Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 216 of 345
Found at i:62514615 original size:46 final size:44
Alignment explanation
Indices: 62514410--62514618 Score: 147
Period size: 46 Copynumber: 4.6 Consensus size: 44
62514400 TGAGACGAGG
* * * * *
62514410 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGA-
1 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCTAC-G--GGACAT
* * ** **
62514456 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGTATCGG-CTACGGGA-CAT
* * *
62514501 AGCCAGTGTCAG-CTATGTCTGGGACATGTGTCGGCTACGGGACAT
1 -GCTAGTGTAAGAC-ATGTCTGGGACATGTATCGGCTACGGGACAT
*
62514546 GCTAGTGTAAGACATGTCTGGGACATGTATCGG-TACGGTTACAT
1 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCTACGG-GACAT
* *
62514590 GTGTCAGTGTAAGACCTGTCTGGGACATG
1 G-CT-AGTGTAAGACATGTCTGGGACATG
62514619 GTTTCGACAC
Statistics
Matches: 134, Mismatches: 19, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
43 7 0.05
44 34 0.25
45 6 0.04
46 86 0.64
47 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGTATCGGCTACGGGACAT
Found at i:62516911 original size:30 final size:30
Alignment explanation
Indices: 62516875--62517005 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
62516865 GACAAGATTG
* * * * *
62516875 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
62516905 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
62516933 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
62516963 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
62516992 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62517006 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:62516966 original size:58 final size:58
Alignment explanation
Indices: 62516875--62517005 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
62516865 GACAAGATTG
* * * * * *
62516875 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
62516933 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
62516992 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62517006 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:62518826 original size:14 final size:14
Alignment explanation
Indices: 62518809--62518842 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
62518799 GAAGTGTAGG
62518809 GATTTCAGTGTCGA
1 GATTTCAGTGTCGA
62518823 GATTTCAGTGTCGA
1 GATTTCAGTGTCGA
62518837 GATTTC
1 GATTTC
62518843 TTTAAAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (14 bp):
GATTTCAGTGTCGA
Found at i:62526645 original size:12 final size:12
Alignment explanation
Indices: 62526628--62526653 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62526618 ATGTAAGTGA
62526628 TCTTGATGATTT
1 TCTTGATGATTT
62526640 TCTTGATGATTT
1 TCTTGATGATTT
62526652 TC
1 TC
62526654 ACATTTTTGG
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:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:62527460 original size:46 final size:46
Alignment explanation
Indices: 62527410--62527569 Score: 148
Period size: 46 Copynumber: 3.5 Consensus size: 46
62527400 CAAGGCTAGT
* *
62527410 GTAAGACATGTCTGGGACATGCTTCATCCATATTATGAGTGCCAAA
1 GTAAGACATGTCTGGGACATGCTTCACCCATATTATGAGTGCCAGA
* * * * *
62527456 GTAAGACATGTCTGGGACATGCATCGGCCTC-GA-CA-GAGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCTTC-ACC-CATATTATGAG-T-GCCAGA
* *
62527503 GTAAGACGTGTTTGGGACATGCTTCACCCATATTATGAGTGCCAGA
1 GTAAGACATGTCTGGGACATGCTTCACCCATATTATGAGTGCCAGA
* *
62527549 GCTTA-ACATGTCTGGGGCATG
1 G-TAAGACATGTCTGGGACATG
62527570 GCATCGACAT
Statistics
Matches: 88, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
45 4 0.05
46 48 0.55
47 32 0.36
48 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCTTCACCCATATTATGAGTGCCAGA
Found at i:62527519 original size:93 final size:92
Alignment explanation
Indices: 62527363--62527612 Score: 299
Period size: 93 Copynumber: 2.7 Consensus size: 92
62527353 GTGTGCCAGT
*
62527363 GTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACAAGGCTAGTGTAAGACATGTCTGGGAC
1 GTAAGA-CATGTCTGGGACATGGCATCGGCATCCAGACAAGGCCAGTGTAAGACATGTCTGGGAC
*
62527428 ATGCTTCATCCATATTATGAGTGCCAAA
65 ATGCTTCACCCATATTATGAGTGCCAAA
* * * *
62527456 GTAAGACATGTCTGGGACAT-GCATCGGCCTCGACAGAGATA-GCCAGTGTAAGACGTGTTTGGG
1 GTAAGACATGTCTGGGACATGGCATCGGCATC--CAGACA-AGGCCAGTGTAAGACATGTCTGGG
*
62527519 ACATGCTTCACCCATATTATGAGTGCCAGA
63 ACATGCTTCACCCATATTATGAGTGCCAAA
* * * * * * *
62527549 GCTTA-ACATGTCTGGGGCATGGCATCGACATCCAGATGAGGGCTAGTGTAAGACGTGTCTGGGA
1 G-TAAGACATGTCTGGGACATGGCATCGGCATCCAGA-CAAGGCCAGTGTAAGACATGTCTGGGA
62527613 TACGCATCGG
Statistics
Matches: 136, Mismatches: 14, Indels: 14
0.83 0.09 0.09
Matches are distributed among these distances:
91 10 0.07
92 18 0.13
93 96 0.71
94 12 0.09
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (92 bp):
GTAAGACATGTCTGGGACATGGCATCGGCATCCAGACAAGGCCAGTGTAAGACATGTCTGGGACA
TGCTTCACCCATATTATGAGTGCCAAA
Found at i:62529449 original size:29 final size:28
Alignment explanation
Indices: 62529417--62529519 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
62529407 GTGACGAGAT
* *
62529417 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
62529446 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
62529475 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
62529504 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
62529520 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:62534663 original size:29 final size:28
Alignment explanation
Indices: 62534631--62534733 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
62534621 GTGACGAGAT
* *
62534631 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
62534660 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
62534689 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
62534718 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
62534734 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:62541664 original size:40 final size:40
Alignment explanation
Indices: 62541562--62541742 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
62541552 TTTGAATGGT
* * *
62541562 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* *
62541603 ATCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
62541643 AACCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * * *
62541683 ATCCGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
62541724 A-CCGGGCTATGTCCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
62541743 ACAATCAAGC
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
40 89 0.75
41 29 0.25
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:62541727 original size:80 final size:81
Alignment explanation
Indices: 62541564--62541738 Score: 219
Period size: 80 Copynumber: 2.2 Consensus size: 81
62541554 TGAATGGTAT
* * *
62541564 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
62541629 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
62541645 CCGGGTTAAGTCCCAAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * *
62541708 TGTGTGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
62541725 CCGGGCTATGTCCC
1 CCGGGCTAAGTCCC
62541739 GAAGACAATC
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 54 0.68
81 25 0.31
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCAAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:62545736 original size:12 final size:12
Alignment explanation
Indices: 62545719--62545744 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62545709 ATGTAAGTGA
62545719 TCTTGATGATTT
1 TCTTGATGATTT
62545731 TCTTGATGATTT
1 TCTTGATGATTT
62545743 TC
1 TC
62545745 ACATTTTTGG
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:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:62552393 original size:26 final size:26
Alignment explanation
Indices: 62552364--62552414 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
62552354 CATGTTTAAT
62552364 TACAATCA-TACATCACATAAGGGCAA
1 TACAATCATTACATCACAT-AGGGCAA
* *
62552390 TACAGTCATTTCATCACATAGGGCA
1 TACAATCATTACATCACATAGGGCA
62552415 TAACAACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (26 bp):
TACAATCATTACATCACATAGGGCAA
Found at i:62552425 original size:26 final size:27
Alignment explanation
Indices: 62552374--62552426 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
62552364 TACAATCATA
**
62552374 CATCACATAAGGGCAATACAGTCATTT
1 CATCACATAAGGGCAATACAACCATTT
62552401 CATCACAT-AGGGC-ATAACAACCATTT
1 CATCACATAAGGGCAAT-ACAACCATTT
62552427 TTATCAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 2 0.09
26 13 0.57
27 8 0.35
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (27 bp):
CATCACATAAGGGCAATACAACCATTT
Found at i:62564094 original size:16 final size:17
Alignment explanation
Indices: 62564073--62564104 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
62564063 TAACATATAT
62564073 ATTATTAT-ATTATTAA
1 ATTATTATAATTATTAA
62564089 ATTATTATAATTATTA
1 ATTATTATAATTATTA
62564105 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATAATTATTAA
Found at i:62572521 original size:30 final size:30
Alignment explanation
Indices: 62572466--62572596 Score: 162
Period size: 30 Copynumber: 4.5 Consensus size: 30
62572456 ATAGTGAATC
* *
62572466 CGCACACTTAGTGTTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
62572495 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
62572525 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
62572553 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
