Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 153 of 410
Found at i:46527783 original size:44 final size:42
Alignment explanation
Indices: 46527643--46527802 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 42
46527633 TCGTACAATG
** * * * *
46527643 GCCAACGTCCCAGACGTGGTCTTCCATGTAATCAAATATCGAT
1 GCCAACGTCTTAGACATGGTCTTACACGAAATCAAATA-CGAT
* *
46527686 GCC-ACTGT-TCCAGACAGGGTCTTACACGAAATCAAATACGAT
1 GCCAAC-GTCT-TAGACATGGTCTTACACGAAATCAAATACGAT
* * * *
46527728 GTCGATGTCTTAGATATGGTCTTACACGTAAATCATAAGT-CGAT
1 GCCAACGTCTTAGACATGGTCTTACACG-AAATCA-AA-TACGAT
*
46527772 GCCAACGTCTTAGACGTGGTCTTACACGAAA
1 GCCAACGTCTTAGACATGGTCTTACACGAAA
46527803 ACACATATCG
Statistics
Matches: 94, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 25 0.27
43 39 0.41
44 29 0.31
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (42 bp):
GCCAACGTCTTAGACATGGTCTTACACGAAATCAAATACGAT
Found at i:46533099 original size:38 final size:38
Alignment explanation
Indices: 46533055--46533130 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
46533045 TGACCCAACT
46533055 CAGAAATTTTTATTGGAAAACCTAATAACCTGAAAAAA
1 CAGAAATTTTTATTGGAAAACCTAATAACCTGAAAAAA
* *
46533093 CAGAAATTTTTATTGGACAACCTAATAGCCTGAAAAAA
1 CAGAAATTTTTATTGGAAAACCTAATAACCTGAAAAAA
46533131 GAGTAAATCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (38 bp):
CAGAAATTTTTATTGGAAAACCTAATAACCTGAAAAAA
Found at i:46543215 original size:40 final size:40
Alignment explanation
Indices: 46543153--46543290 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 40
46543143 AAGCCAAGTA
* * * *
46543153 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
46543192 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
46543232 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
46543272 CCTTCTGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46543291 TTATCATCCA
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 13 0.15
40 72 0.85
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:46548386 original size:40 final size:40
Alignment explanation
Indices: 46548341--46548470 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
46548331 CGGAATATAA
* *
46548341 CCGGATATAACCA-TGTGCTCAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
46548381 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46548421 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
46548461 CCGGATATAA
1 CCGGATATAA
46548471 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 71 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46553985 original size:49 final size:49
Alignment explanation
Indices: 46553872--46554025 Score: 166
Period size: 49 Copynumber: 3.1 Consensus size: 49
46553862 GCATGGTTTC
* * *
46553872 ATTAAAATGCAAACTAAATGAACAAATGAGTTACATAATGCATGACATA
1 ATTAAAATGCAAACTTAATGAACATATGAGTTACTTAATGCATGACATA
* * * *
46553921 ATTTAAGATGC-AACTTAATTAACATAGGAGTTACTTAATACATGACATA
1 A-TTAAAATGCAAACTTAATGAACATATGAGTTACTTAATGCATGACATA
** * * * *
46553970 ATTAAAACACAAACTTTATGAACATATGAGATGCTTTAATGCATGACTTA
1 ATTAAAATGCAAACTTAATGAACATATGAGTTAC-TTAATGCATGACATA
46554020 ATTAAA
1 ATTAAA
46554026 TGTGGAACAC
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
48 6 0.07
49 52 0.61
50 27 0.32
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (49 bp):
ATTAAAATGCAAACTTAATGAACATATGAGTTACTTAATGCATGACATA
Found at i:46560071 original size:29 final size:28
Alignment explanation
Indices: 46560013--46560196 Score: 153
Period size: 29 Copynumber: 6.5 Consensus size: 28
46560003 TGACTGATTT
* * *
46560013 GCACACATAGTGCTCGATTA-AAGAACTC
1 GCACACATAGTGCTCAATTACCA-ATCTC
46560041 GCACACATAGTGCCTCAATTACCAATCTC
1 GCACACATAGTG-CTCAATTACCAATCTC
* **
46560070 GCACACATAGTGCTCGATTGAAGAA-CTC
1 GCACACATAGTGCTCAATT-ACCAATCTC
*
46560098 GCACACATAGTGTCTCAACTACCAATCTC
1 GCACACATAGTG-CTCAATTACCAATCTC
* **
46560127 GGACACATAGTGCTC-ATTGAAGAA--TC
1 GCACACATAGTGCTCAATT-ACCAATCTC
* ** *
46560153 GCACACATAGTGCCTCAACTACTGATCTA
1 GCACACATAGTG-CTCAATTACCAATCTC
46560182 GCACACATAGTGCTC
1 GCACACATAGTGCTC
46560197 GGTTGAAGAG
Statistics
Matches: 126, Mismatches: 20, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
26 13 0.10
27 7 0.06
28 47 0.37
29 58 0.46
30 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (28 bp):
GCACACATAGTGCTCAATTACCAATCTC
Found at i:46560080 original size:57 final size:57
Alignment explanation
Indices: 46560013--46560224 Score: 302
Period size: 57 Copynumber: 3.8 Consensus size: 57
46560003 TGACTGATTT
* *
46560013 GCACACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATCTC
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
*
46560070 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGTCTCAACTACCAATCTC
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
* ** *
46560127 GGACACATAGTGCTC-ATTGAAGAA-TCGCACACATAGTGCCTCAACTACTGATCTA
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
* * ** *
46560182 GCACACATAGTGCTCGGTTGAAGAGCTTACACACACAGTGCCT
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCT
46560225 TATAATTCCA
Statistics
Matches: 139, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
55 41 0.29
56 16 0.12
57 82 0.59
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (57 bp):
GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
Found at i:46560304 original size:40 final size:40
Alignment explanation
Indices: 46560234--46560512 Score: 454
Period size: 40 Copynumber: 7.0 Consensus size: 40
46560224 TTATAATTCC
*
46560234 AGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCACT
* * *
46560273 AGCACGAATGCTCTTAGGGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
46560313 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
46560353 AGCACGAATGCTCTTCGGGACTTAGCCCAGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
46560393 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
46560433 AACACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
46560473 AGCACGAATGCTCTTCAGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
46560513 CTCAATTCTC
Statistics
Matches: 224, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.06
40 211 0.94
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
Found at i:46564936 original size:18 final size:17
Alignment explanation
Indices: 46564915--46564962 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
46564905 TATGTAAATA
46564915 TTATTTTTTATATTATAC
1 TTATTTTTTAT-TTATAC
**
46564933 TTATTTATTTATTTATTT
1 TTATTT-TTTATTTATAC
46564951 TTA-TTTTTATTT
1 TTATTTTTTATTT
46564963 TAATTTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 7 0.26
17 2 0.07
18 13 0.48
19 5 0.19
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATTTTTTATTTATAC
Found at i:46571159 original size:28 final size:29
Alignment explanation
Indices: 46571100--46571164 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
46571090 TCTCGCACTC
46571100 TTTTTCAATTTTCTTTTCTTGCTCAATTTT
1 TTTTTCAATTTTCTTTTCTT-CTCAATTTT
*
46571130 TTTTTCAATTTT-TTTCTCTT-TCATTCTTT
1 TTTTTCAATTTTCTTT-TCTTCTCAAT-TTT
46571159 TTTTTC
1 TTTTTC
46571165 CTAAATTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 4 0.12
29 12 0.38
30 16 0.50
ACGTcount: A:0.11, C:0.17, G:0.02, T:0.71
Consensus pattern (29 bp):
TTTTTCAATTTTCTTTTCTTCTCAATTTT
Found at i:46571247 original size:33 final size:34
Alignment explanation
Indices: 46571210--46571274 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
46571200 ATTTTCTTTT
**
46571210 TTTTCTCTC-TCAATCTCTTTTATTTTTCTTCCA
1 TTTTCTCTCATCAATAACTTTTATTTTTCTTCCA
* *
46571243 TTTTCTTTCATCAATAACTTTTCTTTTTCTTC
1 TTTTCTCTCATCAATAACTTTTATTTTTCTTC
46571275 TCCCTTATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 8 0.30
34 19 0.70
ACGTcount: A:0.14, C:0.25, G:0.00, T:0.62
Consensus pattern (34 bp):
TTTTCTCTCATCAATAACTTTTATTTTTCTTCCA
Found at i:46571249 original size:21 final size:22
Alignment explanation
Indices: 46571200--46571250 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
46571190 TTCTTATTTA
46571200 ATTTTC-TTTTTTTTCTCTCTC
1 ATTTTCTTTTTTTTTCTCTCTC
* *
46571221 AATCTCTTTTATTTTTCT-TC-C
1 ATTTTCTTTT-TTTTTCTCTCTC
46571242 ATTTTCTTT
1 ATTTTCTTT
46571251 CATCAATAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 12 0.50
22 5 0.21
23 7 0.29
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTTCTTTTTTTTTCTCTCTC
Found at i:46573250 original size:20 final size:21
Alignment explanation
Indices: 46573225--46573263 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46573215 CATAATTGAC
46573225 CTTTTAATC-AAAATTTTATA
1 CTTTTAATCTAAAATTTTATA
*
46573245 CTTTTACTCTAAAATTTTA
1 CTTTTAATCTAAAATTTTA
46573264 CCTTTTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (21 bp):
CTTTTAATCTAAAATTTTATA
Found at i:46573268 original size:20 final size:19
Alignment explanation
Indices: 46573223--46573275 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
46573213 CACATAATTG
46573223 ACCTTTTAATCAAAATTTT
1 ACCTTTTAATCAAAATTTT
* *
46573242 ATACTTTTACTCTAAAATTTT
1 A-CCTTTTAATC-AAAATTTT
*
46573263 ACCTTTTATTCAA
1 ACCTTTTAATCAA
46573276 TTTAGTCCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.11
20 16 0.57
21 9 0.32
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (19 bp):
ACCTTTTAATCAAAATTTT
Found at i:46575625 original size:32 final size:32
Alignment explanation
Indices: 46575584--46575644 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
46575574 AATATGTTAA
*
46575584 AACATAATGCGAATGGGTGAATTAAGTTTTAG
1 AACAAAATGCGAATGGGTGAATTAAGTTTTAG
*
46575616 AACAAAATGCGAATTGGTGAATTAAGTTT
1 AACAAAATGCGAATGGGTGAATTAAGTTT
46575645 GAATTTAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (32 bp):
AACAAAATGCGAATGGGTGAATTAAGTTTTAG
Found at i:46578301 original size:33 final size:33
Alignment explanation
Indices: 46578257--46578335 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
46578247 GTGGTGACTA
* *
46578257 GTGAGTGGTGAGCGACGCTGGACAAC-GATGGTG
1 GTGATTGGTGAGCGACGCTAGACAACAG-TGGTG
* *
46578290 GTGATTGGTGAGCGACGCTAGATAGCAGTGGTG
1 GTGATTGGTGAGCGACGCTAGACAACAGTGGTG
*
46578323 GTGATTAGTGAGC
1 GTGATTGGTGAGC
46578336 AACAGGCGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 39 0.98
34 1 0.03
ACGTcount: A:0.22, C:0.13, G:0.43, T:0.23
