Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 128 of 295
Found at i:39063006 original size:40 final size:40
Alignment explanation
Indices: 39062976--39063144 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
39062966 GGACTAAGAT
* *
39062976 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
39063016 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
39063056 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGT-
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
39063095 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
39063134 CCGAAGGCATT
1 CCGAAGGCATT
39063145 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
38 22 0.19
39 22 0.19
40 73 0.62
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:39063060 original size:80 final size:79
Alignment explanation
Indices: 39062923--39063146 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
39062913 TTGAATGCTG
* * * * * * *
39062923 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
39062987 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * *
39063003 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
39063068 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * * *
39063083 TCCGGGTTATGT-CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
39063147 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
78 35 0.29
79 12 0.10
80 71 0.58
81 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:39063164 original size:78 final size:80
Alignment explanation
Indices: 39062998--39063179 Score: 217
Period size: 78 Copynumber: 2.3 Consensus size: 80
39062988 GTGCGAGATA
* * *
39062998 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
39063063 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
39063078 TTAAATCCGGGTTATGT-CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
39063141 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
39063156 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
39063180 TACGTGATTT
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
77 6 0.07
78 53 0.62
79 11 0.13
80 15 0.18
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:39070860 original size:40 final size:42
Alignment explanation
Indices: 39070810--39070992 Score: 139
Period size: 40 Copynumber: 4.5 Consensus size: 42
39070800 TTGAATGCTG
* *
39070810 TCCGGGCTAAGTCCCGAAGGCTTT-GTGCTA-AGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCTTTCGTGCGAGAGTGAATAAA
* * *
39070850 TCCGGACTAAGAT-CCGAAGGCCTTTCGTGCGAGATTGTATAAA
1 TCCGGGCTAAG-TCCCGAAGG-CTTTCGTGCGAGAGTGAATAAA
* * * *
39070893 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTG-TTAAA
1 TCCGGGCTAAGTCCCGAAGGCTTTCGTGCGAGAGTGAATAAA
* * * * * *
39070933 TCCGGGTTATGTCCCGAAGGCATT-GT--GTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCTTTCGTGCGAGAGTGAATAAA
* *
39070972 ACCGGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
39070993 ATTTGAACGA
Statistics
Matches: 120, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 25 0.21
40 44 0.37
41 8 0.07
42 17 0.14
43 23 0.19
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (42 bp):
TCCGGGCTAAGTCCCGAAGGCTTTCGTGCGAGAGTGAATAAA
Found at i:39070977 original size:39 final size:40
Alignment explanation
Indices: 39070863--39070995 Score: 153
Period size: 39 Copynumber: 3.3 Consensus size: 40
39070853 GGACTAAGAT
* *
39070863 CCGAAGGCCTTTCGTGCGAGATTGTA-TAAATCCGGGTTAAGTC
1 CCGAAGG-CATTCGTGCGAG--T-TACTAAATCCGGGTTATGTC
**
39070906 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTATGTC
* * *
39070946 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTATGTC
39070985 CCGAAGGCATT
1 CCGAAGGCATT
39070996 TGAACGAGGA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
39 35 0.43
40 28 0.35
42 11 0.14
43 7 0.09
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:39078760 original size:40 final size:40
Alignment explanation
Indices: 39078677--39078859 Score: 160
Period size: 40 Copynumber: 4.6 Consensus size: 40
39078667 TTGAATGCTG
* * * * *
39078677 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAA
39078717 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAAA
**
39078757 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
** * * * *
39078797 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGTT-GTTAAA
* *
39078837 T-CGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
39078860 TGAACGAGGA
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
39 30 0.24
40 87 0.69
41 9 0.07
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:39078847 original size:39 final size:40
Alignment explanation
Indices: 39078730--39078859 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
39078720 GGACTAAGAT
*
39078730 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
39078770 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
* * * *
39078810 CCGAAGGCATT-GTGTGAGTTACTAAAAT-CGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTT-GTTAAATCCGGGTTATGTC
39078849 CCGAAGGCATT
1 CCGAAGGCATT
39078860 TGAACGAGGA
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
39 29 0.35
40 55 0.65
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
Found at i:39080797 original size:40 final size:40
Alignment explanation
Indices: 39080742--39080823 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
39080732 TTTATCGACC
*
39080742 GTTGGGTTTCTAGGTTCTCACGAGTAGTGGTGGAATGCAA
1 GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAATGCAA
*
39080782 GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAGTGCAA
1 GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAATGCAA
39080822 GT
1 GT
39080824 ATTTTGGAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.20, C:0.12, G:0.37, T:0.32
Consensus pattern (40 bp):
GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAATGCAA
Found at i:39081645 original size:27 final size:27
Alignment explanation
Indices: 39081614--39081801 Score: 234
Period size: 27 Copynumber: 7.0 Consensus size: 27
39081604 GCCCTAAATT
39081614 AGGTAAAATGACCGTAATGCCCCTATA
1 AGGTAAAATGACCGTAATGCCCCTATA
*
39081641 AGGTAAAATAACCGTAATGCCCCTATA
1 AGGTAAAATGACCGTAATGCCCCTATA
39081668 AGGTAAAATGACCGTAATGCCCCTATA
1 AGGTAAAATGACCGTAATGCCCCTATA
* *
39081695 AGGTAAAATGACCGTAATGCCACTGTA
1 AGGTAAAATGACCGTAATGCCCCTATA
* * ** *
39081722 GGGTAATATGACCGTAATGCCTTTGTA
1 AGGTAAAATGACCGTAATGCCCCTATA
* * * * **
39081749 GGGTAAAATGATCGTAATACCCATGCA
1 AGGTAAAATGACCGTAATGCCCCTATA
*
39081776 GGGTAAAATGACCGTAATG-CCCTATA
1 AGGTAAAATGACCGTAATGCCCCTATA
39081802 GGATTTAAGG
Statistics
Matches: 142, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
26 4 0.03
27 138 0.97
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AGGTAAAATGACCGTAATGCCCCTATA
Found at i:39082150 original size:33 final size:33
Alignment explanation
Indices: 39082108--39082178 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
39082098 ATTGCATTAC
*
39082108 ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
*
39082141 ACTGTACTGATACTGAATAGGGCTCAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
39082174 ACTGT
1 ACTGT
39082179 TACTAATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
Found at i:39083435 original size:43 final size:42
Alignment explanation
Indices: 39083375--39083486 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 42
39083365 TACAATGCCA
39083375 ATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATAGATG-CC
1 ATGTCCCAGACAG-GGTCTTACATGTAATCAAATA-AGATGTCC
* * * * * *
39083417 ATTGTCCTAGATAGGGTCTTACACGAAATCAAATACGATGTCG
1 A-TGTCCCAGACAGGGTCTTACATGTAATCAAATAAGATGTCC
*
39083460 ATGTCCCAGACATGGTCTTACATGTAA
1 ATGTCCCAGACAGGGTCTTACATGTAA
39083487 ATAATAAGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.46
43 29 0.52
44 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (42 bp):
ATGTCCCAGACAGGGTCTTACATGTAATCAAATAAGATGTCC
Found at i:39083536 original size:86 final size:85
Alignment explanation
Indices: 39083375--39083537 Score: 206
Period size: 86 Copynumber: 1.9 Consensus size: 85
39083365 TACAATGCCA
* * *
39083375 ATGTCCCAGACGTGGTCTTACATGTAATCAAATATAGATGCCATTGTCCTAGATAGGGTCTTACA
1 ATGTCCCAGACATGGTCTTACATGTAATCAAATATAGATGCCAATGTCCCAGATAGGGTCTTACA
39083440 CGAAATCAAATACGATGTCG
66 CGAAATCAAATACGATGTCG
* * * *
39083460 ATGTCCCAGACATGGTCTTACATGTAA--ATAATAAGTCGATGCTAATGTCCCAGA-CGTGGTTT
1 ATGTCCCAGACATGGTCTTACATGTAATCA-AAT-A-TAGATGCCAATGTCCCAGATAG-GGTCT
39083522 TACACGAAATCAAATA
62 TACACGAAATCAAATA
39083538 TCGAATCCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
83 1 0.01
84 3 0.04
85 28 0.42
86 35 0.52
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (85 bp):
ATGTCCCAGACATGGTCTTACATGTAATCAAATATAGATGCCAATGTCCCAGATAGGGTCTTACA
CGAAATCAAATACGATGTCG
Found at i:39085188 original size:20 final size:20
Alignment explanation
Indices: 39085148--39085189 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
39085138 ACCAAACTTT
*
39085148 AAATTAATTGTATGTATTTG
1 AAATTAATTGTATGTAATTG
39085168 AAATTAA-TGTATGTAGATTG
1 AAATTAATTGTATGTA-ATTG
39085188 AA
1 AA
39085190 TATAAGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (20 bp):
AAATTAATTGTATGTAATTG
Found at i:39085412 original size:22 final size:23
Alignment explanation
Indices: 39085350--39085430 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
39085340 TAGCTCGTAT
39085350 GAGCTTACCGTTTTAGCTCTTCA
1 GAGCTTACCGTTTTAGCTCTTCA
* *
39085373 GGGCTTACCGTTTTAGCTCTACA
1 GAGCTTACCGTTTTAGCTCTTCA
* *
39085396 GAGCTTACC-ATTTAGCTCTTCG
1 GAGCTTACCGTTTTAGCTCTTCA
*
39085418 GAGCTTACTGTTT
1 GAGCTTACCGTTT
39085431 ATCAGCTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
22 18 0.37
23 31 0.63
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (23 bp):
GAGCTTACCGTTTTAGCTCTTCA
Found at i:39088150 original size:21 final size:20
Alignment explanation
Indices: 39088120--39088164 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
39088110 TTGGGGTCGA
*
39088120 TGGG-CCATATGAATGTGATT
1 TGGGCCCATATGAATGAGA-T
39088140 TGGGCCCATATGAATGAGAT
1 TGGGCCCATATGAATGAGAT
39088160 TGGGC
1 TGGGC
39088165 TTAGTGGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.29
Consensus pattern (20 bp):
TGGGCCCATATGAATGAGAT
Found at i:39089261 original size:17 final size:18
Alignment explanation
Indices: 39089230--39089263 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39089220 TTTAAAGAAG
39089230 GGTTTTTAATGAAAACAA
1 GGTTTTTAATGAAAACAA
*
