Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold407
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: 4418299
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 127125 characters in sequence are not A, C, G, or T
File 14 of 28
Found at i:1970917 original size:34 final size:35
Alignment explanation
Indices: 1970879--1970945 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1970869 CCTTACAACA
1970879 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1970913 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1970946 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1971422 original size:13 final size:13
Alignment explanation
Indices: 1971404--1971429 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1971394 CAATTTTTTG
1971404 TGTATCGATACAT
1 TGTATCGATACAT
1971417 TGTATCGATACAT
1 TGTATCGATACAT
1971430 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1973889 original size:23 final size:24
Alignment explanation
Indices: 1973844--1973890 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1973834 CAAAGAATTG
*
1973844 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
1973868 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
1973891 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:1976499 original size:34 final size:35
Alignment explanation
Indices: 1976461--1976527 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1976451 CCTTACAACA
1976461 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1976495 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1976528 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1977004 original size:13 final size:13
Alignment explanation
Indices: 1976986--1977011 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1976976 CAATTTTTTG
1976986 TGTATCGATACAT
1 TGTATCGATACAT
1976999 TGTATCGATACAT
1 TGTATCGATACAT
1977012 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1977442 original size:13 final size:13
Alignment explanation
Indices: 1977424--1977449 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1977414 CAATTTTTTG
1977424 TGTATCGATACAT
1 TGTATCGATACAT
1977437 TGTATCGATACAT
1 TGTATCGATACAT
1977450 ACGTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1980053 original size:13 final size:13
Alignment explanation
Indices: 1980035--1980069 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1980025 TCCCCCTGTG
*
1980035 TCGATACAGTGTA
1 TCGATACAATGTA
1980048 TCGATACAATGTA
1 TCGATACAATGTA
*
1980061 TTGATACAA
1 TCGATACAA
1980070 AGAAAAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
TCGATACAATGTA
Found at i:1986169 original size:13 final size:13
Alignment explanation
Indices: 1986151--1986176 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1986141 CAATTTTTTG
1986151 TGTATCGATACAT
1 TGTATCGATACAT
1986164 TGTATCGATACAT
1 TGTATCGATACAT
1986177 ACGTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1986272 original size:20 final size:20
Alignment explanation
Indices: 1986226--1986299 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
1986216 ATCTCAATGA
***
1986226 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
1986247 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
1986267 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
1986287 TATGTATCGATAC
1 CATGTATCGATAC
1986300 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:1988717 original size:13 final size:13
Alignment explanation
Indices: 1988699--1988737 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1988689 ATTATCCCCC
*
1988699 TGTATCGATACAG
1 TGTATCGATACAA
1988712 TGTATCGATACAA
1 TGTATCGATACAA
1988725 TGTATCGATACAA
1 TGTATCGATACAA
1988738 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1990821 original size:15 final size:15
Alignment explanation
Indices: 1990801--1990841 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1990791 GTTCATCGAT
1990801 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
1990816 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
*
1990831 CTCAATTTGGA
1 TTC-ATTTGGA
1990842 CATTTTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:2001930 original size:52 final size:52
Alignment explanation
Indices: 2001787--2001915 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
2001777 CGAAATATGA
2001787 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
2001839 AAATTTGCCTGCATGTATCGATACATTTTATAGTATATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
2001891 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2001916 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:2002028 original size:13 final size:13
Alignment explanation
Indices: 2002010--2002034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2002000 ACAAAACTTA
2002010 TGTATCGATACAT
1 TGTATCGATACAT
2002023 TGTATCGATACA
1 TGTATCGATACA
2002035 ATACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2002028 original size:32 final size:33
Alignment explanation
Indices: 2001989--2002054 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
2001979 ATTAGCTTAT
2001989 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
2002021 ATTGTATCGATACAATACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
2002054 A
1 A
2002055 AATCATTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:2002351 original size:52 final size:52
Alignment explanation
Indices: 2002205--2002333 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2002195 CGAAATATGA
*
2002205 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
2002257 AACTTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
2002309 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2002334 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:2002360 original size:13 final size:13
Alignment explanation
Indices: 2002342--2002366 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2002332 CAAAGATCAG
2002342 TGTATCGATACAA
1 TGTATCGATACAA
2002355 TGTATCGATACA
1 TGTATCGATACA
2002367 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2002433 original size:19 final size:19
Alignment explanation
Indices: 2002409--2002493 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
2002399 TAGCTTATAT
2002409 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
2002428 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
2002441 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
*
2002460 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
*
2002480 CGTATCGATACAAA
