Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 145 of 362
Found at i:48312544 original size:33 final size:32
Alignment explanation
Indices: 48312485--48312546 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
48312475 TGCAATTTGG
* **
48312485 TTTATTTAATTTTCTTTTTATTTATTTATTTA
1 TTTATTTAATTTTCTTTTCAGCTATTTATTTA
*
48312517 TTTATTGTGATTTTCTTTTCAGCTATTTAT
1 TTTATT-TAATTTTCTTTTCAGCTATTTAT
48312547 GAGCATACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 6 0.24
33 19 0.76
ACGTcount: A:0.19, C:0.06, G:0.05, T:0.69
Consensus pattern (32 bp):
TTTATTTAATTTTCTTTTCAGCTATTTATTTA
Found at i:48314238 original size:25 final size:24
Alignment explanation
Indices: 48314191--48314243 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
48314181 CACAAATGCA
*
48314191 GCTCTTTATGAGCATCCTGATATAG
1 GCTCTTTATGAGCATCCTCATAT-G
* * *
48314216 GCTCTTTTTGAGCTTCTTCATATG
1 GCTCTTTATGAGCATCCTCATATG
48314240 GCTC
1 GCTC
48314244 ACTTGAACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.42
Consensus pattern (24 bp):
GCTCTTTATGAGCATCCTCATATG
Found at i:48321500 original size:93 final size:93
Alignment explanation
Indices: 48321393--48321563 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
48321383 GCCCATAAGT
* *
48321393 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48321458 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
48321486 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48321551 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48321564 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:48321560 original size:46 final size:46
Alignment explanation
Indices: 48321385--48321560 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48321375 TGTAACCCGC
* * *
48321385 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48321431 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
48321481 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
48321524 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48321561 TGCTCAACCA
Statistics
Matches: 110, 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 1 0.01
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48322018 original size:30 final size:30
Alignment explanation
Indices: 48321984--48322043 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
48321974 ATTTAATACG
48321984 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
48322014 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
48322044 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:48327296 original size:93 final size:93
Alignment explanation
Indices: 48327189--48327359 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
48327179 GCCCATAAGT
*
48327189 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
48327254 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
48327282 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
48327347 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48327360 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:48327356 original size:46 final size:46
Alignment explanation
Indices: 48327181--48327356 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
48327171 TGTAACCCGC
* *
48327181 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
48327227 CCATAAGTGAACTCGAACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
48327277 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
48327320 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48327357 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 62 0.58
47 27 0.25
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48327813 original size:30 final size:30
Alignment explanation
Indices: 48327779--48327838 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
48327769 ATTTAATACG
48327779 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
48327809 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
48327839 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:48330504 original size:41 final size:41
Alignment explanation
Indices: 48330447--48330526 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
48330437 AGGTTTTTGC
*
48330447 ACACGGGCTAAGACACGAGCATG-T-CATGGCCGTGTGAAGG
1 ACACGGGCAAAGACACGAGCATGTTCCA-GGCCGTGTGAAGG
* *
48330487 ACACGGGCCAAAGACACGGGCGTGTTCCAGGCCGTGTGAA
1 ACACGGG-CAAAGACACGAGCATGTTCCAGGCCGTGTGAA
48330527 AATCCTTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 7 0.21
41 13 0.38
42 12 0.35
43 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.35, T:0.14
Consensus pattern (41 bp):
ACACGGGCAAAGACACGAGCATGTTCCAGGCCGTGTGAAGG
Found at i:48339966 original size:27 final size:27
Alignment explanation
Indices: 48339934--48340110 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48339924 TATATTAGTC
* * *
48339934 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
48339961 CGCACACTTAGTGC-ACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
48339988 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
48340015 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
48340042 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
48340069 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
48340096 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48340111 GTACAATTTA
Statistics
Matches: 131, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 7 0.05
27 116 0.89
28 8 0.06
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:48340028 original size:81 final size:81
Alignment explanation
Indices: 48339934--48340110 Score: 230
Period size: 81 Copynumber: 2.2 Consensus size: 81
48339924 TATATTAGTC
* *
48339934 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCA-CATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCATCATAATC-AACTCGCACACTTA
* *
48339998 GTGCTACATAGTCAACT
65 GTGCAACATAGTCAAAT
** ** * * **
48340015 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAG
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCATCATAATCAACTCGCACACTTAG
48340080 TGCAACATAGTCAAAT
66 TGCAACATAGTCAAAT
48340096 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48340111 GTACAATTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 76 0.93
82 6 0.07
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCATCATAATCAACTCGCACACTTAG
TGCAACATAGTCAAAT
Found at i:48347875 original size:54 final size:54
Alignment explanation
Indices: 48347808--48347983 Score: 212
Period size: 54 Copynumber: 3.3 Consensus size: 54
48347798 ATATTAAGTC
* * * *
48347808 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* * ** * *
48347862 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
48347916 CGCACACTTAGTGC-ATCAT-TTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
48347969 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48347984 GTACAATTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 42 0.41
54 61 0.59
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:48347912 original size:27 final size:27
Alignment explanation
Indices: 48347808--48347982 Score: 181
Period size: 27 Copynumber: 6.5 Consensus size: 27
48347798 ATATTAAGTC
* * * * *
48347808 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCAACATAGTCAAAT
* * *
48347835 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCAACATAGTCAAAT
* *
48347862 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCAACATAGTCAAAT
** * *
48347889 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAAAT
* * **
48347916 CGCACACTTAGTGCATCAT-TTCATTT
1 CGCACACTTAGTGCAACATAGTCAAAT
48347942 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCAACATAGTCAAAT
48347969 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48347983 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 23 0.18
27 105 0.82
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAAAT
Found at i:48350451 original size:28 final size:29
Alignment explanation
Indices: 48350423--48350476 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
48350413 CCACCCAACT
48350423 TTTTG-AAAATTACA-TTTGCCCCCAAAC
1 TTTTGCAAAATTACACTTTGCCCCCAAAC
* *
48350450 TTTTGCATAATTACACTTTGTCCCCAA
1 TTTTGCAAAATTACACTTTGCCCCCAA
48350477 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 8 0.35
29 10 0.43
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (29 bp):
TTTTGCAAAATTACACTTTGCCCCCAAAC
Found at i:48357460 original size:104 final size:104
Alignment explanation
Indices: 48357338--48357561 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
48357328 AATGGATATC
48357338 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
48357403 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
48357442 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
48357507 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
48357546 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
48357562 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:48357923 original size:29 final size:29
Alignment explanation
Indices: 48357890--48357953 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
48357880 TAATCCACCA
48357890 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
48357919 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
48357949 CCCAA
1 CCCAA
48357954 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:48357927 original size:30 final size:30
Alignment explanation
Indices: 48357897--48357953 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48357887 CCACCCAACT
48357897 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
48357926 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
48357954 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:48364843 original size:26 final size:26
Alignment explanation
Indices: 48364807--48364858 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
48364797 CACCACTGAA
* *
48364807 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
48364833 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
48364859 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:48364935 original size:70 final size:71
Alignment explanation
Indices: 48364819--48364969 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
