Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 176 of 203
Found at i:55933399 original size:37 final size:36
Alignment explanation
Indices: 55933346--55933448 Score: 143
Period size: 37 Copynumber: 2.8 Consensus size: 36
55933336 TGAATAGTCC
*
55933346 CCACACGTAGTTATCGGCTCTTACCCGGACAAAACCT
1 CCACACGTAGTCATCGG-TCTTACCCGGACAAAACCT
* *
55933383 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATC-GGTCTTACCCGGACAAAACCT
*
55933420 CCACACGTAGTCATCAGGACTTACCCGGA
1 CCACACGTAGTCATC-GGTCTTACCCGGA
55933449 ATATATTTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 58 0.97
38 2 0.03
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.21
Consensus pattern (36 bp):
CCACACGTAGTCATCGGTCTTACCCGGACAAAACCT
Found at i:55933647 original size:48 final size:48
Alignment explanation
Indices: 55933589--55933761 Score: 319
Period size: 48 Copynumber: 3.6 Consensus size: 48
55933579 ATATACACAC
*
55933589 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55933637 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55933685 ATCTCATACATATTTCACACTAGACATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55933733 ATCTCATTCATATTTCACACTAGCCATTC
1 ATCTCATACATATTTCACACTAGCCATTC
55933762 CGTCGTATAA
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 121 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:55933874 original size:37 final size:36
Alignment explanation
Indices: 55933821--55933923 Score: 143
Period size: 37 Copynumber: 2.8 Consensus size: 36
55933811 TGAATAGTCC
*
55933821 CCACACGTAGTTATCGGCTCTTACCCGGACAAAACCT
1 CCACACGTAGTCATCGG-TCTTACCCGGACAAAACCT
* *
55933858 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATC-GGTCTTACCCGGACAAAACCT
*
55933895 CCACACGTAGTCATCAGGACTTACCCGGA
1 CCACACGTAGTCATC-GGTCTTACCCGGA
55933924 ATATATTTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 58 0.97
38 2 0.03
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.21
Consensus pattern (36 bp):
CCACACGTAGTCATCGGTCTTACCCGGACAAAACCT
Found at i:55934101 original size:48 final size:48
Alignment explanation
Indices: 55934047--55934296 Score: 410
Period size: 48 Copynumber: 5.2 Consensus size: 48
55934037 TTGGTCAATC
55934047 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG
1 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG
* *
55934095 CTTTACCACATATGCATATCTCATACATATTTCACAGTAGCCATTCGG
1 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG
* * * * *
55934143 TTTTACCACATATACTTATCACATACATATTTCACATTAGCCATTCTG
1 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG
55934191 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG
1 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG
* * *
55934239 CTTTACCACTTATACATATCTCATATATATTTCACATTAGCCATTCGG
1 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG
55934287 CTTTACCACA
1 CTTTACCACA
55934297 CACATATATA
Statistics
Matches: 185, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 185 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG
Found at i:55934178 original size:475 final size:475
Alignment explanation
Indices: 55933288--55934236 Score: 1736
Period size: 475 Copynumber: 2.0 Consensus size: 475
55933278 TTACTGTGAA
55933288 GTCGTATAATCCTATGCTTTACTCGAATCTTCAGCGAAACCTTTAGCTTGAATAGTCCCCACACG
1 GTCGTATAATCCTATGCTTTACTCGAATCTTCAGCGAAACCTTTAGCTTGAATAGTCCCCACACG
55933353 TAGTTATCGGCTCTTACCCGGACAAAACCTCCACACGTAGTCATCGGGTCTTACCCGGACATAAT
66 TAGTTATCGGCTCTTACCCGGACAAAACCTCCACACGTAGTCATCGGGTCTTACCCGGACATAAT
55933418 CTCCACACGTAGTCATCAGGACTTACCCGGAATATATTTCCAAGTTTCATGTACATTTAATCACA
131 CTCCACACGTAGTCATCAGGACTTACCCGGAATATATTTCCAAGTTTCATGTACATTTAATCACA
55933483 TGTTACAACATTCACATCGACTGTCATATTTGTAATTCATTTGCCTCATCAAATATCTAATAATA
196 TGTTACAACATTCACATCGACTGTCATATTTGTAATTCATTTGCCTCATCAAATATCTAATAATA
* * *
55933548 CACACCTTTCACATTTGGTCAATCGGCCACAATATACACACATCTCCTACATATTTCACACTAGC
261 CACACCTTTCACATTTGGTCAATCCGCCACAACATACACACATCTCATACATATTTCACACTAGC
55933613 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
326 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
* *
55933678 TATACATATCTCATACATATTTCACACTAGACATTCGGCTTTACCACATATACATATCTCATTCA
391 TATACATATCACATACATATTTCACACTAGACATTCGGCTTTACCACATATACATATCTCATACA
55933743 TATTTCACACTAGCCATTCC
456 TATTTCACACTAGCCATTCC
55933763 GTCGTATAATCCTATGCTTTACTCGAATCTTCAGCGAAACCTTTAGCTTGAATAGTCCCCACACG
1 GTCGTATAATCCTATGCTTTACTCGAATCTTCAGCGAAACCTTTAGCTTGAATAGTCCCCACACG
55933828 TAGTTATCGGCTCTTACCCGGACAAAACCTCCACACGTAGTCATCGGGTCTTACCCGGACATAAT
66 TAGTTATCGGCTCTTACCCGGACAAAACCTCCACACGTAGTCATCGGGTCTTACCCGGACATAAT
55933893 CTCCACACGTAGTCATCAGGACTTACCCGGAATATATTTCCAAGTTTCATGTACATTTAATCACA
131 CTCCACACGTAGTCATCAGGACTTACCCGGAATATATTTCCAAGTTTCATGTACATTTAATCACA
55933958 TGTTACAACATTCACATCGACTGTCATATTTGTAATTCATTTGCCTCATCAAATATCTAATAATA
196 TGTTACAACATTCACATCGACTGTCATATTTGTAATTCATTTGCCTCATCAAATATCTAATAATA
*** * * *
55934023 CACACCTTTCACATTTGGTCAATCCTTTACCACATATACATATCTCATACATATTTCACACTAGC
261 CACACCTTTCACATTTGGTCAATCCGCCACAACATACACACATCTCATACATATTTCACACTAGC
* * *
55934088 CATTCGGCTTTACCACATATGCATATCTCATACATATTTCACAGTAGCCATTCGGTTTTACCACA
326 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
* * * *
55934153 TATACTTATCACATACATATTTCACATTAGCCATTCTGCTTTACCACATATACATATCTCATACA
391 TATACATATCACATACATATTTCACACTAGACATTCGGCTTTACCACATATACATATCTCATACA
55934218 TATTTCACACTAGCCATTC
456 TATTTCACACTAGCCATTC
55934237 GGCTTTACCA
Statistics
Matches: 456, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
475 456 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.32
Consensus pattern (475 bp):
GTCGTATAATCCTATGCTTTACTCGAATCTTCAGCGAAACCTTTAGCTTGAATAGTCCCCACACG
TAGTTATCGGCTCTTACCCGGACAAAACCTCCACACGTAGTCATCGGGTCTTACCCGGACATAAT
CTCCACACGTAGTCATCAGGACTTACCCGGAATATATTTCCAAGTTTCATGTACATTTAATCACA
TGTTACAACATTCACATCGACTGTCATATTTGTAATTCATTTGCCTCATCAAATATCTAATAATA
CACACCTTTCACATTTGGTCAATCCGCCACAACATACACACATCTCATACATATTTCACACTAGC
CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
TATACATATCACATACATATTTCACACTAGACATTCGGCTTTACCACATATACATATCTCATACA
TATTTCACACTAGCCATTCC
Found at i:55936285 original size:29 final size:29
Alignment explanation
Indices: 55936252--55936353 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
55936242 GATTAAAGAA
55936252 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* * **
55936281 CTCGCACACATAATG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
55936309 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
55936338 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
55936354 TCAGTTGAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 22 0.37
29 37 0.63
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:55936292 original size:57 final size:57
Alignment explanation
Indices: 55936225--55936385 Score: 216
Period size: 57 Copynumber: 2.8 Consensus size: 57
55936215 CTGACTGATT
** * *
55936225 TCGCACACATAGCACTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* **
55936282 TCGCACACATAATGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * *
55936339 TGGCACACATAGTGCTC-AGTTGAAGAACTTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGA-TTGAAGAACTCGCACACATAGTGCCTCA
55936386 TAACTCCAGC
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
56 1 0.01
57 91 0.99
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:55936373 original size:28 final size:27
Alignment explanation
Indices: 55936225--55936381 Score: 125
Period size: 28 Copynumber: 5.6 Consensus size: 27
55936215 CTGACTGATT
** *
55936225 TCGCACACATAGCACTCGATTAAAGAAC
1 TCGCACACATAGTGCTCAATT-AAGAAC
**
55936253 TCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTG-CTCAATTAAGAA-C
* *
55936282 TCGCACACATAATGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCAATT-AAGAAC
* * *
55936310 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCAATTA-AGAAC
* *
55936339 TGGCACACATAGTGCTCAGTTGAAGAAC
1 TCGCACACATAGTGCTCAATT-AAGAAC
* *
55936367 TTGCACACACAGTGC
1 TCGCACACATAGTGC
55936382 CTCATAACTC
Statistics
Matches: 102, Mismatches: 21, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
28 57 0.56
29 45 0.44
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (27 bp):
TCGCACACATAGTGCTCAATTAAGAAC
Found at i:55936457 original size:40 final size:40
Alignment explanation
Indices: 55936413--55937466 Score: 1731
Period size: 40 Copynumber: 26.4 Consensus size: 40
55936403 CCTTCGAGGT
* * * **
55936413 TTAGCCCGGATATATCA-CTAGCACGAATGCTCTTCGAAAC
1 TTAGCTCGGATATAACATC-AGCACGAATGCTCTTTGGGAC
* * *
55936453 TTAGCCCGGATACATTAC-T-AGCACGAATGCTCTTTGGAAC
1 TTAGCTCGGAT--ATAACATCAGCACGAATGCTCTTTGGGAC
* * * * * *
55936493 TTAGCCCGGATACATCA-CTAGCATGAATGCTCTTCGGAAC
1 TTAGCTCGGATATAACATC-AGCACGAATGCTCTTTGGGAC
* * * * **
55936533 TTAGCCCGGATACATCA-CTAGCACGAATGCTCTTCGAAAC
1 TTAGCTCGGATATAACATC-AGCACGAATGCTCTTTGGGAC
* * *
55936573 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
* *
55936613 TTAGCCCGGATATAACATCAGCACGAATGCTCTTCGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
*
55936653 TTAGCCCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55936693 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55936733 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55936773 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55936813 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55936853 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55936893 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55936933 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55936973 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55937013 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55937053 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55937093 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55937133 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55937173 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55937213 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55937253 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
*
55937293 TTAGCTCGGATATAACATCAGCACGAATGCTCTTCGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