1 TGTATCGATACAAA
2002494 TCTTTGAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
16 2 0.04
18 1 0.02
19 27 0.47
20 15 0.26
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2002446 original size:13 final size:13
Alignment explanation
Indices: 2002428--2002452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2002418 ACAAAACTTA
2002428 TGTATCGATACAT
1 TGTATCGATACAT
2002441 TGTATCGATACA
1 TGTATCGATACA
2002453 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2002448 original size:32 final size:32
Alignment explanation
Indices: 2002407--2002471 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
2002397 AATAGCTTAT
2002407 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
2002439 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
2002471 A
1 A
2002472 ACACTTTACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAC
Found at i:2008680 original size:2 final size:2
Alignment explanation
Indices: 2008673--2008708 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2008663 CATGGCAGAA
2008673 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2008709 GTCGATGACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2008997 original size:2 final size:2
Alignment explanation
Indices: 2008986--2009019 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2008976 CATATTATTT
2008986 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2009020 GTGGGTGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2015481 original size:16 final size:15
Alignment explanation
Indices: 2015451--2015485 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
2015441 TATTTATATG
2015451 ATATTAGTGCCTTTT
1 ATATTAGTGCCTTTT
*
2015466 ATATTGGTGTCCTTTT
1 ATATTAGTG-CCTTTT
2015482 ATAT
1 ATAT
2015486 CTTACATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54
Consensus pattern (15 bp):
ATATTAGTGCCTTTT
Found at i:2015585 original size:35 final size:34
Alignment explanation
Indices: 2015546--2015751 Score: 109
Period size: 35 Copynumber: 5.9 Consensus size: 34
2015536 TGTAATATAT
2015546 ATATAGTTTAATATATTATAATTTTATTTAAAATA
1 ATATA-TTTAATATATTATAATTTTATTTAAAATA
* * * * *
2015581 ATATATATAA-ATTTTAATACGTTTAATTTAAATTTTA
1 ATATATTTAATATATT-ATA-ATTTTATTTAAA--ATA
* * * *
2015618 ATATATTT-TTATATT-TATTTTTATTCATAATA
1 ATATATTTAATATATTATAATTTTATTTAAAATA
* * ** *
2015650 AT-T-TTTAATATTTTACGTAAAATTTTATATAATTTTG
1 ATATATTTAATATATTA--T--AATTTTATTTAA-AATA
* *
2015687 ATATATTTTGATATATTATAATTTTATTAAAAATA
1 ATATA-TTTAATATATTATAATTTTATTTAAAATA
*
2015722 ATATATTTATATAAATTATAA-TTTATTTAA
1 ATATATTTA-ATATATTATAATTTTATTTAA
2015752 TTTAAATTTA
Statistics
Matches: 123, Mismatches: 32, Indels: 33
0.65 0.17 0.18
Matches are distributed among these distances:
30 3 0.02
31 6 0.05
32 4 0.03
33 4 0.03
34 27 0.22
35 33 0.27
36 18 0.15
37 16 0.13
38 2 0.02
40 10 0.08
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (34 bp):
ATATATTTAATATATTATAATTTTATTTAAAATA
Found at i:2015672 original size:140 final size:140
Alignment explanation
Indices: 2015538--2015797 Score: 341
Period size: 141 Copynumber: 1.8 Consensus size: 140
2015528 AAAATTTGTG
* *
2015538 TAATATAT-ATATAGTTTAATATATTATAATTTTATTTAAAAT-A-ATA-TATATAAATTTTAAT
1 TAAT-TATGATATAGTTTAATATATTATAATTTTATTAAAAATAATATATTATATAAATTATAAT
* *
2015599 ACGTTTAATTTAAATTTTAATATATTTTTATATTTATTTTTATTCATAATAAT-TTTTAATATTT
65 ACATTTAATTTAAA-TTT-A-A-ATTTTT-TATTTACTTTTATTCATAATAATATTTTAATATTT
2015663 TACGTAAAATTTTATA
125 TACGTAAAATTTTATA
* * *
2015679 TAATTTTGATATATTTTGATATATTATAATTTTATTAAAAATAATATATTTATATAAATTATAAT
1 TAATTATGATATAGTTTAATATATTATAATTTTATTAAAAATAATATA-TTATATAAATTATAAT
**
2015744 TTATTTAATTTAAATTTAAATTTTTTATTTACTTTTATTCATAATAATATTTTA
65 ACATTTAATTTAAATTTAAATTTTTTATTTACTTTTATTCATAATAATATTTTA
2015798 TATAATATTT
Statistics
Matches: 104, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
140 24 0.23
141 46 0.44
142 2 0.02
143 4 0.04
144 3 0.03
145 25 0.24
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (140 bp):
TAATTATGATATAGTTTAATATATTATAATTTTATTAAAAATAATATATTATATAAATTATAATA
CATTTAATTTAAATTTAAATTTTTTATTTACTTTTATTCATAATAATATTTTAATATTTTACGTA
AAATTTTATA
Found at i:2015702 original size:10 final size:10
Alignment explanation
Indices: 2015671--2015703 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2015661 TTTACGTAAA
2015671 ATTTT-ATAT
1 ATTTTGATAT
2015680 AATTTTGATAT
1 -ATTTTGATAT
2015691 ATTTTGATAT
1 ATTTTGATAT
2015701 ATT
1 ATT
2015704 ATAATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (10 bp):
ATTTTGATAT
Found at i:2015817 original size:10 final size:12
Alignment explanation
Indices: 2015787--2015820 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2015777 TTTATTCATA
2015787 ATAATATTTTAT
1 ATAATATTTTAT
2015799 ATAATATTTTAT
1 ATAATATTTTAT
2015811 -T-ATATTTTAT
1 ATAATATTTTAT
2015821 GTTTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.41
11 1 0.05
12 12 0.55
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATAATATTTTAT
Found at i:2015829 original size:145 final size:140
Alignment explanation
Indices: 2015546--2015858 Score: 336
Period size: 145 Copynumber: 2.2 Consensus size: 140
2015536 TGTAATATAT
* * * *
2015546 ATATAGTTTAATATATTATAATTTTATTTAAAATAATATATATAAATTTTAATACGTTTAATTTA
1 ATATATTTTAATATATTATAATTTTATTAAAAATAATATATATAAATTATAATACATTTAATTTA
*
2015611 AATTTTAATATATTTTTATATTTATTTTTATTCATAATAATTTTTAATATTTTACGTAAAATTTT
66 AATTTTAATATATTTTTATATTTACTTTTATTCATAATAATTTTTAATATTTTAC-TAAAATTTT
*
2015676 ATATAATTTTG
130 ATATAATTTTA
* **
2015687 ATATATTTTGATATATTATAATTTTATTAAAAATAATATATTTATATAAATTATAATTTATTTAA
1 ATATATTTTAATATATTATAATTTTATTAAAAAT-A-ATA--TATATAAATTATAATACATTTAA
2015752 TTTAAA-TTT-A-A-ATTTTT-TATTTACTTTTATTCATAATAATATTTTATATAATATTTTA-T
62 TTTAAATTTTAATATATTTTTATATTTACTTTTATTCATAAT-A-A-TTT-T-TAATATTTTACT
* * *
2015811 TATATTTTATGTTTAATTTTA
122 AAAATTTTA--TATAATTTTA
* *
2015832 AT-TATTTTAATTTATTAT-ATTTGATTA
1 ATATATTTTAATATATTATAATTTTATTA
2015859 TTTAGATTAT
Statistics
Matches: 146, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
140 19 0.13
141 38 0.26
142 3 0.02
143 23 0.16
144 18 0.12
145 45 0.31
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (140 bp):
ATATATTTTAATATATTATAATTTTATTAAAAATAATATATATAAATTATAATACATTTAATTTA
AATTTTAATATATTTTTATATTTACTTTTATTCATAATAATTTTTAATATTTTACTAAAATTTTA
TATAATTTTA
Found at i:2016104 original size:29 final size:30
Alignment explanation
Indices: 2016042--2016102 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
