Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 22 of 175
Found at i:5862946 original size:11 final size:10
Alignment explanation
Indices: 5862926--5862955 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
5862916 TGTGAAGGTT
*
5862926 AAAAATAAAA
1 AAAAACAAAA
5862936 AAAAACAAAA
1 AAAAACAAAA
5862946 AAAAACAAAA
1 AAAAACAAAA
5862956 CATATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:5862950 original size:15 final size:15
Alignment explanation
Indices: 5862926--5862968 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
5862916 TGTGAAGGTT
5862926 AAAAATAAAAAAAAAC
1 AAAAA-AAAAAAAAAC
*
5862942 AAAAAAAAACAAAAC
1 AAAAAAAAAAAAAAC
5862957 ATATAAAAAAAA
1 A-A-AAAAAAAA
5862969 CGCACGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 10 0.43
16 6 0.26
17 7 0.30
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAAAAAAC
Found at i:5863057 original size:23 final size:25
Alignment explanation
Indices: 5863013--5863066 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
5863003 CTTATGAACA
** *
5863013 TATATATTTTATATAAATAAATATG
1 TATATATACTATATAAATAAATACG
*
5863038 TATATATACTATAT-AA-AAATGCG
1 TATATATACTATATAAATAAATACG
5863061 TATATA
1 TATATA
5863067 AGTTTAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 11 0.44
24 2 0.08
25 12 0.48
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (25 bp):
TATATATACTATATAAATAAATACG
Found at i:5882912 original size:96 final size:96
Alignment explanation
Indices: 5882737--5882917 Score: 249
Period size: 96 Copynumber: 1.9 Consensus size: 96
5882727 ACAAAAGGAA
* * *
5882737 TAAACACGAAGAAGAAGAGCTTGAAAAGGTGACAGAAAGCTATAAGCTTAAACGAAAGCCACCAT
1 TAAACACGAAAAAGAAGAGCTTGAAAAGGTGACAGAAAGCTATAAACTTAAACGAAAGCAACCAT
* *
5882802 CACAGTCATTGGAACGCGAAAAGCAGATTGC
66 CACAGTCATCGGAACCCGAAAAGCAGATTGC
*
5882833 TAAACCCGAAAAAGAAGAGCTTGAAAAGGT-ATCAGAAAAG-TATAAACTTAAACGAAAGCAACC
1 TAAACACGAAAAAGAAGAGCTTGAAAAGGTGA-CAG-AAAGCTATAAACTTAAACGAAAGCAACC
* **
5882896 ATCGCCTTCATCGGAACCCGAA
64 ATCACAGTCATCGGAACCCGAA
5882918 CAAGAGCTTG
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
95 1 0.01
96 69 0.93
97 4 0.05
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (96 bp):
TAAACACGAAAAAGAAGAGCTTGAAAAGGTGACAGAAAGCTATAAACTTAAACGAAAGCAACCAT
CACAGTCATCGGAACCCGAAAAGCAGATTGC
Found at i:5906332 original size:52 final size:51
Alignment explanation
Indices: 5906271--5906399 Score: 179
Period size: 50 Copynumber: 2.5 Consensus size: 51
5906261 AAAAATGAGT
* * *
5906271 TTACTTAATGCATGACTTAATTTAATGATGCAGACTTAAATTAACATGAGAG
1 TTACATAATGCATGACTTAATTTAATGATGCAAACTT-AACTAACATGAGAG
* *
5906323 TTACATAATGCATGTCATAATTT-ATGATGCAAACTTAACTAACATGAGAG
1 TTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAGAG
* *
5906373 TTACATAATGCATGACTTTATTAAATG
1 TTACATAATGCATGACTTAATTTAATG
5906400 CAGAACACAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 32 0.48
51 15 0.22
52 20 0.30
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (51 bp):
TTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAGAG
Found at i:5910306 original size:34 final size:34
Alignment explanation
Indices: 5910235--5910319 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
5910225 ATGACTCAAA
* *
5910235 AACAAGCTAATAAATTTAGCTTCTTACTCCCACT
1 AACAAGCTAACAAACTTAGCTTCTTACTCCCACT
** *
5910269 AACAAGCTAACAAACTTAGCTT-TCTACTTTCATT
1 AACAAGCTAACAAACTTAGCTTCT-TACTCCCACT
*
5910303 AACAAGTTAACAAACTT
1 AACAAGCTAACAAACTT
5910320 CCTAGAATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
33 1 0.02
34 43 0.98
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.32
Consensus pattern (34 bp):
AACAAGCTAACAAACTTAGCTTCTTACTCCCACT
Found at i:5912744 original size:10 final size:10
Alignment explanation
Indices: 5912720--5912823 Score: 56
Period size: 10 Copynumber: 10.4 Consensus size: 10
5912710 ACATATAGCA
*
5912720 AAAAATATAAA
1 AAAAAT-TAAT
5912731 AAAAATTAAT
1 AAAAATTAAT
*
5912741 -AAAATTTAT
1 AAAAATTAAT
* *
5912750 AAGAATTATT
1 AAAAATTAAT
**
5912760 AAATTTTAAT
1 AAAAATTAAT
5912770 AAAAATT-AT
1 AAAAATTAAT
*
5912779 AAAAAATT-GT
1 -AAAAATTAAT
*
5912789 AAAAAATTATAA
1 -AAAAATTA-AT
5912801 AAAAATGTAA-
1 AAAAAT-TAAT
5912811 AAAAATT-AT
1 AAAAATTAAT
5912820 AAAA
1 AAAA
5912824 TAAATAGAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
8 1 0.01
9 15 0.21
10 42 0.58
11 13 0.18
12 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (10 bp):
AAAAATTAAT
Found at i:5912791 original size:29 final size:29
Alignment explanation
Indices: 5912736--5912791 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
5912726 ATAAAAAAAA
* * *
5912736 TTAATAAAATTTATAAGAATTATTAAATT
1 TTAATAAAAATTATAAAAATTAGTAAATT
5912765 TTAATAAAAATTATAAAAAATT-GTAAA
1 TTAATAAAAATTAT-AAAAATTAGTAAA
5912792 AAATTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
TTAATAAAAATTATAAAAATTAGTAAATT
Found at i:5912793 original size:20 final size:21
Alignment explanation
Indices: 5912770--5912828 Score: 93
Period size: 20 Copynumber: 2.8 Consensus size: 21
5912760 AAATTTTAAT
*
5912770 AAAAATTATAAAAAATTGT-A
1 AAAAATTATAAAAAAATGTAA
5912790 AAAAATTATAAAAAAATGTAA
1 AAAAATTATAAAAAAATGTAA
5912811 AAAAATTATAAAATAAAT
1 AAAAATTATAAAA-AAAT
5912829 AGAAATATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 18 0.50
21 14 0.39
22 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (21 bp):
AAAAATTATAAAAAAATGTAA
Found at i:5912803 original size:21 final size:22
Alignment explanation
Indices: 5912760--5912828 Score: 90
Period size: 21 Copynumber: 3.2 Consensus size: 22
5912750 AAGAATTATT
*
5912760 AAATTTTAATAAAAATTAT-AAA
1 AAATTGTAA-AAAAATTATAAAA
5912782 AAATTGT-AAAAAATTATAAAA
1 AAATTGTAAAAAAATTATAAAA
5912803 AAA-TGTAAAAAAATTATAAAA
1 AAATTGTAAAAAAATTATAAAA
5912824 TAAAT
1 -AAAT
5912829 AGAAATATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
20 12 0.29
21 21 0.50
22 9 0.21
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (22 bp):
AAATTGTAAAAAAATTATAAAA
Found at i:5912842 original size:29 final size:28
Alignment explanation
Indices: 5912767--5912851 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 28
5912757 ATTAAATTTT
*
5912767 AATAAAAAT-TATAAAAAATTGTAAAAA
1 AATAAAAATATATAAAAAATTATAAAAA
* *
5912794 ATTATAAAAAAATGTAAAAAAATTATAAAATA
1 A--ATAAAAATATAT-AAAAAATTATAAAA-A
* **
5912826 AATAGAAATATATAAAATTTTATAAA
1 AATAAAAATATATAAAAAATTATAAA
5912852 GTCGTAAGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
27 1 0.02
29 18 0.40
30 11 0.24
31 13 0.29
32 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (28 bp):
AATAAAAATATATAAAAAATTATAAAAA
Found at i:5912909 original size:20 final size:20
Alignment explanation
Indices: 5912839--5912912 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
5912829 AGAAATATAT
* * *
5912839 AAAATTTTATAAAGTCGTAAG
1 AAAATTATA-AAATTCGTAAA
* *
5912860 AAGATTATAAAAAAT-GTAAA
1 AAAATTAT-AAAATTCGTAAA
*
5912880 GAAA-TATAAAATTCGTAAA
1 AAAATTATAAAATTCGTAAA
5912899 AAAATTATAAAATT
1 AAAATTATAAAATT
5912913 TATCATACCA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
18 5 0.12
19 11 0.26
20 15 0.36
21 10 0.24
22 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (20 bp):
AAAATTATAAAATTCGTAAA
Found at i:5913188 original size:10 final size:9
Alignment explanation
Indices: 5913162--5913214 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
5913152 TTAAAACTTA
5913162 ATAATTTTT
1 ATAATTTTT
5913171 ATAATTTTT
1 ATAATTTTT
*
5913180 ATAACTTTT
1 ATAATTTTT
*
5913189 ATTGATTTTT
1 A-TAATTTTT
*
5913199 AT-TTTTTT
1 ATAATTTTT
5913207 AT-ATTTTT
1 ATAATTTTT
5913215 TGCCACATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
8 12 0.32
9 19 0.50
10 7 0.18
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (9 bp):
ATAATTTTT
Found at i:5913533 original size:89 final size:89
Alignment explanation
Indices: 5913320--5913545 Score: 267
Period size: 89 Copynumber: 2.5 Consensus size: 89
5913310 TCAAATGAGC
* * * * * * *
5913320 TTTTTGATTCATTTTGACAGTTTAAGTACCCAATTAAGCGTAAAATAAAAGCAGGGGCTTAATTG
1 TTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGCAAAA-AAAAGCAGGGGCTTAACTA
* *
5913385 CTTTTTTGAAAAAGTTTGATGTCAT
65 CTTTTTTGAAAAAGTTTGAGGGCAT
* * * *
5913410 TTTTT-ATGTATTTTAAAAGTTTAAGTACCCAATTGAGTGCAAAAAAAAGTAGGGGCTTAACTAT
1 TTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGCAAAAAAAAGCAGGGGCTTAACTAC
5913474 TTTTTTCGAAAAAGTTTGAGGGC-T
66 TTTTTT-GAAAAAGTTTGAGGGCAT
* * * *
5913498 TTTTTGATGCATTTTGAAAGTTCAAATGCCTAATTGAGTGCAAAAAAA
1 TTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGCAAAAAAA
5913546 GGACTTAATT
Statistics
Matches: 115, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
88 28 0.24
89 82 0.71
90 5 0.04
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (89 bp):
TTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGCAAAAAAAAGCAGGGGCTTAACTAC
TTTTTTGAAAAAGTTTGAGGGCAT
Found at i:5921594 original size:31 final size:31
Alignment explanation
Indices: 5921558--5921618 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
5921548 CAAAAACACA
* *
5921558 AAAACAAAATCTGGGTCTTCGAGTTTAATTC
1 AAAACAAAAACTGGGTCTTCGAGTTAAATTC
* *
5921589 AAAACAAAAACTGGGTGTTTGAGTTAAATT
1 AAAACAAAAACTGGGTCTTCGAGTTAAATT