*
55937333 TTAGCCCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
55937373 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
* * *
55937413 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
1 TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
* *
55937453 TTAGCCCGGCTATA
1 TTAGCTCGGATATA
55937467 TAACTCTCAA
Statistics
Matches: 981, Mismatches: 26, Indels: 14
0.96 0.03 0.01
Matches are distributed among these distances:
38 2 0.00
40 975 0.99
41 1 0.00
42 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCTCGGATATAACATCAGCACGAATGCTCTTTGGGAC
Found at i:55938909 original size:37 final size:37
Alignment explanation
Indices: 55938805--55938910 Score: 158
Period size: 37 Copynumber: 2.9 Consensus size: 37
55938795 GCTCGAATAG
* *
55938805 TCCCCACACGTAGTTATCGGGTCTTACCCAGACAAAA
1 TCCCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
* *
55938842 TCCCCACACGTAGTCATCGGGTCTTTCCCGGACATAA
1 TCCCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
* *
55938879 TCTCCACATGTAGTCATCGGGTCTTACCCGGA
1 TCCCCACACGTAGTCATCGGGTCTTACCCGGA
55938911 ATATATTTCC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.25
Consensus pattern (37 bp):
TCCCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
Found at i:55939112 original size:48 final size:48
Alignment explanation
Indices: 55939057--55939910 Score: 1310
Period size: 48 Copynumber: 17.7 Consensus size: 48
55939047 ACACACCTCC
*
55939057 TACATATTTCACACTATCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55939105 TACATATTTGACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55939153 CACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
** * *
55939201 TTTATATTTCACTCTAGCCATTCGGCTTTACCACATATACAAATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* * * *
55939249 TATATATTTCACATTAGCCATTCGGCTTTACCGCATATACGTATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
55939297 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACCTATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55939345 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTA-C-C--A--C--A--T-ATACATATCTCA
*
55939404 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55939452 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55939500 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
55939548 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55939596 TACATATTTCACACTAGCTATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55939644 TACATATTTCACATTAGCCA-------TT-CCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55939684 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
55939732 TACATATTCCACACTAGCCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55939780 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATTTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
55939828 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
55939876 TATATATTTCACATTAGCCATTCGGCTTTACCACA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACA
55939911 CACATATATA
Statistics
Matches: 749, Mismatches: 38, Indels: 38
0.91 0.05 0.05
Matches are distributed among these distances:
40 38 0.05
41 2 0.00
47 2 0.00
48 654 0.87
49 2 0.00
50 1 0.00
51 1 0.00
52 1 0.00
53 1 0.00
54 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
58 2 0.00
59 41 0.05
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:55939400 original size:11 final size:11
Alignment explanation
Indices: 55939384--55939410 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
55939374 ACCACATATG
55939384 CATATCTCATA
1 CATATCTCATA
55939395 CATATCTCATA
1 CATATCTCATA
55939406 CATAT
1 CATAT
55939411 TTCACATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (11 bp):
CATATCTCATA
Found at i:55945726 original size:76 final size:76
Alignment explanation
Indices: 55945600--55945757 Score: 307
Period size: 76 Copynumber: 2.1 Consensus size: 76
55945590 GCTTTTGCCG
55945600 AATTGAACTAAGAAAGGGTGTTCGGTACACACCTGATTCGCGACGACTGCTACTGAGATCTCTTC
1 AATTGAACTAAGAAAGGGTGTTCGGTACACACCTGATTCGCGACGACTGCTACTGAGATCTCTTC
55945665 CGAAGTCCTAC
66 CGAAGTCCTAC
55945676 AATTGAACTAAGAAAGGGTGTTCGGTACACACCTGATTCGCGACGACTGCTACTGAGATCTCTTC
1 AATTGAACTAAGAAAGGGTGTTCGGTACACACCTGATTCGCGACGACTGCTACTGAGATCTCTTC
*
55945741 CGATGTCCTAC
66 CGAAGTCCTAC
55945752 AATTGA
1 AATTGA
55945758 TTAGCACAGT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 81 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (76 bp):
AATTGAACTAAGAAAGGGTGTTCGGTACACACCTGATTCGCGACGACTGCTACTGAGATCTCTTC
CGAAGTCCTAC
Found at i:55948413 original size:15 final size:15
Alignment explanation
Indices: 55948390--55948423 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
55948380 TAACTTTCTT
*
55948390 GAGGCAAAATCATAG
1 GAGGAAAAATCATAG
*
55948405 GAGGAAAAATCCTAG
1 GAGGAAAAATCATAG
55948420 GAGG
1 GAGG
55948424 TATAAGAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.32, T:0.12
Consensus pattern (15 bp):
GAGGAAAAATCATAG
Found at i:55957328 original size:40 final size:40
Alignment explanation
Indices: 55957276--55958263 Score: 1789
Period size: 40 Copynumber: 24.6 Consensus size: 40
55957266 ATTACCACAA
* * * ** *
55957276 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
* * *
55957316 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
* *
55957356 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGG--ATATATCAACTC
55957398 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957438 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957478 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957518 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957558 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957598 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957638 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957678 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957718 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957758 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957798 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957838 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957878 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957918 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957958 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55957998 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55958038 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55958078 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55958118 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
55958158 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
* * *
55958198 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTGCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
55958238 GCACAATTGCCTTCGGGACTTAGCCC
1 GCACAAATGCCTGCGGGTCTTAGCCC
55958264 AGAAAAATTC
Statistics
Matches: 928, Mismatches: 17, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
40 887 0.96
41 4 0.00
42 37 0.04
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
Found at i:55966647 original size:40 final size:40
Alignment explanation
Indices: 55966595--55966867 Score: 368
Period size: 40 Copynumber: 6.8 Consensus size: 40
55966585 ATTACCACAA
* * ** * *
55966595 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCATCTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
55966635 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
55966675 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
*
55966717 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
55966757 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
55966797 ACACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
55966837 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
55966868 AAATTCAAAT
Statistics
Matches: 210, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.00
40 168 0.80
41 4 0.02
42 37 0.18
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:55966812 original size:122 final size:120
Alignment explanation
Indices: 55966594--55966867 Score: 395
Period size: 122 Copynumber: 2.3 Consensus size: 120
55966584 TATTACCACA
* ** * * *
55966594 AGCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCATCTCGCACGAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGC
** * *
55966659 CCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACT
66 CCGGATATATCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATA-AAATC-ACT
* * * *
55966716 CGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGC
55966781 CCGGATATATCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
66 CCGGATATATCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
*
55966836 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATA
55966868 AAATTCAAAT
Statistics
Matches: 134, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
120 31 0.23
121 4 0.03
122 99 0.74
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGC
CCGGATATATCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
Found at i:55969747 original size:27 final size:27
Alignment explanation
Indices: 55969705--55969758 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
55969695 ATTTCTAGTC
*
55969705 AATTTAGTCACCAAAACTCACCTAACT
1 AATTTAGTCACAAAAACTCACCTAACT
55969732 AATTTAGTCACAAAAACTCACCTAACT
1 AATTTAGTCACAAAAACTCACCTAACT
55969759 TTGACAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.28, G:0.04, T:0.26
Consensus pattern (27 bp):
AATTTAGTCACAAAAACTCACCTAACT
Found at i:55990610 original size:49 final size:49
Alignment explanation
Indices: 55990547--55990717 Score: 213
Period size: 49 Copynumber: 3.5 Consensus size: 49
55990537 CAAGCTGATG
55990547 CCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTTGAGGCCGATT
1 CCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTTGAGGCCGATT
* * * ** * **
55990596 CCATGTCCCTGACAGGTCTTACAC-AGGCTCT-CATCTATCAATGTTG-TT
1 CCATGTCCCAGACAGGTCTTACACTA-GCT-TGCATATCTTGAGGCCGATT
55990644 GCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTTGAGGCCGATT
1 -CCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTTGAGGCCGATT
*
55990694 CCATGTCCCTGACAGGTCTTACAC
1 CCATGTCCCAGACAGGTCTTACAC
55990718 AGGCTCTCAT
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
48 4 0.04
49 91 0.92
50 4 0.04
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTTGAGGCCGATT
Found at i:55990667 original size:98 final size:98
Alignment explanation
Indices: 55990545--55990770 Score: 452
Period size: 98 Copynumber: 2.3 Consensus size: 98
55990535 CTCAAGCTGA
55990545 TGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTTGAGGCCGATTCCATGTCCCTGACA
1 TGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTTGAGGCCGATTCCATGTCCCTGACA
55990610 GGTCTTACACAGGCTCTCATCTATCAATGTTGT
66 GGTCTTACACAGGCTCTCATCTATCAATGTTGT
55990643 TGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTTGAGGCCGATTCCATGTCCCTGACA
1 TGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTTGAGGCCGATTCCATGTCCCTGACA
55990708 GGTCTTACACAGGCTCTCATCTATCAATGTTGT
66 GGTCTTACACAGGCTCTCATCTATCAATGTTGT
55990741 TGCCATGTCCCAGACAGGTCTTACACTAGC
1 TGCCATGTCCCAGACAGGTCTTACACTAGC
55990771 ACGCATGTCA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 128 1.00
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (98 bp):
TGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTTGAGGCCGATTCCATGTCCCTGACA
GGTCTTACACAGGCTCTCATCTATCAATGTTGT
Found at i:55990747 original size:49 final size:49
Alignment explanation
Indices: 55990596--55990766 Score: 213
Period size: 49 Copynumber: 3.5 Consensus size: 49
55990586 GAGGCCGATT
*
55990596 CCATGTCCCTGACAGGTCTTACACAGGCTCTCATCTATCAATGTTGTTG
1 CCATGTCCCAGACAGGTCTTACACAGGCTCTCATCTATCAATGTTGTTG
* * ** * **
55990645 CCATGTCCCAGACAGGTCTTACACTA-GCT-TGCATATCTTGAGGCCGATT-
1 CCATGTCCCAGACAGGTCTTACAC-AGGCTCT-CATCTATCAATGTTG-TTG
*
55990694 CCATGTCCCTGACAGGTCTTACACAGGCTCTCATCTATCAATGTTGTTG
1 CCATGTCCCAGACAGGTCTTACACAGGCTCTCATCTATCAATGTTGTTG
55990743 CCATGTCCCAGACAGGTCTTACAC
1 CCATGTCCCAGACAGGTCTTACAC
55990767 TAGCACGCAT
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
48 4 0.04
49 91 0.92
50 4 0.04
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.30
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACAGGCTCTCATCTATCAATGTTGTTG
Found at i:55995386 original size:21 final size:21
Alignment explanation
Indices: 55995348--55995387 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
55995338 ATTACTCCAA
*
55995348 AGAAGCCGATTGATTCATCTC
1 AGAAGCCGATTCATTCATCTC
55995369 AGAAGCCGGATTCA-TCATC
1 AGAAGCC-GATTCATTCATC
55995388 AAGACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (21 bp):
AGAAGCCGATTCATTCATCTC
Found at i:56014436 original size:37 final size:38
Alignment explanation
Indices: 56014365--56014442 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
56014355 TGACTAATAT
56014365 ACTTTTTTCGAAATTCCGTCTGGAAGAAATCCCAAGTA
1 ACTTTTTTCGAAATTCCGTCTGGAAGAAATCCCAAGTA
*
56014403 ACTTTTTTCGAAATTCTGTCTGGAAGAAA-CCCAAGTA
1 ACTTTTTTCGAAATTCCGTCTGGAAGAAATCCCAAGTA
56014440 ACT
1 ACT
56014443 CGTTCCTTCG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 11 0.28
38 28 0.72
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (38 bp):
ACTTTTTTCGAAATTCCGTCTGGAAGAAATCCCAAGTA
Found at i:56015375 original size:49 final size:49
Alignment explanation
Indices: 56015318--56015415 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
56015308 CTCTCCCCTA
*
56015318 TTTCAGGGTTTGACTACTCTGACCTCTGTGTATTACGAACCAGATATCT
1 TTTCAGGGTTCGACTACTCTGACCTCTGTGTATTACGAACCAGATATCT
*
56015367 TTTCAGGGTTCGACTACTCTGACCTCTGTGTATTACGGACCAGATATCT
1 TTTCAGGGTTCGACTACTCTGACCTCTGTGTATTACGAACCAGATATCT
56015416 CCCTGTACAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (49 bp):
TTTCAGGGTTCGACTACTCTGACCTCTGTGTATTACGAACCAGATATCT
Found at i:56015753 original size:33 final size:33
Alignment explanation
Indices: 56015711--56015775 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
56015701 TTTAGTGATT
56015711 TTTCAATTTCACATCACTACTGCTATCTGCCTC
1 TTTCAATTTCACATCACTACTGCTATCTGCCTC
*
56015744 TTTCAATTTCACATCACTACTGCTGTCTGCCT
1 TTTCAATTTCACATCACTACTGCTATCTGCCT
56015776 TTATTATTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.32, G:0.08, T:0.40
Consensus pattern (33 bp):
TTTCAATTTCACATCACTACTGCTATCTGCCTC
Found at i:56024027 original size:38 final size:38
Alignment explanation
Indices: 56023979--56024218 Score: 327
Period size: 38 Copynumber: 6.3 Consensus size: 38
56023969 GGCACGAAGG
* * * *
56023979 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
56024017 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** * **
56024055 CCTGGATATTTTACCAGCAAGAAGCCTGCGAGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCG-GGATTTAA
*
56024094 GCCCGGATATAATACCAGCATGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
56024133 CCCGGATATATTACCAGCACGAAGCTTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
56024171 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
56024209 CTCGGATATA
1 CCCGGATATA
56024219 CATCGAATAT
Statistics
Matches: 176, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
38 138 0.78
39 12 0.07
40 26 0.15
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:56024186 original size:116 final size:116
Alignment explanation
Indices: 56023978--56024200 Score: 340
Period size: 116 Copynumber: 1.9 Consensus size: 116
56023968 AGGCACGAAG
* * *
56023978 GCCCGAATATAATACCAGCACTAGGCCTGCGGGATTTATCCCTGATATAATACCAGCACGAAGCC
1 GCCCGAATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
* **
56024043 TGCGGGATTTAACCTGGATATTTTACCAGCAAGAAGCCTGCGAGTCTTTAA
66 TGCGGGATTTAACCCGGATATAATACCAGCAAGAAGCCTGCGAGTCTTTAA
* *
56024094 GCCCGGATATAATACCAGCA-TGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGC
1 GCCCGAATATAATACCAGCACT-AAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGC
* *
56024158 TTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCG
65 CTGCGGGATTTAACCCGGATATAATACCAGCAAGAAGCCTGCG
56024201 GGATTTAACT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
115 1 0.01
116 95 0.99
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.22
Consensus pattern (116 bp):
GCCCGAATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
TGCGGGATTTAACCCGGATATAATACCAGCAAGAAGCCTGCGAGTCTTTAA
Found at i:56032052 original size:23 final size:23
Alignment explanation
Indices: 56032025--56032074 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 23
56032015 TAGATACAAA
56032025 TTTTATTTTCAGTAATT-TTTTAT
1 TTTTA-TTTCAGTAATTATTTTAT
*
56032048 TTTTATTTCAGTTATTAATTTTAT
1 TTTTATTTCAGTAATT-ATTTTAT
56032072 TTT
1 TTT
56032075 AAATTCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 10 0.42
23 5 0.21
24 9 0.38
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTATTTCAGTAATTATTTTAT
Found at i:56034638 original size:23 final size:21
Alignment explanation
Indices: 56034612--56034653 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
56034602 AAATGAAATG
56034612 TTGTAAAATTTTGTATATTTGAA
1 TTGTAAAATTTT-TAT-TTTGAA
*
56034635 TTGTCAAATTTTTATTTTG
1 TTGTAAAATTTTTATTTTG
56034654 GATTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 3 0.17
23 11 0.61
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (21 bp):
TTGTAAAATTTTTATTTTGAA
Found at i:56034695 original size:25 final size:25
Alignment explanation
Indices: 56034663--56034719 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
56034653 GGATTTTAAT
56034663 TAGG-TTAGAAAGTATTAATTAGAG
1 TAGGATTAGAAAGTATTAATTAGAG
56034687 TAGGATTAGAAAGTATTAATTAGAG
1 TAGGATTAGAAAGTATTAATTAGAG
56034712 TAGGATTA
1 TAGGATTA
56034720 AGGCCTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.12
25 28 0.88
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (25 bp):
TAGGATTAGAAAGTATTAATTAGAG
Found at i:56038540 original size:93 final size:93
Alignment explanation
Indices: 56038429--56038599 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
56038419 GCCCCTAAGT
* * *
56038429 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
56038494 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
56038522 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
56038587 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56038600 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56038596 original size:46 final size:46
Alignment explanation
Indices: 56038424--56038596 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
56038414 AACCCGCCCC
* * * * *
56038424 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
56038470 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
56038518 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
56038563 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
56038597 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.55
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:56041938 original size:30 final size:30
Alignment explanation
Indices: 56041902--56041967 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
56041892 GTGTTCTAGG
*
56041902 CCGTGTGGTACACACGGTTAAGACACACGC
1 CCGTGTGGTACACACGGCTAAGACACACGC
* *
56041932 CCGTGTGGTACACACGGCTGAGACACATGC
1 CCGTGTGGTACACACGGCTAAGACACACGC
56041962 CCGTGT
1 CCGTGT
56041968 TCCAGGCTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.18
Consensus pattern (30 bp):
CCGTGTGGTACACACGGCTAAGACACACGC
Found at i:56041981 original size:42 final size:42
Alignment explanation
Indices: 56041934--56042051 Score: 191
Period size: 42 Copynumber: 2.8 Consensus size: 42
56041924 ACACACGCCC
*
56041934 GTGTGGTACACACGGCTGAGACACATGCCCGTGTTCCAGGCT
1 GTGTGGTACACACGGCTGAGACACACGCCCGTGTTCCAGGCT
* * *
56041976 GTGTGGTACACACGGCTAAGACACACGCCCATGTTCCATGCT
1 GTGTGGTACACACGGCTGAGACACACGCCCGTGTTCCAGGCT
*
56042018 GTGTGGTACACATGGCTGAGACACACGCCCGTGT
1 GTGTGGTACACACGGCTGAGACACACGCCCGTGT
56042052 CTCTGCTCAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (42 bp):
GTGTGGTACACACGGCTGAGACACACGCCCGTGTTCCAGGCT
Found at i:56047123 original size:46 final size:46
Alignment explanation
Indices: 56047053--56047323 Score: 169
Period size: 48 Copynumber: 5.7 Consensus size: 46
56047043 GGTGGTAGGT
* *
56047053 GAGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACAT-CATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA-ATACACGA
