Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 112 of 322
Found at i:36461832 original size:40 final size:40
Alignment explanation
Indices: 36461629--36461832 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
36461619 CGGAATTTAA
** *
36461629 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36461669 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
36461709 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36461748 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
36461788 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
36461828 CCGGA
1 CCGGA
36461833 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36463718 original size:46 final size:44
Alignment explanation
Indices: 36463624--36463792 Score: 128
Period size: 46 Copynumber: 3.7 Consensus size: 44
36463614 ATATCTATGT
*
36463624 CGATGCCATGTCCCAGACATGGTCTCACACTGGCACATCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTCACACTAGCACATCTCGTAGC
*
36463670 CGATGCATGTCCCAGACATGTACT-ACACTAGCTTACGTCTCG-AGGC
1 CGATGCATGTCCCAGACATGT-CTCACACTAGC--ACATCTCGTA-GC
* * ** * *
36463716 CGAAGCATGTCTCAGACATGTCTTTCACTAGTGCTCATCTC-AATGC
1 CGATGCATGTCCCAGACATGTCTCACACTA--GCACATCTCGTA-GC
* *
36463762 TGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATG-CATGTCCCAGACAT-GTCTCACACT
36463793 GGCTCTCATA
Statistics
Matches: 101, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
44 9 0.09
45 19 0.19
46 49 0.49
47 13 0.13
48 11 0.11
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTCACACTAGCACATCTCGTAGC
Found at i:36475912 original size:25 final size:25
Alignment explanation
Indices: 36475884--36475932 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
36475874 TACAGTCTAT
*
36475884 CTATAGTAGTCTT-AGTATATACTAC
1 CTATAGTAAT-TTCAGTATATACTAC
36475909 CTATAGTAATTTCAGTATATACTA
1 CTATAGTAATTTCAGTATATACTA
36475933 TCAAAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (25 bp):
CTATAGTAATTTCAGTATATACTAC
Found at i:36477959 original size:31 final size:31
Alignment explanation
Indices: 36477924--36477997 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
36477914 TGGAAGGAGA
36477924 AGAAAGAAATGCTAGATTATTTTTCCAGCAG
1 AGAAAGAAATGCTAGATTATTTTTCCAGCAG
36477955 AGAAAGAAATGCTAGATTATTTTTCCAGCAG
1 AGAAAGAAATGCTAGATTATTTTTCCAGCAG
*
36477986 AGAGAAAAAATG
1 AGA-AAGAAATG
36477998 AATTTTGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 34 0.83
32 7 0.17
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (31 bp):
AGAAAGAAATGCTAGATTATTTTTCCAGCAG
Found at i:36478762 original size:19 final size:20
Alignment explanation
Indices: 36478705--36478770 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
36478695 ATATGCCTCT
*
36478705 ATTTGTACTTCGGCACCCCTG
1 ATTTGTACTT-GGTACCCCTG
** *
36478726 ATTTACACATGCGTACCCCTG
1 ATTTGTACTTG-GTACCCCTG
36478747 -TTTGTACTTGGTACCCCTG
1 ATTTGTACTTGGTACCCCTG
36478766 ATTTG
1 ATTTG
36478771 CACAAATGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 9 0.25
20 12 0.33
21 15 0.42
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTTGTACTTGGTACCCCTG
Found at i:36478789 original size:40 final size:40
Alignment explanation
Indices: 36478706--36478935 Score: 169
Period size: 41 Copynumber: 5.7 Consensus size: 40
36478696 TATGCCTCTA
* * * ** * *
36478706 TTTGTACTTCGGCACCCCTGATTTACACATGCGTACCCCTG
1 TTTGTACTTCGGTACCCCTGAATTGCACAAACGT-GCCTTG
* *
36478747 TTTGTACTT-GGTACCCCTGATTTGCACAAATGTGCCATTG
1 TTTGTACTTCGGTACCCCTGAATTGCACAAACGTGCC-TTG
* ** *
36478787 TTTATACTTTAGTACCCCTGAATTGCACAAACGTGCCCCTG
1 TTTGTACTTCGGTACCCCTGAATTGCACAAACGTG-CCTTG
* * * * *
36478828 TTTGTACTTCGATACCCTTGACTTGCATATACGTGCCTTG
1 TTTGTACTTCGGTACCCCTGAATTGCACAAACGTGCCTTG
* * * *
36478868 TTTGTACTTCGGTA-CCTTGGTATTAG-ACAAACATACCCTTG
1 TTTGTACTTCGGTACCCCT-GAATT-GCACAAACGT-GCCTTG
* *
36478909 TTTGTACTTCGGTACCCTTGACTTGCA
1 TTTGTACTTCGGTACCCCTGAATTGCA
36478936 TATACATGCC
Statistics
Matches: 151, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
39 6 0.04
40 55 0.36
41 84 0.56
42 6 0.04
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (40 bp):
TTTGTACTTCGGTACCCCTGAATTGCACAAACGTGCCTTG
Found at i:36478869 original size:81 final size:82
Alignment explanation
Indices: 36478739--36478945 Score: 233
Period size: 81 Copynumber: 2.5 Consensus size: 82
36478729 TACACATGCG
* * * * * *
36478739 TACCCCTGTTTGTACTT-GGTACCCCTGATTTGCACAAATGTGCCATTGTTTATACTTTAGTACC
1 TACCCCTGTTTGTACTTCGGTACCCTTGACTTGCATATACGTGCCATTGTTTATACTTCAGTA-C
*
36478803 CCT-GAATT-GCACAAACG
65 CCTGGAATTAG-ACAAACA
* * * *
36478820 TGCCCCTGTTTGTACTTCGATACCCTTGACTTGCATATACGTGCC-TTGTTTGTACTTCGGTACC
1 TACCCCTGTTTGTACTTCGGTACCCTTGACTTGCATATACGTGCCATTGTTTATACTTCAGTACC
* *
36478884 TTGGTATTAGACAAACA
66 CTGGAATTAGACAAACA
* *
36478901 TACCCTTGTTTGTACTTCGGTACCCTTGACTTGCATATACATGCC
1 TACCCCTGTTTGTACTTCGGTACCCTTGACTTGCATATACGTGCC
36478946 CTCTTTGTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 3 0.03
81 81 0.76
82 22 0.21
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (82 bp):
TACCCCTGTTTGTACTTCGGTACCCTTGACTTGCATATACGTGCCATTGTTTATACTTCAGTACC
CTGGAATTAGACAAACA
Found at i:36478964 original size:40 final size:40
Alignment explanation
Indices: 36478742--36478964 Score: 150
Period size: 41 Copynumber: 5.5 Consensus size: 40
36478732 ACATGCGTAC
* * * * **
36478742 CCCTGTTTGTACTT-GGTACCCCTGATTTGCACAAATGTG
1 CCCTGTTTGTACTTCGGTACCCTTGACTTGCATATACATG
* * ** * * * * *
36478781 CCATTGTTTATACTTTAGTACCCCTGAATTGCACAAACGTG
1 CC-CTGTTTGTACTTCGGTACCCTTGACTTGCATATACATG
* *
36478822 CCCCTGTTTGTACTTCGATACCCTTGACTTGCATATACGTG
1 -CCCTGTTTGTACTTCGGTACCCTTGACTTGCATATACATG
* *
36478863 CCTTGTTTGTACTTCGGTA-CCTTGGTA-TTAGACA-A-ACATA
1 CCCTGTTTGTACTTCGGTACCCTT-G-ACTT-G-CATATACATG
36478903 CCCTTGTTTGTACTTCGGTACCCTTGACTTGCATATACATG
1 CCC-TGTTTGTACTTCGGTACCCTTGACTTGCATATACATG
* * *
36478944 CCCTCTTTGTATTTCAGTACC
1 CCCTGTTTGTACTTCGGTACC
36478965 TCTTAATGCA
Statistics
Matches: 149, Mismatches: 23, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
39 8 0.05
40 53 0.36
41 80 0.54
42 8 0.05
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (40 bp):
CCCTGTTTGTACTTCGGTACCCTTGACTTGCATATACATG
Found at i:36487807 original size:138 final size:138
Alignment explanation
Indices: 36487556--36488114 Score: 832
Period size: 138 Copynumber: 4.1 Consensus size: 138
36487546 AAGAACATAG
**
36487556 ATATAATTAATATATGAATTTGAACCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * *
36487621 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGAAATGAAAATTAGTATTTTTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAAATGAAAATTAATATTCTTT
*
36487686 TAAAAAGA
131 TGAAAAGA
* *
36487694 ATATAATTAATATATGAATTTGATTCACACAAAATATTAATTGTATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * * * * *
36487759 AATGTAGACAGTTATACTAATTAATTCCGGTTAAAATATAAAATAAATGAAAATTAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAAATGAAAATTAATATTCTTT
36487824 TGAAAAGA
131 TGAAAAGA
* *
36487832 ATATAATCAATATATGAATTTGATTCATACAAAATATTATTTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* *
36487897 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAA-TAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAAATGAAAATTAATATTCTTT
* *
36487961 TGAACATA
131 TGAAAAGA
* * *
36487969 ATATAATTAATATATGATTTTGATTCATACAAAATATTACTTGTATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * * * * * *
36488034 TATATAAATAGATATATTAATTAATTTCGGTTAAAATATAAAAGATACGAAAATTAATATTATTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAAATGAAAATTAATATTCTTT
*
36488099 TGGAAAGA
131 TGAAAAGA
36488107 ATATAATT
1 ATATAATT
36488115 CATTTTTCTA
Statistics
Matches: 377, Mismatches: 43, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
137 124 0.33
138 253 0.67
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAAATGAAAATTAATATTCTTT
TGAAAAGA
Found at i:36488112 original size:275 final size:276
Alignment explanation
Indices: 36487556--36488113 Score: 866
Period size: 275 Copynumber: 2.0 Consensus size: 276
36487546 AAGAACATAG
*
36487556 ATATAATTAATATATGAATTTGAACCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATCAATATATGAATTTGAACCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * *
36487621 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGAAATGAAAATTAGTATTTTTT
66 AATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGAAAATTAATATTCTTT
36487686 TAAAAAGAATATAATTAATATATGAATTTGATTCACACAAAATATTAATTGTATATATTTTACTG
131 TAAAAAGAATATAATTAATATATGAATTTGATTCACACAAAATATTAATTGTATATATTTTACTG
* * * * *
36487751 AATTTATTAATGTAGACAGTTATACTAATTAATTCCGGTTAAAATATAAAATAAATGAAAATTAA
196 AATTTATTAATATAAACAGATATACTAATTAATTCCGGTTAAAATATAAAAGAAACGAAAATTAA
*
36487816 TATTCTTTTGAAAAGA
261 TATTATTTTGAAAAGA
** *
36487832 ATATAATCAATATATGAATTTGATTCATACAAAATATTATTTGTATATATTTTACCGAATTTATT
1 ATATAATCAATATATGAATTTGAACCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* *
36487897 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAA-TAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGAAAATTAATATTCTTT
* * * * * *
36487961 TGAACATAATATAATTAATATATGATTTTGATTCATACAAAATATTACTTGTATATATTTTACTG
131 TAAAAAGAATATAATTAATATATGAATTTGATTCACACAAAATATTAATTGTATATATTTTACTG
* * * * *
36488026 AATTTATTTATATAAATAGATATATTAATTAATTTCGGTTAAAATATAAAAGATACGAAAATTAA
196 AATTTATTAATATAAACAGATATACTAATTAATTCCGGTTAAAATATAAAAGAAACGAAAATTAA
*
36488091 TATTATTTTGGAAAGA
261 TATTATTTTGAAAAGA
36488107 ATATAAT
1 ATATAAT
36488114 TCATTTTTCT
Statistics
Matches: 255, Mismatches: 27, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
275 144 0.56
276 111 0.44
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.41
Consensus pattern (276 bp):
ATATAATCAATATATGAATTTGAACCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGAAAATTAATATTCTTT
TAAAAAGAATATAATTAATATATGAATTTGATTCACACAAAATATTAATTGTATATATTTTACTG
AATTTATTAATATAAACAGATATACTAATTAATTCCGGTTAAAATATAAAAGAAACGAAAATTAA
TATTATTTTGAAAAGA
Found at i:36488631 original size:33 final size:33
Alignment explanation
Indices: 36488589--36488655 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
36488579 ATTCTAAGTC
36488589 TAGAGTTTTATCAGAGTTATCTTAGTCTTATTT
1 TAGAGTTTTATCAGAGTTATCTTAGTCTTATTT
36488622 TAGAGTTTTATCAGAGTTATCTTAGTCTTATTT
1 TAGAGTTTTATCAGAGTTATCTTAGTCTTATTT
36488655 T
1 T
36488656 CAAAAGTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (33 bp):
TAGAGTTTTATCAGAGTTATCTTAGTCTTATTT
Found at i:36489403 original size:25 final size:24
Alignment explanation
Indices: 36489375--36489436 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
36489365 TGCAACAAAA
*
36489375 AGATACAG-ATACATATGCAAATTTC
1 AGATACAGAAT-CAAATGC-AATTTC