62572583 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62572597 CAATCTTGTC
Statistics
Matches: 91, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 18 0.20
30 48 0.53
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:62572576 original size:58 final size:58
Alignment explanation
Indices: 62572465--62572596 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
62572455 TATAGTGAAT
* * * * * *
62572465 CCGCACACTTAGTGTTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
62572524 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
62572582 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
62572597 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.67
59 19 0.30
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:62574527 original size:46 final size:46
Alignment explanation
Indices: 62574460--62574634 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
62574450 TATTTGGGCA
* * *
62574460 TCCGAGCTCATTGAGTCGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * ** *
62574506 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGAGTGTA-ACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA-TGGATGC-AAACG
* *
62574552 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
62574598 CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62574635 GCGGGTGACA
Statistics
Matches: 102, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
45 3 0.03
46 96 0.94
47 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:62574530 original size:20 final size:20
Alignment explanation
Indices: 62574505--62574577 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
62574495 GGATGCAAAT
62574505 GTCCGAGCTCGTTGAGTTGA
1 GTCCGAGCTCGTTGAGTTGA
* *
62574525 GTCCGAGTTCG-TGAGTGTAACTA
1 GTCCGAGCTCGTTGAGT-T---GA
62574548 GGCATCCGAGCTCGTTGAGTTGA
1 -G--TCCGAGCTCGTTGAGTTGA
62574571 GTCCGAG
1 GTCCGAG
62574578 TTCACTTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
19 5 0.12
20 17 0.41
22 1 0.02
23 2 0.05
24 1 0.02
26 10 0.24
27 5 0.12
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.27
Consensus pattern (20 bp):
GTCCGAGCTCGTTGAGTTGA
Found at i:62574613 original size:92 final size:92
Alignment explanation
Indices: 62574456--62574627 Score: 281
Period size: 92 Copynumber: 1.9 Consensus size: 92
62574446 AGGATATTTG
* * * *
62574456 GGCATCCGAGCTCATTGAGTCGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCATTGAGTCGAGTCCGAGTTCACTTATAGATGCAAACGCCCAAGCTCGTTGAG
62574521 TTGAGTCCGAGTTCGTGAGTGTAACTA
66 TTGAGTCCGAGTTCGTGAGTGTAACTA
* * *
62574548 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCAAGCTCGTTGAG
1 GGCATCCGAGCTCATTGAGTCGAGTCCGAGTTCACTTATAGATGCAAACGCCCAAGCTCGTTGAG
62574613 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
62574628 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (92 bp):
GGCATCCGAGCTCATTGAGTCGAGTCCGAGTTCACTTATAGATGCAAACGCCCAAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGTGTAACTA
Found at i:62576848 original size:51 final size:51
Alignment explanation
Indices: 62576731--62576866 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 51
62576721 CTATCACCAA
* * *
62576731 ATCTCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAG
1 ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
* * * * * * **
62576782 ATATGTAA-TCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAC-TATAATATCATATCTTATAAGATTACATATCATAGATAAG
*
62576833 ATCTCTAAGACTATAATATCATATCTTTTAAGAT
1 ATCTCTAAGACTATAATATCATATCTTATAAGAT
62576867 CATGTTTCCA
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
51 65 0.98
52 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
Found at i:62579673 original size:51 final size:51
Alignment explanation
Indices: 62579556--62579689 Score: 144
Period size: 51 Copynumber: 2.6 Consensus size: 51
62579546 CTACCACCAA
* * *
62579556 ATCTCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAG
1 ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
* * * * * * **
62579607 ATATGTAA-TCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAC-TATAATATCATATCTTATAAGATTACATATCATAGATAAG
*
62579658 ATCTCTAAGACTATAATATCATATCTTTTAAG
1 ATCTCTAAGACTATAATATCATATCTTATAAG
62579690 GTCATGTTTC
Statistics
Matches: 64, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
51 63 0.98
52 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
Found at i:62580608 original size:54 final size:54
Alignment explanation
Indices: 62580526--62580638 Score: 183
Period size: 54 Copynumber: 2.1 Consensus size: 54
62580516 ATCTCATGCC
*
62580526 TGCATCCAATATATATAGGTTAGGTTGACCAATTAACTCTGATTCATATATAGT
1 TGCATCCAATATATATAGGTTAGGTTGACCAATTAACTCCGATTCATATATAGT
* *
62580580 TGCATCCAATATATAT-TGTTAAGGTTGACCAATTAACTCCGATTCCTATATAGT
1 TGCATCCAATATATATAGGTT-AGGTTGACCAATTAACTCCGATTCATATATAGT
62580634 TGCAT
1 TGCAT
62580639 ATGTCAAGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 3 0.05
54 52 0.95
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (54 bp):
TGCATCCAATATATATAGGTTAGGTTGACCAATTAACTCCGATTCATATATAGT
Found at i:62581732 original size:21 final size:21
Alignment explanation
Indices: 62581696--62581752 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
62581686 CAAAAAATAT
62581696 ATATAAATACATAAATTCAAAAA
1 ATAT-AATA-ATAAATTCAAAAA
* **
62581719 ATATAATAATAAATTTAAAGT
1 ATATAATAATAAATTCAAAAA
*
62581740 ATATAAAAATAAA
1 ATATAATAATAAA
62581753 AATATCGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 22 0.73
22 4 0.13
23 4 0.13
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
ATATAATAATAAATTCAAAAA
Found at i:62581784 original size:9 final size:9
Alignment explanation
Indices: 62581770--62581808 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
62581760 TAGACAAGAA
62581770 ATAAAATAT
1 ATAAAATAT
62581779 ATAAAAT-T
1 ATAAAATAT
*
62581787 TTAAAATAT
1 ATAAAATAT
*
62581796 ATAAAATAA
1 ATAAAATAT
62581805 ATAA
1 ATAA
62581809 TATTTTCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAAAATAT
Found at i:62585002 original size:40 final size:40
Alignment explanation
Indices: 62584901--62585150 Score: 334
Period size: 40 Copynumber: 6.4 Consensus size: 40
62584891 TGATAACCGA
* * *
62584901 GCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGG
*
62584941 GCTAAG-CCCAAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
62584980 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
62585020 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
62585060 GCTAAGT--CGAAGGCATTTGTGCGAGTTACTATAACC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
62585097 GCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
* *
62585136 GCTAAATTCCGAAGG
1 GCTAAGTCCCGAAGG
62585151 TACTTGGTTT
Statistics
Matches: 192, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
37 8 0.04
38 29 0.15
39 72 0.38
40 83 0.43
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:62588835 original size:40 final size:40
Alignment explanation
Indices: 62588750--62588913 Score: 161
Period size: 40 Copynumber: 4.1 Consensus size: 40
62588740 CGGGATCTAA
* ** *
62588750 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
62588790 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *
62588830 TCGGATATAACAACTCACACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
62588870 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
62588910 CCGG
1 CCGG
62588914 GTATCATTCA
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 96 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:62596857 original size:40 final size:40
Alignment explanation
Indices: 62596761--62596939 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
62596751 CGAATGGTGT
* * * *
62596761 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
62596802 CCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
62596842 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
62596882 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
62596922 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
62596940 ACAATCGAGC
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
40 89 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:62596900 original size:80 final size:80
Alignment explanation
Indices: 62596761--62596953 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
62596751 CGAATGGTGT
* * * *
62596761 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* *
62596826 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* * * *
62596842 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAATT
* *
62596906 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * *
62596922 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
62596954 CGCTATATCC
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.72
81 25 0.27
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Found at i:62596960 original size:40 final size:40
Alignment explanation
Indices: 62596882--62596965 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
62596872 GTTATTAAAT
* * *
62596882 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
62596922 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
62596962 CCGG
1 CCGG
62596966 TTAAATTCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:62598636 original size:40 final size:40
Alignment explanation
Indices: 62598529--62598703 Score: 214
Period size: 40 Copynumber: 4.4 Consensus size: 40
62598519 GATGATAACT
* *