* * ** * *
56047099 GTGCTAGTGTAAGACATGTCTGGGACACGCATC-GGGATTGAGACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAAT-ACACGA
* *
56047145 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTTCGGGATATAC-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGC--C--AATACACGA
* * * *
56047194 -AGCTAGTGTAAGACATGCCTGGGACATGCATCAACCTCGGGATATAC-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-AGC-C--AATACACGA
* * * * *
56047242 -AGCTAGTGTAAGACCTGCCTGGGACATGGTATC-GACACTAATAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCAG-C-C-AATACACGA
* *
56047290 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATC
56047324 GGCCTCGATA
Statistics
Matches: 185, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 64 0.35
47 5 0.03
48 72 0.39
49 37 0.20
50 3 0.02
51 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAATACACGA
Found at i:56047217 original size:48 final size:48
Alignment explanation
Indices: 56047146--56047269 Score: 212
Period size: 48 Copynumber: 2.6 Consensus size: 48
56047136 TTGAGACGAG
* * *
56047146 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTTCGGGATATACA
1 AGCTAGTGTAAGACATGCCTGGGACATGCATCAACCTCGGGATATACA
56047194 AGCTAGTGTAAGACATGCCTGGGACATGCATCAACCTCGGGATATACA
1 AGCTAGTGTAAGACATGCCTGGGACATGCATCAACCTCGGGATATACA
*
56047242 AGCTAGTGTAAGACCTGCCTGGGACATG
1 AGCTAGTGTAAGACATGCCTGGGACATG
56047270 GTATCGACAC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (48 bp):
AGCTAGTGTAAGACATGCCTGGGACATGCATCAACCTCGGGATATACA
Found at i:56047307 original size:49 final size:47
Alignment explanation
Indices: 56047241--56047416 Score: 183
Period size: 49 Copynumber: 3.6 Consensus size: 47
56047231 CGGGATATAC
* * *
56047241 AAGCTAGTGTAAGACCTGCCTGGGACATGGTATCGACACTAATAGATGA
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTAATA-ATGA
* * *
56047290 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCT-AATA-ATGA
* * * *
56047339 AAGTCAGTGTAAGACCTGTCTGGGACACGGCATCGACTTTAAT-ATGC
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTAATAATGA
* *
56047386 TAGCCAGTGTAAGACCATGTCTGGGATATGG
1 AAGCCAGTGTAAGACC-TGTCTGGGACATGG
56047417 AGTCAGTATT
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
47 17 0.16
48 14 0.13
49 74 0.70
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTAATAATGA
Found at i:56047353 original size:98 final size:96
Alignment explanation
Indices: 56047198--56047416 Score: 246
Period size: 98 Copynumber: 2.3 Consensus size: 96
56047188 TATACAAGCT
* * *
56047198 AGTGTAAGACATGCCTGGGACAT-GCATCAACCTCGGGATATACAAGCTAGTGTAAGACCTGCCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGAGATATACAAGCTAGTGTAAGACCTGCCT
* *
56047262 GGGACATGGTATCGACACTAATAGATGAGAGCC
66 GGGACACGGCATCGACACTAAT--ATGAGAGCC
** * *
56047295 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA-AAG-TCAGTGTAAGACCTGT
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGAGATAT-ACAAGCT-AGTGTAAGACCTGC
** **
56047358 CTGGGACACGGCATCGACTTTAATATGCTAGCC
64 CTGGGACACGGCATCGACACTAATATGAGAGCC
*
56047391 AGTGTAAGACCATGTCTGGGATATGG
1 AGTGTAAGACC-TGTCTGGGACATGG
56047417 AGTCAGTATT
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
96 18 0.17
97 35 0.34
98 50 0.48
99 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGAGATATACAAGCTAGTGTAAGACCTGCCT
GGGACACGGCATCGACACTAATATGAGAGCC
Found at i:56051670 original size:90 final size:90
Alignment explanation
Indices: 56051533--56051696 Score: 208
Period size: 90 Copynumber: 1.8 Consensus size: 90
56051523 AGTGATTTCG
* ** *
56051533 TATAAGACCATGTTTGGGACATGGCATTAATATGAGGTCCCCTATAAGAT-CATGTCTGTG-ACA
1 TATAAGACCATATTTGGGACATGGCATTAATATGAGGTCCCAGATAAG-TCCATGCCTG-GAACA
56051596 TGGCGTTGGCACCGATTCGAGACTTCA
64 TGGCGTTGGCACCGATTCGAGACTTCA
* * *
56051623 TATAAGACCATATTTGGGATATGGCATTGATGTGTAGGT-CCAGATAAGTCCATGCCTGGAACAT
1 TATAAGACCATATTTGGGACATGGCATTAATATG-AGGTCCCAGATAAGTCCATGCCTGGAACAT
*
56051687 GGCTTTGGCA
65 GGCGTTGGCA
56051697 TCCTATTTGG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
89 2 0.03
90 57 0.90
91 4 0.06
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (90 bp):
TATAAGACCATATTTGGGACATGGCATTAATATGAGGTCCCAGATAAGTCCATGCCTGGAACATG
GCGTTGGCACCGATTCGAGACTTCA
Found at i:56053084 original size:22 final size:21
Alignment explanation
Indices: 56053034--56053084 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
56053024 CTCAACTTGG
56053034 AAAATTTTTCCTAAGTGTCAT
1 AAAATTTTTCCTAAGTGTCAT
56053055 AAAATTTTTCCTAAGTGTCAT
1 AAAATTTTTCCTAAGTGTCAT
56053076 AAAATTTTT
1 AAAATTTTT
56053085 AGAAGCTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (21 bp):
AAAATTTTTCCTAAGTGTCAT
Found at i:56074712 original size:11 final size:11
Alignment explanation
Indices: 56074696--56074721 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56074686 TCTAGTAGCT
56074696 ATAGGTATCAA
1 ATAGGTATCAA
56074707 ATAGGTATCAA
1 ATAGGTATCAA
56074718 ATAG
1 ATAG
56074722 CTATGGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (11 bp):
ATAGGTATCAA
Found at i:56076729 original size:20 final size:20
Alignment explanation
Indices: 56076706--56076744 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
56076696 TAAACATGGT
56076706 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
56076726 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
56076745 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:56076878 original size:24 final size:24
Alignment explanation
Indices: 56076794--56076939 Score: 197
Period size: 25 Copynumber: 6.0 Consensus size: 24
56076784 GGAGGAAGTG
56076794 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
56076818 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
56076843 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* *
56076868 TAAAAGGGCTTGTACCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
56076892 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
56076915 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
56076940 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
23 18 0.16
24 38 0.34
25 56 0.50
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:56077180 original size:31 final size:31
Alignment explanation
Indices: 56077133--56077195 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
56077123 CGCTTACAGT
* *
56077133 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGCCTTCGGCCCAGTAATATGAAATATGA
**
56077164 AAAGCCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGCCTTCGGCCCAGTAATATGAAATATGA
56077195 A
1 A
56077196 GTGTGGAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGCCTTCGGCCCAGTAATATGAAATATGA
Found at i:56078474 original size:26 final size:25
Alignment explanation
Indices: 56078445--56078615 Score: 86
Period size: 24 Copynumber: 6.9 Consensus size: 25
56078435 ATGAACATCT
*
56078445 CGATACATGGCTCTTTATGAGCTTCC
1 CGATA-ATGGCTCATTATGAGCTTCC
* * *
56078471 CGATTAAAGGCTCATTGTGAGCTTCT
1 CGA-TAATGGCTCATTATGAGCTTCC
* * *
56078497 TGATTAATGGCTC-TCAAGAGCTTCC
1 CGA-TAATGGCTCATTATGAGCTTCC
* *
56078522 CGAT-ATGGCTCACT-TGAACTTCC
1 CGATAATGGCTCATTATGAGCTTCC
** *
56078545 CGATACATGGCT-A-TCCGAAGCTACC
1 CGATA-ATGGCTCATTATG-AGCTTCC
* * **
56078570 CGTTATTGGCTC-GCATGAGCTTCC
1 CGATAATGGCTCATTATGAGCTTCC
* *
56078594 TGATTATGGCTC-TTATGAGCTT
1 CGATAATGGCTCATTATGAGCTT
56078616 TTCGTTATAT
Statistics
Matches: 107, Mismatches: 30, Indels: 18
0.69 0.19 0.12
Matches are distributed among these distances:
23 19 0.18
24 30 0.28
25 26 0.24
26 30 0.28
27 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
CGATAATGGCTCATTATGAGCTTCC
Found at i:56079141 original size:26 final size:26
Alignment explanation
Indices: 56079104--56079160 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
56079094 GGAAGCTCTT
* *
56079104 AAGAGCCATTAATCAGGAAGCTCACA
1 AAGAGCCATTAATCAAGAAGATCACA
* *
56079130 AAGAGCCTTTAATCAAGAAGATCACG
1 AAGAGCCATTAATCAAGAAGATCACA
56079156 AAGAG
1 AAGAG
56079161 TCATATATCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (26 bp):
AAGAGCCATTAATCAAGAAGATCACA
Found at i:56081243 original size:36 final size:36
Alignment explanation
Indices: 56081196--56081267 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
56081186 TCCATAGTAA
56081196 CTCTTTACCATTTCCATTCTAGTATCGTCACTGATT
1 CTCTTTACCATTTCCATTCTAGTATCGTCACTGATT
*
56081232 CTCTTTCCCATTTCCATTCTAGTATCGTCACTGATT
1 CTCTTTACCATTTCCATTCTAGTATCGTCACTGATT
56081268 GTAATAATCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.18, C:0.29, G:0.08, T:0.44
Consensus pattern (36 bp):
CTCTTTACCATTTCCATTCTAGTATCGTCACTGATT
Found at i:56082337 original size:16 final size:15
Alignment explanation
Indices: 56082286--56082338 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
56082276 GTTATATACT
*
56082286 CATGAATTAAGTATGG
1 CATGAATTGAGTAT-G
* *
56082302 CATGAAATGACGTATT
1 CATGAATTGA-GTATG
56082318 CATGAATTGAGTACTG
1 CATGAATTGAGTA-TG
56082334 CATGA
1 CATGA
56082339 CTGATGCCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 3 0.10
16 23 0.77
17 4 0.13
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (15 bp):
CATGAATTGAGTATG
Found at i:56102646 original size:49 final size:50
Alignment explanation
Indices: 56102569--56102668 Score: 184
Period size: 49 Copynumber: 2.0 Consensus size: 50
56102559 TGTAGGTTAT
56102569 TCTTTTTAAGACCTTTTATTCATAATAATTACTTCTTCAATTAATAAAAG
1 TCTTTTTAAGACCTTTTATTCATAATAATTACTTCTTCAATTAATAAAAG
*
56102619 TCTTTTTAAGGCC-TTTATTCATAATAATTACTTCTTCAATTAATAAAAG
1 TCTTTTTAAGACCTTTTATTCATAATAATTACTTCTTCAATTAATAAAAG
56102668 T
1 T
56102669 ATCAGTTTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 37 0.76
50 12 0.24
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (50 bp):
TCTTTTTAAGACCTTTTATTCATAATAATTACTTCTTCAATTAATAAAAG
Found at i:56105934 original size:20 final size:19
Alignment explanation
Indices: 56105900--56105939 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
56105890 AGTGATAAGT
*
56105900 TGATGGATAAAATTTAAAA
1 TGATGAATAAAATTTAAAA
*
56105919 TGATGAATAGAAATTTGAAA
1 TGATGAATA-AAATTTAAAA
56105939 T
1 T
56105940 AAAAATGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (19 bp):