36489400 AGATACAGAATCAAATGCAATTTC
1 AGATACAGAATCAAATGCAATTTC
* *
36489424 AAATACAAAATCA
1 AGATACAGAATCA
36489437 GGTCCTACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.52
25 14 0.42
26 2 0.06
ACGTcount: A:0.50, C:0.16, G:0.10, T:0.24
Consensus pattern (24 bp):
AGATACAGAATCAAATGCAATTTC
Found at i:36491698 original size:18 final size:18
Alignment explanation
Indices: 36491677--36491724 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
36491667 TTCTCTTTAG
36491677 TCTCAGCTTCCTCTTCGT
1 TCTCAGCTTCCTCTTCGT
* *
36491695 TCTCAGTTTCCTCTTTGT
1 TCTCAGCTTCCTCTTCGT
36491713 TCTCAGCTTCCT
1 TCTCAGCTTCCT
36491725 TTTAGTTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.06, C:0.35, G:0.10, T:0.48
Consensus pattern (18 bp):
TCTCAGCTTCCTCTTCGT
Found at i:36494136 original size:20 final size:20
Alignment explanation
Indices: 36494113--36494157 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
36494103 AAAAAGAAAT
36494113 TAGAAATTATAAAA-TATAAA
1 TAGAAATTA-AAAATTATAAA
*
36494133 TAGATATTAAAAATTATAAA
1 TAGAAATTAAAAATTATAAA
*
36494153 AAGAA
1 TAGAA
36494158 TCAAATATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (20 bp):
TAGAAATTAAAAATTATAAA
Found at i:36494223 original size:16 final size:16
Alignment explanation
Indices: 36494185--36494215 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36494175 TCAAAAAAAT
36494185 TATAAATCAACATTAA
1 TATAAATCAACATTAA
*
36494201 TAAAAATCAACATTA
1 TATAAATCAACATTA
36494216 GAATAAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (16 bp):
TATAAATCAACATTAA
Found at i:36495538 original size:42 final size:41
Alignment explanation
Indices: 36495501--36495581 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 41
36495491 ATTTTACGGC
*
36495501 GTTTGTCTACACAAACACCGCTAAAGAACATGATTTTAACAAG
1 GTTT-TCTACAAAAACACCGCTAAAGAACATGATTTT-ACAAG
* * *
36495544 GTTTTTTCCAAAAACTCCGCTAAAGAACATGACTTTTA
1 GTTTTCTACAAAAACACCGCTAAAGAACATGA-TTTTA
36495582 ACGACACTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 25 0.76
43 8 0.24
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (41 bp):
GTTTTCTACAAAAACACCGCTAAAGAACATGATTTTACAAG
Found at i:36495593 original size:42 final size:42
Alignment explanation
Indices: 36495513--36495594 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
36495503 TTGTCTACAC
***
36495513 AAACACCGCTAAAGAACATGATTTTAACAAGGTTTTTTCCAA
1 AAACACCGCTAAAGAACATGATTTTAACAAGCACTTTTCCAA
* *
36495555 AAACTCCGCTAAAGAACATGACTTTTAACGA-CACTTTTCC
1 AAACACCGCTAAAGAACATGA-TTTTAACAAGCACTTTTCC
36495595 CACAAACGCC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 26 0.76
43 8 0.24
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (42 bp):
AAACACCGCTAAAGAACATGATTTTAACAAGCACTTTTCCAA
Found at i:36499932 original size:26 final size:26
Alignment explanation
Indices: 36499895--36499944 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
36499885 CGTTTTTCAC
36499895 AAACGCCACTAAAAGCCATGACTTAA
1 AAACGCCACTAAAAGCCATGACTTAA
*
36499921 AAACGCCGCTAAAAGCCATGACTT
1 AAACGCCACTAAAAGCCATGACTT
36499945 TTAGTGGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.16
Consensus pattern (26 bp):
AAACGCCACTAAAAGCCATGACTTAA
Found at i:36500083 original size:31 final size:31
Alignment explanation
Indices: 36500025--36500083 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
36500015 AACCCTTCCT
* *
36500025 GCATTAAATCCAACCAAAAATAACAAATATA
1 GCATGAAATCCAACCAAAAACAACAAATATA
*
36500056 GCATGAAATCCAACCAAAAACAGCAAAT
1 GCATGAAATCCAACCAAAAACAACAAAT
36500084 GTAACATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.56, C:0.22, G:0.07, T:0.15
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAACAAATATA
Found at i:36500809 original size:13 final size:14
Alignment explanation
Indices: 36500783--36500811 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
36500773 ACTAATGACG
36500783 AATTAAACCATTAT
1 AATTAAACCATTAT
36500797 AATTAAA-CATTAT
1 AATTAAACCATTAT
36500810 AA
1 AA
36500812 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:36508006 original size:6 final size:6
Alignment explanation
Indices: 36507995--36508020 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36507985 GTGGGAAGAG
36507995 GCAGAC GCAGAC GCAGAC GCAGAC GC
1 GCAGAC GCAGAC GCAGAC GCAGAC GC
36508021 GGTTAGGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.35, G:0.35, T:0.00
Consensus pattern (6 bp):
GCAGAC
Found at i:36508947 original size:153 final size:156
Alignment explanation
Indices: 36508659--36508963 Score: 420
Period size: 153 Copynumber: 2.0 Consensus size: 156
36508649 CTAAAACTCA
* * * * *
36508659 ATCTATTGCGGTGTTTTTTTGAGGAAGCGCCGGTAATGCCACTGAAGCTCAAAATATACGACGTC
1 ATCTATTGCAGTGTTTTTTTGAGGAAGCGCCGCTAATGCCACTGAAGCTAAAAAAAAACGACGTC
* * ** *
36508724 GTTCTGTTTAATATTTTAGCGGTGTTTTTAAAAAAGCGCGGCTAGAGATCGACCTATAGCGGCGC
66 GTTCTCTTTAATACTTTAGCGGCCTTTTTAAAAAAGCGCCGCTAGAGATCGACCTATAGCGGCGC
36508789 TTTCTTAAAAACGCCGCTAATGTTGG
131 TTTCTTAAAAACGCCGCTAATGTTGG
*
36508815 ATCTATTGCAGTG-TTTTTTG-GGAAGCGCCGCTAATGCCACTGAAGC-AAAAAAAAACGATGTC
1 ATCTATTGCAGTGTTTTTTTGAGGAAGCGCCGCTAATGCCACTGAAGCTAAAAAAAAACGACGTC
* * * * *
36508877 GTTCTCTTTAATCCTTTAGCGGCCCTTTTTTAAAAA-CGCCGCTATAGGTCGATCTATAGCGGCG
66 GTTCTCTTTAATACTTTAGCGG-CCTTTTTAAAAAAGCGCCGCTAGAGATCGACCTATAGCGGCG
*
36508941 CTTTCTTAAAAACGCTGCTAATG
130 CTTTCTTAAAAACGCCGCTAATG
36508964 CTCGATTTTT
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
153 77 0.59
154 35 0.27
155 7 0.05
156 12 0.09
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (156 bp):
ATCTATTGCAGTGTTTTTTTGAGGAAGCGCCGCTAATGCCACTGAAGCTAAAAAAAAACGACGTC
GTTCTCTTTAATACTTTAGCGGCCTTTTTAAAAAAGCGCCGCTAGAGATCGACCTATAGCGGCGC
TTTCTTAAAAACGCCGCTAATGTTGG
Found at i:36508969 original size:40 final size:40
Alignment explanation
Indices: 36508893--36508980 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
36508883 TTTAATCCTT
* * *
36508893 TAGCGGCCCTTTTTTAAAAACGCCGCTATAGGTCGATCTA
1 TAGCGGCGCTTTCTTAAAAACGCCGCTATAGCTCGATCTA
* * *
36508933 TAGCGGCGCTTTCTTAAAAACGCTGCTA-ATGCTCGATTTT
1 TAGCGGCGCTTTCTTAAAAACGCCGCTATA-GCTCGATCTA
36508973 TAGCGGCG
1 TAGCGGCG
36508981 TTTTTCAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (40 bp):
TAGCGGCGCTTTCTTAAAAACGCCGCTATAGCTCGATCTA
Found at i:36508985 original size:153 final size:155
Alignment explanation
Indices: 36508621--36508969 Score: 402
Period size: 153 Copynumber: 2.3 Consensus size: 155
36508611 TAGTTTAGAT
* ** * * *
36508621 CTATAGCGGCG-TTT-TTCAAAAAGCGTCGCTAAAACTCAATCTATTGCGGTGTTTTTTTGAGGA
1 CTATAGCGGCGCTTTCTT-AAAAA-CGCCGCTAATGCTCGATCTATTGCAGCG-TTTTTTGAGGA
* * * * * * **
36508684 AGCGCCGGTAATGCCACTGAAGCTCAAAATATACGACGTCGTTCTGTTTAATATTTTAGCGGTGT
63 AGCGCCGCTAATGCCACTGAAGCTAAAAAAAAACGACGTCGTTCTCTTTAATACTTTAGCGGCCT
*
36508749 TTTTAAAAAAGCGCGGCTAGAGATCGAC
128 TTTTAAAAAAGCGCCGCTAGAGATCGAC
* * *
36508777 CTATAGCGGCGCTTTCTTAAAAACGCCGCTAATGTTGGATCTATTGCAGTGTTTTTTG-GGAAGC
1 CTATAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCGATCTATTGCAGCGTTTTTTGAGGAAGC
* *
36508841 GCCGCTAATGCCACTGAAGC-AAAAAAAAACGATGTCGTTCTCTTTAATCCTTTAGCGGCCCTTT
66 GCCGCTAATGCCACTGAAGCTAAAAAAAAACGACGTCGTTCTCTTTAATACTTTAGCGG-CCTTT
* * * *
36508905 TTTAAAAA-CGCCGCTATAGGTCGAT
130 TTAAAAAAGCGCCGCTAGAGATCGAC
*
36508930 CTATAGCGGCGCTTTCTTAAAAACGCTGCTAATGCTCGAT
1 CTATAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCGAT
36508970 TTTTAGCGGC
Statistics
Matches: 165, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
153 81 0.49
154 35 0.21
155 7 0.04
156 32 0.19
157 8 0.05
158 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (155 bp):
CTATAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCGATCTATTGCAGCGTTTTTTGAGGAAGC
GCCGCTAATGCCACTGAAGCTAAAAAAAAACGACGTCGTTCTCTTTAATACTTTAGCGGCCTTTT
TAAAAAAGCGCCGCTAGAGATCGAC
Found at i:36509548 original size:41 final size:41
Alignment explanation
Indices: 36509472--36509655 Score: 217
Period size: 41 Copynumber: 4.5 Consensus size: 41
36509462 TCCAAATGCG
* *
36509472 CTATAACCCTAACCTTTTGTGGCGTTTATGAAAAAAATGTCA
1 CTATAGCCTTAACCTTTTGTGGCGTTTATG-AAAAAATGTCA
* * * *
36509514 TTATAACCTTAACATTTTGTGGTGTTTATGAAAAAATGTCA
1 CTATAGCCTTAACCTTTTGTGGCGTTTATGAAAAAATGTCA
* * * *
36509555 CTATAGCCCTAACATTTTGTGGCGTTTAT-AAAAAATCATCG
1 CTATAGCCTTAACCTTTTGTGGCGTTTATGAAAAAAT-GTCA
* * * *
36509596 CTATAGCCTTAACCTTTTGCGGCATTTATGAAAAAATGCCT
1 CTATAGCCTTAACCTTTTGTGGCGTTTATGAAAAAATGTCA
36509637 CTATAGCCTTAACCTTTTG
1 CTATAGCCTTAACCTTTTG
36509656 CAGCGTTCTT
Statistics
Matches: 123, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
40 7 0.06
41 83 0.67
42 33 0.27
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (41 bp):
CTATAGCCTTAACCTTTTGTGGCGTTTATGAAAAAATGTCA
Found at i:36510183 original size:24 final size:24
Alignment explanation
Indices: 36510155--36510200 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
36510145 TTTCTAAAAG
* *
36510155 ATTTAGTATTTATTAATATAATAT
1 ATTTAGCATTTATTAACATAATAT
36510179 ATTTAGCATTTATTAACATAAT
1 ATTTAGCATTTATTAACATAAT
36510201 TTCTTTGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:36515983 original size:17 final size:18
Alignment explanation
Indices: 36515957--36515993 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
36515947 CAATTTGGGT
36515957 CATGTAGG-CCACACGAG
1 CATGTAGGCCCACACGAG
*
36515974 CATGTGGGCCCACACGAG
1 CATGTAGGCCCACACGAG
36515992 CA
1 CA
36515994 GACAACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.27, C:0.32, G:0.30, T:0.11
Consensus pattern (18 bp):
CATGTAGGCCCACACGAG
Found at i:36518016 original size:55 final size:54
Alignment explanation
Indices: 36517922--36518027 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 54
36517912 TGTAAGACAT
* *
36517922 TTTCCATCTCCTCTTCATCCAGGTAAAACTTTTTTTTCTTCCATTCTTCAACTA
1 TTTCCATCTCCTCTTCATCCAGGTAAAACTTCTTCTTCTTCCATTCTTCAACTA
* ** *
36517976 TTTCCATCTCCTTCTTCATCCATGTAAGTCTTCTTCTTCTTCCGTTCTTCAA
1 TTTCCATCTCC-TCTTCATCCAGGTAAAACTTCTTCTTCTTCCATTCTTCAA
36518028 ATCTCTTCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
54 11 0.24
55 34 0.76
ACGTcount: A:0.17, C:0.31, G:0.05, T:0.47
Consensus pattern (54 bp):
TTTCCATCTCCTCTTCATCCAGGTAAAACTTCTTCTTCTTCCATTCTTCAACTA
Found at i:36522130 original size:42 final size:36
Alignment explanation
Indices: 36522044--36522117 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
36522034 ATAACCTCTT
*
36522044 TTAAAATATAAATTTATTAATATATGTAAAAACAAC
1 TTAAAATATAAATTTATTAATATATGTAAAAAAAAC
36522080 TTAAAATATAAATTTATTAATATATGTAAAAAAAAC
1 TTAAAATATAAATTTATTAATATATGTAAAAAAAAC
36522116 TT
1 TT
36522118 TTCCAGAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (36 bp):
