Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 269 of 320
Found at i:87155641 original size:19 final size:19
Alignment explanation
Indices: 87155614--87155651 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
87155604 TTGAGATTGC
*
87155614 CAACTTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
87155633 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
87155652 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:87155745 original size:6 final size:7
Alignment explanation
Indices: 87155727--87155752 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
87155717 CACTCCCTTT
87155727 TAAAAAA
1 TAAAAAA
87155734 TAAAAAA
1 TAAAAAA
87155741 TAAAAAA
1 TAAAAAA
87155748 TAAAA
1 TAAAA
87155753 TTTCAAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:87159097 original size:9 final size:9
Alignment explanation
Indices: 87159083--87159140 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
87159073 GTGAGTAAAG
87159083 GAGAAGAAA
1 GAGAAGAAA
87159092 GAGAAG---
1 GAGAAGAAA
87159098 GAGAAGAAA
1 GAGAAGAAA
87159107 GAGAAGAGAA
1 GAGAAGA-AA
87159117 GAGAAG-AA
1 GAGAAGAAA
*
87159125 GAAGAAGAAG
1 G-AGAAGAAA
87159135 GAGAAG
1 GAGAAG
87159141 GAGAGGGCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
6 6 0.14
8 3 0.07
9 23 0.55
10 10 0.24
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (9 bp):
GAGAAGAAA
Found at i:87159100 original size:15 final size:15
Alignment explanation
Indices: 87159080--87159144 Score: 89
Period size: 15 Copynumber: 4.5 Consensus size: 15
87159070 CCAGTGAGTA
87159080 AAGGAGAAGAAAGAG
1 AAGGAGAAGAAAGAG
87159095 AAGGAGAAGAAAGAG
1 AAGGAGAAGAAAGAG
*
87159110 AA-GAGAAGAGA-AG
1 AAGGAGAAGAAAGAG
* *
87159123 AAGAAGAAGAAGGAG
1 AAGGAGAAGAAAGAG
87159138 AAGGAGA
1 AAGGAGA
87159145 GGGCATGAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
13 4 0.09
14 14 0.33
15 25 0.58
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (15 bp):
AAGGAGAAGAAAGAG
Found at i:87159105 original size:3 final size:3
Alignment explanation
Indices: 87159084--87159140 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
87159074 TGAGTAAAGG
*
87159084 AGA AGA A-A GAGA AGG AGA AGA A-A GAGA AG- AGA AG- AGA AGA AGA
1 AGA AGA AGA -AGA AGA AGA AGA AGA -AGA AGA AGA AGA AGA AGA AGA
*
87159127 AGA AGA AGG AGA AG
1 AGA AGA AGA AGA AG
87159141 GAGAGGGCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
2 6 0.14
3 36 0.82
4 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:87159118 original size:25 final size:24
Alignment explanation
Indices: 87159083--87159130 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
87159073 GTGAGTAAAG
*
87159083 GAGAAGAAAGAGAAGGAGAAGAAA
1 GAGAAGAAAGAGAAGAAGAAGAAA
87159107 GAGAAGAGAAGAGAAGAAGAAGAA
1 GAGAAGA-AAGAGAAGAAGAAGAA
87159131 GAAGGAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (24 bp):
GAGAAGAAAGAGAAGAAGAAGAAA
Found at i:87159120 original size:19 final size:19
Alignment explanation
Indices: 87159086--87159140 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
87159076 AGTAAAGGAG
87159086 AAGAAAGAGAAGGAGAAGA
1 AAGAAAGAGAAGGAGAAGA
87159105 AAGAGAAGAGAA-GAGAAG-
1 AAGA-AAGAGAAGGAGAAGA
87159123 AAG-AAGAAGAAGGAGAAG
1 AAGAAAG-AGAAGGAGAAG
87159141 GAGAGGGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
16 3 0.09
17 4 0.12
18 9 0.27
19 10 0.30
20 7 0.21
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (19 bp):
AAGAAAGAGAAGGAGAAGA
Found at i:87159144 original size:6 final size:5
Alignment explanation
Indices: 87159083--87159140 Score: 66
Period size: 5 Copynumber: 11.2 Consensus size: 5
87159073 GTGAGTAAAG
87159083 GAGAA GA-AA GAGAA GGAGAA GA-AA GAGAA GAGAA GAGAA GAAGAA GAAGAA
1 GAGAA GAGAA GAGAA -GAGAA GAGAA GAGAA GAGAA GAGAA G-AGAA G-AGAA
87159134 GGAGAA G
1 -GAGAA G
87159141 GAGAGGGCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
4 8 0.17
5 20 0.42
6 19 0.40
7 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:87160938 original size:14 final size:14
Alignment explanation
Indices: 87160919--87160952 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
87160909 GACATTTTTT
87160919 TTCTAATGATACTA
1 TTCTAATGATACTA
87160933 TTCTAATGATACTA
1 TTCTAATGATACTA
87160947 TTCTAA
1 TTCTAA
87160953 CGTGTAATTT
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:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (14 bp):
TTCTAATGATACTA
Found at i:87162153 original size:62 final size:62
Alignment explanation
Indices: 87162087--87162310 Score: 403
Period size: 62 Copynumber: 3.6 Consensus size: 62
87162077 AGATTAATTG
* *
87162087 CAACATTAAAACTTGGAACAAACTTTATAATATAAATTTTGTTATATAAATTAAATACATTA
1 CAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTA
* *
87162149 CAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATATATAA
1 CAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTA
87162211 CAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTA
1 CAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTA
*
87162273 CAACAATAAAAATTGGAACAAACTTTGTAATATAAATT
1 CAACATTAAAAATTGGAACAAACTTTGTAATATAAATT
87162311 AGGTACATTG
Statistics
Matches: 155, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 155 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (62 bp):
CAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTA
Found at i:87164717 original size:68 final size:65
Alignment explanation
Indices: 87164557--87164710 Score: 175
Period size: 64 Copynumber: 2.3 Consensus size: 65
87164547 CTAACCAGTT
* * * *
87164557 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTG--CTACACATAGAACCACCCATGCAACCTAGCTACA
87164622 TA
64 TA
* * * *
87164624 TATCCCGTAGCTCTCTTATCTACATGGTG-TACACATAGCATCACCCATGCAACCTAGCTACATC
1 TATCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACCCATGCAACCTAGCTACAT-
87164688 A
65 A
87164689 TAATGTCTCGTAGCTCTCTTGT
1 T-A--TCTCGTAGCTCTCTTGT
87164711 ACACATGATG
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
64 28 0.38
65 2 0.03
66 1 0.01
67 27 0.37
68 15 0.21
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (65 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACCCATGCAACCTAGCTACATA
Found at i:87165255 original size:30 final size:30
Alignment explanation
Indices: 87165221--87165281 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
87165211 CCTTAAACTC
87165221 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
87165251 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
87165281 A
1 A
87165282 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:87168098 original size:23 final size:25
Alignment explanation
Indices: 87168072--87168118 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
87168062 TATCATTCAT
*
87168072 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
87168095 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
87168119 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:87168439 original size:46 final size:46
Alignment explanation
Indices: 87168379--87168644 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
87168369 TTTGACGTGA
* * * * * *
87168379 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
87168425 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
87168471 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
87168517 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
87168563 TGCCGTGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
87168601 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
87168645 AGAGCACACT
Statistics
Matches: 196, Mismatches: 15, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
38 32 0.16
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 150 0.77
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:87168610 original size:38 final size:38
Alignment explanation
Indices: 87168558--87168633 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
87168548 CATTTCATAT
*
87168558 CAGGTTGCCGTGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
87168596 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
87168634 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:87173078 original size:19 final size:19
Alignment explanation
Indices: 87173046--87173111 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
87173036 ACCCAAATAA
**
87173046 GTTGCTATGCTGTTATTTT
1 GTTGCTATTTTGTTATTTT
*
87173065 GTTGCTATTTTGTTGTTTT
1 GTTGCTATTTTGTTATTTT
* * * *
87173084 GCTACCATTTTGTTATTAT
1 GTTGCTATTTTGTTATTTT
*
87173103 ATTGCTATT
1 GTTGCTATT
87173112 ATTTTGTTGT
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.14, C:0.11, G:0.17, T:0.59
Consensus pattern (19 bp):
GTTGCTATTTTGTTATTTT
Found at i:87204871 original size:98 final size:98
Alignment explanation
Indices: 87204768--87204946 Score: 243
Period size: 98 Copynumber: 1.8 Consensus size: 98
87204758 ATGATACAAT
* * * *
87204768 TTGAAAAGGTTAGGTATACTTTGTGTATAC-CATATGAAAAGGAAATGTATACTTTGTGTATACC
1 TTGAAAAGGTTAGGTACACTTTGTGTATACAAAT-TGAAAAGGAAATGTACACTTCGTGTATACC
87204832 ACTTGAAAAGGAAATGTACACTATATGTGTACAC
65 ACTTGAAAAGGAAATGTACACTATATGTGTACAC
* * * ** *
87204866 TTGAAAAGGTTATGTGCACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTCGTGTGTACCA
1 TTGAAAAGGTTAGGTACACTTTGTGTATACAAATTGAAAAGGAAATGTACACTTCGTGTATACCA
*
87204931 CTTGAAAAGGGAATGT
66 CTTGAAAAGGAAATGT
87204947 GCACCTCGGG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
98 67 0.97
99 2 0.03
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.32
Consensus pattern (98 bp):
TTGAAAAGGTTAGGTACACTTTGTGTATACAAATTGAAAAGGAAATGTACACTTCGTGTATACCA
CTTGAAAAGGAAATGTACACTATATGTGTACAC
Found at i:87204887 original size:65 final size:66
Alignment explanation
Indices: 87204802--87204976 Score: 176
Period size: 65 Copynumber: 2.7 Consensus size: 66
87204792 GTATACCATA
