Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 166 of 325
Found at i:51370332 original size:14 final size:14
Alignment explanation
Indices: 51370254--51370332 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
51370244 GTATCTTGGG
*
51370254 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
*
51370269 TCTCTTT-TTCTGGA
1 TTTCTTTATTC-GGA
*
51370283 TTTCTTTATTCCGGG
1 TTTCTTTATT-CGGA
* *
51370298 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
51370313 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
51370327 TTTCTT
1 TTTCTT
51370333 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
14 21 0.41
15 28 0.55
16 2 0.04
ACGTcount: A:0.09, C:0.19, G:0.14, T:0.58
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:51371910 original size:14 final size:15
Alignment explanation
Indices: 51371867--51371921 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
51371857 CAAGGAAACC
51371867 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
51371882 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
51371897 GAATAAAG-AATCCA
1 GAATAAAGAAATCCA
51371911 GAATAAAGAAA
1 GAATAAAGAAA
51371922 CCCAAGATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 15 0.43
15 19 0.54
16 1 0.03
ACGTcount: A:0.60, C:0.11, G:0.16, T:0.13
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:51375027 original size:92 final size:91
Alignment explanation
Indices: 51374871--51375039 Score: 311
Period size: 92 Copynumber: 1.8 Consensus size: 91
51374861 GCCCCTAAGT
*
51374871 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
51374936 GAGTTCGGATGCCTAGTTACATTCAC
66 GAGTTCGGATGCCTAGTTACATTCAC
*
51374962 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51375027 CGAGTTCGGATGC
65 CGAGTTCGGATGC
51375040 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
91 27 0.36
92 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTCAC
Found at i:51375036 original size:46 final size:45
Alignment explanation
Indices: 51374866--51375035 Score: 220
Period size: 46 Copynumber: 3.7 Consensus size: 45
51374856 AACCCGCCCC
* *
51374866 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
* *
51374911 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--TCCA
* *
51374957 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATCCA
51375003 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
51375036 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 34 0.32
46 62 0.58
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
Found at i:51375055 original size:46 final size:46
Alignment explanation
Indices: 51374868--51375055 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
51374858 CCCGCCCCTA
* * * *
51374868 AGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
51374912 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
51374960 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
51375005 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
51375051 AGTGA
1 AGTGA
51375056 CATGTCACTT
Statistics
Matches: 116, Mismatches: 12, Indels: 29
0.74 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 32 0.28
46 65 0.56
47 1 0.01
48 4 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:51377444 original size:15 final size:15
Alignment explanation
Indices: 51377418--51377473 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
51377408 CAAGGAAACC
51377418 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
51377433 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
*
51377448 GAATAAAGGAATCCA
1 GAATAAAGAAATCCA
51377463 GAATAAAGAAA
1 GAATAAAGAAA
51377474 CCCAAGATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 33 0.94
16 1 0.03
ACGTcount: A:0.59, C:0.11, G:0.18, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:51378790 original size:93 final size:93
Alignment explanation
Indices: 51378662--51378832 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
51378652 GCCCCTAAGT
* *
51378662 GAACTTGGACACAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACACAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51378727 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
51378755 GAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGTACTCGGACTCAACTCA
1 GAACTCGGACACAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
51378819 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
51378833 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACACAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51378828 original size:46 final size:47
Alignment explanation
Indices: 51378657--51378829 Score: 196
Period size: 46 Copynumber: 3.7 Consensus size: 47
51378647 AACCCGCCCC
* * * *
51378657 TAAGTGAACTTGGACACAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
*
51378703 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCA
* *
51378751 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
*
51378796 TAAGTGTACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51378830 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 56 0.52
47 31 0.29
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
Found at i:51384224 original size:46 final size:46
Alignment explanation
Indices: 51384157--51384324 Score: 191
Period size: 46 Copynumber: 3.6 Consensus size: 46
51384147 CCCGCCCCTG
*
51384157 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCACATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTTCACATCCATA
* *
51384203 AGTGAATTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--G-CT--TTCACATCCATA
* * * *
51384251 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTTCACATCCATA
*
51384296 AGTGAACTCAGACTCAACTCAACGAGTTC
1 AGTGAACTCGGACTCAACTCAACGAGTTC
51384325 TGATGCTCAA
Statistics
Matches: 102, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 54 0.53
47 27 0.26
48 3 0.03
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTTCACATCCATA
Found at i:51384267 original size:93 final size:93
Alignment explanation
Indices: 51384160--51384330 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
51384150 GCCCCTGAGT
* * * *
51384160 GAACTCGGACTCAACTCAACGAGCTCGGGCTTTCACATCCATAAGTGAATTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
51384225 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
51384253 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
*
51384318 CGAGTTCTGATGC
66 CGAGTTCGGATGC
51384331 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:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51388625 original size:27 final size:27
Alignment explanation
Indices: 51388560--51388654 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
51388550 TTTTGCCTTG
51388560 TAAGGTAAAATGACCGAAATACCCC-C
1 TAAGGTAAAATGACCGAAATACCCCTC
* **
51388586 ATAGGGTTGAATGACCGAAATACCCCTC
1 -TAAGGTAAAATGACCGAAATACCCCTC
* * * *
51388614 TATGGTAAAATGACTGTAATACCCCTG
1 TAAGGTAAAATGACCGAAATACCCCTC
*
51388641 TAAGTTAAAATGAC
1 TAAGGTAAAATGAC
51388655 AGATTTGTAC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (27 bp):
TAAGGTAAAATGACCGAAATACCCCTC
Found at i:51388732 original size:23 final size:23
Alignment explanation
Indices: 51388689--51388738 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
51388679 CTACATTTGA
51388689 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
51388712 GCAT-CCATGTATGATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
51388735 GCAT
1 GCAT
51388739 TGCATGGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:51393528 original size:48 final size:46
Alignment explanation
Indices: 51393444--51393582 Score: 138
Period size: 46 Copynumber: 2.9 Consensus size: 46
51393434 TACACATATT
* *
51393444 GATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCTCTCACA-CATC
1 GATGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATC-TC
*
51393494 TG-TGCCGATGCATGTCCCAGACATGTCTTGCACTGGCTTACATCTC
1 -GATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC
* * * * *
51393540 GAGGCCGATGCATGTCCTAGACATGTCCTACACTAGCTCACAT
1 GATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACAT
51393583 AACAGTAGTG
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 40 0.52
47 2 0.03
48 13 0.17
49 12 0.16
50 8 0.10
51 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC
Found at i:51396131 original size:15 final size:15
Alignment explanation
Indices: 51396111--51396150 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
51396101 CCCATAACGG
*
51396111 AGAAATCCAGA-ATAT
1 AGAAATCCA-ACATAA
51396126 AGAAATCCAACATAA
1 AGAAATCCAACATAA
51396141 AGAAATCCAA
1 AGAAATCCAA
51396151 GACACGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.57, C:0.17, G:0.10, T:0.15
Consensus pattern (15 bp):
AGAAATCCAACATAA
Found at i:51399838 original size:46 final size:46
Alignment explanation
Indices: 51399788--51399960 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
51399778 TGGTTGAGCA
*
51399788 TCCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51399834 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAATTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
51399879 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
51399927 CCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
51399961 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51399944 original size:93 final size:93
Alignment explanation
Indices: 51399785--51399955 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
51399775 GGATGGTTGA
* * *
51399785 GCATCCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