62598529 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
62598569 GAGCTAAG-CCCCAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
62598608 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
62598648 GGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
62598688 -GGCTAAATTCCGAAGG
1 GGGCTAAGTCCCGAAGG
62598704 TACTTGGTTT
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 48 0.41
40 70 0.59
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:62598701 original size:79 final size:79
Alignment explanation
Indices: 62598529--62598703 Score: 212
Period size: 79 Copynumber: 2.2 Consensus size: 79
62598519 GATGATAACT
* * *
62598529 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGAGCTAAGCCCCAAGGCATTTGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGAGCTAAGCCCCAAGGCATTTGAGC
*
62598594 GAGTTACTATATCC
66 AAGTTACTATATCC
* * * *
62598608 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGAGCTAAG-CCCCAAGGCATTTGA
62598672 GCAAG-TAGCTATATCC
64 GCAAGTTA-CTATATCC
* *
62598688 -GGCTAAATTCCGAAGG
1 GGGCTAAGTCCCGAAGG
62598704 TACTTGGTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
78 2 0.02
79 55 0.67
80 25 0.30
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGAGCTAAGCCCCAAGGCATTTGAGC
AAGTTACTATATCC
Found at i:62611742 original size:30 final size:31
Alignment explanation
Indices: 62611694--62611751 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
62611684 TTTCCGAGCC
62611694 TAGGGGAAAAATCATAATTCTG-CAAAGGTT
1 TAGGGGAAAAATCATAATTCTGTCAAAGGTT
* ** *
62611724 TAGGGGTAAAATTGTAATTTTGTCAAAG
1 TAGGGGAAAAATCATAATTCTGTCAAAG
62611752 TTTGAGTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (31 bp):
TAGGGGAAAAATCATAATTCTGTCAAAGGTT
Found at i:62612631 original size:54 final size:54
Alignment explanation
Indices: 62612567--62612774 Score: 199
Period size: 54 Copynumber: 3.9 Consensus size: 54
62612557 TTGGTAAGAT
* * *
62612567 AAGGATATCATTTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGATAAGTTCTATAAGGC
* * * *
62612621 AAGGAAATCATGTAAGACCATGTCAAGACAT-GACATTGATAAGTTACTATAAGGTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGA-ATTGATAAGTT-CTATAAGG-C
* * * * * * *
62612677 AAGG-TCCCATGTAAGACCATGCCAAGGCATAGCATTGGTGAGTTC-ATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGATAAGTTCTATAAGGC
* * *
62612729 AAGGATACCACGTAAGACCATGTCAAGACATGGTAA-TGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGATAAGTTC
62612775 AAAAAGGAAA
Statistics
Matches: 126, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
52 4 0.03
53 39 0.31
54 40 0.32
55 38 0.30
56 5 0.04
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGATAAGTTCTATAAGGC
Found at i:62614370 original size:16 final size:16
Alignment explanation
Indices: 62614349--62614380 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
62614339 TCAATCTATG
62614349 GTAGAGGGTATTTGTT
1 GTAGAGGGTATTTGTT
62614365 GTAGAGGGTATTTGTT
1 GTAGAGGGTATTTGTT
62614381 CTTTATAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.44
Consensus pattern (16 bp):
GTAGAGGGTATTTGTT
Found at i:62617787 original size:48 final size:48
Alignment explanation
Indices: 62617735--62617862 Score: 168
Period size: 48 Copynumber: 2.7 Consensus size: 48
62617725 TGTCAGTGCT
*
62617735 GATGCCATGTCACAGACATGGTCTTACACTA-GCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACAC-AGGCACACATATCAACGCC
* * * * *
62617783 GATGCCGTATCCCAGACATGTTCTTACACAGGCTCACATATCAACGTC
1 GATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCAACGCC
* *
62617831 GACGCCATGTCCCAAACATGGTCTTACACAGG
1 GATGCCATGTCCCAGACATGGTCTTACACAGG
62617863 TTCTCATTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 1 0.01
48 67 0.99
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCAACGCC
Found at i:62622323 original size:80 final size:80
Alignment explanation
Indices: 62622239--62622387 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
62622229 TATGGTAACC
* * * *
62622239 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
62622303 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
62622319 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
62622384 CCGG
66 CCGG
62622388 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:62622329 original size:40 final size:38
Alignment explanation
Indices: 62622280--62622387 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
62622270 ATCACGATTT
*
62622280 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
62622320 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
62622360 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
62622388 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:62630441 original size:80 final size:80
Alignment explanation
Indices: 62630357--62630505 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
62630347 TATGGTAACC
* * * *
62630357 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
62630421 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
62630437 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
62630502 CCGG
66 CCGG
62630506 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:62630447 original size:40 final size:38
Alignment explanation
Indices: 62630398--62630505 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
62630388 ATCACGATTT
*
62630398 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
62630438 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
62630478 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
62630506 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:62634933 original size:48 final size:48
Alignment explanation
Indices: 62634879--62635109 Score: 251
Period size: 48 Copynumber: 4.9 Consensus size: 48
62634869 CACATAGTAG
* *
62634879 GATGCCAATGCCATTTCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
62634927 GATGCCAATGCCATGTCCCAGACATGGTCTTACATTGGATCATGCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA--CATATC
* * *** * *
62634977 GAAGCCGAT---A-G-CCCAG-CTATGGTCTTACACAATG-TCTCATATT
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACA-TGGGATCACATATC
* * *
62635020 GATGCCAATGCCATGTTCCAGACATGGTCTTACATGGGATCACATTTT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
62635068 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
62635110 TGCATATCCC
Statistics
Matches: 152, Mismatches: 20, Indels: 22
0.78 0.10 0.11
Matches are distributed among these distances:
43 12 0.08
44 1 0.01
45 18 0.12
46 3 0.02
47 3 0.02
48 101 0.66
49 1 0.01
50 13 0.09
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:62638820 original size:26 final size:27
Alignment explanation
Indices: 62638791--62638844 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
62638781 TCACACAAGT
*
62638791 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
62638817 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
62638844 T
1 T
62638845 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:62639080 original size:27 final size:27
Alignment explanation
Indices: 62638846--62639085 Score: 327
Period size: 27 Copynumber: 8.9 Consensus size: 27
62638836 GGGCAAAATG
* * * * * *
62638846 GTAATTTTACCCTAGAAGAGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
62638873 GTAATTTTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
62638900 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
62638927 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
62638954 GTAATTCTACCCTGCAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
62638981 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
62639008 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
62639035 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
62639062 GTAATTCTACCTTATAGGGGTATT
1 GTAATTCTACCCTACAGGGGTATT
62639086 CCAGGCCCTT
Statistics
Matches: 190, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:62641898 original size:27 final size:27
Alignment explanation
Indices: 62641868--62642116 Score: 286
Period size: 27 Copynumber: 9.3 Consensus size: 27
62641858 GGGGAAAAAT
* ** *
62641868 GGTAATTTTACCCCGCAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62641895 GGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
62641922 AGT-ATTTTACCCTACAAGGGT-TTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
62641947 GGTAATTCTACCCTACAGGGGTGTTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62641974 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
62642001 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
62642028 GGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
62642055 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
62642082 GGTAATTCTACCTTACAGGGGTATTTTT
1 GGTAATTCTACCCTACAAGGGTA-TTTC
62642110 GGTAATT
1 GGTAATT
62642117 TTACAAACTA
Statistics
Matches: 197, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
25 6 0.03
26 34 0.17
27 147 0.75
28 10 0.05
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:62642059 original size:81 final size:81
Alignment explanation
Indices: 62641896--62642142 Score: 320
Period size: 81 Copynumber: 3.1 Consensus size: 81
62641886 GGGTATCTCG
* * * * *
62641896 GTAATTTTACCCTACAAGGGTATTTCAGT-ATTTTACCCTACAAGGGT-TTTCGGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACC
* * * *
62641959 CTACAGGGGTGTTTCA
66 ATATAGGGGTATTTTA
62641975 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACC
*
62642040 TTATAGGGGTATTTTA
66 ATATAGGGGTATTTTA
* * *