TTAAAATATAAATTTATTAATATATGTAAAAAAAAC
Found at i:36522190 original size:33 final size:32
Alignment explanation
Indices: 36522120--36522192 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 32
36522110 AAAAACTTTT
*
36522120 CCAGAAAATATTTTCAGAAAATCTGCCAAACA
1 CCAGAAAATATTTTCACAAAATCTGCCAAACA
* * *
36522152 ACAGAAAATATTTTACACAGATTCAT-CCAAACA
1 CCAGAAAATATTTT-CACAAAATC-TGCCAAACA
36522185 CCAGAAAA
1 CCAGAAAA
36522193 GTAAATCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 13 0.38
33 20 0.59
34 1 0.03
ACGTcount: A:0.49, C:0.22, G:0.08, T:0.21
Consensus pattern (32 bp):
CCAGAAAATATTTTCACAAAATCTGCCAAACA
Found at i:36523770 original size:46 final size:43
Alignment explanation
Indices: 36523629--36523762 Score: 119
Period size: 47 Copynumber: 2.9 Consensus size: 43
36523619 CGCCCCTAAA
36523629 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT-AG
* * * * *
36523676 CGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATTAG
36523722 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
36523763 CCTAGTGACA
Statistics
Matches: 72, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 28 0.39
47 29 0.40
49 4 0.06
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATTAG
Found at i:36529044 original size:27 final size:27
Alignment explanation
Indices: 36529014--36529191 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
36529004 ATATTGAGCC
* *
36529014 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36529041 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
36529068 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** *
36529096 CGCACACTTAGTGCCGCATAATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
36529123 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
36529150 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
36529177 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36529192 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36529153 original size:82 final size:81
Alignment explanation
Indices: 36529013--36529190 Score: 241
Period size: 82 Copynumber: 2.2 Consensus size: 81
36529003 TATATTGAGC
* *** *
36529013 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CCGCACACTTAGTGCCGCATAATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
36529078 GTGCTACATAGTCAAA
66 GTGCAACATAGTCAAA
* * **
36529094 CTCGCACACTTAGTGCCGCATAATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACT
1 C-CGCACACTTAGTGCCGCATAATCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACT
36529158 TAGTGCAACATAGTCAAA
64 TAGTGCAACATAGTCAAA
36529176 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
36529191 TGTACAATTT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
81 16 0.19
82 69 0.81
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (81 bp):
CCGCACACTTAGTGCCGCATAATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAA
Found at i:36534646 original size:46 final size:46
Alignment explanation
Indices: 36534579--36534751 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
36534569 AACCTGCCCC
* * *
36534579 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* * * * * * *
36534625 TAAGTGAACTCGGACTCAACTCAATGAGTTCAGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA
* * *
36534671 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* *
36534718 TAAGTGAACTCGGACTCAACTCAAAGATTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36534752 TGCTCAACCA
Statistics
Matches: 98, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
45 2 0.02
46 62 0.63
47 32 0.33
48 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:36534754 original size:93 final size:93
Alignment explanation
Indices: 36534584--36534754 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
36534574 GCCCCTAAGT
* *
36534584 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
36534649 TGAGTTCAGATGCCTAGTTACATTTCAC
66 AGAGTTCAGATGCCTAGTTACATTTCAC
* *
36534677 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
36534742 AGATTTCGGATGC
66 AGAGTTCAGATGC
36534755 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
AGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:36535206 original size:30 final size:30
Alignment explanation
Indices: 36535172--36535231 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
36535162 ATTTAATACG
36535172 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
36535202 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
36535232 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:36537633 original size:19 final size:19
Alignment explanation
Indices: 36537611--36537665 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
36537601 AGTAATTTTT
36537611 ATTTAATATTTTTTGAATA
1 ATTTAATATTTTTTGAATA
* *
36537630 ATTTGATATTTTAT-AA-A
1 ATTTAATATTTTTTGAATA
*
36537647 ATTTTATATATTTTTGAAT
1 ATTTAATAT-TTTTTGAAT
36537666 TATGTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 9 0.31
18 6 0.21
19 14 0.48
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTTTTGAATA
Found at i:36553048 original size:79 final size:81
Alignment explanation
Indices: 36552912--36553096 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
36552902 TTGAATGATG
*
36552912 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
36552976 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
36552991 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
36553053 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
36553071 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36553097 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:36553110 original size:40 final size:40
Alignment explanation
Indices: 36552913--36553096 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
36552903 TGAATGATGT
* * * *
36552913 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
36552953 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
36552993 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
36553031 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
36553072 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
36553097 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:36553118 original size:79 final size:79
Alignment explanation
Indices: 36552913--36553129 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
36552903 TGAATGATGT
** * * * **
36552913 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
36552976 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
36552993 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
36553058 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
36553072 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
36553130 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:36565329 original size:42 final size:40
Alignment explanation
Indices: 36565273--36565428 Score: 152
Period size: 41 Copynumber: 3.8 Consensus size: 40
36565263 CGCTAATCAG
* *
36565273 AAAACGCCGCAAAAGGTTAGAGCTATAGCGGCGTTTATGAGA
1 AAAACACCACAAAAGGTTA-AGC-ATAGCGGCGTTTATGAGA
* * * * *
36565315 AAAGCACCACAAAAGGTCAAGCAGTAGCAGCATTAATGAGA
1 AAAACACCACAAAAGGTTAAGCA-TAGCGGCGTTTATGAGA
* *
36565356 AAAACACCACGAAAGGTCT-AGCATAAGCGGTGTTTATGAGA
1 AAAACACCACAAAAGGT-TAAGCAT-AGCGGCGTTTATGAGA
* *
36565397 AAAACACCGCAAAAGGTCAAGCATTAGCGGCG
1 AAAACACCACAAAAGGTTAAGCA-TAGCGGCG
36565429 CCGAAAAAAA
Statistics
Matches: 91, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
40 2 0.02
41 73 0.80
42 16 0.18
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.15
Consensus pattern (40 bp):
AAAACACCACAAAAGGTTAAGCATAGCGGCGTTTATGAGA
Found at i:36565426 original size:41 final size:41
Alignment explanation
Indices: 36565298--36565428 Score: 172
Period size: 41 Copynumber: 3.2 Consensus size: 41
36565288 GTTAGAGCTA
* *
36565298 TAGCGGCGTTTATGAGAAAAGCACCACAAAAGGTCAAGCAG
1 TAGCGGCGTTTATGAGAAAAACACCACAAAAGGTCAAGCAT
* * * * *
36565339 TAGCAGCATTAATGAGAAAAACACCACGAAAGGTCTAGCAT
1 TAGCGGCGTTTATGAGAAAAACACCACAAAAGGTCAAGCAT
* * *
36565380 AAGCGGTGTTTATGAGAAAAACACCGCAAAAGGTCAAGCAT
1 TAGCGGCGTTTATGAGAAAAACACCACAAAAGGTCAAGCAT
36565421 TAGCGGCG
1 TAGCGGCG
36565429 CCGAAAAAAA
Statistics
Matches: 73, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (41 bp):
TAGCGGCGTTTATGAGAAAAACACCACAAAAGGTCAAGCAT
Found at i:36566249 original size:7 final size:7
Alignment explanation
Indices: 36566210--36566369 Score: 56
Period size: 7 Copynumber: 22.7 Consensus size: 7
36566200 TTTATTTTAT
36566210 TTTAGGG
1 TTTAGGG
*
36566217 TTTATGG
1 TTTAGGG
* * *
36566224 TCTATGA
1 TTTAGGG
*
36566231 TTTAAGG
1 TTTAGGG
36566238 TTTAGGG
1 TTTAGGG
*
36566245 TTTAGGA
1 TTTAGGG
**
36566252 TTTAGTA
1 TTTAGGG
36566259 TTT-GTGG
1 TTTAG-GG
*
36566266 TTTTAGGT
1 -TTTAGGG
* *
36566274 TTTATGT
1 TTTAGGG
*
36566281 TTTATGG
1 TTTAGGG
*
36566288 TTTATGG
1 TTTAGGG
**
36566295 TTTATAG
1 TTTAGGG
* *
36566302 TTTAAGA
1 TTTAGGG
36566309 TTT-GGAG
1 TTTAGG-G
*
36566316 TTTGGGG
1 TTTAGGG
**
36566323 TTTAATG
1 TTTAGGG
**
36566330 TTTAGAT
1 TTTAGGG
*
36566337 TTTAAGG
1 TTTAGGG
36566344 TTTAGGG
1 TTTAGGG
36566351 TTTA-GG
1 TTTAGGG
36566357 TTTAGAGG
1 TTTAG-GG
36566365 TTTAG
1 TTTAG
36566370 ATAAAAACGC
Statistics
Matches: 116, Mismatches: 30, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
6 8 0.07
7 94 0.81
8 13 0.11
9 1 0.01
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.51
Consensus pattern (7 bp):
TTTAGGG
Found at i:36566277 original size:22 final size:22
Alignment explanation
Indices: 36566245--36566290 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
36566235 AGGTTTAGGG
*
36566245 TTTAGGATTTA-GTATTTGTGGT
1 TTTAGGATTTATGT-TTTATGGT
*
36566267 TTTAGGTTTTATGTTTTATGGT
1 TTTAGGATTTATGTTTTATGGT
36566289 TT
1 TT
36566291 ATGGTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.61
Consensus pattern (22 bp):
TTTAGGATTTATGTTTTATGGT
Found at i:36567179 original size:41 final size:40
Alignment explanation
Indices: 36567132--36567245 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 40
36567122 ACAAAAGGTA
* *
36567132 AGCAATAACAGCATTTTTGTTCCAAATGCCGCAAAAAGTTG
1 AGCAATAAC-GCATTTTTGGTCCAAACGCCGCAAAAAGTTG
* * *
36567173 AGCAATAGCGACGTTTTTGGTCCAAACGCCGCTAAAAGTTG
1 AGCAATAACG-CATTTTTGGTCCAAACGCCGCAAAAAGTTG
* *
36567214 AGCAATAATGGCTTTTTTGGTCCAAACGCCGC
1 AGCAATAA-CGCATTTTTGGTCCAAACGCCGC
36567246 GAATATGTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.02
41 61 0.97
42 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (40 bp):
AGCAATAACGCATTTTTGGTCCAAACGCCGCAAAAAGTTG
Found at i:36571784 original size:43 final size:42
Alignment explanation
Indices: 36571736--36571872 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 42
