Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold109
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: 651366
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 3
Found at i:307629 original size:94 final size:93
Alignment explanation
Indices: 307468--307888 Score: 439
Period size: 94 Copynumber: 4.7 Consensus size: 93
307458 GGGTGTTACA
* *
307468 TTCACATTCATCACATTGGTCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
1 TTCACATTCATCACATT-GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
307533 GCCATTCGGCCTTATCACACATATGCATG
65 GCCATTCGGCCTTATCACATATATGCATG
307562 TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 TTCACATTCATCACATT-GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
307627 GCCATTCGGCCTTATCTCATATATGCATG
65 GCCATTCGGCCTTATCACATATATGCATG
* * **
307656 TTCACATTCATCACATTGTCATTCGGCCTTAT--CATATATACACATTCACATTCATCACA-T--
1 TTCACATTCATCACATTGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
** * * * **
307716 AAAAT---CCTAAATCA-AAATATAAAT-
66 CCATTCGGCCT-TATCACATATATGCATG
* **
307740 TT-TCATGT-ATTCACA-T--CA--C--AATTATCACATATATGCATGTTCACATTCATCACATT
1 TTCACAT-TCA-TCACATTGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATT
*
307796 GGCCATTCGGCCTTATCTCATATATGCATG
64 GGCCATTCGGCCTTATCACATATATGCATG
** * **
307826 TTCACATTCATCACATTTGCCATTCGGCCTTATGTCATATATACACATTCACATTCATCACAT
1 TTCACATTCATCACA-TTGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
307889 AAAATCCTAA
Statistics
Matches: 266, Mismatches: 38, Indels: 46
0.76 0.11 0.13
Matches are distributed among these distances:
77 4 0.02
79 25 0.09
80 1 0.00
81 2 0.01
82 2 0.01
83 5 0.02
84 11 0.04
85 20 0.08
86 11 0.04
87 4 0.02
88 3 0.01
90 3 0.01
91 24 0.09
92 1 0.00
93 14 0.05
94 136 0.51
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.35
Consensus pattern (93 bp):
TTCACATTCATCACATTGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
CCATTCGGCCTTATCACATATATGCATG
Found at i:307784 original size:170 final size:172
Alignment explanation
Indices: 307591--307938 Score: 664
Period size: 170 Copynumber: 2.0 Consensus size: 172
307581 CCATTCGGCC
307591 TTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATG
1 TTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATG
*
307656 TTCACATTCATCACA-TTGTCATTCGGCCTTA-TCATATATACACATTCACATTCATCACATAAA
66 TTCACATTCATCACATTTGCCATTCGGCCTTAGTCATATATACACATTCACATTCATCACATAAA
307719 ATCCTAAATCAAAATATAAATTTTCATGTATTCACATCACAA
131 ATCCTAAATCAAAATATAAATTTTCATGTATTCACATCACAA
307761 TTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATG
1 TTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATG
307826 TTCACATTCATCACATTTGCCATTCGGCCTTATGTCATATATACACATTCACATTCATCACATAA
66 TTCACATTCATCACATTTGCCATTCGGCCTTA-GTCATATATACACATTCACATTCATCACATAA
307891 AATCCTAAATCAAAATATAAATTTTCATGTATTCACATCACAA
130 AATCCTAAATCAAAATATAAATTTTCATGTATTCACATCACAA
307934 TTATC
1 TTATC
307939 CAAATATACT
Statistics
Matches: 174, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
170 80 0.46
171 15 0.09
173 79 0.45
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (172 bp):
TTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATG
TTCACATTCATCACATTTGCCATTCGGCCTTAGTCATATATACACATTCACATTCATCACATAAA
ATCCTAAATCAAAATATAAATTTTCATGTATTCACATCACAA
Found at i:307818 original size:47 final size:47
Alignment explanation
Indices: 307761--307888 Score: 202
Period size: 47 Copynumber: 2.7 Consensus size: 47
307751 CACATCACAA
*
307761 TTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCC
*
307808 TTATCTCATATATGCATGTTCACATTCATCACATTTGCCATTCGGCC
1 TTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCC
* * **
307855 TTATGTCATATATACACATTCACATTCATCACAT
1 TTATCTCATATATGCATGTTCACATTCATCACAT
307889 AAAATCCTAA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.37
Consensus pattern (47 bp):
TTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCC
Found at i:311757 original size:29 final size:29
Alignment explanation
Indices: 311724--311797 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 29
311714 GATTAAAGAA
311724 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
**
311753 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
311782 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
311798 TCGGTTGGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:311901 original size:40 final size:40
Alignment explanation
Indices: 311857--312071 Score: 349
Period size: 40 Copynumber: 5.4 Consensus size: 40
311847 CCTTCGATGT
*
311857 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* *
311897 TTAGCCCGAATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* *
311937 TTAGCCCGGATATATCACTAGCACAAACGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* * * *
311977 TTAGCCTGAATACATCACTAGCACGAATGCTCTTTGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
312017 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
312057 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
312072 ATAACTCTCA
Statistics
Matches: 160, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 160 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
Found at i:311906 original size:23 final size:23
Alignment explanation
Indices: 311875--311941 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
311865 GATATATCAC
311875 TAGCACGAATGCTCTTCGGAACT
1 TAGCACGAATGCTCTTCGGAACT
* * *
311898 TAGCCCGAAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGAACT
311915 TAGCACGAATGCTCTTCGGAACT
1 TAGCACGAATGCTCTTCGGAACT
311938 TAGC
1 TAGC
311942 CCGGATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 9 0.28
18 3 0.09
19 2 0.06
21 2 0.06
22 3 0.09
23 13 0.41
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGAACT
Found at i:313596 original size:46 final size:46
Alignment explanation
Indices: 313543--313725 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
313533 TATATATACA
* * * *
313543 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
313589 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
313635 CATCTCATACACGTTTCGCATTAGCCATTCCGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
313681 CATCTCATACACATTTCGCATTAGTCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
313726 ATACACTTCC
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 126 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:313770 original size:47 final size:47
Alignment explanation
Indices: 313706--314076 Score: 575
Period size: 47 Copynumber: 7.9 Consensus size: 47
313696 TCGCATTAGT
* * * * *
313706 CATTCGGCTTTACCACATATATACACT-TCCACGTTCATCACATTGGC
1 CATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCACATTGGC
*
313753 CATTCTGCCTTATCACATATATGCATGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGC
313800 CATTC-GCCTTATCACATATATGCATGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGC
*
313846 CATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGC
*
313893 CATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGC
313940 CATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGC
* **
313987 CATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTTTC
1 CATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGC
* * * **
314034 CGTTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
314077 AAAATCCTAA
Statistics
Matches: 307, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 47 0.15
47 260 0.85
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.35
Consensus pattern (47 bp):
CATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGC
Found at i:316837 original size:39 final size:39
Alignment explanation
Indices: 316794--316917 Score: 167
Period size: 39 Copynumber: 3.2 Consensus size: 39
316784 GGACTTTAGC
* * * * * *
316794 CCGGACATATTTCCAACACGTAGCCTGCAGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
316833 CCGGATATAATTCCAGCACATAGCTTACGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
316872 CCAGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
316911 CCGGATA
1 CCGGATA
316918 CACATCAAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:320536 original size:27 final size:27
Alignment explanation
Indices: 320506--320757 Score: 299
Period size: 27 Copynumber: 9.3 Consensus size: 27
320496 TACTGAAATG
* * *
320506 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* * * *
320533 CCCTCAATTTATAGAATTATCGTTTCA
1 CCCTCGATTTATAAAATTACCGTTTTA
*
320560 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* *
320587 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAAAATTACCGTTTTA
* *
320614 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* *
320641 CCCTTGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
*
320668 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* **
320695 CCCTCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* * *
320722 ACCTC-AGTTTACAAAATTATCGTTTTA
1 CCCTCGA-TTTATAAAATTACCGTTTTA
320749 CCCTCGATT
1 CCCTCGATT
320758 GTGAAATTAC
Statistics
Matches: 190, Mismatches: 33, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 188 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCGTTTTA
Found at i:320592 original size:81 final size:81
Alignment explanation
Indices: 320506--320757 Score: 355
Period size: 81 Copynumber: 3.1 Consensus size: 81
320496 TACTGAAATG
* * * * * *
320506 CCCTCGATTTGTAGAATTACCATTTTACCCTCAATTTATAGAATTA-TCGTTTCACCCTCGATTT
1 CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTT
320570 ACAAAATTACCGTTTTA
65 ACAAAATTACCGTTTTA
* *
320587 CCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAAAATTACTGTTTTACCCTTGATTTA
1 CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
* *
320652 TAAAATTACCATTTTA
66 CAAAATTACCGTTTTA
* *
320668 CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTAACCTC-AGTTT
1 CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGA-TTT
*
320732 ACAAAATTATCGTTTTA
65 ACAAAATTACCGTTTTA
320749 CCCTCGATT
1 CCCTCGATT
320758 GTGAAATTAC
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 150 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
CAAAATTACCGTTTTA
Found at i:320779 original size:27 final size:26
Alignment explanation
Indices: 320749--320891 Score: 85
Period size: 27 Copynumber: 5.3 Consensus size: 26
320739 TATCGTTTTA
**
320749 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
*
320776 CCCTG-TAG-GATAGAATTACCAAAATAC
1 CCCTGATTGTG--A-AATTACCAAAATAC
* * * **
320803 CCTTAGTTTGTAAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
320830 CACTGGTTTGTGAAATTACCAAAATA-
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
320856 CCCTCAATTCGTAAAATTACCAAAATAC
1 CCCT-GATT-GTGAAATTACCAAAATAC
320884 CCCTGATT
1 CCCTGATT
320892 TACAAAATTA
Statistics
Matches: 88, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
24 1 0.01
25 2 0.02
26 7 0.08
27 70 0.80
28 6 0.07
29 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCAAAATAC
Found at i:320825 original size:54 final size:53
Alignment explanation
Indices: 320747--320888 Score: 153
Period size: 54 Copynumber: 2.7 Consensus size: 53
320737 ATTATCGTTT
* *
320747 TACCCTCGA-TTGTGAAATTACTGAAATACCCCTGTAGGAT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACTGAAATACCCCTGTAGG-TGA-AATTACCAAAA
* * * **
320800 TACCCTTAGTTTGTAAAATTACTGAAATACCACTGGTTTGTGAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACTGAAATACCCCT-GTAGGTGAAATTACCAAAA
* **
320854 TACCCTCAATTCGTAAAATTACCAAAATACCCCTG