62642056 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTTGGTAATTTTA-
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTA-TTTCGGTAATTCTAC
* *
62642120 CAAACTAGGGGTATTTTG
65 CATA-TAGGGGTATTTTA
62642138 GTAAT
1 GTAAT
62642143 ATTACTAATC
Statistics
Matches: 149, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
79 27 0.18
80 15 0.10
81 78 0.52
82 29 0.19
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACC
ATATAGGGGTATTTTA
Found at i:62642129 original size:28 final size:26
Alignment explanation
Indices: 62642017--62642198 Score: 112
Period size: 27 Copynumber: 6.7 Consensus size: 26
62642007 TCTACCTTAC
* * **
62642017 AGGGGTATTTCGGTAATTCTACCTTAT
1 AGGGGTATTTTGGTAATTTTA-CAAAT
* * ** *
62642044 AGGGGTATTTTAGTAATTCTACCCTAC
1 AGGGGTATTTTGGTAATTTTA-CAAAT
* * ** *
62642071 AGGGGTATTTCGGTAATTCTACCTTAC
1 AGGGGTATTTTGGTAATTTTA-CAAAT
62642098 AGGGGTATTTTTGGTAATTTTACAAACT
1 AGGGGTA-TTTTGGTAATTTTACAAA-T
* *
62642126 AGGGGTATTTTGGTAATATTACTAAT
1 AGGGGTATTTTGGTAATTTTACAAAT
* * **
62642152 CGAGGGTATTTTGGTAATTTTGCTCAT
1 AG-GGGTATTTTGGTAATTTTACAAAT
*
62642179 CGAGGGTATTTTGGTAATTT
1 AG-GGGTATTTTGGTAATTT
62642199 GGTAAACTAA
Statistics
Matches: 134, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.01
27 113 0.84
28 19 0.14
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (26 bp):
AGGGGTATTTTGGTAATTTTACAAAT
Found at i:62642197 original size:27 final size:27
Alignment explanation
Indices: 62642100--62642198 Score: 128
Period size: 27 Copynumber: 3.6 Consensus size: 27
62642090 TACCTTACAG
* *
62642100 GGGTATTTTTGGTAATTTTAC-AAACTA
1 GGGTA-TTTTGGTAATTTTACTAATCGA
*
62642127 GGGGTATTTTGGTAATATTACTAATCGA
1 -GGGTATTTTGGTAATTTTACTAATCGA
* *
62642155 GGGTATTTTGGTAATTTTGCTCATCGA
1 GGGTATTTTGGTAATTTTACTAATCGA
62642182 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
62642199 GGTAAACTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 55 0.86
28 9 0.14
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACTAATCGA
Found at i:62647499 original size:41 final size:41
Alignment explanation
Indices: 62647454--62647536 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
62647444 TAATGCCCCT
*
62647454 AGCAGCCCATATTTTTCATTTTTTTTACATTTTAACCACTA
1 AGCAGCCCATATTTTTCATTTATTTTACATTTTAACCACTA
62647495 AGCAGCCCATATTTTTCATTTATTTTACATTTTAACCACTA
1 AGCAGCCCATATTTTTCATTTATTTTACATTTTAACCACTA
62647536 A
1 A
62647537 CTTTACACAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.45
Consensus pattern (41 bp):
AGCAGCCCATATTTTTCATTTATTTTACATTTTAACCACTA
Found at i:62648289 original size:16 final size:17
Alignment explanation
Indices: 62648257--62648290 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
62648247 GGGGATGGCG
62648257 TTTGTTTGATGTTTATT
1 TTTGTTTGATGTTTATT
*
62648274 TTTGTTTGGT-TTTATT
1 TTTGTTTGATGTTTATT
62648290 T
1 T
62648291 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.09, C:0.00, G:0.18, T:0.74
Consensus pattern (17 bp):
TTTGTTTGATGTTTATT
Found at i:62651600 original size:46 final size:46
Alignment explanation
Indices: 62651550--62651722 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
62651540 TGGTTGAGCA
*
62651550 TCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62651596 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62651641 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* ** * * *
62651689 CCCGGGCTCATTTAGTTGAGTCCGAATTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62651723 GGGGCAGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 55 0.53
47 28 0.27
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62659387 original size:71 final size:72
Alignment explanation
Indices: 62659301--62659465 Score: 305
Period size: 71 Copynumber: 2.3 Consensus size: 72
62659291 CGATTTGTCT
* *
62659301 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTATA-TTTA
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTTA
62659365 TCTTTCA
66 TCTTTCA
62659372 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTTA
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTTA
62659437 TCTTTCA
66 TCTTTCA
62659444 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62659466 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
71 58 0.64
72 33 0.36
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.37
Consensus pattern (72 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTTA
TCTTTCA
Found at i:62659503 original size:72 final size:71
Alignment explanation
Indices: 62659301--62659499 Score: 235
Period size: 71 Copynumber: 2.8 Consensus size: 71
62659291 CGATTTGTCT
* * * ** *
62659301 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTATA-TTTA
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTTA
62659365 TCTTTCA
65 TCTTTCA
* * * *
62659372 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTTA
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTTA
62659437 TCTTTCA
65 TCTTTCA
* *
62659444 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
62659500 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
69 22 0.19
70 1 0.01
71 59 0.50
72 36 0.31
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTTAT
CTTTCA
Found at i:62664611 original size:48 final size:48
Alignment explanation
Indices: 62664556--62664786 Score: 251
Period size: 48 Copynumber: 4.9 Consensus size: 48
62664546 CGCATAGTAG
* * *
62664556 GATGCCAATGCCATTTCCCAAATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
62664604 GATGCCAATGCCATGTCCCAGACATGGTCTTACTTAGGATCATGCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA--CATATC
* * * * * *
62664654 GAAGCCGAT---A-G-CCCAG-CTATGGTCTTACACGATG-TCTCATATT
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATG-GGATCACATATC
* *
62664697 GATGCCAATGCCATGTTCCAGACATGGTCTTACATGGGATCACATTTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
62664745 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
62664787 TGCATATCCC
Statistics
Matches: 149, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
43 12 0.08
44 1 0.01
45 17 0.11
46 3 0.02
47 3 0.02
48 99 0.66
49 1 0.01
50 13 0.09
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:62682918 original size:93 final size:93
Alignment explanation
Indices: 62682806--62682977 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62682796 GCCCATAAGT
* *
62682806 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62682871 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62682899 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62682964 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62682978 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62682973 original size:46 final size:46
Alignment explanation
Indices: 62682798--62682973 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62682788 TGTAACCCGC
* * *
62682798 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
62682844 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
62682894 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
62682937 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62682974 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:62685399 original size:30 final size:30
Alignment explanation
Indices: 62685355--62685443 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
62685345 CAAAGATAAC
*
62685355 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
62685384 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
62685414 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
62685444 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:62685403 original size:15 final size:14
Alignment explanation
Indices: 62685355--62685437 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
62685345 CAAAGATAAC
*
62685355 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
62685369 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
62685384 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
62685399 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
62685414 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
62685429 AAGAAACCC
1 AAGAAACCC
62685438 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:62685443 original size:15 final size:15
Alignment explanation
Indices: 62685366--62685443 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
62685356 AGAAAACCGA
62685366 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
62685381 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
62685395 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
62685410 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62685426 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62685441 ATA
1 ATA
62685444 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62697018 original size:17 final size:17
Alignment explanation
Indices: 62696996--62697028 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62696986 GTTAGTGAAC
*
62696996 ATTGTCGTTGCATTTTT
1 ATTGTCATTGCATTTTT
62697013 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
62697029 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:62697369 original size:81 final size:81
Alignment explanation
Indices: 62697234--62697394 Score: 322
Period size: 81 Copynumber: 2.0 Consensus size: 81
62697224 TGAACGAGTT
62697234 GCATAAATTTGACTGAATGTTGTATCTTCAATTCTTTGATGAATGATTTAGGTTCCATTAGTAAT
1 GCATAAATTTGACTGAATGTTGTATCTTCAATTCTTTGATGAATGATTTAGGTTCCATTAGTAAT
62697299 GGATGACAAGTAGCAA
66 GGATGACAAGTAGCAA