* ** * *
87204802 TGAAAAGGAAATGTATACTTTGTGTATACCACTTGAAAAGGAAATGTACACTAT-ATGTGTA-CA
1 TGAAAAGGGAATGTGCACTTTGTGTATACAAATTGAAAAGGAAATGTACACT-TCATGTGTACCA
87204865 CT
65 CT
** * ** *
87204867 TGAAAAGGTTATGTGCACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTCGTGTGTACCAC
1 TGAAAAGGGAATGTGCACTTTGTGTATACAAATTGAAAAGGAAATGTACACTTCATGTGTACCAC
87204932 T
66 T
* * * *
87204933 TGAAAAGGGAATGTGCACCTCGGGTGTAC-AATTAGAAAAGGAAA
1 TGAAAAGGGAATGTGCACTTTGTGTATACAAATT-GAAAAGGAAA
87204977 GGTCCATCAG
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
64 1 0.01
65 53 0.59
66 36 0.40
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (66 bp):
TGAAAAGGGAATGTGCACTTTGTGTATACAAATTGAAAAGGAAATGTACACTTCATGTGTACCAC
T
Found at i:87204941 original size:33 final size:33
Alignment explanation
Indices: 87204785--87204946 Score: 175
Period size: 33 Copynumber: 4.9 Consensus size: 33
87204775 GGTTAGGTAT
* *
87204785 ACTTTGTGTATACCA-TATGAAAAGGAAATGTAT
1 ACTTTGTGTGTACCACT-TGAAAAGGAAATGTAC
*
87204818 ACTTTGTGTATACCACTTGAAAAGGAAATGTAC
1 ACTTTGTGTGTACCACTTGAAAAGGAAATGTAC
* * ** *
87204851 ACTATATGTGTA-CACTTGAAAAGGTTATGTGC
1 ACTTTGTGTGTACCACTTGAAAAGGAAATGTAC
* * **
87204883 ACTTTGTGTGTACAAATTGAAAAGGGTATGTAC
1 ACTTTGTGTGTACCACTTGAAAAGGAAATGTAC
* *
87204916 ACTTCGTGTGTACCACTTGAAAAGGGAATGT
1 ACTTTGTGTGTACCACTTGAAAAGGAAATGT
87204947 GCACCTCGGG
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
32 27 0.25
33 82 0.75
34 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGAAAAGGAAATGTAC
Found at i:87204960 original size:33 final size:33
Alignment explanation
Indices: 87204818--87204961 Score: 139
Period size: 33 Copynumber: 4.4 Consensus size: 33
87204808 GGAAATGTAT
* * ** *
87204818 ACTTTGTGTATACCACTTGAAAAGGAAATGTAC
1 ACTTCGTGTGTACCACTTGAAAAGGGTATGTGC
* *
87204851 ACTAT-ATGTGTA-CACTTGAAAAGGTTATGTGC
1 ACT-TCGTGTGTACCACTTGAAAAGGGTATGTGC
* * * *
87204883 ACTTTGTGTGTACAAATTGAAAAGGGTATGTAC
1 ACTTCGTGTGTACCACTTGAAAAGGGTATGTGC
*
87204916 ACTTCGTGTGTACCACTTGAAAAGGGAATGTGC
1 ACTTCGTGTGTACCACTTGAAAAGGGTATGTGC
* *
87204949 ACCTCGGGTGTAC
1 ACTTCGTGTGTAC
87204962 AATTAGAAAA
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
31 1 0.01
32 26 0.29
33 63 0.69
34 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (33 bp):
ACTTCGTGTGTACCACTTGAAAAGGGTATGTGC
Found at i:87204960 original size:66 final size:64
Alignment explanation
Indices: 87204834--87204976 Score: 171
Period size: 66 Copynumber: 2.2 Consensus size: 64
87204824 TGTATACCAC
** * * *
87204834 TTGAAAAGGAAATGTACACTATATGTGTACACTTGAAAAGGTTATGTGCACTTTGTGTGTACAAA
1 TTGAAAAGGAAATGTACACTATATGTGTACACTTGAAAAGGGAATGTGCACCTCGGGTGTAC-AA
** *
87204899 TTGAAAAGGGTATGTACACT-TCGTGTGTACCACTTGAAAAGGGAATGTGCACCTCGGGTGTACA
1 TTGAAAAGGAAATGTACACTAT-ATGTGTA-CACTTGAAAAGGGAATGTGCACCTCGGGTGTACA
87204963 A
64 A
87204964 TTAGAAAAGGAAA
1 TT-GAAAAGGAAA
87204977 GGTCCATCAG
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
64 1 0.02
65 28 0.43
66 36 0.55
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (64 bp):
TTGAAAAGGAAATGTACACTATATGTGTACACTTGAAAAGGGAATGTGCACCTCGGGTGTACAA
Found at i:87204960 original size:98 final size:98
Alignment explanation
Indices: 87204762--87204973 Score: 230
Period size: 98 Copynumber: 2.1 Consensus size: 98
87204752 ACCCAAATGA
* * * *
87204762 TACAATTTGAAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAATGTATACTTTGTGT
1 TACAA-TTGAAAAGGTTAGGTACACTTTGTGTATACAATATGAAAAGGAAATGTACACTTCGTGT
* *
87204827 ATACCACTTGAAAAGGAAATGTACACTATATGTG
65 ATACCACTTGAAAAGGAAATGTACACTACAGGTG
* * * * **
87204861 TACACTTGAAAAGGTTATGTGCACTTTGTGTGTACAA-ATTGAAAAGGGTATGTACACTTCGTGT
1 TACAATTGAAAAGGTTAGGTACACTTTGTGTATACAATA-TGAAAAGGAAATGTACACTTCGTGT
* * * *
87204925 GTACCACTTGAAAAGGGAATGTGCACCT-CGGGTG
65 ATACCACTTGAAAAGGAAATGTACA-CTACAGGTG
87204959 TACAATTAGAAAAGG
1 TACAATT-GAAAAGG
87204974 AAAGGTCCAT
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
97 1 0.01
98 79 0.85
99 13 0.14
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (98 bp):
TACAATTGAAAAGGTTAGGTACACTTTGTGTATACAATATGAAAAGGAAATGTACACTTCGTGTA
TACCACTTGAAAAGGAAATGTACACTACAGGTG
Found at i:87204971 original size:33 final size:32
Alignment explanation
Indices: 87204857--87204973 Score: 135
Period size: 33 Copynumber: 3.6 Consensus size: 32
87204847 GTACACTATA
* * *
87204857 TGTGTACACTTGAAAAGGTTATGTGCACTTTG
1 TGTGTACAATTGAAAAGGGTATGTGCACTTCG
*
87204889 TGTGTACAAATTGAAAAGGGTATGTACACTTCG
1 TGTGTAC-AATTGAAAAGGGTATGTGCACTTCG
* * *
87204922 TGTGTACCACTTGAAAAGGGAATGTGCACCTCG
1 TGTGTA-CAATTGAAAAGGGTATGTGCACTTCG
*
87204955 GGTGTACAATTAGAAAAGG
1 TGTGTACAATT-GAAAAGG
87204974 AAAGGTCCAT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
32 11 0.15
33 60 0.83
34 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (32 bp):
TGTGTACAATTGAAAAGGGTATGTGCACTTCG
Found at i:87211265 original size:26 final size:26
Alignment explanation
Indices: 87211236--87211346 Score: 74
Period size: 26 Copynumber: 4.4 Consensus size: 26
87211226 GGTATATAAA
*
87211236 AAATAGATAATACATATAAAAATTTG
1 AAATAGATAATACATAAAAAAATTTG
* *
87211262 AAATTGATAATATATAAAAAAA-TT-
1 AAATAGATAATACATAAAAAAATTTG
* *
87211286 -AA-AG-TAAATA-ATAAAACAATTTA
1 AAATAGAT-AATACATAAAAAAATTTG
* *
87211309 AAAT-GAATAATACATAAAACAAGTTTA
1 AAATAG-ATAATACATAAAA-AAATTTG
*
87211336 AAATAAATAAT
1 AAATAGATAAT
87211347 GTATAAAAGC
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
21 9 0.13
22 7 0.10
23 2 0.03
24 3 0.04
25 6 0.09
26 26 0.39
27 14 0.21
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (26 bp):
AAATAGATAATACATAAAAAAATTTG
Found at i:87211301 original size:21 final size:22
Alignment explanation
Indices: 87211270--87211346 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
87211260 TGAAATTGAT
*
87211270 AATATATAAAA-AAATTAAAGTA
1 AATA-ATAAAACAAATTAAAATA
*
87211292 AATAATAAAACAATTTAAAATGAA
1 AATAATAAAACAAATTAAAAT--A
*
87211316 TAATACATAAAACAAGTTTAAAATA
1 -AATA-ATAAAACAA-ATTAAAATA
87211341 AATAAT
1 AATAAT
87211347 GTATAAAAGC
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
21 6 0.13
22 12 0.26
23 2 0.04
24 5 0.11
25 5 0.11
26 9 0.19
27 8 0.17
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (22 bp):
AATAATAAAACAAATTAAAATA
Found at i:87211339 original size:27 final size:25
Alignment explanation
Indices: 87211292--87211366 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 25
87211282 AATTAAAGTA
*
87211292 AATAATAAAACAATTTAAAATGAAT
1 AATAATAAAACAATTTAAAATAAAT
87211317 AATACATAAAACAAGTTTAAAATAAAT
1 AATA-ATAAAACAA-TTTAAAATAAAT
* *
87211344 AATGTATAAAAGCATTTTAAAAT
1 AAT-AATAAAA-CAATTTAAAAT
87211367 CTATATTACA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
25 4 0.09
26 9 0.21
27 28 0.65
28 2 0.05
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (25 bp):
AATAATAAAACAATTTAAAATAAAT
Found at i:87211846 original size:23 final size:25
Alignment explanation
Indices: 87211814--87211860 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
87211804 GATGTAAAAT
*
87211814 AAATAACATA-AAA-AAAATGTTTG
1 AAATAACATATAAATAAAACGTTTG
*
87211837 AAATAGCATATAAATAAAACGTTT
1 AAATAACATATAAATAAAACGTTT
87211861 TTTTTAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 3 0.15
25 8 0.40
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (25 bp):
AAATAACATATAAATAAAACGTTTG
Found at i:87213162 original size:13 final size:13
Alignment explanation
Indices: 87213139--87213189 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
87213129 ATTTTAATTA
87213139 AATTAATTATT-TT
1 AATT-ATTATTATT
87213152 AATATATTATTATT
1 AAT-TATTATTATT
*
87213166 TATTATTATTA-T
1 AATTATTATTATT
*
87213178 CATTATTATTAT
1 AATTATTATTAT
87213190 ACTAGTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 11 0.33
13 17 0.52
14 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTATTATTATT
Found at i:87213164 original size:3 final size:3
Alignment explanation
Indices: 87213144--87213189 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
87213134 AATTAAATTA
* *
87213144 ATT ATT -TT AAT A-T ATT ATT ATTT ATT ATT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
87213188 AT
1 AT
87213190 ACTAGTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.81
4 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:87213335 original size:16 final size:17
Alignment explanation
Indices: 87213314--87213378 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
87213304 TCACCATTGC
87213314 TATTATGTT-TTATCAT
1 TATTATGTTATTATCAT
* *
87213330 TATTAT-TTTTTATTAT
1 TATTATGTTATTATCAT
* * *
87213346 TATCAATGTTCTTATTAT
1 TAT-TATGTTATTATCAT
87213364 TATTAT-TTATTATCA
1 TATTATGTTATTATCA
87213379 ATAATTTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
15 2 0.05
16 22 0.55
17 4 0.10
18 12 0.30
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (17 bp):
TATTATGTTATTATCAT
Found at i:87213336 original size:3 final size:3
Alignment explanation
Indices: 87213323--87213539 Score: 77
Period size: 3 Copynumber: 71.0 Consensus size: 3
87213313 CTATTATGTT
* * * * *
87213323 TTA TCA TTA TTA TT- TT- TTA TTA TTA TCA ATG TTC TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
87213369 TTTA TTA TCAA TAA TT- TTA TTA TTG TTA CTA TTA TTA TTA TCAA CCTA
1 -TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA
* * * * *
87213417 TTA TTA TTC TTG TTA GTA -TA TTA TTG TT- TCCTA TTT TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA
* * ** * * *
87213461 TTT TTG TTA TTA ACA TATA TTA TTA TTA TTAA TGTA GTG TTA TTC TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA
* *
87213509 TTA TTT TCTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
87213540 CACTATTAAA
Statistics
Matches: 156, Mismatches: 43, Indels: 30
0.68 0.19 0.13
Matches are distributed among these distances:
2 11 0.07
3 128 0.82
4 15 0.10
5 2 0.01
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:87213362 original size:28 final size:28
Alignment explanation
Indices: 87213329--87213406 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 28
87213319 TGTTTTATCA
*
87213329 TTATTATTTTTTATTATTATCAAT-GTT
1 TTATTATTTTTTATTATTATCAATAATT
*
87213356 CTTATTA-TTATTATTTATTATCAATAATT
1 -TTATTATTTTTTA-TTATTATCAATAATT
*
87213385 TTATTATTGTTACTATTATTAT
1 TTATTATT-TT-TTATTATTAT
87213407 TATCAACCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 5 0.12
28 23 0.56
29 3 0.07
30 8 0.20
31 2 0.05
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (28 bp):
TTATTATTTTTTATTATTATCAATAATT
Found at i:87213392 original size:31 final size:32
Alignment explanation
Indices: 87213321--87213412 Score: 89
Period size: 31 Copynumber: 2.9 Consensus size: 32
87213311 TGCTATTATG
* * *
87213321 TTTTATCATTATTATTTTTTATTAT-TATCAA
1 TTTTATTATTATTATTATTTATTATCAATCAA
* *
87213352 TGTTCTTATTATTATTATTTATTATCAAT-AA
1 TTTTATTATTATTATTATTTATTATCAATCAA
* *
87213383 TTTTATTATTGTTACTATTATTATTATCAA
1 TTTTATTATTATTATTA-T-TTATTATCAA
87213413 CCTATTATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
31 36 0.73
32 3 0.06
33 10 0.20
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (32 bp):
TTTTATTATTATTATTATTTATTATCAATCAA
Found at i:87213734 original size:17 final size:17
Alignment explanation
Indices: 87213702--87213734 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
87213692 ATGCGTTTAT
87213702 TTTACTTTATTTTATCA
1 TTTACTTTATTTTATCA
87213719 TTTA-TTTATTTATATC
1 TTTACTTTATTT-TATC
87213735 CTTTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTACTTTATTTTATCA
Found at i:87213770 original size:3 final size:3
Alignment explanation
Indices: 87213762--87213852 Score: 103
Period size: 3 Copynumber: 29.7 Consensus size: 3
87213752 ACTTTAGATT
* * *
87213762 TTA TTA TTA -TA TTA TTA TTT TTC TTGA TCTT TTCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TT-A TTA TTA TTA TTA
* *
87213809 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTT TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
87213853 GTTGTTGTTC
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
2 2 0.03
3 68 0.91
4 4 0.05
5 1 0.01
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:87215201 original size:36 final size:36
Alignment explanation
Indices: 87215118--87215201 Score: 82
Period size: 36 Copynumber: 2.4 Consensus size: 36
87215108 TTTTTAATAT
* *
87215118 TTTTAAAATGTT-AAATTAATAAAAATAAAATTACA
1 TTTTAAAATTTTAAAAATAATAAAAATAAAATTACA
** * * *
87215153 TTTTAATTTTTTAAAAATAATAAAATTTTAATTTA-A
1 TTTTAAAATTTTAAAAATAATAAAA-ATAAAATTACA
87215189 TTTTAAAATTTTA
1 TTTTAAAATTTTA
87215202 TATTTATTAC
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
35 9 0.24
36 23 0.61
37 6 0.16
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (36 bp):
TTTTAAAATTTTAAAAATAATAAAAATAAAATTACA
Found at i:87215207 original size:25 final size:26
Alignment explanation
Indices: 87215179--87215236 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
87215169 ATAATAAAAT
*
87215179 TTTAATTTA-ATT-TTAAAATTTTATA
1 TTTAATTTACATTATAAAAATTTTA-A
87215204 TTT-A-TTACTATTATAAAAATTTTAA
1 TTTAATTTAC-ATTATAAAAATTTTAA
87215229 TTTAATTT
1 TTTAATTT
87215237 TCATCTCCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
23 3 0.11
24 1 0.04
25 10 0.37
26 11 0.41
27 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
TTTAATTTACATTATAAAAATTTTAA
Found at i:87217948 original size:20 final size:20
Alignment explanation
Indices: 87217923--87217991 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
87217913 CAAGACACCA
***
87217923 AAATATCATAGGGCATAATG
1 AAATATCATAGCTTATAATG
*
87217943 AAATATCAATATCTTATAATG
1 AAATATC-ATAGCTTATAATG
*
87217964 AAATATCATAGTTTATAATG
1 AAATATCATAGCTTATAATG
87217984 AAATATCA
1 AAATATCA
87217992 ATATCTCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 26 0.62
21 16 0.38
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (20 bp):
AAATATCATAGCTTATAATG
Found at i:87217963 original size:21 final size:21
Alignment explanation
Indices: 87217937--87218002 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
87217927 ATCATAGGGC
87217937 ATAATGAAATATCAATATCTT
1 ATAATGAAATATCAATATCTT
87217958 ATAATGAAATATC-ATAGT-TT
1 ATAATGAAATATCAATA-TCTT
*
87217978 ATAATGAAATATCAATATCTC
1 ATAATGAAATATCAATATCTT
87217999 ATAA
1 ATAA
87218003 AATCATTTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
20 19 0.46
21 22 0.54
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (21 bp):
ATAATGAAATATCAATATCTT
Found at i:87217968 original size:41 final size:41
Alignment explanation
Indices: 87217923--87218002 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
87217913 CAAGACACCA
*
87217923 AAATATCATAGGGCATAATGAAATATCAATATCTTATAATG
1 AAATATCATAGGGCATAATGAAATATCAATATCTCATAATG
***
87217964 AAATATCATAGTTTATAATGAAATATCAATATCTCATAA
1 AAATATCATAGGGCATAATGAAATATCAATATCTCATAA
87218003 AATCATTTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (41 bp):
AAATATCATAGGGCATAATGAAATATCAATATCTCATAATG
Found at i:87219543 original size:18 final size:19
Alignment explanation
Indices: 87219512--87219548 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
87219502 CCTAGCCTTT
87219512 GCCACCACTAACTCCACTA
1 GCCACCACTAACTCCACTA
*
87219531 GCCA-CACTTACTCCACTA
1 GCCACCACTAACTCCACTA
87219549 CCTACTCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.30, C:0.46, G:0.05, T:0.19
Consensus pattern (19 bp):
GCCACCACTAACTCCACTA
Found at i:87220105 original size:24 final size:23
Alignment explanation
Indices: 87220057--87220108 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
87220047 CTCTTTTTGT
*
87220057 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
87220080 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
87220104 TATTA
1 TATTA
87220109 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:87220257 original size:47 final size:47
Alignment explanation
Indices: 87220076--87220293 Score: 142
Period size: 48 Copynumber: 4.5 Consensus size: 47
87220066 ATTTCTTAAT
* * * *
87220076 ATTATATTATATATATATTCTTTTA-A-TATATTAGGTATAT-TCTAA
1 ATTATATTATGTATATATT-TTTTACACTATATTATGTATATATTTTA
* * * *
87220121 ATTCTATATTACGTATATA--TATTATACTATTTTATGTATATATCTTTA
1 A-T-TATATTATGTATATATTTTTTACACTATATTATGTATATAT-TTTA
* * *
87220169 ATACTATATTATTTATATATATATTTTACATGTTATCTTATGTATATATTTTA
1 AT--TATATTATGTATATAT-T-TTTTACA--CTATATTATGTATATATTTTA
* *
87220222 ATTATATTATGTATGTATTTTTTACACTATATTATGTACATATTTTTA
1 ATTATATTATGTATATATTTTTTACACTATATTATGTATATA-TTTTA
* * *
87220270 A-TATTATCACGTATTTATTTTTTA
1 ATTA-TATTATGTATATATTTTTTA
87220294 TATATATACA
Statistics
Matches: 137, Mismatches: 21, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
44 4 0.03
45 2 0.01
46 13 0.09
47 30 0.22
48 40 0.29
49 7 0.05
50 1 0.01
51 14 0.10
52 5 0.04
53 6 0.04
54 15 0.11
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (47 bp):
ATTATATTATGTATATATTTTTTACACTATATTATGTATATATTTTA
Found at i:87220265 original size:25 final size:25
Alignment explanation
Indices: 87220124--87220268 Score: 102
Period size: 25 Copynumber: 5.8 Consensus size: 25
87220114 ATTCTAAATT
* * *
87220124 CTATATTACGTATATA--TATTATA
1 CTATATTATGTATATATTTTTTACA
* * * *
87220147 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATTTTTTACA
*
87220172 CTATATTATTTATATATATATTTTACA
1 CTATATTATGTATATAT-T-TTTTACA
* *
87220199 TGTTATCTTATGTATATA--TTTTA-A
1 --CTATATTATGTATATATTTTTTACA
* *
87220223 TTATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATTTTTTACA
*
87220248 CTATATTATGTACATATTTTT
1 CTATATTATGTATATATTTTT
87220269 AATATTATCA
Statistics
Matches: 96, Mismatches: 17, Indels: 16
0.74 0.13 0.12
Matches are distributed among these distances:
22 14 0.15
23 14 0.15
24 6 0.06
25 44 0.46
27 5 0.05
29 13 0.14
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (25 bp):
CTATATTATGTATATATTTTTTACA
Found at i:87220288 original size:23 final size:23
Alignment explanation
Indices: 87220262--87220310 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
87220252 ATTATGTACA
*
87220262 TATTTTTAATAT-TATCACGTATT
1 TATTTTTAATATATAT-ACATATT
*
87220285 TATTTTTTATATATATACATATT
1 TATTTTTAATATATATACATATT
87220308 TAT
1 TAT
87220311 GTAGTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTTTTAATATATATACATATT
Found at i:87220447 original size:16 final size:15
Alignment explanation
Indices: 87220428--87220462 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
87220418 TTATTATTAT
87220428 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
87220444 TATTTTAATATTTTA
1 TATTCTAATATTTTA
87220459 TATT
1 TATT
87220463 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:87242506 original size:148 final size:146
Alignment explanation
Indices: 87242279--87242654 Score: 490
Period size: 148 Copynumber: 2.6 Consensus size: 146
87242269 TGCGAGAGGT
* * * *
87242279 GAGTTGAGCCTTGACTGACATGTTGAGGTATTTTCAATTT-TGCCTTTCAAAAATCAACTCATAC
1 GAGTTGAGCCTT-A-AGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAATCAACTCATAT
* ** *
87242343 TGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAA-AAT
64 TGCAAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAA-TT-TGTCTTTCAAAATAA-
87242407 TCAACTCATACTGCAAGAAGC
126 TCAACTCATACTGCAAGAAGC
87242428 GAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTG
1 GAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTG
87242493 CAAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTGTCTTTCAAAATAATCAAC
66 CAAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTGTCTTTCAAAATAATCAAC
* ** * *
87242558 TCATATTGTGAGAGGT
131 TCATACTGCAAGAAGC
* * * * *
87242574 GAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-GATCTCTGT-TTTCAAAAATCAACTCATATT