2016032 AGATCCAATG
*
2016042 TTTATATTATATAAATTAATAAAGATATTA
1 TTTATATTATATAAATTAATAAAGATAATA
*
2016072 TTTATA-TATATATATTAA-AAA-ATTAATA
1 TTTATATTATATAAATTAATAAAGA-TAATA
2016100 TTT
1 TTT
2016103 TAATCAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 1 0.04
28 10 0.36
29 11 0.39
30 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTATATTATATAAATTAATAAAGATAATA
Found at i:2016711 original size:20 final size:20
Alignment explanation
Indices: 2016686--2016726 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2016676 GTAAAGGGCA
2016686 AGTTAGGCTCTGATTGAGTT
1 AGTTAGGCTCTGATTGAGTT
2016706 AGTTAGGCTCTGATTGAGTT
1 AGTTAGGCTCTGATTGAGTT
2016726 A
1 A
2016727 TCAAAAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.39
Consensus pattern (20 bp):
AGTTAGGCTCTGATTGAGTT
Found at i:2017008 original size:16 final size:17
Alignment explanation
Indices: 2016988--2017029 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
2016978 ATTCAAAATA
*
2016988 AAAAATAATTAAAATTT
1 AAAATTAATTAAAATTT
*
2017005 AAAATTATTTAAAA-TT
1 AAAATTAATTAAAATTT
*
2017021 AAATTTAAT
1 AAAATTAAT
2017030 GATTCATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATTAATTAAAATTT
Found at i:2017090 original size:21 final size:22
Alignment explanation
Indices: 2017057--2017107 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
2017047 TATCTCATGT
2017057 TAAATAT-AATATT-TATAATTA
1 TAAATATAAATATTAT-TAATTA
2017078 -AAATATAAATATTATTAATTA
1 TAAATATAAATATTATTAATTA
2017099 TTAAATATA
1 -TAAATATA
2017108 TTAAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 1 0.04
23 7 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAATATAAATATTATTAATTA
Found at i:2017119 original size:17 final size:18
Alignment explanation
Indices: 2017074--2017122 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
2017064 AATATTTATA
*
2017074 ATTAAAA-TATAAATATT
1 ATTAAAATTTTAAATATT
2017091 ATT--AATTATTAAATA-T
1 ATTAAAATT-TTAAATATT
2017107 ATTAAAATTTTAAATA
1 ATTAAAATTTTAAATA
2017123 AACACATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
15 2 0.07
16 5 0.19
17 16 0.59
18 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAAATTTTAAATATT
Found at i:2018961 original size:158 final size:159
Alignment explanation
Indices: 2018676--2018990 Score: 510
Period size: 158 Copynumber: 2.0 Consensus size: 159
2018666 AAGAATCCTT
** *
2018676 TTAATTCGAAATGCCTTTATAAATATTGTCATTTTTTTAATATAAGAAAAAACTCATATGATATT
1 TTAATTCGAAACACCTTTATAAATATTATCATTTTTTTAATATAAGAAAAAACTCATATGATATT
* *
2018741 TCAAATGGTAGGTGTCATAAGAGAATTTTTAAAAGATTATATCTAAATATTAAAAAATAAAAAAT
66 TCAAATGGTAGGTGCCATAAGAGAATTTTTAAAAGATTATATCTAAATATCAAAAAATAAAAAAT
2018806 CATAAAAATTAGATTTAAGATAAATATGG
131 CATAAAAATTAGATTTAAGATAAATATGG
* *
2018835 TTAATTCGAAACACCTTTTTAAATATTATTATTTTTTTAATATAA-AAAAAACTCATATGATA-T
1 TTAATTCGAAACACCTTTATAAATATTATCATTTTTTTAATATAAGAAAAAACTCATATGATATT
* *
2018898 TCTAAATGGT-GAGTGCCATAAGAGAATTTTTAAAGGGTTATATCTAAATATCAAAAAATAAAAA
66 TC-AAATGGTAG-GTGCCATAAGAGAATTTTTAAAAGATTATATCTAAATATCAAAAAATAAAAA
2018962 ATCATAAAAATTAGATTTAAGATAAATAT
129 ATCATAAAAATTAGATTTAAGATAAATAT
2018991 AATCAATAGA
Statistics
Matches: 145, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
157 4 0.03
158 101 0.70
159 40 0.28
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (159 bp):
TTAATTCGAAACACCTTTATAAATATTATCATTTTTTTAATATAAGAAAAAACTCATATGATATT
TCAAATGGTAGGTGCCATAAGAGAATTTTTAAAAGATTATATCTAAATATCAAAAAATAAAAAAT
CATAAAAATTAGATTTAAGATAAATATGG
Found at i:2019893 original size:21 final size:20
Alignment explanation
Indices: 2019856--2019894 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2019846 GATTTAAAAA
**
2019856 ATTTTAAATTTAATTTAATT
1 ATTTTAAAACTAATTTAATT
2019876 ATTTTAAAACTAACTTTAA
1 ATTTTAAAACTAA-TTTAA
2019895 ATTGCTCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTAAAACTAATTTAATT
Found at i:2020474 original size:23 final size:23
Alignment explanation
Indices: 2020444--2020493 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
2020434 AAAACATTAC
2020444 ATATTGTTAGGATCTTGGTTTTG
1 ATATTGTTAGGATCTTGGTTTTG
2020467 ATATTGTTAGGATCTTGGTTTTG
1 ATATTGTTAGGATCTTGGTTTTG
2020490 ATAT
1 ATAT
2020494 AACAAAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.20, C:0.04, G:0.24, T:0.52
Consensus pattern (23 bp):
ATATTGTTAGGATCTTGGTTTTG
Found at i:2020871 original size:13 final size:13
Alignment explanation
Indices: 2020853--2020878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2020843 TACAGCAAGT
2020853 ATGTATCGATACA
1 ATGTATCGATACA
2020866 ATGTATCGATACA
1 ATGTATCGATACA
2020879 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2023038 original size:28 final size:28
Alignment explanation
Indices: 2022998--2023069 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2022988 AAAAAAAAAT
* ** *
2022998 CGGGATTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2023026 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2023054 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2023070 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2023147 original size:52 final size:52
Alignment explanation
Indices: 2023058--2023707 Score: 305
Period size: 52 Copynumber: 12.3 Consensus size: 52
2023048 AAATAACGAG
* ** * * *
2023058 GTTGGAGTATCCTCGATT-GTGAAAAATTGGTATTTTTGGAAATAGAATCGGA
1 GTTGGAGTATCCCCGATTAAAGGAAAATTGGT-GTTTTGGAAATAAAATCGGA
* * * *
2023110 GTTGGAATATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGG-
1 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * ** * *
2023161 GATTGGAGTATCCCCGATT-GAGGAAAAATTAGTGTTTTAGCGATAAAACCGGG
1 G-TTGGAGTATCCCCGATTAAAGG-AAAATTGGTGTTTTGGAAATAAAATCGGA
* * ** * *** * * *
2023214 GTTGGAGTATCCCCTCGGAAATAACGG--GGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTAT-CCC-C-G-ATTAAAGGAAAATTGGTGT-T-TTGGA-AATAAAATCGGA
2023269 GTTGGAGTATCCCCGATTATGAA-G-AAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTA--AAGGAAAATTGGTG--TTTTGGAAATAAAATCGGA
* * * *
2023323 GTTAGAGTATCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* * ** * * *
2023374 GTTGGAATATCCTCGATT-GTGAAAAATTGGTATTTTTGGAAATAGAATCGGA
1 GTTGGAGTATCCCCGATTAAAGGAAAATTGGT-GTTTTGGAAATAAAATCGGA
* * * *
2023426 GTTGGAATATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGG-
1 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * ** * *
2023477 GATTGGAGTATCCCCGATT-GAGGAAAAATTAGTGTTTTAGCGATAAAACCGGG
1 G-TTGGAGTATCCCCGATTAAAGG-AAAATTGGTGTTTTGGAAATAAAATCGGA