Consensus pattern (33 bp):
GTGATTGGTGAGCGACGCTAGACAACAGTGGTG
Found at i:46583529 original size:40 final size:40
Alignment explanation
Indices: 46583288--46583515 Score: 352
Period size: 40 Copynumber: 5.7 Consensus size: 40
46583278 TATTCGGATG
* * *
46583288 ATAACCGGGCTAAGTCCCGAAGTCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
46583328 A-ATTCCGAGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
46583367 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
46583407 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
46583447 ATAATCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
46583487 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
46583516 AACAAGTAGC
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 34 0.20
40 138 0.80
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:46585300 original size:43 final size:42
Alignment explanation
Indices: 46585140--46585318 Score: 189
Period size: 42 Copynumber: 4.2 Consensus size: 42
46585130 AAAACTATAA
* * * * *
46585140 CTGGGACATGGCATCAATATGAGGCTTCGTGTAAGACCATAT
1 CTGGGATATGGCATCGATATGAGACATCATGTAAGACCATAT
* *
46585182 CTGGGATATGGCATCGATATGAGACATCGTGTAAGATCATAT
1 CTGGGATATGGCATCGATATGAGACATCATGTAAGACCATAT
* * ** *
46585224 CTGAGATATGGCATCGATATGAGACTTTTTGTAAGACCATAG
1 CTGGGATATGGCATCGATATGAGACATCATGTAAGACCATAT
* * *
46585266 CTGGGCTATTGGCATCGATACGAGATC-CCATGTAAGACCATAT
1 CTGGGATA-TGGCATCGATATGAGA-CATCATGTAAGACCATAT
*
46585309 TTGGGATATG
1 CTGGGATATG
46585319 ACATTGGTAT
Statistics
Matches: 115, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 81 0.70
43 33 0.29
44 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
CTGGGATATGGCATCGATATGAGACATCATGTAAGACCATAT
Found at i:46585473 original size:12 final size:12
Alignment explanation
Indices: 46585456--46585481 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46585446 TATGTAAGTA
46585456 AAACTCATACGT
1 AAACTCATACGT
46585468 AAACTCATACGT
1 AAACTCATACGT
46585480 AA
1 AA
46585482 TGAGCTCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (12 bp):
AAACTCATACGT
Found at i:46593968 original size:43 final size:43
Alignment explanation
Indices: 46593897--46594018 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 43
46593887 ATCACATGTA
* * *
46593897 TCGCATCCATTATGAACTTGGACAACTCAACGAGTTCGGATGC
1 TCGCATCCATAATGAACTCGGACCACTCAACGAGTTCGGATGC
*
46593940 TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCACTCAACGAGTTCGGATGC
* ** * * *
46593983 -CACATATATCACGAACCCGGACCACTCAACGAGTTC
1 TCGCATCCATAATGAACTCGGACCACTCAACGAGTTC
46594019 AGACTTCTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 29 0.43
43 39 0.57
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGGACCACTCAACGAGTTCGGATGC
Found at i:46599235 original size:12 final size:11
Alignment explanation
Indices: 46599215--46599248 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
46599205 TCTCTCCCCC
46599215 AAATAAAATAA
1 AAATAAAATAA
*
46599226 AAACTAAAATAG
1 AAA-TAAAATAA
46599238 AAATAAAATAA
1 AAATAAAATAA
46599249 TTAACAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:46606336 original size:37 final size:37
Alignment explanation
Indices: 46606277--46606422 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
46606267 AGCTCAGATG
* *
46606277 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
46606314 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
46606351 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
46606388 TAATCTCCACACGTAGTCATCGGGTATTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
46606423 ATATATTTCC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:46606621 original size:48 final size:48
Alignment explanation
Indices: 46606563--46607238 Score: 1154
Period size: 48 Copynumber: 14.0 Consensus size: 48
46606553 ATATACACAC
* * * *
46606563 ATCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
46606611 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
46606659 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
46606709 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
46606757 ATCCCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
46606805 ATCTCATACATATTTCACATTCGCCATTCGGCTTTACCACCTATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
46606853 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
46606901 ATCCCATATATTTTTCACATTAACCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
46606949 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
46606997 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
46607045 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
46607093 ATCCCATACATATTTCACATTAACCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
46607141 ATCCCATACATATTTCACATTAACCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
46607189 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
46607237 AT
1 AT
46607239 ATTTATCTTG
Statistics
Matches: 600, Mismatches: 26, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 554 0.92
50 46 0.08
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:46610661 original size:40 final size:40
Alignment explanation
Indices: 46610576--46610726 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
46610566 AATTGAATGA
* * * **
46610576 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
46610616 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
46610657 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
46610696 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
46610727 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:46610740 original size:40 final size:40
Alignment explanation
Indices: 46610613--46610742 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
46610603 ATGCTGGAAA
* * *
46610613 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
46610653 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
46610693 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
46610733 TTATATCCGG
1 TTATATCCGG
46610743 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:46618625 original size:40 final size:40
Alignment explanation
Indices: 46618559--46618709 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
46618549 AAATTGAATG
* * *
46618559 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
46618598 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
46618638 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
46618678 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
46618710 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46618723 original size:40 final size:40
Alignment explanation
Indices: 46618596--46618725 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
46618586 ATGCTGGAAA
* * *
46618596 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
46618636 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
46618676 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
46618716 TTATATCCGG
1 TTATATCCGG
46618726 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:46620738 original size:26 final size:27
Alignment explanation
Indices: 46620700--46621225 Score: 455
Period size: 27 Copynumber: 19.8 Consensus size: 27
46620690 TTAGTTTACC
* *
46620700 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
46620727 AATTACCG-TTTAACCTCGATTTGTA-AA
1 AATTACCGTTTTACCCTCGA-TT-TACAG
*
46620754 AATTA-CGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
** *
46620780 AATTACCGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTACAG
46620807 AATTACCGTTTTACCGCTCGATTTACAG
1 AATTACCGTTTTACC-CTCGATTTACAG
** *
46620835 AATTATAGTTTTACCCTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGA-TTTACAG
46620862 AATTACCGTTTT-CCCTCGA-TTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
46620887 AATTATCGTTTTA-CCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTACAG
*
46620913 AATTATCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
46620940 AATTACCGTTTTACCCTCAGTTTTATAG
1 AATTACCGTTTTACCCTC-GATTTACAG
* *
46620968 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
** *
46620995 AATTATTGGTTTACCCTC-AGTTTACA-
1 AATTACCGTTTTACCCTCGA-TTTACAG
* ** *
46621021 AATTATCGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTACAG
* *
46621048 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
46621075 AATTACTGGTTTACCCTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGA-TTTACAG
*
46621102 AATTATCGTTTTACCCTCGGATTGTA-A-
1 AATTACCGTTTTACCCTC-GATT-TACAG
* *
46621129 AATTA-C-TATTTACCAT-GATTTACAA
1 AATTACCGT-TTTACCCTCGATTTACAG
* * *
46621154 AATTACTG-GTTACCCTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGA-TTTACAG
*
46621180 AATT-TCGTTTTACCCTCGATTTACA-
1 AATTACCGTTTTACCCTCGATTTACAG
* *
46621205 AA-AACCGTTTTACCCTTGATT
1 AATTACCGTTTTACCCTCGATT
46621226 GTGAAATTAC
Statistics
Matches: 415, Mismatches: 53, Indels: 64
0.78 0.10 0.12
Matches are distributed among these distances:
23 2 0.00
24 6 0.01
25 53 0.13
26 100 0.24
27 200 0.48
28 51 0.12
29 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.41
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAG
Found at i:46620765 original size:53 final size:53
Alignment explanation
Indices: 46620692--46621220 Score: 494
Period size: 53 Copynumber: 10.0 Consensus size: 53
46620682 AGAATACTTT
* * *
46620692 AGTTTAC-CAATTACTGTTTTACCCTCGATTTATAGAATTACCG-TTTAACCTC
1 AGTTTACAAAATTAC-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
* *
46620744 GATTTGTA-AAAATTACGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTC
1 -AGTT-TACAAAATTACGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
** **
46620798 -GATTTGTAAAATTACCGTTTTACCGCTCGATTTACAGAATTATAGTTTTACCCTC
1 AG-TTTACAAAATTA-CGTTTTACC-CTCGATTTACAGAATTACCGTTTTACCCTC
*
46620853 AGTTTACAAAATTACCGTTTT-CCCTCGA-TTACAGAATTATCGTTTTA-CCTC
1 AGTTTACAAAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
*
46620904 AGTTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
1 AGTTTACAAAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
* * * ** *
46620958 AGTTTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTATTGGTTTACCCTC
1 AG-TTTACAAAATTAC-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