1 TACCCTCAATTTGTAAAATTACTGAAATACCCCTG
320889 ATTTACAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
53 7 0.10
54 62 0.85
55 4 0.05
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACTGAAATACCCCTGTAGGTGAAATTACCAAAA
Found at i:320898 original size:27 final size:26
Alignment explanation
Indices: 320789--320901 Score: 91
Period size: 27 Copynumber: 4.2 Consensus size: 26
320779 TGTAGGATAG
* *
320789 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTGA-TTTGCAA
** * **
320816 AATTACTGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTGATTTGCAA
* * *
320843 AATTACCAAAATACCCTCAATTCGTAA
1 AATTACCAAAATACCCT-GATTTGCAA
*
320870 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATA-CCCTGATTTGCAA
320897 AATTA
1 AATTA
320902 AAGAAATACC
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
26 2 0.03
27 60 0.88
28 6 0.09
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCTGATTTGCAA
Found at i:320900 original size:54 final size:54
Alignment explanation
Indices: 320789--320901 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
320779 TGTAGGATAG
* * * ** * ***
320789 AATTACCAAAATACCCTTAGTTTGTAAAATTACTGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCTCAATTCGTAAAATTACCAAAATACCACTGATTTACAA
*
320843 AATTACCAAAATACCCTCAATTCGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCTCAATTCGTAAAATTACCAAAATACCACTGATTTACAA
320897 AATTA
1 AATTA
320902 AAGAAATACC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCTCAATTCGTAAAATTACCAAAATACCACTGATTTACAA
Found at i:320975 original size:27 final size:27
Alignment explanation
Indices: 320797--320976 Score: 87
Period size: 27 Copynumber: 6.6 Consensus size: 27
320787 AGAATTACCA
* *
320797 AAATACCCTTAGTTTGTAAAATTACTG
1 AAATACCCTTGGTTTGCAAAATTACTG
** **
320824 AAATACCAC-TGGTTTGTGAAATTACCA
1 AAATACC-CTTGGTTTGCAAAATTACTG
*** * * **
320851 AAATACCCTCAATTCGTAAAATTACCA
1 AAATACCCTTGGTTTGCAAAATTACTG
* * * **
320878 AAATACCCCTGATTTACAAAATTAAAG
1 AAATACCCTTGGTTTGCAAAATTACTG
*
320905 AAATACCCTTGACTTT-CTAAAATTTA-TAG
1 AAATACCCTTG-GTTTGC-AAAA-TTACT-G
* ** *
320934 AAATACCATAAGTTTACAAAATTACTG
1 AAATACCCTTGGTTTGCAAAATTACTG
320961 AAATACCCTTGGTTTG
1 AAATACCCTTGGTTTG
320977 TAGATTTACC
Statistics
Matches: 116, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
26 1 0.01
27 86 0.74
28 16 0.14
29 13 0.11
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGGTTTGCAAAATTACTG
Found at i:321071 original size:27 final size:27
Alignment explanation
Indices: 320992--321093 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 27
320982 TTACCAAAAC
* * * **
320992 ACCCTTGTAGGATGAAATGACTAAAAT
1 ACCCCTGTAGGGTAAAATGACTGTAAT
* * *
321019 ACCCCTAATA-GGTAAAAAGACCGTAA-
1 ACCCCT-GTAGGGTAAAATGACTGTAAT
*
321045 AGCCCCTGTAGGGTAAAGTGACTGTAAT
1 A-CCCCTGTAGGGTAAAATGACTGTAAT
* *
321073 ACCCTTGTATGGTAAAATGAC
1 ACCCCTGTAGGGTAAAATGAC
321094 AAATACGTCC
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
26 3 0.05
27 50 0.89
28 3 0.05
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
ACCCCTGTAGGGTAAAATGACTGTAAT
Found at i:321984 original size:24 final size:24
Alignment explanation
Indices: 321902--321984 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
321892 AGGAAGTGCT
* * *
321902 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
321926 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
321951 AGAAAGGGCTTTGCCCCAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
321975 AAAAGAGGCT
1 AAAAG-GGCT
321985 AGGCAACCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:322178 original size:42 final size:42
Alignment explanation
Indices: 322119--322210 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
322109 TAGTCTCCCC
* *
322119 AAATGGGCTTGTATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
322161 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
322203 AAATGGGC
1 AAATGGGC
322211 CTAAGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:322274 original size:31 final size:31
Alignment explanation
Indices: 322234--322379 Score: 240
Period size: 31 Copynumber: 4.7 Consensus size: 31
322224 CGTTTACAGT
*
322234 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
322265 AAAAGCTTCGGTCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
322296 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
322327 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
322358 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
322380 TCAAGACTAA
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.05
31 102 0.95
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:323693 original size:15 final size:15
Alignment explanation
Indices: 323673--323737 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
323663 GTATCTTGGG
323673 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
323688 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
323703 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
* *
323718 TTTTTTTATTC-GGT
1 TTTCTTTATTCTGGA
323732 TTTCTT
1 TTTCTT
323738 GTTATCTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 11 0.26
15 27 0.64
16 4 0.10
ACGTcount: A:0.09, C:0.12, G:0.14, T:0.65
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:323705 original size:30 final size:31
Alignment explanation
Indices: 323669--323737 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
323659 TACCGTATCT
323669 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
*
323699 TGGGTTT-TTCTATCTTGGATTTTTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
323729 -GGTTTTCTT
1 TGGGTTTCTT
323738 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 7 0.21
30 26 0.76
31 1 0.03
ACGTcount: A:0.09, C:0.12, G:0.17, T:0.62
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:328926 original size:29 final size:29
Alignment explanation
Indices: 328882--328985 Score: 165
Period size: 29 Copynumber: 3.6 Consensus size: 29
328872 GCATGAATAT
*
328882 GAATGTGATTTCGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
328911 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
328940 GAATATGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
328969 GAATGAGA-TTGGGCCTA
1 GAATGTGATTTGGGCCTA
328986 GTTGGACATA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 9 0.13
29 61 0.87
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:336915 original size:49 final size:47
Alignment explanation
Indices: 336838--336972 Score: 130
Period size: 49 Copynumber: 2.8 Consensus size: 47
336828 AGAAAATTTA
* * *
336838 GCACTATGTGTGCGAGGTTATGCGGCACTATGTGTGCA-AAAACTACATG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAGAAAAC-AC--G
* * *
336887 GCACTATGTGTGCGAGATTATATAGCACTATGTGTGTGAGGAAACACG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTG-CAGAAAACACG
* *
336935 GCACTATGTGTGCGA-ATGAGTAAGAGCACTATGTGTGC
1 GCACTATGTGTGCGAGATTA-T-ACAGCACTATGTGTGC
336973 GGACCTTTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
47 3 0.04
48 17 0.23
49 46 0.63
50 3 0.04
51 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (47 bp):
GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAGAAAACACG
Found at i:336919 original size:24 final size:24
Alignment explanation
Indices: 336836--336922 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
336826 TAAGAAAATT
* *
336836 TAGCACTATGTGTGCGAGGTTATG
1 TAGCACTATGTGTGCGAGATTATA
** * * * *
336860 CGGCACTATGTGTGCAAAAACTACA
1 TAGCACTATGTGTGC-GAGATTATA
*
336885 TGGCACTATGTGTGCGAGATTATA
1 TAGCACTATGTGTGCGAGATTATA
336909 TAGCACTATGTGTG
1 TAGCACTATGTGTG
336923 TGAGGAAACA
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
24 31 0.65
25 17 0.35
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (24 bp):
TAGCACTATGTGTGCGAGATTATA
Found at i:354361 original size:22 final size:22
Alignment explanation
Indices: 354334--354405 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
354324 GGGCTTACCA
354334 ATTTAGCTCG-TATGAGCTTACT
1 ATTTAGCTCGATA-GAGCTTACT
*
354356 ATTTAGCTCGATAGAGCTTACC
1 ATTTAGCTCGATAGAGCTTACT
* *
354378 GTTTCAGCTCAATAGAGCTTACT
1 ATTT-AGCTCGATAGAGCTTACT
*
354401 TTTTA
1 ATTTA
354406 TCAGCTCAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
22 22 0.51
23 21 0.49
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (22 bp):
ATTTAGCTCGATAGAGCTTACT
Found at i:354392 original size:23 final size:22
Alignment explanation
Indices: 354326--354399 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 22
354316 AGTCATTGGG
*
354326 GCTTACCAATTTAGCTC-GTATGA
1 GCTTACC-ATTTAGCTCAATA-GA
* *
354349 GCTTACTATTTAGCTCGATAGA
1 GCTTACCATTTAGCTCAATAGA
*
354371 GCTTACCGTTTCAGCTCAATAGA
1 GCTTACCATTT-AGCTCAATAGA
354394 GCTTAC
1 GCTTAC
354400 TTTTTATCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
22 20 0.45
23 24 0.55
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (22 bp):
GCTTACCATTTAGCTCAATAGA
Found at i:354619 original size:20 final size:20
Alignment explanation
Indices: 354594--354653 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
354584 CTGATATGTT
*
354594 GATGAATTACTCGTTATACG
1 GATGAATTACTAGTTATACG
* *
354614 GATGAACTACTAGTTATATG
1 GATGAATTACTAGTTATACG
*
354634 AATGAATTAC-AGTTTATACG
1 GATGAATTACTAG-TTATACG
354654 AACAAAAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (20 bp):
GATGAATTACTAGTTATACG
Found at i:358080 original size:43 final size:42
Alignment explanation
Indices: 358009--358131 Score: 115
Period size: 42 Copynumber: 2.9 Consensus size: 42
357999 TGGAAAGCTC
* * * **
358009 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACATCCCAGACAAGGTCTTACATGTAATCAA
* * * *
358051 ATATTGATGCC-AC-TGCTCCAGACAAGGTCTTACACGAAATTAA
1 ATA-CGATGCCAACAT-C-CCAGACAAGGTCTTACATGTAATCAA
*
358094 ATACGATGCCAACATCCCAGACATGGTCTTACATGTAA
1 ATACGATGCCAACATCCCAGACAAGGTCTTACATGTAA
358132 ATCATAAGTT
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.02
42 31 0.48
43 31 0.48
44 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAACATCCCAGACAAGGTCTTACATGTAATCAA
Found at i:362821 original size:19 final size:19
Alignment explanation
Indices: 362773--362832 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
362763 CATTACTGTA
362773 GCAGTAAAT-AGTGCAGTAAT
1 GCAGT-AATCAGTGCAGT-AT
*
362793 --AGTAAACAGTGCAGTAT
1 GCAGTAATCAGTGCAGTAT
*
362810 GCAGTAATCAGTGTAGTAT
1 GCAGTAATCAGTGCAGTAT
362829 GCAG
1 GCAG
362833 GTCCTACCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 4 0.12
18 11 0.32
19 19 0.56
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.25
Consensus pattern (19 bp):
GCAGTAATCAGTGCAGTAT
Found at i:363804 original size:28 final size:28
Alignment explanation
Indices: 363780--363842 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
363770 CTCAGTGTAG
363780 GAAATATTGAGAATGGCACTTAGTGTGC
1 GAAATATTGAGAATGGCACTTAGTGTGC
* *
363808 GAGATATTGAGAATGACACTTAGTGTGC
1 GAAATATTGAGAATGGCACTTAGTGTGC
*
363836 AAAATAT
1 GAAATAT
363843 CAAATGATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.29
Consensus pattern (28 bp):
GAAATATTGAGAATGGCACTTAGTGTGC
Found at i:369805 original size:42 final size:43
Alignment explanation
Indices: 369740--369858 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 43
369730 TCAAGTATTG
*
369740 ATGCCACTGTCCCAGACAGGGTCTTACAC-AAA-ATCAAATACA
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATATCAAAT-CA
* * * *
369782 ATGCCAATGTCTCATACATGGTCTTACACGTAAATGTCAAATCA
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAATATCAAATCA
* * *
369826 ATGCCAACGTCCTAGA-TGTGGTCTTACACGAAA
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAA
369859 ACACATATCA
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
42 25 0.40
43 3 0.05
44 28 0.45
45 6 0.10
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATATCAAATCA
Found at i:370283 original size:9 final size:9
Alignment explanation
Indices: 370264--370294 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
370254 CCTAATTCAT
370264 AAAAT-CAC
1 AAAATACAC
370272 AAAATACAC
1 AAAATACAC
370281 AAAATACAC
1 AAAATACAC
370290 AAAAT
1 AAAAT
370295 TTCCTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.68, C:0.19, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAATACAC
Found at i:377272 original size:27 final size:26
Alignment explanation
Indices: 377242--377334 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 26
377232 GGTGTCTATG
*
377242 CCACAATTATCTGATCTGGTGGCTCTA
1 CCAC-ATTATCTGATCTGGTGACTCTA
* *
377269 CCACATATATCTGTTCTGGT-ATCTCTG
1 CCACAT-TATCTGATCTGGTGA-CTCTA
*
377296 CCACGATTATCTGTATCTAGTGACTCTA
1 CCAC-ATTATCTG-ATCTGGTGACTCTA
*
377324 TCACATTATCT
1 CCACATTATCT
377335 ATTTTGGCAG
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
26 2 0.04
27 37 0.69
28 14 0.26
29 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.38
Consensus pattern (26 bp):
CCACATTATCTGATCTGGTGACTCTA
Found at i:377334 original size:54 final size:54
Alignment explanation
Indices: 377230--377334 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
377220 AGGAAGCGTC
* * *
377230 CTGGTGTCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTATCTATGCCACAATTATCTGATCTAGTGACTCTACCACATATATCTGTT
* * *
377284 CTGGTATCTCTGCCACGATTATCTGTATCTAGTGACTCTATCACAT-TATCT
1 CTGGTATCTATGCCACAATTATCTG-ATCTAGTGACTCTACCACATATATCT
377335 ATTTTGGCAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
54 27 0.61
55 17 0.39
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (54 bp):
CTGGTATCTATGCCACAATTATCTGATCTAGTGACTCTACCACATATATCTGTT
Found at i:385048 original size:27 final size:26
Alignment explanation
Indices: 385008--385119 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
384998 AGGAAGCGTC
* *
385008 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTACCAC-ATTATCTGAT
* *
385035 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTACCACAT-TATCTGAT
* *
385062 CTAGTGGCTCTACTACGATTATCTGTAT
1 CTGGTGGCTCTACCAC-ATTATCTG-AT
* * *
385090 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTACCACATTATCTGAT
385116 CTGG
1 CTGG
385120 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.69
28 15 0.21
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTACCACATTATCTGAT
Found at i:389035 original size:40 final size:39
Alignment explanation
Indices: 388961--389055 Score: 95
Period size: 40 Copynumber: 2.4 Consensus size: 39
388951 TACCTCAGTC
* **
388961 TCGTACACTTAGTGCCTCATATAGCCAAAGCTATTCCATT
1 TCGTACACTTAGTG-CTCATATAACCAAAGCTATTCCAAA
*
389001 TCGTACACTTAGTGCT-ATTTATAACCACAA-CTATTTCAAA
1 TCGTACACTTAGTGCTCA--TATAACCA-AAGCTATTCCAAA
*
389041 TCGCACACTTAGTGC
1 TCGTACACTTAGTGC
389056 CGAATACCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 42 0.89
41 2 0.04
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (39 bp):
TCGTACACTTAGTGCTCATATAACCAAAGCTATTCCAAA
Found at i:393715 original size:47 final size:45
Alignment explanation
Indices: 393642--393914 Score: 152
Period size: 47 Copynumber: 5.8 Consensus size: 45
393632 ATTTGTGTGT
*
393642 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATC-G-CACATTATGA
* *
393688 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-GCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGCACATT---ATGA
* * * ** *
393736 GAGCTAGTGTAAGACATGCCTGGGACAT-GAATCGGGC-TCGA-GA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGCACAT-TATGA
* *
393779 CGTAAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGC-TATGAGATGA
1 -G--AGCCAGTGTAAGACATGTCTGGGACATGGCATC-GCACAT--TATGA
* ** *
393828 TATTCAGTGTAAGACCATGTTTGGGACATGGCATCG-AC-TTGGGAT-A
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGCACATT---ATGA
*
393874 TGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCAC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATC-GCAC
393915 TTTACCCACG
Statistics
Matches: 180, Mismatches: 24, Indels: 43
0.73 0.10 0.17
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 4 0.02
46 61 0.34
47 78 0.43
48 29 0.16
49 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGCACATTATGA
Found at i:393791 original size:46 final size:47
Alignment explanation
Indices: 393642--393863 Score: 206
Period size: 46 Copynumber: 4.7 Consensus size: 47
393632 ATTTGTGTGT
* * * * *
393642 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA-C-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCATCGA-GACGA
*
393688 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGGCATCGAGACGA
* * *
393736 GAGCTAGTGTAAGACATGCCTGGGACATGAATCGGGC-TCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCATCGAGACG-A
*
393783 -AGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCTAT-GAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGGC-ATCGAGACGA
* ** *
393828 TATTCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
393864 ACTTGGGATA
Statistics
Matches: 148, Mismatches: 16, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
45 4 0.03
46 69 0.47
47 48 0.32
48 26 0.18
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCATCGAGACGA
Found at i:393902 original size:140 final size:140
Alignment explanation
Indices: 393647--393904 Score: 342
Period size: 140 Copynumber: 1.8 Consensus size: 140
393637 TGTGTGAGCT
*
393647 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
393712 GACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGCCTGGGACATGAATCGGGCTCGA
66 GACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGCCTAGGACATGAATCGGGCTCGA
393777 GACGTAAGCC
131 GACGTAAGCC
* * * * ** *
393787 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGA-GATGATATTCAGTGTAAGACCATGTTTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-CATGATGAGAGCCAGTGTAAGACCATGTCTG
* * *
393851 GGACATGGCATCGAC-TTGGGA-TATGAGCCAGTGTAAGACCATGTCTAGGACATG
65 GGACATGGCATCGACATTGAGACGA-GAGCCAGTGTAAGA-CATGCCTAGGACATG
393905 GCATCAGCAC
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 1 0.01
139 18 0.18
140 81 0.80
141 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGCCTAGGACATGAATCGGGCTCGA
GACGTAAGCC
Found at i:395979 original size:40 final size:39
Alignment explanation
Indices: 395929--396163 Score: 199
Period size: 39 Copynumber: 6.0 Consensus size: 39
395919 CAAATCCAAT
* * *
395929 CACCACCACAAAGCATGTGGGACTTTAAGCTCGGATATAA
1 CACCAGCACAAAGCATGCGGGACTTT-AGCCCGGATATAA
* *
395969 TACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCATGCGGGACTTTAGCCCGGATATAA
* * * * *
396008 CACCAGCACGAATGCCTTCGGGGC-TTAACCCGGATATAA
1 CACCAGCAC-AAAGCATGCGGGACTTTAGCCCGGATATAA
* * * *
396047 CACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGACATAA
1 CACCAGCAC-AAAGCATGCGGGACTTTAGCCCGGATATAA
* * *
396086 CACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAA
1 CACCAGCAC-AAAGCATGCGGGACTTTAGCCCGGATATAA
* * * * *
396125 CACCAACACGAATGCCTTCAGGAC-TTAGCCCGGATATAA
1 CACCAGCAC-AAAGCATGCGGGACTTTAGCCCGGATATAA
396164 TTCTCCATTA
Statistics
Matches: 178, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 145 0.81
40 33 0.19
ACGTcount: A:0.31, C:0.30, G:0.22, T:0.18
Consensus pattern (39 bp):
CACCAGCACAAAGCATGCGGGACTTTAGCCCGGATATAA
Found at i:396014 original size:39 final size:39
Alignment explanation
Indices: 395960--396163 Score: 320
Period size: 39 Copynumber: 5.2 Consensus size: 39
395950 ACTTTAAGCT
* * *
395960 CGGATATAATACCAGCAC-AAAGCCTGCGGGACTTTAGCC
1 CGGATATAACACCAGCACGAATGCCTTCGGGAC-TTAGCC
* *
395999 CGGATATAACACCAGCACGAATGCCTTCGGGGCTTAACC
1 CGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCC
396038 CGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCC
1 CGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCC
*
396077 CGGACATAACACCAGCACGAATGCCTTCGGGACTTAGCC
1 CGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCC
* *
396116 CGGATATAACACCAACACGAATGCCTTCAGGACTTAGCC
1 CGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCC
396155 CGGATATAA
1 CGGATATAA
396164 TTCTCCATTA
Statistics
Matches: 153, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 142 0.93
40 11 0.07
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (39 bp):
CGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCC
Found at i:398788 original size:27 final size:26
Alignment explanation
Indices: 398740--398799 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
398730 GCGAGGCTGC
*
398740 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
398767 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
398793 CAGATAT
1 CAGATAT
398800 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:398890 original size:27 final size:26
Alignment explanation
Indices: 398843--398893 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
398833 CGAGGCTGCC
*
398843 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
398869 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
398894 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:411050 original size:29 final size:29
Alignment explanation
Indices: 411017--411075 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
411007 CTTTAATATG
*
411017 AACTTTGGCAAAATTACATTTTTGCCCCT
1 AACTTTGGCAAAATTACACTTTTGCCCCT
* *
411046 AACTTTTGCATAATTACACTTTTGCCCCT
1 AACTTTGGCAAAATTACACTTTTGCCCCT
411075 A
1 A
411076 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.39
Consensus pattern (29 bp):
AACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:416606 original size:47 final size:45
Alignment explanation
Indices: 416538--416754 Score: 203
Period size: 47 Copynumber: 4.6 Consensus size: 45
416528 TGTGAGCTAC
*
416538 TGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGGCATCGG--ACATGATGAGAGCCAG
* *
416584 TGTAAGACCATGTCTAGGACATGGCATCGG-CATTGAGATGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACATGGCATCGGACA-T--GATGAGAGCCAG
* * *
416632 TGTAAGACATGTCTGGGACAT-GCATC-GACTACGAGATGATAGTCAG
1 TGTAAGACATGTCTGGGACATGGCATCGGAC-A--TGATGAGAGCCAG
*
416678 TGTAAGACCATGTTTGGGACATGGCATC-GACATGA-GATATGAGCCAG
1 TGTAAGA-CATGTCTGGGACATGGCATCGGACATGATG--A-GAGCCAG
416725 TGTAAGATCATGTCTGGGACATGGCATCGG
1 TGTAAGA-CATGTCTGGGACATGGCATCGG
416755 TCCTTTACTC
Statistics
Matches: 142, Mismatches: 15, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
44 1 0.01
45 5 0.04
46 31 0.22
47 72 0.51
48 33 0.23
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGGCATCGGACATGATGAGAGCCAG
Found at i:416698 original size:94 final size:93
Alignment explanation
Indices: 416530--416753 Score: 299
Period size: 94 Copynumber: 2.4 Consensus size: 93
416520 CATTTGCGTG
* * *
416530 TGAGCTACTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCAT
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCAT
*
416595 GTCTAGGACATGGCATCGGCATTGAGATGA
66 GTCTAGGACATGGCATCGACA-TGAGAT-A
* * *
416625 -GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACTACGA-GATGATAGTCAGTGTAAGACCA
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATGATGAGAGCCAGTGTAAGACCA
* *
416688 TGTTTGGGACATGGCATCGACATGAGATA
65 TGTCTAGGACATGGCATCGACATGAGATA
*