* * ** * *** * * *
2023530 GTTGGAGTATCTCCTCGAAAATAACGG--GGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATC-CC-CG--ATTAAAGGAAAATTGGTGT-T-TTGGA-AATAAAATCGGA
2023585 GTTGGAGTATCCCCGATTATGAA-G-AAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTA--AAGGAAAATTGGTG--TTTTGGAAATAAAATCGGA
* * * * *
2023639 GTTAGAGTATCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGGAAATAAAATCGGA
*
2023690 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
2023708 GTGGAGAATT
Statistics
Matches: 454, Mismatches: 102, Indels: 85
0.71 0.16 0.13
Matches are distributed among these distances:
51 88 0.19
52 186 0.41
53 64 0.14
54 62 0.14
55 34 0.07
56 10 0.02
57 10 0.02
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:2023218 original size:104 final size:104
Alignment explanation
Indices: 2023059--2023540 Score: 401
Period size: 104 Copynumber: 4.6 Consensus size: 104
2023049 AATAACGAGG
* * * * * * * *
2023059 TTGGAGTATCCTCGATTG-TGAAAAATTGGTATTTTTGGAAATAGAATCGGAGTTGGAATATCCC
1 TTGGAGTATCCCCGATTGAGGAAAAATTAGTGTTTTAGG-AATAAAACCGGAGTTGGAGTATCCC
2023123 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGA
65 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGA
*
2023163 TTGGAGTATCCCCGATTGAGGAAAAATTAGTGTTTTAGCG-ATAAAACCGGGGTTGGAGTATCCC
1 TTGGAGTATCCCCGATTGAGGAAAAATTAGTGTTTTAG-GAATAAAACCGGAGTTGGAGTAT-CC
* * ** * ** ** * *
2023227 CTCGGAAATAACGG--GGTTGGAGTATCCCCGATGAT-TAA-CGGGG
64 C-C-G-ATTAAAGGAAAATTGGCGT-T--TTGAAAATAAAACCGGGA
* * * * *
2023270 TTGGAGTATCCCCGATT-ATGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATC
1 TTGGAGTATCCCCGATTGAGGAA-AAATTAGTG-TTTTAGG-AATAAAACCGGAGTTGGAGTATC
* * * *
2023334 CCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATC-GGA
63 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGA
* * * * * * * * *
2023374 GTTGGAATATCCTCGATTG-TGAAAAATTGGTATTTTTGGAAATAGAATCGGAGTTGGAATATCC
1 -TTGGAGTATCCCCGATTGAGGAAAAATTAGTGTTTTAGG-AATAAAACCGGAGTTGGAGTATCC
2023438 CCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGA
64 CCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGA
*
2023479 TTGGAGTATCCCCGATTGAGGAAAAATTAGTGTTTTAGCG-ATAAAACCGGGGTTGGAGTATC
1 TTGGAGTATCCCCGATTGAGGAAAAATTAGTGTTTTAG-GAATAAAACCGGAGTTGGAGTATC
2023541 TCCTCGAAAA
Statistics
Matches: 296, Mismatches: 59, Indels: 46
0.74 0.15 0.11
Matches are distributed among these distances:
103 41 0.14
104 105 0.35
105 60 0.20
106 19 0.06
107 33 0.11
108 16 0.05
109 22 0.07
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (104 bp):
TTGGAGTATCCCCGATTGAGGAAAAATTAGTGTTTTAGGAATAAAACCGGAGTTGGAGTATCCCC
GATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGA
Found at i:2023273 original size:27 final size:28
Alignment explanation
Indices: 2023210--2023285 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
2023200 GCGATAAAAC
***
2023210 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
2023238 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
2023265 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2023286 TATGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2023299 original size:212 final size:211
Alignment explanation
Indices: 2022993--2023401 Score: 599
Period size: 212 Copynumber: 1.9 Consensus size: 211
2022983 GAAGAAAAAA
* *
2022993 AAAATCGGGATTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
1 AAAACCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
* * * *
2023058 GTTGGAGTATCCTCGATTGTGAAAAATTGGT-ATTTTTGGAAATAGAATCGGAGTTGGAATATCC
66 GTTGGAGTATCCCCGATTATGAAAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAATATCC
* *
2023122 CCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGG-GATTGGAGTATCCCCGATTGAGGAA
131 CCGATTAAA-GAAAATTAGCGTTTTGAAAATAAAACCGGAG-TTGGAATATCCCCGATTG-GGAA
2023186 AAATTAGTGTTTTAGCGAT
193 AAATTAGTGTTTTAGCGAT
* * *
2023205 AAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGG
1 AAAACCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
* *
2023269 GTTGGAGTATCCCCGATTATGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATC
66 GTTGGAGTATCCCCGATTATGAA-AAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAATATC
* * * * *
2023334 CCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGAAAA
130 CCCGATTAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGGGAAAA
2023399 ATT
195 ATT
2023402 GGTATTTTTG
Statistics
Matches: 176, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
211 36 0.20
212 102 0.58
213 38 0.22
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (211 bp):
AAAACCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
GTTGGAGTATCCCCGATTATGAAAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAATATCC
CCGATTAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGGGAAAAA
TTAGTGTTTTAGCGAT
Found at i:2023589 original size:27 final size:27
Alignment explanation
Indices: 2023517--2023601 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
2023507 AGTGTTTTAG
*
2023517 CGATAAA-ACCGGGGTTGGAGTATCTCC
1 CGATAAATAACGGGGTTGGAGTATC-CC
2023544 TCGA-AAATAACGGGGTTGGAGTATCCC
1 -CGATAAATAACGGGGTTGGAGTATCCC
* *
2023571 CGATGATTAACGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
2023598 CGAT
1 CGAT
2023602 TATGAAGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 3 0.06
27 30 0.58
28 19 0.37
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (27 bp):
CGATAAATAACGGGGTTGGAGTATCCC
Found at i:2023638 original size:316 final size:316
Alignment explanation
Indices: 2023058--2023710 Score: 1261
Period size: 316 Copynumber: 2.1 Consensus size: 316
2023048 AAATAACGAG
*
2023058 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAGAATCGGAGTTGGAATATCCC
1 GTTGGAATATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAGAATCGGAGTTGGAATATCCC
2023123 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGATTGGAGTATCCCCGATTGAGGAAAA
66 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGATTGGAGTATCCCCGATTGAGGAAAA
*
2023188 ATTAGTGTTTTAGCGATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATC
131 ATTAGTGTTTTAGCGATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATC
2023253 CCCGATGATTAACGGGGTTGGAGTATCCCCGATTATGAAGAAATTGGTGTTTTTTGGAAATAAAA
196 CCCGATGATTAACGGGGTTGGAGTATCCCCGATTATGAAGAAATTGGTGTTTTTTGGAAATAAAA
*
2023318 TCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
261 TCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCAGA
2023374 GTTGGAATATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAGAATCGGAGTTGGAATATCCC
1 GTTGGAATATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAGAATCGGAGTTGGAATATCCC
2023439 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGATTGGAGTATCCCCGATTGAGGAAAA
66 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGATTGGAGTATCCCCGATTGAGGAAAA
*
2023504 ATTAGTGTTTTAGCGATAAAACCGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATC
131 ATTAGTGTTTTAGCGATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATC
2023569 CCCGATGATTAACGGGGTTGGAGTATCCCCGATTATGAAGAAATTGGTGTTTTTTGGAAATAAAA
196 CCCGATGATTAACGGGGTTGGAGTATCCCCGATTATGAAGAAATTGGTGTTTTTTGGAAATAAAA
2023634 TCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCAGA
261 TCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCAGA
*
2023690 GTTGGAATATCCCCGATTGTG
1 GTTGGAATATCCTCGATTGTG
2023711 GAGAATTGAG
Statistics
Matches: 332, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
316 332 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (316 bp):
GTTGGAATATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAGAATCGGAGTTGGAATATCCC
CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGATTGGAGTATCCCCGATTGAGGAAAA
ATTAGTGTTTTAGCGATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATC
CCCGATGATTAACGGGGTTGGAGTATCCCCGATTATGAAGAAATTGGTGTTTTTTGGAAATAAAA
TCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCAGA
Found at i:2026093 original size:13 final size:13
Alignment explanation
Indices: 2026075--2026100 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2026065 ACAAAGATCC
2026075 ATGTATCGATACA
1 ATGTATCGATACA
2026088 ATGTATCGATACA
1 ATGTATCGATACA
2026101 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2026096 original size:33 final size:33
Alignment explanation
Indices: 2026054--2026120 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2026044 AAAATTTCCA
***
2026054 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2026087 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2026120 A
1 A
2026121 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2026164 original size:19 final size:18
Alignment explanation
Indices: 2026140--2026207 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
2026130 CAGTAGCTAA
2026140 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
*
2026159 TTATGTATTGATAC--A-
1 TTATGTATCGATACAAAC
2026174 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2026191 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2026208 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.59
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2026184 original size:32 final size:32
Alignment explanation
Indices: 2026143--2026205 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2026133 TAGCTAATTA
* *
2026143 TGTATCGATACAATACTTATGTATTGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2026175 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2026206 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2028183 original size:3 final size:3
Alignment explanation
Indices: 2028175--2028211 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
2028165 TCAACCATCA
* *
2028175 ATG ATG ATG AAG ATG ATA ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
2028212 CTCGGATGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:2032784 original size:13 final size:13
Alignment explanation
Indices: 2032766--2032804 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2032756 GCAATATTCT
2032766 TTGTATCGATACA
1 TTGTATCGATACA
2032779 TTGTATCGATACA
1 TTGTATCGATACA
2032792 TTGTATCGATACA
1 TTGTATCGATACA
2032805 AGGGTTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2032937 original size:21 final size:22
Alignment explanation
Indices: 2032913--2032962 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
2032903 ATTAAATCTT
* *
2032913 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
2032934 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
2032956 --TCAAAAT
1 CTTCAAAAT
2032963 CATTAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:2035286 original size:13 final size:13
Alignment explanation
Indices: 2035268--2035294 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2035258 ACATTATGCT
2035268 TTGTATCGATACA
1 TTGTATCGATACA
2035281 TTGTATCGATACA
1 TTGTATCGATACA
2035294 T
1 T
2035295 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2035324 original size:20 final size:20
Alignment explanation
Indices: 2035280--2035354 Score: 100
Period size: 20 Copynumber: 3.8 Consensus size: 20
2035270 GTATCGATAC
*
2035280 ATTGTATCGATACAT-GTTC-
1 ATTGTATCGATACATAG-ACA
2035299 ATTGTATCGATACATAGACA
1 ATTGTATCGATACATAGACA
* *
2035319 ATTGTATCGATACATGGATA
1 ATTGTATCGATACATAGACA
2035339 ATTGTATCGATACATA
1 ATTGTATCGATACATA
2035355 AAACTGGCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
19 16 0.32
20 34 0.68
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATAGACA
Found at i:2035857 original size:19 final size:21
Alignment explanation
Indices: 2035831--2035886 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
2035821 GTATCGATAT
**
2035831 ATTGTATCGATACATGTTC-A
1 ATTGTATCGATACATGGACAA
2035851 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGACAA
2035871 ATTGTATCGATACATG
1 ATTGTATCGATACATG
2035887 AAATTAGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACATGGACAA
Found at i:2040644 original size:21 final size:20
Alignment explanation
Indices: 2040604--2040642 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
2040594 TTATGTATAA
2040604 ATTTTTTTCAAGCATTAAATC
1 ATTTTTTTCAA-CATTAAATC
2040625 ATTTGTTTTCAA-ATTAAA
1 ATTT-TTTTCAACATTAAA
2040643 ATAACTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (20 bp):
ATTTTTTTCAACATTAAATC
Found at i:2040789 original size:19 final size:20
Alignment explanation
Indices: 2040745--2040794 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
2040735 ATGCTCAGAA
*
2040745 GTATCGATACATATTGCTTT
1 GTATCGATACATATTGCTTG
2040765 GTATCGATACATGA-T-CTTG
1 GTATCGATACAT-ATTGCTTG
2040784 GTATCGATACA
1 GTATCGATACA
2040795 CAGCGAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 14 0.50
20 13 0.46
21 1 0.04
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (20 bp):
GTATCGATACATATTGCTTG
Found at i:2042857 original size:21 final size:21
Alignment explanation
Indices: 2042831--2042886 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
2042821 AGTTCTTATA
2042831 CTTTTGAAGAATTACAAAATG
1 CTTTTGAAGAATTACAAAATG
*
2042852 CTTTTGAAGAATTGCAAAATG