51399850 TGAGTCCGAGTTCGTGAGATGTAATTAG
66 TGAGTCCGAGTTCGTGAGATGTAATTAG
* *
51399878 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
51399943 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51399956 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAATTAG
Found at i:51402501 original size:46 final size:44
Alignment explanation
Indices: 51402391--51402511 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 44
51402381 AGACATTCGT
* *
51402391 GCCGATGCATGTCCCAAACATGTCTTACACTAGCACATCTTGTA
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCACATCTTGAA
* *
51402435 GCCGAT-CATGTCCCAGACATGTCTTACACTGGCTTATATCTT-AA
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGC--ACATCTTGAA
* *
51402479 GGCTGATGCATGTCCCATACATGTCTTACACTG
1 -GCCGATGCATGTCCCAAACATGTCTTACACTG
51402512 TCTCACATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
43 25 0.37
44 7 0.10
45 11 0.16
46 24 0.36
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (44 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCACATCTTGAA
Found at i:51405376 original size:24 final size:24
Alignment explanation
Indices: 51405343--51405483 Score: 178
Period size: 24 Copynumber: 5.9 Consensus size: 24
51405333 TCGGTCAAGG
* *
51405343 AAATTCGCACACATAGTGCCATGC
1 AAATCCGCACACATAGTGCCATTC
*
51405367 TAA-CCTGCACACATAGTGCC-TTGC
1 AAATCC-GCACACATAGTGCCATT-C
* * *
51405391 TAATCCACACACGTAGTGCCATTC
1 AAATCCGCACACATAGTGCCATTC
*
51405415 AAATCCGTACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATTC
*
51405439 AAATCTGCACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATTC
51405463 AAATCCGCACACATAGTGCCA
1 AAATCCGCACACATAGTGCCA
51405484 ATGTCATTTC
Statistics
Matches: 101, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.02
24 95 0.94
25 4 0.04
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCCATTC
Found at i:51406082 original size:2 final size:2
Alignment explanation
Indices: 51406077--51406101 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51406067 ACACACACAC
51406077 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
51406102 CGGCAACCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51406835 original size:17 final size:17
Alignment explanation
Indices: 51406813--51406846 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51406803 CCCCACTTAA
*
51406813 TATATTATAACTTATTT
1 TATATTATAACATATTT
51406830 TATATTATAACATATTT
1 TATATTATAACATATTT
51406847 CAAAGATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:51407873 original size:27 final size:27
Alignment explanation
Indices: 51407843--51407907 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
51407833 TGCCTTGTAA
*
51407843 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATAACCCCATAG
* *
51407870 GGTAGAATGACCGAAATAACCCTATAG
1 GGTAAAATGACCGAAATAACCCCATAG
*
51407897 GGTTAAATGAC
1 GGTAAAATGAC
51407908 TATAATACCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGAAATAACCCCATAG
Found at i:51408786 original size:17 final size:16
Alignment explanation
Indices: 51408766--51408807 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
51408756 ATAAACGAGA
51408766 TTTTGAAA-TAAATAAC
1 TTTTGAAAGTAAAT-AC
51408782 GTTTT-AAAGTAAATAC
1 -TTTTGAAAGTAAATAC
51408798 TTTTGAAAGT
1 TTTTGAAAGT
51408808 GACGCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.17
16 10 0.43
17 9 0.39
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (16 bp):
TTTTGAAAGTAAATAC
Found at i:51411601 original size:46 final size:46
Alignment explanation
Indices: 51411448--51411606 Score: 153
Period size: 46 Copynumber: 3.4 Consensus size: 46
51411438 GTGCCAATGC
* * *
51411448 CATGTCCCAGACACGGTCTTACACTGGCTCATATCTCA-AGTCGATC
1 CATGTCCCAGACA-TGTCTTACACTGGCTTATATCTCAGAGTCGATG
* * * * *
51411494 CATGTCCCAAACACGGTCTTACAGTGAC-TATCATCTC-GTAGCCGATG
1 CATGTCCCAGACA-TGTCTTACACTGGCTTAT-ATCTCAG-AGTCGATG
* * * *
51411541 CATGTGCCAAACATGTCTTACACTGGCTTATGTCTCAGGGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTATATCTCAGAGTCGATG
51411587 CATGTCCCAGACATGTCTTA
1 CATGTCCCAGACATGTCTTA
51411607 TACTAGCTCT
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
45 2 0.02
46 69 0.74
47 22 0.24
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTATATCTCAGAGTCGATG
Found at i:51411622 original size:46 final size:47
Alignment explanation
Indices: 51411536--51411661 Score: 139
Period size: 46 Copynumber: 2.7 Consensus size: 47
51411526 ATCTCGTAGC
* * * * *
51411536 CGATGCATGTGCCAAACATGTCTTACACTGGCT-TATGTCTCAGGGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTACGTCTCAAGGT
* *
51411582 CGATGCATGTCCCAGACATGTCTTATACTAGCTCT-CGTCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTACGTCTCAAGGT
* * * *
51411628 TGATGCGTGTCCTAGACATGTCATACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
51411662 ACAAACAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 66 0.99
47 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTACGTCTCAAGGT
Found at i:51415579 original size:77 final size:80
Alignment explanation
Indices: 51415445--51415624 Score: 226
Period size: 77 Copynumber: 2.3 Consensus size: 80
51415435 TCGAATGATG
* *
51415445 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
51415510 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* ** **
51415524 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGT-TTTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
51415585 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
51415602 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
51415625 TTGAACGAGT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
76 1 0.01
77 47 0.53
78 15 0.17
79 14 0.16
80 11 0.12
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:51415634 original size:40 final size:39
Alignment explanation
Indices: 51415446--51415627 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
51415436 CGAATGATGT
* *
51415446 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
51415485 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
51415526 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTT-TTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51415562 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
51415603 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
51415628 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
37 12 0.10
38 20 0.17
39 19 0.16
40 59 0.49
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51421947 original size:40 final size:40
Alignment explanation
Indices: 51421891--51422108 Score: 244
Period size: 40 Copynumber: 5.5 Consensus size: 40
51421881 CATGAGCATT
* * * *
51421891 TGATTGATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGATT-ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
51421932 TGATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
51421972 TTG-TTATATCCGGGCTAAGACCCGAAGGAATTTGTGCGAG
1 -TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
51422012 TTG-TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 -TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* ** * * * **
51422052 TTACCAAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTG
1 TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
51422092 TGGTTATATCC-GGCTAA
1 TGATTATATCCGGGCTAA
51422109 ATTCGAAGAA
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
39 6 0.04
40 139 0.91
41 7 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:51428421 original size:47 final size:47
Alignment explanation
Indices: 51428346--51428456 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
51428336 CCCCTCGGGA
* * *
51428346 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
51428393 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
51428440 CTTATCACATATATACA
1 CTTATCACTTATATACA
51428457 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:51428512 original size:46 final size:46
Alignment explanation
Indices: 51428460--51428687 Score: 429
Period size: 46 Copynumber: 5.0 Consensus size: 46
51428450 ATATACATCT
* * *
51428460 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
51428506 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
51428552 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
51428598 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
51428644 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
51428688 ATATTTAACT
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:51431404 original size:40 final size:40
Alignment explanation
Indices: 51431355--51431455 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
51431345 GACTCGCTCG
* * *
51431355 ATTGTCTTCGGGACATAGCCCGG-TTATAGTGATTCACACA
1 ATTGCCTTCGGGACATAGCCCGGATT-TAGTAACTCACACA
*
51431395 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACA
1 ATTGCCTTCGGGACA-TAGCCCGGATTTAGTAACTCACACA
** *
51431435 AAAGCCTTCGGGACTTAGCCC
1 ATTGCCTTCGGGACATAGCCC
51431456 AGATACCATT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 48 0.94
41 2 0.04
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
ATTGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACA
Found at i:51432168 original size:40 final size:40
Alignment explanation
Indices: 51432119--51432386 Score: 430
Period size: 40 Copynumber: 6.7 Consensus size: 40
51432109 CCAGCATGAT
* *
51432119 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
51432159 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
51432199 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
51432239 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