36571726 AAACAAGACT
*
36571736 TTTAGCGGTGCTTT-TATAAAAAACGCA-GCTAAAAGTCATTTTC
1 TTTAGCGGTG-TTTGT-TAAAAAA-GCACGCTAAAAGTCATGTTC
* *
36571779 TTTAGCGGTGTTTGTTAGAAAAGCACCGCTAAAGGTCATGTTC
1 TTTAGCGGTGTTTGTTAAAAAAGCA-CGCTAAAAGTCATGTTC
* * *
36571822 TTTAGCTGTGTTTGTGGGAAAAAAGC-CGC-AGAAGGTCATGTTC
1 TTTAGCGGTGTTTGT--TAAAAAAGCACGCTA-AAAGTCATGTTC
*
36571865 TATAGCGG
1 TTTAGCGG
36571873 CTTTTTCCAC
Statistics
Matches: 80, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
41 3 0.04
42 10 0.12
43 60 0.75
45 7 0.09
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (42 bp):
TTTAGCGGTGTTTGTTAAAAAAGCACGCTAAAAGTCATGTTC
Found at i:36575694 original size:119 final size:120
Alignment explanation
Indices: 36575512--36575734 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
36575502 TCCTCGTTCA
* * *
36575512 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGAGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
* * *
36575577 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACATAACCCGGATTTAGTAACTAGCACC
* * **
36575632 AATGCCTTCGAG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-AGATCTTAGTCCGG
1 AATGCCTTCGAGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* * *
36575694 ATATGGTCACTTAGCACAAAGCCTTCGGGACATAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACATAACCCGGA
36575735 CATCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 65 0.75
120 19 0.22
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGAGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACATAACCCGGATTTAGTAACTAGCACC
Found at i:36575734 original size:40 final size:40
Alignment explanation
Indices: 36575510--36575734 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
36575500 GCTCCTCGTT
* *
36575510 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
36575550 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
36575590 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
36575630 CCAATGCCTTCGAG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
36575669 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
36575710 CAAA-GCCTTCGGGACATAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36575735 CATCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 116 0.73
41 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:36578969 original size:31 final size:30
Alignment explanation
Indices: 36578934--36578994 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 30
36578924 TGATTTCGGT
36578934 CGTGTAGGCCCACATGGGCATGTGGGATTC
1 CGTGTAGGCCCACATGGGCATGTGGGATTC
36578964 NCGTGTAGGCCCACATGGGCATGTGGGATTC
1 -CGTGTAGGCCCACATGGGCATGTGGGATTC
36578995 TGGGCCAGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.23, G:0.36, T:0.23
Consensus pattern (30 bp):
CGTGTAGGCCCACATGGGCATGTGGGATTC
Found at i:36586323 original size:26 final size:26
Alignment explanation
Indices: 36586287--36586337 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
36586277 ACTGAGCTCA
36586287 TTTAGCTAAAATCTCATTATCAATCG
1 TTTAGCTAAAATCTCATTATCAATCG
36586313 TTTAGCTAAAATCTCATTATCAATC
1 TTTAGCTAAAATCTCATTATCAATC
36586338 TTCTAAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (26 bp):
TTTAGCTAAAATCTCATTATCAATCG
Found at i:36599639 original size:18 final size:21
Alignment explanation
Indices: 36599604--36599655 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
36599594 AGGAATTACA
36599604 AAAAATTT-AAAATAATTT-T
1 AAAAATTTCAAAATAATTTAT
*
36599623 -TAAATTTCAAAAT-ATTTAT
1 AAAAATTTCAAAATAATTTAT
36599642 AAAAATTTCAAAAT
1 AAAAATTTCAAAAT
36599656 CTATATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 10 0.36
19 6 0.21
20 12 0.43
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATTTCAAAATAATTTAT
Found at i:36599655 original size:28 final size:28
Alignment explanation
Indices: 36599597--36599655 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
36599587 TCTCAAAAGG
**
36599597 AATTACAAAAAATTTAAAATAATTTTTA
1 AATTACAAAAAATTTAAAATAATTTCAA
* *
36599625 AATTTCAAAATATTTATAAA-AATTTCAA
1 AATTACAAAAAATTTA-AAATAATTTCAA
36599653 AAT
1 AAT
36599656 CTATATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (28 bp):
AATTACAAAAAATTTAAAATAATTTCAA
Found at i:36605783 original size:29 final size:27
Alignment explanation
Indices: 36605744--36605823 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 27
36605734 TATTAATATA
*
36605744 AAGGG-TCAATTGAATTATTTTCATTATT
1 AAGGGTTCAATTGAATTTTTTTC-TTA-T
36605772 AAGGGTTCAATTGAGGCATTTTTTTCTTAT
1 AAGGGTTCAATTGA---ATTTTTTTCTTAT
36605802 AAGGGCTT-AATTGAATTTTTTT
1 AAGGG-TTCAATTGAATTTTTTT
36605824 TACCAAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
27 8 0.17
28 5 0.11
29 8 0.17
30 12 0.26
31 5 0.11
32 8 0.17
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.47
Consensus pattern (27 bp):
AAGGGTTCAATTGAATTTTTTTCTTAT
Found at i:36606157 original size:21 final size:18
Alignment explanation
Indices: 36606116--36606158 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 18
36606106 TATATTTATT
*
36606116 AAATTATTATAAAAATTA
1 AAATTATTATAAAAATGA
36606134 AAATTATATATATGAAAATGA
1 AAATTAT-TATA--AAAATGA
36606155 AAAT
1 AAAT
36606159 AAAAACAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 4 0.19
21 10 0.48
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
AAATTATTATAAAAATGA
Found at i:36612658 original size:193 final size:193
Alignment explanation
Indices: 36612329--36612719 Score: 737
Period size: 193 Copynumber: 2.0 Consensus size: 193
36612319 ATTGTCGCTC
*
36612329 TTCTGTTGCCTATACCGGTCGCATATCATGTGTGGGATTAGAAATCTTATCTTTTCATTATCGTT
1 TTCTGTTGCCTATACCGGTCGCATATCATGTGTGGGATTAGAAACCTTATCTTTTCATTATCGTT
36612394 TTTACGAAGTTACTGTTTCGATATATTTTTGATTTTGTGTTAACCCAAAGATTTTGGGTTCTAGA
66 TTTACGAAGTTACTGTTTCGATATATTTTTGATTTTGTGTTAACCCAAAGATTTTGGGTTCTAGA
**
36612459 CATTGGAAATGATGAGAAATTGTCACCTTTTATATATTTTGATAAGGTAAAGGTTAGGGACGA
131 CATTGGAAATGATGAGAAATCATCACCTTTTATATATTTTGATAAGGTAAAGGTTAGGGACGA
36612522 TTCTGTTGCCTATACCGGTCGCATATCATGTGTGGGATTAGAAACCTTATCTTTTCATTATCGTT
1 TTCTGTTGCCTATACCGGTCGCATATCATGTGTGGGATTAGAAACCTTATCTTTTCATTATCGTT
*
36612587 TTTACGAAGTTACTGTTTTGATATATTTTTGATTTTGTGTTAACCCAAAGATTTTGGGTTCTAGA
66 TTTACGAAGTTACTGTTTCGATATATTTTTGATTTTGTGTTAACCCAAAGATTTTGGGTTCTAGA
*
36612652 CATTGGAAGTGATGAGAAATCATCACCTTTTATATATTTTGATAAGGTAAAGGTTAGGGACGA
131 CATTGGAAATGATGAGAAATCATCACCTTTTATATATTTTGATAAGGTAAAGGTTAGGGACGA
36612715 TTCTG
1 TTCTG
36612720 GTGGCCAAAA
Statistics
Matches: 193, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
193 193 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (193 bp):
TTCTGTTGCCTATACCGGTCGCATATCATGTGTGGGATTAGAAACCTTATCTTTTCATTATCGTT
TTTACGAAGTTACTGTTTCGATATATTTTTGATTTTGTGTTAACCCAAAGATTTTGGGTTCTAGA
CATTGGAAATGATGAGAAATCATCACCTTTTATATATTTTGATAAGGTAAAGGTTAGGGACGA
Found at i:36613546 original size:14 final size:14
Alignment explanation
Indices: 36613529--36613568 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
36613519 TCTGATTTGG
36613529 TACATCTGCATACA
1 TACATCTGCATACA
*
36613543 TACATCTGCGTACA
1 TACATCTGCATACA
* *
36613557 TGCATTTGCATA
1 TACATCTGCATA
36613569 AAATGTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (14 bp):
TACATCTGCATACA
Found at i:36617769 original size:48 final size:45
Alignment explanation
Indices: 36617714--36617927 Score: 216
Period size: 48 Copynumber: 4.6 Consensus size: 45
36617704 AATGAGAGCC
* *
36617714 AGTGTAAGACCATGTTTGGGACATGGCATCAGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGAGACG-GTGCT
* * *
36617762 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGAGACG-GTGCT
* * * * * * *
36617810 AGTTTAAGACATGTCTGGGACATACATCGGCCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACGGT-GCT
* *
36617856 AGTGTCAGACATGTCTGGGACATGCGTCAGC-TACGAGAC-GTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCAT-CGAGACGGTGCT
36617900 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
36617928 GGCACAGTTA
Statistics
Matches: 143, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
44 28 0.20
45 3 0.02
46 45 0.31
47 14 0.10
48 53 0.37
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACGGTGCT
Found at i:36617867 original size:46 final size:45
Alignment explanation
Indices: 36617663--36617930 Score: 179
Period size: 48 Copynumber: 5.8 Consensus size: 45
36617653 TGAGATATGT
* * * * *
36617663 GTGCCAGTGTTAGATATGTCTGGGACATACATTGGCC-ACATAATGA-
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAC--GA-GAC
* * * * *
36617709 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCAT-TGAGAC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACGAGAC
* * *
36617755 GAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGAC
1 --GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACGAGAC
** * * *
36617803 GAGTGTTAGTTTAAGACATGTCTGGGACATACATCGGCCT-CGAGAT
1 --GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGAC
* * *
36617849 GTTAGCCAGTGTCAGACATGTCTGGGACATGCGTCAG-CTACGAGAC
1 G-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGAC
*
36617895 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
36617931 ACAGTTACAT
Statistics
Matches: 180, Mismatches: 32, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
44 30 0.17
45 6 0.03
46 57 0.32
47 26 0.14
48 61 0.34
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGAC
Found at i:36617950 original size:142 final size:141
Alignment explanation
Indices: 36617678--36617931 Score: 342
Period size: 142 Copynumber: 1.8 Consensus size: 141
36617668 AGTGTTAGAT
* *
36617678 ATGTCTGGGACATACATTGGCCACATAATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCAT
1 ATGTCTGGGACATACATCGGCCACATAATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
* *
36617743 CAGCATTGAGACGAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTG
66 CAGCATCGAGAC-AGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTCAGACGAGTG
36617808 TTAGTTTAAGAC
130 TTAGTTTAAGAC
* * ** * *
36617820 ATGTCTGGGACATACATCGGCCTCGA-GATGTTAGCCAGTGTCAGA-CATGTCTGGGACAT-GCG
1 ATGTCTGGGACATACATCGGCCAC-ATAATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA
36617882 TCAGC-TACGAGAC-GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
65 TCAGCAT-CGAGACAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
36617932 CAGTTACATT
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
136 9 0.09
137 14 0.14
138 14 0.14
139 1 0.01
140 12 0.12
141 13 0.13
142 37 0.37
143 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (141 bp):
ATGTCTGGGACATACATCGGCCACATAATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
CAGCATCGAGACAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTCAGACGAGTGT
TAGTTTAAGAC