1 CTTTTGAAGAATTACAAAATG
* *
2042873 TTTTTGAATAATTA
1 CTTTTGAAGAATTA
2042887 GCATTAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (21 bp):
CTTTTGAAGAATTACAAAATG
Found at i:2042979 original size:15 final size:15
Alignment explanation
Indices: 2042959--2042996 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2042949 GAATAACTTA
*
2042959 AAAATTGTTGAAAAT
1 AAAATTGTTGAAAAG
*
2042974 AAAATTCTTGAAAAG
1 AAAATTGTTGAAAAG
2042989 AAAATTGT
1 AAAATTGT
2042997 CGAACTAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.32
Consensus pattern (15 bp):
AAAATTGTTGAAAAG
Found at i:2047152 original size:13 final size:13
Alignment explanation
Indices: 2047134--2047160 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2047124 ACATGCTACT
2047134 TTGTATCGATACA
1 TTGTATCGATACA
2047147 TTGTATCGATACA
1 TTGTATCGATACA
2047160 T
1 T
2047161 GTTCAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2047193 original size:21 final size:20
Alignment explanation
Indices: 2047146--2047198 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
2047136 GTATCGATAC
**
2047146 ATTGTATCGATACATGTTCA
1 ATTGTATCGATACATGGACA
2047166 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGAC-A
2047186 ATTGTATCGATAC
1 ATTGTATCGATAC
2047199 TTGAAACTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 15 0.52
20 3 0.10
21 11 0.38
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:2047267 original size:13 final size:13
Alignment explanation
Indices: 2047246--2047276 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2047236 CGATACATGG
*
2047246 TACAATGTATCGA
1 TACATTGTATCGA
2047259 TACATTGTATCGA
1 TACATTGTATCGA
2047272 TACAT
1 TACAT
2047277 AAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2050057 original size:14 final size:14
Alignment explanation
Indices: 2050038--2050065 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2050028 GAGAAGAGCT
2050038 TATTTTTGGAAATC
1 TATTTTTGGAAATC
2050052 TATTTTTGGAAATC
1 TATTTTTGGAAATC
2050066 AAGTCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
TATTTTTGGAAATC
Found at i:2053486 original size:13 final size:13
Alignment explanation
Indices: 2053468--2053506 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
2053458 ACATTCCTTG
2053468 TATCGATACATTA
1 TATCGATACATTA
* *
2053481 TATCGATACAATG
1 TATCGATACATTA
2053494 TATCGATACATTA
1 TATCGATACATTA
2053507 GGTACTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:2055377 original size:18 final size:19
Alignment explanation
Indices: 2055348--2055385 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
2055338 TAAATTTTTA
2055348 ATAAAAAGGGGGAGAAGAT
1 ATAAAAAGGGGGAGAAGAT
2055367 ATAAAAA-GGGGAGAAGAT
1 ATAAAAAGGGGGAGAAGAT
2055385 A
1 A
2055386 ACCGTTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.55, C:0.00, G:0.34, T:0.11
Consensus pattern (19 bp):
ATAAAAAGGGGGAGAAGAT
Found at i:2056018 original size:13 final size:13
Alignment explanation
Indices: 2056000--2056026 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2055990 ACATGCTGCT
2056000 TTGTATCGATACA
1 TTGTATCGATACA
2056013 TTGTATCGATACA
1 TTGTATCGATACA
2056026 T
1 T
2056027 GTTCAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2056059 original size:21 final size:20
Alignment explanation
Indices: 2056012--2056064 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
2056002 GTATCGATAC
**
2056012 ATTGTATCGATACATGTTCA
1 ATTGTATCGATACATGGACA
2056032 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGAC-A
2056052 ATTGTATCGATAC
1 ATTGTATCGATAC
2056065 TTGAAACTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 15 0.52
20 3 0.10
21 11 0.38
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:2056122 original size:20 final size:21
Alignment explanation
Indices: 2056097--2056151 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
2056087 TATCACTATT
* *
2056097 TGTATCGATACATAG-TACAA
1 TGTATCGATACATAGAAAAAA
2056117 TGTATCGATACAT-GAAAAAA
1 TGTATCGATACATAGAAAAAA
2056137 TGTATCGATACATAG
1 TGTATCGATACATAG
2056152 CTTGTAACGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (21 bp):
TGTATCGATACATAGAAAAAA
Found at i:2062771 original size:22 final size:22
Alignment explanation
Indices: 2062743--2062791 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2062733 GAGAGAGATG
2062743 TTTTATTAAGAGG-GAGAAAAAT
1 TTTTATTAAG-GGAGAGAAAAAT
* *
2062765 TTTTATTAAGGGAGAGGAAATT
1 TTTTATTAAGGGAGAGAAAAAT
2062787 TTTTA
1 TTTTA
2062792 AGAGCGAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (22 bp):
TTTTATTAAGGGAGAGAAAAAT
Found at i:2062778 original size:20 final size:23
Alignment explanation
Indices: 2062743--2062789 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
2062733 GAGAGAGATG
2062743 TTTTATTAAGAGGGAGA-AAAAT
1 TTTTATTAAGAGGGAGAGAAAAT
*
2062765 TTTTATT-A-AGGGAGAGGAAAT
1 TTTTATTAAGAGGGAGAGAAAAT
2062786 TTTT
1 TTTT
2062790 TAAGAGCGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (23 bp):
TTTTATTAAGAGGGAGAGAAAAT
Found at i:2063857 original size:20 final size:19
Alignment explanation
Indices: 2063804--2063860 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
2063794 TTGTATCGAT
* *
2063804 ACATTGTGTCGATACATGT
1 ACATTGTATCGATACATGG
* * *
2063823 TCATTGAATCAATACATGG
1 ACATTGTATCGATACATGG
2063842 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2063861 AAACTGGCAG
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2063929 original size:33 final size:32
Alignment explanation
Indices: 2063892--2063954 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
2063882 CCATTGTTTG
2063892 TATCGATACATG-GCACATTGTATCGATACAATA
1 TATCGATACATGAG-A-ATTGTATCGATACAATA
2063925 TATCGATACATGATGAATTGTATCGATACA
1 TATCGATACATGA-GAATTGTATCGATACA
2063955 TTGCTTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TATCGATACATGAGAATTGTATCGATACAATA
Found at i:2071891 original size:19 final size:19
Alignment explanation
Indices: 2071863--2071919 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
2071853 TTGTATCGAT
* *
2071863 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGG
* *
2071882 TCATTGTATCGGTACATGG
1 ACATTGTATCGATACATGG
2071901 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2071920 AAATTGGCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2073207 original size:32 final size:34
Alignment explanation
Indices: 2073146--2073210 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
2073136 TACAAGCCAA
**
2073146 TGTATCGATACAATTTTTTGGTATATCGATACAT