48364809 GGGGAATCAT
*
48364819 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
48364883 ATATCG
66 ATATCG
* ***
48364889 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
48364954 GATATCG
65 GATATCG
48364961 CACTTAGCA
1 CACTTAGCA
48364970 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:48365010 original size:25 final size:25
Alignment explanation
Indices: 48364982--48365030 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
48364972 ACCAATGAAC
*
48364982 CGGGGAATCAGCACTTAGCAACCCT
1 CGGGGAATCAGCACATAGCAACCCT
48365007 CGGGGAATCAGCACATAGCAACCC
1 CGGGGAATCAGCACATAGCAACCC
48365031 CCTTTCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (25 bp):
CGGGGAATCAGCACATAGCAACCCT
Found at i:48365022 original size:102 final size:103
Alignment explanation
Indices: 48364888--48365107 Score: 354
Period size: 102 Copynumber: 2.1 Consensus size: 103
48364878 AATGGATATC
48364888 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
48364953 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
65 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
48364992 GCACTTAGCAACCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
48365056 GATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
48365094 GCACACAGCAACCC
1 GCACTTAGCAACCC
48365108 CTTTTATATA
Statistics
Matches: 109, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
102 92 0.84
103 6 0.06
104 11 0.10
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:48365471 original size:29 final size:29
Alignment explanation
Indices: 48365438--48365501 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
48365428 TAATCCACCA
48365438 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
48365467 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
48365497 CCCAA
1 CCCAA
48365502 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:48365475 original size:30 final size:30
Alignment explanation
Indices: 48365445--48365501 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48365435 CCACCCAACT
48365445 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
48365474 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
48365502 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:48366965 original size:93 final size:93
Alignment explanation
Indices: 48366802--48366972 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
48366792 ATTGGAATAT
* * *
48366802 AACTCGGACTCAACTCAACGAGCTCGAGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAAG
1 AACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
48366867 GAGTTCGAATGCCTAGTTACATTTCACG
66 AAGTTCGAATGCCTAGTTACATTTCACG
*
48366895 AACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
48366959 CAAGTTCGGATGCC
65 CAAGTTCGAATGCC
48366973 CAAATATCCG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
AAGTTCGAATGCCTAGTTACATTTCACG
Found at i:48366968 original size:46 final size:45
Alignment explanation
Indices: 48366802--48366966 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 45
48366792 ATTGGAATAT
* * *
48366802 AACTCGGACTCAACTCAACGAGCTCGAGCGTTCGTATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGA-CATTCGCATCCATAAGTG
* * * * *
48366848 AACTCGGACTCAACTCAAGGAGTTCGA-ATGC-CTAGTTACATTTCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGACATTCGC-A--TCCA--TAAGTG
48366895 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTC-GACATTCGCATCCATAAGTG
*
48366941 AACTCGGACTCAACTCAACAAGTTCG
1 AACTCGGACTCAACTCAACGAGTTCG
48366967 GATGCCCAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
44 3 0.03
45 3 0.03
46 53 0.55
47 28 0.29
48 4 0.04
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
AACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCATAAGTG
Found at i:48385038 original size:40 final size:40
Alignment explanation
Indices: 48384983--48385184 Score: 302
Period size: 40 Copynumber: 5.1 Consensus size: 40
48384973 TGGATGATAA
* * *
48384983 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
48385023 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48385063 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48385103 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48385143 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
48385182 CCG
1 CCG
48385185 ATTAAATCCC
Statistics
Matches: 151, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
38 2 0.01
39 17 0.11
40 132 0.87
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48387946 original size:26 final size:27
Alignment explanation
Indices: 48387911--48387972 Score: 99
Period size: 26 Copynumber: 2.3 Consensus size: 27
48387901 AGATATATGC
*
48387911 CCCTATGAGGTAAAATGACTGTTACG-
1 CCCTATGAGGTAAAATGACTGATACGA
*
48387937 CCCTATGAGGTAAAATGACTGATATGA
1 CCCTATGAGGTAAAATGACTGATACGA
48387964 CCCTATGAG
1 CCCTATGAG
48387973 ATGTATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 24 0.73
27 9 0.27
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (27 bp):
CCCTATGAGGTAAAATGACTGATACGA
Found at i:48388294 original size:34 final size:34
Alignment explanation
Indices: 48388246--48388342 Score: 160
Period size: 34 Copynumber: 2.9 Consensus size: 34
48388236 TGTATTTTGT
* *
48388246 ACTGATATTATTACTGAATTGGGCTAAGGCCCAC
1 ACTGATACTGTTACTGAATTGGGCTAAGGCCCAC
*
48388280 ACTGATACTGTTACTGAATTGGGCTAAGGCCTAC
1 ACTGATACTGTTACTGAATTGGGCTAAGGCCCAC
48388314 ACTGATACTGTTACTGAA-TGGGCTAAGGC
1 ACTGATACTGTTACTGAATTGGGCTAAGGC
48388343 GCTAACTGAG
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 11 0.18
34 49 0.82
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (34 bp):
ACTGATACTGTTACTGAATTGGGCTAAGGCCCAC
Found at i:48389735 original size:26 final size:27
Alignment explanation
Indices: 48389648--48389724 Score: 122
Period size: 26 Copynumber: 2.9 Consensus size: 27
48389638 CAAATTGATG
*
48389648 AAATGACTGTTATGCCCCTATGAGGTA
1 AAATGACTGATATGCCCCTATGAGGTA
48389675 AAATGACT-ACTATG-CCCTATGAGGTA
1 AAATGACTGA-TATGCCCCTATGAGGTA
48389701 AAATGACTGATATGCCCCTATGAG
1 AAATGACTGATATGCCCCTATGAG
48389725 ATGTATGACT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
26 24 0.52
27 22 0.48
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (27 bp):
AAATGACTGATATGCCCCTATGAGGTA
Found at i:48392629 original size:37 final size:37
Alignment explanation
Indices: 48392579--48392657 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
48392569 TTATTACGAA
* *
48392579 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
48392616 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
48392653 GTCTT
1 GTCTT
48392658 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:48392854 original size:47 final size:47
Alignment explanation
Indices: 48392776--48393356 Score: 1004
Period size: 47 Copynumber: 12.4 Consensus size: 47
48392766 CCCTTCGGGA
* * * * * * *
48392776 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48392823 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48392870 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48392917 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48392964 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48393011 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48393058 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48393105 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48393150 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48393197 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48393244 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48393291 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48393338 CTTATCACATATATACACT
1 CTTATCACATATATACACT
48393357 GTCTTGGCTG
Statistics
Matches: 509, Mismatches: 23, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
45 44 0.09
47 465 0.91
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48401114 original size:24 final size:24
Alignment explanation
Indices: 48401078--48401150 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
48401068 GGGTCAACAT
*
48401078 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
48401102 TGGCACTATGTGTGCGAAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
48401126 TGGCATTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
48401150 T
1 T
48401151 ATCAATACAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.25, C:0.11, G:0.30, T:0.34
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:48408578 original size:15 final size:15
Alignment explanation
Indices: 48408558--48408587 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48408548 TATATATAAC
48408558 TATATATATATGTGT
1 TATATATATATGTGT
*
48408573 TATATATGTATGTGT
1 TATATATATATGTGT
48408588 AATTGAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (15 bp):
TATATATATATGTGT
Found at i:48409063 original size:24 final size:24
Alignment explanation
Indices: 48409029--48409087 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
48409019 GTCAACATTA
* *
48409029 GCACTAAGTGTACGAATTTGAATG
1 GCACTATGTGTACGAAATTGAATG
**
48409053 GCACTATGTGTTGGAAATTGAATG
1 GCACTATGTGTACGAAATTGAATG
48409077 GCACTATGTGT
1 GCACTATGTGT
48409088 GTTGATTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (24 bp):
GCACTATGTGTACGAAATTGAATG
Found at i:48409097 original size:24 final size:24
Alignment explanation
Indices: 48409042--48409100 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
48409032 CTAAGTGTAC
48409042 GAATTTGAATGGCACTATGTGTTG
1 GAATTTGAATGGCACTATGTGTTG
* *
48409066 GAAATTGAATGGCACTATGTGTGTT
1 GAATTTGAATGGCACTATGTGT-TG
48409091 G-ATTTGAATG
1 GAATTTGAATG
48409101 TCAATACATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 29 0.94
25 2 0.06
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (24 bp):
GAATTTGAATGGCACTATGTGTTG
Found at i:48415779 original size:57 final size:58
Alignment explanation
Indices: 48415714--48415853 Score: 180
Period size: 57 Copynumber: 2.4 Consensus size: 58
48415704 ATATAGACAG
48415714 CAGGATTACCAGTCCAGGCTAAATCCT-GTCTACAATATATACTC-AATAGAGCTT-AGT
1 CAGGATTACCAGTCCAGGCTAAATCCTAGTCTACAATATATACTCTAA-AGAGCTTGA-T
* *
48415771 CAGGATTACTAGTCCAGGCTAAAT-CTAGTCTACAATATATGCTCTAAAGAGCTTGAT
1 CAGGATTACCAGTCCAGGCTAAATCCTAGTCTACAATATATACTCTAAAGAGCTTGAT