62697315 GCATAAATTTGACTGAATGTTGTATCTTCAATTCTTTGATGAATGATTTAGGTTCCATTAGTAAT
1 GCATAAATTTGACTGAATGTTGTATCTTCAATTCTTTGATGAATGATTTAGGTTCCATTAGTAAT
62697380 GGATGACAAGTAGCA
66 GGATGACAAGTAGCA
62697395 TTCCTTGAAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (81 bp):
GCATAAATTTGACTGAATGTTGTATCTTCAATTCTTTGATGAATGATTTAGGTTCCATTAGTAAT
GGATGACAAGTAGCAA
Found at i:62716187 original size:40 final size:40
Alignment explanation
Indices: 62716131--62716227 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 40
62716121 CTATCTCGGT
* *
62716131 ATCGCGCACTTAGTGCC-TCATATAGCCGAAGCTATTCCAA
1 ATCGCACACTTAGTGCCAT-ATATAGCCAAAGCTATTCCAA
* * * *
62716171 CAT-GCACACTTAGTGCCATTTGTAGCCAAAGCTATTTCGA
1 -ATCGCACACTTAGTGCCATATATAGCCAAAGCTATTCCAA
62716211 ATCGCACACTTAGTGCC
1 ATCGCACACTTAGTGCC
62716228 GAACGATTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
39 2 0.04
40 43 0.90
41 3 0.06
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCATATATAGCCAAAGCTATTCCAA
Found at i:62722844 original size:43 final size:43
Alignment explanation
Indices: 62722792--62722946 Score: 247
Period size: 43 Copynumber: 3.6 Consensus size: 43
62722782 CCGGCATTAT
*
62722792 GCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
62722835 GCTTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
62722878 GCCTGCTAGGTACGAAGGCCCAAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
62722921 GCCTGCTAGGCACGAAGGCCTGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
62722947 TAATACCAGC
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:62722993 original size:38 final size:38
Alignment explanation
Indices: 62722944--62723018 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
62722934 GAAGGCCTGA
* * *
62722944 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
62722982 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
62723019 AATACACATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:62742097 original size:11 final size:11
Alignment explanation
Indices: 62742081--62742105 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62742071 GCCTGGACTG
62742081 ATAATCTTGCC
1 ATAATCTTGCC
62742092 ATAATCTTGCC
1 ATAATCTTGCC
62742103 ATA
1 ATA
62742106 TATGTGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (11 bp):
ATAATCTTGCC
Found at i:62743222 original size:30 final size:30
Alignment explanation
Indices: 62743188--62743259 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
62743178 GTCCCAAGTC
62743188 ACACGGGCGTGTGAGTCTAACGGCCCATCT
1 ACACGGGCGTGTGAGTCTAACGGCCCATCT
62743218 ACACGGGCGTGTGAGTCTAACGGCCCATCT
1 ACACGGGCGTGTGAGTCTAACGGCCCATCT
62743248 ACACGGGCGTGT
1 ACACGGGCGTGT
62743260 AACACTTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.19, C:0.29, G:0.32, T:0.19
Consensus pattern (30 bp):
ACACGGGCGTGTGAGTCTAACGGCCCATCT
Found at i:62744401 original size:29 final size:29
Alignment explanation
Indices: 62744359--62744418 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
62744349 TGGTTAGAGT
62744359 TAATCAAGGATTACGAACTGATCATTGAC
1 TAATCAAGGATTACGAACTGATCATTGAC
62744388 TAATCAAGGATTACGAACTGATCATTGAC
1 TAATCAAGGATTACGAACTGATCATTGAC
62744417 TA
1 TA
62744419 TCACCCGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (29 bp):
TAATCAAGGATTACGAACTGATCATTGAC
Found at i:62756907 original size:3 final size:3
Alignment explanation
Indices: 62756899--62756970 Score: 126
Period size: 3 Copynumber: 23.7 Consensus size: 3
62756889 GATAAGTTAA
*
62756899 AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
62756947 AAT AAT AAT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AA
62756971 ACAAAACATG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:62769834 original size:40 final size:40
Alignment explanation
Indices: 62769776--62769978 Score: 264
Period size: 40 Copynumber: 5.1 Consensus size: 40
62769766 AGCCCTGATG
*
62769776 TAACAACCAGCACAAATGCC-TCTGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTC-GGGACTTAACCCGGAAA
* *
62769816 TAGCAACCAGCATGAATGCCTTCGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
** * *
62769856 TAACAACCAGCACGAATGCCTTCATGACTTAGCCCGGGAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
** * *
62769896 TAACAACTGGCACGAATGCCTTCGGGACATAACCCGAAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* * *
62769936 TAACAACCAGTATGAATGCCTTCGGGACTTAACCCGGATA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
62769976 TAA
1 TAA
62769979 TCCTCAATTG
Statistics
Matches: 138, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
40 136 0.99
41 2 0.01
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.18
Consensus pattern (40 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
Found at i:62774254 original size:40 final size:40
Alignment explanation
Indices: 62774171--62774323 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
62774161 TCGAATGATG
* *
62774171 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
62774211 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
62774251 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
62774292 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
62774324 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:62782285 original size:40 final size:39
Alignment explanation
Indices: 62782151--62782301 Score: 139
Period size: 39 Copynumber: 3.8 Consensus size: 39
62782141 TCGAATGATG
* ** *
62782151 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTCCAAA
*
62782190 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTCCAAA
* *
62782229 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTAT-TATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-T-TCCA-AA
* * *
62782270 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
62782302 CGCTATATCC
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
38 1 0.01
39 53 0.56
40 37 0.39
41 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCAAA
Found at i:62789593 original size:40 final size:39
Alignment explanation
Indices: 62789503--62789656 Score: 263
Period size: 39 Copynumber: 3.9 Consensus size: 39
62789493 AGCCCGGATG
*
62789503 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGAAA
* *
62789542 TAGCAACCAGCATGAATGCCTTCGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCC-GAAA
62789582 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGAAA
*
62789621 TAACAACCAGCATGAATGCCTTCGGGACTTAACCCG
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCG
62789657 GATATAATCC
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 71 0.66
40 37 0.34
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.17
Consensus pattern (39 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGAAA
Found at i:62789628 original size:79 final size:79
Alignment explanation
Indices: 62789503--62789663 Score: 295
Period size: 79 Copynumber: 2.0 Consensus size: 79
62789493 AGCCCGGATG
*
62789503 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGAAATAGCAACCAGCATGAATGCCTTCGGG
1 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGAAATAACAACCAGCATGAATGCCTTCGGG
62789568 ACTTAACCCGGAAA
66 ACTTAACCCGGAAA
*
62789582 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGAAATAACAACCAGCATGAATGCCTTCGGG
1 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGAAATAACAACCAGCATGAATGCCTTCGGG
*
62789647 ACTTAACCCGGATA
66 ACTTAACCCGGAAA
62789661 TAA
1 TAA
62789664 TCCTCAATTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.17
Consensus pattern (79 bp):
TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGAAATAACAACCAGCATGAATGCCTTCGGG
ACTTAACCCGGAAA
Found at i:62793554 original size:27 final size:27
Alignment explanation
Indices: 62793501--62793684 Score: 215
Period size: 27 Copynumber: 6.8 Consensus size: 27
62793491 AAACTTACAT
* * **
62793501 CACATAAGGGAAAAATAGTCAGCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * * *
62793528 CATATAAGGGAAAAAAAGTTATATTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
62793555 CACATAAAGGCAAAACAGTTATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
62793582 CACATAAGGGCAAAACAGTCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
62793609 CACATAAGGGCAAAACAATCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
62793636 CACATAAGGGGAAAACAGTCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
62793663 CACATAAGGGCAAAACAGTCAT
1 CACATAAGGGCAAAACAGTCAT
62793685 GTCATCAAAT
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.22
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:62796074 original size:27 final size:27
Alignment explanation
Indices: 62796056--62796168 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
62796046 ATTACTGAAA
**
62796056 TACCCCCAATTTGTAAAATTATCGAAG
1 TACCCCCGGTTTGTAAAATTATCGAAG
62796083 TATCCCCC-GTTTGTAAAATTATCGAAG
1 TA-CCCCCGGTTTGTAAAATTATCGAAG
*
62796110 TACCCTCGGTTTGTAAAATTATCGAAG
1 TACCCCCGGTTTGTAAAATTATCGAAG
* *
62796137 TACCCCCGGTTTGTAAAATTATAGAAA
1 TACCCCCGGTTTGTAAAATTATCGAAG
62796164 TACCC
1 TACCC
62796169 TTGTAGTGTA
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
26 4 0.05
27 70 0.89
28 5 0.06
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (27 bp):
TACCCCCGGTTTGTAAAATTATCGAAG
Found at i:62796178 original size:27 final size:26
Alignment explanation
Indices: 62796148--62796236 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 26
62796138 ACCCCCGGTT
62796148 TGTAAAATTATAGAAATACCCTTGTAG
1 TGTAAAATTAT-GAAATACCCTTGTAG
*