TGATGAATAAAATTTAAAA
Found at i:56110875 original size:49 final size:49
Alignment explanation
Indices: 56110719--56111026 Score: 160
Period size: 49 Copynumber: 6.5 Consensus size: 49
56110709 AGAAGCCGAC
* ** * * **
56110719 GCCAAGTCCCAGACATGGTCTTACACTGACTAGC--ACATCAAATTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCGAGGTCGAT
* *
56110767 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGG-CCATT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGA-T
* * * *
56110816 GCCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTATC-AGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GTCGAT
* * * * * * * *
56110865 GCCATATCCCAGACAGGTCATACACT-A-ACACACA-A-C-AAGCCAAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGAT
* * * * * * * *
56110909 GCCATGTCCTAGATAGGTCTTACACTAACTCTC--GTCTCAATGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGAT
* * * * *
56110956 G-CATGTCTCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGAT
* *
56111002 G-CATGTCCCAGACATGTCTTGCACT
1 GCCATGTCCCAGACAGGTCTTACACT
56111027 AGCACACATA
Statistics
Matches: 199, Mismatches: 49, Indels: 26
0.73 0.18 0.09
Matches are distributed among these distances:
44 26 0.13
45 3 0.02
46 58 0.29
47 27 0.14
48 18 0.09
49 65 0.33
50 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGAT
Found at i:56110975 original size:46 final size:45
Alignment explanation
Indices: 56110911--56111027 Score: 112
Period size: 46 Copynumber: 2.6 Consensus size: 45
56110901 AAGCCAATGC
* * * *
56110911 CATGTCCTAGATAGGTCTTACACTAACTCTCGTCTCAA-T-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAACTCTC--AT-AAGTGGCCGATG
* **
56110957 CATGTCTCAGACATGTCTTACACTGGCTCTCATAATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAACTCTCATAA-GTGGCCGATG
*
56111003 CATGTCCCAGACATGTCTTGCACTA
1 CATGTCCCAGACATGTCTTACACTA
56111028 GCACACATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
43 2 0.03
44 1 0.02
45 1 0.02
46 54 0.93
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAACTCTCATAAGTGGCCGATG
Found at i:56111718 original size:20 final size:20
Alignment explanation
Indices: 56111693--56111731 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
56111683 ATAATTTCAA
56111693 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
56111713 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
56111732 AATAGCCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:56112174 original size:22 final size:25
Alignment explanation
Indices: 56112148--56112204 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 25
56112138 ATAGATACGA
56112148 ATTTTAT-TTTCAG-TAAT-TTTTT
1 ATTTTATATTTCAGTTAATATTTTT
*
56112170 ATTTT-TATTTCAGTTATTATTTTT
1 ATTTTATATTTCAGTTAATATTTTT
*
56112194 ATTTTAAATTT
1 ATTTTATATTT
56112205 TCTTCGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 1 0.03
22 11 0.38
23 3 0.10
24 10 0.34
25 4 0.14
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (25 bp):
ATTTTATATTTCAGTTAATATTTTT
Found at i:56112176 original size:23 final size:24
Alignment explanation
Indices: 56112149--56112198 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
56112139 TAGATACGAA
56112149 TTTTATTTTCAG-TAAT-TTTTTAT
1 TTTTA-TTTCAGTTAATATTTTTAT
*
56112172 TTTTATTTCAGTTATTATTTTTAT
1 TTTTATTTCAGTTAATATTTTTAT
56112196 TTT
1 TTT
56112199 AAATTTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTATTTCAGTTAATATTTTTAT
Found at i:56114822 original size:50 final size:48
Alignment explanation
Indices: 56114700--56114889 Score: 154
Period size: 48 Copynumber: 3.9 Consensus size: 48
56114690 ACAATGCCTC
* * *
56114700 ATGCCGATGCCATGTCCCAGACATGGTGTTACACTGGCTCACATAATG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACG
* * * * *
56114748 ATGCCAATGTCATGTTCCAGACATGGTCTTACACTAGCTCGCATGTACCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACA--TAACG
* * * * *
56114798 GTGCCGATGCCATGTCCCAAACATGGTCTTA-AATTG-ACACATATA-G
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA-ACG
* * * *
56114844 ATGACGATGCTATGTCCTTC-GACATGGTCTTACACTGGCTCTCATA
1 ATGCCGATGCCATGTCC--CAGACATGGTCTTACACTAGCTCACATA
56114890 TCGCCATGGT
Statistics
Matches: 109, Mismatches: 26, Indels: 13
0.74 0.18 0.09
Matches are distributed among these distances:
46 17 0.16
47 11 0.10
48 44 0.40
49 8 0.07
50 29 0.27
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACG
Found at i:56119751 original size:24 final size:24
Alignment explanation
Indices: 56119707--56119760 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
56119697 ACTATGTCTC
* *
56119707 TGATGCTTTAGATGCATTAGATAT
1 TGATGATTTAGAGGCATTAGATAT
56119731 TGATGATTTCAGAGGCA-TAGATAT
1 TGATGATTT-AGAGGCATTAGATAT
*
56119755 AGATGA
1 TGATGA
56119761 GATTGTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (24 bp):
TGATGATTTAGAGGCATTAGATAT
Found at i:56122222 original size:39 final size:39
Alignment explanation
Indices: 56122105--56122366 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
56122095 GCTCCTCGTT
* *
56122105 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
56122145 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
56122185 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
56122224 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
56122263 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
56122302 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
56122343 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
56122367 CAACATTCAA
Statistics
Matches: 202, Mismatches: 13, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
39 130 0.64
40 61 0.30
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:56122354 original size:117 final size:119
Alignment explanation
Indices: 56122105--56122363 Score: 327
Period size: 118 Copynumber: 2.2 Consensus size: 119
56122095 GCTCCTCGTT
* **
56122105 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCAGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
* *
56122168 GGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
64 GGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
*
56122224 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
56122287 AATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
66 AATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TAGCA
56122343 C-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
56122364 GGACAACATT
Statistics
Matches: 124, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
117 46 0.37
118 53 0.43
119 25 0.20
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
Found at i:56128474 original size:25 final size:25
Alignment explanation
Indices: 56128438--56128556 Score: 100
Period size: 25 Copynumber: 4.8 Consensus size: 25
56128428 GCTCTCTCTC
56128438 GAGCCATATAACAGGAAGCTCATAT
1 GAGCCATATAACAGGAAGCTCATAT
* * *
56128463 GAGCCATGTAACAGGAAGCTTATCCT
1 GAGCCATATAACAGGAAGCTCAT-AT
** * *
56128489 G-GCTGTATAACGGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAT
* **
56128513 GAGCCATA-ATCAGGAAGCTCATGC
1 GAGCCATATAACAGGAAGCTCATAT
* *
56128537 GAGCCA-ATAACGGGTAGCTC
1 GAGCCATATAACAGGAAGCTC
56128557 CGGATAGCCA
Statistics
Matches: 72, Mismatches: 19, Indels: 7
0.73 0.19 0.07
Matches are distributed among these distances:
23 1 0.01
24 28 0.39
25 41 0.57
26 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAT
Found at i:56128531 original size:24 final size:24
Alignment explanation
Indices: 56128495--56128688 Score: 110
Period size: 26 Copynumber: 7.9 Consensus size: 24
56128485 TCCTGGCTGT
56128495 ATAA-CGGGAAGCTCATAAGAGCC
1 ATAATCGGGAAGCTCATAAGAGCC
* **
56128518 ATAATCAGGAAGCTCATGCGAGCC
1 ATAATCGGGAAGCTCATAAGAGCC
* *** *
56128542 AATAA-CGGGTAGCTCCGGATAGCC
1 -ATAATCGGGAAGCTCATAAGAGCC
* *
56128566 ATATATCGGGAAGTTCA-AGCGAGCC
1 ATA-ATCGGGAAGCTCATA-AGAGCC
*
56128591 AT-ATCGGGAAGCTCCA-AAGAGGC
1 ATAATCGGGAAGCT-CATAAGAGCC
* * *
56128614 ATAAATCAGTAAGCTCAGAAAGAGCC
1 AT-AATCGGGAAGCTCA-TAAGAGCC
* * *
56128640 TTTAATCGAGAAGCTCACAAAGAGCC
1 -ATAATCGGGAAGCTCA-TAAGAGCC
*
56128666 ATATATCGGGACGCTCATAAGAG
1 ATA-ATCGGGAAGCTCATAAGAG
56128689 TTGCGGTGTG
Statistics
Matches: 129, Mismatches: 30, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
23 23 0.18
24 35 0.27
25 34 0.26
26 36 0.28
27 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (24 bp):
ATAATCGGGAAGCTCATAAGAGCC
Found at i:56128566 original size:48 final size:48
Alignment explanation
Indices: 56128495--56128605 Score: 125
Period size: 48 Copynumber: 2.3 Consensus size: 48
56128485 TCCTGGCTGT
*** * *
56128495 ATAACGGGAAGCTCATAAGAGCCATA-ATCAGGAAGCTCATGCGAGCC
1 ATAACGGGAAGCTCCGGATAGCCATATATCAGGAAGCTCAAGCGAGCC
* * *
56128542 AATAACGGGTAGCTCCGGATAGCCATATATCGGGAAGTTCAAGCGAGCC
1 -ATAACGGGAAGCTCCGGATAGCCATATATCAGGAAGCTCAAGCGAGCC
*
56128591 ATATCGGGAAGCTCC
1 ATAACGGGAAGCTCC
56128606 AAAGAGGCAT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 34 0.65
49 18 0.35
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.17
Consensus pattern (48 bp):
ATAACGGGAAGCTCCGGATAGCCATATATCAGGAAGCTCAAGCGAGCC
Found at i:56128616 original size:23 final size:23
Alignment explanation
Indices: 56128568--56128616 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
56128558 GGATAGCCAT
* *
56128568 ATATCGGGAAGTTCAAGCGAGCC
1 ATATCGGGAAGTCCAAGAGAGCC
*
56128591 ATATCGGGAAGCTCCAA-AGAGGC
1 ATATCGGGAAG-TCCAAGAGAGCC
56128614 ATA
1 ATA
56128617 AATCAGTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.16
Consensus pattern (23 bp):
ATATCGGGAAGTCCAAGAGAGCC
Found at i:56129724 original size:16 final size:13
Alignment explanation
Indices: 56129690--56129717 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56129680 TTTTATTTTA
56129690 TTATTTATCATCT
1 TTATTTATCATCT
56129703 TTATTTATCATCT
1 TTATTTATCATCT
56129716 TT
1 TT
56129718 CCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:56132160 original size:54 final size:53
Alignment explanation
Indices: 56132102--56132211 Score: 157
Period size: 54 Copynumber: 2.1 Consensus size: 53
56132092 ACACAGTCCG
* *
56132102 GTCCCAGCCCCTGTCCTCACCCATGTAACTCTCTAAGTAGAGTTATACGGCCGT
1 GTCCCAGCCCATGTCCTCACCCATGTAACTCTCTAAGTAGAGTTATA-GGCCAT
* * * *