416717 TGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCG
1 TGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
416754 GTCCTTTACT
Statistics
Matches: 115, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
92 1 0.01
93 19 0.17
94 88 0.77
95 7 0.06
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (93 bp):
TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCAT
GTCTAGGACATGGCATCGACATGAGATA
Found at i:419963 original size:40 final size:38
Alignment explanation
Indices: 419898--419987 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 38
419888 AAACCCGAAC
* *
419898 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTACGGGA-TTT-AACCCAGAT
* * * *
419938 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTACGGGATTTAACCCAGAT
*
419976 ATAATTCCAGCA
1 ATAATACCAGCA
419988 TATAGCCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 18 0.42
39 3 0.07
40 22 0.51
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTACGGGATTTAACCCAGAT
Found at i:423649 original size:57 final size:58
Alignment explanation
Indices: 423579--423689 Score: 179
Period size: 57 Copynumber: 1.9 Consensus size: 58
423569 GTGCCCACTG
* *
423579 ACCGATCTTGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATT
* *
423636 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTC
423690 TAATCATTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 29 0.59
58 20 0.41
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATT
Found at i:423902 original size:34 final size:34
Alignment explanation
Indices: 423864--423932 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
423854 TAAGCTTTCT
423864 AGGCACGAAGACCCGAATACACATCACCGGCACG
1 AGGCACGAAGACCCGAATACACATCACCGGCACG
* *
423898 AGGCATGAAGGCCCGAATACACATCACCGGCACG
1 AGGCACGAAGACCCGAATACACATCACCGGCACG
423932 A
1 A
423933 AGCCTGCTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.33, G:0.25, T:0.07
Consensus pattern (34 bp):
AGGCACGAAGACCCGAATACACATCACCGGCACG
Found at i:429292 original size:44 final size:43
Alignment explanation
Indices: 429151--429309 Score: 189
Period size: 44 Copynumber: 3.7 Consensus size: 43
429141 AAAGCATACA
* *
429151 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAACA-TCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAA-ATTCG
* * ** * *
429194 ATGCC-ACTGTCCCAGGCAGGGTCTTACACG-AAATTAGATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAACAAAATTCG
*
429236 ATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAAATTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AAACAAAATTCG
429280 ATGCCAACGTCCCAGACATGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
429310 ATATCACATA
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 32 0.34
43 25 0.26
44 37 0.39
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAAATTCG
Found at i:429309 original size:86 final size:85
Alignment explanation
Indices: 429146--429310 Score: 235
Period size: 86 Copynumber: 1.9 Consensus size: 85
429136 CTCGGAAAGC
* * *
429146 ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAACATCGATGCCACTGTCCCAGGC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAACATCGATGCCACTGTCCCAGAC
429211 AGGGTCTTACACGAAATTAG
66 AGGGTCTTACACGAAATTAG
* *
429231 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAA-ATTCGATGCCAAC-GTCCCA
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGT-AAACAAACA-TCGATGCC-ACTGTCCCA
*
429294 GACATGGTCTTACACGA
63 GACAGGGTCTTACACGA
429311 TATCACATAT
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
85 34 0.48
86 35 0.49
87 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAACATCGATGCCACTGTCCCAGAC
AGGGTCTTACACGAAATTAG
Found at i:429771 original size:70 final size:70
Alignment explanation
Indices: 429687--429901 Score: 340
Period size: 70 Copynumber: 3.1 Consensus size: 70
429677 ACATATTTTC
* * * **
429687 ATTAGCTAAACACCATGATTTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACAATAGCA
1 ATTAGCTAAGCACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACAGCAGCA
429752 TATTA
66 TATTA
*
429757 ATTAGCTAAGCACCATAAATTTGTCCTAATTTGGATAGCCAATAATTTACAGTATTACAGCAGCA
1 ATTAGCTAAGCACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACAGCAGCA
429822 TATTA
66 TATTA
* * *
429827 ACTAGCTAAGCACCATAAATTTGTCGTAATTTGGACAGACAATAATTTACAGTATTACAGCAGCA
1 ATTAGCTAAGCACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACAGCAGCA
*
429892 TATTG
66 TATTA
429897 ATTAG
1 ATTAG
429902 TAATAAACTA
Statistics
Matches: 133, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 133 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (70 bp):
ATTAGCTAAGCACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACAGCAGCA
TATTA
Found at i:442143 original size:47 final size:47
Alignment explanation
Indices: 442092--442236 Score: 206
Period size: 47 Copynumber: 3.1 Consensus size: 47
442082 TTAGGATTTT
442092 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
442139 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
442186 ATGT-AGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGA-TGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
442231 ATGTGA
1 ATGTGA
442237 AATATATATA
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
45 24 0.27
46 2 0.02
47 62 0.70
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:442267 original size:50 final size:50
Alignment explanation
Indices: 442195--442341 Score: 235
Period size: 50 Copynumber: 3.0 Consensus size: 50
442185 AATGTAGTGA
*
442195 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
442244 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* * *
442294 ATATGAGATATGTATATGTGGTAAAGCCAAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
442342 GTAGGCGATG
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
49 7 0.08
50 85 0.92
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:445385 original size:318 final size:318
Alignment explanation
Indices: 444799--445440 Score: 1124
Period size: 318 Copynumber: 2.0 Consensus size: 318
444789 AAATCATATT
* *
444799 AGATTGTTGTTACACTTTAAAACTATTTTTGTTACGGAAGCTTTAAAATTATATCAAGAAGACGT
1 AGATGGTTATTACACTTTAAAACTATTTTTGTTACGGAAGCTTTAAAATTATATCAAGAAGACGT
* *
444864 GGTGTTTTTGAAAAACAGTTATCTTTTGAAAGCACGTCTTCTTCCAACAATCTAGCAGTTTATAT
66 GGTGTTTTTGAAAAACAGATATCTTTTGAAAGCACGTCTTCTTCCAACAATCTAGCAATTTATAT
*
444929 CAAAGCAAGTAAAAATACCAAATTAAAAGTTAAAACCTTAGAGAGGACTTATTACATAAATAAAT
131 CAAAACAAGTAAAAATACCAAATTAAAAGTTAAAACCTTAGAGAGGACTTATTACATAAATAAAT
444994 ATCCAATTCAAAATTTAATAGTAAATAAAAGTCAAATATAAAGCAGGAGCAGTAGTGTGCCAACC
196 ATCCAATTCAAAATTTAATAGTAAATAAAAGTCAAATATAAAGCAGGAGCAGTAGTGTGCCAACC
* * *
445059 TCCGAATCCCTTGCAACACCGATCTGTCTAAGGCTGGGGATTTCCTGTACAGATAAAC
261 TCCGAATCCCTCGCAACACCGATCCGTCTAAGGCTGGGGATTTCCTATACAGATAAAC
* * *
445117 AGATGGTTATTACACTTTAAAACTATGTTTT-TTATGGAAGCTTTAAATTTATATTAAGAAGACG
1 AGATGGTTATTACACTTTAAAACTAT-TTTTGTTACGGAAGCTTTAAAATTATATCAAGAAGACG
445181 TGGTGTTTTTGAAAAACAGATATCTTTTGAAAGCACGTCTTCTTCCAACAATCTAGCAATTTATA
65 TGGTGTTTTTGAAAAACAGATATCTTTTGAAAGCACGTCTTCTTCCAACAATCTAGCAATTTATA
* *
445246 TCAAAACAAGTAAAAATCCCAAATTAAAAGTTAAAACCTTAGAGAGGGCTTATTACATAAATAAA
130 TCAAAACAAGTAAAAATACCAAATTAAAAGTTAAAACCTTAGAGAGGACTTATTACATAAATAAA
*
445311 TATCCAATTCAAAATTTAATAGTAAATAAAAGTCAAATATAAAGCAGGAGCAGTAGTGTGGCAAC
195 TATCCAATTCAAAATTTAATAGTAAATAAAAGTCAAATATAAAGCAGGAGCAGTAGTGTGCCAAC
* *
445376 CTCCGAATCCCTCGCAGCACTGATCCGTCTAAGGCTGGGGATTTCCTATACAGATAAAC
260 CTCCGAATCCCTCGCAACACCGATCCGTCTAAGGCTGGGGATTTCCTATACAGATAAAC
445435 AGATGG
1 AGATGG
445441 GTGAGTTTAC
Statistics
Matches: 307, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
318 303 0.99
319 4 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (318 bp):
AGATGGTTATTACACTTTAAAACTATTTTTGTTACGGAAGCTTTAAAATTATATCAAGAAGACGT
GGTGTTTTTGAAAAACAGATATCTTTTGAAAGCACGTCTTCTTCCAACAATCTAGCAATTTATAT
CAAAACAAGTAAAAATACCAAATTAAAAGTTAAAACCTTAGAGAGGACTTATTACATAAATAAAT
ATCCAATTCAAAATTTAATAGTAAATAAAAGTCAAATATAAAGCAGGAGCAGTAGTGTGCCAACC
TCCGAATCCCTCGCAACACCGATCCGTCTAAGGCTGGGGATTTCCTATACAGATAAAC
Found at i:475437 original size:42 final size:42
Alignment explanation
Indices: 475380--475541 Score: 162
Period size: 42 Copynumber: 3.8 Consensus size: 42
475370 TAGGGCTATG
475380 TGTGATTTCATGTAAGACCATATCTAGGATATGACATCGATA
1 TGTGATTTCATGTAAGACCATATCTAGGATATGACATCGATA
* * * *
475422 TGTGATTTCATGTAAGACCATGTCTGGGACATGGCATCGATA
1 TGTGATTTCATGTAAGACCATATCTAGGATATGACATCGATA
* * ** * * *
475464 CGAGACATCGTGTAAGACCATAGCTAGGCTATCGACATCGATATA
1 TGTGATTTCATGTAAGACCATATCTAGGATAT-GACATCG--ATA
** * *
475509 TGTGATCCCATGTAAGACCATATTTGGGATATG
1 TGTGATTTCATGTAAGACCATATCTAGGATATG
475542 GCTTGGCATC
Statistics
Matches: 92, Mismatches: 25, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
42 60 0.65
43 6 0.07
44 1 0.01
45 25 0.27
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTGATTTCATGTAAGACCATATCTAGGATATGACATCGATA
Found at i:492810 original size:40 final size:40
Alignment explanation
Indices: 492598--492803 Score: 326
Period size: 40 Copynumber: 5.2 Consensus size: 40
492588 AACCCAAGTA
* * * *
492598 CCTTCGGGATTTAG-CCAGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
492637 CCTTTGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
492677 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
492717 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
492757 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
492797 CCTTCGG
1 CCTTCGG
492804 ATCTTAGTCC
Statistics
Matches: 154, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 15 0.10
40 136 0.88
41 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:493845 original size:24 final size:24
Alignment explanation
Indices: 493801--493846 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
493791 ACAATTTTAG
* *
493801 AACATCTAAACAGCACTTGTTCAA
1 AACATCTAAACAACACATGTTCAA
493825 AACAT-TAAACAACTACATGTTC
1 AACATCTAAACAAC-ACATGTTC
493847 GGCTATTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (24 bp):
AACATCTAAACAACACATGTTCAA
Found at i:494729 original size:27 final size:26
Alignment explanation
Indices: 494698--494753 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 26
494688 AATCACATTC
494698 TATACAAACACAACATTCAATTTAACA
1 TATACAAACACAACATTCAATTT-ACA
494725 TATACAAACACAACATTCAATTTACA
1 TATACAAACACAACATTCAATTTACA
494751 TAT
1 TAT
494754 TTACATGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (26 bp):
TATACAAACACAACATTCAATTTACA
Found at i:496880 original size:24 final size:24
Alignment explanation
Indices: 496768--496880 Score: 76
Period size: 24 Copynumber: 4.8 Consensus size: 24
496758 GAGCTTATTG
*
496768 TTTCAGCTC-ATTGAAGCTTACCA-
1 TTTCAGCTCAATAG-AGCTTACCAT
*
496791 ATTCAGCTCGAA-AGAGCTTA-C-T
1 TTTCAGCTC-AATAGAGCTTACCAT
* *
496813 GTTC-GACTCAATAGAGTTTACCAT
1 TTTCAG-CTCAATAGAGCTTACCAT
* * * * *
496837 TTTTAGCTGAATACAACTTACCGT
1 TTTCAGCTCAATAGAGCTTACCAT
496861 TTTCAGCTCAATAGAGCTTA
1 TTTCAGCTCAATAGAGCTTA
496881 TTGTTTATCA
Statistics
Matches: 67, Mismatches: 15, Indels: 15
0.69 0.15 0.15
Matches are distributed among these distances:
21 3 0.04
22 14 0.21
23 15 0.22
24 33 0.49
25 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (24 bp):
TTTCAGCTCAATAGAGCTTACCAT
Found at i:501433 original size:48 final size:47
Alignment explanation
Indices: 501377--501796 Score: 314
Period size: 48 Copynumber: 8.8 Consensus size: 47
501367 GGTGGGTTGC
* * *
501377 CGATGCCATGTTCCAAACATGGCCTTACACTAGCTCACATGTCGAGG