Found at i:36631048 original size:27 final size:27
Alignment explanation
Indices: 36631018--36631070 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
36631008 TACACTACAA
*
36631018 GGGTATTTCGATAATTTTATAAATCGG
1 GGGTATTTCGATAATTTTACAAATCGG
***
36631045 GGGTATTTTTTTAATTTTACAAATCG
1 GGGTATTTCGATAATTTTACAAATCG
36631071 AGGTCTTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATCGG
Found at i:36637169 original size:40 final size:39
Alignment explanation
Indices: 36637083--36637303 Score: 250
Period size: 40 Copynumber: 5.6 Consensus size: 39
36637073 ATGATGTCCG
* * * *
36637083 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
** * *
36637122 GGACTAAGAACCGAAGGCATTTGTGCGAGATACTAATTCC
1 GG-CTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
36637162 GTGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 G-GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
36637201 GGGTCAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
36637241 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
36637281 GGGCTATGTCCCGAAGGCATTTG
1 -GGCTAAGTCCCGAAGGCATTTG
36637304 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.21
40 110 0.70
41 13 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:36637283 original size:80 final size:80
Alignment explanation
Indices: 36637079--36637303 Score: 278
Period size: 80 Copynumber: 2.8 Consensus size: 80
36637069 TTGAATGATG
* * * * * **
36637079 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAACCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
*
36637143 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
* *
36637159 TCCGTGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGG-TCAAGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCT-AAGTCCCGAAGGCAT
*
36637221 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
36637238 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
36637303 G
66 G
36637304 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.02
79 56 0.45
80 63 0.51
81 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:36639645 original size:18 final size:19
Alignment explanation
Indices: 36639603--36639639 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36639593 TAAATTTTAG
*
36639603 AATTTTTAAAAATATTTTT
1 AATTTTAAAAAATATTTTT
36639622 AATTTTAAAAAATATTTT
1 AATTTTAAAAAATATTTT
36639640 GATTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTTTAAAAAATATTTTT
Found at i:36639646 original size:19 final size:18
Alignment explanation
Indices: 36639604--36639646 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
36639594 AAATTTTAGA
*
36639604 ATTTTTAAAAATATTTTTA
1 ATTTTTAAAAATA-TTTTG
*
36639623 ATTTTAAAAAATATTTTG
1 ATTTTTAAAAATATTTTG
36639641 ATTTTT
1 ATTTTT
36639647 TTTTTGTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTTTAAAAATATTTTG
Found at i:36656389 original size:13 final size:13
Alignment explanation
Indices: 36656371--36656395 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36656361 TATGATGCAC
36656371 ATGTTTTAATTTA
1 ATGTTTTAATTTA
36656384 ATGTTTTAATTT
1 ATGTTTTAATTT
36656396 CTCACCCGTC
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
ATGTTTTAATTTA
Found at i:36666199 original size:18 final size:18
Alignment explanation
Indices: 36666165--36666199 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36666155 ATTTTAAAGA
* *
36666165 TATGGGCCCATATGCCCG
1 TATGGGCCCACACGCCCG
36666183 TATGGGCCCACACGCCC
1 TATGGGCCCACACGCCC
36666200 AGATTGGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.40, G:0.26, T:0.17
Consensus pattern (18 bp):
TATGGGCCCACACGCCCG
Found at i:36667267 original size:97 final size:97
Alignment explanation
Indices: 36667101--36667296 Score: 365
Period size: 97 Copynumber: 2.0 Consensus size: 97
36667091 ACACCACAAG
*
36667101 TTAATTACTTGATATATGTAATGTTTTGTTTTATCAAAAATAAAATGAATAATTTTTCATCAAAT
1 TTAATTACTTGATATATGTAATGTTTTGTTTTATAAAAAATAAAATGAATAATTTTTCATCAAAT
36667166 TCTCTCTTAGTTTCTGCTCAAATTCAGCTTTC
66 TCTCTCTTAGTTTCTGCTCAAATTCAGCTTTC
*
36667198 TTAATTACTTGATATATGTAATGTTTTGTTTTATAAAAAATAAAGTGAATAATTTTTCATCAAAT
1 TTAATTACTTGATATATGTAATGTTTTGTTTTATAAAAAATAAAATGAATAATTTTTCATCAAAT
*
36667263 TCTCTTTTAGTTTCTGCTCAAATTCAGCTTTC
66 TCTCTCTTAGTTTCTGCTCAAATTCAGCTTTC
36667295 TT
1 TT
36667297 TTTTTGTTCT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (97 bp):
TTAATTACTTGATATATGTAATGTTTTGTTTTATAAAAAATAAAATGAATAATTTTTCATCAAAT
TCTCTCTTAGTTTCTGCTCAAATTCAGCTTTC
Found at i:36670532 original size:52 final size:52
Alignment explanation
Indices: 36670424--36670602 Score: 242
Period size: 52 Copynumber: 3.5 Consensus size: 52
36670414 ACTAGTAACT
*
36670424 CAAGTGTGGTACTATGTGAAGGCCACTTTGCAAAG--AGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTTTGGTCA
* *
36670474 CAAGTGTCGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTTTGGTCA
* * *
36670526 CAAGTGTGGTACTATGTGAAGGCCACCTTGTAAAG-AAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTTTGGTC-A
*
36670577 CAAGGGTGGTACTATGT-ACAGGCCAC
1 CAAGTGTGGTACTATGTGA-AGGCCAC
36670603 CGGGTATCTG
Statistics
Matches: 116, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
50 35 0.30
51 34 0.29
52 47 0.41
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTTTGGTCA
Found at i:36671024 original size:19 final size:19
Alignment explanation
Indices: 36671000--36671038 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
36670990 GACAGAGTCA
*
36671000 TAATGATTTTGGAATCCCT
1 TAATGATTTTGGAATACCT
36671019 TAATGATTTTGGAATACCT
1 TAATGATTTTGGAATACCT
36671038 T
1 T
36671039 TCTTTGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (19 bp):
TAATGATTTTGGAATACCT
Found at i:36674535 original size:55 final size:54
Alignment explanation
Indices: 36674435--36674634 Score: 165
Period size: 55 Copynumber: 3.7 Consensus size: 54
36674425 TTAAGGATAC
* * *
36674435 CATGTAAGACCATGCCAAGGCATGGAAATTGTTAAGGTTTC-TAAGGCAAGAAAAT
1 CATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTTCATAAGGCAAGAAAAT
* * * **
36674490 CATGGAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC-A-AAGGT
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-ATAAGGCAAGAAAAT
* * * * * *
36674543 CCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TCCATAAGGCAAGGATAC
1 --CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGCAAGAAAAT
* * * *
36674598 CACGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
36674635 CCAAAAGGAT
Statistics
Matches: 115, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
53 44 0.38
54 12 0.10
55 59 0.51
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGCAAGAAAAT
Found at i:36674633 original size:108 final size:110
Alignment explanation
Indices: 36674434--36674634 Score: 264
Period size: 108 Copynumber: 1.8 Consensus size: 110
36674424 TTTAAGGATA
* * * *
36674434 CCATGTAAGACCATGCCAAGGCATGGAAATTGTTAAGGTTTCTAAGGCAAGAAAATCATGGAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCCTAAGGCAAGAAAACCACGGAAGA
*
36674499 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* * * * *
36674544 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TCCATAAGGCAAGGATACCACGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCC-TAAGGCAAGAAAACCACGGAAG
* *
36674606 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
36674635 CCAAAAGGAT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
107 2 0.03
108 44 0.56
109 6 0.08
110 26 0.33
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCCTAAGGCAAGAAAACCACGGAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:36693382 original size:143 final size:141
Alignment explanation
Indices: 36693078--36693716 Score: 543
Period size: 143 Copynumber: 4.5 Consensus size: 141
36693068 TGCCGATGTC
* * * * *
36693078 ATGTCCCAGACATGGTCTTACACTGGCTATCATCATCAAGGTCGATACCATGTCCCAAACATGGT
1 ATGTCCCAGACATGGTCTTACACTAGCTATCATAATCGAGGTCGAT-GCATGTCCCAGACAT-GT
* * * * * * * * *
36693143 CTTACACTAGCTCTCGTACTTACG-TGCTGATGTCATGTCCCAGACATGATCTTACACTAGCACA
64 CTTACACTGGCTATCAT-CAT-CGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCAC-
*
36693207 AC-TCT-TAGCCGATGC-
126 TCGTCTGTA--CGATGCG
* *
36693222 ATGTCCCAAACAT-GTCTTACACTAGCTATCATAATCGAGGCCGATGCCATGTCCCAGACATGGT
1 ATGTCCCAGACATGGTCTTACACTAGCTATCATAATCGAGGTCGATG-CATGTCCCAGACAT-GT
* * *
36693286 CTTACACTGGCTATCATCATCGAGGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCG
64 CTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACTCG
36693351 TACT-TACG-TGCTG
129 T-CTGTACGATGC-G
* * *
36693364 ATGTCCCAGACATGGTCTTACACTAGC-A-CA-ACTCTTA-GTCGATGCATGTCCCAAACATGTC
1 ATGTCCCAGACATGGTCTTACACTAGCTATCATAATC-GAGGTCGATGCATGTCCCAGACATGTC
* *
36693425 TTACACTGGCTATCATCATCGAGGCCGATGCCATGTGCCAAACATGGTCTTACACTAGCTCTCGC
65 TTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACT--C
*
36693490 GTATCCATGT-CGATGCC
128 G--T-C-TGTACGATGCG
* ** *
36693507 ATGTCCCAGACATGTTCTTACACT-G--A-CATGTCTCGTA-GTTGATGCATGTCCCAGACATGT
1 ATGTCCCAGACATGGTCTTACACTAGCTATCAT-AATCG-AGGTCGATGCATGTCCCAGACATGT
*
36693567 CTTACACTGGCT-TACATC-TCGAGGCCGATG-CATGTCCCAAACAT-GTCTTACAC-AGGCAGT
64 CTTACACTGGCTAT-CATCATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTA-GCACT
* *
36693627 CGTCTGAATGCTGATGCC
127 CGTCTG--TAC-GATGCG
* * * *
36693645 ATGTCCTAGACATGGTCTTACACTAGCTCTCATAAT-GTGG-CTGATGCATGTCCTAGACATGTC
1 ATGTCCCAGACATGGTCTTACACTAGCTATCATAATCGAGGTC-GATGCATGTCCCAGACATGTC
36693708 TTACACTGG
65 TTACACTGG
36693717 TACACAAATT
Statistics
Matches: 421, Mismatches: 44, Indels: 64
0.80 0.08 0.12
Matches are distributed among these distances:
134 2 0.00
135 1 0.00
136 2 0.00
137 1 0.00
138 92 0.22
139 15 0.04
140 57 0.14
141 25 0.06
142 68 0.16
143 142 0.34
144 16 0.04
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (141 bp):
ATGTCCCAGACATGGTCTTACACTAGCTATCATAATCGAGGTCGATGCATGTCCCAGACATGTCT
TACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACTCGTC
TGTACGATGCG
Found at i:36693470 original size:138 final size:140
Alignment explanation
Indices: 36693263--36693668 Score: 473
Period size: 138 Copynumber: 2.9 Consensus size: 140
36693253 TAATCGAGGC
* *
36693263 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGTCGATGCCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAA
*
36693328 ACATGGTCTTACACTAGCTCT-CGTA-C-T-TACG-TGCTGATGTCCCAGACATGGTCTTACACT
64 ACATGGTCTTACACTAGCTCTCCGTACCATGT-CGATGC-CATGTCCCAGACATGGTCTTACACT
*
36693388 AGCACA-ACTCTTAGT
127 -G-ACAGACTCGTAGT
* *
36693403 CGATGCATGTCCCAAACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTGCCAAAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAAAC
*
36693468 ATGGTCTTACACTAGCTCTCGCGTATCCATGTCGATGCCATGTCCCAGACATGTTCTTACACTGA