5921619 TTTTTTTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.31
Consensus pattern (31 bp):
AAAACAAAAACTGGGTCTTCGAGTTAAATTC
Found at i:5929939 original size:25 final size:24
Alignment explanation
Indices: 5929904--5929997 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 24
5929894 CTTCAATGTT
5929904 CAATTTGGTACTTGAGTTTTTTTC
1 CAATTTGGTACTTGAGTTTTTTTC
*
5929928 CTAATTTGGTACTTGA-ATTTTTT-
1 C-AATTTGGTACTTGAGTTTTTTTC
* *
5929951 CAACTTGATACTTGAGGTTTGTTTGGTCC
1 CAATTTGGTACTTGA-GTTT-TTT--T-C
*
5929980 CAATTTGGTACTTAAGTT
1 CAATTTGGTACTTGAGTT
5929998 CGAGTTTAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
22 12 0.22
23 1 0.02
24 9 0.16
25 17 0.31
27 1 0.02
28 3 0.05
29 12 0.22
ACGTcount: A:0.20, C:0.13, G:0.18, T:0.49
Consensus pattern (24 bp):
CAATTTGGTACTTGAGTTTTTTTC
Found at i:5931211 original size:20 final size:21
Alignment explanation
Indices: 5931175--5931213 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
5931165 TTGATATTGT
*
5931175 TTTTAAGAAAGGTATCGATTA
1 TTTTAAGAAAAGTATCGATTA
5931196 TTTTAA-AAAAGTATCGAT
1 TTTTAAGAAAAGTATCGAT
5931214 ACCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (21 bp):
TTTTAAGAAAAGTATCGATTA
Found at i:5931418 original size:20 final size:20
Alignment explanation
Indices: 5931387--5931444 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
5931377 TTTTGATGTG
*
5931387 TTAAAATGATTTTAACTTGA
1 TTAAAATCATTTTAACTTGA
** *
5931407 TTGGAATCATTTTAACTTGG
1 TTAAAATCATTTTAACTTGA
*
5931427 TTAAAATCATTTTCACTT
1 TTAAAATCATTTTAACTT
5931445 AATTTTAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTGA
Found at i:5937807 original size:12 final size:12
Alignment explanation
Indices: 5937790--5937834 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
5937780 TGTTGCCGCT
5937790 ATTATTATTATC
1 ATTATTATTATC
5937802 ATTATTATTTAT-
1 ATTATTA-TTATC
5937814 ATTATTATTATC
1 ATTATTATTATC
5937826 ATTATTATT
1 ATTATTATT
5937835 TATCTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 4 0.13
12 23 0.74
13 4 0.13
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:5937848 original size:24 final size:24
Alignment explanation
Indices: 5937789--5937837 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
5937779 TTGTTGCCGC
5937789 TATTATTATTATCATTATTATTTA
1 TATTATTATTATCATTATTATTTA
5937813 TATTATTATTATCATTATTATTTA
1 TATTATTATTATCATTATTATTTA
5937837 T
1 T
5937838 CTTTCTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATTATTATCATTATTATTTA
Found at i:5937852 original size:3 final size:3
Alignment explanation
Indices: 5937789--5937834 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
5937779 TTGTTGCCGC
* *
5937789 TAT TAT TAT TAT CAT TAT TAT T-T ATAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
5937834 T
1 T
5937835 TATCTTTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 35 0.95
4 1 0.03
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:5944154 original size:17 final size:17
Alignment explanation
Indices: 5944128--5944161 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5944118 GCCAGGAGTG
5944128 TTAATCGACAATGGATA
1 TTAATCGACAATGGATA
*
5944145 TTAATTGACAATGGATA
1 TTAATCGACAATGGATA
5944162 CACGCTGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (17 bp):
TTAATCGACAATGGATA
Found at i:5947981 original size:37 final size:37
Alignment explanation
Indices: 5947924--5948034 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
5947914 GAAGAAAGAG
5947924 ATCATATGTCGGTATGGAATGCCAGAAAAGA-CTATAT
1 ATCATATGTCGGTATGGAATGCCAGAAAAGATC-ATAT
* *
5947961 ATCATATGTCAGTATTGAATGCCAGAAAAGATCATAT
1 ATCATATGTCGGTATGGAATGCCAGAAAAGATCATAT
*
5947998 ATCATATGTCGGTATGGAATGCCAGAAAGGATCATAT
1 ATCATATGTCGGTATGGAATGCCAGAAAAGATCATAT
5948035 CTAACAATGC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
37 67 0.99
38 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
ATCATATGTCGGTATGGAATGCCAGAAAAGATCATAT
Found at i:5949634 original size:44 final size:44
Alignment explanation
Indices: 5949568--5950036 Score: 458
Period size: 44 Copynumber: 10.5 Consensus size: 44
5949558 CTACCATAGT
* * * * *
5949568 AAATATTATATCCCTAAAGTTGCAATGGAGCAGATTAAAGCTAA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * * *
5949612 AAATCCTATAC-CTCTGAAGTTGCAGTGG-GTCTGATTGAATATACCATAG
1 AAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATT--A-A-AGC-TAC
* * * * * * *
5949661 GAATCTTATCTTCATAAATTTGCAATGGAGCAGATGAAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * *
5949705 CAATCTTATCCCCCTGAAGTTGTATTGGAGCAGATTAAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * *
5949749 TAATCTTATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
** * * * *
5949793 ACGTCTTATCTCCTTGAAGTTTCAATGGAGCAAATTAAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* *
5949837 CAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* *
5949881 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * *
5949925 CAATCTTATCTCTCTAAAGTTGTAGTGGAGCAGATTAAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * *
5949969 AAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAG-TAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-AC
* *
5950013 AAATCTTATTTCTCTGAAGTTGCA
1 AAATCTTATCTCCCTGAAGTTGCA
5950037 ATGGGGCAAG
Statistics
Matches: 345, Mismatches: 70, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
43 2 0.01
44 309 0.90
45 2 0.01
46 2 0.01
47 2 0.01
48 3 0.01
49 24 0.07
50 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
Found at i:5950091 original size:132 final size:131
Alignment explanation
Indices: 5949686--5950092 Score: 423
Period size: 132 Copynumber: 3.1 Consensus size: 131
5949676 AAATTTGCAA
* * * *
5949686 TGGAGCAGATGAAAGCTACCAATCTTATCCCCCTGAAGTTGTATTGGAGCAGATTAAAGCTACTA
1 TGGAGCAGATTAAAGCTACCAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAA
* * * * *
5949751 ATCTTATCTCCCTGAAGTTGCAGTAGAGCATA-TTAAAGCTAC-ACGTCTTATCTCCTTGAAGTT
66 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-AGATGAAGCTACAAC-TC-TATATCCTTGAAATT
* *
5949814 TCAA
128 ACAG
* * *
5949818 TGGAGCAAATTAAAGCTACCAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAA
1 TGGAGCAGATTAAAGCTACCAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAA
*
5949883 ATCTTATCTCCCTGAAGTTACAGTGGAGC-AGATTGAAGCTACCAA-TCT-TATCTCTCT-AAAG
66 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTA-CAACTCTATATC-CT-TGAAA-
**
5949944 TTGTAG
126 TTACAG
* * *
5949950 TGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAG-TAACA
1 TGGAGCAGATTAAAGCTACCAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCT-ACA
* * * * * *
5950014 AATCTTATTTCTCTGAAGTTGCAATGGGGCAAGATGAGGCTACAACTCATATATCCTTGAAATAA
65 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAACTC-TATATCCTTGAAATTA
5950079 CAG
129 CAG
* *
5950082 TGCATCAGATT
1 TGGAGCAGATT
5950093 GGAACTACAC
Statistics
Matches: 229, Mismatches: 33, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
130 4 0.02
131 9 0.04
132 201 0.88
133 10 0.04
134 5 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (131 bp):
TGGAGCAGATTAAAGCTACCAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAA
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAACTCTATATCCTTGAAATTACA
G
Found at i:5951697 original size:30 final size:28
Alignment explanation
Indices: 5951663--5951719 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
5951653 ATTTTGTCAC
5951663 AATTTA-TGCTTTTAATTTCATTTAAATTCT
1 AATTTAGT-CTTTT-ATTT-ATTTAAATTCT
*
5951693 AATTTAGTCTTTTATTTATTTGAATTC
1 AATTTAGTCTTTTATTTATTTAAATTC
5951720 AACCTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 9 0.36
29 4 0.16
30 11 0.44
31 1 0.04
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (28 bp):
AATTTAGTCTTTTATTTATTTAAATTCT
Found at i:5951894 original size:3 final size:3
Alignment explanation
Indices: 5951829--5951876 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
5951819 TGCCTCTATG
* * * * *
5951829 ATT ATT ATT GTT ACT GTT ATT AAT ATT ATT ATT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5951877 TATCTTTCTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:5956090 original size:20 final size:20
Alignment explanation
Indices: 5956038--5956090 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
5956028 ATTTTGATGT
*
5956038 GTTAAAATGATTTAAACTTG
1 GTTAAAATCATTTAAACTTG
** * **
5956058 GTTGGAATTATTTGGACTTG
1 GTTAAAATCATTTAAACTTG
5956078 GTTAAAATCATTT
1 GTTAAAATCATTT
5956091 TCACTTTATT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (20 bp):
GTTAAAATCATTTAAACTTG
Found at i:5963131 original size:20 final size:21
Alignment explanation
Indices: 5963083--5963131 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 21
5963073 TAATTTTTTT
5963083 ATATT-TTT-ACTAATATATA
1 ATATTATTTAACTAATATATA
* *
5963102 ATAATA-TTAACTAATTTA-A
1 ATATTATTTAACTAATATATA
5963121 ATATTATTTAA
1 ATATTATTTAA
5963132 ATGCATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTATTTAACTAATATATA
Found at i:5968444 original size:21 final size:22
Alignment explanation
Indices: 5968402--5968446 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
5968392 GTTATGAGAA
*
5968402 TTTAAGAATTTGGTTGAAAATC
1 TTTAAGAATTTGATTGAAAATC
*
5968424 TTTAAGAA-TTGATTGAGAATC
1 TTTAAGAATTTGATTGAAAATC
