGCCCAA
49520735 CTACTTCCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (28 bp):
GGCCCATCAGGCCCAATCACATTAATAA
Found at i:49523593 original size:27 final size:27
Alignment explanation
Indices: 49523546--49523622 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
49523536 GGGAAAAACA
* * *
49523546 GTCATTTTACCCTATAGGGGTATGTCG
1 GTCATTTTACACTACAAGGGTATGTCG
*
49523573 GTCATTTTACACTACAAGGGTATTTCG
1 GTCATTTTACACTACAAGGGTATGTCG
* *
49523600 GTAATTTTAAACTACAAGGGTAT
1 GTCATTTTACACTACAAGGGTAT
49523623 TTTGATAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATGTCG
Found at i:49523623 original size:27 final size:27
Alignment explanation
Indices: 49523563--49524029 Score: 420
Period size: 27 Copynumber: 17.6 Consensus size: 27
49523553 TACCCTATAG
* * * *
49523563 GGGTATGTCGGTCATTTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
* *
49523590 GGGTATTTCGGTAATTTTA-AACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
* *
49523617 GGGTATTTTGATAATTTTACAAATC-A
1 GGGTATTTCGGTAATTTTACAAATCGA
** **
49523643 GAGGTGCTTCAATAATTTTACAAATCGA
1 G-GGTATTTCGGTAATTTTACAAATCGA
*
49523671 GGGTATTTCAGTAATTTTA-AAA---A
1 GGGTATTTCGGTAATTTTACAAATCGA
*
49523694 ---TATTTCTGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
49523718 GGGTATTTTGGTAATTATACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
49523745 GGGTGTTTCAGTAATTTTACAAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
49523772 GGGTGTTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
49523799 GGGTGTTTCAGTAATTTCACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
49523826 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
** * *
49523853 GGGTATTTTAGTAATTTCAC-AATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
49523879 GGGTATTTCGGTAATTTTTA-AAATCGA
1 GGGTATTTCGGTAA-TTTTACAAATCGA
* *
49523906 TGGTATTTTGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * * * * *
49523933 GGGTGTTTTGATAATTTCAAAAATTGG
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
49523960 GGGTATTTTGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
** *
49523987 GGGTATTTTTGTAATTTCAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
49524013 GGTTATTTCGGTAATTT
1 GGGTATTTCGGTAATTT
49524030 CTTTTTATTA
Statistics
Matches: 368, Mismatches: 58, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
20 15 0.04
21 3 0.01
23 1 0.00
24 1 0.00
26 47 0.13
27 296 0.80
28 5 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:49523699 original size:20 final size:20
Alignment explanation
Indices: 49523674--49523714 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
49523664 AAATCGAGGG
49523674 TATTTCAGTAATTTTAAAAA
1 TATTTCAGTAATTTTAAAAA
* *
49523694 TATTTCTGTAATTTTACAAA
1 TATTTCAGTAATTTTAAAAA
49523714 T
1 T
49523715 CGAGGGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTTCAGTAATTTTAAAAA
Found at i:49523935 original size:134 final size:133
Alignment explanation
Indices: 49523616--49524029 Score: 472
Period size: 134 Copynumber: 3.1 Consensus size: 133
49523606 TTAAACTACA
* * ** ** *
49523616 AGGGTATTTTGATAA-TTTTACAAATC-AGAGGTGCTTCAATAATTTTACAAATCGAGGGTATTT
1 AGGGTATTTCGGTAATTTTTACAAATCAAG-GGTATTTCGGTAATTTTACAAATCGAGGGTGTTT
* * *
49523679 CAGTAATTTTAAAA--A---TATTTCTGTAATTTTACAAATCGAGGGTATTTTGGTAATTAT-AC
65 CAGTAATTTCAAAATGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATT-TCAC
49523738 AAATTG
129 -AATTG
* * *
49523744 AGGGTGTTTCAGTAA-TTTTACAAATCAAGGGTGTTTCGGTAATTTTACAAATCGAGGGTGTTTC
1 AGGGTATTTCGGTAATTTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTC
49523808 AGTAATTTCACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCAC
66 AGTAATTTCA-AAAT-GAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCAC
49523873 AATTG
129 AATTG
* * *
49523878 AGGGTATTTCGGTAATTTTTA-AAATCGATGGTATTTTGGTAATTTTACAAATCGAGGGTGTTT-
1 AGGGTATTTCGGTAATTTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTC
* * * * *
49523941 TGATAATTTCAAAAATTGGGGGTATTTTGATAATTTTACAAATCGAGGGTATTTTTGTAATTTCA
66 AG-TAATTTC-AAAA-TGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCA
*
49524006 CAATCG
128 CAATTG
*
49524012 AGGTTATTTCGGTAATTT
1 AGGGTATTTCGGTAATTT
49524030 CTTTTTATTA
Statistics
Matches: 249, Mismatches: 24, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
128 62 0.25
129 5 0.02
132 1 0.00
133 1 0.00
134 133 0.53
135 47 0.19
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (133 bp):
AGGGTATTTCGGTAATTTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTC
AGTAATTTCAAAATGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAA
TTG
Found at i:49529473 original size:94 final size:93
Alignment explanation
Indices: 49529324--49529641 Score: 322
Period size: 94 Copynumber: 3.4 Consensus size: 93
49529314 GTTATGTGAG
* * * * * * * *
49529324 AGCCAGTATAAGACGATGTCTGGGACATGGCACCGGCATTGAGACGAGGGGTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
* *
49529389 TCTGAGACATGCATCAGTCACATTATGAT
65 TCTGGGACATGCATCAGTCACATCATGAT
* *
49529418 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCGTAGAAATGAGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
* * *
49529483 TCTGGGACATGCATCGACCTC-GATGATGAT
65 TCTGGGACATGCATC-A-GTCACATCATGAT
* * * **
49529513 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATAGGCTA-AGTTTCGTGCTAGTGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
* *
49529575 CTGGGACATGCATCAG-CACGTATACACGAA
66 CTGGGACATGCATCAGTCAC--AT-CATGAT
* *
49529605 AGCTAATGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
49529642 CTTGATGGAG
Statistics
Matches: 185, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
88 1 0.01
90 1 0.01
91 37 0.20
92 16 0.09
93 20 0.11
94 88 0.48
95 20 0.11
96 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGTCACATCATGAT
Found at i:49529685 original size:49 final size:46
Alignment explanation
Indices: 49529324--49529682 Score: 207
Period size: 47 Copynumber: 7.6 Consensus size: 46
49529314 GTTATGTGAG
* * * *
49529324 AGCCAGTATAAGACGATGTCTGGGACATGGCACCGGCATTGA-GACGAG
1 AGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTTGATGA-GAT
* ** * * *
49529372 GGGTAGTGTAAGACGTGTCTGAGACATGCATCAGTCACATT-AT--GAT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATC-GGC-C-TTGATGAGAT
* * *
49529418 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCGTAGAAATGAG-T
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTG--ATGAGAT
* * *
49529467 -GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGATGATGAT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGATGA-GAT
* * * * **
49529513 AGCCAGTGTAAGACGTGTCTGGGACATGCATAGG-CTAAGTTTCG-T
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGATGAGAT
* * * * *
49529558 -GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGT-ATACACGAA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CTTGAT-GA-GAT
* *
49529605 AGCTAATGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATGGAGAT
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAT-GAGAT
*
49529654 AGCCAGCGTAAGACCATGTCTGGGACATG
1 AGCCAGTGTAAGA-CATGTCTGGGACATG
49529683 GCAGCAGCAA
Statistics
Matches: 236, Mismatches: 51, Indels: 48
0.70 0.15 0.14
Matches are distributed among these distances:
44 34 0.14
45 3 0.01
46 30 0.13
47 72 0.31
48 40 0.17
49 46 0.19
50 11 0.05