39089248 GGTTTTTGAT-AAAACA
1 GGTTTTTAATGAAAACA
39089264 TTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (18 bp):
GGTTTTTAATGAAAACAA
Found at i:39092383 original size:16 final size:16
Alignment explanation
Indices: 39092362--39092392 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39092352 ACAAAATCCC
39092362 GAAATGCCGAAAAGTT
1 GAAATGCCGAAAAGTT
*
39092378 GAAATGCCTAAAAGT
1 GAAATGCCGAAAAGT
39092393 CGGAAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (16 bp):
GAAATGCCGAAAAGTT
Found at i:39096502 original size:41 final size:43
Alignment explanation
Indices: 39096446--39096554 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
39096436 GGTTATGTGT
*
39096446 AAGACCATGTCTGGGACA-TCGGCATCG-TATATGATT-CATGC
1 AAGACCCTGTCTGGGACAGT-GGCATCGATATATGATTACATGC
* * *
39096487 AAGACCCTGTCTGGGATAGTGGCATCGATATGTGATTACATGT
1 AAGACCCTGTCTGGGACAGTGGCATCGATATATGATTACATGC
39096530 AAGACCAC-GTCTGGGAC-GTTGGCAT
1 AAGACC-CTGTCTGGGACAG-TGGCAT
39096555 TGTACGATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
41 23 0.40
42 10 0.17
43 24 0.41
44 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (43 bp):
AAGACCCTGTCTGGGACAGTGGCATCGATATATGATTACATGC
Found at i:39098101 original size:24 final size:24
Alignment explanation
Indices: 39098069--39098116 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
39098059 AAATTATGAC
39098069 CATTAGAATAGTAAAAAGAAATGT
1 CATTAGAATAGTAAAAAGAAATGT
39098093 CATTAGAATAGTAAAAAGAAATGT
1 CATTAGAATAGTAAAAAGAAATGT
39098117 TAACTTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.25
Consensus pattern (24 bp):
CATTAGAATAGTAAAAAGAAATGT
Found at i:39104872 original size:41 final size:42
Alignment explanation
Indices: 39104819--39104927 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
39104809 TAGTTATGTC
* * * *
39104819 TAAGACCATATCTGGGACA-TCGGCGTCG-TATTTGATTCGTG
1 TAAGACCATATCTGGGACAGT-GGCATCGATATGTGATACATG
*
39104860 TAAGACCCTATCTGGGACAGTGGCATCGATATGTGATACATG
1 TAAGACCATATCTGGGACAGTGGCATCGATATGTGATACATG
*
39104902 TAAGACCATGTCTGGGAC-GTTGGCAT
1 TAAGACCATATCTGGGACAG-TGGCAT
39104928 TGCACGATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 25 0.43
42 33 0.57
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (42 bp):
TAAGACCATATCTGGGACAGTGGCATCGATATGTGATACATG
Found at i:39107412 original size:9 final size:9
Alignment explanation
Indices: 39107395--39107468 Score: 94
Period size: 9 Copynumber: 8.2 Consensus size: 9
39107385 AGTATAAAAC
*
39107395 TAACTGAAT
1 TAACCGAAT
39107404 TAACCGAAT
1 TAACCGAAT
*
39107413 TAATCGAAT
1 TAACCGAAT
*
39107422 TAACCAAAT
1 TAACCGAAT
*
39107431 TACCCGAAT
1 TAACCGAAT
*
39107440 TACCCGAAT
1 TAACCGAAT
*
39107449 TACCCGAAT
1 TAACCGAAT
39107458 TAACCGAAT
1 TAACCGAAT
39107467 TA
1 TA
39107469 TTTGTATAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (9 bp):
TAACCGAAT
Found at i:39107598 original size:28 final size:29
Alignment explanation
Indices: 39107558--39107612 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
39107548 TATGATTGGG
39107558 TTGGGTACTTGGGTTA-GTATATATTAGA
1 TTGGGTACTTGGGTTATGTATATATTAGA
* *
39107586 TTGGGTATTTGGGTTATTTATATATTA
1 TTGGGTACTTGGGTTATGTATATATTA
39107613 TAATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.24, C:0.02, G:0.25, T:0.49
Consensus pattern (29 bp):
TTGGGTACTTGGGTTATGTATATATTAGA
Found at i:39108117 original size:27 final size:27
Alignment explanation
Indices: 39108087--39108151 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
39108077 CCCCAAAATA
*
39108087 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
39108114 GGTAAAATGATCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
39108141 GGTAAAATGAC
1 GGTAAAATGAC
39108152 GATTATGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:39108351 original size:27 final size:27
Alignment explanation
Indices: 39108288--39108339 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
39108278 TGGAGGAAGT
* * *
39108288 ACTG-TACTGGTGACTATGTCACATTC
1 ACTGATACTGGTGGCTTTGCCACATTC
39108314 ACTGATACTGGTGGCTTTGCCACATT
1 ACTGATACTGGTGGCTTTGCCACATT
39108340 TACTATTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (27 bp):
ACTGATACTGGTGGCTTTGCCACATTC
Found at i:39129839 original size:40 final size:40
Alignment explanation
Indices: 39129722--39129848 Score: 156
Period size: 39 Copynumber: 3.2 Consensus size: 40
39129712 GGATTGATAC
39129722 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAG-CTATA-T
* * *
39129762 ACGGGCTGAG-CCCGAAGGCATTTGTGCGAGTTA-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TAGCTATAT
*
39129801 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATAT
39129841 CC-GGCTAA
1 CCGGGCTAA
39129849 ACTCCGAAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
39 39 0.52
40 36 0.48
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATAT
Found at i:39132303 original size:26 final size:27
Alignment explanation
Indices: 39132267--39132396 Score: 174
Period size: 27 Copynumber: 4.9 Consensus size: 27
39132257 ATTACCAAAG
39132267 TACCCTCGATTTACAGAATTACCG-TT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
39132293 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
39132320 TACCTTCTATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
39132347 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
39132374 TACCCTCGA-TTAGCAGAATTACC
1 TACCCTCGATTTA-CAGAATTACC
39132397 AAAATAACCA
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 25 0.28
27 63 0.72
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:39132436 original size:27 final size:27
Alignment explanation
Indices: 39132397--39132496 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
39132387 CAGAATTACC
* *
39132397 AAAATAACCAAAATATCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
39132424 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
39132451 AAAATTACCAAAATGCCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
39132478 AAAATTATCGAAATACCCC
1 AAAATTACCAAAATACCCC
39132497 GTAGGGTAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:39132539 original size:27 final size:27
Alignment explanation
Indices: 39132487--39132619 Score: 153
Period size: 27 Copynumber: 5.0 Consensus size: 27
39132477 TAAAATTATC
39132487 GAAATACCCC-GTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
39132513 AAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
39132540 GAAATACCCCTGTAGGATAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
39132567 GATATACCCCTATAGGGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
39132593 CGAGATACCCTTGTGGGGTAAAATTAC
1 -GAAATACCCCTGTAGGGTAGAATTAC
39132620 CATTTTGCCC
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 9 0.10
27 80 0.90
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:39132857 original size:25 final size:25
Alignment explanation
Indices: 39132823--39132892 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
39132813 AGGAAGTGCT
*
39132823 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
39132848 AAAAGGGCTTTGCCCCATTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
39132873 AAAAGGGTTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
39132893 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:39134057 original size:69 final size:69
Alignment explanation
Indices: 39133970--39134109 Score: 244
Period size: 69 Copynumber: 2.0 Consensus size: 69
39133960 TTATAGATTG
* *
39133970 AAGTGCTATATTAAGAAACTACTATAGATAGTAGCACTATATTGGAACTCTCTAGTTAGAGTAAA
1 AAGTGCTATATTAAGAAACTACTATAGATAGTAGCACTATACTAGAACTCTCTAGTTAGAGTAAA
39134035 CTGT
66 CTGT
* *
39134039 AAGTGCTATATTGAGAAACTACTATAGATAGTAGCGCTATACTAGAACTCTCTAGTTAGAGTAAA
1 AAGTGCTATATTAAGAAACTACTATAGATAGTAGCACTATACTAGAACTCTCTAGTTAGAGTAAA
39134104 CTGT
66 CTGT
39134108 AA
1 AA
39134110 CGCTTGAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (69 bp):
AAGTGCTATATTAAGAAACTACTATAGATAGTAGCACTATACTAGAACTCTCTAGTTAGAGTAAA
CTGT
Found at i:39135377 original size:27 final size:27
Alignment explanation
Indices: 39135332--39135383 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
39135322 TTTAGTTTAC
* *
39135332 AAAATTACTAAAATGCCCTCAATTTGT
1 AAAATTACCAAAATACCCTCAATTTGT
* *
39135359 AAAATTACCAAAGTACCCTCGATTT
1 AAAATTACCAAAATACCCTCAATTT
39135384 ACAGAATTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCAATTTGT
Found at i:39135391 original size:27 final size:27
Alignment explanation
Indices: 39135372--39135529 Score: 221
Period size: 27 Copynumber: 5.9 Consensus size: 27
39135362 ATTACCAAAG
*
39135372 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
39135399 TACCCT-GATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
39135425 TATCCTCGTTTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
39135452 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
39135479 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
39135506 TACCCTCGA-TTAGCAAAATTACCA
1 TACCCTCGATTTA-CAGAATTACCA
39135530 AAATACCCCT
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 27 0.23
27 92 0.77
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:39135536 original size:27 final size:27
Alignment explanation
Indices: 39135506--39135618 Score: 86
Period size: 27 Copynumber: 4.2 Consensus size: 27
39135496 ATTACCATTT
*
39135506 TACCCTCGATTAGCAAAATTACCAAAA
1 TACCCTCGATTAGTAAAATTACCAAAA
* * *
39135533 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTAGTAAAATTACCAAAA
* * * * *
39135560 TACCCTTGGTTTGTAGAATTACCGAAA
1 TACCCTCGATTAGTAAAATTACCAAAA
* * *
39135587 TACCCCTAGCTT-GTAAAATTACCGAAA
1 TA-CCCTCGATTAGTAAAATTACCAAAA
39135614 TACCC
1 TACCC
39135619 CTGTAGGGTA
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 4 0.06
27 61 0.85
28 7 0.10
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (27 bp):
TACCCTCGATTAGTAAAATTACCAAAA
Found at i:39135537 original size:54 final size:54
Alignment explanation
Indices: 39135359--39135537 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 54
39135349 CTCAATTTGT
* * *
39135359 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCT-GATTTAT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
* *** * * *
39135412 AGAATTACCGTTTTATCCTCGTTTTATAGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
* * **
39135466 AGAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGA-TTAGC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA-C
*
39135520 AAAATTACCAAAATACCC
1 AAAATTACCAAATTACCC