* * **
48415828 CTGGATTACCCGTCCTCGCTAAATCC
1 CAGGATTACCAGTCCAGGCTAAATCC
48415854 AATCCATAAC
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
56 2 0.03
57 66 0.92
58 4 0.06
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (58 bp):
CAGGATTACCAGTCCAGGCTAAATCCTAGTCTACAATATATACTCTAAAGAGCTTGAT
Found at i:48425822 original size:17 final size:17
Alignment explanation
Indices: 48425802--48425861 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
48425792 GCAAACATAC
*
48425802 TTTTTTTTCTAATCTTT
1 TTTTTTTTCTCATCTTT
* * *
48425819 TTTTCTTGCTCTTC-TT
1 TTTTTTTTCTCATCTTT
*
48425835 TTTCTTTTCTCA-CTTGT
1 TTTTTTTTCTCATCTT-T
48425852 TTTTTTTTCT
1 TTTTTTTTCT
48425862 TTTGCTATTT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
15 1 0.03
16 11 0.34
17 20 0.62
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTTTTTCTCATCTTT
Found at i:48425918 original size:20 final size:20
Alignment explanation
Indices: 48425819--48425918 Score: 60
Period size: 20 Copynumber: 4.7 Consensus size: 20
48425809 TCTAATCTTT
* *
48425819 TTTTCTTGCTCTTCTTTTTC
1 TTTTCTTTCTTTTCTTTTTC
*
48425839 TTTTCTCACTTGTTTT-TTTTTC
1 TTTTCT---TTCTTTTCTTTTTC
*
48425861 TTTTGCTATTTTTGCATTCTTTTTC
1 TTTT-CT-TTCTT---TTCTTTTTC
*
48425886 TTTTTTTTCTTTTCTTTTTC
1 TTTTCTTTCTTTTCTTTTTC
48425906 ATTTTCTTT-TTTT
1 -TTTTCTTTCTTTT
48425919 TTCACATTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
20 19 0.30
21 11 0.17
22 10 0.16
23 10 0.16
24 3 0.05
25 10 0.16
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.75
Consensus pattern (20 bp):
TTTTCTTTCTTTTCTTTTTC
Found at i:48431110 original size:30 final size:31
Alignment explanation
Indices: 48431034--48431122 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 31
48431024 TCCAACTCAC
* *
48431034 GAGCTAAACCTTAGCTCAACTTCAGCT-TAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTCAAG
* * *
48431064 GAGTTTAACCTCAGCTCAACTTTAGCTCAAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTCAAG
* *
48431095 G-GCTAAAGCTTAGCTC-ATTTTAGCTCAA
1 GAGCTAAACCTTAGCTCAACTTTAGCTCAA
48431123 ACCCGATTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 11 0.23
30 34 0.71
31 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTCAAG
Found at i:48438016 original size:23 final size:23
Alignment explanation
Indices: 48437990--48438034 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
48437980 ATTTTAGGTT
48437990 AATTTAATAATTTAATAATTTTA
1 AATTTAATAATTTAATAATTTTA
* * *
48438013 AATTTTATTATTTTATAATTTT
1 AATTTAATAATTTAATAATTTT
48438035 TTTAAGACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
AATTTAATAATTTAATAATTTTA
Found at i:48438018 original size:7 final size:8
Alignment explanation
Indices: 48437989--48438034 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
48437979 TATTTTAGGT
*
48437989 TAATTTAA
1 TAATTTTA
*
48437997 TAATTTAA
1 TAATTTTA
48438005 TAATTTTA
1 TAATTTTA
48438013 -AATTTTA
1 TAATTTTA
*
48438020 TTATTTTA
1 TAATTTTA
48438028 TAATTTT
1 TAATTTT
48438035 TTTAAGACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 7 0.21
8 27 0.79
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TAATTTTA
Found at i:48438034 original size:16 final size:16
Alignment explanation
Indices: 48437989--48438034 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
48437979 TATTTTAGGT
* *
48437989 TAATTTAATAATTTAA
1 TAATTTTATAATTTTA
48438005 TAATTTTA-AATTTTA
1 TAATTTTATAATTTTA
*
48438020 TTATTTTATAATTTT
1 TAATTTTATAATTTT
48438035 TTTAAGACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TAATTTTATAATTTTA
Found at i:48438522 original size:21 final size:20
Alignment explanation
Indices: 48438471--48438522 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
48438461 CTTGAACCAC
* *
48438471 AAACCCTAAATTTAAACATT
1 AAACCCTAACTTCAAACATT
* *
48438491 AAACCTGTAACTTCAAACCCTT
1 AAACC-CTAACTTCAAA-CATT
48438513 AAACCCTAAC
1 AAACCCTAAC
48438523 AAGAATTCTG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 5 0.20
21 12 0.48
22 8 0.32
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.25
Consensus pattern (20 bp):
AAACCCTAACTTCAAACATT
Found at i:48439204 original size:15 final size:15
Alignment explanation
Indices: 48439176--48439208 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
48439166 TTATTTCCTC
48439176 TCTCGTCTGTTTTTG
1 TCTCGTCTGTTTTTG
48439191 TCTC-TCTGTCTTTTG
1 TCTCGTCTGT-TTTTG
48439206 TCT
1 TCT
48439209 TTCTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.00, C:0.24, G:0.15, T:0.61
Consensus pattern (15 bp):
TCTCGTCTGTTTTTG
Found at i:48445260 original size:22 final size:22
Alignment explanation
Indices: 48445234--48445277 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
48445224 CATAAATTGT
48445234 AAGTACATGTGTAAATAATGTG
1 AAGTACATGTGTAAATAATGTG
*
48445256 AAGTACTTGTGTAAATAATGTG
1 AAGTACATGTGTAAATAATGTG
48445278 TCAATATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (22 bp):
AAGTACATGTGTAAATAATGTG
Found at i:48445591 original size:43 final size:43
Alignment explanation
Indices: 48445505--48445591 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
48445495 AAATTATATG
* * * **
48445505 ATCTGAACTCATTGAGTTGGTTTGAGTTTATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGATCTGAGTTCATGATATACATGAC
* *
48445548 ATCTGAGCTCATTGAGTTGATCTGAGTTCATGATGTACATGAC
1 ATCTGAACTCATTGAGTTGATCTGAGTTCATGATATACATGAC
48445591 A
1 A
48445592 CATGTAATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (43 bp):
ATCTGAACTCATTGAGTTGATCTGAGTTCATGATATACATGAC
Found at i:48449180 original size:27 final size:27
Alignment explanation
Indices: 48449147--48449350 Score: 248
Period size: 27 Copynumber: 7.6 Consensus size: 27
48449137 TAAATTGTAC
*
48449147 AGCACTAAGTGTGCAATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
48449174 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48449201 TGCACTAAGTGTGCGAAATGAATATGGT
1 AGCACTAAGTGTGCGATTTGACTAT-GT
* * *
48449229 -GCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
48449255 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
48449282 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48449309 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48449336 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48449351 GACTCAATAT
Statistics
Matches: 155, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 152 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48467019 original size:18 final size:18
Alignment explanation
Indices: 48466996--48467031 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
48466986 AGTTCAGTAT
48466996 ACATACCTCATCAAAGCA
1 ACATACCTCATCAAAGCA
48467014 ACATACCTCATCAAAGCA
1 ACATACCTCATCAAAGCA
48467032 TTCACCAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.33, G:0.06, T:0.17
Consensus pattern (18 bp):
ACATACCTCATCAAAGCA
Found at i:48477849 original size:56 final size:56
Alignment explanation
Indices: 48477763--48477882 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
48477753 ACAAGGGATG
48477763 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
48477819 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
48477875 ATGGGCAA
1 ATGGGCAA
48477883 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:48479077 original size:40 final size:40
Alignment explanation
Indices: 48478849--48479070 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
48478839 AATGATGTCT
* * * *
48478849 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * *
48478889 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* * **
48478929 GGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAATTT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* * *
48478968 GAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
48479008 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
48479048 GTGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
48479071 AACGAGTAGC
Statistics
Matches: 154, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
39 30 0.19
40 114 0.74
41 10 0.06
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:48485587 original size:55 final size:56
Alignment explanation
Indices: 48485503--48485621 Score: 231
Period size: 55 Copynumber: 2.1 Consensus size: 56
48485493 ACAAGGGATG
48485503 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAA-AATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
48485558 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
48485614 ATGGGCAA
1 ATGGGCAA
48485622 TAAACTAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 40 0.63
56 23 0.37
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:48486669 original size:40 final size:40
Alignment explanation
Indices: 48486585--48486809 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
48486575 TCGAATGATG
* * * * * *
48486585 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
48486625 TCCGGACTAAGAT-CCGATGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48486665 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
**
48486704 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48486744 TCC-GAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGA-CTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
48486785 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
48486810 AACGAATAGC
Statistics
Matches: 158, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 34 0.22
40 113 0.72
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48486827 original size:80 final size:79
Alignment explanation
Indices: 48486624--48486842 Score: 230
Period size: 80 Copynumber: 2.8 Consensus size: 79
48486614 AAGTGACCAT
* * ** * *
48486624 ATCCGGACTAAGAT-CCGATGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAGATACTAAATCC-GGTTAAGTCCCGAAGGCAT
48486687 TGGTGCGAGTTACTAA
64 TGGTGCGAGTTACTAA
* ** *
48486703 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGAGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGATACTAAATCCG-GTTAAGTCCCGAAGGCATT
*
48486768 TGTGCGAGTTACTATA
65 GGTGCGAGTTACTA-A
* * * *
48486784 A-CCGGGCTATGTCCCGAAGGCATTTGAACGA-ATAGCTATATCCGGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGATA-CTAAATCCGGTTAAGTCCCGAAGG