51432279 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
51432319 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
51432359 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGAACTTAGCCCGGATACATC
51432387 GTCGAGACCT
Statistics
Matches: 217, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
39 3 0.01
40 214 0.99
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:51435016 original size:47 final size:47
Alignment explanation
Indices: 51434941--51435051 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
51434931 CCCCTCGGGA
* * *
51434941 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
51434988 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
51435035 CTTATCACATATATACA
1 CTTATCACTTATATACA
51435052 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:51435107 original size:46 final size:46
Alignment explanation
Indices: 51435055--51435280 Score: 411
Period size: 46 Copynumber: 5.0 Consensus size: 46
51435045 ATATACATCT
* * *
51435055 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
51435101 CATACATA--TCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
51435145 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
51435191 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
51435237 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
51435281 ATATTTAACT
Statistics
Matches: 175, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
44 42 0.24
46 133 0.76
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:51441069 original size:39 final size:40
Alignment explanation
Indices: 51441011--51441111 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
51441001 AAATTGAATG
* *
51441011 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
51441050 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
51441090 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
51441112 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:51441104 original size:40 final size:40
Alignment explanation
Indices: 51441011--51441192 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
51441001 AAATTGAATG
* * * * *
51441011 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
51441050 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
51441090 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
51441130 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
51441170 ATATCCGGG-TAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
51441193 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 44 0.36
40 75 0.62
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:51443396 original size:68 final size:70
Alignment explanation
Indices: 51443324--51443521 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
51443314 ACACCCTGTA
* * * *
51443324 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
51443386 ATAAAT
65 ATAAAT
*
51443392 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
51443457 ATAAAT
65 ATAAAT
*
51443463 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
51443522 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:51443435 original size:41 final size:41
Alignment explanation
Indices: 51443390--51443507 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
51443380 TGAAAGATAA
51443390 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
51443431 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
51443461 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
51443502 ATGTAG
1 ATGTAG
51443508 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:51443447 original size:71 final size:71
Alignment explanation
Indices: 51443358--51443521 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
51443348 GAGATGTATC
51443358 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51443423 AGGACA
66 AGGACA
51443429 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51443494 AGGACA
66 AGGACA
51443500 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
51443522 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:51450961 original size:68 final size:70
Alignment explanation
Indices: 51450889--51451086 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
51450879 ACACCCTGTA
* * * *
51450889 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
51450951 ATAAAT
65 ATAAAT
*
51450957 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
51451022 ATAAAT
65 ATAAAT
*
51451028 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
51451087 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:51451000 original size:41 final size:41
Alignment explanation
Indices: 51450955--51451072 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
51450945 TGAAAGATAA
51450955 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
51450996 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
51451026 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
51451067 ATGTAG
1 ATGTAG
51451073 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:51451012 original size:71 final size:71
Alignment explanation
Indices: 51450923--51451086 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
51450913 GAGATGTATC
51450923 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51450988 AGGACA
66 AGGACA
51450994 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51451059 AGGACA
66 AGGACA
51451065 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
51451087 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:51460287 original size:16 final size:16
Alignment explanation
Indices: 51460266--51460299 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
51460256 TATTGATTGA
*
51460266 TCCTGGTTTGACTCAT
1 TCCTGGTTCGACTCAT
51460282 TCCTGGTTCGACTCAT
1 TCCTGGTTCGACTCAT
51460298 TC
1 TC
51460300 TTATGTGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.29, G:0.18, T:0.41
Consensus pattern (16 bp):
TCCTGGTTCGACTCAT
Found at i:51462200 original size:27 final size:27
Alignment explanation
Indices: 51462170--51462429 Score: 342
Period size: 27 Copynumber: 9.6 Consensus size: 27
51462160 TTAGTTTACC
51462170 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
51462197 AAATTACTAAAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51462224 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
51462251 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51462278 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
51462305 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
51462332 AAATTTCCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
51462359 AAATTACCAAAATACCTCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
51462386 AAATTACTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
51462413 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
51462430 TCAATTTACA
Statistics
Matches: 200, Mismatches: 31, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
26 3 0.01
27 195 0.98
28 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:51462430 original size:27 final size:27
Alignment explanation
Indices: 51462170--51462484 Score: 273
Period size: 27 Copynumber: 11.7 Consensus size: 27
51462160 TTAGTTTACC
*
51462170 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * * *
51462197 AAATTACTAAAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
51462224 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
51462251 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
51462278 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
51462305 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
51462332 AAATTTCCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
51462359 AAATTACCAAAATA-CCTCTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
51462386 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
51462413 AAATTACCAAAGTACCCTCAATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** **
51462440 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
51462467 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
51462485 TGTAGGGTAG
Statistics
Matches: 235, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.01
27 228 0.97
28 5 0.02
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:51462498 original size:27 final size:27
Alignment explanation
Indices: 51462476--51462904 Score: 578
Period size: 27 Copynumber: 15.9 Consensus size: 27
51462466 AAAATTACCA
*
51462476 AAATACCCTTGTAGGGTAGAATTACT-
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
51462502 AAAGTACCCTTGTAAGGTAGAATTACTG
1 AAA-TACCCCTGTAGGGTAGAATTACTG
51462530 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
51462557 AAATACCCCTGTAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
51462584 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* **
51462611 AAATACCCCTGTAAGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
51462638 AAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
51462665 AAATACCCCTGTAGGGTAGAAATACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
51462692 AAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
51462719 -AATACCCCTGTAGGGTAGAATTGCTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * **
51462745 AAATACCTCTGTAAGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
51462772 AAATACCCCTGCAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
51462799 AAATACCCCTGTAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
* *
51462826 AAATACCCTTGTAGGGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
51462853 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