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAGG
* * *
501424 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAGTC-TCAT-TA-C
1 C-GATGCCATGTTCCAGACATGGTCTTACACTAGCTC-A--CAT-ATCGAGG
* * ** *
501473 CGATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCATAAGGTGG
1 CGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACATATCGAGG
* * * ** *
501520 CCGATGCTATGTCCCAGACATGGTCTTACACTAGCGCACATATTAATGC
1 -CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGA-GG
* * * * ** *
501569 CAATGCCATGTTCTAGACATGGTCTTACACTGGCTCTCATAAGGTGG
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAGG
* * * *
501616 ACGATGCCATGTCCCAGACATGGTCTTATACTAGCGCACATATCAGTGG
1 -CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATC-GAGG
* * * * *
501665 CAATGCCATG-TCTTAGACATGGTCTTACACTAGCGCACATATCAATG
1 CGATGCCATGTTC-CAGACATGGTCTTACACTAGCTCACATATCGAGG
* * *
501712 CTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCACAACATC-A-A
1 C-GATGCCATGTTCCAGACATGGTCTTACACTAG--CTCAC-ATATCGAGG
* *
501761 CGATGCCATGTTCCAAACATGGTCTTACATTAGCTC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTC
501797 TCACACCGTG
Statistics
Matches: 295, Mismatches: 58, Indels: 41
0.75 0.15 0.10
Matches are distributed among these distances:
45 2 0.01
46 4 0.01
47 7 0.02
48 257 0.87
49 12 0.04
50 7 0.02
51 6 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAGG
Found at i:501540 original size:96 final size:96
Alignment explanation
Indices: 501374--501746 Score: 403
Period size: 96 Copynumber: 3.9 Consensus size: 96
501364 GAGGGTGGGT
* * * *** * *
501374 TGCCGATGCCATGTTCC-AAACATGGCCTTACACTAGCTCACATGTCGAGGCTGATGCCATGTCC
1 TGCCAATGCCATG-TCCTAGACATGGTCTTACACTAGCTCACATAAGGTGGCCGATGCCATGTCC
* * * *
501438 CAGACATGGTCTTACACTAGCTCTA-GTCTCAT
65 CAGACATGGTCTTACACTAGCGC-ACATATCAA
* * * * *
501470 TACCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCGATGCTATGTCCC
1 TGCCAATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATAAGGTGGCCGATGCCATGTCCC
*
501535 AGACATGGTCTTACACTAGCGCACATATTAA
66 AGACATGGTCTTACACTAGCGCACATATCAA
* * * *
501566 TGCCAATGCCATGTTCTAGACATGGTCTTACACTGGCTCTCATAAGGTGGACGATGCCATGTCCC
1 TGCCAATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATAAGGTGGCCGATGCCATGTCCC
* *
501631 AGACATGGTCTTATACTAGCGCACATATCAG
66 AGACATGGTCTTACACTAGCGCACATATCAA
* * * * * *
501662 TGGCAATGCCATGTCTTAGACATGGTCTTACACTAGCGCACATATCA-AT-GCTGATGCCATGTT
1 TGCCAATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATA--AGGTGGCCGATGCCATGTC
*
501725 CCAAACATGGTCTTACACTAGC
64 CCAGACATGGTCTTACACTAGC
501747 TCTCACAACA
Statistics
Matches: 237, Mismatches: 36, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
95 4 0.02
96 231 0.97
97 1 0.00
98 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (96 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATAAGGTGGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGCGCACATATCAA
Found at i:501817 original size:96 final size:95
Alignment explanation
Indices: 501377--501821 Score: 389
Period size: 96 Copynumber: 4.6 Consensus size: 95
501367 GGTGGGTTGC
* * * ** * *
501377 CGATGCCATGTTCCAAACATGGCCTTACACTAGCTCACATGTCGAGGCTGATGCCATGTCCCAGA
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATAACGTGGCCGATGCCATGTCCCAGA
* *
501442 CATGGTCTTACACTAGCTCT-AGTCTCATTAC
66 CATGGTCTTACACTAGCTCTCA--CACATTAA
* * *
501473 CGATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCGATGCTATGTCCCAG
1 CGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCTCATAACGTGGCCGATGCCATGTCCCAG
* *
501537 ACATGGTCTTACACTAG--CGCACATATTAA
65 ACATGGTCTTACACTAGCTCTCACACATTAA
* * * * *
501566 TGCCAATGCCATGTTCTAGACATGGTCTTACACTGGCTCTCATAAGGTGGACGATGCCATGTCCC
1 ---CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATAACGTGGCCGATGCCATGTCCC
* * * * * **
501631 AGACATGGTCTTATACTAGCGCACATATCAGTGG
63 AGACATGGTCTTACACTAGCTCTCACA-CATTAA
* * * * * * * *
501665 CAATGCCATG-TCTTAGACATGGTCTTACACTAGCGCACATATCAAT-GCTGATGCCATGTTCCA
1 CGATGCCATGTTC-CAGACATGGTCTTACACTAGCTCTCATAAC-GTGGCCGATGCCATGTCCCA
* *
501728 AACATGGTCTTACACTAGCTCTCACAACATCAA
64 GACATGGTCTTACACTAGCTCTCAC-ACATTAA
* * * * *
501761 CGATGCCATGTTCCAAACATGGTCTTACATTAGCTCTCACACCGTGGCCGACGCCATGTCC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATAACGTGGCCGATGCCATGTCC
501822 TAGATGTAAC
Statistics
Matches: 280, Mismatches: 55, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
93 5 0.02
94 1 0.00
95 7 0.03
96 255 0.91
97 6 0.02
98 4 0.01
99 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (95 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATAACGTGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCACACATTAA
Found at i:501817 original size:144 final size:144
Alignment explanation
Indices: 501375--501825 Score: 491
Period size: 144 Copynumber: 3.1 Consensus size: 144
501365 AGGGTGGGTT
* * * * * * *
501375 GCCGATGCCATGTTCC-AAACATGGCCTTACACTAGCTCACATGTCGAGGCTGATGCCATGTCCC
1 GCCGATGCCATG-TCCTAGACATGGTCTTACACTAGCGCACATATCAATGCTGATGCCATGTTCC
* * *
501439 AGACATGGTCTTACACTAGCTCT-AGTC-TCATTACCGATGCCATG-TCCTAGACATGGTCTTAC
65 AGACATGGTCTTACACTAGCTCTCA--CAACATCAACGATGCCATGTTCC-AGACATGGTCTTAC
*
501501 ACTGGCTCTCATA-AGGTG
127 ACTAGCTCTCATACA-GTG
* * * ** *
501519 GCCGATGCTATGTCCCAGACATGGTCTTACACTAGCGCACATATTAATGCCAATGCCATGTTCTA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCGCACATATCAATGCTGATGCCATGTTCCA
* * ** ** * *
501584 GACATGGTCTTACACTGGCTCTCATAAGGTGGACGATGCCATGTCCCAGACATGGTCTTATACTA
66 GACATGGTCTTACACTAGCTCTCACAACATCAACGATGCCATGTTCCAGACATGGTCTTACACTA
* *
501649 GCGCACATATCAGTG
131 GCTCTCATA-CAGTG
* *
501664 G-CAATGCCATGTCTTAGACATGGTCTTACACTAGCGCACATATCAATGCTGATGCCATGTTCCA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCGCACATATCAATGCTGATGCCATGTTCCA
* * *
501728 AACATGGTCTTACACTAGCTCTCACAACATCAACGATGCCATGTTCCAAACATGGTCTTACATTA
66 GACATGGTCTTACACTAGCTCTCACAACATCAACGATGCCATGTTCCAGACATGGTCTTACACTA
* *
501793 GCTCTCACACCGTG
131 GCTCTCATACAGTG
*
501807 GCCGACGCCATGTCCTAGA
1 GCCGATGCCATGTCCTAGA
501826 TGTAACACCC
Statistics
Matches: 249, Mismatches: 51, Indels: 14
0.79 0.16 0.04
Matches are distributed among these distances:
143 8 0.03
144 233 0.94
145 7 0.03
146 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (144 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCGCACATATCAATGCTGATGCCATGTTCCA
GACATGGTCTTACACTAGCTCTCACAACATCAACGATGCCATGTTCCAGACATGGTCTTACACTA
GCTCTCATACAGTG
Found at i:502774 original size:27 final size:27
Alignment explanation
Indices: 502672--502775 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 27
502662 AATACTTTAG
*
502672 TTTACCAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACTGAAATACCCTCGA
* ** * *
502699 CTTGTAAAATTAC-CAAAGTACCCCCGA
1 TTTACAAAATTACTGAAA-TACCCTCGA
* **
502726 TTTACAGAATTACT-ATTTTACCCTCGA
1 TTTACAAAATTACTGA-AATACCCTCGA
*
502753 TTTACAAAATTATTGAAATACCC
1 TTTACAAAATTACTGAAATACCC
502776 CTGTAGGGTA
Statistics
Matches: 56, Mismatches: 17, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
26 3 0.05
27 52 0.93
28 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTCGA
Found at i:502790 original size:27 final size:27
Alignment explanation
Indices: 502760--502900 Score: 185
Period size: 27 Copynumber: 5.2 Consensus size: 27
502750 CGATTTACAA
*
502760 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
502787 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
502814 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
502841 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
502868 AATTA-TCAAGATACCCCTATGGGGTAA
1 AATTACTGAA-ATACCCCTGTAGGGTAG
502895 AATTAC
1 AATTAC
502901 CATTTTTTCC
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.02
27 97 0.98
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:503593 original size:27 final size:27
Alignment explanation
Indices: 503563--503636 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
503553 ATTCTGTTAA
* *
503563 GTGGCTTTGCCACATTATCTG-ATTCTG
1 GTGGCTCTGCCACAATATCTGTA-TCTG
503590 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* * *
503617 GTGACTCTGTCATAATATCT
1 GTGGCTCTGCCACAATATCT
503637 ATTCTGGCAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:503792 original size:25 final size:25
Alignment explanation
Indices: 503764--503832 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
503754 CATTCACATT
*
503764 CTGATTTTGATTCTGTTACTTGATA
1 CTGATTTTGATTCTGTTACCTGATA
* * *
503789 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTTTGATTCTGTTACCTGATA
*
503814 CTCATTTTGATTCTAGTTA
1 CTGATTTTGATTCT-GTTA
503833 TGATAATGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 33 0.92
26 3 0.08
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (25 bp):
CTGATTTTGATTCTGTTACCTGATA
Found at i:508104 original size:39 final size:40
Alignment explanation
Indices: 507996--508161 Score: 228
Period size: 40 Copynumber: 4.2 Consensus size: 40
507986 CGTTCGGAGT
** * *
507996 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
508035 ATAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
508075 TTAGCTCGG-TATAATAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
508114 TTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
508154 TTAGCCCG
1 TTAGCCCG
508162 AAATTAGCCA
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 39 0.35
40 73 0.65
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:508182 original size:40 final size:40
Alignment explanation
Indices: 507996--508199 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
507986 CGTTCGGAGT
* *
507996 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
* * * *
508035 ATAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
* ** *
508075 TTAGCTCGG-TATAATAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
* * *
508114 TTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
* * *
508154 TTAGCCC-GAAATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATA-TAGCAACTAGCACAAATGCCT-TCGGGAC
508194 TTAGCC
1 TTAGCC
508200 TGGTTATCAT
Statistics
Matches: 142, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 44 0.31
40 98 0.69
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
Found at i:516101 original size:40 final size:40
Alignment explanation
Indices: 516057--516242 Score: 229
Period size: 39 Copynumber: 4.7 Consensus size: 40
516047 GCCACTAGCT
*
516057 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
* *
516097 CAAATGCCTTCGGGACTTAGCCCG-GTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
*
516136 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
* ** * *
516176 -AAATGCCTTCGGGACTTAGCCCGAAT-TAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
*
516214 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGATTAT
516243 CATCCGAACA
Statistics
Matches: 128, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 11 0.09
39 79 0.62
40 38 0.30
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
Found at i:516227 original size:78 final size:80
Alignment explanation
Indices: 516034--516242 Score: 277
Period size: 78 Copynumber: 2.7 Consensus size: 80
516024 CCTTCGGAGT
* *
516034 TTAGCCGGATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTTGCAC
1 TTAGCCCGATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCAC
516098 AAATGCCTTCGGGAC
66 AAATGCCTTCGGGAC
* *** * * *
516113 TTAGCCCGGTATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAGCTCGCA-