1 GAGTTGAGCCTTAAGACACGTTGAGGT-ATTTTCAATTTCTGTCTTTCAAAAATCAACTCATATT
* *
87242637 GCGAGAGGTGAGTGGAGC
65 GCAAGAGGTGAGTTGAGC
87242655 TTCGGATCAC
Statistics
Matches: 204, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
145 37 0.18
146 59 0.29
147 32 0.16
148 64 0.31
149 12 0.06
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (146 bp):
GAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTG
CAAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTGTCTTTCAAAATAATCAAC
TCATACTGCAAGAAGC
Found at i:87242526 original size:73 final size:73
Alignment explanation
Indices: 87242253--87242654 Score: 490
Period size: 73 Copynumber: 5.5 Consensus size: 73
87242243 TACGGTTCAA
* * * * * *
87242253 AAAAATCAGCGCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACATGTTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC-TCA-AGACACGTTGAGGTATTTTCAATT
*
87242318 T-TGCCTTTC
64 TCTGTCTTTC
* *
87242327 AAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
87242392 TGTCTTTC
66 TGTCTTTC
* * * *
87242400 AAAAAATTCAACTCATACTGCAAGAAGCGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATT
1 -AAAAA-TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
87242465 TCTGTCTTTC
64 TCTGTCTTTC
** *
87242475 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAA-TT-
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
87242538 TGTCTTTC
66 TGTCTTTC
** * * *
87242546 AAAATAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-GAT
1 -AAA-AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAAT
*
87242610 CTCTGT-TTTC
63 TTCTGTCTTTC
* *
87242620 AAAAATCAACTCATATTGCGAGAGGTGAGTGGAGC
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
87242655 TTCGGATCAC
Statistics
Matches: 293, Mismatches: 27, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
71 8 0.03
72 58 0.20
73 108 0.37
74 50 0.17
75 69 0.24
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTC
Found at i:87242793 original size:87 final size:86
Alignment explanation
Indices: 87242614--87242841 Score: 214
Period size: 87 Copynumber: 2.6 Consensus size: 86
87242604 TTTGATCTCT
* * * *
87242614 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCTTCGGATCACATGTCGAGGTATTT
1 GTTTT-AAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCTTCGGATCACATGTCGAGCTATTT
*
87242679 TCAAAATCTGTTTTACAAATTTT
65 TCAAAATCTGTTTTA-AAATTTA
* * *
87242702 GTTTTAAAAATCAACTCATTTTGCGAAAAGTGAGTTGAGCCTT-GGCTCACGTG-CTGAGCTATT
1 GTTTTAAAAATCAACTCATATTGCGAAAAGTGAGTTGAG-CTTCGGATCACATGTC-GAGCTATT
** *
87242765 TTCAATTTCTGTTTT-TAATGTCTA
64 TTCAAAATCTGTTTTAAAAT-T-TA
* * *
87242789 GTTTTAAAGAGTCAATTCATATTGCGAGAAA-TGAGTTAAGC-TCAGGATCACAT
1 GTTTTAAA-AATCAACTCATATTGCGA-AAAGTGAGTTGAGCTTC-GGATCACAT
87242842 ACCGAGTAAA
Statistics
Matches: 115, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
85 3 0.03
86 3 0.03
87 68 0.59
88 38 0.33
89 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (86 bp):
GTTTTAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCTTCGGATCACATGTCGAGCTATTTT
CAAAATCTGTTTTAAAATTTA
Found at i:87243494 original size:18 final size:18
Alignment explanation
Indices: 87243471--87243526 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
87243461 CCACTACCAA
87243471 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
87243489 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
87243501 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
87243519 CTCCACTA
1 CTCCACTA
87243527 CCTACTCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 1 0.03
16 1 0.03
17 3 0.10
18 15 0.50
ACGTcount: A:0.25, C:0.48, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:87243500 original size:30 final size:30
Alignment explanation
Indices: 87243461--87243546 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
87243451 CTAGCCTTTG
87243461 CCACTACCAACTCCACTAGCCACACTTGCT
1 CCACTACCAACTCCACTAGCCACACTTGCT
*
87243491 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACTACCAACTCCACTAGCCACACTTGCT
*
87243521 CCACTACCTACTCCACTAGCCACACT
1 CCACTACCAACTCCACTAGCCACACT
87243547 CCACGACCAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.27, C:0.49, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACTACCAACTCCACTAGCCACACTTGCT
Found at i:87244047 original size:23 final size:23
Alignment explanation
Indices: 87244010--87244139 Score: 86
Period size: 25 Copynumber: 5.5 Consensus size: 23
87244000 CTTTTTTTGT
*
87244010 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
87244033 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
87244055 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
87244078 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATACTA
* *
87244103 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
87244128 TATTATTTATAT
1 TATTATATATAT
87244140 ATATATTTTT
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
22 17 0.21
23 27 0.33
24 6 0.07
25 30 0.37
26 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:87244115 original size:27 final size:26
Alignment explanation
Indices: 87244075--87244226 Score: 95
Period size: 25 Copynumber: 6.0 Consensus size: 26
87244065 ATTCTAAATT
*
87244075 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
87244100 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
* *
87244125 CTATATTATTTATATATATATTTTTACATG
1 CTATATTATGTATATATATA---TTA-ATA
* *
87244155 TTATCTTATGTATATAT-T-TTAAT-
1 CTATATTATGTATATATATATTAATA
* * * *
87244178 -TATATTATGTATGTAT-TTTTTACA
1 CTATATTATGTATATATATATTAATA
* *
87244202 CTATATTATGTACATAT-TTTTAATA
1 CTATATTATGTATATATATATTAATA
87244227 TTATCACGTA
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
22 15 0.15
23 3 0.03
24 4 0.04
25 58 0.58
29 4 0.04
30 16 0.16
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:87244229 original size:20 final size:20
Alignment explanation
Indices: 87244204--87244262 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
87244194 TTTTTACACT
87244204 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
87244224 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
87244247 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
87244263 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:87247005 original size:28 final size:26
Alignment explanation
Indices: 87246973--87247034 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 26
87246963 TGTAAGAATT
87246973 TAAAATAAATAATATATACATAAAAATG
1 TAAAATAAATAATATATA-A-AAAAATG
* *
87247001 TAAAATAAATAATATATAAAATAATT
1 TAAAATAAATAATATATAAAAAAATG
87247027 TAAAATAA
1 TAAAATAA
87247035 TATGTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 13 0.41
27 1 0.03
28 18 0.56
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
TAAAATAAATAATATATAAAAAAATG
Found at i:87253295 original size:5 final size:5
Alignment explanation
Indices: 87253257--87253311 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
87253247 TATAAATTTA
* * * *
87253257 ATTAT GTTAA ATTAT AATA- ATTAT ATTAGA ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA-T ATTAT ATTAT ATTAT ATTAT
87253307 ATTAT
1 ATTAT
87253312 GAAAGAAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 3 0.08
5 33 0.82
6 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (5 bp):
ATTAT
Found at i:87253744 original size:12 final size:12
Alignment explanation
Indices: 87253727--87253755 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
87253717 AGATATTTAT
87253727 TATATTATATTA
1 TATATTATATTA
87253739 TATATTATATTA
1 TATATTATATTA
87253751 T-TATT
1 TATATT
87253756 GTTGTTGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATATTATATTA
Found at i:87253760 original size:3 final size:3
Alignment explanation
Indices: 87253754--87253800 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
87253744 TATATTATTA
87253754 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
87253801 AACTAATACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:87254737 original size:69 final size:75
Alignment explanation
Indices: 87254645--87254819 Score: 184
Period size: 77 Copynumber: 2.3 Consensus size: 75
87254635 ACGTGAACAA
* * *
87254645 ATTGGAAATTAAAAGTGATTTGAATT-AAGT-AATTG-ATT-T-ATG-AATTATGTGAATATTTG
1 ATTGGAAACT-AAAGTGATTTGAATTGAA-TAAATTGAATTATGAAGAAAATATGTGAATATTTG
87254704 AAA-GTATATTG
64 AAATGTATATTG
*
87254715 ATTGGAAACTAAAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATTT
1 ATTGGAAACTAAAGTGATTTGAATTGAAT-AAATTGAATT--ATGAAGAAAATATGTGAATATTT
87254780 GAAATGTATATTG
63 GAAATGTATATTG
* *
87254793 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAACTAA--AGTGATTTGAATT
87254820 TGATTGGAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
69 16 0.18
70 11 0.13
71 5 0.06
72 3 0.03
75 1 0.01
76 2 0.02
77 18 0.21
78 18 0.21
80 13 0.15
ACGTcount: A:0.41, C:0.01, G:0.19, T:0.38
Consensus pattern (75 bp):
ATTGGAAACTAAAGTGATTTGAATTGAATAAATTGAATTATGAAGAAAATATGTGAATATTTGAA
ATGTATATTG
Found at i:87255172 original size:21 final size:21
Alignment explanation
Indices: 87255146--87255231 Score: 111
Period size: 21 Copynumber: 4.1 Consensus size: 21
87255136 AGCTTTGCTG
87255146 ATCAGGCA-CTATATGTGTCGT
1 ATCAGGCACCT-TATGTGTCGT
*
87255167 ATCAGGCACCTCATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
* *
87255188 ATCAGGCACCTTGTGTATCGT
1 ATCAGGCACCTTATGTGTCGT
* *
87255209 TTCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
87255230 AT
1 AT
87255232 ACTGTTTCTG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 53 0.96
22 2 0.04
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (21 bp):
ATCAGGCACCTTATGTGTCGT
Found at i:87257591 original size:32 final size:32
Alignment explanation
Indices: 87257552--87257615 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