** * *
46621013 AGTTTAC-AAATTATCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCT-
1 AGTTTACAAAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
* * * * *
46621065 TGATTTACAGAATTACTGGTTTACCCTC-AGTTTACAAAATTATCGTTTTACCCTC
1 AG-TTTACAAAATTAC-GTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTC
* * ** * * * *
46621120 GGATTGTAAAATTAC-TATTTACCAT-GATTTACAAAATTACTG-GTTACCCTC
1 AGTTTACAAAATTACGT-TTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
* *
46621171 AGTTTACAAAATTTCGTTTTACCCTCGATTTACA-AA-AACCGTTTTACCCT
1 AGTTTACAAAATTACGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
46621221 TGATTGTGAA
Statistics
Matches: 399, Mismatches: 53, Indels: 50
0.79 0.11 0.10
Matches are distributed among these distances:
50 3 0.01
51 57 0.14
52 49 0.12
53 114 0.29
54 83 0.21
55 92 0.23
56 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (53 bp):
AGTTTACAAAATTACGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
Found at i:46620945 original size:133 final size:130
Alignment explanation
Indices: 46620700--46621225 Score: 448
Period size: 133 Copynumber: 4.0 Consensus size: 130
46620690 TTAGTTTACC
* * * *
46620700 AATTACTGTTTTACCCTC-GATTTATAGAATTACCGTTTAACCTCGATTTGTAAAAATTACGTTT
1 AATTA-TGTTTTACCCTCAG-TTTACAAAATTACCGTTTACCCTCGA--T-TACAAATTACGTTT
* * ** *
46620764 TACCCTC-GATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCGCTCGA
61 TACCCTCAG-TTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACC-CTCGA
46620828 TTTACAG
124 TTTACAG
*
46620835 AATTATAGTTTTACCCTCAGTTTACAAAATTACCGTTTTCCCTCGATTACAGAATTATCGTTTTA
1 AATTAT-GTTTTACCCTCAGTTTACAAAATTACCGTTTACCCTCGATTACA-AATTA-CGTTTTA
*
46620900 -CCTCAGTTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTT
63 CCCTCAGTTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-GATTT
*
46620964 ATAG
127 ACAG
* * ** *
46620968 AATTACTGTTTTACCCT-TGATTTACAGAATTATTGGTTTACCCTCAGTTTACAAATTATCGTTT
1 AATTA-TGTTTTACCCTCAG-TTTACAAAATTA-CCGTTTACCCTC-GATTACAAATTA-CGTTT
* * * *
46621032 TACCCTCGATTTGTA-A-AATTA-CTGTTTTACCCTTGATTTACAGAATTACTGGTTTACCCTC-
61 TACCCTC-AGTT-TACAGAATTATC-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCG
*
46621093 AGTTTACAA
123 A-TTTACAG
* * ** ** * *
46621102 AATTATCGTTTTACCCTCGGATTGTAAAATTACTATTTACCAT-GATTTACAAAATTAC-TGGTT
1 AATTAT-GTTTTACCCTCAGTTTACAAAATTACCGTTTACCCTCGA-TTAC-AAATTACGT-TTT
* * *
46621165 ACCCTCAGTTTACAAAATT-TCGTTTTACCCTCGATTTACA-AA-AACCGTTTTACCCTTGATT
62 ACCCTCAGTTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
46621226 GTGAAATTAC
Statistics
Matches: 325, Mismatches: 42, Indels: 54
0.77 0.10 0.13
Matches are distributed among these distances:
129 13 0.04
130 5 0.02
131 24 0.07
132 25 0.08
133 101 0.31
134 61 0.19
135 89 0.27
136 5 0.02
137 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.41
Consensus pattern (130 bp):
AATTATGTTTTACCCTCAGTTTACAAAATTACCGTTTACCCTCGATTACAAATTACGTTTTACCC
TCAGTTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAG
Found at i:46621303 original size:27 final size:27
Alignment explanation
Indices: 46621230--46621420 Score: 196
Period size: 27 Copynumber: 7.2 Consensus size: 27
46621220 TTGATTGTGA
46621230 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
46621257 AGTT-TTCAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
46621283 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
46621310 AATTACCAAAAATACCCCTGTAGGGTAG
1 AATTA-CTGAAATACCCCTGTAGGGTAG
*
46621338 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
46621365 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
46621392 AAATACCG-AATA-CCC-GTGGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
46621416 AATTA
1 AATTA
46621421 TCGAGATACC
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
24 12 0.09
25 3 0.02
26 26 0.19
27 75 0.54
28 22 0.16
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:46621335 original size:55 final size:53
Alignment explanation
Indices: 46621230--46621431 Score: 232
Period size: 55 Copynumber: 3.8 Consensus size: 53
46621220 TTGATTGTGA
* * * *
46621230 AATTACTGAAATACCCCTGTAGGGTAGAGTTTTCAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTATCAAATACCCCTGTAGGGTAG
* * *
46621283 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTATC--AAATACCCCTGTAGGGTAG
46621338 AATTA-TCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTATC-AAATACCCCTGTAGGGTAG
* * * *
46621392 AAATACCG-AATACCC--GTGGGGTAGAATTATCGAGATACCC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTATC-AAATACCC
46621432 TTGTGAGTAA
Statistics
Matches: 130, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
51 23 0.18
53 35 0.27
54 25 0.19
55 47 0.36
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (53 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTATCAAATACCCCTGTAGGGTAG
Found at i:46621368 original size:82 final size:80
Alignment explanation
Indices: 46621238--46621435 Score: 242
Period size: 82 Copynumber: 2.5 Consensus size: 80
46621228 GAAATTACTG
* * * * *
46621238 AAATACCCCTGTAGGGTAGAGTTTTC-AAATACCCCTATAGGGTAGAATTA-CTGAAATACCCTT
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTATC-GAAATACCCCT
*
46621301 ATAGGATAGAATTACC
65 ATAGGATAGAAATACC
46621317 AAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCC
1 --AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCC
* *
46621382 TGTAGGGTAGAAATACC
64 TATAGGATAGAAATACC
* * *
46621399 GAATA-CCC-GTGGGGTAGAATTATCGAGATACCCTTGT
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGT
46621436 GAGTAAAATT
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
78 27 0.26
79 3 0.03
80 4 0.04
81 24 0.23
82 45 0.43
83 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (80 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTA
TAGGATAGAAATACC
Found at i:46621679 original size:26 final size:25
Alignment explanation
Indices: 46621643--46621703 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
46621633 CGGAGGAAGC
46621643 GTTCTGGTGGCT-AGCCACAAATATCT
1 GTTCTGGTGGCTCAG-CAC-AATATCT
*
46621669 GTTCTGGTGGCTCTGCACAATATCT
1 GTTCTGGTGGCTCAGCACAATATCT
46621694 GTATCTGGTG
1 GT-TCTGGTG
46621704 ACTTTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 9 0.28
26 22 0.69
27 1 0.03
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.34
Consensus pattern (25 bp):
GTTCTGGTGGCTCAGCACAATATCT
Found at i:46621721 original size:27 final size:25
Alignment explanation
Indices: 46621662--46621723 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
46621652 GCTAGCCACA
*
46621662 AATATCTGTTCTGGTGGCTCTGCAC
1 AATATCTGTTCTGGTGACTCTGCAC
*
46621687 AATATCTGTATCTGGTGACTTTGTCAC
1 AATATCTGT-TCTGGTGACTCTG-CAC
*
46621714 GATATCTGTT
1 AATATCTGTT
46621724 TTGGCAGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.28
26 12 0.38
27 11 0.34
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (25 bp):
AATATCTGTTCTGGTGACTCTGCAC
Found at i:46621854 original size:6 final size:6
Alignment explanation
Indices: 46621845--46621946 Score: 102
Period size: 6 Copynumber: 16.8 Consensus size: 6
46621835 TTGTATTCAC
* * *
46621845 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
46621894 -TTACTA ATTTTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
46621942 ATTCT
1 ATTCT
46621947 CATTTTGGTT
Statistics
Matches: 79, Mismatches: 10, Indels: 14
0.77 0.10 0.14
Matches are distributed among these distances:
5 5 0.06
6 67 0.85
7 6 0.08
8 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:46621967 original size:30 final size:30
Alignment explanation
Indices: 46621845--46621946 Score: 159
Period size: 30 Copynumber: 3.4 Consensus size: 30
46621835 TTGTATTCAC
*
46621845 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
* *
46621876 ATTCTAATTCTGATTCTGTTACTAATTTTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
46621906 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
46621936 ATTCTGATTCT
1 ATTCTGATTCT
46621947 CATTTTGGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
30 45 0.69
31 20 0.31
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:46623936 original size:27 final size:27
Alignment explanation
Indices: 46623901--46624377 Score: 500
Period size: 27 Copynumber: 17.7 Consensus size: 27
46623891 AGTTTGCCAC
* *
46623901 TTACTGTTTTACCCTCGATTTATAGAA
1 TTACCGTTTTACCCTCGATTTACAGAA
**
46623928 TTACCGTTTTACCCTCGATTTGTA-AA
1 TTACCGTTTTACCCTCGATTTACAGAA
*
46623954 TTACCGTTTTACCCTCGATTTATAGAA
1 TTACCGTTTTACCCTCGATTTACAGAA
* ** *
46623981 TTACCGTTTTACCCTTGATTTGTAAAA
1 TTACCGTTTTACCCTCGATTTACAGAA
*
46624008 TTACCGTTTTACCCTCGATTTACATAA
1 TTACCGTTTTACCCTCGATTTACAGAA
46624035 TTACCGTTTTACCCTC-AGTTTACAGAA
1 TTACCGTTTTACCCTCGA-TTTACAGAA
* *
46624062 TTACCATTTTACGCTCGATTTACAGAA
1 TTACCGTTTTACCCTCGATTTACAGAA
46624089 TTACCGTTTTACCCTC-AGTTTACAGAA
1 TTACCGTTTTACCCTCGA-TTTACAGAA
46624116 TTACCGTTTTACCCTCGATTTACAGAA
1 TTACCGTTTTACCCTCGATTTACAGAA
*
46624143 TTACCGTTTTACCCTC-AGTTTACAAAA
1 TTACCGTTTTACCCTCGA-TTTACAGAA
* * * ** *
46624170 TTATCTTTTTACCCTTGATTTGTAAAA
1 TTACCGTTTTACCCTCGATTTACAGAA
** *
46624197 TTACTATTTTACCCTTGATTTACAGAA
1 TTACCGTTTTACCCTCGATTTACAGAA
* * * *
46624224 TTACTGGTTTACCATC-AGTTTACAAAA
1 TTACCGTTTTACCCTCGA-TTTACAGAA
* ** *
46624251 TTATCGTTTTACCCTCGATTTGTAAAA
1 TTACCGTTTTACCCTCGATTTACAGAA
** *
46624278 TTACTATTTTACCCTTGATTTACAGAA
1 TTACCGTTTTACCCTCGATTTACAGAA
* * * *
46624305 CTACTGGTTTACCCTC-AGTTTACAAAA
1 TTACCGTTTTACCCTCGA-TTTACAGAA
* *
46624332 TTATCGTTTTA-CCTCGATTTACAAAA
1 TTACCGTTTTACCCTCGATTTACAGAA
*
46624358 TTACCGTTTTACCCTTGATT
1 TTACCGTTTTACCCTCGATT
46624378 GTGAAATTAC
Statistics
Matches: 382, Mismatches: 56, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
26 53 0.14
27 325 0.85
28 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
TTACCGTTTTACCCTCGATTTACAGAA
Found at i:46624419 original size:27 final size:27
Alignment explanation
Indices: 46624382--46624576 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
46624372 TTGATTGTGA
*
46624382 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
46624409 AGTTTTCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
46624436 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
46624463 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
46624490 AATTATCGAAATACCCTTGTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46624516 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
46624543 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
46624570 AATTACC
1 AATTACC
46624577 ATTTTGCCCC
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 23 0.16
27 119 0.84
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:46624559 original size:80 final size:81
Alignment explanation
Indices: 46624382--46624574 Score: 253
Period size: 80 Copynumber: 2.4 Consensus size: 81
46624372 TTGATTGTGA
* * * * * *
46624382 AATTACTGAAATACCCCTGTAGGGTAGAGTTTTCGAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAAATACCGAAA
*
46624447 TACCCTTATAGGATAG
66 TACCCCTATAGGATAG
* *
46624463 AATTACCAAAATACCCTTGTAGGGTAGAATTATCGAAATACCCTTGTA-GGTAGAAATACCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAAATACCGAAA
* *
46624527 TACCCCTGTAGGGTAG
66 TACCCCTATAGGATAG
* * *
46624543 AATTACCGAGATACCCTTGTGGGGTAAAATTA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTA
46624575 CCATTTTGCC
Statistics
Matches: 97, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 55 0.57
81 42 0.43
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (81 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAAATACCGAAA
TACCCCTATAGGATAG
Found at i:46624813 original size:27 final size:26
Alignment explanation
Indices: 46624775--46624861 Score: 120
Period size: 27 Copynumber: 3.3 Consensus size: 26
46624765 CGGAGGAAGC
*
46624775 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
46624802 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
46624828 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
46624855 GTTCTGG
1 GTTCTGG
46624862 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 14 0.25
27 41 0.75
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:46624988 original size:6 final size:6
Alignment explanation
Indices: 46624979--46625086 Score: 80
Period size: 6 Copynumber: 17.8 Consensus size: 6
46624969 TTGCATTCAC
* * * *
46624979 ATTCTG ATTCTG ACTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG
* * *
46625028 ATTCTG -TTGTTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTA
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
46625076 ATTCTG ATTCT
1 ATTCTG ATTCT
46625087 CATTTTGGTT
Statistics
Matches: 80, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 6 0.08
6 67 0.84
7 5 0.06
8 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:46625031 original size:12 final size:12
Alignment explanation
Indices: 46625010--46625107 Score: 76
Period size: 12 Copynumber: 8.2 Consensus size: 12
46625000 CTGTCACGTA
*
46625010 ATTCTGATTCTG
1 ATTCTAATTCTG
46625022 ATTCTAATTCTG
1 ATTCTAATTCTG
*
46625034 -TTGTTAATAT-TG
1 ATT-CTAAT-TCTG
*
46625046 ATTCTGATTCTG
1 ATTCTAATTCTG
*
46625058 ATTCT-GTTACTG
1 ATTCTAATT-CTG
46625070 ATTCTAATTCTG
1 ATTCTAATTCTG
* *
46625082 ATTCTCATTTTG
1 ATTCTAATTCTG
* *
46625094 GTTCCAATTCTG
1 ATTCTAATTCTG
46625106 AT
1 AT
46625108 AATGTTTCTT
Statistics
Matches: 67, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
11 5 0.07
12 57 0.85
13 5 0.07
ACGTcount: A:0.20, C:0.15, G:0.13, T:0.51
Consensus pattern (12 bp):
ATTCTAATTCTG
Found at i:46625080 original size:30 final size:30
Alignment explanation
Indices: 46624979--46625086 Score: 128
Period size: 30 Copynumber: 3.6 Consensus size: 30
46624969 TTGCATTCAC
* *
46624979 ATTCTGATTCTGACTCTGATTCTGTCACGTA
1 ATTCTGATTCTGATTCTGATTCTGTTAC-TA
* **
46625010 ATTCTGATTCTGATTCTAATTCTGTTGTTA
1 ATTCTGATTCTGATTCTGATTCTGTTACTA
*
46625040 ATAT-TGATTCTGATTCTGATTCTGTTACTG
1 AT-TCTGATTCTGATTCTGATTCTGTTACTA
*
46625070 ATTCTAATTCTGATTCT
1 ATTCTGATTCTGATTCT
46625087 CATTTTGGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
29 1 0.02
30 40 0.62
31 24 0.37
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGATTCTGTTACTA
Found at i:46627618 original size:40 final size:40
Alignment explanation
Indices: 46627552--46627701 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
46627542 AAATTGAATG
* * *
46627552 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
46627591 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
46627631 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
*
46627671 CTATCCGGGCTAAGACCCGAAGGC-ATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
46627702 ACTGTGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 20 0.22
40 72 0.78
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46630280 original size:40 final size:39
Alignment explanation
Indices: 46630169--46630319 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
46630159 TTAATCACGT
* * *
46630169 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
46630209 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
46630249 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
46630289 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
46630320 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:46630303 original size:80 final size:79
Alignment explanation
Indices: 46630169--46630319 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
46630159 TTAATCACGT
*
46630169 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
46630234 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
46630249 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
46630312 CCGGATAT
64 CCGGATAT
46630320 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:46634831 original size:40 final size:40
Alignment explanation
Indices: 46634752--46634928 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
46634742 CGGATGATAA
* * * *
46634752 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
46634792 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
46634832 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
46634872 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
46634912 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
46634929 ATACTTGGGT
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.12
40 102 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:46644161 original size:40 final size:39
Alignment explanation
Indices: 46644034--46644200 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 39
46644024 CGGAATATAA
*
46644034 CCGGATATAATC-ACGT-GCACAAATGCCTTCAGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* * *
46644074 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
* * *
46644114 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * *
46644154 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
46644193 CCGGATAT
1 CCGGATAT
46644201 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 16 0.15
40 90 0.85
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:46646372 original size:26 final size:26
Alignment explanation
Indices: 46646336--46646443 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
46646326 TGAAATTCCC
*
46646336 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
46646362 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
46646388 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
46646414 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
46646440 ATCA
1 ATCA
46646444 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:46648181 original size:42 final size:40
Alignment explanation
Indices: 46648121--46648250 Score: 120
Period size: 39 Copynumber: 3.2 Consensus size: 40
46648111 GGGCCATGAG
* ** ** *
46648121 CCTAGCAGGCATAATGCCGGTGAATGAGTTTCAGACTTAATG
1 CCTAGCAGGCCTCGTGCCGGTGAAT-AAATTCAG-CTTAATA
* * *
46648163 TCTAGCAGGCCTCGTGCCGGTG-ATAAATTCAGGTTTATA
1 CCTAGCAGGCCTCGTGCCGGTGAATAAATTCAGCTTAATA
* * *
46648202 CCTAGCAGGCCTCGTGCCGGTG-ATAAGTTCAGGTTTATA
1 CCTAGCAGGCCTCGTGCCGGTGAATAAATTCAGCTTAATA
46648241 CCTAGCAGGC
1 CCTAGCAGGC
46648251 TAATTACTGG
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 51 0.66
40 6 0.08
41 2 0.03
42 18 0.23
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCTAGCAGGCCTCGTGCCGGTGAATAAATTCAGCTTAATA
Found at i:46648214 original size:39 final size:39
Alignment explanation
Indices: 46648164--46648250 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
46648154 GACTTAATGT
46648164 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
*
46648203 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
46648242 CTAGCAGGC
1 CTAGCAGGC
46648251 TAATTACTGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:46655809 original size:42 final size:40
Alignment explanation
Indices: 46655763--46655861 Score: 112
Period size: 39 Copynumber: 2.5 Consensus size: 40
46655753 GCAGGCATAA
* ** *
46655763 TGCCGGTGAATGAGTTTCAGACTTAATGTCTAGTAGGCCTTG
1 TGCCGGTGAATAAG-TTCAG-CTTAATACCTAGTAGGCCTCG
* *
46655805 TGCCGGTG-ATAAGTTCAGGTTTATACCTAGTAGGCCTCG
1 TGCCGGTGAATAAGTTCAGCTTAATACCTAGTAGGCCTCG
46655844 TGCCGGTG-ATAAGTTCAG
1 TGCCGGTGAATAAGTTCAG
46655862 GTTTTTACCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.67
40 5 0.10
41 4 0.08
42 8 0.16
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (40 bp):
TGCCGGTGAATAAGTTCAGCTTAATACCTAGTAGGCCTCG
Found at i:46655839 original size:39 final size:39
Alignment explanation
Indices: 46655792--46655878 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
46655782 GACTTAATGT
*
46655792 CTAGTAGGCCTTGTGCCGGTGATAAGTTCAGGTTTATAC
1 CTAGTAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
*
46655831 CTAGTAGGCCTCGTGCCGGTGATAAGTTCAGGTTTTTAC
1 CTAGTAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
*
46655870 CTAGCAGGC
1 CTAGTAGGC
46655879 TAATTGTCGG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.31
Consensus pattern (39 bp):
CTAGTAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
Found at i:46658318 original size:18 final size:18
Alignment explanation
Indices: 46658295--46658331 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
46658285 ACTAAATTTA
46658295 ATAGTATGAATATTAAAT
1 ATAGTATGAATATTAAAT
46658313 ATAGTATGAATATTAAAT
1 ATAGTATGAATATTAAAT
46658331 A
1 A
46658332 GATTGGATTT
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:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (18 bp):
ATAGTATGAATATTAAAT