48486843 TACGTGATTT
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 57 0.47
80 59 0.49
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGATACTAAATCCGGTTAAGTCCCGAAGGCATTG
GTGCGAGTTACTAA
Found at i:48495972 original size:49 final size:47
Alignment explanation
Indices: 48495848--48496213 Score: 211
Period size: 50 Copynumber: 7.7 Consensus size: 47
48495838 GGTATAATGT
* * * *
48495848 CGATGCCATGTCCCAGACATGGTCTTACATTGGCTCATCCATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGC
*
48495895 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATC-AAGC
* * **
48495944 CGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCA-ATC-AAGC
* * * * * **
48495994 CAATGGCAGGTCCCAGACATGGTTTTACACTAGCTCTCA-CATATCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCA-ATC-AAGC
* * * * *
48496044 CGATGGCAGGTCCCAGACATTGTCTTACACTGACACATC--TCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATC-AAGC
**
48496090 CGATG-CATG-CTCCAGACAT-GTCTTACACT-AGCTC-TCGTCTCAATGC
1 CGATGCCATGTC-CCAGACATGGTCTTACACTGA-CTCATC-AATCAA-GC
* * *
48496136 CGATGCCATGTCCGAGACATGGTCTTACACTGGCTC-TC-ATAAAGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAA---GC
* *
48496184 AGATG-CATGTCTCAGACAT-GTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
48496214 GCACACAAAT
Statistics
Matches: 265, Mismatches: 34, Indels: 41
0.78 0.10 0.12
Matches are distributed among these distances:
43 3 0.01
44 13 0.05
45 12 0.05
46 35 0.13
47 56 0.21
48 28 0.11
49 35 0.13
50 79 0.30
51 3 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGC
Found at i:48496028 original size:50 final size:50
Alignment explanation
Indices: 48495953--48496074 Score: 217
Period size: 50 Copynumber: 2.4 Consensus size: 50
48495943 CCGATACCAT
48495953 GTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCAATGGCAG
1 GTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCAATGGCAG
* *
48496003 GTCCCAGACATGGTTTTACACTAGCTCTCACATATCTGTGCCGATGGCAG
1 GTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCAATGGCAG
*
48496053 GTCCCAGACATTGTCTTACACT
1 GTCCCAGACATGGTCTTACACT
48496075 GACACATCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (50 bp):
GTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCAATGGCAG
Found at i:48496215 original size:46 final size:45
Alignment explanation
Indices: 48496091--48496215 Score: 130
Period size: 48 Copynumber: 2.7 Consensus size: 45
48496081 TCTCGTAGCC
* * * *
48496091 GATGCATG-CTCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCATGTCT-CAGACATGTCTTACACTGGCTCTCG-ATAAATGCA
48496137 GATGCCATGTC-CGAGACATGGTCTTACACTGGCTCTC-ATAAAGTGGCA
1 GATG-CATGTCTC-AGACAT-GTCTTACACTGGCTCTCGATAAA-T-GCA
48496185 GATGCATGTCTCAGACATGTCTTACACTGGC
1 GATGCATGTCTCAGACATGTCTTACACTGGC
48496216 ACACAAATAA
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
46 21 0.31
47 23 0.34
48 24 0.35
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (45 bp):
GATGCATGTCTCAGACATGTCTTACACTGGCTCTCGATAAATGCA
Found at i:48503771 original size:43 final size:43
Alignment explanation
Indices: 48503602--48503854 Score: 212
Period size: 43 Copynumber: 5.9 Consensus size: 43
48503592 TACGGTACTA
* * *
48503602 ATCGGGTCTTTGAGCCTAGCAGGCTATAATGCCAGTGAAATGAT
1 ATCGGG-CTTCGACCCTAGCAGGCTATAATGCCGGTGAAATGAT
* ** * *
48503646 ATCGAGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGAT-ACT
1 ATCG-GGCTTCGACCCTAGCAGGCTATAATGCCGGTGAAATGA-T
* * *
48503690 ATTTGGTTCTTCGAGCCC-AGCAGGCTATAATGCTGGTGAAATGAT
1 A-TCGG-GCTTCGA-CCCTAGCAGGCTATAATGCCGGTGAAATGAT
* *
48503735 ATCGGGCATCGACCCTAACAGGCTATAATGCCGGTGAAATGAT
1 ATCGGGCTTCGACCCTAGCAGGCTATAATGCCGGTGAAATGAT
* * * *
48503778 ATCGGGCTTCGAGCCTAGCAGGCGA-AATGCCGATG-GATGA-
1 ATCGGGCTTCGACCCTAGCAGGCTATAATGCCGGTGAAATGAT
* ** *
48503818 ATTCGGGTTTAAAACCTAGCAGGCTA-AATGCCGGTGA
1 A-TCGGGCTTCGACCCTAGCAGGCTATAATGCCGGTGA
48503855 TTTGATAAAA
Statistics
Matches: 172, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.01
41 32 0.19
42 12 0.07
43 52 0.30
44 41 0.24
45 31 0.18
46 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (43 bp):
ATCGGGCTTCGACCCTAGCAGGCTATAATGCCGGTGAAATGAT
Found at i:48505993 original size:84 final size:84
Alignment explanation
Indices: 48505894--48506076 Score: 294
Period size: 84 Copynumber: 2.2 Consensus size: 84
48505884 CATGTACTGG
** *
48505894 TAATTCATTTCATATTGATAAATTAATCAACCCTGAATCATCTTAATTGTGTTCAATTTAGCAAT
1 TAATTCATTTCATATTGATAAATTAATCAACCCTGAATCATCTTAATCATGTTCAATTTAGCAAC
*
48505959 CGGAACAAATGTTTCTTGA
66 CGAAACAAATGTTTCTTGA
* * * *
48505978 TAATTCATTTTATATTGATAACTTTATCAACCCTGAATCATCTTAATCATTTTCAATTTAGCAAC
1 TAATTCATTTCATATTGATAAATTAATCAACCCTGAATCATCTTAATCATGTTCAATTTAGCAAC
48506043 CGAAACAAATGTTTCTTGA
66 CGAAACAAATGTTTCTTGA
48506062 TAATTCATTTCATAT
1 TAATTCATTTCATAT
48506077 GTCTAAATGA
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.41
Consensus pattern (84 bp):
TAATTCATTTCATATTGATAAATTAATCAACCCTGAATCATCTTAATCATGTTCAATTTAGCAAC
CGAAACAAATGTTTCTTGA
Found at i:48513301 original size:79 final size:81
Alignment explanation
Indices: 48513133--48513317 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
48513123 GCTACTCGTT
* *
48513133 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
48513197 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * ** *
48513214 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA
* *
48513276 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
48513293 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
48513318 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCAC
Found at i:48513317 original size:40 final size:40
Alignment explanation
Indices: 48513116--48513317 Score: 216
Period size: 40 Copynumber: 5.1 Consensus size: 40
48513106 GAATTTAACT
** *
48513116 GGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
48513156 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
48513196 AGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
48513235 GGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCC
* * *
48513275 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 GGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
48513315 GGA
1 GGA
48513318 CATCATTCGA
Statistics
Matches: 135, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 90 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:48518137 original size:43 final size:43
Alignment explanation
Indices: 48518073--48518561 Score: 600
Period size: 43 Copynumber: 11.3 Consensus size: 43
48518063 CATAGGATTT
* *
48518073 TCGATATGTGATTACGTGTAAGACCACGTCTGGGTCGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
* * * *
48518116 TCAATATGTGATTATGTGTAAGACCACGTCTGGTACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
*
48518159 TCGATATGTGATTACATGTAAGAAGACCACGTCTGGGACATTGGCA
1 TCGATATGTGATTACGTGT---AAGACCACGTCTGGGACATTGGCA
* *
48518205 TCGATATGTGATTACGTATAAGACCATGTCTGGGACATTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
* * * ** *
48518248 TCGATATGCGATTATGTGTAAGACCATGTCTGATACATTTGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
* *
48518291 TCGATATGTGATTACGTGTAAGACCATGTTTGGGACATTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
* * * * *
48518334 TCGATATGCGATTATGTGTAAGACCGCGTCTGAGACATTTGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
* * *
48518377 TCAATATGTGATTACGTGTAAAACCACATCTGGGACATTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
* * ** *
48518420 TCGATATGTGATTCCGTGTAAGACCACATCTGGGATGTTTGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
* * *
48518463 TCAATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
* * ***
48518506 TCGATATGTGATTACGAGTAAGACCACGTTTAATACATTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
*
48518549 ACGATATGTGATT
1 TCGATATGTGATT
48518562 CCGATATATG
Statistics
Matches: 385, Mismatches: 58, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
43 346 0.90
46 39 0.10
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:48518593 original size:56 final size:56
Alignment explanation
Indices: 48518507--48518754 Score: 327
Period size: 56 Copynumber: 4.4 Consensus size: 56
48518497 ACGTTGGCAT
* * *
48518507 CGATATGTGAT-TACGAGTAAGACCACGTTTAATACATTGGCAACGATATGTGATTC
1 CGATATGTG-TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* * * *
48518563 CGATATATGTGTGCGAGTAAGACCATGTTTAATATGTTGGCATCGATATGTGATTT
1 CGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* * *
48518619 CGATATGTGTGTGCGAGTAAGAACACGTTTAATACGTTTGCATCGGTATGTGATTC
1 CGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* * * * *
48518675 TGATATGTGTGTGAGAGTAAGACCACGTTTAATACGTTGTCATCGATAGGTGATTT
1 CGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* *
48518731 CGATATGTGTTTACGAGTAAGACC
1 CGATATGTGTGTGCGAGTAAGACC
48518755 CTGTCTGGGA
Statistics
Matches: 165, Mismatches: 26, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
55 1 0.01
56 164 0.99
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (56 bp):
CGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
Found at i:48522820 original size:48 final size:48
Alignment explanation
Indices: 48522753--48523243 Score: 741
Period size: 48 Copynumber: 10.1 Consensus size: 48
48522743 GCTGAAATTG
*
48522753 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
48522801 ATGTATGAGATATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
48522849 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
48522897 ATGTATGAGATATGTATATGTGGTAAAGCCAAATGGCTAATATGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
48522945 ATGTATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGCGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* * *
48522995 ATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* *
48523045 ATATATGAGATATGTATATGTGATAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
48523093 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* * * *
48523143 ATATATGAGATATGAATATGTGGTAAAGCTGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
48523191 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
48523239 ATGTA
1 ATGTA
48523244 GGCGATGTGT
Statistics
Matches: 410, Mismatches: 27, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 1 0.00