5968445 TT
1 TT
5968447 AATCAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.42
Consensus pattern (22 bp):
TTTAAGAATTTGATTGAAAATC
Found at i:5968509 original size:73 final size:73
Alignment explanation
Indices: 5968402--5968700 Score: 305
Period size: 73 Copynumber: 4.2 Consensus size: 73
5968392 GTTATGAGAA
* *
5968402 TTTAAGAATTT---GGTTGAAAATCTTTAAGAATTGATTGAGAATCTTAATCAATAATGTTAAAT
1 TTTAAGAATTTAGGGGTTGAAAATCTTTAAGATTTGATTGAGAATCTTAATCAACAATGTTAAAT
* *
5968464 GGATCATT
66 GGAGCACT
* *
5968472 TTTAAGAATTTAGGGGTTGAAAATCTGTAAGATTTGATTGCA-AATTTTAATCAACAATGTTAAA
1 TTTAAGAATTTAGGGGTTGAAAATCTTTAAGATTTGATTG-AGAATCTTAATCAACAATGTTAAA
5968536 TGGAGCACT
65 TGGAGCACT
* * *
5968545 TTTGAGGATTTAGGGATTTGGTTGAAAATCTTTAAAATTTGATTGAGAATCTTAATCAACAATGT
1 TTTAAGAATTTA-GG----GGTTGAAAATCTTTAAGATTTGATTGAGAATCTTAATCAACAATGT
5968610 TAAATGGAGCACT
61 TAAATGGAGCACT
* * * * * * * *
5968623 TTT--GAGTTT---GG-TCAAAATCTTTCAGATTTAATTGAAAATTTTTATGAACAATGTT-AAT
1 TTTAAGAATTTAGGGGTTGAAAATCTTTAAGATTTGATTGAGAATCTTAATCAACAATGTTAAAT
5968681 GGAGCACT
66 GGAGCACT
*
5968689 TTTTAGAATTTA
1 TTTAAGAATTTA
5968701 AAATCTTTAA
Statistics
Matches: 194, Mismatches: 22, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
66 14 0.07
67 36 0.19
68 7 0.04
70 11 0.06
73 61 0.31
74 3 0.02
76 4 0.02
77 1 0.01
78 57 0.29
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (73 bp):
TTTAAGAATTTAGGGGTTGAAAATCTTTAAGATTTGATTGAGAATCTTAATCAACAATGTTAAAT
GGAGCACT
Found at i:5969000 original size:7 final size:7
Alignment explanation
Indices: 5968988--5969015 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
5968978 ACTAATAAAA
5968988 AAATTTT
1 AAATTTT
5968995 AAATTTT
1 AAATTTT
5969002 AAATTTT
1 AAATTTT
5969009 AAATTTT
1 AAATTTT
5969016 TTTTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AAATTTT
Found at i:5974179 original size:43 final size:43
Alignment explanation
Indices: 5974116--5974279 Score: 165
Period size: 43 Copynumber: 3.9 Consensus size: 43
5974106 TACCGTAACA
* * ** *
5974116 ATGCC-ATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCAATAGCCCAGACATGGTCTTACACATAATCTCATATCG
* * *
5974158 ATGCCAATAGCCCAGCCATGGTCTTACACAAAATCACATATCG
1 ATGCCAATAGCCCAGACATGGTCTTACACATAATCTCATATCG
* * *
5974201 ATGCCAAT-GTCCTAGACATGGTCTTACACGA-AGTCTCATATCA
1 ATGCCAATAG-CCCAGACATGGTCTTACAC-ATAATCTCATATCG
* *
5974244 ATGCC-ATATCCCAGATATGGTCTTACACATAATCTC
1 ATGCCAATAGCCCAGACATGGTCTTACACATAATCTC
5974280 GGTAACCCTA
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 30 0.30
43 68 0.68
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCAATAGCCCAGACATGGTCTTACACATAATCTCATATCG
Found at i:5975564 original size:15 final size:15
Alignment explanation
Indices: 5975539--5975578 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
5975529 CCCATTCGTA
5975539 TGAACCCCTAGGTGTG
1 TGAA-CCCTAGGTGTG
5975555 TGAACCCTAGGTGTG
1 TGAACCCTAGGTGTG
*
5975570 TAAACCCTA
1 TGAACCCTA
5975579 ATGTGCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (15 bp):
TGAACCCTAGGTGTG
Found at i:5975645 original size:28 final size:28
Alignment explanation
Indices: 5975574--5975645 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
5975564 GGTGTGTAAA
*
5975574 CCCTAATGTGCAAACCCCTAGGTGCGAT
1 CCCTAAAGTGCAAACCCCTAGGTGCGAT
* * * *
5975602 CCCTAATGAGCGAACCCCTAGGTGTGA-
1 CCCTAAAGTGCAAACCCCTAGGTGCGAT
*
5975629 CCTTTAAAGTGCAAACC
1 CC-CTAAAGTGCAAACC
5975646 TACATGTGCA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 2 0.06
28 34 0.94
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (28 bp):
CCCTAAAGTGCAAACCCCTAGGTGCGAT
Found at i:5978355 original size:23 final size:23
Alignment explanation
Indices: 5978293--5978355 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
5978283 AAAGAGCGTT
*
5978293 CCGTTATTAGCTCTCATGAGCTTC
1 CCGTTA-TAGCTCTTATGAGCTTC
* * *
5978317 TCGTTATATAGTTCTTGTGAGCTTC
1 CCG-T-TATAGCTCTTATGAGCTTC
5978342 CCGTTATAGCTCTT
1 CCGTTATAGCTCTT
5978356 CGGAGTATCC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 9 0.29
24 3 0.10
25 17 0.55
26 2 0.06
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (23 bp):
CCGTTATAGCTCTTATGAGCTTC
Found at i:5984775 original size:12 final size:12
Alignment explanation
Indices: 5984758--5984782 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5984748 GCCAGGCAGT
5984758 AGAAGAAGAAAA
1 AGAAGAAGAAAA
5984770 AGAAGAAGAAAA
1 AGAAGAAGAAAA
5984782 A
1 A
5984783 ATAGAGATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAGAAGAAAA
Found at i:5985738 original size:30 final size:30
Alignment explanation
Indices: 5985702--5985770 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
5985692 ATGTTAGCGG
* *
5985702 GTGACTGTTTTGTTATTTTCTTAAAGTTTA
1 GTGACTGTTTTGTTATTTTCTCAAAGTTGA
5985732 GTGACTGTTTTGTTATTTTCTCAAAGTTGA
1 GTGACTGTTTTGTTATTTTCTCAAAGTTGA
5985762 GTGACTGTT
1 GTGACTGTT
5985771 GGTGTAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.19, C:0.09, G:0.20, T:0.52
Consensus pattern (30 bp):
GTGACTGTTTTGTTATTTTCTCAAAGTTGA
Found at i:5989815 original size:29 final size:29
Alignment explanation
Indices: 5989773--5989859 Score: 147
Period size: 29 Copynumber: 3.0 Consensus size: 29
5989763 CTCAGAGCCC
5989773 CCCATGTGCAATGCTATAAGTTATTTAGA
1 CCCATGTGCAATGCTATAAGTTATTTAGA
**
5989802 CCCATGTGTGATGCTATAAGTTATTTAGA
1 CCCATGTGCAATGCTATAAGTTATTTAGA
*
5989831 CTCATGTGCAATGCTATAAGTTATTTAGA
1 CCCATGTGCAATGCTATAAGTTATTTAGA
5989860 AAGTGCTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (29 bp):
CCCATGTGCAATGCTATAAGTTATTTAGA
Found at i:5995815 original size:17 final size:17
Alignment explanation
Indices: 5995796--5995828 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5995786 AAACTATAAA
*
5995796 AAAATT-TAAAATTATT
1 AAAATTATAAAAATATT
5995812 AAAATTATAAAAATATT
1 AAAATTATAAAAATATT
5995829 TTCTAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTATAAAAATATT
Found at i:5995815 original size:27 final size:26
Alignment explanation
Indices: 5995777--5995829 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
5995767 ATTAATTTTA
5995777 AAAATTAAAAAACTATAAAAAAATTT
1 AAAATTAAAAAACTATAAAAAAATTT
* * *
5995803 AAAATTATTAAAATTATAAAAATATTT
1 AAAATTA-AAAAACTATAAAAAAATTT
5995830 TCTAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAATTAAAAAACTATAAAAAAATTT
Found at i:5997992 original size:2 final size:2
Alignment explanation
Indices: 5997987--5998014 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5997977 ATATATATAT
5997987 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5998015 TTTCTTTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6002340 original size:14 final size:15
Alignment explanation
Indices: 6002323--6002351 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6002313 CATTAATAAA
6002323 ATCAT-TATTTTTTT
1 ATCATATATTTTTTT
6002337 ATCATATATTTTTTT
1 ATCATATATTTTTTT
6002352 TAACACAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
ATCATATATTTTTTT
Found at i:6005154 original size:29 final size:29
Alignment explanation
Indices: 6005121--6005178 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
6005111 TCGCCATACA
*
6005121 GTCGTGTGGTAGGCCGTGTATGGCACACG
1 GTCGTGTGGTAGGCCGTGTAAGGCACACG
*
6005150 GTCGTGTGGTAGGTCGTGTAAGGCACACG
1 GTCGTGTGGTAGGCCGTGTAAGGCACACG
6005179 ACAGTGTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.19, G:0.41, T:0.24
Consensus pattern (29 bp):
GTCGTGTGGTAGGCCGTGTAAGGCACACG
Found at i:6005185 original size:29 final size:29
Alignment explanation
Indices: 6005123--6005187 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
6005113 GCCATACAGT
* *
6005123 CGTGTGGTAGGCCGTGTATGGCACACGGT
1 CGTGTGGTAGGCCGTGTAAGGCACACGGA
*
6005152 CGTGTGGTAGGTCGTGTAAGGCACAC-GA
1 CGTGTGGTAGGCCGTGTAAGGCACACGGA
6005180 CAGTGTGG
1 C-GTGTGG
6005188 ACCTTTTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.17, C:0.18, G:0.42, T:0.23
Consensus pattern (29 bp):
CGTGTGGTAGGCCGTGTAAGGCACACGGA
Found at i:6005676 original size:5 final size:5
Alignment explanation
Indices: 6005662--6005769 Score: 92
Period size: 5 Copynumber: 21.4 Consensus size: 5
6005652 ATGGGGGTAG
* * * * * *
6005662 GATAT GATTT GATTT GATAT GATAT GATAT GATAA GCTAT GATTT GATTT
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT
* * * * *
6005712 GATTT GATTT GATAT GATAT GATAG GATAT CATCT G-TAT GAAATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT G--ATAT GATAT
6005763 GATAT GA
1 GATAT GA
6005770 AATATTAAGA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
4 3 0.03
5 79 0.92
7 4 0.05
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (5 bp):
GATAT
Found at i:6008040 original size:25 final size:25
Alignment explanation
Indices: 6007993--6008059 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 25
6007983 AAGTGTCAAG
*
6007993 TTTAGTACCAAATTAAACCAAAAAA
1 TTTAGTACCAAATTAAACAAAAAAA
*
6008018 TTTAGATACCAAATTAAAAAAAATCAAA
1 TTTAG-TACCAAATTAAACAAAA--AAA
*
6008046 TTTAAGTAGCAAAT
1 TTT-AGTACCAAAT
6008060 GTTATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 5 0.14
26 15 0.43
28 13 0.37
29 2 0.06
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (25 bp):
TTTAGTACCAAATTAAACAAAAAAA
Found at i:6008282 original size:5 final size:5