1 TTAGCCCGATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCAC
516176 AAATGCCTTCGGGAC
66 AAATGCCTTCGGGAC
516191 TTAGCCCGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCGG-TTAT
1 TTAGCCCGATA-TAGCCACTAGCTCAAATGCCT-TCGGGACTTAGCCCGGATTAT
516243 CATCCGAACA
Statistics
Matches: 111, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
77 3 0.03
78 55 0.50
79 51 0.46
80 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TTAGCCCGATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCAC
AAATGCCTTCGGGAC
Found at i:516236 original size:39 final size:40
Alignment explanation
Indices: 516034--516237 Score: 220
Period size: 39 Copynumber: 5.2 Consensus size: 40
516024 CCTTCGGAGT
* * *
516034 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGAATATAGCAACTAGCACAAATGCCTTCGGGAC
* * *
516073 TTAGCCCGATTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGAATATAGCAACTAGCACAAATGCCTTCGGGAC
* ** *
516113 TTAGCCCG-GTATAATAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGAATATAGCAACTAGCACAAATGCCTTCGGGAC
* * * *
516152 TTAGCCCGGATATAGTAGCTCGCA-AAATGCCTTCGGGAC
1 TTAGCCCGAATATAGCAACTAGCACAAATGCCTTCGGGAC
* *
516191 TTAGCCCGAAT-TAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGAATATAGCAACTAGCACAAATGCCT-TCGGGAC
516230 TTAGCCCG
1 TTAGCCCG
516238 GTTATCATCC
Statistics
Matches: 143, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
38 9 0.06
39 85 0.59
40 49 0.34
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGAATATAGCAACTAGCACAAATGCCTTCGGGAC
Found at i:522614 original size:36 final size:38
Alignment explanation
Indices: 522513--522698 Score: 188
Period size: 38 Copynumber: 4.9 Consensus size: 38
522503 TTCGAGAAAT
* **
522513 TTAACCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGAC
1 TTAACCGGATTTAG-TAACTCGCACAAATGCCTTC-GGAC
* *
522552 ATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGAC
1 TTA-ACCGGATT-TAGTAACTCGCACAAATGCCTTCGGAC
522591 TTAACC-GATTTA-TAACTCGCACAAATGCCTTCGGGAC
1 TTAACCGGATTTAGTAACTCGCACAAATGCCTTC-GGAC
*
522628 TT-ACCGGATTTAGTAACTCGCACAAATGCCTTCGGGC
1 TTAACCGGATTTAGTAACTCGCACAAATGCCTTCGGAC
* * *
522665 TTAGCCCGGAATTAGTATCT-GCACAAATG-CTTCG
1 TTA-ACCGGATTTAGTAACTCGCACAAATGCCTTCG
522699 ATCTTAGTCG
Statistics
Matches: 127, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
36 23 0.18
37 25 0.20
38 33 0.26
39 23 0.18
40 23 0.18
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (38 bp):
TTAACCGGATTTAGTAACTCGCACAAATGCCTTCGGAC
Found at i:522654 original size:38 final size:39
Alignment explanation
Indices: 522536--522698 Score: 207
Period size: 38 Copynumber: 4.3 Consensus size: 39
522526 GCTACTCGTT
*
522536 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTA-CCCGGATT-TAGTAACTCGCA
*
522576 CAAATGCCTTC-GGACTTAACC-GATTTA-TAACTCGCA
1 CAAATGCCTTCGGGACTTACCCGGATTTAGTAACTCGCA
522612 CAAATGCCTTCGGGACTTA-CCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTACCCGGATTTAGTAACTCGCA
* *
522650 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCT-GCA
1 CAAATGCCTTCGGGACTTA-CCCGGATTTAGTAACTCGCA
522688 CAAATG-CTTCG
1 CAAATGCCTTCG
522699 ATCTTAGTCG
Statistics
Matches: 113, Mismatches: 4, Indels: 15
0.86 0.03 0.11
Matches are distributed among these distances:
36 22 0.19
37 25 0.22
38 36 0.32
39 19 0.17
40 11 0.10
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTACCCGGATTTAGTAACTCGCA
Found at i:522693 original size:76 final size:75
Alignment explanation
Indices: 522536--522698 Score: 208
Period size: 74 Copynumber: 2.2 Consensus size: 75
522526 GCTACTCGTT
*
522536 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCGATT
1 CAAATGCCTTCGGGACATA-CCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCGAAT
522601 TATAACTCGCA
65 TATAACTCGCA
* * *
522612 CAAATGCCTTCGGGACTTA-CCGGATT-TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACATACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGACTTA-ACC-GA
*
522675 ATTAGTATCT-GCA
63 ATTA-TAACTCGCA
522688 CAAATG-CTTCG
1 CAAATGCCTTCG
522699 ATCTTAGTCG
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
74 33 0.42
75 9 0.12
76 32 0.41
77 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (75 bp):
CAAATGCCTTCGGGACATACCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCGAATT
ATAACTCGCA
Found at i:523923 original size:53 final size:54
Alignment explanation
Indices: 523842--523952 Score: 190
Period size: 53 Copynumber: 2.1 Consensus size: 54
523832 TTAGTTTATT
523842 CCATGCTTTTATTCTTATTCTTTCCATTAACACAACATGTTCATGA-ATGTTTGC
1 CCATGCTTTTATTCTTATTCTTTCCATTAACACAACATGTT-ATGACATGTTTGC
*
523896 CCATGCTTTTATT-TTATTTTTTCCATTAACACAACATGTTATGACATGTTTGC
1 CCATGCTTTTATTCTTATTCTTTCCATTAACACAACATGTTATGACATGTTTGC
523949 CCAT
1 CCAT
523953 CACCTGTCAT
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
52 4 0.07
53 38 0.69
54 13 0.24
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (54 bp):
CCATGCTTTTATTCTTATTCTTTCCATTAACACAACATGTTATGACATGTTTGC
Found at i:530304 original size:39 final size:40
Alignment explanation
Indices: 530207--530309 Score: 165
Period size: 41 Copynumber: 2.6 Consensus size: 40
530197 CCCGGTTATA
530207 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
1 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
530247 AGATAACTCGCACAAATGCCTTC-GGAGCTTAACCC-GATTT
1 AG-TAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTT
*
530287 AGTAACTCGCACCAATGCCTTCG
1 AGTAACTCGCACAAATGCCTTCG
530310 CTTAGCCGAA
Statistics
Matches: 59, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
39 19 0.32
40 12 0.20
41 28 0.47
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (40 bp):
AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
Found at i:530685 original size:43 final size:40
Alignment explanation
Indices: 530515--530706 Score: 235
Period size: 43 Copynumber: 4.7 Consensus size: 40
530505 AAGTGACCAT
* *
530515 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
* *
530555 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
530594 ATCCGGGTTAAGTCCCGAAGGCATTTGTTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAA
*
530635 CATCCGGGTTAAGTCCCGAAGGCAATTTGTGGCGAGTTACTATA
1 -ATCCGGGCTAAGTCCCGAAGGC-ATTTGT-GCGAGTTACTA-A
* *
530679 AACCGGGCTATGTCCCGAAGGCAATTTG
1 ATCCGGGCTAAGTCCCGAAGGC-ATTTG
530707 AACGAGTAGC
Statistics
Matches: 135, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
39 34 0.25
40 23 0.17
41 13 0.10
42 23 0.17
43 41 0.30
44 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:537390 original size:56 final size:57
Alignment explanation
Indices: 537288--537409 Score: 228
Period size: 56 Copynumber: 2.2 Consensus size: 57
537278 ACAAGGGATG
537288 ATGGGCAAAACATGTCATGAAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
537345 ATGGGCAAAACATGTCATG-AAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
537401 ATGGGCAAA
1 ATGGGCAAA
537410 TAAACTAATA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 45 0.70
57 19 0.30
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.22
Consensus pattern (57 bp):
ATGGGCAAAACATGTCATGAAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:538787 original size:120 final size:120
Alignment explanation
Indices: 538555--538813 Score: 287
Period size: 120 Copynumber: 2.2 Consensus size: 120
538545 TCGAATGATG
* *
538555 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
538620 GTGCGAGATAACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTAAA
66 GTGCGAGATAACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTAAA
* * * **
538675 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
538738 TTGTGCGAG-TTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTGCGAGATAACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTAGCTAAA
* *
538795 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
538814 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
118 2 0.02
119 30 0.25
120 79 0.67
121 7 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATAACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAAA
Found at i:538794 original size:40 final size:40
Alignment explanation
Indices: 538555--538780 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
538545 TCGAATGATG
* * * *
538555 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
538595 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TTACTAAA
*
538636 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
538675 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
538715 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
538756 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
538781 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
39 16 0.10
40 126 0.76
41 24 0.14
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:541679 original size:17 final size:18
Alignment explanation
Indices: 541643--541683 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
541633 AACCCCTAAA
541643 CTCAA-AGATGCAACACT
1 CTCAACAGATGCAACACT
541660 CTCAACAGATGCAACA-T
1 CTCAACAGATGCAACACT
541677 CTCAACA
1 CTCAACA
541684 TATCCTCGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.41, C:0.32, G:0.10, T:0.17
Consensus pattern (18 bp):
CTCAACAGATGCAACACT
Found at i:547508 original size:40 final size:39
Alignment explanation
Indices: 547424--547608 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
547414 TTGAATGATG
* * * * *
547424 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
547464 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
547504 TCCGGGCTAAGCCCGAAGGCATTTGTGAGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
547543 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
547584 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCC-GAAGGCATTTG
547609 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 36 0.30
40 75 0.62
41 9 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:547631 original size:79 final size:79
Alignment explanation
Indices: 547477--547641 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
547467 GGACTAAGAT
* * *
547477 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGAGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGTAAGAGTTACTAA
* *
547542 ATCCGGGTTAAGTC
66 ATCCGAGTTAAATC
* * *
547556 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATTTG-AACGAG-TAG
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGTAA-GAGTTA-
* *
547618 CTATATCC-AGTTAAATT
62 CTAAATCCGAGTTAAATC
547635 CCGAAGG
1 CCGAAGG
547642 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGTAAGAGTTACTAA
ATCCGAGTTAAATC
Found at i:549912 original size:40 final size:38
Alignment explanation
Indices: 549862--550014 Score: 180
Period size: 40 Copynumber: 3.9 Consensus size: 38
549852 TCCAGTTACT
* * *
549862 AGCACAAAGCCTGTGGGACTTTAGGCCCGGATATAGTACC
1 AGCACGAAGCCTGCGGGA-TTTA-ACCCGGATATAGTACC
* *
549902 AGCACTAAGCCTGCGGGATTTAACCCGGATATACTTTACC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATA--GTACC
* *
549942 AGCACGAAGCCTGCGAGATTTAACCCGGATATAGATTAAC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAG--TACC
*
549982 ACCACGAAGCCTGCGGGATTTAACCCGGATATA
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATA
550015 CAATATATCG
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
38 10 0.10
39 4 0.04
40 85 0.86
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (38 bp):
AGCACGAAGCCTGCGGGATTTAACCCGGATATAGTACC
Found at i:554093 original size:43 final size:42
Alignment explanation