39135538 CTGGTTTGTA
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
53 40 0.38
54 64 0.62
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
Found at i:39135553 original size:54 final size:54
Alignment explanation
Indices: 39135506--39135618 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
39135496 ATTACCATTT
* * *
39135506 TACCCTCGATTAGCAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTAGCAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAA
* * * * * * *
39135560 TACCCTTGGTTTGTAGAATTACCGAAATACCCCTAGCTTGTAAAATTACCGAAA
1 TACCCTCGATTAGCAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAA
39135614 TACCC
1 TACCC
39135619 CTGTAGGGTA
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:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (54 bp):
TACCCTCGATTAGCAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAA
Found at i:39135619 original size:27 final size:27
Alignment explanation
Indices: 39135520--39135621 Score: 141
Period size: 27 Copynumber: 3.8 Consensus size: 27
39135510 CTCGATTAGC
39135520 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
39135547 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
39135574 AGAATTACCGAAATACCCCTAGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
39135601 AAAATTACCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
39135622 TAGGGTAGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:39135630 original size:54 final size:54
Alignment explanation
Indices: 39135522--39135702 Score: 195
Period size: 54 Copynumber: 3.4 Consensus size: 54
39135512 CGATTAGCAA
* * * ** * **
39135522 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGT-TTGTAG
1 AATTACCGAAATACCCCTAGCTTGTAAAATTACCGAAATACCCCT-GTAGGGTAG
39135576 AATTACCGAAATACCCCTAGCTTGTAAAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTAGCTTGTAAAATTACCGAAATACCCCTGTAGGGTAG
* * * ** *
39135630 AATTACTGAATTA-CCCTTGCAGGGTAAAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTAGC-TTGTAAAATTACCGAAATACCCCTGTAGGGTAG
*
39135684 AATTACTGAAATACCCCTA
1 AATTACCGAAATACCCCTA
39135703 TAGGGTAGAA
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
53 8 0.07
54 96 0.89
55 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (54 bp):
AATTACCGAAATACCCCTAGCTTGTAAAATTACCGAAATACCCCTGTAGGGTAG
Found at i:39135633 original size:27 final size:27
Alignment explanation
Indices: 39135572--39135744 Score: 179
Period size: 27 Copynumber: 6.4 Consensus size: 27
39135562 CCCTTGGTTT
*
39135572 GTAGAATTACCGAAATACCCC--TAGCTT
1 GTAGAATTACCGAAATACCCCTGTAG--G
*
39135599 GTAAAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
39135626 GTAGAATTACTGAATTACCCTTGCAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
39135653 GTAAAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
39135680 GTAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
39135707 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
39135734 GTAAAATTACC
1 GTAGAATTACC
39135745 ATTTTGCCCC
Statistics
Matches: 119, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
27 116 0.97
29 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:39135634 original size:81 final size:80
Alignment explanation
Indices: 39135520--39135715 Score: 198
Period size: 81 Copynumber: 2.4 Consensus size: 80
39135510 CTCGATTAGC
* ** * **** * *
39135520 AAAATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCTTGGTTTGTAGAATTACCG
1 AAAATTACCGAAATACCCCT-GTAGGGTAGAATTACTAAAATACCCTTGCAGGGTAAAAATACCG
*
39135584 AAATACCCCTAGCT-TGT
65 AAATACCCCT-G-TAGGT
* *
39135601 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAATTACCCTTGCAGGGTAAAAATACCGA
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTTGCAGGGTAAAAATACCGA
39135666 AATACCCCTGTAGGGT
66 AATACCCCTGTA-GGT
* * *
39135682 AGAATTACTGAAATACCCCTATAGGGTAGAATTA
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTA
39135716 TCGAGATACC
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.01
80 3 0.03
81 92 0.96
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (80 bp):
AAAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTTGCAGGGTAAAAATACCGA
AATACCCCTGTAGGT
Found at i:39135708 original size:54 final size:54
Alignment explanation
Indices: 39135572--39135743 Score: 202
Period size: 54 Copynumber: 3.2 Consensus size: 54
39135562 CCCTTGGTTT
* **
39135572 GTAGAATTACCGAAATACCCCTAGC-TTGTAAAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTA-CAGGGTAAAATTACCGAAATACCCCTGTAGG
* * * *
39135626 GTAGAATTACTGAATTACCCTTGCAGGGTAAAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTACAGGGTAAAATTACCGAAATACCCCTGTAGG
* * * * * *
39135680 GTAGAATTACTGAAATACCCCTATAGGGTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACTGAAATACCCCTACAGGGTAAAATTACCGAAATACCCCTGTAGG
*
39135734 GTAAAATTAC
1 GTAGAATTAC
39135744 CATTTTGCCC
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.01
54 98 0.99
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (54 bp):
GTAGAATTACTGAAATACCCCTACAGGGTAAAATTACCGAAATACCCCTGTAGG
Found at i:39136018 original size:24 final size:25
Alignment explanation
Indices: 39135947--39136029 Score: 123
Period size: 25 Copynumber: 3.4 Consensus size: 25
39135937 AAGAAGTGCT
* *
39135947 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
39135972 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
39135997 AAAAGGGCTTTGCCCCAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
39136021 AAAGGGGCT
1 AAAAGGGCT
39136030 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
24 13 0.24
25 41 0.76
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:39136040 original size:50 final size:50
Alignment explanation
Indices: 39135947--39136041 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
39135937 AAGAAGTGCT
**
39135947 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
39135997 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGGGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAA-GGGCTAGGCC-CCAGTT
39136042 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 4 0.10
49 11 0.28
50 24 0.62
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:39146033 original size:14 final size:14
Alignment explanation
Indices: 39146014--39146040 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39146004 CTGAAATTTC
39146014 GAGATAGAATTTGA
1 GAGATAGAATTTGA
39146028 GAGATAGAATTTG
1 GAGATAGAATTTG
39146041 TGTCCCGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (14 bp):
GAGATAGAATTTGA
Found at i:39147850 original size:21 final size:21
Alignment explanation
Indices: 39147826--39147867 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
39147816 AGAGAAAAAG
39147826 AAAACTAAGGTTCGACACTTT
1 AAAACTAAGGTTCGACACTTT
39147847 AAAACTAAGGTTCGACACTTT
1 AAAACTAAGGTTCGACACTTT
39147868 GATTTGGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (21 bp):
AAAACTAAGGTTCGACACTTT
Found at i:39149997 original size:20 final size:20
Alignment explanation
Indices: 39149959--39150004 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
39149949 GACCTGTACT
39149959 TGTTT-GAAAAATGTTTATG
1 TGTTTGGAAAAATGTTTATG
*
39149978 T-TTTGGAAAAATTTTGTATG
1 TGTTTGGAAAAATGTT-TATG
39149998 TGTTTGG
1 TGTTTGG
39150005 TTTAGTCCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 10 0.43
20 5 0.22
21 5 0.22
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (20 bp):
TGTTTGGAAAAATGTTTATG
Found at i:39152350 original size:42 final size:43
Alignment explanation
Indices: 39152281--39152383 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 43
39152271 GATTTATGTA
* ** * *
39152281 TAAGACCATGTCTGGGACATCGACATCG-TATATG-ATTTCGTG
1 TAAGACCCTGTCTGGGACAGAGACATCGATAT-TGAATTACCTG
* *
39152323 TAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACCTG
1 TAAGACCCTGTCTGGGACAGAGACATCGATATTGAATTACCTG
39152366 TAAGACCAC-GTCTGGGAC
1 TAAGACC-CTGTCTGGGAC
39152384 GTCAGCATTG
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
42 25 0.50
43 24 0.48
44 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
TAAGACCCTGTCTGGGACAGAGACATCGATATTGAATTACCTG
Found at i:39160296 original size:40 final size:40
Alignment explanation
Indices: 39160263--39160531 Score: 373
Period size: 40 Copynumber: 6.8 Consensus size: 40
39160253 GGATATAGCT
*
39160263 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
** *
39160303 GTTCGCACAAATGCCTTCGAGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
39160343 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
39160383 ACTCACACAAATGCCTTCGGGACTTATCCCTGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
39160423 ACTCACACAAATGCCTTCGGG-CTTAGCCCGAAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
39160462 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
39160502 ACTAGCACAAATGCCTTCGTGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
39160532 CGTTATCATC
Statistics
Matches: 209, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 33 0.16
40 174 0.83
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:39160495 original size:119 final size:120
Alignment explanation
Indices: 39160270--39160531 Score: 370
Period size: 119 Copynumber: 2.2 Consensus size: 120
39160260 GCTACTCGCT
* ** * *
39160270 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCCTTCGAGACTTAGCCCGA
*
39160335 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCA-CA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACT-AGCA
* *
39160390 CAAATGCCTTCGGGACTTATCCCTGAAT-TAGTAACTCACACAAATGCCTTCG-GGCTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCACACAAATGCCTTCGAGACTTAGCCCG
* *
39160453 AA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
65 AATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
*
39160509 CAAATGCCTTCGTGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
39160532 CGTTATCATC
Statistics
Matches: 127, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
118 2 0.02
119 79 0.62
120 43 0.34
121 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCCTTCGAGACTTAGCCCGA
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
Found at i:39163002 original size:42 final size:41
Alignment explanation
Indices: 39162886--39163005 Score: 118
Period size: 43 Copynumber: 2.9 Consensus size: 41
39162876 GTCTAAGACA
* *
39162886 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-AGATT
* * *
39162928 TACGTATAAGAACATGTCTAGGACATCA-GCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATT
* *
39162971 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT
39163006 ATTGAATTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
41 3 0.05
42 26 0.41
43 29 0.46
44 4 0.06
45 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTAGATT
Found at i:39173834 original size:29 final size:29
Alignment explanation
Indices: 39173790--39173845 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
39173780 ACACTTACTG
39173790 TACTGGCAACTATGCTGCGTCATTGTTAT
1 TACTGGCAACTATGCTGCGTCATTGTTAT
* * *
39173819 TACTGGCAGCTTTGCTGCGTTATTGTT
1 TACTGGCAACTATGCTGCGTCATTGTT
39173846 GTGCTGGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (29 bp):
TACTGGCAACTATGCTGCGTCATTGTTAT
Found at i:39173900 original size:18 final size:20
Alignment explanation
Indices: 39173877--39173916 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
39173867 TGATATCCCC
39173877 ACAGGT-GTGT-TGGTTGGT
1 ACAGGTGGTGTCTGGTTGGT
39173895 ACAGGTGGTGTGCTGGTTGGT
1 ACAGGTGGTGT-CTGGTTGGT
39173916 A
1 A
39173917 TGGGATGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 4 0.21
21 9 0.47
ACGTcount: A:0.12, C:0.07, G:0.45, T:0.35
Consensus pattern (20 bp):
ACAGGTGGTGTCTGGTTGGT
Found at i:39175766 original size:27 final size:27
Alignment explanation
Indices: 39175736--39175959 Score: 223
Period size: 27 Copynumber: 8.3 Consensus size: 27
39175726 CAAAATAGGC
39175736 AAAATGACCGTAATGCCCCTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* * *
39175763 AAAATGATCGTAATGCCTCTATAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
** *
39175790 AAAATGGTCGTAATACCCCTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* *
39175817 AAAATGACCATAATACCCCTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* ** *
39175844 AAAATAATTGTAATGCCCTTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
** * * * *
39175871 AAAATTTCCATAATGCCCTTGTAAGAT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* * *
39175898 AAAATGACCATAATACCCCTATAGGGT
1 AAAATGACCGTAATGCCCCTGTAGGGT
* * * *
39175925 AAAATGACAGTAATGCCCATGTATGCT
1 AAAATGACCGTAATGCCCCTGTAGGGT
39175952 AAAATGAC
1 AAAATGAC
39175960 GATTATGCCC
Statistics
Matches: 160, Mismatches: 37, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 160 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AAAATGACCGTAATGCCCCTGTAGGGT
Found at i:39175871 original size:81 final size:82
Alignment explanation
Indices: 39175736--39175957 Score: 261
Period size: 81 Copynumber: 2.7 Consensus size: 82
39175726 CAAAATAGGC
* * * *
39175736 AAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCGTAATG-CCTCTATAGGGTAAAATGGT-C
1 AAAATGACCATAATACCCCTGTAGGGTAAAATGATAGTAATGCCCT-TGTAGGGTAAAATGGTCC
* * *
39175799 GTAATACCCCTGTAGGGT
65 ATAATACCCCTGTAAGAT
* * *
39175817 AAAATGACCATAATACCCCTGTAGGGTAAAATAATTGTAATGCCCTTGTAGGGTAAAAT-TTCCA
1 AAAATGACCATAATACCCCTGTAGGGTAAAATGATAGTAATGCCCTTGTAGGGTAAAATGGTCCA
* *
39175881 TAATGCCCTTGTAAGAT
66 TAATACCCCTGTAAGAT
* * * * *
39175898 AAAATGACCATAATACCCCTATAGGGTAAAATGACAGTAATGCCCATGTATGCTAAAATG
1 AAAATGACCATAATACCCCTGTAGGGTAAAATGATAGTAATGCCCTTGTAGGGTAAAATG
39175958 ACGATTATGC
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 116 0.97
82 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (82 bp):
AAAATGACCATAATACCCCTGTAGGGTAAAATGATAGTAATGCCCTTGTAGGGTAAAATGGTCCA
TAATACCCCTGTAAGAT
Found at i:39176129 original size:27 final size:27
Alignment explanation
Indices: 39176099--39176152 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
39176089 AGGAAGTACT
*
39176099 ATACTGGTGACTATGTCACATTCACTG
1 ATACTGGTGACTATGCCACATTCACTG
* * *
39176126 ATACTGGTGGCTTTGCCACATTTACTG
1 ATACTGGTGACTATGCCACATTCACTG
39176153 TTTCTGGCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
ATACTGGTGACTATGCCACATTCACTG
Found at i:39192972 original size:28 final size:28
Alignment explanation
Indices: 39192940--39193006 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
39192930 GTAAGTCCGT
39192940 ACACTTAGTGCT-TA-ATAGTCAAACTCGC
1 ACACTTAGTGCTATACA-A-TCAAACTCGC
*
39192968 ACACTTAGTGCTATACAATTAAACTCGC
1 ACACTTAGTGCTATACAATCAAACTCGC
39192996 ACACTTAGTGC
1 ACACTTAGTGC
39193007 CAATCTCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 32 0.89
29 3 0.08
30 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (28 bp):
ACACTTAGTGCTATACAATCAAACTCGC
Found at i:39200339 original size:48 final size:46
Alignment explanation
Indices: 39200261--39200429 Score: 141
Period size: 46 Copynumber: 3.6 Consensus size: 46
39200251 TTTGTGTGCT
* **
39200261 AGTGTAAGGCATGTCTTTGACAT-GCATCAGCCACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCC-CATTATGAAAGCC
* * *
39200307 AGTGTAAGACCATGTCTGGGAGATGGCATCAG--CATTGATACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGCCCATT-AT--GAAAGCC
* * * *
39200355 AGTGTAAGACATGTTTGGGACAT-GCATCAGCCTCGA-GAGGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCC-C-ATTATGAAAGCC
*
39200401 AGTGCAAGACATGTCTGGGACATGGCATC
1 AGTGTAAGACATGTCTGGGACATGGCATC
39200430 GGAATGGATA
Statistics
Matches: 98, Mismatches: 15, Indels: 19
0.74 0.11 0.14
Matches are distributed among these distances:
45 4 0.04
46 42 0.43
47 28 0.29
48 22 0.22
49 1 0.01
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCCCATTATGAAAGCC
Found at i:39200410 original size:46 final size:46
Alignment explanation
Indices: 39200302--39200429 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 46
39200292 CACATTATGA
* * *
39200302 AAGCCAGTGTAAGACCATGTCTGGGAGATGGCATCAGCATTGATACG
1 AAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATCGAGACG
* * * *
39200349 AGAGCTAGTGTAAGACATGTTTGGGACAT-GCATCAGCCTCGAGAGG
1 A-AGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACG
*
39200395 TAAGCCAGTGCAAGACATGTCTGGGACATGGCATC
1 -AAGCCAGTGTAAGACATGTCTGGGACATGGCATC
39200430 GGAATGGATA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
46 37 0.54
47 19 0.28
48 12 0.18
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (46 bp):
AAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACG
Found at i:39208991 original size:45 final size:45
Alignment explanation
Indices: 39208855--39208991 Score: 147
Period size: 45 Copynumber: 3.1 Consensus size: 45
39208845 TATGAGGTGC
* * *
39208855 TTTTAT-ATGCTGCCATAGTGTCTTTCAGTTATGGTCTTACTTAA-
1 TTTTATCATGATGCCATAGTATCTTTCAGCTATGGTCTTAC-TAAT
* * *
39208899 TTCTATCATGATGCCATAGCATCATTT-AGCTATGGTCTTACTCAT
1 TTTTATCATGATGCCATAGTATC-TTTCAGCTATGGTCTTACTAAT
* *
39208944 TTTTATCATGGTGCCATAATATCTTTCAGCTATGGT-TTGACTAAT
1 TTTTATCATGATGCCATAGTATCTTTCAGCTATGGTCTT-ACTAAT
39208989 TTT
1 TTT
39208992 AGCTATATAG
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
44 12 0.16
45 62 0.81
46 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.45
Consensus pattern (45 bp):
TTTTATCATGATGCCATAGTATCTTTCAGCTATGGTCTTACTAAT
Found at i:39212443 original size:9 final size:9
Alignment explanation
Indices: 39212425--39212453 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
39212415 CATGTTTTGT
39212425 TTAA-TTAA
1 TTAAGTTAA
39212433 TTAAGTTAA
1 TTAAGTTAA
39212442 TTAAGTTAA
1 TTAAGTTAA
39212451 TTA
1 TTA
39212454 TTTATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (9 bp):
TTAAGTTAA
Found at i:39215149 original size:40 final size:41
Alignment explanation
Indices: 39215090--39215321 Score: 285
Period size: 40 Copynumber: 5.8 Consensus size: 41
39215080 CATTTGAATG
* * *
39215090 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
39215130 TTATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * * *
39215170 ATACCCGGGTTAAGACCCGAAGGTAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
39215210 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
39215250 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
39215290 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
39215322 TTGTGGTTAT
Statistics
Matches: 164, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.01
40 157 0.96
41 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:39215304 original size:120 final size:120
Alignment explanation
Indices: 39215090--39215341 Score: 400
Period size: 120 Copynumber: 2.1 Consensus size: 120
39215080 CATTTGAATG
* * *
39215090 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCAGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCAGGCTAAGACCCGAAGGCA
*
39215155 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGTAATTGTGCTAGTGATT
66 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
39215210 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCAGGCTAAGACCCGAAGGC
* *
39215274 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
65 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
39215330 ATATCC-GGCTAA
1 ATATCCGGGCTAA
39215342 ATTCCGAAGA
Statistics
Matches: 121, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
119 6 0.05
120 112 0.93
121 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCAGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:39215337 original size:80 final size:80
Alignment explanation
Indices: 39215090--39215321 Score: 322
Period size: 80 Copynumber: 2.9 Consensus size: 80
39215080 CATTTGAATG
* * *
39215090 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCAGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
39215155 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* * * *
39215170 ATACCCGGGTTAAGACCCGAAGGTAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
39215235 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * * *
39215250 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
*
39215314 AATTGTGC
65 ATTTGTGC
39215322 TTGTGGTTAT
Statistics
Matches: 133, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 131 0.98
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:39223141 original size:40 final size:40
Alignment explanation
Indices: 39223082--39223332 Score: 287
Period size: 40 Copynumber: 6.3 Consensus size: 40
39223072 CATTTGAATG
* * *
39223082 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
39223122 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * *
39223162 ATA-CCGGGTTAAGACCCGAAGGTAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
39223201 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
39223241 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * ** *
39223281 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
39223321 ATATCC-GGCTAA
1 ATATCCGGGCTAA
39223333 ATTCCGAAGA