62796175 TGTATAATTACTGAAATACCCTTGTAG
1 TGTAAAATTA-TGAAATACCCTTGTAG
* * *
62796202 TGTAAAATGACCGACATACCCTTGTAG
1 TGTAAAATTA-TGAAATACCCTTGTAG
*
62796229 GGTAAAAT
1 TGTAAAAT
62796237 GACTATTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (26 bp):
TGTAAAATTATGAAATACCCTTGTAG
Found at i:62796195 original size:54 final size:53
Alignment explanation
Indices: 62796067--62796195 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 53
62796057 ACCCCCAATT
* * * *
62796067 TGTAAAATTATCGAAGTATCCCCCGTTTGTAAAATTATCGAAGTACCCTCGGTT
1 TGTAAAATTATCGAAATA-CCCCCGTTTGTAAAATTATAGAAATACCCTCGGTG
* *
62796121 TGTAAAATTATCGAAGTACCCCCGGTTTGTAAAATTATAGAAATACCCT-TGTAG
1 TGTAAAATTATCGAAATACCCCC-GTTTGTAAAATTATAGAAATACCCTCGGT-G
*
62796175 TGTATAATTA-CTGAAATACCC
1 TGTAAAATTATC-GAAATACCC
62796196 TTGTAGTGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
53 8 0.12
54 58 0.88
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (53 bp):
TGTAAAATTATCGAAATACCCCCGTTTGTAAAATTATAGAAATACCCTCGGTG
Found at i:62796237 original size:27 final size:27
Alignment explanation
Indices: 62796160--62796239 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
62796150 TAAAATTATA
* * *
62796160 GAAATACCCTTGTAGTGTATAATTACT
1 GAAATACCCTTGTAGTGTAAAATGACC
62796187 GAAATACCCTTGTAGTGTAAAATGACC
1 GAAATACCCTTGTAGTGTAAAATGACC
* *
62796214 GACATACCCTTGTAGGGTAAAATGAC
1 GAAATACCCTTGTAGTGTAAAATGAC
62796240 TATTTTGCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (27 bp):
GAAATACCCTTGTAGTGTAAAATGACC
Found at i:62801291 original size:14 final size:14
Alignment explanation
Indices: 62801272--62801298 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62801262 ACAGCAGTCA
62801272 CACGCCCATGTGGT
1 CACGCCCATGTGGT
62801286 CACGCCCATGTGG
1 CACGCCCATGTGG
62801299 GCAGACCGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.37, G:0.30, T:0.19
Consensus pattern (14 bp):
CACGCCCATGTGGT
Found at i:62803566 original size:40 final size:43
Alignment explanation
Indices: 62803517--62803615 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 43
62803507 CAATGGTATT
* *
62803517 TGGCACTAAGTGTGCGAT-TCAAAATAGCTTCAGCTATTTG-A
1 TGGCACTAAGTGTGCGATACCAAAATAGCTTCAGCTAATTGAA
* * *
62803558 -GGCACTAAGTGTGCGATACCGAGATAGCTTCAGTTAATTGAAA
1 TGGCACTAAGTGTGCGATACCAAAATAGCTTCAGCTAATTG-AA
62803601 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
62803616 AGATGTTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
40 17 0.35
41 17 0.35
43 1 0.02
44 14 0.29
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (43 bp):
TGGCACTAAGTGTGCGATACCAAAATAGCTTCAGCTAATTGAA
Found at i:62810037 original size:11 final size:11
Alignment explanation
Indices: 62810021--62810047 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
62810011 AATAAAACAA
62810021 AAGCTTCAAAT
1 AAGCTTCAAAT
62810032 AAGCTTCAAAT
1 AAGCTTCAAAT
62810043 AAGCT
1 AAGCT
62810048 CATTTCATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (11 bp):
AAGCTTCAAAT
Found at i:62812468 original size:16 final size:16
Alignment explanation
Indices: 62812447--62812497 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
62812437 TTTCTAGTAT
*
62812447 TTTATTTACTAGCGTG
1 TTTATTTACTAGCGTA
62812463 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
62812479 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
62812495 TTT
1 TTT
62812498 GCTCTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:62816561 original size:40 final size:39
Alignment explanation
Indices: 62816516--62816723 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
62816506 CGGAATACAA
*
62816516 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
62816556 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
62816596 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
62816636 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
62816676 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
62816716 CCGGATAT
1 CCGGATAT
62816724 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:62816656 original size:80 final size:81
Alignment explanation
Indices: 62816516--62816721 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
62816506 CGGAATACAA
* * *
62816516 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
62816580 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
62816596 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
62816659 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
62816676 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
62816722 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:62824685 original size:40 final size:39
Alignment explanation
Indices: 62824640--62824847 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
62824630 CGGAATACAA
*
62824640 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
62824680 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
62824720 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
62824760 CCGGATGTAGTCGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
62824800 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
62824840 CCGGATAT
1 CCGGATAT
62824848 CATTCAATTG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:62824780 original size:80 final size:81
Alignment explanation
Indices: 62824640--62824845 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
62824630 CGGAATACAA
* * *
62824640 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
62824704 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
62824720 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TCG-CTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
62824783 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
62824800 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
62824846 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 103 0.95
81 2 0.02
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:62828156 original size:33 final size:33
Alignment explanation
Indices: 62828115--62828227 Score: 90
Period size: 33 Copynumber: 3.4 Consensus size: 33
62828105 TATATGTATA
* *
62828115 AGTGTAAGACCATAGCTGGGCTATGGCATCT-TG
1 AGTGTAAGACCATAACTAGGCTATGGCA-CTATG
* *
62828148 A-TGATAAGACGATAACTAGGTTATGGCACTATG
1 AGTG-TAAGACCATAACTAGGCTATGGCACTATG
** * *
62828181 AGTGTAAGACCAT-GGTAGGGCCATGGCAATAT-
1 AGTGTAAGACCATAACTA-GGCTATGGCACTATG
62828213 ACGTGTAAGACCATA
1 A-GTGTAAGACCATA
62828228 GTTGGACTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
32 7 0.11
33 55 0.86
34 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (33 bp):
AGTGTAAGACCATAACTAGGCTATGGCACTATG
Found at i:62828193 original size:105 final size:102
Alignment explanation
Indices: 62827978--62828205 Score: 271
Period size: 105 Copynumber: 2.2 Consensus size: 102
62827968 ACCTGACGGA
* * *
62827978 TAAGACCATGGTTAGACCATGGCAAAGTGTTAAATGTAAGACCATAGCTGGGCTATAGCATTTTA
1 TAAGACCATGGTTGGACCATGACAAAGTGTTAAATGTAAGACCATAGCTGGGCTATAGCATTTGA
*
62828043 GTGAAAAGACCATAACTAGGTTATGGCACCGTGAACG
66 GTGAAAAGACCATAACTAGGTTATGGCACCATGAACG
* * *
62828080 TAAAACCATGGTTGGACCATGACAGTATA-TGTATAAGTGTAAGACCATAGCTGGGCTATGGCAT
1 TAAGACCATGGTTGGACCATGACA--A-AGTGT-TAAATGTAAGACCATAGCTGGGCTATAGCAT
* * * **
62828144 CTTGA-TGATAAGACGATAACTAGGTTATGGCACTATGAGTG
62 -TTGAGTGAAAAGACCATAACTAGGTTATGGCACCATGAACG
* *
62828185 TAAGACCATGGTAGGGCCATG
1 TAAGACCATGGTTGGACCATG
62828206 GCAATATACG
Statistics
Matches: 106, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
102 21 0.20
104 4 0.04
105 78 0.74
106 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (102 bp):
TAAGACCATGGTTGGACCATGACAAAGTGTTAAATGTAAGACCATAGCTGGGCTATAGCATTTGA
GTGAAAAGACCATAACTAGGTTATGGCACCATGAACG
Found at i:62834092 original size:27 final size:26
Alignment explanation
Indices: 62834044--62834095 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
62834034 GCGAGGCTGC
*
62834044 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
62834070 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
62834096 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:62843716 original size:31 final size:31
Alignment explanation
Indices: 62843656--62843717 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
62843646 GATCTTTGAG
** *
62843656 ATTGTGCATAGATTACGGACAACTGAACAAT
1 ATTGTGCATAGATTACAAACAACTAAACAAT
*
62843687 ATTGTGCATAGATTACAAACAGCTAAACAAT
1 ATTGTGCATAGATTACAAACAACTAAACAAT
62843718 GTCACAATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (31 bp):
ATTGTGCATAGATTACAAACAACTAAACAAT
Found at i:62847062 original size:49 final size:46
Alignment explanation
Indices: 62846990--62847191 Score: 178
Period size: 49 Copynumber: 4.3 Consensus size: 46
62846980 TGATGTGTGT
*
62846990 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAAGATATGCAA
1 GCTAGTGTAAGACCTATCTGGGACATGGCATCGG-CTC-AGATATG-AA
* * *
62847039 GCTAGTGTAAGACCTATCTGGGACATGGCATCGGCTTGAGGTGTG--
1 GCTAGTGTAAGACCTATCTGGGACATGGCATCGGC-TCAGATATGAA
* * *
62847084 TCT-GTGTAA-ACCTATCTGGGACATGGCATCGACACAGATGAGTGAGA
1 GCTAGTGTAAGACCTATCTGGGACATGGCATCGGCTCAGAT-A-TGA-A
* * * * * *
62847131 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGGTGTGAGA
1 GCTAGTGTAAGACCTATCTGGGACATGGCATCGGCTCAGATATGA-A
*
62847178 GCCAGTGTAAGACC
1 GCTAGTGTAAGACC
62847192 ATGTTTGGAA
Statistics
Matches: 128, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
42 3 0.02
43 23 0.18
44 8 0.06
45 2 0.02
47 20 0.16
48 12 0.09
49 60 0.47