87257542 AAATATATTA
87257552 AAAACATAAAACAATGGTAATCTTCAACCATT
1 AAAACATAAAACAATGGTAATCTTCAACCATT
*
87257584 AAAACATAAAACAATGGTCATCTTCAACCATT
1 AAAACATAAAACAATGGTAATCTTCAACCATT
87257616 CTTTCCTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.20, G:0.06, T:0.25
Consensus pattern (32 bp):
AAAACATAAAACAATGGTAATCTTCAACCATT
Found at i:87260628 original size:27 final size:26
Alignment explanation
Indices: 87260588--87260641 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
87260578 TCTATATGAT
87260588 TTTTTAAAGATT-AAGTTAAAATTTTA
1 TTTTTAAAGATTAAAG-TAAAATTTTA
* *
87260614 TTTTTAGAGAGTTAAAGTATAATTTTA
1 TTTTTAAAGA-TTAAAGTAAAATTTTA
87260641 T
1 T
87260642 CATTATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
27 12 0.50
28 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (26 bp):
TTTTTAAAGATTAAAGTAAAATTTTA
Found at i:87263289 original size:7 final size:7
Alignment explanation
Indices: 87263277--87263321 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
87263267 AGCAACTCAA
87263277 TTTTTCT
1 TTTTTCT
87263284 TTTTTCT
1 TTTTTCT
87263291 TTTTTCT
1 TTTTTCT
87263298 TTTTTC-
1 TTTTTCT
*
87263304 TTTTCCT
1 TTTTTCT
*
87263311 TCTTTCT
1 TTTTTCT
87263318 TTTT
1 TTTT
87263322 CTCTCTTCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:87263300 original size:13 final size:13
Alignment explanation
Indices: 87263277--87263323 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
87263267 AGCAACTCAA
87263277 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
87263290 TTTTTTCTTTTTTC
1 -TTTTTCTTTTTTC
* *
87263304 TTTTCCTTCTTTC
1 TTTTTCTTTTTTC
87263317 TTTTTCT
1 TTTTTCT
87263324 CTCTTCTCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 17 0.57
14 13 0.43
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:87263307 original size:20 final size:21
Alignment explanation
Indices: 87263277--87263321 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
87263267 AGCAACTCAA
* *
87263277 TTTTTCTTTTTTCTTTTTTCT
1 TTTTTCTTTTTCCTTCTTTCT
87263298 TTTTTC-TTTTCCTTCTTTCT
1 TTTTTCTTTTTCCTTCTTTCT
87263318 TTTT
1 TTTT
87263322 CTCTCTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTCTTTTTCCTTCTTTCT
Found at i:87275712 original size:21 final size:21
Alignment explanation
Indices: 87275678--87275719 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
87275668 TTCTGATTTG
*
87275678 TTAAAATTTCTTGAGATTTTT
1 TTAAAATTTCTTGACATTTTT
* *
87275699 TTAAATTTTTTTGACATTTTT
1 TTAAAATTTCTTGACATTTTT
87275720 GTATTTTTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (21 bp):
TTAAAATTTCTTGACATTTTT
Found at i:87276288 original size:22 final size:21
Alignment explanation
Indices: 87276241--87276288 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
87276231 AGAAAAAATT
* * *
87276241 ATTAAAGGTGTTTTTTTTATA
1 ATTAAAAGTGTTTTTTTAAGA
87276262 ATTAAAAGTGTTTTTTTAAGA
1 ATTAAAAGTGTTTTTTTAAGA
87276283 AGTTAA
1 A-TTAA
87276289 TGAAAGGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (21 bp):
ATTAAAAGTGTTTTTTTAAGA
Found at i:87277761 original size:30 final size:31
Alignment explanation
Indices: 87277737--87277795 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
87277727 GTAAATACTT
* * *
87277737 AAAATTTGAGGGATTAA-AGTGTAAATATAA
1 AAAATTTAAAGGACTAATAGTGTAAATATAA
87277767 AAAATTTAAAGGACTAATAGTGTAAATAT
1 AAAATTTAAAGGACTAATAGTGTAAATAT
87277796 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.31
Consensus pattern (31 bp):
AAAATTTAAAGGACTAATAGTGTAAATATAA
Found at i:87282543 original size:25 final size:25
Alignment explanation
Indices: 87282509--87282556 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
87282499 ACGAAAATTA
* *
87282509 GCATAATTATAATAATTAATAACAC
1 GCATAATTATAAAAAATAATAACAC
*
87282534 GCATATTTATAAAAAATAATAAC
1 GCATAATTATAAAAAATAATAAC
87282557 TTTCCGTGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.31
Consensus pattern (25 bp):
GCATAATTATAAAAAATAATAACAC
Found at i:87302482 original size:21 final size:21
Alignment explanation
Indices: 87302440--87302482 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
87302430 TTTTCTGAAT
* ***
87302440 ATTTTTATTAATTATTTTTAA
1 ATTTTTATGAATTATACGTAA
87302461 ATTTTTATGAATTATACGTAA
1 ATTTTTATGAATTATACGTAA
87302482 A
1 A
87302483 CTATCACGCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTTTATGAATTATACGTAA
Found at i:87305759 original size:21 final size:21
Alignment explanation
Indices: 87305735--87305776 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
87305725 TTCTGATTTG
*
87305735 TTAAAATTTCTTGAGATTTTT
1 TTAAAATTTCTTGACATTTTT
* *
87305756 TTAAATTTTTTTGACATTTTT
1 TTAAAATTTCTTGACATTTTT
87305777 GTATTTTTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (21 bp):
TTAAAATTTCTTGACATTTTT
Found at i:87305850 original size:15 final size:14
Alignment explanation
Indices: 87305820--87305861 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
87305810 AATTTCTGAG
87305820 AATTTTTTATTTTA
1 AATTTTTTATTTTA
87305834 AATTTTTT-TTTGATA
1 AATTTTTTATTT--TA
*
87305849 AATTTTCTATTTT
1 AATTTTTTATTTT
87305862 TTTAATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
13 3 0.12
14 9 0.38
15 9 0.38
16 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (14 bp):
AATTTTTTATTTTA
Found at i:87307819 original size:30 final size:31
Alignment explanation
Indices: 87307795--87307853 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
87307785 GTAAATACTT
* * *
87307795 AAAATTTGAGGGATTAA-AGTGTAAATATAA
1 AAAATTTAAAGGACTAATAGTGTAAATATAA
87307825 AAAATTTAAAGGACTAATAGTGTAAATAT
1 AAAATTTAAAGGACTAATAGTGTAAATAT
87307854 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.31
Consensus pattern (31 bp):
AAAATTTAAAGGACTAATAGTGTAAATATAA
Found at i:87313979 original size:132 final size:131
Alignment explanation
Indices: 87313567--87314088 Score: 428
Period size: 132 Copynumber: 4.0 Consensus size: 131
87313557 TAGAAAATAC
* * * * *
87313567 GAGTGAAATTCCGAAGAGATATTCGATTGTTTTGAACAAACGAGAGATTGCAACCCAGCACGATA
1 GAGTGAAATT-TGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* * * **
87313632 GGGCACGATT-CTCGAATTGCCAAACATCAAAC-ATAGCCTTTGTTTTAAAAGGTTTTCTTAAAA
65 GGGCACGATTCCGCGAATTGCC-AACATCAAACTATTGCCTTCGTTTT-AAAGAATTT-TTAAAA
*
87313695 AACAT
127 GACAT
** * * ** * ** * *
87313700 GAGTGAAAACCTAAAGGAATATTCGATCGTTTTGAACAAACGAAAAATCACAACCCAGCATGATA
1 GAGTG-AAATTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* * * ** * * * * *
87313765 GAGCATGATTCC-CGAATTGTCAAACA-CCGAGTATTGCCTTCATTTTAGAGGATTTTTAGAAGA
65 GGGCACGATTCCGCGAATTG-CCAACATCAAACTATTGCCTTCGTTTTAAAGAATTTTTAAAAGA
*
87313828 CCT
129 CAT
* * * * * *
87313831 GAATGGAATCTCGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
1 GAGTGAAAT-TTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
*
87313896 GGGCACGATTCCGCGAATTGCCAACTATCAAACT-TTGCCTTCGTTTTAAAGAATTTTTAAAAGG
65 GGGCACGATTCCGCGAATTGCCAAC-ATCAAACTATTGCCTTCGTTTTAAAGAATTTTTAAAAGA
87313960 CAT
129 CAT
* * * *
87313963 GAGTGAAAGTTTGAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTA
1 GAGTGAAA-TTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* * * * * ** *
87314028 GGGCACTATTCCTG-AAATTGCCAAATATCAAA-TCTCGTTTTTGTTTTAAAGAATTTTTAAA
65 GGGCACGATTCC-GCGAATTGCC-AACATCAAACTATTGCCTTCGTTTTAAAGAATTTTTAAA
87314089 TGAATACTTA
Statistics
Matches: 309, Mismatches: 68, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
130 2 0.01
131 68 0.22
132 148 0.48
133 86 0.28
134 5 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (131 bp):
GAGTGAAATTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAG
GGCACGATTCCGCGAATTGCCAACATCAAACTATTGCCTTCGTTTTAAAGAATTTTTAAAAGACA
T
Found at i:87316913 original size:44 final size:44
Alignment explanation
Indices: 87316860--87317159 Score: 451
Period size: 44 Copynumber: 6.8 Consensus size: 44
87316850 ATTATTTTCA
*
87316860 ATCTGCTCTCTGCCAATACAGAGATGCCAAATCTG-TCATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT-ATCTTCG
* *
87316904 ATTTGCTCTCCGCCAATACCA-AGACGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCTGCCAATA-CAGAGACGCCAAATCTGCTATCTTCG
*
87316948 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTTG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* *
87316992 ATCTACTTTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
*
87317036 ATCTGCTTTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* * *
87317080 ATCTGCTCTCTGTCAACACAGAGATGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* * *
87317124 ATCTGCTCTCTGTCAACACAGAGATGCCAAATCTGC
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGC
87317160 AGGATTCGCC
Statistics
Matches: 239, Mismatches: 14, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
43 2 0.01
44 234 0.98
45 3 0.01
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (44 bp):
ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
Found at i:87320697 original size:23 final size:23
Alignment explanation
Indices: 87320671--87320763 Score: 80
Period size: 23 Copynumber: 3.8 Consensus size: 23
87320661 GATGGATTAT
87320671 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATTCTGGTGTGTTTGGGAGG
*
87320694 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGAGG
* *
87320722 ATTATACTGGTGTGTTTTGGTAGG
1 ATTATTCTGGTGTG-TTTGGGAGG
* *
87320746 A-CATTTTGGTGTGTTTGG
1 ATTATTCTGGTGTGTTTGG
87320764 ATGGAATCCG
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
22 5 0.09
23 18 0.32
24 9 0.16
25 3 0.05
26 3 0.05
27 2 0.04
28 17 0.30
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.45
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGAGG
Found at i:87320697 original size:28 final size:28
Alignment explanation
Indices: 87320644--87320727 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
87320634 CACTTTGTGC
*