Statistics
Matches: 180, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 37 0.21
40 136 0.76
41 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:39223197 original size:79 final size:80
Alignment explanation
Indices: 39223082--39223312 Score: 331
Period size: 79 Copynumber: 2.9 Consensus size: 80
39223072 CATTTGAATG
* *
39223082 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
39223147 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* * *
39223162 ATA-CCGGGTTAAGACCCGAAGGTAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
39223226 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * * *
39223241 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
*
39223305 AATTGTGC
65 ATTTGTGC
39223313 TTGTGGTTAT
Statistics
Matches: 134, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
79 73 0.54
80 59 0.44
81 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:39223331 original size:119 final size:119
Alignment explanation
Indices: 39223082--39223332 Score: 398
Period size: 119 Copynumber: 2.1 Consensus size: 119
39223072 CATTTGAATG
* * *
39223082 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
*
39223147 TTTGTGCGAGTTGCTATACCGGGTTAAGACCCGAAGGTAATTGTGCTAGTGATT
66 TTTGTGCGAGTTGCTATACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
39223201 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
* *
39223265 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
65 ATTTGTGCGAGTTGCTATA-CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
39223321 ATATCC-GGCTAA
1 ATATCCGGGCTAA
39223333 ATTCCGAAGA
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
119 80 0.66
120 41 0.34
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (119 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCTATACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:39234586 original size:43 final size:43
Alignment explanation
Indices: 39234504--39234586 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
39234494 CATGTAAAAC
* * *
39234504 CATGTATGGGACATTGGCATTGTATTGTGATTACGTGTAAGGT
1 CATGTATGGGACATTGGCATTATATTATGATTACATGTAAGGT
* *
39234547 CATGTCTGGGACATTGGCATCTAT-TTATGATTTCATGTAA
1 CATGTATGGGACATTGGCAT-TATATTATGATTACATGTAA
39234587 CACCCTATCC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 32 0.94
44 2 0.06
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (43 bp):
CATGTATGGGACATTGGCATTATATTATGATTACATGTAAGGT
Found at i:39234608 original size:43 final size:42
Alignment explanation
Indices: 39234561--39234651 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 42
39234551 TCTGGGACAT
* * ** * *
39234561 TGGCATCTATTTATGATTTCATGTAACACCCTATCCGGGATA
1 TGGCATCGATATATGATAACATGTAACACCATATCCAGGATA
* *
39234603 GTGGCATCGATATATGATAACATGTAAGACCATATCTAGGATA
1 -TGGCATCGATATATGATAACATGTAACACCATATCCAGGATA
39234646 TGGCAT
1 TGGCAT
39234652 TGTGTGAGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 6 0.15
43 34 0.85
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (42 bp):
TGGCATCGATATATGATAACATGTAACACCATATCCAGGATA
Found at i:39256374 original size:77 final size:76
Alignment explanation
Indices: 39256268--39256472 Score: 223
Period size: 86 Copynumber: 2.5 Consensus size: 76
39256258 TTTATCCGGC
* * *
39256268 TAAGTCCCGAAGGCATTTATGCTAGTGATTTATCCGGGCTAAGACCCGAAGG-TTTGTGCGAGTT
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTATCC-GGCTAAGACCCGAAGGATTTGTGCG-GTT
*
39256332 GCTATACCCGGGT
64 GCTATACCCGGAT
39256345 TAAGACCCGAAGGCAATTGTGCTAGTGATTTATCCGGCTAAGACCGGCTAGACCCGAAGGCATTT
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTATCCGGCT---A------AGACCCGAAGG-ATTT
*
39256410 GTGTGGTTGCTATACCCGGAT
56 GTGCGGTTGCTATACCCGGAT
* *
39256431 TAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGGCTAA
1 TAAGACCCGAAGGCAATTGTGCTAGTGATT-TATCCGGCTAA
39256473 ATTCCGAAGA
Statistics
Matches: 109, Mismatches: 7, Indels: 23
0.78 0.05 0.17
Matches are distributed among these distances:
76 4 0.04
77 32 0.29
78 1 0.01
79 1 0.01
84 1 0.01
85 11 0.10
86 43 0.39
87 16 0.15
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (76 bp):
TAAGACCCGAAGGCAATTGTGCTAGTGATTTATCCGGCTAAGACCCGAAGGATTTGTGCGGTTGC
TATACCCGGAT
Found at i:39256387 original size:38 final size:39
Alignment explanation
Indices: 39256220--39256389 Score: 204
Period size: 39 Copynumber: 4.4 Consensus size: 39
39256210 ATTTGAATGA
*
39256220 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGA-TT
*
39256260 TATCC-GGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* * * *
39256298 TATCCGGGCTAAGACCCGAAGG--TTTGTGCGAGTTGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATT
* * * *
39256336 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
39256375 TATCC-GGCTAAGACC
1 TATCCGGGCTAAGACC
39256390 GGCTAGACCC
Statistics
Matches: 113, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
37 8 0.07
38 39 0.35
39 53 0.47
40 13 0.12
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
Found at i:39256449 original size:86 final size:87
Alignment explanation
Indices: 39256304--39256472 Score: 263
Period size: 86 Copynumber: 2.0 Consensus size: 87
39256294 GATTTATCCG
*
39256304 GGCTAAGACCCGAAGGTTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTA
1 GGCTAAGACCCGAAGGTTTGTGCGAGTTGCTATACCCGGATTAAGACCCGAAGGCAATTGTGCTA
39256369 GTGATT-TATCCGGCTAAGACC
66 GTGATTATATCCGGCTAAGACC
*
39256390 GGCT-AGACCCGAAGGCATTTGTGTG-GTTGCTATACCCGGATTAAGACCCGAAGGCAATTGTGC
1 GGCTAAGACCCGAAGG--TTTGTGCGAGTTGCTATACCCGGATTAAGACCCGAAGGCAATTGTGC
* *
39256453 TTGTGGTTATATCCGGCTAA
64 TAGTGATTATATCCGGCTAA
39256473 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
85 11 0.14
86 47 0.62
87 18 0.24
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (87 bp):
GGCTAAGACCCGAAGGTTTGTGCGAGTTGCTATACCCGGATTAAGACCCGAAGGCAATTGTGCTA
GTGATTATATCCGGCTAAGACC
Found at i:39264280 original size:40 final size:41
Alignment explanation
Indices: 39264221--39264452 Score: 294
Period size: 40 Copynumber: 5.8 Consensus size: 41
39264211 CATTTGAATG
* * *
39264221 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* *
39264261 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * * *
39264301 ATACCCGGGTTAAGACCCGAAGGTAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
39264341 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
39264381 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
39264421 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
39264453 TTGTGGTTAT
Statistics
Matches: 166, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.01
40 159 0.96
41 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:39264435 original size:120 final size:120
Alignment explanation
Indices: 39264221--39264472 Score: 409
Period size: 120 Copynumber: 2.1 Consensus size: 120
39264211 CATTTGAATG
* * *
39264221 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
*
39264286 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGTAATTGTGCTAGTGATT
66 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
39264341 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
* *
39264405 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
65 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
39264461 ATATCC-GGCTAA
1 ATATCCGGGCTAA
39264473 ATTCCGAAGA
Statistics
Matches: 122, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
119 6 0.05
120 113 0.93
121 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:39264468 original size:80 final size:80
Alignment explanation
Indices: 39264221--39264452 Score: 331
Period size: 80 Copynumber: 2.9 Consensus size: 80
39264211 CATTTGAATG
* *
39264221 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
39264286 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* * * *
39264301 ATACCCGGGTTAAGACCCGAAGGTAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
39264366 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * * *
39264381 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
*
39264445 AATTGTGC
65 ATTTGTGC
39264453 TTGTGGTTAT
Statistics
Matches: 134, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 132 0.99
81 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:39273589 original size:18 final size:17
Alignment explanation
Indices: 39273549--39273589 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
39273539 TTAACCTTAT
*
39273549 TATCTTATTTTAATTTT
1 TATCTTATTTTAATTTA
*
39273566 TTTCTTATTTTCAATTTA
1 TATCTTATTTT-AATTTA
39273584 TATCTT
1 TATCTT
39273590 TTAATTCTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (17 bp):
TATCTTATTTTAATTTA
Found at i:39274880 original size:38 final size:35
Alignment explanation
Indices: 39274838--39274918 Score: 101
Period size: 35 Copynumber: 2.2 Consensus size: 35
39274828 TTAAATTTCA
39274838 ATAAAAATATAAAAAAT-TAGAATTTTTTTATAAAAATC
1 ATAAAAATA-AAAAAATGTAGAA---TTTTATAAAAATC
*
39274876 ATAAAAATAAAAAATTGTAGAATTTTATAAAAATC
1 ATAAAAATAAAAAAATGTAGAATTTTATAAAAATC
39274911 ATACAAAA
1 ATA-AAAA
39274919 CTTAACGACC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 16 0.40
36 4 0.10
37 6 0.15
38 14 0.35
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (35 bp):
ATAAAAATAAAAAAATGTAGAATTTTATAAAAATC
Found at i:39275143 original size:18 final size:17
Alignment explanation
Indices: 39275123--39275211 Score: 65
Period size: 19 Copynumber: 5.0 Consensus size: 17
39275113 TATAAAATTC
39275123 TATAATTTTTTATATTT
1 TATAATTTTTTATATTT
*
39275140 CTAT-ATATTTTATAACTTT
1 -TATAATTTTTTAT-A-TTT
* *
39275159 TATGATTTTTATAAAATTT
1 TATAATTTTT-T-ATATTT
*
39275178 TACAATTTTTATATATTT
1 TATAATTTTT-TATATTT
*
39275196 TATTA-TTTTTATATTT
1 TATAATTTTTTATATTT
39275212 GTTTTCTAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
16 7 0.12
17 12 0.21
18 15 0.26
19 21 0.36
20 2 0.03
21 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (17 bp):
TATAATTTTTTATATTT
Found at i:39275202 original size:8 final size:9
Alignment explanation
Indices: 39275123--39275211 Score: 64
Period size: 9 Copynumber: 10.0 Consensus size: 9
39275113 TATAAAATTC
39275123 TATA-ATTT
1 TATATATTT
*
39275131 TTTATATTT
1 TATATATTT
39275140 CTATATATTT
1 -TATATATTT
39275150 TATA-ACTTT
1 TATATA-TTT
39275159 TATGAT-TTT
1 TAT-ATATTT
*
39275168 TATAAAATTT
1 TAT-ATATTT
*
39275178 TACA-ATTTT
1 TATATA-TTT
39275187 TATATATTT
1 TATATATTT
39275196 TAT-TATTT
1 TATATATTT
39275204 T-TATATTT
1 TATATATTT