Alignment explanation
Indices: 6008272--6008301 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
6008262 TCTGCTCTCC
6008272 CACCT CACCT CACCT CACCT CACCT CACCT
1 CACCT CACCT CACCT CACCT CACCT CACCT
6008302 TTCTTTCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.60, G:0.00, T:0.20
Consensus pattern (5 bp):
CACCT
Found at i:6011655 original size:23 final size:23
Alignment explanation
Indices: 6011629--6011708 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
6011619 ATTGTTTGAA
6011629 TTTTAAATTATTTTTATATATAT
1 TTTTAAATTATTTTTATATATAT
** * *
6011652 TTTTTTATT-TTTTTAAAATAAAT
1 TTTTAAATTATTTTT-ATATATAT
** * *
6011675 TTTTATTTTATTTTCATATATTT
1 TTTTAAATTATTTTTATATATAT
6011698 TTTTAGAATTA
1 TTTTA-AATTA
6011709 GGATCAATTT
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
22 5 0.12
23 30 0.71
24 7 0.17
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (23 bp):
TTTTAAATTATTTTTATATATAT
Found at i:6012046 original size:20 final size:21
Alignment explanation
Indices: 6012007--6012054 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6011997 TTTGATTGAC
*
6012007 AAAATATAATATTACTTTAAA
1 AAAATATAATATCACTTTAAA
*
6012028 AAAATATCATATCAC-TTAAA
1 AAAATATAATATCACTTTAAA
*
6012048 AACATAT
1 AAAATAT
6012055 TTTTACTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATAATATCACTTTAAA
Found at i:6022652 original size:94 final size:94
Alignment explanation
Indices: 6022491--6022677 Score: 347
Period size: 94 Copynumber: 2.0 Consensus size: 94
6022481 CAGCTAAATT
*
6022491 TGGTTTGGTACTGGGAGGACAGAGGAGAAATCTTAGTAAGCCAAGTTCTGGAGTATTAGCAAGAG
1 TGGTTTGGTACTGGGAGAACAGAGGAGAAATCTTAGTAAGCCAAGTTCTGGAGTATTAGCAAGAG
6022556 CTTATGTGATGAAAGCTAAGAGGGATGTC
66 CTTATGTGATGAAAGCTAAGAGGGATGTC
*
6022585 TGGTTTGGTACTGGGAGAACAGATGAGAAATCTTAGTAAGCCAAGTTCTGGAGTATTAGCAAGAG
1 TGGTTTGGTACTGGGAGAACAGAGGAGAAATCTTAGTAAGCCAAGTTCTGGAGTATTAGCAAGAG
*
6022650 CTTATGTGGTGAAAGCTAAGAGGGATGT
66 CTTATGTGATGAAAGCTAAGAGGGATGT
6022678 TGATCTACCT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (94 bp):
TGGTTTGGTACTGGGAGAACAGAGGAGAAATCTTAGTAAGCCAAGTTCTGGAGTATTAGCAAGAG
CTTATGTGATGAAAGCTAAGAGGGATGTC
Found at i:6025054 original size:54 final size:54
Alignment explanation
Indices: 6024993--6025100 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
6024983 AGAGACTTTC
* ** *
6024993 ATTTTGGGTCACACGGGCGTGTGCTTTAACGTGTGCTAGACCGTGTAACTCTCT
1 ATTTTGGGTCACACGGGCGAGTGCTCGAACGTGTGCTAAACCGTGTAACTCTCT
* * ** *
6025047 ATTTTGGGTCACATGGGGGAGTGCTCGGCCTTGTGCTAAACCGTGTAACTCTCT
1 ATTTTGGGTCACACGGGCGAGTGCTCGAACGTGTGCTAAACCGTGTAACTCTCT
6025101 GAGTTGCCCC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (54 bp):
ATTTTGGGTCACACGGGCGAGTGCTCGAACGTGTGCTAAACCGTGTAACTCTCT
Found at i:6027612 original size:37 final size:37
Alignment explanation
Indices: 6027571--6027746 Score: 307
Period size: 37 Copynumber: 4.8 Consensus size: 37
6027561 TTTGAGTACT
6027571 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
6027608 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6027645 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6027682 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
6027719 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
6027747 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:6027818 original size:45 final size:46
Alignment explanation
Indices: 6027709--6027832 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
6027699 GTGATAAGTG
* *
6027709 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
6027755 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
6027800 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
6027833 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:6035301 original size:37 final size:37
Alignment explanation
Indices: 6035260--6035435 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
6035250 TTTGAGTACT
6035260 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6035297 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6035334 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6035371 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
6035408 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
6035436 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:6035507 original size:45 final size:46
Alignment explanation
Indices: 6035398--6035521 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
6035388 GTGATAAGTG
* *
6035398 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
6035444 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
6035489 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
6035522 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:6048475 original size:43 final size:43
Alignment explanation
Indices: 6048428--6048509 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
6048418 TCTTACATGT
*
6048428 AATCACGTAACGATGCCGCTGTCCCACACAGGGTATTACTCGA
1 AATCACATAACGATGCCGCTGTCCCACACAGGGTATTACTCGA
** * * *
6048471 AATCACATCTCGTTGCCTCTGTCCCACACAGGGTCTTAC
1 AATCACATAACGATGCCGCTGTCCCACACAGGGTATTAC
6048510 ACAAGAACAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (43 bp):
AATCACATAACGATGCCGCTGTCCCACACAGGGTATTACTCGA
Found at i:6054479 original size:18 final size:18
Alignment explanation
Indices: 6054452--6054490 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6054442 ATAGTCCTCT
6054452 TTTCTGTTAT-TTCGTTTC
1 TTTCTGTTATGTT-GTTTC
*
6054470 TTTCTTTTATGTTGTTTC
1 TTTCTGTTATGTTGTTTC
6054488 TTT
1 TTT
6054491 GTCTGTGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.05, C:0.13, G:0.10, T:0.72
Consensus pattern (18 bp):
TTTCTGTTATGTTGTTTC
Found at i:6054684 original size:11 final size:11
Alignment explanation
Indices: 6054670--6054721 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
6054660 TGGACTGTTA
*
6054670 TTTTATTTGGT
1 TTTTATTTGAT
*
6054681 TTTTATTTTTAT
1 TTTTA-TTTGAT
*
6054693 TTTGATTTGAT
1 TTTTATTTGAT
6054704 TTTTATTT-AT
1 TTTTATTTGAT
6054714 TTATTATT
1 TT-TTATT
6054722 GTAACACCCC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 4 0.12
11 22 0.65
12 8 0.24
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (11 bp):
TTTTATTTGAT
Found at i:6054690 original size:17 final size:17
Alignment explanation
Indices: 6054670--6054711 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
6054660 TGGACTGTTA
* *
6054670 TTTTATTTGGTTTTTAT
1 TTTTATTTGGATTTGAT
*
6054687 TTTTATTTTGATTTGAT
1 TTTTATTTGGATTTGAT
6054704 TTTTATTT
1 TTTTATTT
6054712 ATTTATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (17 bp):
TTTTATTTGGATTTGAT
Found at i:6056684 original size:11 final size:13
Alignment explanation
Indices: 6056664--6056695 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
6056654 AATAAATTAA
6056664 TAAAATATCAT-T
1 TAAAATATCATAT
6056676 TAAAA-ATCATAT
1 TAAAATATCATAT
6056688 TAAAATAT
1 TAAAATAT
6056696 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:6063584 original size:14 final size:16
Alignment explanation
Indices: 6063550--6063586 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
6063540 TTTATAATAT
*
6063550 AAATTCAATGATTATA
1 AAATTTAATGATTATA
6063566 AAATTTAAT-ATTA-A
1 AAATTTAATGATTATA
6063580 AAATTTA
1 AAATTTA
6063587 GTACTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 4 0.20
16 8 0.40
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (16 bp):
AAATTTAATGATTATA
Found at i:6080646 original size:4 final size:4
Alignment explanation
Indices: 6080637--6080670 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
6080627 TATCTAAACA
6080637 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
6080671 TTGTTTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:6080794 original size:4 final size:4
Alignment explanation
Indices: 6080785--6080810 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6080775 TATCTAAACA
6080785 ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT AT
6080811 TTATTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:6080892 original size:23 final size:23
Alignment explanation
Indices: 6080847--6080892 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6080837 TTATTAACAT
* *
6080847 TGTTCGTGAACATGTTTGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
6080870 TGTTCGTGAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
6080893 GTTAAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:6082778 original size:125 final size:124
Alignment explanation
Indices: 6082556--6082807 Score: 450
Period size: 125 Copynumber: 2.0 Consensus size: 124
6082546 CATAAAGTGA
* *
6082556 ATTTGCGATTCCTTGTTTCCCACTTAAACTATAAACAGTTGAGTTACCATTTAATTCAAGACAAT
1 ATTTGCGATTCCTGGTTTCCCACTTAAACTATAAACAGTTGAGTTACCAGTTAATTCAAGACAAT
6082621 AATATCAATGTTTTATTGGTGAAGGTGTCACCCCTCTCCACCCCCATTTTATTATTAATT
66 AATATCAATGTTTTATTGGTGAAGGTGTCACCCCTC-CCACCCCCATTTTATTATTAATT
6082681 ATTTGCGATTCCTGGTTTCCCACTTAAACTATAAACAGTTGAGTTACCAGTTAATTCAAGACAAT
1 ATTTGCGATTCCTGGTTTCCCACTTAAACTATAAACAGTTGAGTTACCAGTTAATTCAAGACAAT
* **
6082746 AATATCAATGTTTTATTGGTGAAGGTGTCACCCTTCCCACCCCTGTTTTATTATTAATT
66 AATATCAATGTTTTATTGGTGAAGGTGTCACCCCTCCCACCCCCATTTTATTATTAATT
6082805 ATT
1 ATT
6082808 ATTATATTTT
Statistics