51462880 AGATA-CCCTCGTGGGGTAAAATTAC
1 AAATACCCCT-GTAGGGTAGAATTAC
51462905 CATTTTGCCC
Statistics
Matches: 358, Mismatches: 39, Indels: 11
0.88 0.10 0.03
Matches are distributed among these distances:
26 31 0.09
27 323 0.90
28 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:51463385 original size:22 final size:22
Alignment explanation
Indices: 51463333--51463397 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
51463323 TTAAAGCCTT
* *
51463333 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
51463355 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
51463377 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
51463398 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:51463586 original size:27 final size:26
Alignment explanation
Indices: 51463556--51463657 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
51463546 ATTCTGTTAA
* * *
51463556 GTGGCTTTGCCACATTATCTGTTTCTT
1 GTGGCTATGCCACAATATCTG-TTCTG
51463583 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
* *
51463610 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTATGCCACAATATCTGT-TCTG
* * *
51463637 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
51463658 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.77
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:51463651 original size:54 final size:53
Alignment explanation
Indices: 51463556--51463657 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
51463546 ATTCTGTTAA
* * * * * *
51463556 GTGGCTTTGCCACATTATCTGTTTCTTGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCAC-AATATCTGTTCTG
* *
51463610 GTGGCTCTGCCACAATATCTATATCTGGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAATATCTG
51463658 ATAACTGAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.20
54 32 0.80
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAATATCTGTTCTG
Found at i:51463848 original size:31 final size:31
Alignment explanation
Indices: 51463802--51463967 Score: 242
Period size: 31 Copynumber: 5.4 Consensus size: 31
51463792 ACATTCTAAT
* * *
51463802 TTTTTATTCTGTTACCTGATACTGATTCTAA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
51463833 TTTTGATTCTATTACCTGATACTGATTCTGA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
51463864 TTTTGATTCTATTACCTGATACTGATTCTGA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
* *
51463895 TTTTGATTCTGTTACCTGATACTGATTATGA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
* * * *
51463926 TTTTGATTCTGTCACCTAATTCTGATTCTGA
1 TTTTGATTCTATTACCTGATACTGATTCTGA
*
51463957 TTCTGATTCTA
1 TTTTGATTCTA
51463968 GTTGTGATAA
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 124 1.00
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (31 bp):
TTTTGATTCTATTACCTGATACTGATTCTGA
Found at i:51463863 original size:6 final size:6
Alignment explanation
Indices: 51463817--51463966 Score: 92
Period size: 6 Copynumber: 24.3 Consensus size: 6
51463807 ATTCTGTTAC
* * * *
51463817 CTGATA CTGATT CTAATT TTGATT CT-ATT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * *
51463866 TTGATT CT-ATT ACCTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA
1 CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT
* * * *
51463916 CTGATT ATGATT TTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
51463965 CT
1 CT
51463967 AGTTGTGATA
Statistics
Matches: 110, Mismatches: 22, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
5 9 0.08
6 86 0.78
7 9 0.08
8 6 0.05
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:51467733 original size:15 final size:15
Alignment explanation
Indices: 51467713--51467743 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
51467703 AATTATGAAA
*
51467713 GATATGTTTTGGATT
1 GATATGTTTTGCATT
51467728 GATATGTTTTGCATT
1 GATATGTTTTGCATT
51467743 G
1 G
51467744 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.52
Consensus pattern (15 bp):
GATATGTTTTGCATT
Found at i:51472443 original size:28 final size:29
Alignment explanation
Indices: 51472378--51472443 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
51472368 AAGTCTACAT
*
51472378 ACATGCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
51472407 ACATTCATATGGCCCA-TCGTCCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
51472435 ACATTCATA
1 ACATTCATA
51472444 GTCATGCAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 18 0.55
29 15 0.45
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:51476754 original size:28 final size:29
Alignment explanation
Indices: 51476713--51476806 Score: 111
Period size: 28 Copynumber: 3.3 Consensus size: 29
51476703 AAATCTACAT
* * *
51476713 ACATGCATGTGGCCCACTAGTCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
51476741 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
51476770 ACATTCATATGGCCCA-TCGGCCCCAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
51476798 ACATTCATA
1 ACATTCATA
51476807 GTCATGCAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 38 0.67
29 19 0.33
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:51478713 original size:40 final size:40
Alignment explanation
Indices: 51478654--51478822 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
51478644 CGGGACTTTA
* * *
51478654 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
51478694 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
51478734 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
51478774 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
51478814 CCCGGATAT
1 CCCGGATAT
51478823 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:51486744 original size:40 final size:40
Alignment explanation
Indices: 51486685--51486853 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
51486675 CGGGACTTTA
* * *
51486685 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
51486725 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
51486765 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
51486805 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
51486845 CCCGGATAT
1 CCCGGATAT
51486854 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:51490185 original size:40 final size:40
Alignment explanation
Indices: 51490141--51490219 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
51490131 GCCTGCTCAT
* *
51490141 ACAAGCTGATGGTCAGTACGTAACTACTCGGGCTGCTTAC
1 ACAAGCTGATGGTCAGGACGTAACTACTCGGGCTACTTAC
*
51490181 ACAAGTTGATGGTCAGGACGTAACTACTCGGGCTACTTA
1 ACAAGCTGATGGTCAGGACGTAACTACTCGGGCTACTTA
51490220 AAAAAGATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ACAAGCTGATGGTCAGGACGTAACTACTCGGGCTACTTAC
Found at i:51492713 original size:71 final size:71
Alignment explanation
Indices: 51492627--51492790 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
51492617 CGATTTGTCT
51492627 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51492692 CTTTCA
66 CTTTCA
51492698 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51492763 CTTTCA
66 CTTTCA
51492769 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
51492791 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:51500245 original size:71 final size:71
Alignment explanation
Indices: 51500161--51500324 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
51500151 CGATTTGTCT
51500161 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
51500226 CTTTCA
66 CTTTCA
* *
51500232 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
51500297 CTTTCA
66 CTTTCA
51500303 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
51500325 GATCTCACTT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:51505959 original size:29 final size:28
Alignment explanation
Indices: 51505925--51506027 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
51505915 TACTCAATCA
*
51505925 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
51505954 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
51505983 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
51506012 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
51506028 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:51512925 original size:29 final size:28
Alignment explanation
Indices: 51512891--51512993 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
51512881 TACTCAATCA
*
51512891 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
51512920 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
51512949 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
51512978 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
51512994 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:51526022 original size:46 final size:46
Alignment explanation
Indices: 51525950--51526168 Score: 169
Period size: 46 Copynumber: 4.7 Consensus size: 46
51525940 TGTAACCCGC
* * *
51525950 CCATAAGTGAACTTGGAATCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
* * * * * *
51525996 CCATCAGTGAACTGGGACTCAACTCAATGCGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTCGCAT
* * * * *
51526046 --TTCA-CGAACTCGGACTCAACTCAACGAGTT-TGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCGCAT
* * ** *
51526089 CCATAGGTGAACTCGGACTCAACTCAATGAGTTCAGATGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
*
51526135 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
51526169 GGATGCCCAA
Statistics
Matches: 132, Mismatches: 30, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
42 2 0.02
43 4 0.03
44 1 0.01
45 1 0.01
46 89 0.67
47 23 0.17
48 4 0.03
49 2 0.02
50 3 0.02
51 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