39275212 GTTTTCTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
7 1 0.02
8 16 0.24
9 34 0.52
10 15 0.23
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
TATATATTT
Found at i:39275250 original size:61 final size:58
Alignment explanation
Indices: 39275170--39275283 Score: 133
Period size: 61 Copynumber: 1.9 Consensus size: 58
39275160 ATGATTTTTA
* *
39275170 TAAAATTTTACAATTTTTAT-ATATTTTATT-ATTTTTATATTTGTTTTCTAATTTTTAATAT
1 TAAAATTTAACAATATTTATGAT-TTTTATTGA-TTTTA-A-TT-TTTTCTAATTTTTAATAT
* *
39275231 TAAAATTTAATAATATTTATGGTTTTTATTGATTTTAATTTTTTCTAATTTTT
1 TAAAATTTAACAATATTTATGATTTTTATTGATTTTAATTTTTTCTAATTTTT
39275284 TTTATAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
58 13 0.28
59 2 0.04
60 1 0.02
61 29 0.62
62 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (58 bp):
TAAAATTTAACAATATTTATGATTTTTATTGATTTTAATTTTTTCTAATTTTTAATAT
Found at i:39288261 original size:30 final size:29
Alignment explanation
Indices: 39288210--39288302 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 29
39288200 GGGTGACTAA
* * *
39288210 GTTGCTCACACAAGTCAACATTATATTAGG
1 GTTGCTCACACAAGT-GACATTATATCAAG
*
39288240 GTTGCTTACACAAGCTGACATTATATCAAG
1 GTTGCTCACACAAG-TGACATTATATCAAG
* * *
39288270 GTTACTCACACAAGATGAAATTATAACAAG
1 GTTGCTCACACAAG-TGACATTATATCAAG
39288300 GTT
1 GTT
39288303 ACCGTTCGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 52 0.98
31 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (29 bp):
GTTGCTCACACAAGTGACATTATATCAAG
Found at i:39292854 original size:22 final size:22
Alignment explanation
Indices: 39292826--39292868 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
39292816 AGGGATTTAT
39292826 TTGTAAAGTGTTGAA-AAATGTG
1 TTGTAAAGTG-TGAATAAATGTG
39292848 TTGTAAAGTGTGAATAAATGT
1 TTGTAAAGTGTGAATAAATGT
39292869 AAAATGTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (22 bp):
TTGTAAAGTGTGAATAAATGTG
Found at i:39296207 original size:43 final size:43
Alignment explanation
Indices: 39296106--39296213 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
39296096 GATTACCGAG
* * * *
39296106 ATGTGATTACATGCAAGACCATGTCTTGGACATTGGCATCGTT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCGAT
* * * * *
39296149 ATATGTTTTCGTGTAAGACCATGTCTAGTACATTAGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCGAT
*
39296192 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
39296214 ATCTGGGATA
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCGAT
Found at i:39298299 original size:43 final size:43
Alignment explanation
Indices: 39298251--39298334 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
39298241 AAATCTTACA
* * *
39298251 ATGCCAATGTGCCAGACGTGGTCTTACAT-GTAACCACATATGG
1 ATGCCAATGTCCCAGACATGGTCTTAC-TCGTAAACACATATGG
*
39298294 ATGCCATTGTCCCAGACATGGTCTTACTCGTAAACACATAT
1 ATGCCAATGTCCCAGACATGGTCTTACTCGTAAACACATAT
39298335 CAAAATACCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACTCGTAAACACATATGG
Found at i:39305402 original size:43 final size:43
Alignment explanation
Indices: 39305354--39305437 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
39305344 AAATTGTACA
*
39305354 ATGCCAATGTCCCAAAC-GTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAATGTCCCAAACAG-GGTCTTAC-TCGTAAACACATATCG
* *
39305397 ATGCCACTGTCCCAGACAGGGTCTTACTCGTAAACACATAT
1 ATGCCAATGTCCCAAACAGGGTCTTACTCGTAAACACATAT
39305438 GAAAATCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 34 0.94
44 1 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACAGGGTCTTACTCGTAAACACATATCG
Found at i:39307467 original size:11 final size:11
Alignment explanation
Indices: 39307448--39307484 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
39307438 GATGGAATTT
39307448 AAATG-GCATG
1 AAATGTGCATG
*
39307458 GAATGTGCATG
1 AAATGTGCATG
39307469 AAATGTGCATG
1 AAATGTGCATG
39307480 AAATG
1 AAATG
39307485 GTCATTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (11 bp):
AAATGTGCATG
Found at i:39310993 original size:17 final size:17
Alignment explanation
Indices: 39310971--39311025 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 17
39310961 TAGGAGCTAG
*
39310971 TATCAATTTAATGCCCT
1 TATCAATGTAATGCCCT
39310988 TATCAAAATGTAATGCCCT
1 TATC--AATGTAATGCCCT
39311007 TATCAAAATGTAATGCCCT
1 TATC--AATGTAATGCCCT
39311026 GAATTTGGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 4 0.11
19 31 0.89
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (17 bp):
TATCAATGTAATGCCCT
Found at i:39311003 original size:19 final size:19
Alignment explanation
Indices: 39310979--39311025 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
39310969 AGTATCAATT
39310979 TAATGCCCTTATCAAAATG
1 TAATGCCCTTATCAAAATG
39310998 TAATGCCCTTATCAAAATG
1 TAATGCCCTTATCAAAATG
39311017 TAATGCCCT
1 TAATGCCCT
39311026 GAATTTGGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (19 bp):
TAATGCCCTTATCAAAATG
Found at i:39313096 original size:27 final size:27
Alignment explanation
Indices: 39313052--39313155 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
39313042 AGAGCCCAGA
* * *
39313052 TTGTAAAGTCACTGAAATATCCCCGA-T
1 TTGTAAAATTACTAAAATA-CCCCGAGT
**
39313079 TTGTAAAATTACTAAAATACCCTTAGT
1 TTGTAAAATTACTAAAATACCCCGAGT
** *
39313106 TTGTAAAATTACCCAAATACCCTTGTAG-
1 TTGTAAAATTACTAAAATACCC-CG-AGT
*
39313134 -TGTAAAATTACCAAAATACCCC
1 TTGTAAAATTACTAAAATACCCC
39313156 TGTAGGGTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.06
27 57 0.89
28 1 0.02
29 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCCGAGT
Found at i:39313159 original size:27 final size:27
Alignment explanation
Indices: 39313080--39313168 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
39313070 ATCCCCGATT
*
39313080 TGTAAAATTACTAAAATA-CCCT-TAG
1 TGTAAAATTACCAAAATACCCCTGTAG
* *
39313105 TTTGTAAAATTACCCAAATACCCTTGTAG
1 --TGTAAAATTACCAAAATACCCCTGTAG
39313134 TGTAAAATTACCAAAATACCCCTGTAG
1 TGTAAAATTACCAAAATACCCCTGTAG
*
39313161 GGTAAAAT
1 TGTAAAAT
39313169 GACTATTTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
27 48 0.89
28 3 0.06
29 3 0.06
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCCTGTAG
Found at i:39313610 original size:33 final size:32
Alignment explanation
Indices: 39313572--39313660 Score: 96
Period size: 28 Copynumber: 2.8 Consensus size: 32
39313562 TAATTGCATT
* * *
39313572 ACACTGTACTAATACTGTATTGGGCTTAGGCCC
1 ACACTGTACT-ATACTGTATAGGGCTAAGACCC
39313605 ACACTGT--TAT--TGTATAGGGCTAAGACCC
1 ACACTGTACTATACTGTATAGGGCTAAGACCC
*
39313633 AGACTGTACTGATACTGTATAGGGCTAA
1 ACACTGTACT-ATACTGTATAGGGCTAA
39313661 AGCCCAGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
28 21 0.45
30 3 0.06
31 3 0.06
33 20 0.43
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (32 bp):
ACACTGTACTATACTGTATAGGGCTAAGACCC
Found at i:39313667 original size:33 final size:31
Alignment explanation
Indices: 39313574--39313668 Score: 90
Period size: 33 Copynumber: 3.0 Consensus size: 31
39313564 ATTGCATTAC
* * *
39313574 ACTGTACTAATACTGTATTGGGCTTAGGCCCAC
1 ACTGTACT-ATACTGTATAGGGC-TAAGCCCAG
39313607 ACTGT--TAT--TGTATAGGGCTAAGACCCAG
1 ACTGTACTATACTGTATAGGGCTAAG-CCCAG
39313635 ACTGTACTGATACTGTATAGGGCTAAAGCCCAG
1 ACTGTACT-ATACTGTATAGGGCT-AAGCCCAG
39313668 A
1 A
39313669 TTGTTTTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
27 3 0.06
28 18 0.35
30 3 0.06
31 3 0.06
33 22 0.42
34 3 0.06
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (31 bp):
ACTGTACTATACTGTATAGGGCTAAGCCCAG
Found at i:39316569 original size:26 final size:27
Alignment explanation
Indices: 39316540--39316604 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
39316530 CGACCCCCAA
39316540 TTGTAAAATTACTAAAATACCCTAG-T
1 TTGTAAAATTACTAAAATACCCTAGAT
* *
39316566 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACTAAAATACCCTAGAT
39316593 TTGTAAAATTAC
1 TTGTAAAATTAC
39316605 CCAAATAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 23 0.64
27 13 0.36
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCTAGAT
Found at i:39317758 original size:40 final size:41
Alignment explanation
Indices: 39317689--39317784 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
39317679 AACTATGTTC
39317689 GGCACTAAGTGTGCG-GTTCGAAATAGCTTCGGCTACA-AA
1 GGCACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACATAA
* * * *
39317728 TGGCACTAAGTGTGCGAGTT-GGAATGGCTTCGGCTATATGA
1 -GGCACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACATAA
39317769 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
39317785 TACCGAGATA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACATAA
Found at i:39325222 original size:39 final size:42
Alignment explanation
Indices: 39325137--39325231 Score: 130
Period size: 39 Copynumber: 2.4 Consensus size: 42
39325127 GACTATGTTC
39325137 GGCACTAAGTGTGCG-GTTTGAAATAGCTTCGGCTATAAATGA
1 GGCACTAAGTGTGCGAGTTTGAAATAGCTTCGGCTAT-AATGA
*
39325179 --CACT-AGTGTGCGAG-TTGGAATAGCTTCGGCTAT-ATGA
1 GGCACTAAGTGTGCGAGTTTGAAATAGCTTCGGCTATAATGA
39325216 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
39325232 TACTGAGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
37 4 0.08
39 30 0.62
40 14 0.29
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAGTTTGAAATAGCTTCGGCTATAATGA
Found at i:39332799 original size:14 final size:15
Alignment explanation
Indices: 39332780--39332811 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
39332770 TTGCCTTTAT
39332780 TTTTCTA-GATTGAA
1 TTTTCTATGATTGAA
39332794 TTTTCTATGATTGAA
1 TTTTCTATGATTGAA
39332809 TTT
1 TTT
39332812 CCTGCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTTCTATGATTGAA
Found at i:39338304 original size:40 final size:40
Alignment explanation
Indices: 39338230--39338450 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
39338220 AACCCAAGTA
* **
39338230 CCTTCGGGATTTAG-CCGGATATAG-CAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
39338269 CCTTCAGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
39338309 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
39338349 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
39338389 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
39338428 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
39338451 CATCCGAATA
Statistics
Matches: 161, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.23
40 122 0.76
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:39351599 original size:40 final size:40
Alignment explanation