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACCTATCTGGGACATGGCATCGGCTCAGATATGAA
Found at i:62847144 original size:92 final size:94
Alignment explanation
Indices: 62846984--62847174 Score: 250
Period size: 92 Copynumber: 2.1 Consensus size: 94
62846974 TTTGGGTGAT
* * * *
62846984 GTGTGTGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAAGATATGCAAGCTAGTGTAA
1 GTGTGTGCTAGTGTAAGACCTATCTGGGACATGGCATCGGACACAAGATATGCAAGCCAGTGTAA
*
62847049 GACCTATCTGGGACATGGCATCGGCTTGAG
66 GACCTATCTGGGACATGGCATCGACTT-AG
62847079 GTGTGT-CT-GTGTAA-ACCTATCTGGGACATGGCATC-GACAC-AGATGAGTG-AGAGCCAGTG
1 GTGTGTGCTAGTGTAAGACCTATCTGGGACATGGCATCGGACACAAGAT-A-TGCA-AGCCAGTG
*
62847138 TAAGACCTGTCTGGGACATGGCATCGACTTAG
63 TAAGACCTATCTGGGACATGGCATCGACTTAG
62847170 GTGTG
1 GTGTG
62847175 AGAGCCAGTG
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
90 4 0.05
91 12 0.14
92 57 0.66
93 6 0.07
94 2 0.02
95 6 0.07
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (94 bp):
GTGTGTGCTAGTGTAAGACCTATCTGGGACATGGCATCGGACACAAGATATGCAAGCCAGTGTAA
GACCTATCTGGGACATGGCATCGACTTAG
Found at i:62848313 original size:29 final size:28
Alignment explanation
Indices: 62848259--62848313 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
62848249 CAAGGGCTAA
*
62848259 GACACGGGTGTGTCATGGCCGTGTGAGG
1 GACACGGGTGTGCCATGGCCGTGTGAGG
62848287 GACACGAGCGTGTGCCA-GGCCGTGTGA
1 GACACG-G-GTGTGCCATGGCCGTGTGA
62848314 AAACCCCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 6 0.25
29 11 0.46
30 7 0.29
ACGTcount: A:0.16, C:0.22, G:0.44, T:0.18
Consensus pattern (28 bp):
GACACGGGTGTGCCATGGCCGTGTGAGG
Found at i:62850093 original size:64 final size:64
Alignment explanation
Indices: 62850012--62850195 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 64
62850002 AGACTCTATG
* *
62850012 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
62850076 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATATAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
62850140 TAA
62 TAA
* * * *
62850143 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
62850196 CGAACTCTAT
Statistics
Matches: 96, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 23 0.24
65 4 0.04
66 18 0.19
67 32 0.33
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:62853328 original size:30 final size:30
Alignment explanation
Indices: 62853294--62853354 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
62853284 TCGTTAACTC
62853294 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
62853324 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
62853354 A
1 A
62853355 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:62863612 original size:16 final size:16
Alignment explanation
Indices: 62863588--62863618 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62863578 CTGCTTCACT
62863588 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
62863604 TACTTACTTACTTAA
1 TACTCACTTACTTAA
62863619 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:62863624 original size:20 final size:20
Alignment explanation
Indices: 62863585--62863624 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62863575 AAACTGCTTC
* *
62863585 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
62863605 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
62863625 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:62863942 original size:53 final size:54
Alignment explanation
Indices: 62863810--62864064 Score: 249
Period size: 55 Copynumber: 4.8 Consensus size: 54
62863800 AAGCGGGTAC
* * *
62863810 CTTACCATTTCCATGACTTGTCATGGTCTTA-AGTGGTATCC-T---TT-TGAAA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACA-TGGTATCCTTGCCTTATGAAA
* *
62863859 CTTACCATTTCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * * *
62863912 CTCACCAATTCCTTGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * * *
62863967 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTA-GAAA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
62864020 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TTCCATGCCTTGACATGGTCTTACATGGTATCCTT
62864065 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
50 2 0.01
52 2 0.01
53 48 0.28
54 10 0.06
55 68 0.40
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (54 bp):
CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:62869116 original size:28 final size:28
Alignment explanation
Indices: 62869047--62869147 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
62869037 GACAAGATTG
* * * *
62869047 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
62869077 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
62869105 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
62869134 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62869148 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:62877070 original size:28 final size:28
Alignment explanation
Indices: 62877001--62877101 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
62876991 GACAAGATTG
* * * *
62877001 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
62877031 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
62877059 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
62877088 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62877102 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:62882693 original size:55 final size:54
Alignment explanation
Indices: 62882503--62882757 Score: 256
Period size: 55 Copynumber: 4.8 Consensus size: 54
62882493 AAGCGGGTAC
* * * * * *
62882503 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* *
62882552 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * * *
62882605 CTCACCAATTCCTTGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AA
* * * *
62882660 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
*
62882713 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
62882758 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 39 0.23
52 4 0.02
53 44 0.26
54 8 0.05
55 73 0.43
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:62890985 original size:28 final size:28
Alignment explanation
Indices: 62890920--62891018 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
62890910 CATGAGATTG
* * *
62890920 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
62890949 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
62890977 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
62891005 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62891019 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:62896783 original size:71 final size:71
Alignment explanation
Indices: 62896699--62896862 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62896689 CGATTTGTCT
62896699 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62896764 CTTTCA
66 CTTTCA
62896770 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62896835 CTTTCA
66 CTTTCA
62896841 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62896863 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62896900 original size:71 final size:70
Alignment explanation
Indices: 62896699--62896896 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
62896689 CGATTTGTCT
* * * *
62896699 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62896764 CTTTCA
65 CTTTCA
* * * *
62896770 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62896835 CTTTCA
65 CTTTCA
* *
62896841 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
62896897 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:62901674 original size:36 final size:37
Alignment explanation
Indices: 62901624--62901700 Score: 147
Period size: 36 Copynumber: 2.1 Consensus size: 37
62901614 TTATAAAGAA
62901624 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
62901661 GTCTTA-CCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
62901697 GTCT
1 GTCT
62901701 CGCCCGGAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 34 0.85
37 6 0.15
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:62901863 original size:49 final size:49
Alignment explanation
Indices: 62901803--62901925 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
62901793 CATATATTTT
*
62901803 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
62901852 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
62901901 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
62901926 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:62905073 original size:40 final size:41
Alignment explanation
Indices: 62905029--62905127 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
62905019 TCGATTGTTC
* * **
62905029 TCGGGACATAGCCCGG-TTATAGTGA-TTTGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAACGCCT
62905069 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAACGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAACGCCT
*
62905110 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
62905128 ACCATTCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.38
41 30 0.60
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAACGCCT
Found at i:62905648 original size:29 final size:29
Alignment explanation
Indices: 62905611--62906077 Score: 818
Period size: 29 Copynumber: 16.3 Consensus size: 29
62905601 TGTTGAAAAA
* *
62905611 CTCGTACACACAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
62905640 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