Matches: 122, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
124 24 0.20
125 98 0.80
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (124 bp):
ATTTGCGATTCCTGGTTTCCCACTTAAACTATAAACAGTTGAGTTACCAGTTAATTCAAGACAAT
AATATCAATGTTTTATTGGTGAAGGTGTCACCCCTCCCACCCCCATTTTATTATTAATT
Found at i:6084736 original size:11 final size:11
Alignment explanation
Indices: 6084706--6084730 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6084696 AAAATCAACC
6084706 AAAAAAAAAAG
1 AAAAAAAAAAG
6084717 AAAAAAAAAAG
1 AAAAAAAAAAG
6084728 AAA
1 AAA
6084731 GGAAAACAAA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:6087558 original size:14 final size:14
Alignment explanation
Indices: 6087534--6087567 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6087524 TTAAAAAACG
*
6087534 TATTATTTATAAAA
1 TATTATATATAAAA
*
6087548 TTTTATATATAAAA
1 TATTATATATAAAA
6087562 TATTAT
1 TATTAT
6087568 TGTATAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATATATAAAA
Found at i:6098910 original size:49 final size:49
Alignment explanation
Indices: 6098819--6098915 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 49
6098809 ATCTATTTAT
* * * * *
6098819 AGGTTGAAAAACCTTATTATAGTCAATATCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAACCTTATTATAATCAATAGCAAATAAAAGAAGTATAGTA
* *
6098868 AGGTTGAAAAACCTTATTCTAATTAAT-GCAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAACCTTATTATAATCAATAGC-AAATAAAAGAAGTATAGT
6098916 TCTATATGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.03
49 39 0.98
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.30
Consensus pattern (49 bp):
AGGTTGAAAAACCTTATTATAATCAATAGCAAATAAAAGAAGTATAGTA
Found at i:6100901 original size:6 final size:6
Alignment explanation
Indices: 6100890--6100914 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6100880 TGGTAATGTG
6100890 AACACC AACACC AACACC AACACC A
1 AACACC AACACC AACACC AACACC A
6100915 TGCACATGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (6 bp):
AACACC
Found at i:6101144 original size:28 final size:28
Alignment explanation
Indices: 6101106--6101204 Score: 155
Period size: 28 Copynumber: 3.5 Consensus size: 28
6101096 AAAAATAAAA
*
6101106 ATTTACTAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
6101134 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
*
6101162 ATTTACCAAAATATTTA-AATTTTTTTATT
1 ATTTACCAAAATA-TTACAACTTTTTT-TT
6101191 ATTTACCAAAATAT
1 ATTTACCAAAATAT
6101205 ATAAAAAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
28 49 0.73
29 18 0.27
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:6101458 original size:21 final size:20
Alignment explanation
Indices: 6101434--6101484 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 20
6101424 AATAATTGAT
6101434 TATATTATTGT-TATTATTTTG
1 TATATT-TTGTATATT-TTTTG
6101455 TATATTTTGTAATATTTTTTG
1 TATATTTTGT-ATATTTTTTG
6101476 TAATATTTT
1 T-ATATTTT
6101485 TTTGTTGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.15
21 12 0.44
22 11 0.41
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
TATATTTTGTATATTTTTTG
Found at i:6101472 original size:19 final size:21
Alignment explanation
Indices: 6101434--6101472 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
6101424 AATAATTGAT
*
6101434 TATATTATTGTTATTATTTTG
1 TATATTATTGTTAATATTTTG
6101455 TATATT-TTG-TAATATTTT
1 TATATTATTGTTAATATTTT
6101473 TTGTAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (21 bp):
TATATTATTGTTAATATTTTG
Found at i:6101489 original size:13 final size:12
Alignment explanation
Indices: 6101459--6101486 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6101449 ATTTTGTATA
6101459 TTTTGTAATATT
1 TTTTGTAATATT
6101471 TTTTGTAATATT
1 TTTTGTAATATT
6101483 TTTT
1 TTTT
6101487 TGTTGTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (12 bp):
TTTTGTAATATT
Found at i:6101554 original size:3 final size:3
Alignment explanation
Indices: 6101548--6101573 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6101538 ATTATTATTA
6101548 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
6101574 AGTATGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:6101778 original size:12 final size:12
Alignment explanation
Indices: 6101758--6101817 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
6101748 ATTTTAGTGT
*
6101758 GTATTATTTTGA
1 GTATAATTTTGA
*
6101770 GTATAATTTAGTGT
1 GTATAATTT--TGA
* *
6101784 GTATTATTTTGT
1 GTATAATTTTGA
6101796 GTA-ATATTTTGA
1 GTATA-ATTTTGA
6101808 GTATAATTTT
1 GTATAATTTT
6101818 TTTTAAGTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
12 28 0.72
13 1 0.03
14 10 0.26
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (12 bp):
GTATAATTTTGA
Found at i:6101792 original size:14 final size:14
Alignment explanation
Indices: 6101750--6101797 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
6101740 AATTAATAAT
6101750 TTTAGTGTGTATTA
1 TTTAGTGTGTATTA
* *
6101764 TTT--TGAGTATAA
1 TTTAGTGTGTATTA
6101776 TTTAGTGTGTATTA
1 TTTAGTGTGTATTA
*
6101790 TTTTGTGT
1 TTTAGTGT
6101798 AATATTTTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
12 10 0.37
14 17 0.63
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (14 bp):
TTTAGTGTGTATTA
Found at i:6101804 original size:26 final size:26
Alignment explanation
Indices: 6101746--6101804 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
6101736 GTAAAATTAA
6101746 TAAT-TTTAGTGTGTATTATTTTGAG
1 TAATATTTAGTGTGTATTATTTTGAG
*
6101771 T-ATAATTTAGTGTGTATTATTTTGTG
1 TAAT-ATTTAGTGTGTATTATTTTGAG
6101797 TAATATTT
1 TAATATTT
6101805 TGAGTATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.07
25 1 0.03
26 25 0.83
27 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.58
Consensus pattern (26 bp):
TAATATTTAGTGTGTATTATTTTGAG
Found at i:6106883 original size:18 final size:18
Alignment explanation
Indices: 6106862--6106924 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
6106852 AATATATTTC
6106862 ATAAAATATATATGCTAA
1 ATAAAATATATATGCTAA
***
6106880 ATAAAATA-ATAAAATAA
1 ATAAAATATATATGCTAA
6106897 CTATAAAATATATATGCTAA
1 --ATAAAATATATATGCTAA
6106917 ATAAAATA
1 ATAAAATA
6106925 ATAAAATAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 6 0.17
18 16 0.44
19 8 0.22
20 6 0.17
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (18 bp):
ATAAAATATATATGCTAA
Found at i:6106904 original size:37 final size:37
Alignment explanation
Indices: 6106862--6106939 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
6106852 AATATATTTC
6106862 ATAAAATATATATGCTAAATAAAATAATAAAATAACT
1 ATAAAATATATATGCTAAATAAAATAATAAAATAACT
6106899 ATAAAATATATATGCTAAATAAAATAATAAAATAACT
1 ATAAAATATATATGCTAAATAAAATAATAAAATAACT
6106936 ATAA
1 ATAA
6106940 TATACATTAC
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:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (37 bp):
ATAAAATATATATGCTAAATAAAATAATAAAATAACT
Found at i:6106955 original size:37 final size:37
Alignment explanation
Indices: 6106862--6106955 Score: 127
Period size: 37 Copynumber: 2.5 Consensus size: 37
6106852 AATATATTTC
* *
6106862 ATAAAATATATATGCTAAATAAAATAATAAAATAACT
1 ATAAAATACATATACTAAATAAAATAATAAAATAACT
* *
6106899 ATAAAATATATATGCTAAATAAAATAATAAAATAACT
1 ATAAAATACATATACTAAATAAAATAATAAAATAACT
*
6106936 ATAATATACAT-TACATAAAT
1 ATAAAATACATATAC-TAAAT
6106956 TTTAAACACA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
36 2 0.04
37 51 0.96
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (37 bp):
ATAAAATACATATACTAAATAAAATAATAAAATAACT
Found at i:6107068 original size:22 final size:20
Alignment explanation
Indices: 6107028--6107191 Score: 110
Period size: 22 Copynumber: 8.0 Consensus size: 20
6107018 TCTTCCCTCT
* *
6107028 TCTTCTTCTTT-TTTTTTTC
1 TCTTCTCCTTTCTTTCTTTC
6107047 TCTTCTCCTTTCCCTTTCTTTC
1 TCTTCTCCTTT--CTTTCTTTC
* *
6107069 -CTTCTTTCTTTCTTTTTTCTTC
1 TCTTC-TCCTTTC-TTTCT-TTC
*
6107091 TCTTCTCCTTT-TCTTCTTCTT
1 TCTTCTCCTTTCT-TTCTT-TC
6107112 TCTT-TCCTTT-TTTCTCTTC
1 TCTTCTCCTTTCTTTCT-TTC
6107131 TCCTT-TCCTTTTCTTTCTTTC
1 T-CTTCTCC-TTTCTTTCTTTC
6107152 -C-TCTCCTTTCTTTCTTTC
1 TCTTCTCCTTTCTTTCTTTC
*
6107170 TTCCCTCTCCTTTCTTTCTTTC
1 -T-CTTCTCCTTTCTTTCTTTC
6107192 CTTTTTTCTC
Statistics
Matches: 119, Mismatches: 8, Indels: 33
0.74 0.05 0.21
Matches are distributed among these distances:
18 13 0.11
19 20 0.17
20 17 0.14
21 23 0.19
22 42 0.35
23 4 0.03
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
TCTTCTCCTTTCTTTCTTTC
Found at i:6107075 original size:18 final size:17
Alignment explanation
Indices: 6107054--6107205 Score: 76
Period size: 18 Copynumber: 9.1 Consensus size: 17
6107044 TTCTCTTCTC
6107054 CTTTCCCTTTCTTTCCTT
1 CTTT-CCTTTCTTTCCTT
*
6107072 CTTT-CTTTCTTT-TTT
1 CTTTCCTTTCTTTCCTT
*
6107087 C-TTCTCTTCTCCTTTTCTT
1 CTTTC-CTT-T-CTTTCCTT
6107106 C-TT-CTTTCTTTCCTT
1 CTTTCCTTTCTTTCCTT
*
6107121 TTTTCTCTTCTCCTTTCC-T
1 CTTTC-CTT-T-CTTTCCTT
6107140 -TTT-CTTTCTTTCC-T
1 CTTTCCTTTCTTTCCTT
*
6107154 C--TCCTTTCTTTCTTT
1 CTTTCCTTTCTTTCCTT
* * *
6107169 CTTCCCTCTCCTTTCTTT
1 CTTTCCT-TTCTTTCCTT
6107187 CTTTCCTTT-TTTCTCTT
1 CTTTCCTTTCTTTC-CTT
6107204 CT
1 CT
6107206 GCCCCACCAC
Statistics
Matches: 107, Mismatches: 10, Indels: 35
0.70 0.07 0.23
Matches are distributed among these distances:
13 1 0.01
14 18 0.17
15 13 0.12
16 21 0.20
17 12 0.11
18 29 0.27
19 7 0.07
20 6 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
CTTTCCTTTCTTTCCTT
Found at i:6107078 original size:44 final size:41
Alignment explanation
Indices: 6107026--6107200 Score: 139
Period size: 44 Copynumber: 4.2 Consensus size: 41
6107016 TTTCTTCCCT
6107026 CTTC-TTCTTCTTTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTC
1 CTTCTTTCTT-TTTTTTTTTTCTCTTCTCCTTT--CTTTCTTTC
*
6107069 CTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTT-TCTTC-TTC
1 CTTCTTTCTTT-TTTTTTTTTCTCTTCTCCTTTCT-TTCTTTC
* * * *
6107110 TTTCTTTCCTTTTTTCTCTTCTCCTT-TCCTTTTCTTTCTTTC
1 CTTCTTTCTTTTTTTTTTTTCT-CTTCTCC-TTTCTTTCTTTC
* * *
6107152 CTCTCCTTTC--TTTCTTTCTTC-CCTCTCCTTTCTTTCTTTC
1 CT-T-CTTTCTTTTTTTTTTTTCTCTTCTCCTTTCTTTCTTTC
*
6107192 CTTTTTTCT
1 CTTCTTTCT
6107201 CTTCTGCCCC
Statistics
Matches: 112, Mismatches: 9, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
38 4 0.04
39 1 0.01
40 29 0.26
41 25 0.22
42 17 0.15
43 6 0.05
44 30 0.27
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (41 bp):
CTTCTTTCTTTTTTTTTTTTCTCTTCTCCTTTCTTTCTTTC
Found at i:6107107 original size:34 final size:35
Alignment explanation
Indices: 6107064--6107205 Score: 114
Period size: 35 Copynumber: 4.0 Consensus size: 35
6107054 CTTTCCCTTT
*
6107064 CTTTCCTTCTTTCTTTCTTT-TTTCTTCTCTTCTC
1 CTTTTCTTCTTTCTTTCTTTCTTTCTTCTCTTCTC
*
6107098 CTTTTCTTC-TTCTTTCTTTCCTTTTTTCTCTTCTC
1 CTTTTCTTCTTTCTTTCTTT-CTTTCTTCTCTTCTC
* *
6107133 CTTTCCTTTTCTTTCTTTCCTCTCCTTTCTT-TCTT-T-
1 CTTT--TCTTCTTTCTTT-CT-TTCTTTCTTCTCTTCTC
* * *
6107169 CTTCCCTCTCCTTTCTTTCTTTCCTTTTTTCTCTTCT
1 CTT--TTCTTCTTTCTTTCTTT-CTTTCTTCTCTTCT
6107206 GCCCCACCAC
Statistics
Matches: 86, Mismatches: 10, Indels: 21
0.74 0.09 0.18
Matches are distributed among these distances:
33 10 0.12
34 9 0.10
35 25 0.29
36 17 0.20
37 6 0.07
38 10 0.12
39 8 0.09
40 1 0.01
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (35 bp):
CTTTTCTTCTTTCTTTCTTTCTTTCTTCTCTTCTC
Found at i:6107185 original size:74 final size:75
Alignment explanation
Indices: 6107008--6107205 Score: 235
Period size: 79 Copynumber: 2.6 Consensus size: 75
6106998 AAATAACCTT
* *
6107008 TTTTTTCCTTTCTTCCCTCTTC-TTC-TTCTTT-TTTTTTTCTCTTCTCCTTTCCCTTTCTTTCC
1 TTTTTT-CTTTCTTCCCTCTCCTTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCCTTTCTTTCC
* *
6107070 TTCTTTCTTTC
65 TTCTCTCTTCC
* * *
6107081 TTTTTTCTTCTCTTCTCCTTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCTTTTCTT
1 TTTTTTCTT-TCTTC-CC-TCTCCT-TTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCCTTTCTT
*
6107146 TCTTTC-CTC-TCC
62 TCCTTCTCTCTTCC
6107158 TTTCTTTCTTTCTTCCCTCTCCTTTCTTTCTTTCCTTTTTTCTCTTCT
1 TTT-TTTCTTTCTTCCCTCTCCTTTCTTTCTTTCCTTTTTTCTCTTCT
6107206 GCCCCACCAC
Statistics
Matches: 107, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
72 3 0.03
73 11 0.10
74 27 0.25
75 6 0.06
76 2 0.02
77 13 0.12
78 14 0.13
79 31 0.29
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (75 bp):
TTTTTTCTTTCTTCCCTCTCCTTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCT
TCTCTCTTCC
Found at i:6107376 original size:28 final size:28
Alignment explanation
Indices: 6107317--6107415 Score: 164
Period size: 28 Copynumber: 3.5 Consensus size: 28
6107307 TTTTTTTGAT
*
6107317 ATATTTTGGTAAATAATAAAAATGTT-TAA
1 ATATTTTGGTAAATAA-AAAAAAGTTGT-A
6107346 ATATTTTGGTAAATAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
6107374 ATATTTTGGTAAATAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
6107402 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
6107416 TTTTATTTTT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
28 51 0.75
29 17 0.25
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.39
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTGTA
Found at i:6111009 original size:18 final size:17
Alignment explanation
Indices: 6110988--6111035 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
6110978 GCAATAAGAA
6110988 AACGTTTTGAAATTGAAT
1 AACGTTTTGAAA-TGAAT
*
6111006 AACGATTTGTAAATGAAT
1 AACGTTTTG-AAATGAAT
*
6111024 AATGTTTTGAAA
1 AACGTTTTGAAA
6111036 ACGAACGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (17 bp):
AACGTTTTGAAATGAAT
Found at i:6111414 original size:25 final size:25
Alignment explanation
Indices: 6111368--6111416 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6111358 CTGTCTTTGA
** *
6111368 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATAATGAAACTACTATAGG
*
6111393 TAGTATATAATGAGACTACTATAG
1 TAGTATATAATGAAACTACTATAG
6111417 ATAGACTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATAATGAAACTACTATAGG
Found at i:6117597 original size:22 final size:22
Alignment explanation
Indices: 6117566--6117609 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6117556 TTTGAAATAA
*
6117566 GTTAGGTTCATAGTGAGCCAAC
1 GTTAGGTTCATAGTAAGCCAAC
*
6117588 GTTAGTTTCATAGTAAGCCAAC
1 GTTAGGTTCATAGTAAGCCAAC
6117610 ACATAATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (22 bp):
GTTAGGTTCATAGTAAGCCAAC
Found at i:6118113 original size:62 final size:62
Alignment explanation
Indices: 6118016--6118141 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
6118006 TATATTTTCT
6118016 TTGCAAAAGATCTAGTGCTTTTACAAAAAGTTGAGATTAACTAAGTTGATATAATGAAATGG
1 TTGCAAAAGATCTAGTGCTTTTACAAAAAGTTGAGATTAACTAAGTTGATATAATGAAATGG
6118078 TTGCAAAAGATCTAGTGCTTTTACAAAAAGTTGAGATTAACTAAGTTGATATAATGAAATGG
1 TTGCAAAAGATCTAGTGCTTTTACAAAAAGTTGAGATTAACTAAGTTGATATAATGAAATGG
6118140 TT
1 TT
6118142 CCTTGACCAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (62 bp):
TTGCAAAAGATCTAGTGCTTTTACAAAAAGTTGAGATTAACTAAGTTGATATAATGAAATGG
Found at i:6130112 original size:13 final size:13
Alignment explanation
Indices: 6130094--6130119 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6130084 TTGAATTATC
6130094 ATCATAATACATA
1 ATCATAATACATA
6130107 ATCATAATACATA
1 ATCATAATACATA
6130120 TGAGAGGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
ATCATAATACATA
Found at i:6131365 original size:17 final size:17
Alignment explanation
Indices: 6131343--6131381 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6131333 ATCATTTGGA
6131343 CCACACAGGCATGTGGG
1 CCACACAGGCATGTGGG
* *
6131360 CCACACGGGCGTGTGGG
1 CCACACAGGCATGTGGG
*
6131377 TCACA
1 CCACA
6131382 TTGGCTGGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.31, G:0.36, T:0.13
Consensus pattern (17 bp):
CCACACAGGCATGTGGG
Found at i:6137728 original size:31 final size:31
Alignment explanation
Indices: 6137658--6137720 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
6137648 AAATGATCAT
**
6137658 TGAACTATTTGAAAGTTTTCATTGAAGTCAC
1 TGAACTATTCAAAAGTTTTCATTGAAGTCAC
* *
6137689 TGAACTATTCAAAAGTTTTTATTTAAGTCAC
1 TGAACTATTCAAAAGTTTTCATTGAAGTCAC
6137720 T
1 T
6137721 AGGCTATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTTTCATTGAAGTCAC
Found at i:6159082 original size:30 final size:29
Alignment explanation
Indices: 6158959--6159127 Score: 140
Period size: 30 Copynumber: 5.7 Consensus size: 29
6158949 TGATTGACCC
* * * **
6158959 ATCCCTTTTCGTAATTCGATAACCGAAGTT
1 ATCCCTTTTCATAGTTCGATAGCC-AAACT
** *
6158989 ATCCCTTTTTGTAGTTCGACAGCCAAACT
1 ATCCCTTTTCATAGTTCGATAGCCAAACT
* * ** * * *
6159018 ATCCCTTTTCATTGTTTGACGGTCATCACC
1 ATCCCTTTTCATAGTTCGATAGCCA-AACT
* *
6159048 ATCCCTTTTCATAATTTGATAGCCAAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCAAA-CT
*
6159078 ATCCCTTTTCATAGTTCGATAGCCAAAACC
1 ATCCCTTTTCATAGTTCGATAGCC-AAACT
6159108 ATCCCTTTTCATAGTTCGAT
1 ATCCCTTTTCATAGTTCGAT
6159128 GATCGTCACC
Statistics
Matches: 112, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
29 23 0.21
30 86 0.77
31 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAGTTCGATAGCCAAACT
Found at i:6159144 original size:89 final size:89
Alignment explanation
Indices: 6158957--6159176 Score: 280
Period size: 89 Copynumber: 2.5 Consensus size: 89
6158947 GATGATTGAC
* * * ** *
6158957 CCATCCCTTTTCGTAATTCGATAACCGAAGTTATCCCTTTTTGTAGTTCGACAGCCAAACTATCC
1 CCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGACAGCCAAACCATCC
* * *
6159022 CTTTTCATTGTTTGACGGTCATCA
66 CTTTTCATAGTTCGACGATCATCA
* * *
6159046 CCATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATAGTTCGATAGCCAAAACCATC
1 CCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGACAGCC-AAACCATC
* *
6159111 CCTTTTCATAGTTCGATGATCGTCA
65 CCTTTTCATAGTTCGACGATCATCA
* *
6159136 CCATCCTTTTTCATAA-TCGATAGTCGAAGCTATCCCTTTTC
1 CCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTC
6159177 GATTTGTCAA
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
89 70 0.62
90 42 0.38
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (89 bp):
CCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGACAGCCAAACCATCC
CTTTTCATAGTTCGACGATCATCA
Found at i:6159995 original size:16 final size:15
Alignment explanation
Indices: 6159969--6159998 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6159959 TATCTTATTT
6159969 TAATTACTTAATTAC
1 TAATTACTTAATTAC
6159984 TAATTCACTTAATTA
1 TAATT-ACTTAATTA
6159999 ACCTTGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTACTTAATTAC
Found at i:6167596 original size:17 final size:18