66 ATGGTCTTACACTAGCTCTC-CGTA-CCATGTCGATGCCATGTCCCAGACATGGTCTTACACTGA
*
36693533 CATGTCTCGTAGT
129 CA-GACTCGTAGT
*
36693546 TGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATC-TCGAGGCCGATG-CATGTCCCAAA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTAT-CATCATCGAGGCCGATGCCATGTCCCAAA
* *
36693608 CAT-GTCTTACAC-AGGCAGTCGTCTG-A--ATG-CTGATGCCATGTCCTAGACATGGTCTTACA
65 CATGGTCTTACACTA-GC--TC-TCCGTACCATGTC-GATGCCATGTCCCAGACATGGTCTTACA
36693667 CT
125 CT
36693669 AGCTCTCATA
Statistics
Matches: 237, Mismatches: 14, Indels: 32
0.84 0.05 0.11
Matches are distributed among these distances:
137 1 0.00
138 93 0.39
139 14 0.06
140 20 0.08
141 17 0.07
142 18 0.08
143 70 0.30
144 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (140 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAAAC
ATGGTCTTACACTAGCTCTCCGTACCATGTCGATGCCATGTCCCAGACATGGTCTTACACTGACA
GACTCGTAGT
Found at i:36693472 original size:187 final size:187
Alignment explanation
Indices: 36693069--36693714 Score: 755
Period size: 187 Copynumber: 3.4 Consensus size: 187
36693059 GGGTTAAGTT
* * * *
36693069 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCAAGGTCGATACCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGTCGATGCCATGTCCC
* *
36693134 AAACATGGTCTTACACTAGCTCTCGTACTTACGTGCTGATGTCATGTCCCAGACATGATCTTACA
66 AGACATGGTCTTACACTAGCTCTCGTACTTACGTGC---TG--ATGTCCCAGACATGGTCTTACA
* *
36693199 CTAGCACAACTCTTAGCCGATGCATGTCCCAAACATGTCTTACACTAGCTATCATAATCGAG
126 CTAGCACAACTCTTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTATCATCATCGAG
*
36693261 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGTCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGTCGATGCCATGTCCC
36693326 AGACATGGTCTTACACTAGCTCTCGTACTTACGTGCTGATGTCCCAGACATGGTCTTACACTAGC
66 AGACATGGTCTTACACTAGCTCTCGTACTTACGTGCTGATGTCCCAGACATGGTCTTACACTAGC
*
36693391 ACAACTCTTAGTCGATGCATGTCCCAAACATGTCTTACACTGGCTATCATCATCGAG
131 ACAACTCTTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTATCATCATCGAG
* * * * * *
36693448 GCCGATGCCATGTGCCAAACATGGTCTTACACTAGCTCTC-GCGTATCCATGTCGATGCCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC--ATCGAGGTCGATGCCATGTC
* *
36693512 CCAGACATGTTCTTACACT-GACATGTCTCGTAGTT--GATGC--ATGTCCCAGACAT-GTCTTA
64 CCAGACATGGTCTTACACTAG-C---TCTCGTACTTACG-TGCTGATGTCCCAGACATGGTCTTA
* * * * *
36693571 CACTGGCTTACATCTC-GAGGCCGATGCATGTCCCAAACATGTCTTACACAGGC-AGTCGTC-T-
124 CACTAGC--ACAACTCTTA-GCCGATGCATGTCCCAAACATGTCTTACACTGGCTA-TCATCATC
*
36693632 GAAT
185 G-AG
* * * * *
36693636 GCTGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAAT-GTGG-CTGATG-CATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGTC-GATGCCATGTCC
*
36693698 TAGACAT-GTCTTACACT
65 CAGACATGGTCTTACACT
36693715 GGTACACAAA
Statistics
Matches: 405, Mismatches: 35, Indels: 36
0.85 0.07 0.08
Matches are distributed among these distances:
184 9 0.02
185 14 0.03
186 6 0.01
187 132 0.33
188 90 0.22
189 45 0.11
190 3 0.01
191 9 0.02
192 97 0.24
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (187 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGTCGATGCCATGTCCC
AGACATGGTCTTACACTAGCTCTCGTACTTACGTGCTGATGTCCCAGACATGGTCTTACACTAGC
ACAACTCTTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTATCATCATCGAG
Found at i:36694447 original size:12 final size:12
Alignment explanation
Indices: 36694430--36694454 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36694420 CAAAAATGTA
36694430 AAAATCATCAAG
1 AAAATCATCAAG
36694442 AAAATCATCAAG
1 AAAATCATCAAG
36694454 A
1 A
36694455 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:36706478 original size:27 final size:26
Alignment explanation
Indices: 36706400--36706512 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
36706390 AGCATGGCTG
* *
36706400 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
36706426 CCAGATACAGACAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
36706454 CCAGAACAAATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
36706481 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
36706509 CCAG
1 CCAG
36706513 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.08
27 35 0.47
28 33 0.45
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:36706483 original size:55 final size:54
Alignment explanation
Indices: 36706400--36706512 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
36706390 AGCATGGCTG
* *
36706400 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGACAA-TCGTGGCAGAGCCA
1 CCAGAACAAATAATGTGACAGAGCCACCAGAT-CAGACAATTCGTGGCAGAGCCA
* * * *
36706454 CCAGAACAAATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAAATA-ATGTGACAGAGCCACCAGATCAGACAATTCGTGGCAGAGCCA
36706509 CCAG
1 CCAG
36706513 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 17 0.33
55 34 0.67
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAAATAATGTGACAGAGCCACCAGATCAGACAATTCGTGGCAGAGCCA
Found at i:36706508 original size:28 final size:28
Alignment explanation
Indices: 36706400--36706512 Score: 108
Period size: 28 Copynumber: 4.1 Consensus size: 28
36706390 AGCATGGCTG
* * *
36706400 CCAGAACAGATAA--TGTGACAGAGTCA
1 CCAGATCAGATAATTTGTGGCAGAGCCA
* *
36706426 CCAGATACAGACAA-TCGTGGCAGAGCCA
1 CCAGAT-CAGATAATTTGTGGCAGAGCCA
* * *
36706454 CCAGAACAAAT-ATATGTGGCAGAGCCA
1 CCAGATCAGATAATTTGTGGCAGAGCCA
*
36706481 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGATCAGATAATTTGTGGCAGAGCCA
36706509 CCAG
1 CCAG
36706513 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
26 6 0.09
27 30 0.43
28 33 0.48
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (28 bp):
CCAGATCAGATAATTTGTGGCAGAGCCA
Found at i:36708024 original size:24 final size:24
Alignment explanation
Indices: 36707951--36708017 Score: 116
Period size: 24 Copynumber: 2.8 Consensus size: 24
36707941 ACACAGTTCA
36707951 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
36707975 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
36707999 CCCTTATCAGCTCCTAAAT
1 CCCTAATCAGCTCCTAAAT
36708018 ATTCTCCAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.24, C:0.40, G:0.06, T:0.30
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:36712361 original size:21 final size:22
Alignment explanation
Indices: 36712320--36712363 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
36712310 CAAGCTTCGA
*
36712320 TTCCATATTATTCATTATTTAG
1 TTCCATATTATACATTATTTAG
36712342 TTCCAT-TTATACTATT-TTTAG
1 TTCCATATTATAC-ATTATTTAG
36712363 T
1 T
36712364 GATTTTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.25, C:0.14, G:0.05, T:0.57
Consensus pattern (22 bp):
TTCCATATTATACATTATTTAG
Found at i:36717089 original size:27 final size:26
Alignment explanation
Indices: 36717010--36717123 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 26
36717000 TAGCATGGCT
* * *
36717010 ACCAGAACAAATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
* *
36717036 ACCAGATATAGACAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
36717064 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
36717091 ACCAGATCAGATAATTTGTGGCATAGCC
1 ACCAGAACAGATAA--TGTGGCAGAGCC
36717119 ACCAG
1 ACCAG
36717124 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 7 0.09
27 34 0.46
28 33 0.45
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:36717094 original size:55 final size:54
Alignment explanation
Indices: 36717010--36717123 Score: 140
Period size: 55 Copynumber: 2.1 Consensus size: 54
36717000 TAGCATGGCT
* *
36717010 ACCAGAACAAATAATGTGACAGAGTCACCAGATATAGACAA-TCGTGGCAGAGCC
1 ACCAGAACAAATAATGTGACAGAGCCACCAGAT-CAGACAATTCGTGGCAGAGCC
* * * * *
36717064 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCC
1 ACCAGAACAAATA-ATGTGACAGAGCCACCAGATCAGACAATTCGTGGCAGAGCC
36717119 ACCAG
1 ACCAG
36717124 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 17 0.33
55 34 0.67
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
ACCAGAACAAATAATGTGACAGAGCCACCAGATCAGACAATTCGTGGCAGAGCC
Found at i:36718585 original size:24 final size:24
Alignment explanation
Indices: 36718553--36718602 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
36718543 ACACAGTTCA
36718553 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* * *
36718577 CCCTTATCAGCTTCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
36718601 CC
1 CC
36718603 AGACAGACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.40, G:0.04, T:0.34
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:36719703 original size:66 final size:66
Alignment explanation
Indices: 36719582--36719708 Score: 161
Period size: 66 Copynumber: 1.9 Consensus size: 66
36719572 GCTGTAGTTG
*
36719582 GAGTTCATCATATTTTTCTACTTGCCTTTGCTTCCCTTGTTGCTGCCTCTACTTTAAGTTGTAGC
1 GAGTTCATCATATTTTTCTA-TTGCCTTTGCTTCCCTCGTTGCTGCCTCTACTTTAAGTTGTAGC
36719647 TA
65 TA
* * *
36719649 GAGTTCATCATA-TTTTCT-TTGAGCTTCTGCTTCTCTCGATT-CTGCCTCTGCTTTAAGTTG
1 GAGTTCATCATATTTTTCTATTG-CCTT-TGCTTCCCTCG-TTGCTGCCTCTACTTTAAGTTG
36719709 AGCAATTTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
64 3 0.06
65 3 0.06
66 33 0.62
67 14 0.26
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (66 bp):
GAGTTCATCATATTTTTCTATTGCCTTTGCTTCCCTCGTTGCTGCCTCTACTTTAAGTTGTAGCT
A
Found at i:36728865 original size:19 final size:19
Alignment explanation
Indices: 36728829--36728882 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
36728819 CCAAAATGGT
*
36728829 ATTGGGCCATTTTGGGCCGA
1 ATTGGGCC-TTGTGGGCCGA
*
36728849 ATTGGGCCTTGTGGGCCTA
1 ATTGGGCCTTGTGGGCCGA
*
36728868 A-TGGG-CTTGTAGGCC
1 ATTGGGCCTTGTGGGCC
36728883 TCACACGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 9 0.29
18 4 0.13
19 10 0.32
20 8 0.26
ACGTcount: A:0.13, C:0.20, G:0.37, T:0.30
Consensus pattern (19 bp):
ATTGGGCCTTGTGGGCCGA
Found at i:36731505 original size:17 final size:18
Alignment explanation
Indices: 36731477--36731510 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36731467 GGCCTACCCG
*
36731477 TGTGGTCCCACATGCCCC
1 TGTGGTCCCACAGGCCCC
36731495 TGTGG-CCCACAGGCCC
1 TGTGGTCCCACAGGCCC
36731511 AAATTGACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.12, C:0.44, G:0.26, T:0.18
Consensus pattern (18 bp):
TGTGGTCCCACAGGCCCC
Found at i:36731605 original size:17 final size:18
Alignment explanation
Indices: 36731575--36731609 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
36731565 GTGTAGCTTA
36731575 CCTGTGTAGGCCCACATG
1 CCTGTGTAGGCCCACATG
36731593 CCTGTGT-GGCCCACATG
1 CCTGTGTAGGCCCACATG
36731610 GCCCAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.14, C:0.34, G:0.29, T:0.23
Consensus pattern (18 bp):
CCTGTGTAGGCCCACATG
Found at i:36741637 original size:27 final size:28