Indices: 39351516--39351858 Score: 476
Period size: 40 Copynumber: 8.6 Consensus size: 40
39351506 TTGAATGCTG
* * * * * *
39351516 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
39351556 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
39351596 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
39351636 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
39351676 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
39351716 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
39351756 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
39351796 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
39351835 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39351859 TGAACGAGGA
Statistics
Matches: 279, Mismatches: 21, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 35 0.13
40 236 0.85
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:39359606 original size:40 final size:40
Alignment explanation
Indices: 39359599--39359865 Score: 446
Period size: 40 Copynumber: 6.7 Consensus size: 40
39359589 TGCGAGATAC
39359599 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
39359639 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
*
39359679 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGGGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
*
39359719 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
39359759 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
* * **
39359799 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTAC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
* * *
39359838 TAAAACCGGGCTATGTCCCGAAGGCATT
1 TAAATCCGGGTTAAGTCCCGAAGGCATT
39359866 TGAACGAGGA
Statistics
Matches: 217, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
39 34 0.16
40 183 0.84
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
Found at i:39365165 original size:40 final size:40
Alignment explanation
Indices: 39365109--39365533 Score: 672
Period size: 40 Copynumber: 10.6 Consensus size: 40
39365099 CATTTGAATG
39365109 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
39365149 ATATCCGGGTTTAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
39365189 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
39365229 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
39365269 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
39365309 ATATCCGAGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
39365349 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
39365389 ATATCCGGGCTAAGACCCGATGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
39365429 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
39365469 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * * *
39365509 ATACCCGAGTTAAGACCCAAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
39365534 ATTGAGCTTG
Statistics
Matches: 358, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 355 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:39373432 original size:39 final size:41
Alignment explanation
Indices: 39373389--39373608 Score: 276
Period size: 40 Copynumber: 5.6 Consensus size: 41
39373379 AACCCAAGTA
* **
39373389 CCTTCGGGATTTAG-CCGGATATAG-CAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* * *
39373428 CCTTCGGGTCTTAGCTC-GATATAGTC-ACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
39373467 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
39373507 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAACTA
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
39373547 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
39373586 CCTTCGGGACATAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
39373609 CATCCAAATA
Statistics
Matches: 157, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 69 0.44
40 85 0.54
41 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:39383101 original size:18 final size:18
Alignment explanation
Indices: 39383078--39383114 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
39383068 TACAGATTTG
39383078 GGGTTTAACTCTAAAGGA
1 GGGTTTAACTCTAAAGGA
39383096 GGGTTTAACTCTAAAGGA
1 GGGTTTAACTCTAAAGGA
39383114 G
1 G
39383115 TTCTGTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (18 bp):
GGGTTTAACTCTAAAGGA
Found at i:39386264 original size:48 final size:48
Alignment explanation
Indices: 39386193--39386411 Score: 294
Period size: 48 Copynumber: 4.6 Consensus size: 48
39386183 ATGCCTCATA
* * *
39386193 CCGATGCCATGTCCCATACATGGTCTTACACTGTCTCACATAACGATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATG
* *
39386241 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTAACAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATG
* * *
39386289 CCAATGCCATATCCCAGACATGGTCTTATACTGGCTCACATAACAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATG
** * ** *
39386337 CAAATGCCATGTCCCAGATATGGTCTTACACTGGCTCATGTAGCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATG
* *
39386385 TCGACGCCATGTCCCAGACATGGTCTT
1 CCGATGCCATGTCCCAGACATGGTCTT
39386412 GCACGGTTAC
Statistics
Matches: 149, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 149 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATG
Found at i:39392549 original size:41 final size:40
Alignment explanation
Indices: 39392484--39392778 Score: 148
Period size: 41 Copynumber: 7.2 Consensus size: 40
39392474 ATTTTACTTG
* ** *
39392484 ATTCAAGGTTACCAAAGTGTAAACAGGGTCACGTAAGTG-A
1 ATTCAAGGGTACCAAAGTACAAACAGGG-CACGCAAGTGCA
* * *
39392524 TATTCAGGGGTACCAAAGTACAAACAAGGGCATGCATGTGCA
1 -ATTCAAGGGTACCAAAGTACAAAC-AGGGCACGCAAGTGCA
* * *
39392566 ATTCAAGGGTACCGAAGTACAAACAAGGGCATGTATA-TGCA
1 ATTCAAGGGTACCAAAGTACAAAC-AGGGCACGCA-AGTGCA
* ** ** * * *
39392607 ATTCTATAGTACTGAAGTACAAAAAGGGGCA--CAAATACACA
1 ATTCAAGGGTACCAAAGTACAAACA-GGGCACGCAAGT--GCA
* * * * ** *
39392648 ATTCAGGGGTGCCGAAGTACAAAAAGGGGCACATATGTGCA
1 ATTCAAGGGTACCAAAGTACAAACA-GGGCACGCAAGTGCA
* * *
39392689 ATTCAAGGGTACCGAAGTACAAACATGGGCACGTATGTGCA
1 ATTCAAGGGTACCAAAGTACAAACA-GGGCACGCAAGTGCA
** * * * * *
39392730 ATTCAAGGGTACTGAAGTATAAATAAGGGTACGTACGTGCA
1 ATTCAAGGGTACCAAAGTACAAA-CAGGGCACGCAAGTGCA
39392771 ATTCAAGG
1 ATTCAAGG
39392779 AATAACTAAG
Statistics
Matches: 206, Mismatches: 38, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.00
39 2 0.01
40 1 0.00
41 194 0.94
42 6 0.03
43 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (40 bp):
ATTCAAGGGTACCAAAGTACAAACAGGGCACGCAAGTGCA
Found at i:39392744 original size:123 final size:124
Alignment explanation
Indices: 39392525--39392758 Score: 337
Period size: 123 Copynumber: 1.9 Consensus size: 124
39392515 CGTAAGTGAT
**
39392525 ATTCAGGGGTACCAAAGTACAAACAAGGGCATGCATGTGCAATTCAAGGGTACCGAAGTACAAAC
1 ATTCAGGGGTACCAAAGTACAAACAAGGGCACACATGTGCAATTCAAGGGTACCGAAGTACAAAC
* * *
39392590 AAGGGCATGTATATGCAATTCTATAGTACTGAAGTACAAA-AAGGGGCACAAATACACA
66 AAGGGCACGTATATGCAATTCAAGAGTACTGAAGTACAAATAAGGGGCACAAATACACA
* * *
39392648 ATTCAGGGGTGCCGAAGTACAAA-AAGGGGCACATATGTGCAATTCAAGGGTACCGAAGTACAAA
1 ATTCAGGGGTACCAAAGTACAAACAA-GGGCACACATGTGCAATTCAAGGGTACCGAAGTACAAA
* * * *
39392712 CATGGGCACGTATGTGCAATTCAAGGGTACTGAAGTATAAATAAGGG
65 CAAGGGCACGTATATGCAATTCAAGAGTACTGAAGTACAAATAAGGG
39392759 TACGTACGTG
Statistics
Matches: 97, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
122 2 0.02
123 90 0.93
124 5 0.05
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (124 bp):
ATTCAGGGGTACCAAAGTACAAACAAGGGCACACATGTGCAATTCAAGGGTACCGAAGTACAAAC
AAGGGCACGTATATGCAATTCAAGAGTACTGAAGTACAAATAAGGGGCACAAATACACA
Found at i:39392773 original size:123 final size:122
Alignment explanation
Indices: 39392508--39392775 Score: 301
Period size: 123 Copynumber: 2.2 Consensus size: 122
39392498 AAGTGTAAAC
* **
39392508 AGGGTCACGTAAGTG-ATATTCAGGGGTACCAAAGTACAAACAAGGGCATGCATGTGCAATTCAA
1 AGGGT-ACGTACGTGCA-ATTCAGGGGTACCAAAGTACAAACAAGGGCACACATGTGCAATTCAA
* * *
39392572 GGGTACCGAAGTACAAACAAGGGCATGTATATGCAATTCTATAGTACTGAAGTACAAAA
64 GGGTACCGAAGTACAAACAAGGGCACGTATATGCAATTCAAGAGTACTGAAGTACAAAA
* * * * * *
39392631 AGGGGCACAAATAC--ACAATTCAGGGGTGCCGAAGTACAAA-AAGGGGCACATATGTGCAATTC
1 A-GGGTAC--GTACGTGCAATTCAGGGGTACCAAAGTACAAACAA-GGGCACACATGTGCAATTC
* * * *
39392693 AAGGGTACCGAAGTACAAACATGGGCACGTATGTGCAATTCAAGGGTACTGAAGTATAAATA
62 AAGGGTACCGAAGTACAAACAAGGGCACGTATATGCAATTCAAGAGTACTGAAGTACAAA-A
39392755 AGGGTACGTACGTGCAATTCA
1 AGGGTACGTACGTGCAATTCA
39392776 AGGAATAACT
Statistics
Matches: 118, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
121 3 0.03
122 2 0.02
123 105 0.89
124 6 0.05
125 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (122 bp):
AGGGTACGTACGTGCAATTCAGGGGTACCAAAGTACAAACAAGGGCACACATGTGCAATTCAAGG
GTACCGAAGTACAAACAAGGGCACGTATATGCAATTCAAGAGTACTGAAGTACAAAA
Found at i:39392778 original size:82 final size:81
Alignment explanation
Indices: 39392484--39392778 Score: 261
Period size: 82 Copynumber: 3.6 Consensus size: 81
39392474 ATTTTACTTG
* * ** * * * *
39392484 ATTCAAGGTTACCAAAGTGTAAACAGGGTCACGTAAGTG-ATATTCAGGGGTACCAAAGTACAAA
1 ATTCAAGGGTACCGAAGTACAAAAAGGG-CACGTATGTGCA-ATTCAAGGGTACCGAAGTACAAA
* *
39392548 CAAGGGCATGCATGTGCA
64 CAAGGGCACGAATGTGCA
* * * ** *
39392566 ATTCAAGGGTACCGAAGTACAAACAAGGGCATGTATATGCAATTCTATAGTACTGAAGTACAAA-
1 ATTCAAGGGTACCGAAGTACAAA-AAGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAAC
* ***
39392630 AAGGGGCACAAATACACA
65 AA-GGGCACGAATGTGCA
* * *
39392648 ATTCAGGGGTGCCGAAGTACAAAAAGGGGCACATATGTGCAATTCAAGGGTACCGAAGTACAAAC
1 ATTCAAGGGTACCGAAGTACAAAAA-GGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAAC
* *
39392713 ATGGGCACGTATGTGCA
65 AAGGGCACGAATGTGCA
* * * *
39392730 ATTCAAGGGTACTGAAGTATAAATAAGGGTACGTACGTGCAATTCAAGG
1 ATTCAAGGGTACCGAAGTACAAA-AAGGGCACGTATGTGCAATTCAAGG
39392779 AATAACTAAG
Statistics
Matches: 165, Mismatches: 42, Indels: 12
0.75 0.19 0.05
Matches are distributed among these distances:
81 4 0.02
82 153 0.93
83 8 0.05
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (81 bp):
ATTCAAGGGTACCGAAGTACAAAAAGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAACA
AGGGCACGAATGTGCA
Found at i:39396007 original size:31 final size:31
Alignment explanation
Indices: 39395964--39396046 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
39395954 TCAGTCTCGA
39395964 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
* *
39395994 CGTATCACTGGGCCAAAACCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
*