87320644 TATTCTGGTGTATTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
87320673 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
87320701 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
87320728 CTGGTGTGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 33 0.66
29 17 0.34
ACGTcount: A:0.20, C:0.04, G:0.30, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:87321001 original size:21 final size:21
Alignment explanation
Indices: 87320944--87321004 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
87320934 AGGCACTTTA
*
87320944 TATGTCGTATTTCAGGCACCTTG
1 TATGTCG--TTTCAGGCACCTCG
***
87320967 TATGTCGCAACAGGCACCTCG
1 TATGTCGTTTCAGGCACCTCG
*
87320988 TGTGTCGTTTCAGGCAC
1 TATGTCGTTTCAGGCAC
87321005 TTATGTGTCG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 23 0.77
23 7 0.23
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.31
Consensus pattern (21 bp):
TATGTCGTTTCAGGCACCTCG
Found at i:87336283 original size:131 final size:133
Alignment explanation
Indices: 87335955--87336421 Score: 365
Period size: 131 Copynumber: 3.5 Consensus size: 133
87335945 TTCCGAAGAG
* * * * * * **
87335955 ATATTCGATTGTTTTGAACAAACAAGAGATTGCAACCCAGCACGATAGGGCACGATT-CTTGAAT
1 ATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * ** ** ** * * ***
87336019 T-TCTAAAC-ATCGAACATAACCTTTGTTTTAAAGGGTTTTCTTAAAAAACATGAGTGAAAACCT
66 TGTC-AAACTACCAAACATTGCCTTCATTTTAAA-GAATTT-TTAAAAGACATGAATGAAAGTTT
*
87336082 AAAGGA
128 GAAGGA
** * * ** * * * *
87336088 ATATTCGATCGTTTTGAACAAACGAAAAATCACAGCCCAACACGATAGGGCATGATTCC-TGAAT
1 ATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * * * * * *
87336152 TGTCAAAC-ACCGAGCATTGCCTTCATTTTAGAGGATTTTTAGAAGACCTGAATGGAA-TCTTGA
66 TGTCAAACTACCAAACATTGCCTTCATTTTAAAGAATTTTTAAAAGACATGAATGAAAGT-TTGA
87336215 AGGA
130 AGGA
*
87336219 ATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA-GGCACGATTCCGCGAAT
1 ATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * * * * *
87336283 T-TCCAACTATCAAACTTTGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGTTTGAA
66 TGTCAAACTACCAAACATTGCCTTCATTTTAAAGAATTTTTAAAAGACATGAATGAAAGTTTGAA
*
87336347 GGG
131 GGA
* * * * *
87336350 ATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCTGCTAAT
1 ATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
*
87336415 TGCCAAA
66 TGTCAAA
87336422 TATCAAATCT
Statistics
Matches: 268, Mismatches: 58, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
130 15 0.06
131 151 0.56
132 21 0.08
133 78 0.29
134 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (133 bp):
ATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
TGTCAAACTACCAAACATTGCCTTCATTTTAAAGAATTTTTAAAAGACATGAATGAAAGTTTGAA
GGA
Found at i:87339263 original size:44 final size:42
Alignment explanation
Indices: 87339211--87339468 Score: 223
Period size: 44 Copynumber: 5.9 Consensus size: 42
87339201 TGTTATTTTC
*
87339211 GATCTGCTCTCTGCCAATACAGAAATGCCAAATCTGTCATATTT
1 GATCTGCTCTCTGCCAATACA-AAACGCCAAATCTG-CATATTT
* * *
87339255 GATTTGCTCTCTGCCAATACCAAGACGCCAAATCTAC-TATCTT
1 GATCTGCTCTCTGCCAATA-CAAAACGCCAAATCTGCATAT-TT
* * * * *
87339298 CGATCTGCTCTCTGTCAATATAGAGACGCCAAATTTGCTATCTTT
1 -GATCTGCTCTCTGCCAATACA-AAACGCCAAATCTGC-ATATTT
* * *
87339343 GATTTGCTCTCTGCCAATACAAAGACGCCAAATATGCTATCTTT
1 GATCTGCTCTCTGCCAATACAAA-ACGCCAAATCTGC-ATATTT
* * *
87339387 GATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGC-TACCTTT
1 GATCTGCTCTCTGCCAATACA-AAACGCCAAATCTGCATA--TTT
* * *
87339431 GATCTGCTCTCTGTCAACACAAAGATGCCAAATCTGCA
1 GATCTGCTCTCTGCCAATACAAA-ACGCCAAATCTGCA
87339469 GGATTCGCCA
Statistics
Matches: 177, Mismatches: 25, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
42 4 0.02
43 6 0.03
44 160 0.90
45 5 0.03
46 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (42 bp):
GATCTGCTCTCTGCCAATACAAAACGCCAAATCTGCATATTT
Found at i:87339306 original size:88 final size:87
Alignment explanation
Indices: 87339208--87339465 Score: 338
Period size: 88 Copynumber: 2.9 Consensus size: 87
87339198 ATCTGTTATT
*
87339208 TTCGATCTGCTCTCTGCCAATACAGAAATGCCAAATCTGTCATATTTGATTTGCTCTCTGCCAAT
1 TTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTG-CATATTTGATTTGCTCTCTGCCAAT
*
87339273 ACCAAGACGCCAAATCTACTATC
65 ACAAAGACGCCAAATCTACTATC
* * * * *
87339296 TTCGATCTGCTCTCTGTCAATATAGAGACGCCAAATTTGCTATCTTTGATTTGCTCTCTGCCAAT
1 TTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGC-ATATTTGATTTGCTCTCTGCCAAT
* *
87339361 ACAAAGACGCCAAATATGCTATC
65 ACAAAGACGCCAAATCTACTATC
* * * *
87339384 TTTGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGC-TACCTTTGATCTGCTCTCTGTCAA
1 TTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCATA--TTTGATTTGCTCTCTGCCAA
* *
87339448 CACAAAGATGCCAAATCT
64 TACAAAGACGCCAAATCT
87339466 GCAGGATTCG
Statistics
Matches: 146, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
86 1 0.01
87 1 0.01
88 144 0.99
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (87 bp):
TTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCATATTTGATTTGCTCTCTGCCAATA
CAAAGACGCCAAATCTACTATC
Found at i:87339461 original size:132 final size:132
Alignment explanation
Indices: 87339215--87339463 Score: 333
Period size: 132 Copynumber: 1.9 Consensus size: 132
87339205 ATTTTCGATC
* * * *
87339215 TGCTCTCTGCCAATACAGAAATGCCAAATCTGTCATATTTGATTTGCTCTCTGCCAATACCAAGA
1 TGCTCTCTGCCAATACAGAAACGCCAAATATGTCATATTTGATCTGCTCTCCGCCAATACCAAGA
* * * *
87339280 CGCCAAATCTACTATCTTCGATCTGCTCTCTGTCAATATAGAGACGCCAAATTTGCTATCTTTGA
66 CGCCAAATCTACTACCTTCGATCTGCTCTCTGTCAACACAAAGACGCCAAATTTGCTATCTTTGA
87339345 TT
131 TT
*
87339347 TGCTCTCTGCCAATACA-AAGACGCCAAATATG-CTATCTTTGATCTGCTCTCCGCCAATA-CAG
1 TGCTCTCTGCCAATACAGAA-ACGCCAAATATGTC-ATATTTGATCTGCTCTCCGCCAATACCA-
* * * *
87339409 AGATGCCAAATCTGCTACCTTTGATCTGCTCTCTGTCAACACAAAGATGCCAAAT
63 AGACGCCAAATCTACTACCTTCGATCTGCTCTCTGTCAACACAAAGACGCCAAAT
87339464 CTGCAGGATT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
131 5 0.05
132 96 0.95
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (132 bp):
TGCTCTCTGCCAATACAGAAACGCCAAATATGTCATATTTGATCTGCTCTCCGCCAATACCAAGA
CGCCAAATCTACTACCTTCGATCTGCTCTCTGTCAACACAAAGACGCCAAATTTGCTATCTTTGA
TT
Found at i:87351745 original size:132 final size:132
Alignment explanation
Indices: 87351609--87351853 Score: 384
Period size: 132 Copynumber: 1.9 Consensus size: 132
87351599 TGGAATCTCA
* * * *
87351609 AAGGGATGTTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
1 AAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAAGGCACGATTCCG
*
87351674 CGAATTGCCAAATATCAAA-CTTTGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGT
66 CGAATTGCCAAATATCAAATC-TCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGT
87351738 TTG
130 TTG
* *
87351741 AAGGGATATTCGATTATTTCGAGCAAACGTGAAATTGCAACCCAACACGTTAAGGCACTATTCCG
1 AAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAAGGCACGATTCCG
** *
87351806 CGAATTGCCAAATATCAAATCTCGTTTTCGTTTTTAAGAATTTTTAAA
66 CGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAA
87351854 TGAATACTTA
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
132 101 0.99
133 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (132 bp):
AAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAAGGCACGATTCCG
CGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGTT
TG
Found at i:87354287 original size:5 final size:5
Alignment explanation
Indices: 87354277--87354351 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
87354267 AATTTCTCCT
* *
87354277 TTTTC TTTTC TTTTC TTCTT- TCTTTC -TTTC TATTTC GTTTC TTCTC
1 TTTTC TTTTC TTTTC TT-TTC T-TTTC TTTTC T-TTTC TTTTC TTTTC
*
87354323 TGTTTC TTTTTC TTGT- TTTTC -TTTC TTTT
1 T-TTTC -TTTTC TTTTC TTTTC TTTTC TTTT
87354352 ATTTATTCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 18
0.70 0.08 0.23
Matches are distributed among these distances:
4 11 0.20
5 29 0.53
6 14 0.25
7 1 0.02
ACGTcount: A:0.01, C:0.20, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:87354295 original size:22 final size:22
Alignment explanation
Indices: 87354270--87354332 Score: 56
Period size: 26 Copynumber: 2.7 Consensus size: 22
87354260 AAACCCTAAT
*
87354270 TTCTCCTTTTTCTTTTCTTTTC
1 TTCTCCTTTTTCTTTTCGTTTC
*
87354292 TTCTTTCTTTCTTTCTATTTCGTTTC
1 TTC--TCCTT-TTTCT-TTTCGTTTC
*
87354318 TTCT-CTGTTTCTTTT
1 TTCTCCTTTTTCTTTT
87354333 TCTTGTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
21 3 0.09
22 8 0.24
23 1 0.03
24 5 0.15
25 5 0.15
26 11 0.33
ACGTcount: A:0.02, C:0.24, G:0.03, T:0.71
Consensus pattern (22 bp):
TTCTCCTTTTTCTTTTCGTTTC
Found at i:87354298 original size:26 final size:26
Alignment explanation
Indices: 87354278--87354350 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 26
87354268 ATTTCTCCTT
*
87354278 TTTCT-TTTCTTTTCTTCTTTCTTTC
1 TTTCTATTTCGTTTCTTCTTTCTTTC
* *
87354303 TTTCTATTTCGTTTCTTCTCTGTTTC
1 TTTCTATTTCGTTTCTTCTTTCTTTC
87354329 TTT-T-TCTT-GTTT-TTCTTTCTTT
1 TTTCTAT-TTCGTTTCTTCTTTCTTT
87354351 TATTTATTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
23 8 0.20
24 5 0.12
25 8 0.20
26 20 0.49
ACGTcount: A:0.01, C:0.21, G:0.04, T:0.74
Consensus pattern (26 bp):
TTTCTATTTCGTTTCTTCTTTCTTTC
Found at i:87354527 original size:3 final size:3
Alignment explanation
Indices: 87354519--87354558 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
87354509 TTGATAAAAT
87354519 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
87354559 GTAAATATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:87360140 original size:16 final size:16
Alignment explanation
Indices: 87360118--87360186 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
87360108 TTTGGTTCGC
87360118 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
87360134 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