Found at i:46666072 original size:27 final size:26
Alignment explanation
Indices: 46666042--46666100 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
46666032 GCCACCTATG
46666042 AGCCAAAAAGAACAGTCACTTGAAGGA
1 AGCCAAAAA-AACAGTCACTTGAAGGA
* * *
46666069 AGCCAACAAAATAGTCACTTGAAGGG
1 AGCCAAAAAAACAGTCACTTGAAGGA
46666095 AGCCAA
1 AGCCAA
46666101 CAAACACCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (26 bp):
AGCCAAAAAAACAGTCACTTGAAGGA
Found at i:46666086 original size:26 final size:26
Alignment explanation
Indices: 46666055--46666104 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
46666045 CAAAAAGAAC
46666055 AGTCACTTGAAGGAAGCCAACAAAAT
1 AGTCACTTGAAGGAAGCCAACAAAAT
*
46666081 AGTCACTTGAAGGGAGCCAACAAA
1 AGTCACTTGAAGGAAGCCAACAAA
46666105 CACCACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (26 bp):
AGTCACTTGAAGGAAGCCAACAAAAT
Found at i:46669118 original size:45 final size:45
Alignment explanation
Indices: 46669061--46669420 Score: 317
Period size: 45 Copynumber: 7.6 Consensus size: 45
46669051 TATGAGAGCT
* *
46669061 AGTGTAAAACCATGTCTGGGACATGGCATCGGCTTGATATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGCC
* * * *
46669106 AATGTAAGACCATGTCTGGGACATGGCATCAGCATCGATAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAT--AT--GTGCC
* * *
46669156 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTTGAGATATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTT--GATAT--GTGCC
* *
46669206 AGTGTAAGACCATGTCAGGGACATGGCATCGGCTTGATATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGCC
* *
46669251 AGTGTAAGACCATGTCCGGGACATGGCATCGGCTTGATATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGCC
* * *
46669296 AGTGTAAGACCATCTCTGGGACATGGCATCCG-TACTGATAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCT--TGAT--AT--GTGCC
* * * * * *
46669346 AATGTAAGACCATTTTTGGGACATGGCATCGACTTTAGTGTGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGA-TATGT--GCC
** *
46669394 AACGTAAGACCATGTCCGGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
46669421 GTCAGCACCT
Statistics
Matches: 263, Mismatches: 34, Indels: 33
0.80 0.10 0.10
Matches are distributed among these distances:
44 1 0.00
45 105 0.40
46 9 0.03
47 5 0.02
48 31 0.12
49 5 0.02
50 102 0.39
51 2 0.01
52 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGCC
Found at i:46669352 original size:95 final size:94
Alignment explanation
Indices: 46669052--46669376 Score: 383
Period size: 95 Copynumber: 3.4 Consensus size: 94
46669042 CTAGGGAGAT
* * *
46669052 ATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAATGTAAGACC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
*
46669117 ATGTCTGGGACATGGCATCAG-CATCGATAG
66 ATGTCTGGGACATGGCATCCGAC-T-GATAG
* * *
46669147 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTTGAGATATGAGAGCTAGTGTA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTT--GATATGTG-TC-AGTGTA
* *
46669212 AGACCATGTCAGGGACATGGCAT-CGGCT--T-G
61 AGACCATGTCTGGGACATGGCATCCGACTGATAG
* * *
46669242 AT-ATGTGTCAGTGTAAGACCATGTCCGGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGAC
1 ATGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGAC
*
46669306 CATCTCTGGGACATGGCATCCGTACTGATAG
65 CATGTCTGGGACATGGCATCCG-ACTGATAG
* * *
46669337 ATGAGAGCCAATGTAAGACCATTTTTGGGACATGGCATCG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
46669377 ACTTTAGTGT
Statistics
Matches: 194, Mismatches: 23, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
90 27 0.14
91 3 0.02
92 9 0.05
94 5 0.03
95 107 0.55
96 5 0.03
98 7 0.04
99 3 0.02
100 28 0.14
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (94 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
ATGTCTGGGACATGGCATCCGACTGATAG
Found at i:46670841 original size:54 final size:54
Alignment explanation
Indices: 46670783--46670890 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
46670773 ATTATGATAC
*
46670783 GTGTTAACATGATTAGCCAAATGTATTGGCCTATATTAAGTTATTTGTATATGG
1 GTGTTAACATGATTAGCCAAATGTATTGACCTATATTAAGTTATTTGTATATGG
*
46670837 GTGTTAACATGATTAGCCAAATGTATTGACCTATATTGAGTTATTTGTATATGG
1 GTGTTAACATGATTAGCCAAATGTATTGACCTATATTAAGTTATTTGTATATGG
46670891 CCATGAAGGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GTGTTAACATGATTAGCCAAATGTATTGACCTATATTAAGTTATTTGTATATGG
Found at i:46671599 original size:34 final size:34
Alignment explanation
Indices: 46671561--46671634 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
46671551 TTAGCCCCTC
46671561 TTTCAGCAGCAGTAACAGTCTGGGCCTAAGCCCA
1 TTTCAGCAGCAGTAACAGTCTGGGCCTAAGCCCA
* * ** *
46671595 TTTCAGTATCAGTGGCAGTCTGGGCCTCAGCCCA
1 TTTCAGCAGCAGTAACAGTCTGGGCCTAAGCCCA
46671629 TTTCAG
1 TTTCAG
46671635 AATGGTATGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (34 bp):
TTTCAGCAGCAGTAACAGTCTGGGCCTAAGCCCA
Found at i:46673974 original size:39 final size:39
Alignment explanation
Indices: 46673922--46674081 Score: 239
Period size: 39 Copynumber: 4.1 Consensus size: 39
46673912 AATTATATTA
* * *
46673922 CCAGCACAAAGCCTGCGGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* *
46673961 CCTGCACGAAGCCTACGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* *
46674000 CCAGCACGAAACCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* *
46674039 CCAGCACGAAGCCTACGGGATTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
46674078 CCAG
1 CCAG
46674082 TATCTTGCAT
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
Found at i:46681443 original size:80 final size:80
Alignment explanation
Indices: 46681359--46681507 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
46681349 TATGGTAACC
* * * *
46681359 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
46681423 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
46681439 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
46681504 CCGG
66 CCGG
46681508 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:46681449 original size:40 final size:38
Alignment explanation
Indices: 46681400--46681507 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
46681390 ATCACGATTT
*
46681400 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
46681440 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
46681480 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
46681508 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:46689192 original size:248 final size:250
Alignment explanation
Indices: 46688740--46689238 Score: 779
Period size: 248 Copynumber: 2.0 Consensus size: 250
46688730 GTCGCCAAAT
** * * * *
46688740 TTTCAATGTGAATACAATAGCGGCCAATTCTAAATCGTGCGTCAGATAGTTTTTTTCATGCGGTT
1 TTTCAATACGAATACAATAGCGGCCAATTCTAAATCATGCGTCAAATAGTTTCTTT-ATGCAGTT
*
46688805 TCAACTGTCTGGAGGCATAAGCTATAACTTTTCCTTCTTGCATCAAAACGCAACCCAAACCATTC
65 TCAACTATCTGGAGGCATAAGCTATAACTTTTCCTTCTTGCATCAAAACGCAACCCAAACCATTC
* * *
46688870 ATTGACATGTCGCTATAAATCACAAACTCTTTACCCAACTCAGGTTGAACCAAGACTGGTGCTTC
130 AATGACACGTCACTATAAATCACAAACTCTTTACCCAACTCAGGTTGAACCAAGACTGGTGCTTC
* *
46688935 GGTTAACAATGCTTTCAATTGATCGAAACTCTGTTGACGTTTCTCAGACCATTCAA
195 GGCTAACAATGCTTTCAATTGATCGAAACTCTGTTGACGTTTCTCAGACCACTCAA
*
46688991 TTTCAATACGAATACAATAGCGGCCAATTCTAAATCATGCGTCAAATAG-TTCTTT-TGTAGTTT
1 TTTCAATACGAATACAATAGCGGCCAATTCTAAATCATGCGTCAAATAGTTTCTTTATGCAGTTT
* * *
46689054 TAACTATTTGGAGGCATCAGCTATAACTTTTCCTTCTTGCATCAAAACGCAACCCAAACCATTCA
66 CAACTATCTGGAGGCATAAGCTATAACTTTTCCTTCTTGCATCAAAACGCAACCCAAACCATTCA
* *
46689119 ATGACGCGTCACTATAAATCACAAACTCTTTACCCGAA-TCAGGTTGAACCAAGACTGGTGTTTC
131 ATGACACGTCACTATAAATCACAAACTCTTTACCC-AACTCAGGTTGAACCAAGACTGGTGCTTC
* *
46689183 GGCTAACAATGCTTTCAATTGATCGAAACTCTGTTGATGTTTCTCGGACCACTCAA
195 GGCTAACAATGCTTTCAATTGATCGAAACTCTGTTGACGTTTCTCAGACCACTCAA
46689239 ATTTTCCATC
Statistics
Matches: 227, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
248 175 0.77
249 2 0.01
250 5 0.02
251 45 0.20
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (250 bp):
TTTCAATACGAATACAATAGCGGCCAATTCTAAATCATGCGTCAAATAGTTTCTTTATGCAGTTT
CAACTATCTGGAGGCATAAGCTATAACTTTTCCTTCTTGCATCAAAACGCAACCCAAACCATTCA
ATGACACGTCACTATAAATCACAAACTCTTTACCCAACTCAGGTTGAACCAAGACTGGTGCTTCG
GCTAACAATGCTTTCAATTGATCGAAACTCTGTTGACGTTTCTCAGACCACTCAA
Found at i:46690940 original size:14 final size:14
Alignment explanation
Indices: 46690921--46690947 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46690911 TTAACATTCA
46690921 GATCTATAATTTCG
1 GATCTATAATTTCG
46690935 GATCTATAATTTC
1 GATCTATAATTTC
46690948 TCACACATTC
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:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (14 bp):
GATCTATAATTTCG
Found at i:46694274 original size:21 final size:20
Alignment explanation
Indices: 46694246--46694284 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
46694236 CAAAACTTGT
46694246 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
46694266 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
46694285 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:46695266 original size:22 final size:22
Alignment explanation
Indices: 46695241--46695288 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
46695231 AAAACAGAGA
46695241 TTCAGAATATTTACAAGCAAAT
1 TTCAGAATATTTACAAGCAAAT
*
46695263 TTCAGCATATTTACAAGCAAAT
1 TTCAGAATATTTACAAGCAAAT
46695285 TTCA
1 TTCA
46695289 CATTCAAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (22 bp):
TTCAGAATATTTACAAGCAAAT
Found at i:46695281 original size:12 final size:12
Alignment explanation
Indices: 46695249--46695286 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
46695239 GATTCAGAAT
46695249 ATTTACAAGCAA
1 ATTTACAAGCAA
*
46695261 ATTT-C-AGCAT
1 ATTTACAAGCAA
46695271 ATTTACAAGCAA
1 ATTTACAAGCAA
46695283 ATTT
1 ATTT
46695287 CACATTCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 8 0.36
11 2 0.09
12 12 0.55
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (12 bp):
ATTTACAAGCAA
Found at i:46697000 original size:40 final size:40
Alignment explanation
Indices: 46696955--46697122 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
46696945 CGGAATACAA
*
46696955 CCGGATATAACCACGT-GCACGAATACCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
46696995 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