48 270 0.66
49 8 0.02
50 130 0.32
51 1 0.00
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:48522869 original size:96 final size:96
Alignment explanation
Indices: 48522753--48523243 Score: 741
Period size: 98 Copynumber: 5.1 Consensus size: 96
48522743 GCTGAAATTG
* *
48522753 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
*
48522818 ATGTGGTAAAGCCAAATGGCTAATGTGAAAT
66 ATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
48522849 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
* *
48522914 ATGTGGTAAAGCCAAATGGCTAATATGAAAT
66 ATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
48522945 ATGTATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGCGAAATATATATATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGT
* *
48523010 ATATGTGGTAAAGCTGAATGGTTAATGTGAAATAT
64 ATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* * *
48523045 ATATATGAGATATGTATATGTGATAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
48523110 ATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
66 ATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* * * *
48523143 ATATATGAGATATGAATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATGTAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
*
48523208 ATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
66 ATGTGGTAAAGCCGAATGGCTAATGTGAAAT
48523239 ATGTA
1 ATGTA
48523244 GGCGATGTGT
Statistics
Matches: 363, Mismatches: 26, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
96 139 0.38
97 5 0.01
98 172 0.47
99 5 0.01
100 42 0.12
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.31
Consensus pattern (96 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
ATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:48523440 original size:37 final size:37
Alignment explanation
Indices: 48523390--48523496 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
48523380 GGAAATATAT
*
48523390 TCCGGGTATGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
48523427 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
48523464 TCCGGGTAAGACCCGATAACTTCGT-TGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
48523497 TCATCTGAGC
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 8 0.12
37 58 0.88
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:48524804 original size:40 final size:40
Alignment explanation
Indices: 48524749--48525110 Score: 508
Period size: 40 Copynumber: 9.1 Consensus size: 40
48524739 CGAGAGTTAT
*
48524749 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
*
48524789 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
* *
48524829 ATGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
* *
48524869 TTATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
* * * * * *
48524909 TTATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
* **
48524949 TTATATCAAGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
* *
48524989 TTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
* * *
48525029 ATGTATCTGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
* * * *
48525069 TTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
48525109 AT
1 AT
48525111 GTGTATTCGG
Statistics
Matches: 290, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 290 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
Found at i:48525322 original size:25 final size:25
Alignment explanation
Indices: 48525272--48525322 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
48525262 TGTGTAACAA
* *
48525272 CAAATGAATAGGGGCACTAAGTGTG
1 CAAATGAATAGAGGCACTAAGAGTG
* *
48525297 CAAATGATTAGAGGCACTGAGAGTG
1 CAAATGAATAGAGGCACTAAGAGTG
48525322 C
1 C
48525323 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAAGAGTG
Found at i:48528523 original size:31 final size:31
Alignment explanation
Indices: 48528480--48528543 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
48528470 CCTTTTTATA
48528480 TTTCATAATTCATAACACTAGGCCGAAGCCT
1 TTTCATAATTCATAACACTAGGCCGAAGCCT
* ** *
48528511 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTAGGCCGAAGCCT
48528542 TT
1 TT
48528544 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTAGGCCGAAGCCT
Found at i:48528827 original size:24 final size:23
Alignment explanation
Indices: 48528736--48528853 Score: 157
Period size: 24 Copynumber: 5.0 Consensus size: 23
48528726 GCTTTATCAT
**
48528736 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCC-CTTTTA
*
48528761 ATAACTGGGGCAAAGCCCTTTTG
1 ATAACTGGGGCAAAGCCCTTTTA
*
48528784 ATAACTGGGGC-AAGCCCTTTTG
1 ATAACTGGGGCAAAGCCCTTTTA
48528806 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGC-AAAGCCCTTTTA
48528830 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGC-AAAGCCCTTTTA
48528854 CACTTCCTCC
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
22 22 0.25
23 16 0.18
24 41 0.47
25 8 0.09
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (23 bp):
ATAACTGGGGCAAAGCCCTTTTA
Found at i:48528926 original size:20 final size:20
Alignment explanation
Indices: 48528898--48528948 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
48528888 GCATTTATGA
*
48528898 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
48528918 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
48528938 ACATATCATGT
1 ACATATCATGT
48528949 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:48531580 original size:48 final size:48
Alignment explanation
Indices: 48531527--48532019 Score: 673
Period size: 48 Copynumber: 10.1 Consensus size: 48
48531517 GCTGAAATTG
* **
48531527 ATGTATAAGATATGAATATGTGGTAAATTCGAATGGCTAATGTGAAAT
1 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
48531575 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
48531623 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
48531671 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAAT
1 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * * **
48531719 ATGTGTGAGATATGTGTATGTGGTAAAGCCGAATGGCTAATGCAAAAT
1 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * * *
48531767 ATATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTGATGTGAAATAT
1 ATGTATA--AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
*
48531819 ATTTATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATA--AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
48531869 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAAT
1 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAAT
* * * *
48531917 ATATATATGAGATATGAATATGTGGTAAAGCCGAATGGTTAGTGTGAAAT
1 ATGTATA--AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
48531967 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
48532015 ATGTA
1 ATGTA
48532020 GGCGATGTGT
Statistics
Matches: 399, Mismatches: 38, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
47 1 0.00
48 269 0.67
50 80 0.20
51 5 0.01
52 44 0.11
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:48531866 original size:198 final size:195
Alignment explanation
Indices: 48531534--48532016 Score: 697
Period size: 198 Copynumber: 2.5 Consensus size: 195
48531524 TTGATGTATA
**
48531534 AGATATGAATATGTGGTAAATTCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
48531599 AAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTA
66 AAAGCCGAATGGCT-ATGTGAAATATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCTA
* * *
48531662 ATGTGAAATATGTATAAGATATGTATATGTGGTAAAGCCGAATGG-CTAATATG-AA-ATATGTG
130 ATGTGAAATATGTATAAGATATGCATATGTGGTAAAGCCGAATGGTC-AATATGAAATATATATA
48531724 TG
194 TG
** ** *
48531726 AGATATGTGTATGTGGTAAAGCCGAATGGCTAATGCAAAATATATATATGAGATATGTATATGTG
1 AGATATGAATATGTGGTAAAGCCGAATGGCTAATG-TGAA-ATATGTATGAGATATGTATATGTG
* * *
48531791 GTAAAGCTGAATGGTTGATGTGAAATATATTTATATGAGATATGTATATGTGGTAAAGCCGAATG
64 GTAAAGCCGAATGGCT-ATGTGAAATATA--TATATGAGATATGCATATGTGGTAAAGCCGAATG
* *
48531856 GCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
126 GCTAATGTGAAATATGTATAAGATATGCATATGTGGTAAAGCCGAATGGTCAATATGAAATATAT
48531921 ATATG
191 ATATG
* *
48531926 AGATATGAATATGTGGTAAAGCCGAATGGTTAGTGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
48531991 AAAGCCGAATGGCTAGTGTGAAATAT
66 AAAGCCGAATGGCTA-TGTGAAATAT
48532017 GTAGGCGATG
Statistics
Matches: 255, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
192 31 0.12
193 2 0.01
194 42 0.16
195 2 0.01
196 3 0.01
197 1 0.00
198 131 0.51
199 5 0.02
200 38 0.15
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (195 bp):
AGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTATGTGAAATATATATATGAGATATGCATATGTGGTAAAGCCGAATGGCTAA
TGTGAAATATGTATAAGATATGCATATGTGGTAAAGCCGAATGGTCAATATGAAATATATATATG
Found at i:48532274 original size:37 final size:37
Alignment explanation
Indices: 48532166--48532274 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
48532156 GGAAATATAT
*
48532166 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
48532203 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
48532240 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
48532275 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:48533604 original size:23 final size:23
Alignment explanation
Indices: 48533538--48533604 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
48533528 ATATATCCGG
48533538 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
* * *
48533561 GCT-AGT---G-ATA-TATTCGG
1 GCTAAGTCCCGAAGAGCATTCGT
48533578 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
48533601 GCTA
1 GCTA
48533605 GTGATGTATC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
19 1 0.03
21 1 0.03
22 5 0.16
23 12 0.38
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (23 bp):
GCTAAGTCCCGAAGAGCATTCGT
Found at i:48533886 original size:40 final size:40
Alignment explanation
Indices: 48533529--48533875 Score: 505
Period size: 40 Copynumber: 8.7 Consensus size: 40
48533519 GAGAGTTATA
*
48533529 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
48533569 TATATTCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * * *
48533609 TGTATCCGGGCTAAGTTCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
48533649 TATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * * * *
48533689 TATATCCGGGCTAAGTCTCAAAAAGCATTTGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
**
48533729 TATATGAGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
48533769 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
48533809 TGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
48533849 TATATCCGGGCTAGGTCCCGAAGAGCA
1 TATATCCGGGCTAAGTCCCGAAGAGCA
48533876 ATCATGCTGG
Statistics
Matches: 277, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 277 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
Found at i:48537400 original size:48 final size:48
Alignment explanation
Indices: 48537335--48537826 Score: 718
Period size: 48 Copynumber: 10.1 Consensus size: 48
48537325 TCTGAAATTG
*
48537335 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
48537383 ATGTATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
48537431 ATGTATGAAATATGCATATGTGGTAAAGCCGAATGACTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
48537479 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
48537527 TTGTATGAGATATGTATATGTGGTAAAGCC-AATGGCTAATGCGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* * * *
48537576 ATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTGATGTGAAATATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-AT
*
48537628 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
48537676 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* * * *
48537726 ATATATGAGATATGAATATGTGATAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
48537774 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
48537822 ATGTA
1 ATGTA
48537827 GGCGATGTGT
Statistics
Matches: 404, Mismatches: 31, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
47 12 0.03
48 259 0.64
49 34 0.08
50 51 0.13
51 3 0.01
52 45 0.11
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:48537866 original size:245 final size:244
Alignment explanation
Indices: 48537342--48537867 Score: 692
Period size: 245 Copynumber: 2.2 Consensus size: 244
48537332 TTGATGTATA
* * * *
48537342 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAGATATGTATATG
1 AGATATGTATATGTGGT-AAGCTGAATGCCAAATGTGAAATATATATATATGAGATATGTATATG
*
48537403 TGGTAAATCCGAATGGCTAATGTGAAATATGTATGAAATATGCATATGTGGTAAAGCCGAATGAC
65 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAAATATGCATATGTGGTAAAGCCGAATGAC
* * * *
48537468 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATTTGTAT
130 TAATGTGAAATATATATGAGATATGAATATGTGATAAAGCCGAATGGCTAATATGAAATATGTAT
* *
48537533 GAGATATGTATATGTGGTAAAGCCAATGGCTAATGCGAAATATATATATG
195 GAGATATGTATATGTGGTAAAGCCAATGGCTAATGCGAAATATATAGACG
****
48537583 AGATATGTATATGTGGTAAAGCTGAATGGTTGATGTGAAATATATATATATGAGATATGTATATG
1 AGATATGTATATGTGGT-AAGCTGAATGCCAAATGTGAAATATATATATATGAGATATGTATATG
* *
48537648 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATG-G
65 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAAATATGCATATGTGGTAAAGCCGAATGAC
* *
48537712 TCAATGTGAAATATATATATGAGATATGAATATGTGATAAAGCCGAATGGCTAGTGTGAAATATG
130 T-AATGTG-AA-ATATATATGAGATATGAATATGTGATAAAGCCGAATGGCTAATATGAAATATG
* * * *
48537777 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCG
192 TATGAGATATGTATATGTGGTAAAGCC-AATGGCTAATGCGAAATATATAGACG
* *
48537831 ATG-TGTGTATAT-T-GT-GGCTGAATGACCAAATGTGAAA
1 A-GATATGTATATGTGGTAAGCTGAATG-CCAAATGTGAAA
48537868 GGTGTTTATT
Statistics
Matches: 250, Mismatches: 25, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
241 34 0.14
243 1 0.00
244 10 0.04
245 96 0.38
246 4 0.02
247 75 0.30
248 29 0.12
249 1 0.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (244 bp):
AGATATGTATATGTGGTAAGCTGAATGCCAAATGTGAAATATATATATATGAGATATGTATATGT
GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAAATATGCATATGTGGTAAAGCCGAATGACT
AATGTGAAATATATATGAGATATGAATATGTGATAAAGCCGAATGGCTAATATGAAATATGTATG
AGATATGTATATGTGGTAAAGCCAATGGCTAATGCGAAATATATAGACG
Found at i:48538081 original size:37 final size:37
Alignment explanation
Indices: 48537973--48538081 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
48537963 GGAAATATAT
*
48537973 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
48538010 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
48538047 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
48538082 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:48551113 original size:40 final size:40
Alignment explanation
Indices: 48551055--48551232 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
48551045 CGGATGATAA
* * *
48551055 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
48551095 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48551135 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48551175 CCGGGCTAAGTCCCGAAGGCATTTGAGCGA-ATAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
48551215 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48551233 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 17 0.13
40 108 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48552967 original size:3 final size:3
Alignment explanation
Indices: 48552959--48552984 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48552949 CAGGTACTTA
48552959 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
48552985 AGAACTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48554914 original size:20 final size:20
Alignment explanation
Indices: 48554891--48554938 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
48554881 AGCTCCGTCT
*
48554891 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTC
*** *
48554911 AGCTCGTTTCAGCTCGTTTC
1 AGCTCAACTCAGCTCATTTC
48554931 AGCTCAAC
1 AGCTCAAC
48554939 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTC
Found at i:48560635 original size:42 final size:42
Alignment explanation
Indices: 48560554--48560640 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
48560544 TAGTGTCAAC
*** *
48560554 GCCATGTCCCAAACATGGTCTTATACGGGACCTCATATCGAT
1 GCCATGTCCCAAACATGGTCTTATACAAAACCACATATCGAT
* * *
48560596 GCCATGTCCCAGACATGGTCTTATACAAAATCACTTATCGAT
1 GCCATGTCCCAAACATGGTCTTATACAAAACCACATATCGAT
48560638 GCC
1 GCC
48560641 GAAGTCATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (42 bp):
GCCATGTCCCAAACATGGTCTTATACAAAACCACATATCGAT
Found at i:48560683 original size:48 final size:48
Alignment explanation
Indices: 48560597--48560725 Score: 134
Period size: 48 Copynumber: 2.7 Consensus size: 48
48560587 CATATCGATG
* * ** * *
48560597 CCATGTCCCAGACATGGTCTTATACAAAATCACTTATCGATGCCGAAGT
1 CCATATCCCAGACATGGTCTTACACAGGATCTCGTATCGATGCC-AAGT
* * *
48560646 -CATATCCCTGATATGGTCTTACACAGGATCTCGTATCGATGCCAATT
1 CCATATCCCAGACATGGTCTTACACAGGATCTCGTATCGATGCCAAGT
* * *
48560693 CCATGTCCCAGACATGGTCTTCCACGGGATCTC
1 CCATATCCCAGACATGGTCTTACACAGGATCTC
48560726 ATTAATCATG
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
47 3 0.05
48 62 0.95
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
CCATATCCCAGACATGGTCTTACACAGGATCTCGTATCGATGCCAAGT
Found at i:48563527 original size:12 final size:12
Alignment explanation
Indices: 48563510--48563535 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48563500 TAGGGCATCG
48563510 GCGACCACATTC
1 GCGACCACATTC
48563522 GCGACCACATTC
1 GCGACCACATTC
48563534 GC
1 GC
48563536 CTTTCTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.42, G:0.19, T:0.15
Consensus pattern (12 bp):
GCGACCACATTC
Found at i:48565090 original size:16 final size:16
Alignment explanation
Indices: 48565071--48565101 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48565061 CTTCTTAACT
48565071 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
48565087 TACTTACTTACTTAA
1 TACTCACTTACTTAA
48565102 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:48565107 original size:20 final size:20
Alignment explanation
Indices: 48565068--48565107 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48565058 AAACTTCTTA
* *
48565068 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
48565088 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
48565108 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:48565484 original size:108 final size:110
Alignment explanation
Indices: 48565340--48565540 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
48565330 ATCCTTTTGA
* * * * *
48565340 AACTTACCATTGCTATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTAACATGGCCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
48565403 -TGCCATTCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
48565448 AACTTATCAATGCCATGTCTTAACATGGCCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTAACATGGCCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
48565513 TGCCATGCCTTGGCATGGTCTTGCATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
48565541 TATCCTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.57
109 7 0.09
110 26 0.32
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTAACATGGCCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:48565495 original size:55 final size:52
Alignment explanation
Indices: 48565293--48565547 Score: 193
Period size: 55 Copynumber: 4.8 Consensus size: 52
48565283 ACGCGGGTAC
* * * *
48565293 CTTACCATTGCCATGACTTGTCATGATCTTACATGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATG-AA
* *
48565342 CTTACCATTGCTATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATGAA
* * *
48565395 CTCACCAATGCCAT-TCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGT-CTTGACATGGTCTTACAT-GTATCC-TTGCCTTAT-G-AA
* * * *
48565450 CTTATCAATGCCATGTCTTAACATGGCCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AA
* * *
48565503 CCTTACCAATTGCCATGCCTTGGCATGGTCTTGCATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACAT-GTATCCTT
48565548 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 3 0.02
53 47 0.28
54 11 0.07
55 64 0.38
56 4 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (52 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATGAA
Found at i:48568486 original size:150 final size:149
Alignment explanation
Indices: 48568216--48568490 Score: 326
Period size: 150 Copynumber: 1.8 Consensus size: 149
48568206 ATTTCTAAAC
* * * *