Indices: 554046--554137 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
554036 TCCCAAACGT
* * *
554046 GGTCTTACATGTAATTAAATATCAATG-CCACTGTCCCAGACAG
1 GGTCTTACACGAAATCAAATA-CAATGTCCA-TGTCCCAGACAG
* * *
554089 GGTCTTACACGAAATCAAATACGATGTCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACAATGTCCATGTCCCAGACAG
554131 GGTCTTA
1 GGTCTTA
554138 TGTAAATCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 22 0.52
43 20 0.48
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACAATGTCCATGTCCCAGACAG
Found at i:557061 original size:65 final size:65
Alignment explanation
Indices: 556987--557131 Score: 245
Period size: 65 Copynumber: 2.2 Consensus size: 65
556977 ACGGCTTAGA
* * *
556987 CACACGGGCGTGTGATTGACTGTGTGACATAAGTCAGTATGCCCCCTAAATGGCACATGGCCTAG
1 CACACGGGCGTGTGATTGACCGTGTGACATAAGCCAGTATACCCCCTAAATGGCACATGGCCTAG
* *
557052 CACACGGGCGTGTGATTGACCGTGTGACATAAGCCAGTATATCCTCTAAATGGCACATGGCCTAG
1 CACACGGGCGTGTGATTGACCGTGTGACATAAGCCAGTATACCCCCTAAATGGCACATGGCCTAG
557117 CACACGGGCGTGTGA
1 CACACGGGCGTGTGA
557132 GGCCATTTTG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 75 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (65 bp):
CACACGGGCGTGTGATTGACCGTGTGACATAAGCCAGTATACCCCCTAAATGGCACATGGCCTAG
Found at i:562902 original size:28 final size:28
Alignment explanation
Indices: 562867--562966 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
562857 CTGACTGATT
562867 TCGCACACATAGTGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * * *
562895 TCGTACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
* *
562924 TCGCACACATAATGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
562952 TCGCACACATAGTGC
1 TCGCACACATAGTGC
562967 CTCAACTACT
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.02
28 35 0.60
29 21 0.36
30 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:562931 original size:29 final size:29
Alignment explanation
Indices: 562867--562995 Score: 97
Period size: 29 Copynumber: 4.5 Consensus size: 29
562857 CTGACTGATT
* *
562867 TCGCACACATAGTG-CTCGATTA-AAGAAC
1 TCGCACACATAGTGCCTCAATTACAA-ATC
* *
562895 TCGTACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCCTCAATTACAAATC
* *
562924 TCGCACACATAATG-CTCGATTGA-AGAA-C
1 TCGCACACATAGTGCCTCAATT-ACA-AATC
* **
562952 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCCTCAATTACAAATC
* *
562981 TGGCATACATAGTGC
1 TCGCACACATAGTGC
562996 TCGGCTGAAG
Statistics
Matches: 79, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
28 35 0.44
29 43 0.54
30 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (29 bp):
TCGCACACATAGTGCCTCAATTACAAATC
Found at i:563005 original size:57 final size:57
Alignment explanation
Indices: 562839--563027 Score: 202
Period size: 57 Copynumber: 3.3 Consensus size: 57
562829 CAAACACATT
* * *
562839 TCGCATACACAGTGCC-C-ACTGACTGATTTCGCACACATAGTGCTCGATTAAAGAAC
1 TCGCACACACAGTGCCTCAACT-ACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * ** *
562895 TCGTACACATAGTGCCTCAATTACCAATCTCGCACACATAATGCTCGATTGAAGAAC
1 TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * ** *
562952 TCGCACACATAGTGCCTCAACTACTGATCTGGCATACATAGTGCTCGGCTGAAGAGC
1 TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* *
563009 TTGCACACACAGTGACTCA
1 TCGCACACACAGTGCCTCA
563028 TAATTCCAGG
Statistics
Matches: 109, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
56 13 0.12
57 94 0.86
58 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (57 bp):
TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
Found at i:563099 original size:40 final size:40
Alignment explanation
Indices: 563033--563228 Score: 297
Period size: 40 Copynumber: 4.9 Consensus size: 40
563023 ACTCATAATT
* * *
563033 CCAGGACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATAACA
*
563072 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
563112 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
** *
563152 CCAGCACGAATGCTCTTTAGGACTTAGCCTGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
563192 TCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
563229 TAACTCTCAA
Statistics
Matches: 143, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 13 0.09
40 130 0.91
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
Found at i:565496 original size:40 final size:40
Alignment explanation
Indices: 565466--565597 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 40
565456 GCTACTCGTT
*
565466 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCAGGACATAACCCGGTTATAGTAACTCGCA
* * *
565506 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCAGGACATAACCCGG-TTATAGTAACTCGCA
* * * * * *
565546 CAAATGCCTTC-GGGCTTAGCCCAG-AATTAGTATCTCGCA
1 CAAATGCCTTCAGGACATAACCCGGTTA-TAGTAACTCGCA
565585 CAAATGCCTTCAG
1 CAAATGCCTTCAG
565598 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
39 32 0.41
40 44 0.56
41 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCAGGACATAACCCGGTTATAGTAACTCGCA
Found at i:565577 original size:79 final size:80
Alignment explanation
Indices: 565494--565647 Score: 188
Period size: 79 Copynumber: 1.9 Consensus size: 80
565484 AGCCCGGTTA
* * * *
565494 TAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-AGATCTTAACCCGGATATAGTAACTTAGCACAAA-GCCTTC
565557 GGG-CTTAGCCCAGAAT
64 GGGACTTAGCCCAGAAT
* ** * *
565573 TAGTATCTCGCACAAATGCCTTCAGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
565638 GACTTAGCCC
66 GACTTAGCCC
565648 GGACATCATT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
78 2 0.03
79 45 0.71
80 16 0.25
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCAGAAT
Found at i:565587 original size:39 final size:40
Alignment explanation
Indices: 565494--565595 Score: 152
Period size: 39 Copynumber: 2.6 Consensus size: 40
565484 AGCCCGGTTA
* * *
565494 TAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
*
565534 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
*
565573 TAGTATCTCGCACAAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC
565596 AGATCTTAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 32 0.56
40 25 0.44
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
Found at i:574640 original size:43 final size:43
Alignment explanation
Indices: 574578--574699 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
574568 TACCATACCA
*
574578 ATGCCATATCCTAGATATGGTCTTACATGGGA-TCTCATATCG
1 ATGCCATATCCTAGATATGGTCTTACATGGAAGTCTCATATCG
* * * * *
574620 ATGCCAATAGCCTAGCTATGGTCTTACA-CGAAGTCTCGTATTG
1 ATGCC-ATATCCTAGATATGGTCTTACATGGAAGTCTCATATCG
* * *
574663 ATGCCATATCCCAGGTATGGTCTTACATGTAA-TCTCA
1 ATGCCATATCCTAGATATGGTCTTACATGGAAGTCTCA
574700 ACTAACACTA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (43 bp):
ATGCCATATCCTAGATATGGTCTTACATGGAAGTCTCATATCG
Found at i:582760 original size:15 final size:17
Alignment explanation
Indices: 582740--582772 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
582730 GTAATAGGCT
582740 TTTGTAT-TT-ATATGA
1 TTTGTATATTGATATGA
582755 TTTGTATATTGATATGA
1 TTTGTATATTGATATGA
582772 T
1 T
582773 CAATTGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (17 bp):
TTTGTATATTGATATGA
Found at i:582867 original size:27 final size:27
Alignment explanation
Indices: 582837--582890 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
582827 ACTAAGCTTT
582837 ATAGCTTACATTGTTTATTTTTCTGTG
1 ATAGCTTACATTGTTTATTTTTCTGTG
*
582864 ATAGCTTACATTGTTTATTTTTTTGTG
1 ATAGCTTACATTGTTTATTTTTCTGTG
582891 TTTTATAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.09, G:0.15, T:0.57
Consensus pattern (27 bp):
ATAGCTTACATTGTTTATTTTTCTGTG
Found at i:591395 original size:47 final size:48
Alignment explanation
Indices: 591319--591583 Score: 174
Period size: 47 Copynumber: 5.6 Consensus size: 48
591309 GGTACGATGC
* * *
591319 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACACATAT-AAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACATATCAAGT
* **
591367 CGATGTCATGTCCCAGACAGGTCTTACACTGGCTCTCATC-TATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCA-CATATC-AAGT
* * * * * * *
591416 CGATGCCATGTCCCAGATAGGGCTTGCAC-AG---ACACATGTCAAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATATCAAGT
* * * * *
591460 CGATGCCATGTCCCAAACATGTTTTACACTAGCTTTCATC-T-T-AATGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCA-CATATCAA-GT
* * *** *
591507 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGGC
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACATATCAAGT
*
591555 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
591584 AGCATACATC
Statistics
Matches: 167, Mismatches: 36, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
44 25 0.15
45 7 0.04
46 12 0.07
47 53 0.32
48 42 0.25
49 28 0.17
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATATCAAGT
Found at i:594457 original size:27 final size:27
Alignment explanation
Indices: 594427--594632 Score: 126
Period size: 27 Copynumber: 7.6 Consensus size: 27
594417 CAAATTGTAA
*
594427 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
*** *
594454 AATTACCGTTTTACGCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
*** *
594481 AATTACCGTTTTACCCTCAATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
**** * *
594508 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACCAAATTACCCTCGATTTATAG
**** * *
594535 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTATAG
* * * * * *
594562 AATTACTAAAATACCATCGGTTTACAA
1 AATTACCAAATTACCCTCGATTTATAG
* *
594589 AATTACCAAAATACCCTCGA-TTAGTAA
1 AATTACCAAATTACCCTCGATTTA-TAG
*
594616 AATTACCAAAATACCCT
1 AATTACCAAATTACCCT
594633 AGTCTGTAAA
Statistics
Matches: 155, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 3 0.02
27 152 0.98
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (27 bp):
AATTACCAAATTACCCTCGATTTATAG
Found at i:594568 original size:54 final size:54
Alignment explanation
Indices: 594438--594568 Score: 190
Period size: 54 Copynumber: 2.4 Consensus size: 54
594428 ATTACCAAAG
* * *
594438 TACCCTCGATTTATAGAATTACCGTTTTACGCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
* * *
594492 TACCCTCAATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
* *
594546 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
594569 AAAATACCAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:594631 original size:81 final size:80
Alignment explanation
Indices: 594546--594818 Score: 300
Period size: 81 Copynumber: 3.4 Consensus size: 80
594536 ATTACTGTTT
** * *
594546 TACCCTCGATTTACAAAATTACTAAAATACCATCGGTTTACAAAATTACCAAAATACCCTCGATT
1 TACCC-CGATTTACAAAATTACTAAAATACCATCGGTTTGTAAAATTACCGAAATACCCTCAATT
*
594611 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * ** * * * *
594627 TA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTATCGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACCATCGGTTTGTAAAATTACCGAAATACCCTCAATT
594691 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* ** * *
594707 TACCCCTAGTTTGTAAAATTACCAAAATACCA-CTGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TACCCCGA-TTTACAAAATTACTAAAATACCATC-GGTTTGTAAAATTACCGAAATACCCTCAAT
594771 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
*
594788 TACCCCTGATTTACAAAGTTAC-AGAAATACC
1 TACCCC-GATTTACAAAATTACTA-AAATACC
594819 CTTGACTTTC
Statistics
Matches: 163, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
79 2 0.01
80 65 0.40
81 95 0.58
82 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