46697035 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
46697075 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
46697115 CCGGATAT
1 CCGGATAT
46697123 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 99 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:46700147 original size:56 final size:58
Alignment explanation
Indices: 46700058--46700235 Score: 177
Period size: 56 Copynumber: 3.1 Consensus size: 58
46700048 TACAAATGGC
* * * * *
46700058 GAAAATAGAGAAACAGGAAAGCATTTGAAAATGATTAAGGTTTTCTCCTAA-AT-TAAAT
1 GAAAATGGAGAAA-TGGAAAGCATTTGGAAATGATTAAGGTTTTCACC-AATATGAAAAT
*
46700116 GAAAATGGAGAAATGGAAA-CATTTGGAAATGATTATGGTTTTCACCAATATGAAAAT
1 GAAAATGGAGAAATGGAAAGCATTTGGAAATGATTAAGGTTTTCACCAATATGAAAAT
* * * * ** * *
46700173 TAAAATGG-GTAAT-GAAATCATTTGGAAATAAACATGGTTTTCACCAAAATGAAAAT
1 GAAAATGGAGAAATGGAAAGCATTTGGAAATGATTAAGGTTTTCACCAATATGAAAAT
46700229 GAAAATG
1 GAAAATG
46700236 ACCTAAAGAA
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
55 6 0.06
56 70 0.67
57 16 0.15
58 12 0.12
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.28
Consensus pattern (58 bp):
GAAAATGGAGAAATGGAAAGCATTTGGAAATGATTAAGGTTTTCACCAATATGAAAAT
Found at i:46711568 original size:93 final size:93
Alignment explanation
Indices: 46711461--46711631 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
46711451 ACCCATAAGT
* *
46711461 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46711526 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
46711554 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
46711619 CGAGTTCGGATGC
66 CGAGCTCGGATGC
46711632 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:46711628 original size:46 final size:46
Alignment explanation
Indices: 46711453--46711628 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
46711443 TGTAACCCAC
* *
46711453 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
46711499 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
46711545 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
46711592 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
46711629 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:46713728 original size:22 final size:22
Alignment explanation
Indices: 46713673--46713728 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 22
46713663 GTTTTAGGCT
* * *
46713673 TAATTTTTATTATATATGAGCTC
1 TAATTATT-TTATTTATCAGCTC
*
46713696 -AA-TATTGTATTTATCAGCTC
1 TAATTATTTTATTTATCAGCTC
46713716 TAATTATTTTATT
1 TAATTATTTTATT
46713729 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
20 11 0.42
21 5 0.19
22 10 0.38
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (22 bp):
TAATTATTTTATTTATCAGCTC
Found at i:46722261 original size:16 final size:17
Alignment explanation
Indices: 46722240--46722273 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
46722230 AATATTAGGG
*
46722240 GCAAAAGT-TTAATTTT
1 GCAAAAGTATGAATTTT
46722256 GCAAAAGTATGAATTTT
1 GCAAAAGTATGAATTTT
46722273 G
1 G
46722274 GAATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (17 bp):
GCAAAAGTATGAATTTT
Found at i:46723199 original size:20 final size:20
Alignment explanation
Indices: 46723161--46723199 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46723151 TATGACACTT
**
46723161 ATCCATATAAACAGTATTTC
1 ATCCATATAAACAACATTTC
46723181 ATCCATATAAACAACATTT
1 ATCCATATAAACAACATTT
46723200 ATGCCCGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (20 bp):
ATCCATATAAACAACATTTC
Found at i:46723419 original size:24 final size:23
Alignment explanation
Indices: 46723349--46723449 Score: 85
Period size: 23 Copynumber: 4.2 Consensus size: 23
46723339 AAGCTTTATT
* * *
46723349 GAGCTGAAACGGTAAGCTCTAAC
1 GAGCTAAAACAGTAAGCTCTTAC
*
46723372 GAGCTAAAACAGTAAGCTCATAC
1 GAGCTAAAACAGTAAGCTCTTAC
* * *
46723395 GAGCTGAGAATAGTAAACTCTTAC
1 GAGCT-AAAACAGTAAGCTCTTAC
* *
46723419 GAGCTAATATATCGGTAAGCTCATAC
1 GAGCTAA-A-A-CAGTAAGCTCTTAC
46723445 GAGCT
1 GAGCT
46723450 GTGGTGAGTC
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
23 25 0.41
24 20 0.33
25 1 0.02
26 15 0.25
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (23 bp):
GAGCTAAAACAGTAAGCTCTTAC
Found at i:46728130 original size:40 final size:40
Alignment explanation
Indices: 46728075--46728156 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
46728065 GCTACGAATT
* * *
46728075 AACATAAATACACCAAATGATCAATGAACAATCACTTTCA
1 AACATAAATAAACCAAATGATCAATAAAAAATCACTTTCA
46728115 AACATAAATAAACCAAATGATCAATAAAAAATCACTTTCA
1 AACATAAATAAACCAAATGATCAATAAAAAATCACTTTCA
46728155 AA
1 AA
46728157 TTCAACTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.55, C:0.20, G:0.04, T:0.22
Consensus pattern (40 bp):
AACATAAATAAACCAAATGATCAATAAAAAATCACTTTCA
Found at i:46728674 original size:14 final size:14
Alignment explanation
Indices: 46728646--46728696 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
46728636 TTTCTCTTTC
*
46728646 TTTTCATTACTTAAT
1 TTTTTATTAC-TAAT
46728661 TTTTTATTACTAAT
1 TTTTTATTACTAAT
* *
46728675 GTTTTATTA-TACT
1 TTTTTATTACTAAT
46728688 TATTTTATT
1 T-TTTTATT
46728697 TTTATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 3 0.10
14 19 0.61
15 9 0.29
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (14 bp):
TTTTTATTACTAAT
Found at i:46729081 original size:27 final size:27
Alignment explanation
Indices: 46729051--46729106 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
46729041 ACCTTATCGC
46729051 AAAGAAAGACACCTACGAAACAAAGCA
1 AAAGAAAGACACCTACGAAACAAAGCA
46729078 AAAGAAAGACACCTACGAAACAAAGCA
1 AAAGAAAGACACCTACGAAACAAAGCA
46729105 AA
1 AA
46729107 TGCTTGAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.61, C:0.21, G:0.14, T:0.04
Consensus pattern (27 bp):
AAAGAAAGACACCTACGAAACAAAGCA
Found at i:46729131 original size:23 final size:23
Alignment explanation
Indices: 46729101--46729148 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
46729091 TACGAAACAA
46729101 AGCAAATGCTTGAACAATTTTTT
1 AGCAAATGCTTGAACAATTTTTT
46729124 AGCAAATGCTTGAACAATTTTTT
1 AGCAAATGCTTGAACAATTTTTT
46729147 AG
1 AG
46729149 ATTGAGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (23 bp):
AGCAAATGCTTGAACAATTTTTT
Found at i:46733527 original size:43 final size:43
Alignment explanation
Indices: 46733444--46733528 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
46733434 TGGATAGTAC
* * *
46733444 CTTGTAAGTCAACATAGTCTATAGCATTTGGTATTAGAATTAG
1 CTTGTAAGTCAACATAGACTATAACATTTGGCATTAGAATTAG
* * *
46733487 CTTGTTAGTCAATATAGACTATAACTTTTGGCATCT-GAATTA
1 CTTGTAAGTCAACATAGACTATAACATTTGGCAT-TAGAATTA
46733529 ATTGTCTCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (43 bp):
CTTGTAAGTCAACATAGACTATAACATTTGGCATTAGAATTAG
Found at i:46734007 original size:15 final size:14
Alignment explanation
Indices: 46733982--46734013 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
46733972 TAGTGCAAAA
46733982 TTGATTTTTCTCTT
1 TTGATTTTTCTCTT
46733996 TTGATCTTTTCTCTT
1 TTGAT-TTTTCTCTT
46734011 TTG
1 TTG
46734014 TTAAACCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.06, C:0.16, G:0.09, T:0.69
Consensus pattern (14 bp):
TTGATTTTTCTCTT
Found at i:46735523 original size:13 final size:13
Alignment explanation
Indices: 46735505--46735547 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
46735495 TAGATTTTTC
46735505 CTAAATATTATCA
1 CTAAATATTATCA
*
46735518 CTAAATA--AT-T
1 CTAAATATTATCA
46735528 CTAAATATTATCA
1 CTAAATATTATCA
46735541 CTAAATA
1 CTAAATA
46735548 ATTCTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:46735535 original size:23 final size:23
Alignment explanation
Indices: 46735505--46735556 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
46735495 TAGATTTTTC
46735505 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
46735528 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
46735551 CTAAAT
1 CTAAAT
46735557 TTAAAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:46735569 original size:23 final size:23
Alignment explanation
Indices: 46735505--46735562 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
46735495 TAGATTTTTC
**
46735505 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAACTAAATAATT
**
46735528 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAACTAAATAATT
46735551 CTAAAT-TTAAAA
1 CTAAATATTAAAA
46735563 ATTAAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
22 4 0.12
23 29 0.88
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTAAAACTAAATAATT
Found at i:46743440 original size:10 final size:10
Alignment explanation
Indices: 46743425--46743463 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
46743415 AATATTATCA
46743425 CTAAATAATT
1 CTAAATAATT
46743435 CTAAATATTATAT
1 CTAAATA--AT-T
46743448 CTAAATAATT
1 CTAAATAATT
46743458 CTAAAT
1 CTAAAT
46743464 TTAAAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 14 0.54
11 2 0.08
12 2 0.08
13 8 0.31
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (10 bp):
CTAAATAATT
Found at i:46743442 original size:23 final size:23
Alignment explanation
Indices: 46743412--46743463 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
46743402 TAGATTTTTC
46743412 CTAAATATTATCA-CTAAATAATT
1 CTAAATATTAT-ATCTAAATAATT
46743435 CTAAATATTATATCTAAATAATT
1 CTAAATATTATATCTAAATAATT
46743458 CTAAAT
1 CTAAAT
46743464 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (23 bp):
CTAAATATTATATCTAAATAATT
Found at i:46754981 original size:27 final size:27
Alignment explanation
Indices: 46754943--46754996 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
46754933 ATGCCACAAT
46754943 CCATACTCAAACTTATTACAATCCCAA
1 CCATACTCAAACTTATTACAATCCCAA
46754970 CCATACTCAAACTTATTACAATCCCAA
1 CCATACTCAAACTTATTACAATCCCAA
46754997 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.26
Consensus pattern (27 bp):
CCATACTCAAACTTATTACAATCCCAA
Found at i:46755952 original size:4 final size:4
Alignment explanation
Indices: 46755938--46755981 Score: 70
Period size: 4 Copynumber: 11.0 Consensus size: 4
46755928 CACAATAGAC
* *
46755938 ATAT TTAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAC ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