Alignment explanation
Indices: 36741606--36741661 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
36741596 CGGATCTTAT
*
36741606 TTCTCT-GTAATAGGC-GGGAAGTAGATC
1 TTCTCTCGTAATAGACAGGG-AGTAGATC
36741633 TTCTCTCCGTAATAGACAGGGAGTAGATC
1 TTCTCT-CGTAATAGACAGGGAGTAGATC
36741662 AAAGATGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 6 0.24
29 16 0.64
30 3 0.12
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (28 bp):
TTCTCTCGTAATAGACAGGGAGTAGATC
Found at i:36741786 original size:127 final size:127
Alignment explanation
Indices: 36741634--36742219 Score: 946
Period size: 127 Copynumber: 4.6 Consensus size: 127
36741624 AAGTAGATCT
36741634 TCTCTCCGTAATAGACAGGGAGTAGATCAAAGATGACAGATCTTATCTCTCTGTATTTGACAGGG
1 TCTCTCCGTAATAGACAGGGAGTAGATCAAAGATGACAGATCTTATCTCTCTGTATTTGACAGGG
36741699 AGCAGATCGAAGACATAGCAAATCTGACCTTCATCGTGGCAGATCCAAGATGACAGATCTTA
66 AGCAGATCGAAGACATAGCAAATCTGACCTTCATCGTGGCAGATCCAAGATGACAGATCTTA
*
36741761 TCTCTCCGTAATAGACAGGGAGTAGATCAAAGATGACAGATCTTATCTCTCTGTATTCGACAGGG
1 TCTCTCCGTAATAGACAGGGAGTAGATCAAAGATGACAGATCTTATCTCTCTGTATTTGACAGGG
* *
36741826 AGCAGATCGAAGACATCA-CAGATCTGACCTTCATCG-GGACAGATCCAAGATGATAGATCTTA
66 AGCAGATCGAAGACAT-AGCAAATCTGACCTTCATCGTGG-CAGATCCAAGATGACAGATCTTA
** * * *
36741888 TCTCTTTGTAATGGAC-GAGGAGTAGATCAAAGATGACAGATCTTATCTCTCTGTATTCGACGGG
1 TCTCTCCGTAATAGACAG-GGAGTAGATCAAAGATGACAGATCTTATCTCTCTGTATTTGACAGG
* * *
36741952 GAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGCAGATCCAAGATGATAGATCTTA
65 GAGCAGATCGAAGACATAGCAAATCTGACCTTCATCGTGGCAGATCCAAGATGACAGATCTTA
* * * *
36742015 TCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTTGACAGGG
1 TCTCTCCGTAATAGACAGGGAGTAGATCAAAGATGACAGATCTTATCTCTCTGTATTTGACAGGG
36742080 AGCAGATCGAAGACATAGCAAATCTGACCTTCATCGTGGCAGATCCAAGATGACAGATCTTA
66 AGCAGATCGAAGACATAGCAAATCTGACCTTCATCGTGGCAGATCCAAGATGACAGATCTTA
*
36742142 TCTCTCCGTAATAGACAGGGAGTAGATCAAAGATGACAGATCTTATCTCTCTGTAATTGAC-GGA
1 TCTCTCCGTAATAGACAGGGAGTAGATCAAAGATGACAGATCTTATCTCTCTGTATTTGACAGG-
* *
36742206 GAGTAGATCTAAGA
65 GAGCAGATCGAAGA
36742220 TGACAGATCT
Statistics
Matches: 429, Mismatches: 23, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
126 6 0.01
127 419 0.98
128 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (127 bp):
TCTCTCCGTAATAGACAGGGAGTAGATCAAAGATGACAGATCTTATCTCTCTGTATTTGACAGGG
AGCAGATCGAAGACATAGCAAATCTGACCTTCATCGTGGCAGATCCAAGATGACAGATCTTA
Found at i:36742185 original size:172 final size:170
Alignment explanation
Indices: 36741993--36742429 Score: 624
Period size: 172 Copynumber: 2.5 Consensus size: 170
36741983 TCATCGGGGC
* *
36741993 AGATCCAAGATGATAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGACAGATCT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAAT-GGCGGAGAGTAGATCCAAGATGACAGATCT
* *
36742058 TATCTCTCTGTATTTGACAGGGAGCAGATCGAAGACATAGCAAATCTGACCTTCATCGTGG-CAG
65 TATCTCTCTGTATTCGAC-GGGAGCAGATCGAAAACATAGCAAATCTGACCTTCATCG-GGACAG
36742122 ATCCAAGATGACAGATCTTATCTCTCCGTAATAGACAGGGAGT
128 ATCCAAGATGACAGATCTTATCTCTCCGTAATAGACAGGGAGT
* * *
36742165 AGATCAAAGATGACAGATCTTATCTCTCTGTAATTGACGGAGAGTAGATCTAAGATGACAGATCT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAA-TGGCGGAGAGTAGATCCAAGATGACAGATCT
* * ** **
36742230 TATCTCTCTATATTCGACGGGGAGTAGATCGAAAATGTAGCAGCTCTGACCTTCATCGGGACAGA
65 TATCTCTCTGTATTCGAC-GGGAGCAGATCGAAAACATAGCAAATCTGACCTTCATCGGGACAGA
* * * * *
36742295 TCCAAGATGGCGGATCTTATCTCTCTGTAATGGACGGGGAGT
129 TCCAAGATGACAGATCTTATCTCTCCGTAATAGACAGGGAGT
*
36742337 AGATCCAAGATGACAGATCTTATCTCTTTGTAATGGACGGAGAGTAGATCCAAGATGACAGATCT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGG-CGGAGAGTAGATCCAAGATGACAGATCT
*
36742402 TATCTCTTTGTATTCGACGAGGAGCAGA
65 TATCTCTCTGTATTCGACG-GGAGCAGA
36742430 CACTTTCATC
Statistics
Matches: 235, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
171 5 0.02
172 229 0.97
173 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (170 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGCGGAGAGTAGATCCAAGATGACAGATCTT
ATCTCTCTGTATTCGACGGGAGCAGATCGAAAACATAGCAAATCTGACCTTCATCGGGACAGATC
CAAGATGACAGATCTTATCTCTCCGTAATAGACAGGGAGT
Found at i:36742820 original size:27 final size:28
Alignment explanation
Indices: 36742761--36742814 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
36742751 AAATGCCTAA
* *
36742761 AACCCAGCTAAATTACCCATTAACCCGT
1 AACCCAGCTAAACTACCCATAAACCCGT
36742789 AACCCAGCTAAACTACCCA-AAACCCG
1 AACCCAGCTAAACTACCCATAAACCCG
36742815 GTACCCGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.39, C:0.39, G:0.07, T:0.15
Consensus pattern (28 bp):
AACCCAGCTAAACTACCCATAAACCCGT
Found at i:36749838 original size:31 final size:31
Alignment explanation
Indices: 36749803--36749865 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
36749793 TCTGCAAAGT
36749803 AAGCTTTAAAAGCTTAGTAAGCCATATACAA
1 AAGCTTTAAAAGCTTAGTAAGCCATATACAA
*
36749834 AAGCTTTAAAAGGTTAGTAAGCCATATACAA
1 AAGCTTTAAAAGCTTAGTAAGCCATATACAA
36749865 A
1 A
36749866 TAAAGCCATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (31 bp):
AAGCTTTAAAAGCTTAGTAAGCCATATACAA
Found at i:36758414 original size:28 final size:29
Alignment explanation
Indices: 36758367--36758475 Score: 136
Period size: 28 Copynumber: 3.9 Consensus size: 29
36758357 ACATACATGC
** *
36758367 ATATGGCCCACCAGGCCC-AATCTC-TTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
**
36758394 CATATGGCCCATTAGAACCAAATCACATTT
1 -ATATGGCCCATTAGGCCCAAATCACATTT
36758424 ATATGG-CCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
36758452 ATATGGCCCATTAGGCCC-AATCAC
1 ATATGGCCCATTAGGCCCAAATCAC
36758476 TTTCACAGTC
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
28 46 0.65
29 22 0.31
30 3 0.04
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTT
Found at i:36767987 original size:6 final size:6
Alignment explanation
Indices: 36767971--36768012 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
36767961 TCTCTTCCAA
*
36767971 TTTAA- TTTAAT TTTAAT TTTAAT TTT-AT TTATAAA TTTAAT T
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TT-TAAT TTTAAT T
36768013 GTTCTTTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 9 0.28
6 20 0.62
7 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TTTAAT
Found at i:36779580 original size:13 final size:13
Alignment explanation
Indices: 36779562--36779592 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
36779552 TCGACAGGGA
36779562 CACACCCGTGTGC
1 CACACCCGTGTGC
36779575 CACACCCGTGTGC
1 CACACCCGTGTGC
36779588 CACAC
1 CACAC
36779593 TCATGTGCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.48, G:0.19, T:0.13
Consensus pattern (13 bp):
CACACCCGTGTGC
Found at i:36779599 original size:13 final size:13
Alignment explanation
Indices: 36779562--36779600 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
36779552 TCGACAGGGA
*
36779562 CACACCCGTGTGC
1 CACACCCATGTGC
*
36779575 CACACCCGTGTGC
1 CACACCCATGTGC
*
36779588 CACACTCATGTGC
1 CACACCCATGTGC
36779601 GATTGCTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.18, C:0.44, G:0.21, T:0.18
Consensus pattern (13 bp):
CACACCCATGTGC
Found at i:36782200 original size:47 final size:47
Alignment explanation
Indices: 36782131--36782321 Score: 276
Period size: 47 Copynumber: 4.1 Consensus size: 47
36782121 GAAATGATAG
*
36782131 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
36782178 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
36782225 TAAGGCCTAATGGCCGATATG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
36782271 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
36782318 TAAG
1 TAAG
36782322 TCCCGAAGGG
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 39 0.30
47 90 0.70
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:36782293 original size:93 final size:94
Alignment explanation
Indices: 36782131--36782321 Score: 276
Period size: 93 Copynumber: 2.0 Consensus size: 94
36782121 GAAATGATAG
* * * * *
36782131 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGTAACAAGGCCGAATGGCCAAC
* *
36782196 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGCATAAATGTGA
* * *
36782225 TAAGGCCTAATGGCCGATATG-TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGTAACAAGGCCGAATGGCCAAC
*
36782289 GTGATGGATGTGAAAGTGCATAAATGTGA
66 GTGATGAATGTGAAAGTGCATAAATGTGA
36782318 TAAG
1 TAAG
36782322 TCCCGAAGGG
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
93 66 0.77
94 20 0.23
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.27
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGTAACAAGGCCGAATGGCCAAC
GTGATGAATGTGAAAGTGCATAAATGTGA
Found at i:36782497 original size:37 final size:37
Alignment explanation
Indices: 36782440--36782518 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
36782430 CCGAGCTCTA
* * *
36782440 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
**
36782477 AAGACCCGATAACTTTGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
36782514 AAGAC
1 AAGAC
36782519 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:36787498 original size:93 final size:93
Alignment explanation
Indices: 36787391--36787561 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
36787381 GCCCCTAAGT
* *
36787391 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
36787456 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
36787484 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
36787549 CGAGTTCGGATGC
66 CGAGTTCGGATGC
36787562 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:36787558 original size:46 final size:46
Alignment explanation
Indices: 36787386--36787558 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
36787376 AACCCGCCCC
* * *
36787386 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
36787432 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
36787480 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
36787525 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36787559 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:36788015 original size:30 final size:30
Alignment explanation
Indices: 36787981--36788040 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
36787971 ATTTAATACG
36787981 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
36788011 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
36788041 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:36789590 original size:21 final size:22
Alignment explanation
Indices: 36789546--36789593 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 22
36789536 GCTTTTCAGG
36789546 TTTAAATATGTTAATTTTGAAA
1 TTTAAATATGTTAATTTTGAAA
*
36789568 TTTAAA-AT-TTAATTTTTATAA
1 TTTAAATATGTTAATTTTGA-AA
36789589 TTTAA