TACCCCGATTTACAAAATTACTAAAATACCATCGGTTTGTAAAATTACCGAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:594680 original size:27 final size:27
Alignment explanation
Indices: 594560--594906 Score: 250
Period size: 27 Copynumber: 12.8 Consensus size: 27
594550 CTCGATTTAC
* * * **
594560 AAAATTACTAAAATACCATCGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
594587 AAAATTACCAAAATACCCTCGATTAGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
594614 AAAATTACCAAAATACCC-TAGTCTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
594640 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * ***
594667 AAAATTATCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
594694 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
594721 AAAATTACCAAAATACCAC-TGGTTTGT
1 AAAATTACCAAAATACC-CTTGGTTTGT
* * ***
594748 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
594775 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
594802 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCTTG-GTTTGT
*** * **
594830 AAAAATTATGGAAATACCATTGGTTTAAC
1 -AAAATTACCAAAATACCCTTGGTTT-GT
**
594859 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
594886 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
594907 TAGGATGAAA
Statistics
Matches: 250, Mismatches: 62, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
26 22 0.09
27 183 0.73
28 29 0.12
29 16 0.06
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:595028 original size:27 final size:27
Alignment explanation
Indices: 594937--595028 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
594927 ACCCCTATTA
*
594937 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
594964 GGTAAAGA-GACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
594991 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
595018 GGTAAAATGAC
1 GGTAAAATGAC
595029 GAATGTGCCC
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:595872 original size:25 final size:25
Alignment explanation
Indices: 595827--595910 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
595817 GAGGAAGTGC
595827 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
* * **
595853 AAAAGGGATTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATTG
595878 AAAAGGGCTTTGCCCCAG-TTATT-
1 AAAAGGGCTTTGCCCCAGTTTATTG
595901 AAAAGAGGCT
1 AAAAG-GGCT
595911 AGGCCTCCAG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 5 0.10
24 7 0.14
25 28 0.57
26 9 0.18
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:596151 original size:31 final size:31
Alignment explanation
Indices: 596116--596192 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
596106 CGTTTACAGT
*
596116 AAAGGCTTTGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* *
596147 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
596178 AAAGGCTTCAGCCCA
1 AAAGGCTTCGGCCCA
596193 GTAACCATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:600031 original size:46 final size:46
Alignment explanation
Indices: 599981--600150 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
599971 TTGAGCATCC
*
599981 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
* * * * *
600027 GAACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCT
* * * *
600074 GAACTCGTTGAGTTGAGTCCGAGTACATTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
*
600120 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
600151 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 1 0.01
46 55 0.56
47 26 0.26
48 1 0.01
49 2 0.02
50 5 0.05
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
Found at i:600134 original size:93 final size:93
Alignment explanation
Indices: 599975--600145 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
599965 GGATGGTTGA
* * *
599975 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACACTTATGGATGCAAACGCCTGAACTCGTTGAGT
600040 TGAGTCCGAGTTCGTAAGATGTAACTAG
66 TGAGTCCGAGTTCGTAAGATGTAACTAG
* * *
600068 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACATTTATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACACTTATGGATGCAAACGCCTGAACTCGTTGAGT
600133 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
600146 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTACACTTATGGATGCAAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTAAGATGTAACTAG
Found at i:600412 original size:19 final size:20
Alignment explanation
Indices: 600375--600412 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
600365 ATAAGGTGGT
600375 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
600395 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
600413 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:603828 original size:19 final size:19
Alignment explanation
Indices: 603782--603822 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
603772 TGGGTAAATG
603782 AAGGCTTGGAAAATAGCCT
1 AAGGCTTGGAAAATAGCCT
603801 AAGGCTTGGAAAATAGCCT
1 AAGGCTTGGAAAATAGCCT
603820 AAG
1 AAG
603823 TGTTGGCCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.20
Consensus pattern (19 bp):
AAGGCTTGGAAAATAGCCT
Found at i:604044 original size:21 final size:21
Alignment explanation
Indices: 604015--604054 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
604005 TGGTTCATGG
604015 GAAAATTTTCT-AAGTTTTCCT
1 GAAAATTTT-TAAAGTTTTCCT
*
604036 GAAACTTTTTAAAGTTTTC
1 GAAAATTTTTAAAGTTTTC
604055 GGTTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (21 bp):
GAAAATTTTTAAAGTTTTCCT
Found at i:606164 original size:49 final size:49
Alignment explanation
Indices: 606092--606279 Score: 252
Period size: 49 Copynumber: 3.8 Consensus size: 49
606082 TAGCCGAAGC
*
606092 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
606141 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA-CCTATTCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA--CCAA-T
* * *
606192 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
606241 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
606280 CGTGACCTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
48 2 0.02
49 72 0.61
50 6 0.05
51 37 0.31
52 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:606259 original size:100 final size:100
Alignment explanation
Indices: 606086--606280 Score: 354
Period size: 100 Copynumber: 1.9 Consensus size: 100
606076 CACTTGTAGC
* **
606086 CGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTAC
606151 ACGTAGTAGCCTGCACTTAGTACTACACACCTATT
66 ACGTAGTAGCCTGCACTTAGTACTACACACCTATT
*
606186 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTAC
606251 ACGTAGTAGCCTGCACTTAGTACTACACAC
66 ACGTAGTAGCCTGCACTTAGTACTACACAC
606281 GTGACCTCAC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (100 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTAC
ACGTAGTAGCCTGCACTTAGTACTACACACCTATT
Found at i:606968 original size:30 final size:30
Alignment explanation
Indices: 606934--606993 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
606924 CTTTAATACG
606934 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
606964 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
606994 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:613618 original size:27 final size:27
Alignment explanation
Indices: 613579--613658 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
613569 TTAGAATACT
* *
613579 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-GTAAAATTACTGAAATACCC
* *
613607 TTAGTTTGTAAAAATACTGAAATACTC
1 TTAGTTTGTAAAATTACTGAAATACCC
*
613634 -TCGATTTGTAAAATTACTGAAATAC
1 TTAG-TTTGTAAAATTACTGAAATAC
613659 TTTCGACTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.04
27 36 0.80
28 7 0.16
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACTGAAATACCC
Found at i:613659 original size:27 final size:27
Alignment explanation
Indices: 613588--613677 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
613578 TTTAGTTTAC
* * *
613588 TAAAATTACCGAAATACCCT-TAGTTTG
1 TAAAATTACTGAAATACTCTCGA-TTTG
*
613615 TAAAAATACTGAAATACTCTCGATTTG
1 TAAAATTACTGAAATACTCTCGATTTG
* *
613642 TAAAATTACTGAAATACTTTCGACTTG
1 TAAAATTACTGAAATACTCTCGATTTG
613669 TAAAATTAC
1 TAAAATTAC
613678 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (27 bp):
TAAAATTACTGAAATACTCTCGATTTG
Found at i:613713 original size:27 final size:27
Alignment explanation
Indices: 613683--613893 Score: 242
Period size: 27 Copynumber: 7.8 Consensus size: 27
613673 ATTACCAAAG
* *
613683 TACCCCCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
613710 TACCCTTGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
613737 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
613764 TACCCTCAAATTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
613791 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
613818 TACCCTCGATTTATAGAATTACTGTGT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
613845 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
613872 TACCCTCAATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
613894 TAAAATACCC
Statistics
Matches: 158, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 158 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:613903 original size:54 final size:54
Alignment explanation
Indices: 613744--614023 Score: 168
Period size: 54 Copynumber: 5.2 Consensus size: 54
613734 TTTTACCCCC
* * * * **** *
613744 GATTTACATAATTACCGTTTTACCCTCAAATTACAGAATTACTGTTTTACCCTC
1 GATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTT
* * * * * ****
613798 GATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTGTTACCCTT
1 GATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTT
*
613852 GATTTACAAAATTACTATTTTACCCTCAATTTACAAAATTACTAAAATACCCTT
1 GATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTT
* ** *** * * *
613906 GGTTTGTAAAATTACCAAAATACCCAT-AGTTTATAAAATTACCAAAATACCCTT
1 GATTTACAAAATTACCATTTTACCC-TCAATTTACAAAATTACTAAAATACCCTT
* *** ** * *** * *
613960 GGTTTGTGAAATTACCGA-AATACTCTCAATTTGTTAAATTACCAAAATACCCCT
1 GATTTACAAAATTACC-ATTTTACCCTCAATTTACAAAATTACTAAAATACCCTT
614014 GATTTACAAA
1 GATTTACAAA
614024 GTTATAGAAA
Statistics
Matches: 185, Mismatches: 38, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
53 1 0.01
54 182 0.98
55 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (54 bp):
GATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTT
Found at i:614101 original size:27 final size:27
Alignment explanation
Indices: 613845--614101 Score: 151
Period size: 27 Copynumber: 9.4 Consensus size: 27
613835 ATTACTGTGT
* ***
613845 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTTGGTTTACAAAATTACTAAAA
***
613872 TACCCTCAATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
** *
613899 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * * *
613926 TACCCATAGTTTATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*** **
613953 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* *** *** *
613980 TACTCTCAATTTGTTAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * *
614007 TACCCCTGATTTACAAAGTTA-TAGAAA
1 TACCCTTGGTTTACAAAATTACTA-AAA
*
614034 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACTA-AAA
* *
614063 TACCATTAGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
614090 TACCCTTGGTTT
1 TACCCTTGGTTT
614102 GTAGATTTAC
Statistics
Matches: 182, Mismatches: 42, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
26 1 0.01
27 154 0.85
28 8 0.04
29 19 0.10
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Done.