Found at i:51526117 original size:93 final size:93
Alignment explanation
Indices: 51525958--51526127 Score: 236
Period size: 93 Copynumber: 1.8 Consensus size: 93
51525948 GCCCATAAGT
* * *
51525958 GAACTTGGAATCAACTCAACGAGCTCAGGCGTTCGCATCCATCAGTGAACTGGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCAGGCATTCGCATCCATCAGTGAACTCGGACTCAACTCAA
* *
51526023 TGCGTTCGGATGCCTAGTTACATTTCAC
66 TGAGTTCAGATGCCTAGTTACATTTCAC
* **
51526051 GAACTCGGACTCAACTCAACGAG-TTTGGACATTCGCATCCAT-AGGTGAACTCGGACTCAACTC
1 GAACTCGGAATCAACTCAACGAGCTCAGG-CATTCGCATCCATCA-GTGAACTCGGACTCAACTC
51526114 AATGAGTTCAGATG
64 AATGAGTTCAGATG
51526128 TTTGCATCCA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 4 0.06
93 63 0.94
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (93 bp):
GAACTCGGAATCAACTCAACGAGCTCAGGCATTCGCATCCATCAGTGAACTCGGACTCAACTCAA
TGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:51530219 original size:10 final size:10
Alignment explanation
Indices: 51530204--51530232 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
51530194 GTCATCCATA
51530204 CCAAATCATG
1 CCAAATCATG
51530214 CCAAATCATG
1 CCAAATCATG
51530224 CCAAATCAT
1 CCAAATCAT
51530233 AATCTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.31, G:0.07, T:0.21
Consensus pattern (10 bp):
CCAAATCATG
Found at i:51532953 original size:101 final size:99
Alignment explanation
Indices: 51532735--51532935 Score: 267
Period size: 101 Copynumber: 2.0 Consensus size: 99
51532725 ATATGTGCCA
* * * * *
51532735 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACAAATGCGACCAATTATCCAGTACACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACAAACGCGACCAATTATCCAGTACACA
*
51532800 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
66 TAGTAGCCTGCACTTAGTACTACACACGCGACCT
* * * * ** *
51532834 AACTATCTGATACACGTAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACAAACGCGA-CCAA-TTATCCAGTACA
51532899 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
64 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
51532935 A
1 A
51532936 GCTACATATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 40 0.46
100 3 0.03
101 44 0.51
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACAAACGCGACCAATTATCCAGTACACA
TAGTAGCCTGCACTTAGTACTACACACGCGACCT
Found at i:51533071 original size:68 final size:64
Alignment explanation
Indices: 51532922--51533081 Score: 160
Period size: 68 Copynumber: 2.4 Consensus size: 64
51532912 ACTTAGTACT
* * * *
51532922 ACACACGCGACCTAGCTACATATATCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATC
1 ACACATGCGACCTAGCTACATATATCTCGTAGCTCTCTTGTCTACATGATGTACACATAGCACC
* * * * *
51532986 ACCCATGCGACCAAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACATGATGTGCACTTAG
1 ACACATGCGACCTAGCTACAT-AT-A--TCTCGTAGCTCTCTTGT-CTACATGATGTACACATAG
51533050 CACC
61 CACC
* *
51533054 ATACATGTGACCTAGCTACATACTATCT
1 ACACATGCGACCTAGCTACATA-TATCT
51533082 ATATCATCCA
Statistics
Matches: 77, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
64 18 0.23
65 5 0.06
66 1 0.01
67 2 0.03
68 50 0.65
69 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (64 bp):
ACACATGCGACCTAGCTACATATATCTCGTAGCTCTCTTGTCTACATGATGTACACATAGCACC
Found at i:51540798 original size:21 final size:20
Alignment explanation
Indices: 51540770--51540808 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
51540760 CTTGACACAG
*
51540770 GGGCACACACCTGTGTGAAA
1 GGGCACACACCCGTGTGAAA
*
51540790 GGGCAACACGCCCGTGTGA
1 GGGC-ACACACCCGTGTGA
51540809 CCATTTTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (20 bp):
GGGCACACACCCGTGTGAAA
Found at i:51541994 original size:47 final size:47
Alignment explanation
Indices: 51541920--51542044 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 47
51541910 GGGTAAGGCA
* * *
51541920 CCGATGCCATGTCCCAGACACGGTCTTACACTGGCTCAT-ATCT-TAAG
1 CCGAAGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCT-AG
*
51541967 TCGAAGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAG
1 CCGAAGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTC-TAG
51542015 CCGAAG-CATGTCCCAGACAT-GTCTTACACT
1 CCGAAGCCATGTCCCAGACATGGTCTTACACT
51542045 AGCTTACGTC
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 12 0.17
47 50 0.71
48 7 0.10
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (47 bp):
CCGAAGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCTAG
Found at i:51546158 original size:27 final size:27
Alignment explanation
Indices: 51546125--51546324 Score: 229
Period size: 27 Copynumber: 7.4 Consensus size: 27
51546115 TGGATAAGTT
* *
51546125 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
51546152 ATAGAATTATCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* ** * *
51546179 GTAAAATTATTGAAATGCCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
51546206 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
51546233 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
51546260 GTAGAAATACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
51546287 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
51546314 GTAAAATTACC
1 GTAGAATTACC
51546325 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 30, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:51546260 original size:81 final size:81
Alignment explanation
Indices: 51546125--51546306 Score: 258
Period size: 81 Copynumber: 2.2 Consensus size: 81
51546115 TGGATAAGTT
* *
51546125 GTAGAATTACCGAAATACCCCTATAAGATAGAATTATCAAAATACCCCTGTAGGGTA-AAATTAT
1 GTAGAATTACCGAAATACCCCTATAAGATAGAATTACCAAAATACCCCTGTAGGGTAGAAA-TAC
* * * *
51546189 TGAAATGCCCTTGTAGG
65 CGAAATACCCCTGTAAG
* * *
51546206 GTAGAATTACCGAAATACCCCTATAGGATAGAATTACCGAAATACCCTTGTAGGGTAGAAATACC
1 GTAGAATTACCGAAATACCCCTATAAGATAGAATTACCAAAATACCCCTGTAGGGTAGAAATACC
51546271 GAAATACCCCTGTAAG
66 GAAATACCCCTGTAAG
*
51546287 GTAGAATTACCGAGATACCC
1 GTAGAATTACCGAAATACCC
51546307 TTGTGGGGTA
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 87 0.97
82 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCCTATAAGATAGAATTACCAAAATACCCCTGTAGGGTAGAAATACC
GAAATACCCCTGTAAG
Found at i:51547105 original size:32 final size:33
Alignment explanation
Indices: 51547043--51547106 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
51547033 CTCGCTGCAA
* *
51547043 TCTGGTGGCTTCGCCACATATATATATATCTGC
1 TCTGGTGGCCTAGCCACATATATATATATCTGC
*
51547076 TCTGGTGGCCTAGCCACA-ATATATGTATCTG
1 TCTGGTGGCCTAGCCACATATATATATATCTG
51547107 GTGACTTCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.34
Consensus pattern (33 bp):
TCTGGTGGCCTAGCCACATATATATATATCTGC
Found at i:51549098 original size:17 final size:18
Alignment explanation
Indices: 51549076--51549109 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51549066 TGAAGCATAC
51549076 AGAAAG-TCAGAATCGTG
1 AGAAAGATCAGAATCGTG
51549093 AGAAAGATCAGAATCGT
1 AGAAAGATCAGAATCGT
51549110 TTTAGGAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (18 bp):
AGAAAGATCAGAATCGTG
Found at i:51553730 original size:27 final size:27
Alignment explanation
Indices: 51553689--51553870 Score: 204
Period size: 27 Copynumber: 6.7 Consensus size: 27
51553679 TGGATAAGTT
*
51553689 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTATCGAAATACCCCTGTAAG
* * *
51553716 GTAGAGTTATTGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAAG
*
51553743 GTAGAATTATTGAAATACCCCTGTAAG
1 GTAGAATTATCGAAATACCCCTGTAAG
* *
51553770 GTAGAATTATCAAAATACCCTTGT-AG
1 GTAGAATTATCGAAATACCCCTGTAAG
* * *
51553796 GATAGAATTACCGAAATACCCTTGTAGG
1 G-TAGAATTATCGAAATACCCCTGTAAG
* * * * *
51553824 GTAAAAATACCAAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAAG
*
51553851 GTAGAATTATCGAGATACCC
1 GTAGAATTATCGAAATACCC
51553871 TTGTGGGATA
Statistics
Matches: 132, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.02
27 127 0.96
28 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAGAATTATCGAAATACCCCTGTAAG
Found at i:51553765 original size:54 final size:54
Alignment explanation
Indices: 51553689--51553870 Score: 238
Period size: 54 Copynumber: 3.4 Consensus size: 54
51553679 TGGATAAGTT
* **
51553689 GTAGAATTACCGAAATACCCCTGTAAGGTAGAGTTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATCAAAATACCCCTGTAGG
** *
51553743 GTAGAATTATTGAAATACCCCTGTAAGGTAGAATTATCAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATCAAAATACCCCTGTAGG
* * * * * *
51553797 ATAGAATTACCGAAATACCCTTGTAGGGTAAAAATACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATCAAAATACCCCTGTAGG
* *
51553851 GTAGAATTATCGAGATACCC
1 GTAGAATTACCGAAATACCC
51553871 TTGTGGGATA
Statistics
Matches: 110, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 110 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATCAAAATACCCCTGTAGG
Found at i:51553824 original size:81 final size:81
Alignment explanation
Indices: 51553689--51553888 Score: 240
Period size: 81 Copynumber: 2.5 Consensus size: 81
51553679 TGGATAAGTT
* * * ** * * *
51553689 GTAGAATTACCGAAATACCCCTGTAAGG-TAGAGTTATTGAAATACCCCTGTAGGGTAGAATTAT
1 GTAGAATTATCGAAATACCCTTGT-AGGATAGAATTACCGAAATACCCCTGTAGGGTAAAAATAC
**
51553753 TGAAATACCCCTGTAAG
65 CAAAATACCCCTGTAAG
* *
51553770 GTAGAATTATCAAAATACCCTTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAAAAATACC
1 GTAGAATTATCGAAATACCCTTGTAGGATAGAATTACCGAAATACCCCTGTAGGGTAAAAATACC
*
51553835 AAAATACCCCTGTAGG
66 AAAATACCCCTGTAAG
* * *
51553851 GTAGAATTATCGAGATACCCTTGTGGGATAAAATTACC
1 GTAGAATTATCGAAATACCCTTGTAGGATAGAATTACC
51553889 ATTTTGCCCC
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 3 0.03