48568216 GAAATTTTCACACAATCATGCAATCATGCCATAGACCTTAAAATGATAATAAAATAATTTTTTCT
1 GAAATTTTCACACAAGCATGCAACCAT-CCATAGACCTTAAAATAATAATAAAATAATTATTTCT
* * *
48568281 ACCTTGAATATGTGGTTTCGCAACCACTATTCTATTTAGGCCCTATTTCGAGATGTTACACATTT
65 ACCTCGAATATGTGGTTTCGAAACCACTATTCTATCTAGGCCCTATTTCGAGATGTTACACATTT
48568346 TATGCATAGAATTTCTCCAT
130 TATGCATAGAATTTCTCCAT
* *
48568366 GAAATTTTCACACAAGCATGCATACCTAT-CATGGACCTTATAAA-AATCATAAAATAATTATTT
1 GAAATTTTCACACAAGCATGCA-ACC-ATCCATAGACCTTA-AAATAATAATAAAATAATTATTT
* * * * *
48568429 CTATCTCGGATTTGTGGTCTT-GAAATCACTATTCTGA-CTAGGCCCTAATTT-GGGATGTTACA
63 CTACCTCGAATATGTGGT-TTCGAAACCACTATTCT-ATCTAGGCCCT-ATTTCGAGATGTTACA
48568491 ATGTGAATTT
Statistics
Matches: 105, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
150 91 0.87
151 12 0.11
152 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (149 bp):
GAAATTTTCACACAAGCATGCAACCATCCATAGACCTTAAAATAATAATAAAATAATTATTTCTA
CCTCGAATATGTGGTTTCGAAACCACTATTCTATCTAGGCCCTATTTCGAGATGTTACACATTTT
ATGCATAGAATTTCTCCAT
Found at i:48593244 original size:31 final size:31
Alignment explanation
Indices: 48593206--48593270 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
48593196 GCAACTTATC
48593206 ATAAAAATAAAACTTACAAAAACATGTTTTT
1 ATAAAAATAAAACTTACAAAAACATGTTTTT
48593237 ATAAAAATAAAACTTACAAAAACATGTTTTT
1 ATAAAAATAAAACTTACAAAAACATGTTTTT
48593268 ATA
1 ATA
48593271 TAATCCTCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.32
Consensus pattern (31 bp):
ATAAAAATAAAACTTACAAAAACATGTTTTT
Found at i:48593839 original size:20 final size:20
Alignment explanation
Indices: 48593751--48593872 Score: 72
Period size: 20 Copynumber: 6.2 Consensus size: 20
48593741 TGAGATGACC
* * *
48593751 TCTTATGTTATTTGATATTT
1 TCTTATATTTTTTTATATTT
*
48593771 TCATA-ATTCTTTTTAT-TTCT
1 TCTTATATT-TTTTTATATT-T
* * **
48593791 TCCTA-ATTTTTTGATACAT
1 TCTTATATTTTTTTATATTT
*
48593810 TCTCAT-TTTTTTTATATTT
1 TCTTATATTTTTTTATATTT
* *
48593829 TCTTATATTTTTTAATATTC
1 TCTTATATTTTTTTATATTT
* * *
48593849 CCTCATAATTTTTTATATTT
1 TCTTATATTTTTTTATATTT
48593869 TCTT
1 TCTT
48593873 GTATGGTTTG
Statistics
Matches: 74, Mismatches: 23, Indels: 10
0.69 0.21 0.09
Matches are distributed among these distances:
19 29 0.39
20 45 0.61
ACGTcount: A:0.21, C:0.12, G:0.02, T:0.64
Consensus pattern (20 bp):
TCTTATATTTTTTTATATTT
Found at i:48593894 original size:40 final size:39
Alignment explanation
Indices: 48593800--48593898 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 39
48593790 TTCCTAATTT
* * *
48593800 TTTGATACATTCTCAT-TTTTTTTATATTTTCTTATATT
1 TTTGATATATTCTCATAATTTTTTATATTTTCTTATATG
* *
48593838 TTTTA-ATATTCCCTCATAATTTTTTATATTTTCTTGTATGG
1 TTTGATATATT--CTCATAATTTTTTATATTTTCTTATAT-G
48593879 TTTGATATATTCTCATAATT
1 TTTGATATATTCTCATAATT
48593899 CTTTGCACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
37 4 0.08
38 4 0.08
39 5 0.10
40 28 0.56
41 4 0.08
42 5 0.10
ACGTcount: A:0.23, C:0.11, G:0.05, T:0.61
Consensus pattern (39 bp):
TTTGATATATTCTCATAATTTTTTATATTTTCTTATATG
Found at i:48594016 original size:20 final size:20
Alignment explanation
Indices: 48593972--48594019 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
48593962 ACTTCCTCCC
* *
48593972 ATTTTTTGATACTTTATTAT
1 ATTTTTTTATACTTTATCAT
*
48593992 ATTTTTTTATACTTTCTCAT
1 ATTTTTTTATACTTTATCAT
*
48594012 GTTTTTTT
1 ATTTTTTT
48594020 CAGTTCCTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.69
Consensus pattern (20 bp):
ATTTTTTTATACTTTATCAT
Found at i:48598945 original size:49 final size:48
Alignment explanation
Indices: 48598693--48599013 Score: 197
Period size: 46 Copynumber: 6.8 Consensus size: 48
48598683 CACATTATTA
* * *
48598693 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAC-AT
* * **
48598741 GAGCTAGTGTAAG---ATGTCTTTGGGACAT-GTATCGGCCTCGTA-AGGT
1 GAGCCAGTGTAAGACCATGTC--TGGGACATGGCATCGGCCTCG-AGACAT
* * * *
48598787 AAGCCAGTATAAGA-CATGTCAGGGACAT-GCATCGG-CT--ATGAGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GACAT
* * * * * * *
48598831 GTGTCAGTGTAAGACTATGTCTAGGACATGGCATTGG-CACG-GATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACAT
* * *
48598877 GGGAGAGCTAGTGTAAGACCATGTCTGGGATATGGCGTCGGCCTCGATGACAAT
1 ----GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GAC-AT
* * * *
48598931 -AGTCAGTGTAAGACCATGTTTGGGACAT-GCATC-GACTTGAGACAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACAT
*
48598976 GAGCCAGTGTAAGACCGTGTCTGGGACATGGCATCGGC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
48599014 ACCATACCTT
Statistics
Matches: 208, Mismatches: 42, Indels: 46
0.70 0.14 0.16
Matches are distributed among these distances:
42 1 0.00
44 13 0.06
45 20 0.10
46 72 0.35
47 19 0.09
48 23 0.11
49 24 0.12
50 29 0.14
51 3 0.01
53 2 0.01
54 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACAT
Found at i:48603799 original size:40 final size:40
Alignment explanation
Indices: 48603704--48603921 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
48603694 TGGATGATAA
*
48603704 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
48603745 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48603785 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48603825 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48603865 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
48603904 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48603922 TACTTGGCTT
Statistics
Matches: 168, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
38 15 0.09
39 17 0.10
40 108 0.64
41 24 0.14
42 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48608721 original size:40 final size:40
Alignment explanation
Indices: 48608626--48608843 Score: 311
Period size: 40 Copynumber: 5.5 Consensus size: 40
48608616 TGGATGATAA
*
48608626 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
48608667 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48608707 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48608747 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48608787 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
48608826 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48608844 TACTTGGCTT
Statistics
Matches: 166, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
38 15 0.09
39 16 0.10
40 107 0.64
41 24 0.14
42 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48628662 original size:28 final size:28
Alignment explanation
Indices: 48628550--48628874 Score: 332
Period size: 28 Copynumber: 11.6 Consensus size: 28
48628540 CTTCTAATGG
* * * **
48628550 TTGCCACAAGGGCTTTCATGTTCAGAAAT
1 TTGCCACAAAGGCTTTCCT-TTTAGAGGT
* **
48628579 TT-CCACAAAGGCTTTTCTTCCAGAGGT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* * * *
48628606 TCG-CATAAAGGCTTTCCCTTTAGAAGT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* *
48628633 TTGCC-CAAAAGGCTTTCTTTTTGGAGGT
1 TTGCCAC-AAAGGCTTTCCTTTTAGAGGT
*
48628661 TTGCCACAAAGGCTTTCCTTTTAGAGTT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* * *
48628689 TTGCCATAAAGGATTTCCTTTTAGAGAT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* * * *
48628717 TTACCACAATGGCTTTCCTTTCAAAGGT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* *
48628745 TTTCCACAAAGGCTTTCTTTTTAGAGGT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
48628773 TTGCCACAAAGGCTTTCCTTTTAGAGGT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* * *
48628801 TTTCCATAAAGGTTTTCCTTTTAGAGGT
1 TTGCCACAAAGGCTTTCCTTTTAGAGGT
* *
48628829 TAGTCACAAAAGGCTTTCCTTTTAGAGGT
1 TTGCCAC-AAAGGCTTTCCTTTTAGAGGT
*
48628858 TTGCCTCAAAGGCTTTC
1 TTGCCACAAAGGCTTTC
48628875 AATTTTTTGG
Statistics
Matches: 241, Mismatches: 50, Indels: 11
0.80 0.17 0.04
Matches are distributed among these distances:
27 27 0.11
28 187 0.78
29 27 0.11
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.37
Consensus pattern (28 bp):
TTGCCACAAAGGCTTTCCTTTTAGAGGT
Found at i:48629595 original size:30 final size:31
Alignment explanation
Indices: 48629571--48629629 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
48629561 GTAAATACTC
* **
48629571 AAAATTTGAGGGGTTAA-AGTGTAAATATGA
1 AAAATTTGAAGGGCCAATAGTGTAAATATGA
48629601 AAAATTTGAAGGGCCAATAGTGTAAATAT
1 AAAATTTGAAGGGCCAATAGTGTAAATAT
48629630 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGGCCAATAGTGTAAATATGA
Found at i:48631637 original size:27 final size:26
Alignment explanation
Indices: 48631581--48631637 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
48631571 CAACCTTAAC
* *
48631581 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
48631607 CCTAGGGGTAAATCTGTAAATTTTTCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
48631634 CCTA
1 CCTA
48631638 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:48631912 original size:13 final size:13
Alignment explanation
Indices: 48631884--48631926 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
48631874 ACTTATTGCC
*
48631884 TATTTTTTTATAT
1 TATTATTTTATAT
48631897 TATATATTTT-TAT
1 TAT-TATTTTATAT
48631910 TATTATTTTAT-T
1 TATTATTTTATAT
48631922 TATTA
1 TATTA
48631927 ACCCGTATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.44
13 10 0.37
14 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTATTTTATAT
Found at i:48631923 original size:15 final size:14
Alignment explanation
Indices: 48631884--48631926 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
48631874 ACTTATTGCC
48631884 TATTTTTTTA-TAT
1 TATTTTTTTATTAT
48631897 TATATATTTTTATTAT
1 TAT-T-TTTTTATTAT
48631913 TATTTTATTTATTA
1 TATTTT-TTTATTA
48631927 ACCCGTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.12
14 3 0.12
15 14 0.54
16 6 0.23
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTTTTTATTAT
Found at i:48635930 original size:18 final size:17
Alignment explanation
Indices: 48635898--48635933 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
48635888 AACTTGGCAC
*
48635898 CATAATCATTTAATTTA
1 CATAATCAATTAATTTA
48635915 CATAATTCAATTAATTTA
1 CATAA-TCAATTAATTTA
48635933 C
1 C
48635934 TAAATTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (17 bp):
CATAATCAATTAATTTA
Found at i:48638233 original size:40 final size:40
Alignment explanation