46755982 TTTTCATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:46755952 original size:6 final size:6
Alignment explanation
Indices: 46755938--46755981 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
46755928 CACAATAGAC
* *
46755938 ATATTT ATATAT ATATAT ATATAT ATATAT ATATAT ATACAT AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT AT
46755982 TTTTCATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:46758379 original size:50 final size:50
Alignment explanation
Indices: 46758279--46758602 Score: 316
Period size: 50 Copynumber: 6.7 Consensus size: 50
46758269 GCAATGTGTA
* * *
46758279 CTAGTGTAAGA-CATGTCTGGGACAT-GCATGGGCCAC-A-TTATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* *
46758325 CTAGTGTAAGACCATATCTGGGACATGGCATCGGCCTCGAGATATGAAAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* *
46758375 CTAGTGTAAGACCATGTCTGGGACATGGCATC-GCCT--TGATAT--GTG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* * * * *
46758420 TTAGTGTAAGACCATGTCTAGGACATGGCATCAGCAC-CGACAGATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATATGAGAG
* * *
46758470 AC-AGTATAAGACTATGTCTGGGACATGGCATCGGCCTCGATATATGAGAG
1 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* * ** * *
46758520 -TCAGTGTAAGATCATGTCTGGGACATGGCATC-G-ATCTTGATGTGTGAG
1 CT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* *
46758568 CCAGTGTAAGACCATGCCTGGGACATGGCATCGGC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
46758603 ATCTTACCCT
Statistics
Matches: 227, Mismatches: 34, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
45 31 0.14
46 13 0.06
47 19 0.08
48 49 0.22
49 8 0.04
50 107 0.47
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
Found at i:46758444 original size:95 final size:95
Alignment explanation
Indices: 46758281--46758600 Score: 296
Period size: 95 Copynumber: 3.3 Consensus size: 95
46758271 AATGTGTACT
* * * * *
46758281 AGTGTAAGA-CATGTCTGGGACAT-GCATGGGCCAC-ATTATGAGAGCTAGTGTAAGACCATATC
1 AGTGTAAGACCATGTCTGGGACATGGCAT-CGCCTCGAATAT-AGAGTTAGTGTAAGACCATGTC
46758343 TGGGACATGGCATCGGCCTCGAGATATGAAAGC
64 TGGGACATGGCATCGGCCTCGAGATATG-AAGC
* *
46758376 TAGTGTAAGACCATGTCTGGGACATGGCATCGCCTTG-ATAT-GTGTTAGTGTAAGACCATGTCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAATATAGAGTTAGTGTAAGACCATGTCT
* * * *
46758439 AGGACATGGCATCAGCAC-CGACAGATGAGAGAC
65 GGGACATGGCATCGGC-CTCGAGATATGA-AG-C
* * * *
46758472 AGTATAAGACTATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTCAGTGTAAGATCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGA-ATAT-AGAGTTAGTGTAAGACCATGT
** * *
46758537 CTGGGACATGGCATCGATCTTGATG-TGTG-AGCC
63 CTGGGACATGGCATCGGCCTCGA-GATATGAAG-C
*
46758570 AGTGTAAGACCATGCCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
46758601 GCATCTTACC
Statistics
Matches: 182, Mismatches: 29, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
94 1 0.01
95 70 0.38
96 16 0.09
97 21 0.12
98 38 0.21
99 1 0.01
100 35 0.19
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAATATAGAGTTAGTGTAAGACCATGTCTG
GGACATGGCATCGGCCTCGAGATATGAAGC
Found at i:46762969 original size:25 final size:26
Alignment explanation
Indices: 46762896--46762971 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 26
46762886 ACATATATTC
* * *
46762896 TCAAAATTTTACCAAGGATAAAATTA
1 TCAAAATTTTACTAGGGATAAAATCA
* *
46762922 TCAAAAATTTTA-TCGGGGGTAAAATCA
1 TC-AAAATTTTACT-AGGGATAAAATCA
46762949 TC-AAATTTTACTAGGGATAAAAT
1 TCAAAATTTTACTAGGGATAAAAT
46762972 AGGGATGATA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
25 17 0.43
26 3 0.08
27 20 0.50
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGATAAAATCA
Found at i:46772409 original size:46 final size:46
Alignment explanation
Indices: 46772342--46772547 Score: 313
Period size: 46 Copynumber: 4.5 Consensus size: 46
46772332 GGCAACCTGA
46772342 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
46772388 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
46772434 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
46772480 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
46772526 GAGTAAGACCATAGTTGAAAGA
1 GTGTAAGACCATGGTTGAAAGA
46772548 CACTATAGCA
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 148 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:46772534 original size:138 final size:130
Alignment explanation
Indices: 46772292--46772547 Score: 350
Period size: 138 Copynumber: 1.9 Consensus size: 130
46772282 AGTGTGCTCT
*
46772292 CTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * *
46772357 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAAC
*** *
46772422 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
46772487 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
46772548 CACTATAGCA
Statistics
Matches: 108, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
130 45 0.42
132 1 0.01
133 1 0.01
136 2 0.02
138 59 0.55
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (130 bp):
CTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAAC
Found at i:46777557 original size:39 final size:39
Alignment explanation
Indices: 46777463--46777797 Score: 519
Period size: 39 Copynumber: 8.5 Consensus size: 39
46777453 ACAAAGCATG
* * * *
46777463 CGGGACTTTAAGCCCGGATATAATACCAACAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
46777503 CGGGACTTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
46777543 CGGGGCTTAACCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
46777582 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
46777621 CGGGGCTTAACCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
46777660 CGGGACTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
46777699 CGGGACTTAGCCCGGATATAACACCAGTACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
46777738 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
46777777 CAGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
46777798 TTCTCCATTA
Statistics
Matches: 273, Mismatches: 21, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 253 0.93
40 20 0.07
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:46778335 original size:110 final size:110
Alignment explanation
Indices: 46778142--46778361 Score: 422
Period size: 110 Copynumber: 2.0 Consensus size: 110
46778132 TGTGGATAGG
*
46778142 CTACTCGATTGCTTTCTCCTTTCCCTTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
46778207 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
*
46778252 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTTTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
46778317 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
46778362 AATAGTCACA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (110 bp):
CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
Found at i:46783118 original size:71 final size:72
Alignment explanation
Indices: 46782918--46783119 Score: 221
Period size: 71 Copynumber: 2.8 Consensus size: 72
46782908 AAGCTTTAGG
* * ** * * * *
46782918 GTGACAGTTAGGAGCTTTTAACTCTCCCTTACTGTTTGGAGG-GTTGCAATATTGAACCTACAAG
1 GTGACAGTTAGGAGCTTTTAACTCTCGCTAACTGTTTGG-GGAGTTGTGATCTTAAACTTGCAAG
46782982 CCTTAATA
65 CCTTAATA
* * * * ** * *
46782990 -TGATAGCTAGGAGCTTTTAACTCTCGCTAACTATTTAGGGAGTTGTGGCCTTTAACTTGCAATC
1 GTGACAGTTAGGAGCTTTTAACTCTCGCTAACTGTTTGGGGAGTTGTGATCTTAAACTTGCAAGC
46783054 CTTAA-A
66 CTTAATA
*
46783060 GTGACAGTTGGGAGCTTTTAACTCTCGCTAACTGTTTGGGGAGTTGTGATCTTAAACTTG
1 GTGACAGTTAGGAGCTTTTAACTCTCGCTAACTGTTTGGGGAGTTGTGATCTTAAACTTG
46783120 TGAGCTTTAA
Statistics
Matches: 105, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
70 3 0.03
71 102 0.97
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (72 bp):
GTGACAGTTAGGAGCTTTTAACTCTCGCTAACTGTTTGGGGAGTTGTGATCTTAAACTTGCAAGC
CTTAATA
Found at i:46787610 original size:482 final size:482
Alignment explanation
Indices: 46786704--46787667 Score: 1559
Period size: 482 Copynumber: 2.0 Consensus size: 482
46786694 TTCAAATCTA
** * * *
46786704 AGACCTGATCTGCTAACACTGTTCCCCATGAACTTTGTCTTTCAGAAAGAGGTTCCCGGGCTTGA
1 AGACCTGATCTGCTAACACTACTCCCCATGAAATTTGTCTTTCAGAAAAAAGTTCCCGGGCTTGA
** *
46786769 TTAACAGATAACATGTGGTATTGCCTTACAGTTCATTGATCTAAACACAAGAATCCAACCCCTAT
66 TTAACAGATAACATGTGCCATTGCCTTACAGTTCATTGATCTAAACACAAGAATCCAACCCCCAT
* * * *
46786834 TTTCGTTGGAAACTTGATCTTCATGTAGAATGTTGTGACCACCATCTTTTTCATCCTCATTATTG
131 TTTCATTGGAAACTTGATCTTCATGCAGAATGTTGCGACCACCATCTTTGTCATCCTCATTATTG
* * * *
46786899 GTCGTTCGAAGAGAGCATTGTATGCCATTGGGTGGTCTACTATGTAGAATTGAATATATTCTGTA
196 GTCGTCCGAAGAGAGCATTGTATGCCATTGGGTCGTCTACTACGTAGAATTGAATATATTCTGCA
*
46786964 GTTATGTGCTCGCTATCCTCTAAGGTGACTGGTATGATGACCAAACCCTTCATCTCAATAGGATG
261 GTTATGTGCTCGCTATCCTCTAAGGTGACTGGTATGATGACCAAACCCTTCATCTCAATAGGACG
*
46787029 GTTCGCAAAGTCATACAACAGACTAGCTTTAGATAATGCCTGCTCTTTCGGTCCCATCTTCTGGT
326 GTTCGCAAAGTCATACAACAGACTAGCTTTAGACAATGCCTGCTCTTTCGGTCCCATCTTCTGGT
*
46787094 ACACATCCCAAGACAACACCTCAACTACACTTCCATTGTCTATAAGTATTCTTTTAACTTTGAAA
391 ACACATCCCAAGACAACACCTCAACTACACTTCCACTGTCTATAAGTATTCTTTTAACTTTGAAA
46787159 CCTACAACTGTCGTCGAGACAATTATC
456 CCTACAACTGTCGTCGAGACAATTATC
* * *
46787186 AGACCTGATTTGCTAACACTACTCCTCATGAAATTTGTCTTTCAGAAAAAAGTTCCCTGGCTTGA
1 AGACCTGATCTGCTAACACTACTCCCCATGAAATTTGTCTTTCAGAAAAAAGTTCCCGGGCTTGA
** * * ** *
46787251 TTAACAGATAACATGTGCCATTGCCTTGTAGTTCGTTGATTTAAATGCAAGAATCTAACCCCCAT
66 TTAACAGATAACATGTGCCATTGCCTTACAGTTCATTGATCTAAACACAAGAATCCAACCCCCAT
* *
46787316 TTTTATTGGGAACTTGATCTTCATGCAGAATGTTGCGACCACCATCTTTGTCATCCTCATTATTG
131 TTTCATTGGAAACTTGATCTTCATGCAGAATGTTGCGACCACCATCTTTGTCATCCTCATTATTG
**
46787381 GTCGTCCGAAGAGAGCATTGTATGTTATTGGGTCGTCTACTACGTAGAATTGAATATATTCTGCA
196 GTCGTCCGAAGAGAGCATTGTATGCCATTGGGTCGTCTACTACGTAGAATTGAATATATTCTGCA
* * *
46787446 GTTGTGTGCTTGCTATCCTCTAAGGTGACTGGTATGATGACCAAACCTTTCATCTCAATAGGACG
261 GTTATGTGCTCGCTATCCTCTAAGGTGACTGGTATGATGACCAAACCCTTCATCTCAATAGGACG
* * *
46787511 GTTCGCAAAGTCATACAACGGACTAGCTTTAGACATTGCCTGCTTTTTCGGTCCCATCTTCTGGT
326 GTTCGCAAAGTCATACAACAGACTAGCTTTAGACAATGCCTGCTCTTTCGGTCCCATCTTCTGGT
* *
46787576 ACACATCCCAAGACAACACCTCAACTATACTTCCACTGTCTATAAGTATTCTTTTAGCTTTGAAA
391 ACACATCCCAAGACAACACCTCAACTACACTTCCACTGTCTATAAGTATTCTTTTAACTTTGAAA
46787641 CCTACAACTGTCGTCGAGACAATTATC