Alignment explanation
Indices: 6167574--6167613 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6167564 TTTATCTAAG
* *
6167574 TTTTATAA-TATTAATTT
1 TTTTATAATTATAAATGT
6167591 TTTTATAATTATAAATGT
1 TTTTATAATTATAAATGT
6167609 TTTTA
1 TTTTA
6167614 GAGTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTATAATTATAAATGT
Found at i:6176617 original size:31 final size:30
Alignment explanation
Indices: 6176566--6176628 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
6176556 TTAACAAAAA
*
6176566 TTTTATAATTTTAGATTTTTTATAA-AATTT
1 TTTTATAATTTTAGAGTTTTTA-AATAATTT
6176596 TTTTATAAATTTTATG-GTTTTTAAATAATTT
1 TTTTAT-AATTTTA-GAGTTTTTAAATAATTT
6176627 TT
1 TT
6176629 AAATTTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 8 0.28
31 20 0.69
32 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (30 bp):
TTTTATAATTTTAGAGTTTTTAAATAATTT
Found at i:6178103 original size:21 final size:23
Alignment explanation
Indices: 6178079--6178120 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6178069 ATATACATGA
6178079 TTATAT-TATCTATTT-TATAAT
1 TTATATGTATCTATTTATATAAT
*
6178100 TTATATGTATGTATTTATATA
1 TTATATGTATCTATTTATATA
6178121 CACATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (23 bp):
TTATATGTATCTATTTATATAAT
Found at i:6187784 original size:45 final size:44
Alignment explanation
Indices: 6187718--6187889 Score: 238
Period size: 44 Copynumber: 3.9 Consensus size: 44
6187708 AAGCCAGTAA
* * * *
6187718 TCCTATCTCCCTAGTCAGCAGTGAAATGGGTTGAAGATTTTGAG
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTTTAAG
* *
6187762 TCCTATCTCGACTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG
1 TCCTATCTC-CCTGGTCAGCAGTGGAATAGGTTGAAGATTTTAAG
*
6187807 TCCTATCTCCCTGGTCAGCAGTGGAATATGTTGAA-ATTTGTAAG
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTT-TAAG
* *
6187851 TCCTATCTCCCTGATTAGCAGTGGAATAGGTTGAAGATT
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
6187890 GTGAACTTTA
Statistics
Matches: 113, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
43 3 0.03
44 69 0.61
45 41 0.36
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTTTAAG
Found at i:6188503 original size:51 final size:51
Alignment explanation
Indices: 6188423--6188519 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
6188413 GCATTATAGT
* * * *
6188423 GGAACAGATTAAAGCTAAAGGTAGTGAATCTTGTTTCCCTAGTGTTGTAGC
1 GGAACAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGTGTTGTAGC
* * *
6188474 GGAACAGATTAAAGCTGAGGGCAGCGAATCTTATCTCTCTAGTGTT
1 GGAACAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGTGTT
6188520 AAGACTTGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (51 bp):
GGAACAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGTGTTGTAGC
Found at i:6188612 original size:169 final size:169
Alignment explanation
Indices: 6187954--6188682 Score: 1016
Period size: 169 Copynumber: 4.3 Consensus size: 169
6187944 ATCTTACTTT
* * * * ** *
6187954 CCTAACGTTACAGCGGAGCAGATTAAAGCTGAAGGTAGCGAATCTTATCTCCCGGGCGTTAAGTC
1 CCTAGCGTTGCAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCGTTAAGAC
* * * *
6188019 TTGAAATAGCTGAAGTGGAGCGGATTAAAATTGTGGGCAGCGAATCTTATCTCTTTGGCATTATA
66 TTGAAAAAGCTGAAGTGGAGCGGATTAAAACTGTGGGCAGCAAATCCTATCTCTTTGGCATTATA
6188084 GTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTC
131 GTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTC
* * ** *
6188123 CCTAGCGTTGCAGTGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTAACTCATTAGTGTTAAGA-
1 CCTAGCGTTGCAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCGTTAAGAC
* * * ** * *
6188187 TTGAAAAAAAGTTGAAGTTGAGCGGATTAAAGCTGTGGGCAGTGAATCCTATCTTTTTGGTATTA
66 TTG--AAAAAGCTGAAGTGGAGCGGATTAAAACTGTGGGCAGCAAATCCTATCTCTTTGGCATTA
6188252 TAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTC
129 TAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTC
* * *
6188293 CCTAGCATTGCAGCAGAGCAGATTAAAGCTGAGGGCAGCG-ATCTTATCTCCCTGGCGTTAAGAC
1 CCTAGCGTTGCAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCGTTAAGAC
*
6188357 TTGAAAAAGCTG-AGTGGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTGGCATTATA
66 TTGAAAAAGCTGAAGTGGAGCGGATTAAAACTGTGGGCAGCAAATCCTATCTCTTTGGCATTATA
*
6188421 GTGGAACAGATTAAAGCTAAAGGTAGTGAATCTTGTTTC
131 GTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTC
* * * * *
6188460 CCTAGTGTTGTAGCGGAACAGATTAAAGCTGAGGGCAGCGAATCTTATCTCTCTAGTGTTAAGAC
1 CCTAGCGTTGCAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCGTTAAGAC
* *
6188525 TTGAAATAGCTGAAGTGGAGCGGATTAAAACTGTGGGCAGCAAATCCTATTTCTTTGGCATTATA
66 TTGAAAAAGCTGAAGTGGAGCGGATTAAAACTGTGGGCAGCAAATCCTATCTCTTTGGCATTATA
* *
6188590 GTGGAACAGATTAAGGCTAAAGGTAGCAAAT-TTGGTTTC
131 GTGGAACAGATTAAAGCTAAAGGTAGCGAATCTT-GTTTC
* * * * * *
6188629 CCTGGTGTTGTAGTGGAGCAGATTAAAGCTGAAGGCAGCGAATCTCATCTCCCT
1 CCTAGCGTTGCAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCT
6188683 GACGATAAAA
Statistics
Matches: 498, Mismatches: 56, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
167 120 0.24
168 45 0.09
169 201 0.40
170 132 0.27
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (169 bp):
CCTAGCGTTGCAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCGTTAAGAC
TTGAAAAAGCTGAAGTGGAGCGGATTAAAACTGTGGGCAGCAAATCCTATCTCTTTGGCATTATA
GTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTC
Found at i:6190442 original size:28 final size:28
Alignment explanation
Indices: 6190411--6190480 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
6190401 TATAATTCTC
6190411 ATATGTA-A-TTATTATTTTTAATCTATAT
1 ATATGTATATTTATT-TTTTT-ATCTATAT
*
6190439 ATATGTATATTTATTTTTTTATGTATAT
1 ATATGTATATTTATTTTTTTATCTATAT
6190467 AT-T-TATATTT-TTTT
1 ATATGTATATTTATTTT
6190481 CAACTAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
25 4 0.10
26 7 0.18
27 1 0.03
28 16 0.41
29 6 0.15
30 5 0.13
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (28 bp):
ATATGTATATTTATTTTTTTATCTATAT
Found at i:6193694 original size:46 final size:46
Alignment explanation
Indices: 6193676--6193832 Score: 149
Period size: 46 Copynumber: 3.3 Consensus size: 46
6193666 TGACAAGTGG
* * *
6193676 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
6193722 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* **
6193768 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGAAAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
6193820 AAAGTGATAAGTG
1 AAAGTGATAAGTG
6193833 GCTACACTTA
Statistics
Matches: 101, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
46 57 0.56
52 44 0.44
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:6193695 original size:52 final size:51
Alignment explanation
Indices: 6193624--6193815 Score: 286
Period size: 52 Copynumber: 3.8 Consensus size: 51
6193614 ATCAAGTGAC
* **
6193624 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
6193676 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
6193722 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
6193773 AAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAG
6193816 AAACAAAGTG
Statistics
Matches: 127, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
46 44 0.35
52 83 0.65
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:6193730 original size:98 final size:98
Alignment explanation
Indices: 6193610--6193833 Score: 376
Period size: 98 Copynumber: 2.3 Consensus size: 98
6193600 TTTGAGTACT
*
6193610 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
6193675 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
* *
6193708 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
6193773 AAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
**
6193806 TCTGATCAAGAAACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
6193834 CTACACTTAT
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 117 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
Found at i:6193839 original size:37 final size:37
Alignment explanation
Indices: 6193795--6193924 Score: 242
Period size: 37 Copynumber: 3.5 Consensus size: 37
6193785 TGATAGCTTC
6193795 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
6193832 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
* *
6193869 GGCTACACTTATTTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
6193906 GGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCA
6193925 GGGACAAGTG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:6198548 original size:21 final size:21
Alignment explanation
Indices: 6198515--6198559 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6198505 TTCAGACTGA
* *
6198515 AAAATGCGAGAGCCATATATC
1 AAAATACGAGAGCCACATATC
*
6198536 AAAATACGGGAGCCACATATC
1 AAAATACGAGAGCCACATATC
6198557 AAA
1 AAA
6198560 GAGCCATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.16
Consensus pattern (21 bp):
AAAATACGAGAGCCACATATC
Found at i:6201936 original size:144 final size:144
Alignment explanation
Indices: 6201773--6202033 Score: 362
Period size: 144 Copynumber: 1.8 Consensus size: 144
6201763 TACCATAGCG
* * * *
6201773 AATCTTATCTTCATGAAGTTACAGTGGAGTAAGATAAAACTACAAGTCCTATACCCCTGAAGTTA
1 AATCTTATCTCCATAAAGTTACAGTGGAGCAAGATAAAACTACAAGTCCTATACCCCTAAAGTTA
*