56132156 GTCCCAGCCCATGTCCTCACCCGTGTAACTCTTTGAGTAGGGTTATAGGCCAT
1 GTCCCAGCCCATGTCCTCACCCATGTAACTCTCTAAGTAGAGTTATAGGCCAT
56132209 GTC
1 GTC
56132212 ACACACCCGA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 8 0.16
54 42 0.84
ACGTcount: A:0.19, C:0.33, G:0.21, T:0.27
Consensus pattern (53 bp):
GTCCCAGCCCATGTCCTCACCCATGTAACTCTCTAAGTAGAGTTATAGGCCAT
Found at i:56136730 original size:25 final size:26
Alignment explanation
Indices: 56136680--56136740 Score: 115
Period size: 25 Copynumber: 2.4 Consensus size: 26
56136670 ATAAAAAATA
56136680 ACCAAAATATTATAATTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTATTT
56136706 ACCAAAATATTATAA-TTTTTTATTT
1 ACCAAAATATTATAATTTTTTTATTT
56136731 ACCAAAATAT
1 ACCAAAATAT
56136741 ACCAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (26 bp):
ACCAAAATATTATAATTTTTTTATTT
Found at i:56136890 original size:4 final size:4
Alignment explanation
Indices: 56136881--56136940 Score: 61
Period size: 4 Copynumber: 15.0 Consensus size: 4
56136871 GAAGGAGAGG
* *
56136881 GAAA GAAA GAAA GAAA GAAA GAAA GGAAG GAGAG GAAA GAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA
*
56136929 GAAG GAAA GAAA
1 GAAA GAAA GAAA
56136941 AGGAAATGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
3 4 0.08
4 37 0.77
5 7 0.15
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:56136919 original size:22 final size:18
Alignment explanation
Indices: 56136880--56136940 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
56136870 AGAAGGAGAG
56136880 GGAAAGAAAG--AAAGAA
1 GGAAAGAAAGAAAAAGAA
* * *
56136896 AGAAAGAAAG-GAAGGAGA
1 GGAAAGAAAGAAAAAGA-A
56136914 GGAAAGAAAGAAAAAGAA
1 GGAAAGAAAGAAAAAGAA
56136932 GGAAAGAAA
1 GGAAAGAAA
56136941 AGGAAATGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 9 0.24
17 4 0.11
18 20 0.54
19 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
GGAAAGAAAGAAAAAGAA
Found at i:56141044 original size:3 final size:3
Alignment explanation
Indices: 56141036--56141076 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
56141026 TCTTAATACT
56141036 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
56141077 TAATAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:56141360 original size:27 final size:26
Alignment explanation
Indices: 56141322--56141423 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
56141312 AACACGAGTA
*
56141322 GTGCCGCCAATCAGTATGGCACCATTG
1 GTGCCGCCAATCACT-TGGCACCATTG
* * *
56141349 GTGCCACCAATCTCCTTGGCACCATCG
1 GTGCCGCCAATC-ACTTGGCACCATTG
*
56141376 GTGCCGCCAATCACTTTGGCACCTTTG
1 GTGCCGCCAATCAC-TTGGCACCATTG
56141403 GTGCCGCCAATCATCTTGGCA
1 GTGCCGCCAATCA-CTTGGCA
56141424 TGACCAGGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 61 0.95
28 2 0.03
ACGTcount: A:0.19, C:0.34, G:0.23, T:0.25
Consensus pattern (26 bp):
GTGCCGCCAATCACTTGGCACCATTG
Found at i:56141509 original size:26 final size:27
Alignment explanation
Indices: 56141473--56141531 Score: 102
Period size: 26 Copynumber: 2.2 Consensus size: 27
56141463 GTTTTTTGGT
*
56141473 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTGGGTAAATAAAAAAAGTTATA
56141499 ATATTTGGGTAAATAAAAAAAGTTATA
1 ATATTTGGGTAAATAAAAAAAGTTATA
56141526 ATATTT
1 ATATTT
56141532 TGGTTATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (27 bp):
ATATTTGGGTAAATAAAAAAAGTTATA
Found at i:56145750 original size:16 final size:16
Alignment explanation
Indices: 56145729--56145759 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56145719 ATCAATAATT
*
56145729 TTAAATAATGTTTTAG
1 TTAAATAATGATTTAG
56145745 TTAAATAATGATTTA
1 TTAAATAATGATTTA
56145760 AAAAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (16 bp):
TTAAATAATGATTTAG
Found at i:56147681 original size:23 final size:23
Alignment explanation
Indices: 56147651--56147695 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
56147641 GGAAAAGAAA
*
56147651 AAAAGAAGAAAAAAACATAAAAG
1 AAAAGAAGAAAAAAACAAAAAAG
*
56147674 AAAAGAAGAACAAAACAAAAAA
1 AAAAGAAGAAAAAAACAAAAAA
56147696 AATGTTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.80, C:0.07, G:0.11, T:0.02
Consensus pattern (23 bp):
AAAAGAAGAAAAAAACAAAAAAG
Found at i:56148425 original size:38 final size:38
Alignment explanation
Indices: 56148374--56148449 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
56148364 AATGCGTTAG
56148374 GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
1 GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
56148412 GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
1 GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
56148450 TTATGTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (38 bp):
GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
Found at i:56149118 original size:48 final size:43
Alignment explanation
Indices: 56149018--56149132 Score: 117
Period size: 46 Copynumber: 2.6 Consensus size: 43
56149008 GAATATGTAT
*
56149018 ATTATAAAATAAAACAATGTAAGTATGTACATATATATATATGC
1 ATTATAAAATAAAA-AATGTAAGTATGTACATATATATATATGA
* *
56149062 A-TAT-AAATAAAAATATGAATATGTATGTAGATTTATATATATATGA
1 ATTATAAAATAAAAA-ATG--TAAGTATGTACA--TATATATATATGA
*
56149108 ATTATAAAATATAAAAATGTGAGTA
1 ATTATAAAATA-AAAAATGTAAGTA
56149133 ATTATATAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
41 1 0.02
42 11 0.19
43 3 0.05
44 11 0.19
46 17 0.29
47 3 0.05
48 8 0.14
49 4 0.07
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (43 bp):
ATTATAAAATAAAAAATGTAAGTATGTACATATATATATATGA
Found at i:56150804 original size:16 final size:16
Alignment explanation
Indices: 56150783--56150813 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56150773 CACCTAAGAC
56150783 ACACCTCAACCTTATA
1 ACACCTCAACCTTATA
*
56150799 ACACCTCAATCTTAT
1 ACACCTCAACCTTAT
56150814 CTGGATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
ACACCTCAACCTTATA
Found at i:56153602 original size:12 final size:12
Alignment explanation
Indices: 56153585--56153609 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56153575 CTTTGATTCG
56153585 TTCTAAATCATT
1 TTCTAAATCATT
56153597 TTCTAAATCATT
1 TTCTAAATCATT
56153609 T
1 T
56153610 GATTGAAAAT
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TTCTAAATCATT
Found at i:56154091 original size:17 final size:21
Alignment explanation
Indices: 56154051--56154096 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
56154041 ATTATTTTAA
56154051 AATTATTTTTCGATCTAAATT
1 AATTATTTTTCGATCTAAATT
56154072 AATTATTTTTC-A-CT-AA-T
1 AATTATTTTTCGATCTAAATT
56154089 AATTATTT
1 AATTATTT
56154097 AATTACTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.36
18 2 0.08
19 2 0.08
20 1 0.04
21 11 0.44
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (21 bp):
AATTATTTTTCGATCTAAATT
Found at i:56158491 original size:139 final size:139
Alignment explanation
Indices: 56158290--56158565 Score: 410
Period size: 139 Copynumber: 2.0 Consensus size: 139
56158280 GGAGAACAAT
* ** * * *
56158290 AGGCTATAAGTGGATTTTTAAGCTAAAAAAGAATGGTGATGGGACTATACCCAGATATAAGGCCA
1 AGGCTAGAAGTGGATTTTTAAGCTAAAAAAGAATAATGATGGAAATATACCCAGATACAAGGCCA
56158355 AACT-AGTGGTCAAAGGGTATCTCCAAGAAACTGGTATTGATTTCCAAGAAACTTTTAGCCCTCT
66 AACTGA-TGGTCAAAGGGTATCTCCAAGAAACTGGTATTGATTTCCAAGAAACTTTTAGCCCTCT
56158419 GGTCAAACGA
130 GGTCAAACGA
* * * *
56158429 AGGCTAGAAGTGGATTTTTAATCTAAAAAAGAATAATGATGGAAATATAGCTATATACAAGGCCA
1 AGGCTAGAAGTGGATTTTTAAGCTAAAAAAGAATAATGATGGAAATATACCCAGATACAAGGCCA
* * * *
56158494 AACTGATGGTCAAAGGGTATCTCCAATAAGCTGGTATTGATTTTCAAGAAACTTTTAGTCCTCTG
66 AACTGATGGTCAAAGGGTATCTCCAAGAAACTGGTATTGATTTCCAAGAAACTTTTAGCCCTCTG
56158559 GTCAAAC
131 GTCAAAC
56158566 CAGCTACTAT
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
139 121 0.99
140 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (139 bp):
AGGCTAGAAGTGGATTTTTAAGCTAAAAAAGAATAATGATGGAAATATACCCAGATACAAGGCCA
AACTGATGGTCAAAGGGTATCTCCAAGAAACTGGTATTGATTTCCAAGAAACTTTTAGCCCTCTG
GTCAAACGA
Found at i:56159799 original size:3 final size:3
Alignment explanation
Indices: 56159793--56159875 Score: 76
Period size: 3 Copynumber: 27.7 Consensus size: 3
56159783 AGCAAGTATG
* * * * * * * * * *
56159793 AAC AAC AAC AAT AGC AAC AAC AAC AGC AGC AGC AGC AGC AGC AGC AGC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
56159841 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
56159876 TAAGAAGTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.57, C:0.31, G:0.11, T:0.01
Consensus pattern (3 bp):
AAC
Found at i:56160487 original size:33 final size:35
Alignment explanation
Indices: 56160450--56160546 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
56160440 ATGGTTATAT
56160450 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
56160483 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
56160518 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
56160547 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:56167064 original size:45 final size:45
Alignment explanation
Indices: 56166996--56167086 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
56166986 CTGTCTCGAG
**
56166996 TTTCCAAGATATCTTCCTTCTTATTCTTCTTTTTTTGCTTGTTTA
1 TTTCCAAGATATCTTCCACCTTATTCTTCTTTTTTTGCTTGTTTA
56167041 TTTCCAAGATAT-TTACCACCTTATTCTTCTTTTTTTGCTTGTTTA
1 TTTCCAAGATATCTT-CCACCTTATTCTTCTTTTTTTGCTTGTTTA
56167086 T
1 T
56167087 AATTGTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 2 0.05
45 41 0.95
ACGTcount: A:0.15, C:0.20, G:0.07, T:0.58
Consensus pattern (45 bp):
TTTCCAAGATATCTTCCACCTTATTCTTCTTTTTTTGCTTGTTTA
Found at i:56178702 original size:16 final size:18
Alignment explanation
Indices: 56178668--56178704 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
56178658 TTATAATATA
*
56178668 ATATATTATATTATCTTT
1 ATATATTATATTATATTT
56178686 ATATATTATA-TA-ATTT
1 ATATATTATATTATATTT
56178702 ATA
1 ATA
56178705 ACACATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 2 0.11
18 10 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATATTATATTATATTT
Found at i:56178980 original size:21 final size:21
Alignment explanation
Indices: 56178938--56178980 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
56178928 ATTTTAAAAT