81 98 0.97
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (81 bp):
GTAGAATTATCGAAATACCCTTGTAGGATAGAATTACCGAAATACCCCTGTAGGGTAAAAATACC
AAAATACCCCTGTAAG
Found at i:51553885 original size:27 final size:27
Alignment explanation
Indices: 51553728--51553889 Score: 146
Period size: 27 Copynumber: 6.0 Consensus size: 27
51553718 AGAGTTATTG
* * ***
51553728 AAATACCCCTGTAGGGTAGAATTATTG
1 AAATACCCTTGTAGGGTAAAATTACCA
* * * *
51553755 AAATACCCCTGTAAGGTAGAATTATCA
1 AAATACCCTTGTAGGGTAAAATTACCA
* * *
51553782 AAATACCCTTGTAGGATAGAATTACCG
1 AAATACCCTTGTAGGGTAAAATTACCA
*
51553809 AAATACCCTTGTAGGGTAAAAATACCA
1 AAATACCCTTGTAGGGTAAAATTACCA
* * * *
51553836 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAAAATTACCA
*
51553863 AGATACCCTTGT-GGGATAAAATTACCA
1 AAATACCCTTGTAGGG-TAAAATTACCA
51553890 TTTTGCCCCT
Statistics
Matches: 112, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
26 3 0.03
27 109 0.97
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAAAATTACCA
Found at i:51554575 original size:27 final size:26
Alignment explanation
Indices: 51554531--51554582 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
51554521 CTCGCTGCAA
*
51554531 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
51554558 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
51554583 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:51554627 original size:27 final size:27
Alignment explanation
Indices: 51554597--51554649 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
51554587 CCTCGCTACA
*
51554597 ATCTGGTGGCCTAGCCACAATATCTGT
1 ATCTGGTGACCTAGCCACAATATCTGT
* * *
51554624 ATCTGGTGACTTCGTCACAATATCTG
1 ATCTGGTGACCTAGCCACAATATCTG
51554650 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
ATCTGGTGACCTAGCCACAATATCTGT
Found at i:51554629 original size:67 final size:67
Alignment explanation
Indices: 51554512--51554665 Score: 265
Period size: 67 Copynumber: 2.3 Consensus size: 67
51554502 GAGGAAGTGT
* * *
51554512 TCTGGCTGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTACAATCTGGTGGCCTAGCCACATATATCTGTTCTGGTGACTTCGTCACAA
51554577 TA
66 TA
51554579 TCTGGCAGCCTCGCTACAATCTGGTGGCCTAGCCACA-ATATCTGTATCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCGCTACAATCTGGTGGCCTAGCCACATATATCTGT-TCTGGTGACTTCGTCACA
51554643 ATA
65 ATA
51554646 TCTGGCAGCCTCGCTACAAT
1 TCTGGCAGCCTCGCTACAAT
51554666 TTCTGTGGTG
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
66 8 0.10
67 75 0.90
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.29
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTACAATCTGGTGGCCTAGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:51567043 original size:2 final size:2
Alignment explanation
Indices: 51567036--51567072 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
51567026 CTATAGCCGA
51567036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
51567073 ACATGCAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51570455 original size:40 final size:40
Alignment explanation
Indices: 51570253--51570441 Score: 274
Period size: 40 Copynumber: 4.7 Consensus size: 40
51570243 TATTCGGATG
*
51570253 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
51570293 A-AATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** *
51570333 A-ATTTCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
51570373 ATAACCGGGCTATGTCCCGAAGGCATTGGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
51570413 ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
51570442 AGTGAGTAGC
Statistics
Matches: 137, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.01
40 134 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:51573602 original size:24 final size:25
Alignment explanation
Indices: 51573565--51573613 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
51573555 GAAATATGTA
51573565 AGAAAGGGGTGCGAAGCATACCTTG
1 AGAAAGGGGTGCGAAGCATACCTTG
51573590 AGAAA-GGGTGCGAAGCATACCTTG
1 AGAAAGGGGTGCGAAGCATACCTTG
51573614 CGTATGTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.33, C:0.16, G:0.35, T:0.16
Consensus pattern (25 bp):
AGAAAGGGGTGCGAAGCATACCTTG
Found at i:51578244 original size:40 final size:40
Alignment explanation
Indices: 51578189--51578415 Score: 370
Period size: 40 Copynumber: 5.7 Consensus size: 40
51578179 GATGATAACC
51578189 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCG
* *
51578229 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCG
51578269 GGCTAAGTCCCGAAGGCATTT-TGCGAGTTACCAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCG
51578308 GGCTAAGTCCCGAAGGCATTT-TGCGAGTTACCAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCG
* *
51578347 GGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AATCCG
* *
51578387 GGCTATGTCCCGAAGGCATTTGAGCGAGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGT
51578416 AGCTATATCC
Statistics
Matches: 176, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 75 0.43
40 99 0.56
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCG
Found at i:51578398 original size:118 final size:119
Alignment explanation
Indices: 51578189--51578407 Score: 388
Period size: 118 Copynumber: 1.8 Consensus size: 119
51578179 GATGATAACC
*
51578189 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGCTAAGTCCCGAAGGCATTGGTGC
*
51578254 GAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTTGCGAGTTACCAAATCCG
66 GAGTTACTAATACCGGGCTAAGTCCCGAAGGCATTTTGCGAGTTACCAAATCCG
51578308 GGCTAAGTCCCGAAGGCATTT-TGCGAGTTACCAAATCCGGGCTAAGTCCCGAAGGCATTGGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGCTAAGTCCCGAAGGCATTGGTGC
*
51578372 GAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTT
66 GAGTTACTAAT-ACCGGGCTAAGTCCCGAAGGCATTT
51578408 GAGCGAGTAG
Statistics
Matches: 96, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
117 2 0.02
118 73 0.76
119 21 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (119 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGCTAAGTCCCGAAGGCATTGGTGC
GAGTTACTAATACCGGGCTAAGTCCCGAAGGCATTTTGCGAGTTACCAAATCCG
Found at i:51588245 original size:47 final size:45
Alignment explanation
Indices: 51588177--51588351 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 45
51588167 GGGCTATTGT
*
51588177 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTGTGA-
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGG--ACATTGAGAC
* *
51588223 GAGCCAGTGTAAAACCATGTCTAGGACATGGCATC-GACATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGACATTGAGAC
* * *
51588269 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATC-GACCTCGAGAC
1 GA--GCTAGTGTAAGACATGTCTAGGACATGCATCGGACATTGAGAC
* *
51588315 ATAAG-TCAATGTAAGACATGTCT-GAGACATGCATCGG
1 --GAGCT-AGTGTAAGACATGTCTAG-GACATGCATCGG
51588352 CTACGAGATG
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
45 10 0.09
46 54 0.50
47 29 0.27
48 16 0.15
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGACATTGAGAC
Found at i:51599886 original size:8 final size:8
Alignment explanation
Indices: 51599873--51599910 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
51599863 CTAGATACCG
51599873 TTCTTCTC
1 TTCTTCTC
51599881 TTCTTCTC
1 TTCTTCTC
* *
51599889 ATCTTCTA
1 TTCTTCTC
51599897 TTCTTCTC
1 TTCTTCTC
51599905 TT-TTCT
1 TTCTTCT
51599911 ATGCTTGACT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
7 4 0.15
8 22 0.85
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.63
Consensus pattern (8 bp):
TTCTTCTC
Found at i:51607328 original size:47 final size:45
Alignment explanation
Indices: 51607275--51607395 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 45
51607265 TGGCCATGAT
51607275 ATGTGATAAGGCCGAATGGCCAATGTGATGA-ATGTGGAAGTGCATAC
1 ATGTGATAAGGCCGAATGGCCAATGTGAT-ATATGTGGAAGTG-A-AC
* ** * * *
51607322 ATGTGATAAGGCCGGATGGTTAATGTGATATATGTGTACGTGAAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
* *
51607367 AGGTGATAAGGCCGAATGACCAATTGTGA
1 ATGTGATAAGGCCGAATGGCCAA-TGTGA
51607396 AAAGTGTGCA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
45 19 0.31
46 7 0.11
47 35 0.57
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.26
Consensus pattern (45 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
Found at i:51607552 original size:40 final size:39
Alignment explanation
Indices: 51607476--51607554 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
51607466 ATTGTGTTGA
* * *
51607476 GATTGTATCTGGGTTAGAGACCCGCTGGCTTCATGCTGG
1 GATTGTATCCGGGTTAAAGACCCGCTGGCTTAATGCTGG
*
51607515 GATTGTATCCGGGTTTAAAGTCCCGCAT-GCTTAATGCTGG
1 GATTGTATCCGGG-TTAAAGACCCGC-TGGCTTAATGCTGG
51607555 TGAATTAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 12 0.35
40 21 0.62
41 1 0.03
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (39 bp):
GATTGTATCCGGGTTAAAGACCCGCTGGCTTAATGCTGG
Found at i:51613375 original size:46 final size:45
Alignment explanation
Indices: 51613316--51613529 Score: 193
Period size: 46 Copynumber: 4.6 Consensus size: 45
51613306 GGGCTATTGT
* *
51613316 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTGTGA-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCC--ATTGAGAC
51613362 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CATTGAGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATTGAGAC
* * * *
51613408 GAGTGCTAGTGTAAGACATGTCTGGGACATGTATCGGCC-TCGAGAC
1 GA--GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGAC
* * * * *
51613454 GTAAGTCAGTGTAAGACATGTCTGGGACATGCATCGGCTA-CGAGAT
1 G--AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGAC
* * *