87360150 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
87360167 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
87360183 TGTA
1 TGTA
87360187 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:87360164 original size:33 final size:32
Alignment explanation
Indices: 87360118--87360186 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
87360108 TTTGGTTCGC
87360118 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
87360150 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
87360183 TGTA
1 TGTA
87360187 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:87360251 original size:44 final size:45
Alignment explanation
Indices: 87360167--87360257 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
87360157 GGATTAGAGG
* * *
87360167 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
87360212 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
87360256 TG
1 TG
87360258 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:87360443 original size:18 final size:17
Alignment explanation
Indices: 87360422--87360456 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
87360412 TTATTATTAA
*
87360422 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
87360440 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
87360457 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:87360618 original size:120 final size:120
Alignment explanation
Indices: 87360405--87360990 Score: 1122
Period size: 119 Copynumber: 4.9 Consensus size: 120
87360395 ATCATATTTA
* *
87360405 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
87360470 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
87360525 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
87360590 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
87360645 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT-AAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
87360709 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
87360764 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT-AAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
87360828 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
87360883 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
87360948 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
87360991 TGATGCTAGT
Statistics
Matches: 461, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
119 238 0.52
120 223 0.48
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:87366998 original size:47 final size:46
Alignment explanation
Indices: 87366895--87367034 Score: 136
Period size: 47 Copynumber: 2.9 Consensus size: 46
87366885 TTTTACTAAA
* * * ** * *
87366895 ATGCCATAGCTCAGCTATGGTCTTACATCTTATACACATATCACACCG
1 ATGCCATATCCCAGATATGGTCTTACA-CAAAT-CACTTATCACTCCG
87366943 ATGCCATATCCCAGATATGGTCTTACACAAATGCACTTATCACTCCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAT-CACTTATCACTCCG
* * * *
87366990 ATGCCATATCCCATATATGATTTTACACGGAAATCACTTGTCACT
1 ATGCCATATCCCAGATATGGTCTTACAC--AAATCACTTATCACT
87367035 TGTAGCCGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
47 40 0.51
48 34 0.44
49 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (46 bp):
ATGCCATATCCCAGATATGGTCTTACACAAATCACTTATCACTCCG
Found at i:87367071 original size:31 final size:31
Alignment explanation
Indices: 87367036--87367122 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
87367026 CTTGTCACTT
* *
87367036 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
87367067 GTAGCTGAAGCTACCACTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
* *
87367098 GTAACTGAAACTACCACTTTTCACT
1 GTAGCTGAAGCTACCACTTTTCACT
87367123 TGTCATTAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
GTAGCTGAAGCTACCACTTTTCACTGATCAG
Found at i:87367202 original size:50 final size:50
Alignment explanation
Indices: 87367142--87367274 Score: 239
Period size: 50 Copynumber: 2.7 Consensus size: 50
87367132 TCCTTAATCG
87367142 GATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCA
1 GATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCA
* *
87367192 GATAAGTGTAGCCGAAGCTATCATTTATCTCTTTCACTTGTTCTTGATCA
1 GATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCA
*
87367242 GATAAGTGTAGTCGAAGCTATCACTTATCACTT
1 GATAAGTGTAGCCGAAGCTATCACTTATCACTT
87367275 GTTGCCATGG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (50 bp):
GATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCA
Found at i:87371158 original size:13 final size:13
Alignment explanation
Indices: 87371140--87371164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87371130 GTTGTCATTT
87371140 TACTATTATGTTC
1 TACTATTATGTTC
87371153 TACTATTATGTT
1 TACTATTATGTT
87371165 GTTATTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (13 bp):
TACTATTATGTTC
Found at i:87383578 original size:18 final size:19
Alignment explanation
Indices: 87383554--87383626 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
87383544 ATTGCACATT
87383554 AAAAAATATATAAAAATAG
1 AAAAAATATATAAAAATAG
87383573 AAAAATATATATAAAAATTCAG
1 AAAAA-ATATATAAAAA-T-AG
* *
87383595 AATAAATATA-AAATATAG
1 AAAAAATATATAAAAATAG
87383613 AAAAAATATATAAA
1 AAAAAATATATAAA
87383627 TTTATAGAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 11 0.23
19 9 0.19
20 15 0.32
21 6 0.13
22 6 0.13
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (19 bp):
AAAAAATATATAAAAATAG
Found at i:87383636 original size:39 final size:41
Alignment explanation
Indices: 87383561--87383648 Score: 112
Period size: 39 Copynumber: 2.2 Consensus size: 41
87383551 ATTAAAAAAT
87383561 ATATAAAA-ATAGAAAAATATATATAAAAATTCAGAATA-A
1 ATATAAAATATAGAAAAATATATATAAAAATTCAGAATATA
* *
87383600 ATATAAAATATAGAAAAA-ATATAT-AAATTTATAGAATATA
1 ATATAAAATATAGAAAAATATATATAAAAATT-CAGAATATA
*
87383640 AGATAAAAT
1 ATATAAAAT
87383649 TTACAAAAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 5 0.12
39 20 0.47
40 18 0.42
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (41 bp):
ATATAAAATATAGAAAAATATATATAAAAATTCAGAATATA
Found at i:87385087 original size:7 final size:7
Alignment explanation
Indices: 87385071--87385104 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
87385061 CCAGTCCATC
*
87385071 GGCCTTA
1 GGCCTCA
87385078 GGCCTCA
1 GGCCTCA
87385085 GGCCTCA
1 GGCCTCA
87385092 GGCCTCA
1 GGCCTCA
87385099 GGCCTC
1 GGCCTC
87385105 TTAGCTAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.41, G:0.29, T:0.18
Consensus pattern (7 bp):
GGCCTCA
Found at i:87386365 original size:20 final size:23
Alignment explanation
Indices: 87386317--87386367 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
87386307 GATTGGATTA
87386317 ATTTATAATTTATTATATTAAATT
1 ATTTA-AATTTATTATATTAAATT
*
87386341 ATTTAAATTTA-TAT-TTAAGTT
1 ATTTAAATTTATTATATTAAATT
87386362 -TTTAAA
1 ATTTAAA
87386368 ATATTTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.23
21 6 0.23
22 3 0.12
23 6 0.23
24 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTAAATTTATTATATTAAATT
Found at i:87396603 original size:22 final size:22
Alignment explanation
Indices: 87396560--87396614 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
87396550 TTTAAAAGAT
87396560 TAAAAAAATTATTACTTTTTAAAA
1 TAAAAAAA-TATTA-TTTTTAAAA
**
87396584 TAAAAAAATATT-TTTATTAATT
1 TAAAAAAATATTATTT-TTAAAA
87396606 TAAAAAAAT
1 TAAAAAAAT
87396615 TAAGTGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 13 0.46
23 4 0.14
24 8 0.29
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAAAAAATATTATTTTTAAAA
Found at i:87399740 original size:50 final size:50
Alignment explanation
Indices: 87399650--87399745 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
87399640 CACCTTCCTT
*
87399650 TTTAATTCAATATCATCCATTCCCATGAAGACGCGAGCATCAATCAGTCA
1 TTTAATTCAATATCATCCATTCCCATGAAGACGAGAGCATCAATCAGTCA
* * * * *
87399700 TTTAATTCAATGTCATCCGTTCCCATGAAGATGAGGGCATCGATCA
1 TTTAATTCAATATCATCCATTCCCATGAAGACGAGAGCATCAATCA
87399746 AAGTTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (50 bp):
TTTAATTCAATATCATCCATTCCCATGAAGACGAGAGCATCAATCAGTCA
Found at i:87402829 original size:22 final size:22
Alignment explanation
Indices: 87402801--87402845 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
87402791 ACTGACATTG
87402801 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
87402823 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
87402845 T
1 T
87402846 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:87405669 original size:22 final size:22
Alignment explanation
Indices: 87405641--87405685 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
87405631 AGGGGGAGTG
87405641 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
87405663 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
87405685 T
1 T
87405686 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:87408224 original size:34 final size:34
Alignment explanation
Indices: 87408186--87408254 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
87408176 ATAACAAAGA
87408186 AAAAACTATCAAGGGAATTAAGGTTAAATAATGT
1 AAAAACTATCAAGGGAATTAAGGTTAAATAATGT
* *
87408220 AAAAATTATCAAGGGAATTAAGGTTAGATAATGT
1 AAAAACTATCAAGGGAATTAAGGTTAAATAATGT
87408254 A
1 A
87408255 CAGAAACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (34 bp):
AAAAACTATCAAGGGAATTAAGGTTAAATAATGT
Found at i:87418916 original size:13 final size:13
Alignment explanation
Indices: 87418894--87418929 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
87418884 CTACATGATC
87418894 AATT-TTATAATA
1 AATTATTATAATA
87418906 AATTATTATAATA
1 AATTATTATAATA
*
87418919 AATCATTATAA
1 AATTATTATAA
87418930 AATAGAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTATTATAATA
Found at i:87426724 original size:56 final size:55
Alignment explanation
Indices: 87426638--87426786 Score: 221