62905669 TTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62905698 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62905727 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62905756 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
*
62905785 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62905814 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62905843 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62905872 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62905901 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62905930 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62905959 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62905988 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62906017 CTCG--CACACAGTG-C-CGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
62906042 CTCGCACACATAGTGCCTCGATTACTGGT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62906071 CT-GCACA
1 CTCGCACA
62906078 TAGTGCTCGG
Statistics
Matches: 424, Mismatches: 10, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
25 15 0.04
26 1 0.00
27 17 0.04
28 6 0.01
29 385 0.91
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCGATTACTGAT
Found at i:62908177 original size:37 final size:37
Alignment explanation
Indices: 62908127--62908204 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
62908117 TATAAAAGAA
62908127 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
62908164 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
62908201 GTCT
1 GTCT
62908205 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:62908367 original size:49 final size:49
Alignment explanation
Indices: 62908307--62908429 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
62908297 CATATATTTT
*
62908307 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
62908356 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
62908405 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
62908430 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:62911575 original size:40 final size:41
Alignment explanation
Indices: 62911531--62911629 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
62911521 TCGATTGTTC
* * **
62911531 TCGGGACATAGCCCGG-TTATAGTGA-TTTGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAACGCCT
62911571 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAACGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAACGCCT
*
62911612 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
62911630 ACCATTCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.38
41 30 0.60
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAACGCCT
Found at i:62912150 original size:29 final size:29
Alignment explanation
Indices: 62912113--62912596 Score: 863
Period size: 29 Copynumber: 16.9 Consensus size: 29
62912103 TGTTGAAAAA
* *
62912113 CTCGTACACACAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
62912142 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
62912171 TTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912200 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912229 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912258 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912287 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912316 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912345 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912374 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912403 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912432 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912461 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912490 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912519 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
62912548 CTCG--CACACAGTGCCTCGATT-CTG-T
1 CTCGCACACACAGTGCCTCGATTACTGAT
*
62912573 CTCG-ACACATAGTG-CTCGATTACT
1 CTCGCACACACAGTGCCTCGATTACT
62912597 TACACATAGT
Statistics
Matches: 446, Mismatches: 7, Indels: 7
0.97 0.02 0.02
Matches are distributed among these distances:
25 12 0.03
26 13 0.03
27 17 0.04
29 404 0.91
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCGATTACTGAT
Found at i:62914742 original size:37 final size:36
Alignment explanation
Indices: 62914651--62914762 Score: 208
Period size: 37 Copynumber: 3.1 Consensus size: 36
62914641 CTTATAAGAA
62914651 GTCTTACCGGTCATAATCTCC-CACGTAGTCATCGG
1 GTCTTACCGGTCATAATCTCCACACGTAGTCATCGG
62914686 GTCTTACCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCGGTCATAATCTCCACACGTAGTCATCGG
62914722 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTA-CCGGTCATAATCTCCACACGTAGTCATCGG
62914759 GTCT
1 GTCT
62914763 CGCCCGGAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
35 21 0.28
36 20 0.27
37 34 0.45
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.29
Consensus pattern (36 bp):
GTCTTACCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:62914925 original size:49 final size:49
Alignment explanation
Indices: 62914865--62914987 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
62914855 CATATATTTT
*
62914865 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
62914914 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
62914963 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
62914988 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:62917678 original size:9 final size:9
Alignment explanation
Indices: 62917666--62917722 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
62917656 TTTGATAAAC
62917666 ATGATATGT
1 ATGATATGT
*
62917675 ATGATATGCAC
1 ATGATATG--T
*
62917686 ATGACATGT
1 ATGATATGT
*
62917695 ATGATATGCAC
1 ATGATATG--T
62917706 ATGATATGT
1 ATGATATGT
62917715 ATGATATG
1 ATGATATG
62917723 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:62917689 original size:20 final size:20
Alignment explanation
Indices: 62917664--62917734 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
62917654 ATTTTGATAA
62917664 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
62917684 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
62917704 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
62917724 ACATGAGATGT
1 ACATGATATGT
62917735 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62917711 original size:11 final size:11
Alignment explanation
Indices: 62917675--62917729 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
62917665 CATGATATGT
62917675 ATGATATGCAC
1 ATGATATGCAC
* *
62917686 ATGACATG--T
1 ATGATATGCAC
62917695 ATGATATGCAC
1 ATGATATGCAC
*
62917706 ATGATATG--T
1 ATGATATGCAC
62917715 ATGATATGCAC
1 ATGATATGCAC
62917726 ATGA
1 ATGA
62917730 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:62917847 original size:24 final size:23
Alignment explanation
Indices: 62917779--62917966 Score: 265
Period size: 24 Copynumber: 8.0 Consensus size: 23
62917769 GAGGAAGTGC
62917779 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
62917802 TAAAGGGCTTATG-CCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
62917824 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
62917848 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
62917872 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
62917895 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
62917918 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
62917942 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
62917966 A
1 A
62917967 TGATAAAGCA
Statistics
Matches: 153, Mismatches: 6, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
22 30 0.20
23 47 0.31
24 66 0.43
25 10 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:62917939 original size:93 final size:94
Alignment explanation
Indices: 62917780--62917965 Score: 297
Period size: 93 Copynumber: 2.0 Consensus size: 94
62917770 AGGAAGTGCA
62917780 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATCAAAAGGGCTTATGCCCCAGT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATCAAAAGGGCTTATGCCCCAGT
*
62917845 TATCAAAAG-GGCTTATGCC-CCAGTTATT
66 TATCAAAAGAGGC-TAGGCCTCCAGTTATT
* *
62917873 AAAGGGCTTATGCCCCAGTTA-TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAG
*
62917937 TTATTAAAAGAGGCTAGGCCTCCAGTTAT
65 TTATCAAAAGAGGCTAGGCCTCCAGTTAT
62917966 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
92 13 0.15
93 62 0.72
94 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (94 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATCAAAAGGGCTTATGCCCCAGT
TATCAAAAGAGGCTAGGCCTCCAGTTATT
Found at i:62925065 original size:9 final size:9
Alignment explanation
Indices: 62925053--62925109 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
62925043 TTTGATAAAC
62925053 ATGATATGT
1 ATGATATGT
*
62925062 ATGATATGCAC
1 ATGATATG--T
*
62925073 ATGACATGT
1 ATGATATGT
*
62925082 ATGATATGCAC
1 ATGATATG--T
62925093 ATGATATGT
1 ATGATATGT
62925102 ATGATATG
1 ATGATATG
62925110 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:62925076 original size:20 final size:20
Alignment explanation
Indices: 62925051--62925121 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
62925041 ATTTTGATAA
62925051 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
62925071 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
62925091 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
62925111 ACATGAGATGT
1 ACATGATATGT
62925122 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Done.