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGATGAGAT
Found at i:49533133 original size:12 final size:12
Alignment explanation
Indices: 49533116--49533140 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49533106 AAGGTAATTT
49533116 AGTAAATTAATA
1 AGTAAATTAATA
49533128 AGTAAATTAATA
1 AGTAAATTAATA
49533140 A
1 A
49533141 AACGACAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
AGTAAATTAATA
Found at i:49536489 original size:37 final size:36
Alignment explanation
Indices: 49536427--49536502 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
49536417 GATAATCACT
*
49536427 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
49536464 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
49536500 TTA
1 TTA
49536503 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:49538001 original size:50 final size:51
Alignment explanation
Indices: 49537925--49538026 Score: 188
Period size: 50 Copynumber: 2.0 Consensus size: 51
49537915 GTAAATGTTC
*
49537925 TTTACAATATCACTTATCTTTAGTTTGAACTTTAGACAATTAATGAGCTAA
1 TTTACAATATCACTTATCTTTAGTTTGAACTTTAGACAATCAATGAGCTAA
49537976 TTTACAATAT-ACTTATCTTTAGTTTGAACTTTAGACAATCAATGAGCTAA
1 TTTACAATATCACTTATCTTTAGTTTGAACTTTAGACAATCAATGAGCTAA
49538026 T
1 T
49538027 ATTTGCTTGT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 40 0.80
51 10 0.20
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (51 bp):
TTTACAATATCACTTATCTTTAGTTTGAACTTTAGACAATCAATGAGCTAA
Found at i:49548005 original size:19 final size:19
Alignment explanation
Indices: 49547969--49548007 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
49547959 TTTTCATCAT
* *
49547969 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
49547988 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
49548007 A
1 A
49548008 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:49548500 original size:55 final size:56
Alignment explanation
Indices: 49548435--49548549 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
49548425 AGCATGGCTG
** *
49548435 CCAGATACAGA-AAATGTGACAGAGTTACCAGATACAGATATTTTGTGGCA-ATGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCATA-GCCA
* * * *
49548491 CCAGA-ACAGATATATGTGGCAGGGCCACTAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
49548546 CCAG
1 CCAG
49548550 GAAGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
55 29 0.58
56 21 0.42
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:49548517 original size:27 final size:27
Alignment explanation
Indices: 49548461--49548549 Score: 97
Period size: 28 Copynumber: 3.2 Consensus size: 27
49548451 TGACAGAGTT
*
49548461 ACCAGATACAGATATTTTGTGGCAATGCC
1 ACCAGA-ACAGATA-TTTGTGGCAAAGCC
* **
49548490 ACCAGAACAGATATATGTGGCAGGGCC
1 ACCAGAACAGATATTTGTGGCAAAGCC
* *
49548517 ACTAGAACAGATAATTTGTGGCATAGCC
1 ACCAGAACAGAT-ATTTGTGGCAAAGCC
49548545 ACCAG
1 ACCAG
49548550 GAAGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 22 0.43
28 23 0.45
29 6 0.12
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
ACCAGAACAGATATTTGTGGCAAAGCC
Found at i:49548545 original size:28 final size:27
Alignment explanation
Indices: 49548461--49548549 Score: 99
Period size: 27 Copynumber: 3.2 Consensus size: 27
49548451 TGACAGAGTT
*
49548461 ACCAGATACAGATATTTTGTGGCAATGCC
1 ACCAGA-ACAGATAATTTGTGGCAA-GCC
* *
49548490 ACCAGAACAGAT-ATATGTGGCAGGGCC
1 ACCAGAACAGATAATTTGTGGCA-AGCC
*
49548517 ACTAGAACAGATAATTTGTGGCATAGCC
1 ACCAGAACAGATAATTTGTGGCA-AGCC
49548545 ACCAG
1 ACCAG
49548550 GAAGCTTCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
27 22 0.44
28 22 0.44
29 6 0.12
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
ACCAGAACAGATAATTTGTGGCAAGCC
Done.