Period size: 56 Copynumber: 2.7 Consensus size: 55
87426628 GTTACGCAGG
87426638 AATCAAATTGCTAAAAGATAATATGCCATAATAATATC-CTATAATATCCTATTAGA
1 AATCAAATTGCTAAAAGATAATAT-CCATAATAATATCTC-ATAATATCCTATTAGA
* *
87426694 AATCAAATTGCTAATAA-ATAATATCTCATAACAATATCTCATAATATCCTATTAGG
1 AATCAAATTGCTAA-AAGATAATATC-CATAATAATATCTCATAATATCCTATTAGA
87426750 AATCAAATTGCTAAAAGATAATATCCCATAATAATAT
1 AATCAAATTGCTAAAAGATAATAT-CCATAATAATAT
87426787 TCTAACACCC
Statistics
Matches: 85, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
55 3 0.04
56 78 0.92
57 4 0.05
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (55 bp):
AATCAAATTGCTAAAAGATAATATCCATAATAATATCTCATAATATCCTATTAGA
Found at i:87426731 original size:13 final size:13
Alignment explanation
Indices: 87426713--87426737 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87426703 GCTAATAAAT
87426713 AATATCTCATAAC
1 AATATCTCATAAC
87426726 AATATCTCATAA
1 AATATCTCATAA
87426738 TATCCTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATCTCATAAC
Found at i:87433826 original size:14 final size:15
Alignment explanation
Indices: 87433807--87433835 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
87433797 TAAAAAAGGC
87433807 AAGATTAAAT-GAAA
1 AAGATTAAATCGAAA
87433821 AAGATTAAATCGAAA
1 AAGATTAAATCGAAA
87433836 CCATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.03, G:0.14, T:0.21
Consensus pattern (15 bp):
AAGATTAAATCGAAA
Found at i:87435595 original size:93 final size:93
Alignment explanation
Indices: 87435489--87435657 Score: 225
Period size: 93 Copynumber: 1.8 Consensus size: 93
87435479 CAACCCACTG
* * *
87435489 CAACTTCATGGGTATAG-GAATTGTAGCTTCAACTTGCTCCACTGCAA-TTTCAGGAAGATAAGA
1 CAACTTCAAGGGTATAGAG-ATTGTAGCTTCAACTTACTCCACTGCAACTTCCAGG-AGATAAGA
*
87435552 TTCGCTATTGTAGCTTCATTCAACCCCTTA
64 TTCGCTATGGTAGCTTCATTCAACCCCTTA
* * * * *
87435582 CAACTTCAAGGGTATAGAGTTTGTAGCTTTATCTTACTCCACTGTAACTTCCAGGATATAAGATT
1 CAACTTCAAGGGTATAGAGATTGTAGCTTCAACTTACTCCACTGCAACTTCCAGGAGATAAGATT
87435647 CGCTATGGTAG
66 CGCTATGGTAG
87435658 ATGTAACACC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
93 58 0.89
94 7 0.11
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (93 bp):
CAACTTCAAGGGTATAGAGATTGTAGCTTCAACTTACTCCACTGCAACTTCCAGGAGATAAGATT
CGCTATGGTAGCTTCATTCAACCCCTTA
Found at i:87437028 original size:47 final size:47
Alignment explanation
Indices: 87436965--87437682 Score: 1175
Period size: 47 Copynumber: 15.3 Consensus size: 47
87436955 CCCTTCGGGA
* *
87436965 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
87437012 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
87437059 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
87437106 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
87437153 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
87437200 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
87437247 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
87437294 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
87437341 CTTATCTCATATATACACTTTTACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
87437388 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
87437435 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
87437482 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
87437529 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
87437576 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
87437623 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
87437670 CTTATCACATATA
1 CTTATCACATATA
87437683 CATATCTTGT
Statistics
Matches: 625, Mismatches: 46, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 625 1.00
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:87437444 original size:22 final size:22
Alignment explanation
Indices: 87437369--87437444 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
87437359 TTTTACATTC
*
87437369 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGACCTT
** * *
87437391 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGACCTT
87437415 CATCACATTGGCCATTCGACCTT
1 -ATCACATTGGCCATTCGACCTT
87437438 ATCACAT
1 ATCACAT
87437445 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 18 0.45
23 6 0.15
24 5 0.12
25 11 0.28
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGACCTT
Found at i:87437538 original size:22 final size:22
Alignment explanation
Indices: 87437510--87437585 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
87437500 TTTCACATTC
87437510 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
87437532 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
87437556 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
87437579 ATCACAT
1 ATCACAT
87437586 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:87440204 original size:44 final size:44
Alignment explanation
Indices: 87440149--87440254 Score: 151
Period size: 44 Copynumber: 2.4 Consensus size: 44
87440139 TCAATCCGAC
* *
87440149 CCACTGTAACTTCAGGGGTATAGGATTTGTAGCTTCAATC-TGAT
1 CCACTGTAACTTCAGGGATATAGGAATTGTAGCTTC-ATCTTGAT
* * *
87440193 TCACTGCAACTTCAGGGATATAGGAATTGTAGCTTCATCTTGCT
1 CCACTGTAACTTCAGGGATATAGGAATTGTAGCTTCATCTTGAT
87440237 CCACTGTAACTTCAGGGA
1 CCACTGTAACTTCAGGGA
87440255 GATAAGATTC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 3 0.06
44 51 0.94
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (44 bp):
CCACTGTAACTTCAGGGATATAGGAATTGTAGCTTCATCTTGAT
Found at i:87440546 original size:138 final size:137
Alignment explanation
Indices: 87440133--87440590 Score: 426
Period size: 138 Copynumber: 3.3 Consensus size: 137
87440123 GGATGTCACA
* * * * *
87440133 GTAGATTCAATCCGACCCACTGTAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGA-TTCAC
1 GTAGATTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTAATCT-ACTCCAT
* * * * * * *
87440197 TGCAACTTCAGGGATATAGGAATTGTAGCTTCATCTTGCTCCACTGTAACTTCAGGGAGATAAGA
65 TGCAACTTCAGGGGTACAAGATTTGTAGCTTCATCTTGTTCCACTG-CACTTTAGGGAGATAAGA
* *
87440262 TTCGCCACT-
129 TTTGCTA-TG
* * * * * *
87440271 GCAGTTTCAAT-CAACCCACTGGAACTTCAGGGGTATAGAATTTGTAGC-TTCATCTTGCTCCAT
1 GTAGATTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTAATC-TACTCCAT
* * * * * *
87440334 TACAACTTTAAGGGTACAAAATTTGTAGCTTCATCTTGTTCCACTGCAATTTCAGGGATATAAGA
65 TGCAACTTCAGGGGTACAAGATTTGTAGCTTCATCTTGTTCCACTGCACTTT-AGGGAGATAAGA
*
87440399 -TTCCTTATG
129 TTTGC-TATG
* ** *
87440408 GTAGATTCAATCCAACCCACTGCAACATCAATGGTATAGGATTTTTAGCTTTAATCTACTCCATT
1 GTAGATTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTAATCTACTCCATT
* * * *
87440473 GCAACTTCAGGGGTGCAAGATTTGTAGATTAAATC-TGTTCCACTGCAGCTTTAAGGAGATAAGA
66 GCAACTTCAGGGGTACAAGATTTGTAGCTT-CATCTTGTTCCACTGCA-CTTTAGGGAGATAAGA
87440537 TTTGCTATG
129 TTTGCTATG
* * * * *
87440546 GT-GATTTCAATCTAGCCCACTACAACTTTAGGGGTATGGGATTTG
1 GTAGA-TTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTG
87440591 CGGTGTCACT
Statistics
Matches: 253, Mismatches: 56, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
136 10 0.04
137 98 0.39
138 131 0.52
139 14 0.06
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (137 bp):
GTAGATTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTAATCTACTCCATT
GCAACTTCAGGGGTACAAGATTTGTAGCTTCATCTTGTTCCACTGCACTTTAGGGAGATAAGATT
TGCTATG
Found at i:87441165 original size:37 final size:37
Alignment explanation
Indices: 87441115--87441188 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
87441105 TTAGGAGCAA
*
87441115 AGCTCGAAATGAAAAGATTAATCACAATATCAAACAT
1 AGCTCGAAATGAAAAGATTAATCACAATACCAAACAT
87441152 AGCTCGAAATGAAAAGATTAATCACAATACCAAACAT
1 AGCTCGAAATGAAAAGATTAATCACAATACCAAACAT
87441189 TGTTAAAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.51, C:0.18, G:0.11, T:0.20
Consensus pattern (37 bp):
AGCTCGAAATGAAAAGATTAATCACAATACCAAACAT
Found at i:87442790 original size:41 final size:41
Alignment explanation
Indices: 87442635--87442780 Score: 233
Period size: 41 Copynumber: 3.6 Consensus size: 41
87442625 TGATTCAGTA
87442635 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
87442676 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* * *
87442717 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTGCT-T
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATG-TAT
87442758 CACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
87442781 GTAACGTCTG
Statistics
Matches: 100, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
40 2 0.02
41 97 0.97
42 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:87459956 original size:16 final size:15
Alignment explanation
Indices: 87459935--87459982 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
87459925 GATGTGAATA
87459935 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
87459951 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
87459966 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
87459982 A
1 A
87459983 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:87459958 original size:24 final size:24
Alignment explanation
Indices: 87459931--87459986 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
87459921 TAATGATGTG
*
87459931 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
87459955 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
87459979 AATAATAA
1 AATAATAA
87459987 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:87459965 original size:8 final size:8
Alignment explanation
Indices: 87459931--87459982 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
87459921 TAATGATGTG
*
87459931 AATAATAA
1 AATATTAA
87459939 AATATATAA
1 AATAT-TAA
87459948 AATA-TAA
1 AATATTAA
87459955 AATATTAA
1 AATATTAA
*
87459963 AATATCAA
1 AATATTAA
*
87459971 AATATTAG
1 AATATTAA
87459979 AATA
1 AATA
87459983 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Done.