39396025 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCAAAGCCTTT
39396047 ACTGTAAGCG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 15 0.32
31 32 0.68
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTTCATAAAT
Found at i:39396287 original size:25 final size:25
Alignment explanation
Indices: 39396259--39396328 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
39396249 CTCTTTTAAT
* *
39396259 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
* *
39396284 AACTAGGGCAAAACCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
39396309 AACTAGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
39396329 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:39397200 original size:27 final size:27
Alignment explanation
Indices: 39397139--39397215 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
39397129 GGCATATTCA
*
39397139 TCATTTTACCATACAGGGGTATTATGG
1 TCATTTTACCATACAGGGGTATTACGG
* *
39397166 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAGGGG-TATTACGG
* *
39397193 TCTTTTTACC-TATTAGGGGTATT
1 TCATTTTACCATA-CAGGGGTATT
39397216 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:39397369 original size:27 final size:27
Alignment explanation
Indices: 39397329--39397442 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
39397319 GGGTTTTTCT
** * *
39397329 GTAATTTTGTAAATTAGGGGCATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* * *
39397356 ATAATTTTACAAA-TTGAGGGTATTTCG
1 GTAATTTTACAAACTAG-GGGTATTTTG
* *
39397383 GTAATTTCACAAACTAGTGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
39397410 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
39397437 GTAATT
1 GTAATT
39397443 CTATCCTATA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.03
27 68 0.94
28 2 0.03
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GTAATTTTACAAACTAGGGGTATTTTG
Found at i:39397482 original size:27 final size:27
Alignment explanation
Indices: 39397373--39397475 Score: 111
Period size: 27 Copynumber: 3.8 Consensus size: 27
39397363 TACAAATTGA
39397373 GGGTATTTCGGTAATTTCACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* * *
39397400 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* **
39397427 GGGTATTTTGGTAA-TTCTATCCTA-TAG
1 GGGTATTTCGGTAATTTC-A-CAAACTAG
*
39397454 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTCACAA
39397476 TCGAGGGTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
26 3 0.05
27 54 0.87
28 5 0.08
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTCACAAACTAG
Found at i:39397603 original size:27 final size:27
Alignment explanation
Indices: 39397474--39397592 Score: 220
Period size: 27 Copynumber: 4.4 Consensus size: 27
39397464 GTAATTTCAC
*
39397474 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
39397501 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
39397528 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
39397555 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
39397582 AATCGAGGGTA
1 AATCGAGGGTA
39397593 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:39399362 original size:15 final size:15
Alignment explanation
Indices: 39399338--39399367 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39399328 CATAATTCAT
*
39399338 ACCATTTCAATACCA
1 ACCATATCAATACCA
39399353 ACCATATCAATACCA
1 ACCATATCAATACCA
39399368 TAATGTGCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
ACCATATCAATACCA
Found at i:39403951 original size:25 final size:26
Alignment explanation
Indices: 39403917--39403969 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
39403907 TTTACTAAAA
*
39403917 TACCCCTAAGTATG-ACAATTACCAT
1 TACCCCTAAGTATGCAAAATTACCAT
39403942 TACCCCTAAGTATGCAAAATTACCAT
1 TACCCCTAAGTATGCAAAATTACCAT
39403968 TA
1 TA
39403970 TACCACTGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (26 bp):
TACCCCTAAGTATGCAAAATTACCAT
Found at i:39404152 original size:27 final size:26
Alignment explanation
Indices: 39404087--39404194 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
39404077 AAGCGTTCCA
*
39404087 GTGGCTATGCCACAATTATTTGTTTCTG
1 GTGGCTATGCCACAA-TATCTG-TTCTG
39404115 GTGGCTATGCCACAGATATCTGTTCTG
1 GTGGCTATGCCACA-ATATCTGTTCTG
* *
39404142 GTGGCTCTGCCACAATATCTGTATTTG
1 GTGGCTATGCCACAATATCTGT-TCTG
* * * *
39404169 GTGACTCTGTCACAATATCGGTTCTG
1 GTGGCTATGCCACAATATCTGTTCTG
39404195 ACAGCCATGC
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
26 11 0.15
27 40 0.56
28 19 0.27
29 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:39411593 original size:48 final size:48
Alignment explanation
Indices: 39411531--39412924 Score: 1822
Period size: 48 Copynumber: 28.9 Consensus size: 48
39411521 TATATATGTG
39411531 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
39411579 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
39411627 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
39411675 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
39411723 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
39411771 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
39411819 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
39411867 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
39411915 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
39411963 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATACGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
39412011 TGTGGTAAAGCCGAATGTCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * * *
39412059 TGTGGTAAAGGCGAATGACTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
39412107 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * * * **
39412155 TGTGGTAAAGCCGAATGGCTAGTGCT-ATATGTGGTAAAGCCGA-ATGGCTA
1 TGTGGTAAAGCCGAATGGCTAGTG-TGAAATAT-GT-ATG-AGATATGTATA
*** * * * * * *
39412205 -GT-GTGAAATATGTATGAGATA-TGT-ATATGTGGTAAAGCCGA-ATGGCTA-A
1 TGTGGT-AAAGCCGAATG-GCTAGTGTGAAATAT-GT-ATG-AGATAT-G-TATA
*** * * * * * *
39412254 TGT-G-AAATATGTATGAGATA-TGT-ATATGTGGTAAAGCCGA-ATGGCTA-A
1 TGTGGTAAAGCCGAATG-GCTAGTGTGAAATAT-GT-ATG-AGATAT-G-TATA
*** * * * * * **
39412302 TGT-G-AAATATGTATGAGATA-TGT-ATATATGGTAAAGCCGA-ATGGCTA
1 TGTGGTAAAGCCGAATG-GCTAGTGTGAAATAT-GT-ATG-AGATATGTATA
* ** * * *** *
39412349 CTGT-GAAATATGTATGAGATATG-TATATGTGGTAAAGCCGAATGAGATATGTATA
1 -TGTGGTAA-A-G-CCGA-AT-GGCTA-GTGT-G-AAATATGTATGAGATATGTATA
39412404 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
39412452 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
39412500 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
39412548 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
39412596 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
39412644 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
39412692 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
39412740 TGTGGTAAAGCCGAATGGATAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
39412788 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
39412836 TGTGGTAAAGCCGAATGACTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
39412884 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
39412925 GTGTGTATAT
Statistics
Matches: 1260, Mismatches: 61, Indels: 50
0.92 0.04 0.04
Matches are distributed among these distances:
47 2 0.00
48 1182 0.94
49 19 0.02
50 18 0.01
51 6 0.00
52 7 0.01
53 4 0.00
54 9 0.01
55 10 0.01
56 1 0.00
57 2 0.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:39412193 original size:29 final size:29
Alignment explanation
Indices: 39412151--39412207 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
39412141 ATGAGATATG
39412151 TATATGTGGTAAAGCCGAATGGCTAGTGC
1 TATATGTGGTAAAGCCGAATGGCTAGTGC
39412180 TATATGTGGTAAAGCCGAATGGCTAGTG
1 TATATGTGGTAAAGCCGAATGGCTAGTG
39412208 TGAAATATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (29 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGC
Found at i:39412200 original size:125 final size:125
Alignment explanation
Indices: 39412055--39412300 Score: 456
Period size: 125 Copynumber: 2.0 Consensus size: 125
39412045 ATGAGATATG
*
39412055 TATATGTGGTAAAGGCGAATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
39412120 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGC
66 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGC
* * *
39412180 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
39412245 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
66 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
39412301 ATGTGAAATA
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 117 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (125 bp):
TATATGTGGTAAAGCCGAATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGC
Found at i:39412394 original size:28 final size:28
Alignment explanation
Indices: 39412362--39412420 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
39412352 TGAAATATGT
39412362 ATGAGATATGTATATGTGGTAAAGCCGA
1 ATGAGATATGTATATGTGGTAAAGCCGA
39412390 ATGAGATATGTATATGTGGTAAAGCCGA
1 ATGAGATATGTATATGTGGTAAAGCCGA
39412418 ATG
1 ATG
39412421 GCTAGTGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (28 bp):
ATGAGATATGTATATGTGGTAAAGCCGA
Found at i:39415472 original size:27 final size:27
Alignment explanation
Indices: 39415422--39415528 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 27
39415412 TGGTTGTGAT
* * *
39415422 AACAGATAA-TGTGACAGTGTCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
39415448 AACAGATAATTGTGGCAGAGCCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
*
39415475 AACAGAT-ATATGTGGCAGTGCCACCAG
1 AACAGATAAT-TGTGGCAGAGCCACCAG
* *
39415502 ATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
39415529 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.15
27 58 0.82
28 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
AACAGATAATTGTGGCAGAGCCACCAG
Found at i:39415500 original size:54 final size:53
Alignment explanation
Indices: 39415422--39415528 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 53
39415412 TGGTTGTGAT
*
39415422 AACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCACCAG
1 AACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACCAG
* * *
39415475 AACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACCAG
39415529 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 8 0.16
54 41 0.84
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (53 bp):
AACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACCAG
Done.