Indices: 48638173--48638283 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 40
48638163 TCGAGAATAT
* * *
48638173 AAAGTGGATAGGATTCGTTCCAGATTCACTATAATACCTC
1 AAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACTC
** * *
48638213 AAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATTT
1 AAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACTC
* *
48638253 AAAGTGAATAGGATTTATTCCTGATTCACTA
1 AAAGTGGATAGGATTTGTTCCTGATTCACTA
48638284 CGGTAACTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (40 bp):
AAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACTC
Found at i:48638304 original size:40 final size:39
Alignment explanation
Indices: 48638172--48638308 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 39
48638162 CTCGAGAATA
** * *** *
48638172 TAAAGTGGATAGGATTCGTTCCAGATTCACTATAATACCT
1 TAAAGT-GATAGGATTTATTCCTGATTCACTACGGTAACT
* * * *
48638212 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGT-GATAGGATTTATTCCTGATTCACTACGGTAACT
48638252 TAAAGTGAATAGGATTTATTCCTGATTCACTACGGTAACT
1 TAAAGTG-ATAGGATTTATTCCTGATTCACTACGGTAACT
48638292 T-AAGTCTGATAGGATTT
1 TAAAG--TGATAGGATTT
48638309 GACCTGAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 4 0.05
40 77 0.93
41 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (39 bp):
TAAAGTGATAGGATTTATTCCTGATTCACTACGGTAACT
Found at i:48638880 original size:20 final size:20
Alignment explanation
Indices: 48638855--48638914 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
48638845 CTACTAGATG
48638855 TTGACTTAATCTGGTTAAGT
1 TTGACTTAATCTGGTTAAGT
48638875 TTGACTTAATCTGGTTAAGT
1 TTGACTTAATCTGGTTAAGT
*
48638895 TTGACATAATCTGGTTAAGT
1 TTGACTTAATCTGGTTAAGT
48638915 CTGTCCAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (20 bp):
TTGACTTAATCTGGTTAAGT
Found at i:48638928 original size:21 final size:20
Alignment explanation
Indices: 48638862--48638928 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
48638852 ATGTTGACTT
* **
48638862 AATCTGGTTAAGTTTGACTT
1 AATCTGGTTAAGTCTGACAA
* *
48638882 AATCTGGTTAAGTTTGACAT
1 AATCTGGTTAAGTCTGACAA
*
48638902 AATCTGGTTAAGTCTGTCCAA
1 AATCTGGTTAAGTCTG-ACAA
48638923 AATCTG
1 AATCTG
48638929 TTGATACTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 34 0.81
21 8 0.19
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.39
Consensus pattern (20 bp):
AATCTGGTTAAGTCTGACAA
Found at i:48640981 original size:102 final size:103
Alignment explanation
Indices: 48640776--48641138 Score: 596
Period size: 101 Copynumber: 3.6 Consensus size: 103
48640766 TAACCGTTAT
* *
48640776 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
48640841 AATCAGCACATAGCAACCCCCTTTT-ATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
48640878 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
48640942 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
48640980 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
48641043 AATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * **
48641081 TGGTGGATCA-CGCACATAGCACCACC-ATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
48641139 TTTATATACA
Statistics
Matches: 250, Mismatches: 7, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
100 11 0.04
101 137 0.55
102 102 0.41
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:48641042 original size:26 final size:26
Alignment explanation
Indices: 48641012--48641063 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
48641002 CACCAATGAA
*
48641012 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
48641038 CGGGGAATCAGCACATAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
48641064 TTCACATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:48641498 original size:29 final size:29
Alignment explanation
Indices: 48641465--48641528 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
48641455 TAATCCACCA
48641465 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
48641494 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
48641524 CCCAA
1 CCCAA
48641529 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:48641502 original size:30 final size:30
Alignment explanation
Indices: 48641472--48641528 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48641462 CCACCCAACT
48641472 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
48641501 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
48641529 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:48648603 original size:103 final size:103
Alignment explanation
Indices: 48648348--48648714 Score: 614
Period size: 103 Copynumber: 3.6 Consensus size: 103
48648338 TAACCGTTAT
* *
48648348 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
48648413 AATCAGCACATAGCAACCCCCTTTT-ATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
48648450 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
48648515 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
*
48648553 CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
48648617 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
48648656 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
48648715 TTTATATACA
Statistics
Matches: 252, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
102 116 0.46
103 135 0.54
104 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:48648615 original size:26 final size:26
Alignment explanation
Indices: 48648585--48648636 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
48648575 CACCAATGAA
*
48648585 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
48648611 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
48648637 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:48649076 original size:29 final size:29
Alignment explanation
Indices: 48649043--48649106 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
48649033 TAATCCACCA
48649043 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
48649072 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
48649102 CCCAA
1 CCCAA
48649107 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:48649080 original size:30 final size:30
Alignment explanation
Indices: 48649050--48649106 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48649040 CCACCCAACT
48649050 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
48649079 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
48649107 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:48652967 original size:53 final size:52
Alignment explanation
Indices: 48652849--48653027 Score: 237
Period size: 51 Copynumber: 3.5 Consensus size: 52
48652839 ACTAGTGACT
*
48652849 CAAGTGTGGTACTATGTGAAGGCCAC-TT-TG-AGAACAGATAAC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAA-AGATAGCTTTGGTCA
48652898 CAAGTGTGGTACTATGTGAAGGCCTACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCC-ACTTTGTGAAGAAAGATAGCTTTGGTCA
* *
48652951 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTC-A
*
48653002 CAAGGGTGGTACTATGTGCAA-GCCAC
1 CAAGTGTGGTACTATGTG-AAGGCCAC
48653028 CGGGTATCCG
Statistics
Matches: 119, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
49 24 0.20
50 4 0.03
51 35 0.29
52 21 0.18
53 35 0.29
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
Found at i:48657924 original size:15 final size:15
Alignment explanation
Indices: 48657904--48657940 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
48657894 TGGTCCTAAA
48657904 ACCATTGTTTCCAAT
1 ACCATTGTTTCCAAT
48657919 ACCATTGTTTCCAAT
1 ACCATTGTTTCCAAT
48657934 ACCATTG
1 ACCATTG
48657941 AAAAACGGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (15 bp):
ACCATTGTTTCCAAT
Found at i:48658759 original size:23 final size:23
Alignment explanation
Indices: 48658733--48658780 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
48658723 TTGGGTAACA
*
48658733 TAGGAAATTTATGTTTTTAGTTT
1 TAGGAAATTTATGCTTTTAGTTT
*
48658756 TAGGAAATTTATGCTTTTATTTT
1 TAGGAAATTTATGCTTTTAGTTT
48658779 TA
1 TA
48658781 TTTTTCTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.15, T:0.56
Consensus pattern (23 bp):
TAGGAAATTTATGCTTTTAGTTT
Found at i:48659995 original size:40 final size:40
Alignment explanation
Indices: 48659940--48660167 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
48659930 TAATTGAGGA
* *
48659940 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
48659980 TTATATCCGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
48660020 TTATATCCGGGTTAAGTCGCGAAGGCATTCGTGTTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
48660060 TTATATCTGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * * * * *
48660100 TTATATTCAGGCCAAGTTCCGAAGGCACTCGTACTGG-TG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
48660139 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
48660168 TGTGTTTGGA
Statistics
Matches: 166, Mismatches: 22, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 26 0.16
40 140 0.84
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (40 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:48676750 original size:40 final size:40
Alignment explanation
Indices: 48676673--48676750 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
48676663 AAGTGCCATA
** **
48676673 TATATAGCTGAAGCTATTCCGATTTGCACACTGAGTGCTT
1 TATATAGCTGAAGCTATTCCGAAATGCACACAAAGTGCTT
*
48676713 TATATAGGTGAAGCTA-TCTCGAAATGCACACAAAGTGC
1 TATATAGCTGAAGCTATTC-CGAAATGCACACAAAGTGC
48676751 CATACTCAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (40 bp):
TATATAGCTGAAGCTATTCCGAAATGCACACAAAGTGCTT
Found at i:48686438 original size:40 final size:43
Alignment explanation
Indices: 48686343--48686442 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 43
48686333 AGTGCCTTTC
48686343 ATAGCCGAAGCTATCTCAACTTCGCACACTAAGTGCCATATAT
1 ATAGCCGAAGCTATCTCAACTTCGCACACTAAGTGCCATATAT
* * *
48686386 ATATCCGAAGCTA-CTCTGA-TTCGCACACTAAGTG-C-TTTAT
1 ATAGCCGAAGCTATCTC-AACTTCGCACACTAAGTGCCATATAT
48686426 ATAGCCGAAGCTATCTC
1 ATAGCCGAAGCTATCTC
48686443 GAAATGCACA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
40 16 0.31
41 4 0.08
42 18 0.35
43 13 0.25
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (43 bp):
ATAGCCGAAGCTATCTCAACTTCGCACACTAAGTGCCATATAT
Done.