1 TGTATCGATACAATACTTTGGTATATCGATACAT
2073180 TGTATCGATAC-ATACTTT-GTATATCGATACA
1 TGTATCGATACAATACTTTGGTATATCGATACA
2073211 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 5 0.17
34 11 0.38
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (34 bp):
TGTATCGATACAATACTTTGGTATATCGATACAT
Found at i:2073287 original size:20 final size:20
Alignment explanation
Indices: 2073241--2073314 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
2073231 ATCCTAATGA
***
2073241 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
2073262 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
2073282 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
2073302 TATGTATCGATAC
1 CATGTATCGATAC
2073315 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:2075295 original size:21 final size:20
Alignment explanation
Indices: 2075266--2075308 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2075256 GACTAGTGTG
*
2075266 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
* *
2075287 GGGAGTGCCGGTCGTGACCT
1 GGGACTGCCGGTCGCGACCT
2075307 GG
1 GG
2075309 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:2075767 original size:13 final size:13
Alignment explanation
Indices: 2075751--2075787 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2075741 AATCCCCCTA
*
2075751 TATCGATACAGTG
1 TATCGATACAATG
2075764 TATCGATACAATG
1 TATCGATACAATG
2075777 TATCGATACAA
1 TATCGATACAA
2075788 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:2077887 original size:15 final size:15
Alignment explanation
Indices: 2077867--2077897 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2077857 ATTTCGTTTG
*
2077867 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2077882 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2077897 G
1 G
2077898 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2081962 original size:13 final size:13
Alignment explanation
Indices: 2081944--2081969 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2081934 AATTTTTTGG
2081944 TGTATCGATACAT
1 TGTATCGATACAT
2081957 TGTATCGATACAT
1 TGTATCGATACAT
2081970 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2081984 original size:32 final size:34
Alignment explanation
Indices: 2081923--2081987 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
2081913 TACAAGCCAA
**
2081923 TGTATCGATACAATTTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTTGGTGTATCGATACAT
2081957 TGTATCGATAC-ATACTTT-GTGTATCGATACA
1 TGTATCGATACAATACTTTGGTGTATCGATACA
2081988 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 5 0.17
34 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (34 bp):
TGTATCGATACAATACTTTGGTGTATCGATACAT
Found at i:2086118 original size:20 final size:20
Alignment explanation
Indices: 2086093--2086249 Score: 89
Period size: 20 Copynumber: 7.8 Consensus size: 20
2086083 TTTTGATAAT
2086093 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
2086113 TTGTATCGATACATTCCGGGTTTACCCA
1 TTGTATCGATACATT----G-TT---CA
* *
2086141 GATGTATCGATATATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
* *
2086162 TTGTATCGATACATTGCTCT
1 TTGTATCGATACATTGTTCA
*
2086182 TTGTATTGATACATTG-T-A
1 TTGTATCGATACATTGTTCA
*
2086200 ---T-T-GATACATTGCTCA
1 TTGTATCGATACATTGTTCA
2086215 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
2086235 ATGTATCGATACATT
1 TTGTATCGATACATT
2086250 CAGGCATTTT
Statistics
Matches: 108, Mismatches: 11, Indels: 36
0.70 0.07 0.23
Matches are distributed among these distances:
13 9 0.08
14 2 0.02
15 2 0.02
18 1 0.01
19 3 0.03
20 68 0.63
21 3 0.03
23 2 0.02
24 1 0.01
25 2 0.02
28 2 0.02
29 13 0.12
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:2086206 original size:33 final size:33
Alignment explanation
Indices: 2086160--2086229 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
2086150 ATATATTTTG
* *
2086160 CATTGTATCGATACATTGCTCTTTGTATTGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
2086193 CATTGTATTGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
2086226 CATT
1 CATT
2086230 TTACAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:2086229 original size:13 final size:13
Alignment explanation
Indices: 2086182--2086210 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2086172 ACATTGCTCT
2086182 TTGTATTGATACA
1 TTGTATTGATACA
2086195 TTGTATTGATACA
1 TTGTATTGATACA
2086208 TTG
1 TTG
2086211 CTCATTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:2088773 original size:79 final size:79
Alignment explanation
Indices: 2088637--2089441 Score: 953
Period size: 79 Copynumber: 10.3 Consensus size: 79
2088627 TTTTTCTTAA
* ** * * * *
2088637 TCGAAGGGATACTTTAATCCCGGTTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTC
2088702 CAACCCCGTTATTT
66 CAACCCCGTTATTT
*
2088716 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAGTCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTC
* *
2088781 TAACCTCGTTATTT
66 CAACCCCGTTATTT
* * *
2088795 TCGAGGGGACACTCCAACCCCCGTTTTATTTCTAAATCATCAATTTTTC---ATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTC
*
2088857 CAACACCGTTATTT
66 CAACCCCGTTATTT
* * * * *
2088871 TCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCAGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTC
*
2088936 CAACCTCGTTATTT
66 CAACCCCGTTATTT
* ** *
2088950 TCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTGTAGTCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTC
** *
2089015 CAACCCTATTATTC
66 CAACCCCGTTATTT
* * * *
2089029 T-GAGGAGACACTTCAACCCCCGTTTTATTTCTAAAACATCAATTTTTC---ATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTC
* ** *
2089090 TAACATCATTATTT
66 CAACCCCGTTATTT
* * * * * * *
2089104 TCGAGGGAATAC-CCTAACCCTGGCTTTATTTCTAAAATATTAATTTCTCATAATCGAGGATACT
1 TCGAGGGGATACTCC-AACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACT
2089168 CCAACCCCGTTATTT
65 CCAACCCCGTTATTT
* * * * * * * *
2089183 TCAAGTGGATACTCCAATCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCAGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTC
*
2089248 CAACCCTGTTATTT
66 CAACCCCGTTATTT
* * * *
2089262 TTGAGGGGATACTGCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCGTAGTCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTC
2089327 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* * * * * * *
2089341 CCGAGGGGATACTCCAATCCCGATTTTATTTCTAAATCATCGATTTTTCACAATTC-GAGATACT
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAA-TCGGGGATACT
*
2089405 CCAATCCCGTTATTT
65 CCAACCCCGTTATTT