6201838 CAGTAAGTCGAA-TCGAAACTACAACGGCAAATCTTGTCTCCCTAAAGTTGCAATGGGTCAGATT
66 CAGTAAGTCGAACT-GAAACTACAACGGCAAATCTTATCTCCCTAAAGTTGCAATGGGTCAGATT
6201902 GAAACTATAATAACA
130 GAAACTATAATAACA
* * * *
6201917 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTACAAGTCCTATACCCCTAAAGTTG
1 AATCTTATCTCCATAAAGTTACAGTGGAGCAAGATAAAACTACAAGTCCTATACCCCTAAAGTTA
** * * * * *
6201982 CAGTGGGTTGGACTGAAACTACAATGGCGAATCTTATCTCCCTGAAGTTGCA
66 CAGTAAGTCGAACTGAAACTACAACGGCAAATCTTATCTCCCTAAAGTTGCA
6202034 GTAGAGCAAA
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
144 99 0.99
145 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (144 bp):
AATCTTATCTCCATAAAGTTACAGTGGAGCAAGATAAAACTACAAGTCCTATACCCCTAAAGTTA
CAGTAAGTCGAACTGAAACTACAACGGCAAATCTTATCTCCCTAAAGTTGCAATGGGTCAGATTG
AAACTATAATAACA
Found at i:6201999 original size:94 final size:94
Alignment explanation
Indices: 6201877--6202515 Score: 690
Period size: 94 Copynumber: 6.8 Consensus size: 94
6201867 AATCTTGTCT
* * * * * *
6201877 CCCTAAAGTTGCAATGGGTCAGATTGAAACTATAATAACAAATCTTATCTCCCTAAAGTTGCAGT
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
*
6201942 GGAGCAAGATAAAGCTACAAGTCCTATAC
66 GGAGCAAGATAAAGCTACAAATCCTATAC
* * * * *
6201971 CCCTAAAGTTGCAGTGGGTTGGACTGAAACTACAATGGCGAATCTTATCTCCCTGAAGTTGCAGT
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
* * *
6202036 AGAGCAAAATAAAGCTACAAATCCTACAC
66 GGAGCAAGATAAAGCTACAAATCCTATAC
* * ** ** * *
6202065 CCTTGAAGTTGTAGTGGGTCAAATTGAAACTACGGTAGCGAATCTTATCTCCTTAAAGTTGCAAT
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
* * *
6202130 GGAGAAAGTTAAAGCTACAAGTCCTATAC
66 GGAGCAAGATAAAGCTACAAATCCTATAC
* * * * *
6202159 CCCTGAAGTTTCAATGGGTCGGATTGAAACTACAATGGTGAATCTTATCT-CCTAAAAGTTACAG
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCT-AAAGTTGCAG
6202223 TGGAGCAAGATGAAA-CTACAAATCCTATAC
65 TGGAGCAAGAT-AAAGCTACAAATCCTATAC
* * * ** * *
6202253 CCTTGAAGTTGTAGTGGATAAGATTGAAACTACAAT-GACGAATCTTATCTCCATGAAGTTGCAG
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAG-CGAATCTTATCTCCCTAAAGTTGCAG
* *
6202317 TGGAGTAAGATAAAGCTACAAATCTTATAC
65 TGGAGCAAGATAAAGCTACAAATCCTATAC
* * ** * * * *
6202347 CCTTGAAGGTATAGTGGGTTGAATTGAAACTACAATAGCAAATCTTATCTCCCTAAAATTGCAGT
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
*
6202412 GGAGCAAGATGAAGCTACAAATCCTATAC
66 GGAGCAAGATAAAGCTACAAATCCTATAC
* * * * * * * * ** *
6202441 CCCTAAAGATGCAATGGGTTGGAATGAAACTACAACAACAAATCTTATCTCTTTAAAGTTGCAAT
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
6202506 GGAGCAAGAT
66 GGAGCAAGAT
6202516 GAAACTGTGA
Statistics
Matches: 451, Mismatches: 88, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
93 6 0.01
94 439 0.97
95 6 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (94 bp):
CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
GGAGCAAGATAAAGCTACAAATCCTATAC
Found at i:6202297 original size:282 final size:281
Alignment explanation
Indices: 6201877--6202521 Score: 851
Period size: 282 Copynumber: 2.3 Consensus size: 281
6201867 AATCTTGTCT
* *
6201877 CCCTAAAGTTGCAATGGGTCAGATTGAAACTATAATAACAAATCTTATCTCCCTAAAGTTGCAGT
1 CCCTAAAGTTGCAATGGGTCGGATTGAAACTACAATAACAAATCTTATCT-CCTAAAGTTGCAGT
* * **
6201942 GGAGCAAGAT-AAAGCTACAAGTCCTATACCCCTAAAGTTGCAGTGGGTTGGACTGAAACTACAA
65 GGAGCAAGATGAAA-CTACAAATCCTATACCCCTAAAGTTGCAGTGGATAAGACTGAAACTACAA
* *
6202006 TGGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGCAAAATAAAGCTACAAATCCTACACCCTTGA
129 TGACGAATCTTATCTCCATGAAGTTGCAGTAGAGCAAAATAAAGCTACAAATCCTACACCCTTGA
* * ** * * *
6202071 AGTTGTAGTGGGTCAAATTGAAACTACGGTAGCGAATCTTATCTCCTTAAAGTTGCAATGGAGAA
194 AGGTATAGTGGGTCAAATTGAAACTACAATAGCAAATCTTATCTCCCTAAAATTGCAATGGAGAA
* *
6202136 AGTTAAAGCTACAAGTCCTATAC
259 AGATAAAGCTACAAATCCTATAC
* * **** *
6202159 CCCTGAAGTTTCAATGGGTCGGATTGAAACTACAATGGTGAATCTTATCTCCTAAAAGTTACAGT
1 CCCTAAAGTTGCAATGGGTCGGATTGAAACTACAATAACAAATCTTATCTCCT-AAAGTTGCAGT
* * * *
6202224 GGAGCAAGATGAAACTACAAATCCTATACCCTTGAAGTTGTAGTGGATAAGATTGAAACTACAAT
65 GGAGCAAGATGAAACTACAAATCCTATACCCCTAAAGTTGCAGTGGATAAGACTGAAACTACAAT
* * * * *
6202289 GACGAATCTTATCTCCATGAAGTTGCAGTGGAGTAAGATAAAGCTACAAATCTTATACCCTTGAA
130 GACGAATCTTATCTCCATGAAGTTGCAGTAGAGCAAAATAAAGCTACAAATCCTACACCCTTGAA
** * *
6202354 GGTATAGTGGGTTGAATTGAAACTACAATAGCAAATCTTATCTCCCTAAAATTGCAGTGGAGCAA
195 GGTATAGTGGGTCAAATTGAAACTACAATAGCAAATCTTATCTCCCTAAAATTGCAATGGAGAAA
*
6202419 GATGAAGCTACAAATCCTATAC
260 GATAAAGCTACAAATCCTATAC
* * * * * *
6202441 CCCTAAAGATGCAATGGGTTGGAATGAAACTACAACAACAAATCTTATCTCTTTAAAGTTGCAAT
1 CCCTAAAGTTGCAATGGGTCGGATTGAAACTACAATAACAAATCTTATCTC-CTAAAGTTGCAGT
6202506 GGAGCAAGATGAAACT
65 GGAGCAAGATGAAACT
6202522 GTGACACTAA
Statistics
Matches: 309, Mismatches: 51, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
281 3 0.01
282 302 0.98
283 4 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (281 bp):
CCCTAAAGTTGCAATGGGTCGGATTGAAACTACAATAACAAATCTTATCTCCTAAAGTTGCAGTG
GAGCAAGATGAAACTACAAATCCTATACCCCTAAAGTTGCAGTGGATAAGACTGAAACTACAATG
ACGAATCTTATCTCCATGAAGTTGCAGTAGAGCAAAATAAAGCTACAAATCCTACACCCTTGAAG
GTATAGTGGGTCAAATTGAAACTACAATAGCAAATCTTATCTCCCTAAAATTGCAATGGAGAAAG
ATAAAGCTACAAATCCTATAC
Found at i:6202823 original size:18 final size:18
Alignment explanation
Indices: 6202800--6202838 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6202790 CCCAAATACA
6202800 AAAAAAAACTAAAAGCCC
1 AAAAAAAACTAAAAGCCC
** *
6202818 AAAAAACCCTTAAAGCCC
1 AAAAAAAACTAAAAGCCC
6202836 AAA
1 AAA
6202839 GACCACTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.26, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAAAAACTAAAAGCCC
Found at i:6211018 original size:29 final size:26
Alignment explanation
Indices: 6210956--6211019 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 26
6210946 TTAATAAATG
*
6210956 AAAAATATATATAATTTTTAAATAAA
1 AAAAATATATATAATATTTAAATAAA
6210982 AAATAATATAATATAAATATTTAAA-AAA
1 AAA-AATAT-ATAT-AATATTTAAATAAA
6211010 ATTAAAATAT
1 A--AAAATAT
6211020 GGTTGGACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 3 0.09
27 5 0.16
28 8 0.25
29 14 0.44
30 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AAAAATATATATAATATTTAAATAAA
Found at i:6213451 original size:19 final size:19
Alignment explanation
Indices: 6213427--6213469 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6213417 AACTATTTTT
6213427 TTAAAA-AATTAAAAAATCA
1 TTAAAATAATT-AAAAATCA
*
6213446 TTAAAATTATTAAAAATCA
1 TTAAAATAATTAAAAATCA
6213465 -TAAAA
1 TTAAAA
6213470 GAATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 14 0.64
20 3 0.14
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTAAAATAATTAAAAATCA
Found at i:6213482 original size:51 final size:50
Alignment explanation
Indices: 6213399--6213494 Score: 131
Period size: 52 Copynumber: 1.9 Consensus size: 50
6213389 TAAATTTCAA
* * *
6213399 AAAATTTTAAAAATATGAAACTAT-TTTTTTAAAAAATTAAAAAATCATT
1 AAAATTTTAAAAATATAAAACAATATTTTTAAAAAAATTAAAAAATCATT
*
6213448 AAAATTATTAAAAATCATAAAAGAATATTTTTAAAAAAATTAAAAAA
1 AAAATT-TTAAAAAT-ATAAAACAATATTTTTAAAAAAATTAAAAAA
6213495 AAGTTAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 6 0.15
50 8 0.20
51 7 0.17
52 19 0.47
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (50 bp):
AAAATTTTAAAAATATAAAACAATATTTTTAAAAAAATTAAAAAATCATT
Found at i:6214034 original size:20 final size:20
Alignment explanation
Indices: 6214009--6214051 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
6213999 AATGTTTTTT
6214009 TTTCTATTTTAGTATTTAAA
1 TTTCTATTTTAGTATTTAAA
6214029 TTTCTATTTTAGTATTTAAA
1 TTTCTATTTTAGTATTTAAA
6214049 TTT
1 TTT
6214052 TTTTGGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTCTATTTTAGTATTTAAA
Found at i:6217569 original size:58 final size:62
Alignment explanation
Indices: 6217506--6217650 Score: 158
Period size: 58 Copynumber: 2.4 Consensus size: 62
6217496 AATCACTTTA
*
6217506 ATATTAAATTAATATAATACTTATC-A-AGATAAATATTAGAT-TAAAT-TTAATATTAA-ATC
1 ATATTAAATTAATATAATACTTATCTATA-AAAAATATTA-ATATAAATATTAATATTAATATC
* * *
6217565 -TATTAAATTAATAGAATATTTATCTATAAAAAATATTAATATTAATATTAATATTAATATC
1 ATATTAAATTAATATAATACTTATCTATAAAAAATATTAATATAAATATTAATATTAATATC
*
6217626 AATATCAATATTAATATAATCACTT
1 -ATATTAA-ATTAATATAAT-ACTT
6217651 TAATAATATA
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
58 24 0.34
59 14 0.20
60 11 0.16
61 3 0.04
63 5 0.07
64 10 0.14
65 3 0.04
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (62 bp):
ATATTAAATTAATATAATACTTATCTATAAAAAATATTAATATAAATATTAATATTAATATC
Found at i:6217607 original size:6 final size:6
Alignment explanation
Indices: 6217596--6217642 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
6217586 ATCTATAAAA
* *
6217596 AATATT AATATT AATATT AATATT AATATC AATATC AATATT AATAT
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATAT
6217643 AATCACTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (6 bp):
AATATT
Found at i:6218209 original size:13 final size:13
Alignment explanation
Indices: 6218193--6218226 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
6218183 ATTTTTCAAG
6218193 AAAATTCTTTAAT
1 AAAATTCTTTAAT
6218206 AAAATTCTTTAAT
1 AAAATTCTTTAAT
*
6218219 CAAATTCT
1 AAAATTCT
6218227 CTAGTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATTCTTTAAT
Done.