**
56178938 TTTAAACTTTTTGTGATGAAA
1 TTTAAACTTTTTGAAATGAAA
* *
56178959 TTTAAAGTTTTTGAAATTAAA
1 TTTAAACTTTTTGAAATGAAA
56178980 T
1 T
56178981 GACTAAAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (21 bp):
TTTAAACTTTTTGAAATGAAA
Found at i:56179252 original size:9 final size:9
Alignment explanation
Indices: 56179238--56179262 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
56179228 TTTGGTTAAA
56179238 AATTAACCG
1 AATTAACCG
56179247 AATTAACCG
1 AATTAACCG
56179256 AATTAAC
1 AATTAAC
56179263 TAAATTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:56181320 original size:17 final size:18
Alignment explanation
Indices: 56181286--56181331 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
56181276 CCGTTATGTC
56181286 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
56181301 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
56181318 CGCGACCGCGACCG
1 CGCGACCGCGACCG
56181332 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:56182117 original size:16 final size:17
Alignment explanation
Indices: 56182092--56182125 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
56182082 ATCATTTTCT
*
56182092 TTTAATTATAT-AATTA
1 TTTAAATATATCAATTA
56182108 TTTAAATATATCAATTA
1 TTTAAATATATCAATTA
56182125 T
1 T
56182126 AAATTAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAATATATCAATTA
Found at i:56194206 original size:5 final size:5
Alignment explanation
Indices: 56194196--56194221 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
56194186 ATATATACAA
56194196 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
56194222 CTCTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:56196108 original size:25 final size:25
Alignment explanation
Indices: 56196080--56196194 Score: 135
Period size: 25 Copynumber: 4.5 Consensus size: 25
56196070 TGTGCAACAT
56196080 AAAGGCTTTCTTTACATTTCGCCAC
1 AAAGGCTTTCTTTACATTTCGCCAC
56196105 AAAGGCTTTCTTTACATTTCGCCAC
1 AAAGGCTTTCTTTACATTTCGCCAC
* *
56196130 AAAGGCTTTCTTTTCATAGATT-TCCAC
1 AAAGGCTTTCTTTACAT---TTCGCCAC
*
56196157 AAAGG-TTCTCTTTACATTTCGCAAC
1 AAAGGCTT-TCTTTACATTTCGCCAC
* *
56196182 AATGACTTTCTTT
1 AAAGGCTTTCTTT
56196195 TCTTTATTTG
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
24 2 0.03
25 52 0.68
26 4 0.05
27 17 0.22
28 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.39
Consensus pattern (25 bp):
AAAGGCTTTCTTTACATTTCGCCAC
Found at i:56206816 original size:28 final size:28
Alignment explanation
Indices: 56206774--56206830 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
56206764 AATAAGATTT
*
56206774 AAAAAACCTTTTTCTAAAATAAAATAAA
1 AAAAAACCTTATTCTAAAATAAAATAAA
56206802 AAAAAACCTTATTCTAAAATAAAATAAA
1 AAAAAACCTTATTCTAAAATAAAATAAA
56206830 A
1 A
56206831 GAAGTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (28 bp):
AAAAAACCTTATTCTAAAATAAAATAAA
Found at i:56218892 original size:30 final size:29
Alignment explanation
Indices: 56218843--56218906 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 29
56218833 AAATTATTAA
* *
56218843 TTTTTACTTTTCTTTGTTTAATTTTTGTATT
1 TTTTTACCTTTCTTAGTTT-ATTTTT-TATT
56218874 TTTTTACCTTT-TTAGTTTATTTTTTATT
1 TTTTTACCTTTCTTAGTTTATTTTTTATT
56218902 TTTTT
1 TTTTT
56218907 CCAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 9 0.29
29 6 0.19
30 6 0.19
31 10 0.32
ACGTcount: A:0.12, C:0.06, G:0.05, T:0.77
Consensus pattern (29 bp):
TTTTTACCTTTCTTAGTTTATTTTTTATT
Found at i:56219321 original size:15 final size:17
Alignment explanation
Indices: 56219291--56219322 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
56219281 AAATATTTAT
56219291 ACAATTATTATATAATA
1 ACAATTATTATATAATA
56219308 ACAA-TATT-TATAATA
1 ACAATTATTATATAATA
56219323 TATTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
ACAATTATTATATAATA
Found at i:56225028 original size:20 final size:20
Alignment explanation
Indices: 56225000--56225051 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
56224990 AGATGTTAAT
*
56225000 ATTTCTAATGCAAAACCAAA
1 ATTTCTAATGCAAAACAAAA
* *
56225020 ATTTTTAAT-CAATACAAAA
1 ATTTCTAATGCAAAACAAAA
56225039 ATTTCTAATGCAA
1 ATTTCTAATGCAA
56225052 TATCAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (20 bp):
ATTTCTAATGCAAAACAAAA
Found at i:56225059 original size:20 final size:20
Alignment explanation
Indices: 56225000--56225121 Score: 115
Period size: 20 Copynumber: 6.2 Consensus size: 20
56224990 AGATGTTAAT
* *
56225000 ATTTCTAATGCAAAACCAAA
1 ATTTCTAATGCAATATCAAA
*
56225020 ATTTTTAAT-CAATA-CAAAA
1 ATTTCTAATGCAATATC-AAA
56225039 ATTTCTAATGCAATATCAAA
1 ATTTCTAATGCAATATCAAA
* *
56225059 ATATC-AATGCTATATCAAA
1 ATTTCTAATGCAATATCAAA
*** *
56225078 ATTTCTAATATGATATAAAA
1 ATTTCTAATGCAATATCAAA
* *
56225098 ATCTCTAATGCAATACCAAA
1 ATTTCTAATGCAATATCAAA
56225118 ATTT
1 ATTT
56225122 TTAAGAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
18 1 0.01
19 32 0.40
20 47 0.58
21 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.34
Consensus pattern (20 bp):
ATTTCTAATGCAATATCAAA
Found at i:56225099 original size:39 final size:40
Alignment explanation
Indices: 56225025--56225121 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 40
56225015 CCAAAATTTT
* * *
56225025 TAAT-CAATACAAAAATTTCTAATGCAATATCAAAATATC
1 TAATGCAATACCAAAATTTCTAATACAATATAAAAATATC
* * ** *
56225064 -AATGCTATATCAAAATTTCTAATATGATATAAAAATCTC
1 TAATGCAATACCAAAATTTCTAATACAATATAAAAATATC
56225103 TAATGCAATACCAAAATTT
1 TAATGCAATACCAAAATTT
56225122 TTAAGAATAT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
38 3 0.07
39 27 0.59
40 16 0.35
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.33
Consensus pattern (40 bp):
TAATGCAATACCAAAATTTCTAATACAATATAAAAATATC
Found at i:56226359 original size:27 final size:27
Alignment explanation
Indices: 56226321--56226380 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
56226311 GAATCTACGT
*
56226321 CACATGAACTGGCTCACATGTGCTTGG
1 CACATTAACTGGCTCACATGTGCTTGG
56226348 CACATTAACTGGCTCACATGTGCTTGG
1 CACATTAACTGGCTCACATGTGCTTGG
56226375 CACATT
1 CACATT
56226381 CTCTTTAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (27 bp):
CACATTAACTGGCTCACATGTGCTTGG
Found at i:56227355 original size:19 final size:18
Alignment explanation
Indices: 56227329--56227364 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
56227319 GAAAAATCAT
*
56227329 TTTAAAAAATTCAAAATA
1 TTTAAAAAATCCAAAATA
56227347 TTTATAAAAATCCAAAAT
1 TTTA-AAAAATCCAAAAT
56227365 TTATATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
TTTAAAAAATCCAAAATA
Found at i:56230981 original size:25 final size:25
Alignment explanation
Indices: 56230921--56230983 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
56230911 TCCCGATCAC
56230921 AGCTCTTATGAGCTTCCCGTTATAT
1 AGCTCTTATGAGCTTCCCGTTATAT
**
56230946 AGCTCGAATGAGCTTCCCGTT-TAT
1 AGCTCTTATGAGCTTCCCGTTATAT
*
56230970 GTGCTCTTATGAGC
1 -AGCTCTTATGAGC
56230984 ATTCTCGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (25 bp):
AGCTCTTATGAGCTTCCCGTTATAT
Found at i:56238780 original size:25 final size:24
Alignment explanation
Indices: 56238752--56238816 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
56238742 CCAATATATA
56238752 GCTCTTCGAAGCTTCCCGA-TAACTG
1 GCTCTTCG-AGCTTCCCGATTAA-TG
* *
56238777 GCTCTTATGGGCTTCCCGATTAATG
1 GCTCTT-CGAGCTTCCCGATTAATG
*
56238802 GCTCTCCGGAGCTTC
1 GCTCTTC-GAGCTTC
56238817 TAGATATTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
25 28 0.88
26 4 0.12
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (24 bp):
GCTCTTCGAGCTTCCCGATTAATG
Found at i:56242206 original size:60 final size:60
Alignment explanation
Indices: 56242113--56242234 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
56242103 GGGATCAAAA
56242113 TCACATACCATGCATCAAGAATCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
1 TCACATACCATGCATCAAGAATCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
56242173 TCACATACCATGCATCAAGAATCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
1 TCACATACCATGCATCAAGAATCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
56242233 TC
1 TC
56242235 TTCCTAGTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.32
Consensus pattern (60 bp):
TCACATACCATGCATCAAGAATCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
Found at i:56243040 original size:14 final size:15
Alignment explanation
Indices: 56243023--56243055 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
56243013 TCTTTCCATT
56243023 TCTTTCT-TCTTCCC
1 TCTTTCTCTCTTCCC
56243037 TCTTTCTCTCTTCCC
1 TCTTTCTCTCTTCCC
56243052 -CTTT
1 TCTTT
56243056 ATTATATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (15 bp):
TCTTTCTCTCTTCCC
Found at i:56253160 original size:274 final size:274
Alignment explanation
Indices: 56252671--56253217 Score: 1094
Period size: 274 Copynumber: 2.0 Consensus size: 274
56252661 ATATAAAAAA
56252671 GTTAATCACGCAAAAAATCAGTCAAAAAAGTAAAAAAAATCAAAAAAATACGAAATTCAATAAAA
1 GTTAATCACGCAAAAAATCAGTCAAAAAAGTAAAAAAAATCAAAAAAATACGAAATTCAATAAAA
56252736 ATTTTAAAAAAGATTGAGCGGGTTGAATTTGGTGCCCAAAATTTCCAGATAAAAAATTCAATATA
66 ATTTTAAAAAAGATTGAGCGGGTTGAATTTGGTGCCCAAAATTTCCAGATAAAAAATTCAATATA
56252801 TAAGGACTTTCCAAATTTAATTTCGTGATTTTTAGAGATCGGGAACACCTCAAACGAAGTTGTCA
131 TAAGGACTTTCCAAATTTAATTTCGTGATTTTTAGAGATCGGGAACACCTCAAACGAAGTTGTCA
56252866 AGTTACTCTACAGTTTTTCGGGTTTTCTGTTTTCAGTAATTTTTATTGATTCTTAGCTGTAGGTT
196 AGTTACTCTACAGTTTTTCGGGTTTTCTGTTTTCAGTAATTTTTATTGATTCTTAGCTGTAGGTT
56252931 TTCATTTGTTTTCT
261 TTCATTTGTTTTCT
56252945 GTTAATCACGCAAAAAATCAGTCAAAAAAGTAAAAAAAATCAAAAAAATACGAAATTCAATAAAA
1 GTTAATCACGCAAAAAATCAGTCAAAAAAGTAAAAAAAATCAAAAAAATACGAAATTCAATAAAA
56253010 ATTTTAAAAAAGATTGAGCGGGTTGAATTTGGTGCCCAAAATTTCCAGATAAAAAATTCAATATA
66 ATTTTAAAAAAGATTGAGCGGGTTGAATTTGGTGCCCAAAATTTCCAGATAAAAAATTCAATATA
56253075 TAAGGACTTTCCAAATTTAATTTCGTGATTTTTAGAGATCGGGAACACCTCAAACGAAGTTGTCA
131 TAAGGACTTTCCAAATTTAATTTCGTGATTTTTAGAGATCGGGAACACCTCAAACGAAGTTGTCA
56253140 AGTTACTCTACAGTTTTTCGGGTTTTCTGTTTTCAGTAATTTTTATTGATTCTTAGCTGTAGGTT
196 AGTTACTCTACAGTTTTTCGGGTTTTCTGTTTTCAGTAATTTTTATTGATTCTTAGCTGTAGGTT
56253205 TTCATTTGTTTTC
261 TTCATTTGTTTTC
56253218 CTTTATTCTT
Statistics