51613500 GTGTCAGTGTAAGACCATGTTTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
51613530 GTATCGGCAC
Statistics
Matches: 145, Mismatches: 13, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
44 12 0.08
45 20 0.14
46 64 0.44
47 30 0.21
48 19 0.13
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGAC
Found at i:51616145 original size:40 final size:40
Alignment explanation
Indices: 51616019--51616146 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 40
51616009 CAATCGAATG
* * * * * ***
51616019 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGGTT
* *
51616059 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGGTT
* *
51616099 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GCGGTT
51616139 ATATCCGG
1 ATATCCGG
51616147 TTGTATTCCG
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 4 0.06
40 67 0.94
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGGTT
Found at i:51624206 original size:40 final size:39
Alignment explanation
Indices: 51624079--51624208 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
51624069 ATGCTGGAAA
* *
51624079 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
51624119 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
51624159 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
51624199 TTATATCCGG
1 TTATATCCGG
51624209 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:51628171 original size:29 final size:29
Alignment explanation
Indices: 51628139--51628273 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
51628129 ATACCCTCCG
** * *
51628139 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
51628168 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
51628197 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
51628226 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
51628255 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
51628274 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:51628206 original size:58 final size:58
Alignment explanation
Indices: 51628085--51628274 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
51628075 TACTCGATTT
* * * *** *
51628085 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
51628143 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
51628201 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
51628259 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
51628275 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:51636156 original size:29 final size:29
Alignment explanation
Indices: 51636124--51636258 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
51636114 ATACCCTCCG
** * *
51636124 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
51636153 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
51636182 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
51636211 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
51636240 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
51636259 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:51636191 original size:58 final size:58
Alignment explanation
Indices: 51636070--51636259 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
51636060 TACTCGATTT
* * * *** *
51636070 CGCACACTTAGTGCCATGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTGCC--GTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
51636128 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
51636186 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
51636244 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
51636260 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 3 0.03
57 3 0.03
58 96 0.91
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:51640978 original size:18 final size:18
Alignment explanation
Indices: 51640955--51640992 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
51640945 AAAAAGGAAT
* *
51640955 TTTTCATTTTCATTTTTA
1 TTTTCAATTTCAATTTTA
51640973 TTTTCAATTTCAATTTTA
1 TTTTCAATTTCAATTTTA
51640991 TT
1 TT
51640993 ATTTTGTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTCAATTTCAATTTTA
Found at i:51644276 original size:11 final size:11
Alignment explanation
Indices: 51644260--51644290 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
51644250 TAGGATACGG
51644260 ATGACATGTAT
1 ATGACATGTAT
51644271 ATGACATGTAT
1 ATGACATGTAT
*
51644282 ACGACATGT
1 ATGACATGT
51644291 GTTGCGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGACATGTAT
Found at i:51649575 original size:46 final size:45
Alignment explanation
Indices: 51649505--51649727 Score: 207
Period size: 46 Copynumber: 4.8 Consensus size: 45
51649495 ATTTGTTTGT
* *
51649505 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGACAA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-TTGAGATAA
*
51649551 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTTGAGAT-AA
* * * * *
51649598 -AGCCAGTGTAAGACATGTCTAGGACATGCATCAGCTACGAGATTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-TGAGATAA
* * * * *
51649643 TAG-TCAGTGTAAGACCGTGTCTGGGACATGGCATTGACTTGAGATAT
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTGAGATAA
* * *
51649690 GAACCAGTGTAAGACCGTGTCTGGGACATGGCATCGGC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
51649728 ACCTTACCCA
Statistics
Matches: 148, Mismatches: 21, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
45 4 0.03
46 87 0.59
47 51 0.34
48 6 0.04
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTGAGATAA
Found at i:51652097 original size:40 final size:40
Alignment explanation
Indices: 51652038--51652206 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
51652028 CGGGACTTTA
* * *
51652038 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
51652078 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
51652118 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
51652158 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
51652198 CCCGGATAT
1 CCCGGATAT
51652207 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:51660186 original size:40 final size:40
Alignment explanation
Indices: 51660113--51660295 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
51660103 CCGCACCAAG
* * * * *
51660113 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
51660152 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
51660192 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
51660232 GCCTTCGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-T
* *
51660272 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
51660296 CATTCAATTT
Statistics
Matches: 118, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 13 0.11
40 99 0.84
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:51662051 original size:71 final size:71
Alignment explanation
Indices: 51661935--51662098 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
51661925 AACNTTGTCT
*
51661935 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACTTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51662000 CTTTCA
66 CTTTCA
51662006 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51662071 CTTTCA
66 CTTTCA
51662077 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
51662099 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:51662136 original size:71 final size:70
Alignment explanation
Indices: 51661935--51662132 Score: 267
Period size: 71 Copynumber: 2.8 Consensus size: 70
51661925 AACNTTGTCT
* * * *
51661935 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACTTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
51662000 CTTTCA
65 CTTTCA
* * *
51662006 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
51662071 CTTTCA
65 CTTTCA
* *
51662077 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
51662133 TACAGGGTCT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 95 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:51669555 original size:66 final size:68
Alignment explanation
Indices: 51669479--51669665 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
51669469 TAGTACCACT
*
51669479 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
51669541 CACG
65 CACG
51669545 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
51669610 ATCACG
63 ATCACG
51669616 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
51669666 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:51669590 original size:71 final size:71
Alignment explanation
Indices: 51669502--51669665 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
51669492 CGATTTGTCT
51669502 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51669567 CTTTCA
66 CTTTCA
51669573 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51669638 CTTTCA
66 CTTTCA
51669644 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
51669666 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:51669703 original size:71 final size:70
Alignment explanation
Indices: 51669502--51669699 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
51669492 CGATTTGTCT
* * *
51669502 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
51669567 CTTTCA
65 CTTTCA
* * *
51669573 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
51669638 CTTTCA
65 CTTTCA
* *
51669644 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
51669700 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:51673644 original size:35 final size:34
Alignment explanation
Indices: 51673596--51673662 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
51673586 TTTGGAGTGT