1 TTTAA
36789594 TTTTGTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 9 0.38
22 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTAAATATGTTAATTTTGAAA
Found at i:36789602 original size:13 final size:14
Alignment explanation
Indices: 36789568--36789597 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36789558 AATTTTGAAA
*
36789568 TTTAAAATTTAATT
1 TTTATAATTTAATT
36789582 TTTATAATTTAATT
1 TTTATAATTTAATT
36789596 TT
1 TT
36789598 GTAATATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTATAATTTAATT
Found at i:36792266 original size:20 final size:19
Alignment explanation
Indices: 36792195--36792267 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
36792185 ATTTTACAAC
* *
36792195 TTTTTATACTTTTAATAAG
1 TTTTTATAATTTTAATAAT
*
36792214 TTTTTATTAATTTTTATAGAT
1 TTTTTA-TAATTTTAATA-AT
* *
36792235 TTTTTATCATTTTAATTAT
1 TTTTTATAATTTTAATAAT
36792254 TTTTATATAATTTT
1 TTTT-TATAATTTT
36792268 CTATCATTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 12 0.27
20 25 0.57
21 7 0.16
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTTATAATTTTAATAAT
Found at i:36792273 original size:30 final size:30
Alignment explanation
Indices: 36792214--36792282 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
36792204 TTTTAATAAG
* *
36792214 TTTTTATTAATTTTTATAGATTTTTTATCA
1 TTTTAATTAATTTTTATAGATTTTCTATCA
*
36792244 TTTTAATT-ATTTTTATATAATTTTCTATCA
1 TTTTAATTAATTTTTATA-GATTTTCTATCA
36792274 TTTCTAATT
1 TTT-TAATT
36792283 TTTATAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 9 0.26
30 20 0.59
31 5 0.15
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (30 bp):
TTTTAATTAATTTTTATAGATTTTCTATCA
Found at i:36792290 original size:9 final size:9
Alignment explanation
Indices: 36792195--36792456 Score: 59
Period size: 10 Copynumber: 27.1 Consensus size: 9
36792185 ATTTTACAAC
*
36792195 TTTTTATAC
1 TTTTTATAA
*
36792204 TTTTAATAA
1 TTTTTATAA
36792213 GTTTTTATTAA
1 -TTTTTA-TAA
36792224 TTTTTATAGA
1 TTTTTATA-A
*
36792234 TTTTTTATCA
1 -TTTTTATAA
* *
36792244 TTTTAATTAT
1 TTTTTA-TAA
36792254 TTTTATATAA
1 TTTT-TATAA
*
36792264 TTTTCTATCA
1 TTTT-TATAA
*
36792274 --TTTCTAA
1 TTTTTATAA
36792281 TTTTTATAA
1 TTTTTATAA
*
36792290 TATTTATTTAA
1 T-TTT-TATAA
* **
36792301 TATTTTCTTT
1 T-TTTTATAA
36792311 TTTCTTA-ACA
1 TTT-TTATA-A
** *
36792321 AATTAATAA
1 TTTTTATAA
36792330 TATTTTATAA
1 T-TTTTATAA
* * *
36792340 CATTTAATAG
1 -TTTTTATAA
36792350 TTTTTATAA
1 TTTTTATAA
*
36792359 TTTTTTAAAA
1 -TTTTTATAA
36792369 TATTATTAT-A
1 T-TT-TTATAA
*
36792379 -TTTAATAA
1 TTTTTATAA
*
36792387 ATTTTATACA
1 TTTTTATA-A
36792397 TTTTCTATAA
1 TTTT-TATAA
*
36792407 TTTTCA-AA
1 TTTTTATAA
*
36792415 ATTTTATAA
1 TTTTTATAA
36792424 TATTTTAATAAA
1 T-TTTT-AT-AA
*
36792436 TTTTTAAGAA
1 TTTTT-ATAA
36792446 TTTTATATAA
1 TTTT-TATAA
36792456 T
1 T
36792457 CCTTAAAAAT
Statistics
Matches: 182, Mismatches: 44, Indels: 53
0.65 0.16 0.19
Matches are distributed among these distances:
7 6 0.03
8 11 0.06
9 42 0.23
10 84 0.46
11 36 0.20
12 3 0.02
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:36792344 original size:10 final size:9
Alignment explanation
Indices: 36792326--36792452 Score: 62
Period size: 10 Copynumber: 13.3 Consensus size: 9
36792316 TAACAAATTA
36792326 ATAATATTTT
1 ATAA-ATTTT
*
36792336 ATAACATTTA
1 ATAA-ATTTT
**
36792346 ATAGTTTTT
1 ATAAATTTT
36792355 AT-AATTTT
1 ATAAATTTT
* *
36792363 TTAAAATATT
1 AT-AAATTTT
* *
36792373 ATTATATTTA
1 A-TAAATTTT
36792383 ATAAATTTT
1 ATAAATTTT
*
36792392 ATACATTTT
1 ATAAATTTT
*
36792401 CTATAATTTT
1 ATA-AATTTT
36792411 CA-AAATTTT
1 -ATAAATTTT
36792420 ATAATATTTT
1 ATAA-ATTTT
36792430 AATAAATTTT
1 -ATAAATTTT
36792440 -TAAGAATTTT
1 AT-A-AATTTT
36792450 ATA
1 ATA
36792453 TAATCCTTAA
Statistics
Matches: 87, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
8 7 0.08
9 30 0.34
10 44 0.51
11 6 0.07
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (9 bp):
ATAAATTTT
Found at i:36792434 original size:28 final size:29
Alignment explanation
Indices: 36792385--36792452 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 29
36792375 TATATTTAAT
36792385 AAATTTTATACATTTTCTAT-AATTTTCA
1 AAATTTTATACATTTTCTATAAATTTTCA
*
36792413 AAATTTTATA-ATATTT-TAATAAATTTTTA
1 AAATTTTATACAT-TTTCT-ATAAATTTTCA
36792442 AGAATTTTATA
1 A-AATTTTATA
36792453 TAATCCTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
27 3 0.09
28 15 0.43
29 8 0.23
30 9 0.26
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.53
Consensus pattern (29 bp):
AAATTTTATACATTTTCTATAAATTTTCA
Found at i:36793603 original size:46 final size:46
Alignment explanation
Indices: 36793551--36793642 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
36793541 GATTTAATAT
*
36793551 ATTAATGTAATTTGATAAAAGATTTCACATAATTAACAAGTACCAA
1 ATTAATGTAATTTGATAAAAGAGTTCACATAATTAACAAGTACCAA
* **
36793597 ATTAATGTAATTTGATAAAAGAGTTCACGTAATTAGTAAGTACCAA
1 ATTAATGTAATTTGATAAAAGAGTTCACATAATTAACAAGTACCAA
36793643 CATCACCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.33
Consensus pattern (46 bp):
ATTAATGTAATTTGATAAAAGAGTTCACATAATTAACAAGTACCAA
Found at i:36793738 original size:14 final size:16
Alignment explanation
Indices: 36793719--36793750 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
36793709 TTTTTTTATT
36793719 TAAATAA-TAT-AAAA
1 TAAATAATTATCAAAA
36793733 TAAATAATTATCAAAA
1 TAAATAATTATCAAAA
36793749 TA
1 TA
36793751 GGATAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAATAATTATCAAAA
Found at i:36796578 original size:18 final size:19
Alignment explanation
Indices: 36796545--36796582 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
36796535 AGACTCCAGG
*
36796545 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
36796564 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
36796582 T
1 T
36796583 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:36801291 original size:29 final size:29
Alignment explanation
Indices: 36801259--36801314 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
36801249 AATTTGTACA
*
36801259 GGATGGATTTTGAAAAAATAGTTTTGAGG
1 GGATGGATTCTGAAAAAATAGTTTTGAGG
* * *
36801288 GGATGGGTTCTGAAGAAATATTTTTGA
1 GGATGGATTCTGAAAAAATAGTTTTGA
36801315 CTAGATGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (29 bp):
GGATGGATTCTGAAAAAATAGTTTTGAGG
Found at i:36811614 original size:43 final size:44
Alignment explanation
Indices: 36811503--36811614 Score: 142
Period size: 43 Copynumber: 2.6 Consensus size: 44
36811493 AATGACAACA
* * * *
36811503 TCCCAGACGTGGTCTTACATGT-AATCAAATATTAATGCTACTG
1 TCCCAGACATGGTCTTACACGTAAATCAAATACTAATGCGACTG
*
36811546 TCCCAGACAGGGTCTTACACG-AAATCAAATACT-ATGCCGA-TG
1 TCCCAGACATGGTCTTACACGTAAATCAAATACTAATG-CGACTG
36811588 TCCCAGACATGGTCTTACACGTAAATC
1 TCCCAGACATGGTCTTACACGTAAATC
36811615 TCAAATTGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGTAAATCAAATACTAATGCGACTG
Found at i:36814228 original size:18 final size:18
Alignment explanation
Indices: 36814205--36814251 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
36814195 TCCCTCTCTT
**
36814205 CTTTCTCTTTTTCTTTTG
1 CTTTCTCTTTTAATTTTG
36814223 CTTTCT-TTTTAATTTTG
1 CTTTCTCTTTTAATTTTG
36814240 CATGTTCTCTTT
1 C-T-TTCTCTTT
36814252 CTTTCATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 10 0.42
18 7 0.29
19 4 0.17
20 3 0.12
ACGTcount: A:0.06, C:0.19, G:0.06, T:0.68
Consensus pattern (18 bp):
CTTTCTCTTTTAATTTTG
Found at i:36819291 original size:40 final size:40
Alignment explanation
Indices: 36819246--36819447 Score: 255
Period size: 40 Copynumber: 5.0 Consensus size: 40
36819236 GAGATTTAAT
* * *
36819246 CGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCC
1 CGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
36819286 CGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCT
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
36819326 CGGATATAGTAACACGCACAAATGCCTTCGGGACATAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
36819366 CGGATATAGTAACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* * * *
36819406 CGGGA-CTAGTCACTAGCCCAAATGCCTTCGGGACTTAGCC
1 C-GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
36819446 CG
1 CG
36819448 ATTATCATCC
Statistics
Matches: 145, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 2 0.01
40 140 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
Found at i:36833560 original size:14 final size:14
Alignment explanation
Indices: 36833543--36833589 Score: 85
Period size: 14 Copynumber: 3.4 Consensus size: 14
36833533 TTTATTTAGT
*
36833543 ATATTGGTTTATCA
1 ATATTAGTTTATCA
36833557 ATATTAGTTTATCA
1 ATATTAGTTTATCA
36833571 ATATTAGTTTATCA
1 ATATTAGTTTATCA
36833585 ATATT
1 ATATT
36833590 TTAAATGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (14 bp):
ATATTAGTTTATCA
Found at i:36833561 original size:28 final size:29
Alignment explanation
Indices: 36833530--36833592 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
36833520 TTTTTATTAT
*
36833530 TATTTTA-TTTAGT-ATATTGGTTTATCAA
1 TATTTTAGTTTA-TAATATTAGTTTATCAA
36833558 TA--TTAGTTTATCAATATTAGTTTATCAA
1 TATTTTAGTTTAT-AATATTAGTTTATCAA
36833586 TATTTTA
1 TATTTTA
36833593 AATGATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
26 4 0.14
27 4 0.14
28 18 0.62
30 3 0.10
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.56
Consensus pattern (29 bp):
TATTTTAGTTTATAATATTAGTTTATCAA
Found at i:36836538 original size:6 final size:6
Alignment explanation
Indices: 36836527--36836630 Score: 63
Period size: 6 Copynumber: 17.3 Consensus size: 6
36836517 TTATTAAAAT
* * *
36836527 AAATAA AAAT-A AAAT-A AAATAA AAA-ATA AAATCAA AATTAA ATATTA
1 AAATAA AAATAA AAATAA AAATAA AAATA-A AAAT-AA AAATAA AAATAA
* * * * * *
36836574 AAATCA AAAT-T AAATAA AAATTAA AGACAA AGATAA AAATGAG AAATAA
1 AAATAA AAATAA AAATAA AAA-TAA AAATAA AAATAA AAAT-AA AAATAA
36836623 AAATAA AA
1 AAATAA AA
36836631 CTAAGAAAAG
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
5 15 0.19
6 47 0.61
7 14 0.18
8 1 0.01
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:36836540 original size:5 final size:5
Alignment explanation
Indices: 36836521--36836592 Score: 56
Period size: 5 Copynumber: 13.0 Consensus size: 5
36836511 TCCCCTTTAT
36836521 TAAAA T-AAA TAAAAA TAAAA TAAAA TAAAAAA TAAAA TCAAAA TTAAATA
1 TAAAA TAAAA T-AAAA TAAAA TAAAA T--AAAA TAAAA T-AAAA -TAAA-A
*
36836571 TTAAAA TCAAAA TTAAA TAAAA
1 -TAAAA T-AAAA TAAAA TAAAA
36836593 ATTAAAGACA
Statistics
Matches: 57, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.07
5 24 0.42
6 17 0.30
7 12 0.21
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (5 bp):
TAAAA
Done.