Matches: 273, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
274 273 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (274 bp):
GTTAATCACGCAAAAAATCAGTCAAAAAAGTAAAAAAAATCAAAAAAATACGAAATTCAATAAAA
ATTTTAAAAAAGATTGAGCGGGTTGAATTTGGTGCCCAAAATTTCCAGATAAAAAATTCAATATA
TAAGGACTTTCCAAATTTAATTTCGTGATTTTTAGAGATCGGGAACACCTCAAACGAAGTTGTCA
AGTTACTCTACAGTTTTTCGGGTTTTCTGTTTTCAGTAATTTTTATTGATTCTTAGCTGTAGGTT
TTCATTTGTTTTCT
Found at i:56258468 original size:22 final size:22
Alignment explanation
Indices: 56258442--56258493 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
56258432 TTTAAAATAC
56258442 TTTAAAAATATATTTTTT-TATT
1 TTTAAAAATA-ATTTTTTGTATT
*
56258464 TTT-AAAATAATTTTTTGTGTT
1 TTTAAAAATAATTTTTTGTATT
56258485 TATTAAAAA
1 T-TTAAAAA
56258494 CCGGGCCGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.27
21 10 0.38
22 5 0.19
23 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TTTAAAAATAATTTTTTGTATT
Found at i:56263402 original size:21 final size:21
Alignment explanation
Indices: 56263376--56263417 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
56263366 GATGCCAAGC
*
56263376 CCATCTACTTAGATTTTCCCT
1 CCATCTACTTAGAATTTCCCT
56263397 CCATCTACTTAGAATTTCCCT
1 CCATCTACTTAGAATTTCCCT
56263418 TACTACACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.40
Consensus pattern (21 bp):
CCATCTACTTAGAATTTCCCT
Found at i:56265935 original size:18 final size:19
Alignment explanation
Indices: 56265912--56265959 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 19
56265902 GGAAAGTCGA
56265912 AAAATTTT-AAAACACGAG
1 AAAATTTTGAAAACACGAG
56265930 AAAATTTTGAAAACAC--G
1 AAAATTTTGAAAACACGAG
*
56265947 AAATTTTTGAAAA
1 AAAATTTTGAAAA
56265960 AGTGAAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 13 0.46
18 8 0.29
19 7 0.25
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.27
Consensus pattern (19 bp):
AAAATTTTGAAAACACGAG
Found at i:56265972 original size:61 final size:60
Alignment explanation
Indices: 56265872--56266018 Score: 172
Period size: 61 Copynumber: 2.4 Consensus size: 60
56265862 AAATAATCTT
* * *
56265872 TTTTGAGAACACAAAAATTTTTGAAAACGCGGAAAGTCGAAAAATTTTAAAACACGAGAAAA
1 TTTTGAAAACAC-GAAATTTTTGAAAAAGCGGAAAGTCGAAAAATTTTAAAACACGAG-AAA
* ***
56265934 TTTTGAAAACACGAAATTTTTGAAAAAG-TGAAAGGTCGAATTTTTTTAAAACACGAGAAA
1 TTTTGAAAACACGAAATTTTTGAAAAAGCGGAAA-GTCGAAAAATTTTAAAACACGAGAAA
*
56265994 TTGTTGAAAACACGAAA-ATTTGAAA
1 TT-TTGAAAACACGAAATTTTTGAAA
56266019 TACGAAAATT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
60 16 0.21
61 48 0.64
62 11 0.15
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.27
Consensus pattern (60 bp):
TTTTGAAAACACGAAATTTTTGAAAAAGCGGAAAGTCGAAAAATTTTAAAACACGAGAAA
Found at i:56266105 original size:18 final size:19
Alignment explanation
Indices: 56266078--56266117 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
56266068 ACAATTCTTG
56266078 AAACACGAA-TTTTTTTTA
1 AAACACGAATTTTTTTTTA
*
56266096 AAACATGAATTTTTTTTTA
1 AAACACGAATTTTTTTTTA
56266115 AAA
1 AAA
56266118 AACATGAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (19 bp):
AAACACGAATTTTTTTTTA
Found at i:56266587 original size:21 final size:21
Alignment explanation
Indices: 56266558--56266602 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
56266548 TTAATCGGAA
56266558 TTTTATTAAAATACGAGAATT
1 TTTTATTAAAATACGAGAATT
* *
56266579 TTTTTTTAAAATACGAGGATT
1 TTTTATTAAAATACGAGAATT
56266600 TTT
1 TTT
56266603 GAATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (21 bp):
TTTTATTAAAATACGAGAATT
Found at i:56266848 original size:19 final size:19
Alignment explanation
Indices: 56266820--56266856 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56266810 AACACCATTT
*
56266820 AAATACATTAAATAAAATA
1 AAATACATTAAAAAAAATA
*
56266839 AAATAGATTAAAAAAAAT
1 AAATACATTAAAAAAAAT
56266857 TTACCAAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (19 bp):
AAATACATTAAAAAAAATA
Found at i:56267066 original size:12 final size:12
Alignment explanation
Indices: 56267046--56267088 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
56267036 ATTGCTTTTA
56267046 TTCTTTTTTATT
1 TTCTTTTTTATT
56267058 GTT-TTTTTTATT
1 -TTCTTTTTTATT
*
56267070 TTCTTTTTT-CT
1 TTCTTTTTTATT
56267081 TTCTTTTT
1 TTCTTTTT
56267089 CTCTCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 11 0.39
12 15 0.54
13 2 0.07
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (12 bp):
TTCTTTTTTATT
Found at i:56267109 original size:27 final size:26
Alignment explanation
Indices: 56267068--56267121 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
56267058 GTTTTTTTTA
* * *
56267068 TTTTCTTTTTTCTTTCTTTTTCTCTCT
1 TTTTCTTTCTCCTTTCTTCTTCT-TCT
56267095 TTTTCTTTCTCCTTTCTTCTTCTTCT
1 TTTTCTTTCTCCTTTCTTCTTCTTCT
56267121 T
1 T
56267122 CCCTTTACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTCTTTCTCCTTTCTTCTTCTTCT
Found at i:56267115 original size:20 final size:20
Alignment explanation
Indices: 56267074--56267140 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
56267064 TTTATTTTCT
*
56267074 TTTTTCTTTCT-TTTTCTCTC
1 TTTTTCTTTCTCCTTTCT-TC
56267094 TTTTTCTTTCTCCTTTCTTC
1 TTTTTCTTTCTCCTTTCTTC
* *
56267114 TTCTTC-TTC-CC-TT-TAC
1 TTTTTCTTTCTCCTTTCTTC
56267130 TTTTTCTTTCT
1 TTTTTCTTTCT
56267141 TTTGAGTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 7 0.17
17 5 0.12
18 2 0.05
19 3 0.08
20 18 0.45
21 5 0.12
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTCTTTCTCCTTTCTTC
Found at i:56267335 original size:22 final size:21
Alignment explanation
Indices: 56267294--56267347 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
56267284 GCCCTGTCGC
* **
56267294 TGCTGTTTTCTTGATTTTTTGT
1 TGCTGTTTTCTTAAAATTTT-T
56267316 TGCTGTTTTCTTAAAATTTTT
1 TGCTGTTTTCTTAAAATTTTT
*
56267337 TTCT-TTTTCTT
1 TGCTGTTTTCTT
56267348 TTTCTTTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 7 0.25
21 4 0.14
22 17 0.61
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.69
Consensus pattern (21 bp):
TGCTGTTTTCTTAAAATTTTT
Found at i:56267638 original size:30 final size:30
Alignment explanation
Indices: 56267604--56267673 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
56267594 AACATGGGGC
* *
56267604 CAAAATGTAATTTTTAGAAAGTTAAATGGT
1 CAAAATGTAATTTTGAGAAAGTTAAAGGGT
* * *
56267634 CAAAATGAAATTTTGAGAAATTTAAGGGGT
1 CAAAATGTAATTTTGAGAAAGTTAAAGGGT
*
56267664 TAAAATGTAA
1 CAAAATGTAA
56267674 ATATAGGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.19, T:0.33
Consensus pattern (30 bp):
CAAAATGTAATTTTGAGAAAGTTAAAGGGT
Found at i:56267724 original size:31 final size:31
Alignment explanation
Indices: 56267633--56267724 Score: 84
Period size: 30 Copynumber: 3.0 Consensus size: 31
56267623 AGTTAAATGG
**
56267633 TCAAAATGAAATTTTGAG-AAATTTAAGGGGT
1 TCAAAATGAAATTTAAAGAAAATTT-AGGGGT
* * *
56267664 T-AAAATGTAAATAT-AGGAAATTTTA-GGGT
1 TCAAAATG-AAATTTAAAGAAAATTTAGGGGT
*
56267693 TCAAAATGCAATTTAAAGAAAATTTAGGGGT
1 TCAAAATGAAATTTAAAGAAAATTTAGGGGT
56267724 T
1 T
56267725 TGAATGTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
29 9 0.19
30 23 0.48
31 16 0.33
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (31 bp):
TCAAAATGAAATTTAAAGAAAATTTAGGGGT
Found at i:56274274 original size:30 final size:28
Alignment explanation
Indices: 56274238--56274307 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 28
56274228 TATTTCTATT
56274238 AAGAAGAGAGAATTTTCATTTTCACCCTAC
1 AAGAAGAGAGAATTTTCATTTTCACCC--C
**
56274268 AAGAAGAGAGAATTTTTGTTTTCACCCC
1 AAGAAGAGAGAATTTTCATTTTCACCCC
*
56274296 AAAAAGAGAGAA
1 AAGAAGAGAGAA
56274308 AACTTTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 12 0.32
30 25 0.68
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (28 bp):
AAGAAGAGAGAATTTTCATTTTCACCCC
Found at i:56279716 original size:41 final size:41
Alignment explanation
Indices: 56279671--56279832 Score: 254
Period size: 41 Copynumber: 4.0 Consensus size: 41
56279661 AAATTATTCA
*
56279671 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
* *
56279712 GACTATACGTCTAGCAGGCTAAATGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
56279753 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCAG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATC-G
* * *
56279795 G-CTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAAT
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAAT
56279833 TAAACTATAA
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 112 0.98
42 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
Found at i:56279845 original size:41 final size:41
Alignment explanation
Indices: 56279668--56279867 Score: 249
Period size: 41 Copynumber: 4.9 Consensus size: 41
56279658 GTGAAATTAT
*
56279668 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
56279709 TCGGACTATACGTCTAGCAGGCTAAATGCCGGTGAATTGAA
1 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
*
56279750 TCGGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * *
56279791 TCAGGCTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * * * *
56279832 TTAAACTATAAGCCTATCAGG-TGAAGTGCCAGTGAA
1 TCAGACTATACGTCTAGCAGGCT-AAGTGCCGGTGAA
56279868 TCTGTTTAAA
Statistics
Matches: 143, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 1 0.01
41 142 0.99
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (41 bp):
TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:56286780 original size:13 final size:13
Alignment explanation
Indices: 56286762--56286786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56286752 CATTTCCAGG
56286762 TCATTTTCATTTT
1 TCATTTTCATTTT
56286775 TCATTTTCATTT
1 TCATTTTCATTT
56286787 GGAAAAAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:56297774 original size:29 final size:30
Alignment explanation
Indices: 56297724--56297784 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
56297714 AAGTTTTCGT
* *
56297724 TTTGGTCACTTAACTAAACAAA-TTTACAA
1 TTTGGTCACTAAAATAAACAAAGTTTACAA
** *
56297753 TTTGGTCACTAAAATATTCAAAGTTTTCAA
1 TTTGGTCACTAAAATAAACAAAGTTTACAA
56297783 TT
1 TT
56297785 AAGCCGTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (30 bp):
TTTGGTCACTAAAATAAACAAAGTTTACAA
Done.