** *
51673596 AAAAGAATGGAAAAAGAAAGTGAAAATGAAAAAAA
1 AAAAGAAAAGAAAAAGAAAGAGAAAA-GAAAAAAA
* *
51673631 AAAAGAAAAGAAAATGAGAGAGAAAAGAAAAA
1 AAAAGAAAAGAAAAAGAAAGAGAAAAGAAAAA
51673663 GAGTTTTGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 6 0.22
35 21 0.78
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (34 bp):
AAAAGAAAAGAAAAAGAAAGAGAAAAGAAAAAAA
Found at i:51675180 original size:42 final size:42
Alignment explanation
Indices: 51675119--51675231 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
51675109 TCGTTTTCTC
** * * *
51675119 GATGCCATAGTTCAACTATGGTCTTATACATCTTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
* *
51675161 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
51675203 GATGCCATAGCCCAGCTATGGTCTTACAC
1 GATGCCATAGCCCAGCTATGGTCTTACAC
51675232 GAATCAGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
Found at i:51675303 original size:47 final size:46
Alignment explanation
Indices: 51675202--51675325 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
51675192 ATTCATATAT
* * * * *
51675202 TGATGCCATAGCCCAGCTATGGTCTTACACGAATCAGATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTATACGAAGCAGATATCACAC
* * *
51675248 TGATGCCATATTCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTATAC-GAAGCAGATATCACAC
51675295 TGATGCCATATCCCAGATATGGTCTTATACG
1 TGATGCCATATCCCAGATATGGTCTTATACG
51675326 GAAATCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (46 bp):
TGATGCCATATCCCAGATATGGTCTTATACGAAGCAGATATCACAC
Found at i:51675385 original size:31 final size:31
Alignment explanation
Indices: 51675350--51675496 Score: 208
Period size: 31 Copynumber: 4.7 Consensus size: 31
51675340 CTTGTCACTT
* *
51675350 GTAGCCGAAGCTACAACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
51675381 GTAGCC-AGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
51675412 GTATCC-AGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* *
51675443 GTAGCAGAAGCTATCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
51675474 GTAGCCGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
51675497 GTTGTCATTT
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
30 1 0.01
31 102 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:51680343 original size:42 final size:42
Alignment explanation
Indices: 51680311--51680407 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
51680301 ATAGTTCAAT
*
51680311 TATGGTCTTACACATCTTCACAAAAT-GATGCCATAGCCCAGC
1 TATGGTCTTACACATATTCA-AAAATAGATGCCATAGCCCAGC
* *
51680353 TATGGTCTTACACATATTCATATATAGATGCCATAGCCCAGC
1 TATGGTCTTACACATATTCAAAAATAGATGCCATAGCCCAGC
51680395 TATGGTCTTACAC
1 TATGGTCTTACAC
51680408 GAATCAGATA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 3 0.06
42 48 0.94
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
TATGGTCTTACACATATTCAAAAATAGATGCCATAGCCCAGC
Found at i:51680561 original size:31 final size:31
Alignment explanation
Indices: 51680526--51680641 Score: 171
Period size: 31 Copynumber: 3.7 Consensus size: 31
51680516 CTTGTCACTT
*
51680526 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
51680557 GTAGCC-AGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* *
51680588 GTAGCTGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
51680619 GTAGCAGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
51680642 GTTGTCATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
30 1 0.01
31 75 0.99
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:51680710 original size:50 final size:50
Alignment explanation
Indices: 51680650--51680745 Score: 174
Period size: 50 Copynumber: 1.9 Consensus size: 50
51680640 CAGTTGTCAT
51680650 TTGTCATTGATCAGATAAGTGTAGCCGAAGATATCACTTATCACTTTCAC
1 TTGTCATTGATCAGATAAGTGTAGCCGAAGATATCACTTATCACTTTCAC
* *
51680700 TTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
1 TTGTCATTGATCAGATAAGTGTAGCCGAAGATATCACTTATCACTT
51680746 GTTGCCATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (50 bp):
TTGTCATTGATCAGATAAGTGTAGCCGAAGATATCACTTATCACTTTCAC
Found at i:51684720 original size:28 final size:28
Alignment explanation
Indices: 51684680--51684766 Score: 129
Period size: 28 Copynumber: 3.1 Consensus size: 28
51684670 GCAATCAAAT
* *
51684680 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
51684708 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
51684736 ATGGCAGTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
51684764 ATG
1 ATG
51684767 ACATTTCTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:51685102 original size:40 final size:40
Alignment explanation
Indices: 51685004--51685107 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 40
51684994 AGCTTCAAGC
* * *
51685004 CTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAAGT
1 CTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAAT
*** ** **
51685045 CTAGCAGGCTTCGTGCCGGTGATGAATTTGGGTTTAAAAT
1 CTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAAT
51685085 CTAGCAGGCTAAATGCCGGTGAT
1 CTAGCAGGCTAAATGCCGGTGAT
51685108 TTGATAAAAG
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (40 bp):
CTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAAT
Found at i:51691376 original size:29 final size:28
Alignment explanation
Indices: 51691290--51691390 Score: 105
Period size: 29 Copynumber: 3.6 Consensus size: 28
51691280 TACTCAATCA
* *
51691290 CGCACACTTAGTGCCAT-GATTCAAGCC
1 CGCACACTTAGTGCCATACATTCAAGCT
* * * *
51691317 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACA-TTCAAGCT
*
51691346 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATACATT-CAAGCT
*
51691375 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
51691391 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
27 16 0.27
28 2 0.03
29 41 0.69
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATACATTCAAGCT
Found at i:51699319 original size:29 final size:28
Alignment explanation
Indices: 51699287--51699360 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
51699277 GATTCAAGCC
* *
51699287 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACAC-TAGTGCCATACAGTACAAACT
* *
51699316 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACAC-TAGTGCCATACAGTACAAACT
51699345 CGCACACTCAGTGCCA
1 CGCACACT-AGTGCCA
51699361 ATCTCGTCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.20
Consensus pattern (28 bp):
CGCACACTAGTGCCATACAGTACAAACT
Found at i:51701182 original size:27 final size:26
Alignment explanation
Indices: 51701138--51701189 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
51701128 CTCGCTGCAA
*
51701138 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
51701165 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
51701190 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:51701286 original size:27 final size:26
Alignment explanation
Indices: 51701234--51701293 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
51701224 ATATATATAT
*
51701234 ATATCTGTACTGGTGGCCTAGCCACA
1 ATATCTGTACTGGTGACCTAGCCACA
* * *
51701260 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTA-CTGGTGACCTAGCCACA
51701287 ATATCTG
1 ATATCTG
51701294 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (26 bp):
ATATCTGTACTGGTGACCTAGCCACA
Found at i:51708614 original size:27 final size:26
Alignment explanation
Indices: 51708570--51708621 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
51708560 CTCGCTGCAA
*
51708570 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
51708597 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
51708622 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:51711816 original size:77 final size:77
Alignment explanation
Indices: 51711683--51711857 Score: 244
Period size: 77 Copynumber: 2.3 Consensus size: 77
51711673 ATAAGTTGAG
* * **
51711683 TTGGCTTTGGGCCATGATAATAGCACTTCAGGAGTGAGCTATATCAATTTTTCTTCGGGCCATGC
1 TTGGCTTTGAGCCATGATAATAGCACTTCAGGAGCGAGCTATATCAATTTGGCTTCGGGCCATGC
51711748 ATAT-AGGATGAT
66 ATATCA-GATGAT
* * * *
51711760 TTGGCTTTGAGCCATGATAATAGCACTTCGGGAGCGAGTTATATCGATTTGGCTTCGGTCCATGC
1 TTGGCTTTGAGCCATGATAATAGCACTTCAGGAGCGAGCTATATCAATTTGGCTTCGGGCCATGC
51711825 ATATCAGATGAT
66 ATATCAGATGAT
* *
51711837 TTTGCTTCGAGCCATGATAAT
1 TTGGCTTTGAGCCATGATAAT
51711858 TTAAGTTACC
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
77 86 0.99
78 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (77 bp):
TTGGCTTTGAGCCATGATAATAGCACTTCAGGAGCGAGCTATATCAATTTGGCTTCGGGCCATGC
ATATCAGATGAT
Found at i:51715536 original size:24 final size:24
Alignment explanation
Indices: 51715268--51715534 Score: 480
Period size: 24 Copynumber: 11.1 Consensus size: 24
51715258 GCAAAGACCA
51715268 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51715292 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
51715316 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
51715340 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51715364 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
51715388 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
51715412 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
51715436 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
51715460 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51715484 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
51715508 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
51715532 TAT
1 TAT
51715535 AGTCACATTC
Statistics
Matches: 237, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 237 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Done.