456 CCTACAACTGTCGTCGAGACAATTATC
46787668 GAGTCATTAC
Statistics
Matches: 441, Mismatches: 41, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
482 441 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (482 bp):
AGACCTGATCTGCTAACACTACTCCCCATGAAATTTGTCTTTCAGAAAAAAGTTCCCGGGCTTGA
TTAACAGATAACATGTGCCATTGCCTTACAGTTCATTGATCTAAACACAAGAATCCAACCCCCAT
TTTCATTGGAAACTTGATCTTCATGCAGAATGTTGCGACCACCATCTTTGTCATCCTCATTATTG
GTCGTCCGAAGAGAGCATTGTATGCCATTGGGTCGTCTACTACGTAGAATTGAATATATTCTGCA
GTTATGTGCTCGCTATCCTCTAAGGTGACTGGTATGATGACCAAACCCTTCATCTCAATAGGACG
GTTCGCAAAGTCATACAACAGACTAGCTTTAGACAATGCCTGCTCTTTCGGTCCCATCTTCTGGT
ACACATCCCAAGACAACACCTCAACTACACTTCCACTGTCTATAAGTATTCTTTTAACTTTGAAA
CCTACAACTGTCGTCGAGACAATTATC
Found at i:46790563 original size:40 final size:43
Alignment explanation
Indices: 46790503--46790586 Score: 120
Period size: 41 Copynumber: 2.0 Consensus size: 43
46790493 AAAATGTTTT
* **
46790503 AAAATAAATTTTAT-ACTTTTTAATGATTTT-AATTTTTAAAA
1 AAAATAAATTTTATAATTTTTTAACAATTTTAAATTTTTAAAA
46790544 AAAAT-AATTTTATAATTTTTTAACAATTTTAAATTTTTAAAA
1 AAAATAAATTTTATAATTTTTTAACAATTTTAAATTTTTAAAA
46790586 A
1 A
46790587 TTAATTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 8 0.21
41 18 0.47
42 12 0.32
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (43 bp):
AAAATAAATTTTATAATTTTTTAACAATTTTAAATTTTTAAAA
Found at i:46790582 original size:17 final size:19
Alignment explanation
Indices: 46790549--46790588 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
46790539 TAAAAAAAAT
*
46790549 AATTTTATAATTTTTTAAC
1 AATTTTATAATTTTTTAAA
46790568 AATTTTA-AA-TTTTTAAA
1 AATTTTATAATTTTTTAAA
46790585 AATT
1 AATT
46790589 AATTAAATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 2 0.10
19 7 0.35
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTATAATTTTTTAAA
Found at i:46790592 original size:40 final size:39
Alignment explanation
Indices: 46790494--46790592 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 39
46790484 AATATTTAAA
* **
46790494 AAATGTTTT-AAAATAAATTTTATACTTTTTAATGATTTT
1 AAAT-TTTTAAAAATTAATTTTATACTTTTTAACAATTTT
* *
46790533 -AATTTTTAAAAAAAATAATTTTATAATTTTTTAACAATTTT
1 AAATTTTT--AAAAATTAATTTTAT-ACTTTTTAACAATTTT
46790574 AAATTTTTAAAAATTAATT
1 AAATTTTTAAAAATTAATT
46790593 AAATGCTGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
37 4 0.08
38 3 0.06
40 22 0.45
41 13 0.27
42 7 0.14
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (39 bp):
AAATTTTTAAAAATTAATTTTATACTTTTTAACAATTTT
Found at i:46792876 original size:1 final size:1
Alignment explanation
Indices: 46792834--46792858 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
46792824 AGGCTCGAAG
46792834 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
46792859 ACTATTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:46795042 original size:12 final size:12
Alignment explanation
Indices: 46795025--46795049 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46795015 GGACCTCCTT
46795025 TTTTTTTTTTTC
1 TTTTTTTTTTTC
46795037 TTTTTTTTTTTC
1 TTTTTTTTTTTC
46795049 T
1 T
46795050 GTAAAGTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:46795613 original size:15 final size:16
Alignment explanation
Indices: 46795588--46795619 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
46795578 GGTTGAATTT
46795588 AAATAATTTTTTTTAA
1 AAATAATTTTTTTTAA
46795604 AAAT-ATTTTTTTTAA
1 AAATAATTTTTTTTAA
46795619 A
1 A
46795620 GTTAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AAATAATTTTTTTTAA
Found at i:46805703 original size:40 final size:40
Alignment explanation
Indices: 46805611--46805760 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
46805601 AATTGAATGA
* * * *
46805611 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAAT-T
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
46805650 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
46805691 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
46805730 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
46805761 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 54 0.59
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:46805774 original size:40 final size:40
Alignment explanation
Indices: 46805650--46805776 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
46805640 GCTGGAAATT
* * * * *
46805650 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
46805690 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
46805730 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
46805770 TATCCGG
1 TATCCGG
46805777 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:46808514 original size:23 final size:23
Alignment explanation
Indices: 46808484--46808530 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
46808474 GCTTGTAATC
46808484 GAGCATTTTATGCTATTTTCATA
1 GAGCATTTTATGCTATTTTCATA
46808507 GAGCATTTTATGCTATTTTCATA
1 GAGCATTTTATGCTATTTTCATA
46808530 G
1 G
46808531 TTTTATCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.47
Consensus pattern (23 bp):
GAGCATTTTATGCTATTTTCATA
Found at i:46809474 original size:18 final size:18
Alignment explanation
Indices: 46809437--46809474 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
46809427 ACAAACTCAA
*
46809437 ATTTTTTAAATTTAATAT
1 ATTTTTTAAATTTAAAAT
46809455 ATTTTTT-AATTTCAAAAT
1 ATTTTTTAAATTT-AAAAT
46809473 AT
1 AT
46809475 ATGGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTTAAATTTAAAAT
Found at i:46811357 original size:46 final size:46
Alignment explanation
Indices: 46811307--46811482 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
46811297 TGGTTGAGCA
46811307 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
46811353 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
46811398 CATCCAAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
46811446 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46811483 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 61 0.58
47 27 0.25
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46811463 original size:93 final size:93
Alignment explanation
Indices: 46811304--46811474 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
46811294 GGATGGTTGA
* *
46811304 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
46811369 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
46811397 GCATCCAAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
46811461 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
46811475 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:46816194 original size:26 final size:26
Alignment explanation
Indices: 46816165--46816214 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
46816155 TCTCATCCCT
*
46816165 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCATAGTAAAATTTTGACG
*
46816191 ATTTTACCCATGGTAAAATTTTGA
1 ATTTTACCCATAGTAAAATTTTGA
46816215 AAATATGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (26 bp):
ATTTTACCCATAGTAAAATTTTGACG
Found at i:46821029 original size:80 final size:80
Alignment explanation
Indices: 46820945--46821093 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
46820935 TATGGTAACC
* * * *
46820945 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
46821009 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
46821025 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
46821090 CCGG
66 CCGG
46821094 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:46821035 original size:40 final size:38
Alignment explanation
Indices: 46820986--46821093 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
46820976 ATCACGATTT
*
46820986 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
46821026 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
46821066 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
46821094 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:46829642 original size:30 final size:30
Alignment explanation
Indices: 46829606--46829706 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
46829596 GACAAGATTG
* * *
46829606 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
46829636 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
46829664 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
46829693 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46829707 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:46829718 original size:29 final size:28
Alignment explanation
Indices: 46829635--46829710 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
46829625 AAAATTGTAC
* *
46829635 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
46829663 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
46829692 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
46829711 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:46832210 original size:80 final size:80
Alignment explanation
Indices: 46832126--46832274 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
46832116 TATGGTAACC
* * * *
46832126 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
46832190 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
46832206 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
46832271 CCGG
66 CCGG
46832275 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:46832216 original size:40 final size:38
Alignment explanation
Indices: 46832167--46832274 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
46832157 ATCACGATTT
*
46832167 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
46832207 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
46832247 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
46832275 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:46840260 original size:40 final size:40
Alignment explanation
Indices: 46840201--46840369 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
46840191 CGGGACTTTA
* * *
46840201 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
46840241 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
46840281 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
46840321 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
46840361 CCCGGATAT
1 CCCGGATAT
46840370 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Done.