*
2089420 TTGAGGGGATACTCCAACCCCG
1 TCGAGGGGATACTCCAACCCCG
2089442 TTATTATCTC
Statistics
Matches: 613, Mismatches: 103, Indels: 20
0.83 0.14 0.03
Matches are distributed among these distances:
75 23 0.04
76 100 0.16
78 41 0.07
79 445 0.73
80 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (79 bp):
TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTC
CAACCCCGTTATTT
Found at i:2089167 original size:233 final size:232
Alignment explanation
Indices: 2088637--2089441 Score: 1057
Period size: 233 Copynumber: 3.4 Consensus size: 232
2088627 TTTTTCTTAA
* ** * *
2088637 TCGAAGGGATACTTTAATCCCGGTTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTC
1 TCGAGGGGATACTCCAA-CCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGAGGATACTC
*
2088702 CAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCAT
65 CAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCAT
*
2088767 AGTCGGGGATACTCTAACCTCGTTATT-TTC-GAGGGGACACTCCAACCCCCGTTTTATTTCTAA
130 AGTCGGGGATACTCCAACC-C--TATTATTCTGAGGGGACACTCCAACCCCCGTTTTATTTCTAA
*
2088830 ATCATCAATTTTTCATCGGGGATACTCCAACACCGTTATTT
192 AACATCAATTTTTCATCGGGGATACTCCAACACCGTTATTT
2088871 TCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATC-AGGGATACT
1 TCGAGGGGATACTCCAA-CCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGA-GGATACT
* **
2088935 CCAACCTCGTTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTG
64 CCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCA
* *
2089000 TAGTCGGGGATACTCCAACCCTATTATTCTGAGGAGACACTTCAACCCCCGTTTTATTTCTAAAA
129 TAGTCGGGGATACTCCAACCCTATTATTCTGAGGGGACACTCCAACCCCCGTTTTATTTCTAAAA
* * *
2089065 CATCAATTTTTCATCGGGGATACTCTAACATCATTATTT
194 CATCAATTTTTCATCGGGGATACTCCAACACCGTTATTT
*
2089104 TCGAGGGAATAC-CCTAACCCTGGCTTTATTTCTAAAATATTAATTTCTCATAATCGAGGATACT
1 TCGAGGGGATACTCC-AACCC-GGCTTTATTTCTAAAATATTAATTTCTCATAATCGAGGATACT
* * * * *
2089168 CCAACCCCGTTATTTTC-AAGTGGATACTCCAATCCCGGCTTTATTTCTAAAATATTAATTTCTC
64 CCAACCCCGTTATTTTCGAAG-GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTC
* * * * * * *
2089232 ATAATCAGGGATACTCCAACCCTGTTATTTTTGAGGGGATACTGCAACCCCGGTTTTATTTCTAA
128 ATAGTCGGGGATACTCCAACCCTATTA-TTCTGAGGGGACACTCCAACCCCCGTTTTATTTCTAA
*
2089297 AACATCAATTTTTCGTAGTCGGGGATACTCCAACCCCGTTATTT
192 AACATCAATTTTTC--A-TCGGGGATACTCCAACACCGTTATTT
* ** ** * *
2089341 CCGAGGGGATACTCCAATCCCGATTTTATTTCT-AAATCATCGATTTTTCACAATTCGA-GATAC
1 TCGAGGGGATACTCCAA-CCCGGCTTTATTTCTAAAAT-ATTAATTTCTCATAA-TCGAGGATAC
* * *
2089404 TCCAATCCCGTTATTTTTGAGGGGATACTCCAACCCCG
63 TCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCG
2089442 TTATTATCTC
Statistics
Matches: 505, Mismatches: 50, Indels: 29
0.86 0.09 0.05
Matches are distributed among these distances:
231 4 0.01
232 11 0.02
233 199 0.39
234 184 0.36
236 5 0.01
237 91 0.18
238 11 0.02
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (232 bp):
TCGAGGGGATACTCCAACCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGAGGATACTCC
AACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATA
GTCGGGGATACTCCAACCCTATTATTCTGAGGGGACACTCCAACCCCCGTTTTATTTCTAAAACA
TCAATTTTTCATCGGGGATACTCCAACACCGTTATTT
Found at i:2089207 original size:312 final size:310
Alignment explanation
Indices: 2088637--2089390 Score: 1041
Period size: 312 Copynumber: 2.4 Consensus size: 310
2088627 TTTTTCTTAA
** * * * * * *
2088637 TCGAAGGGATACTTTAATCCCGGTTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTC
1 TCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCGTAGTCGGGGATACTC
* *
2088702 CAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCAT
66 CAACCCCGTTATTCT-GAGGGGATACTCCAACCCCCGTTTTATTTCTAAAACATCAATTTTTC--
* * * *
2088767 AGTCGGGGATACTCTAACCTCGTTATTTTCGAGGGGACACTCCAACCCCCGTTTTATTTCTAAAT
128 AGTCGGGGATACTCTAACATCATTATTTTCGAGGGAACACTCCAACCCCCGCTTTATTTCTAAAT
* * *
2088832 CATCAATTTTTCATCGGGGATACTCCAACACCGTTATTTTCGAGGGGATACTCCAACCCCGGCTT
193 CATCAATTTTTAATCGAGGATACTCCAACACCGTTATTTTCAAGGGGATACTCCAACCCCGGCTT
2088897 TATTTCTAAAATATTAATTTCTCATAATCAGGGATACTCCAA-CCTCGTTATTT
258 TATTTCTAAAATATTAATTTCTCATAATCAGGGATACTCCAACCCT-GTTATTT
*
2088950 TCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTGTAGTCGGGGATACTC
1 TCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCGTAGTCGGGGATACTC
** * * *
2089015 CAACCCTATTATTCTGAGGAGACACTTCAACCCCCGTTTTATTTCTAAAACATCAATTTTTCA-T
66 CAACCCCGTTATTCTGAGGGGATACTCCAACCCCCGTTTTATTTCTAAAACATCAATTTTTCAGT
* **
2089079 CGGGGATACTCTAACATCATTATTTTCGAGGGAATAC-CCTAACCCTGGCTTTATTTCTAAAAT-
131 CGGGGATACTCTAACATCATTATTTTCGAGGGAACACTCC-AACCCCCGCTTTATTTCT-AAATC
* * * *
2089142 ATTAATTTCTCATAATCGAGGATACTCCAACCCCGTTATTTTCAAGTGGATACTCCAATCCCGGC
194 ATCAATTT-T--TAATCGAGGATACTCCAACACCGTTATTTTCAAGGGGATACTCCAACCCCGGC
2089207 TTTATTTCTAAAATATTAATTTCTCATAATCAGGGATACTCCAACCCTGTTATTT
256 TTTATTTCTAAAATATTAATTTCTCATAATCAGGGATACTCCAACCCTGTTATTT
* * *
2089262 TTGAGGGGATACTGCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCGTAGTCGGGGATACTC
1 TCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCGTAGTCGGGGATACTC
* * * *
2089327 CAACCCCGTTATTTCCGAGGGGATACTCCAA-TCCCGATTTTATTTCTAAATCATCGATTTTTCA
66 CAACCCCGTTA-TTCTGAGGGGATACTCCAACCCCCG-TTTTATTTCTAAAACATCAATTTTTCA
2089391 CAATTCGAGA
Statistics
Matches: 390, Mismatches: 43, Indels: 16
0.87 0.10 0.04
Matches are distributed among these distances:
308 2 0.01
309 56 0.14
310 6 0.02
312 215 0.55
313 111 0.28
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (310 bp):
TCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCGTAGTCGGGGATACTC
CAACCCCGTTATTCTGAGGGGATACTCCAACCCCCGTTTTATTTCTAAAACATCAATTTTTCAGT
CGGGGATACTCTAACATCATTATTTTCGAGGGAACACTCCAACCCCCGCTTTATTTCTAAATCAT
CAATTTTTAATCGAGGATACTCCAACACCGTTATTTTCAAGGGGATACTCCAACCCCGGCTTTAT
TTCTAAAATATTAATTTCTCATAATCAGGGATACTCCAACCCTGTTATTT
Found at i:2100674 original size:2 final size:2
Alignment explanation
Indices: 2100667--2100705 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2100657 GTAAATTTCC
2100667 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2100706 GTCTATTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2103572 original size:13 final size:13
Alignment explanation
Indices: 2103554--2103578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2103544 TTCATCCCCC
2103554 GAGGAAAATATGT
1 GAGGAAAATATGT
2103567 GAGGAAAATATG
1 GAGGAAAATATG
2103579 CTAGGGCCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (13 bp):
GAGGAAAATATGT
Found at i:2104278 original size:3 final size:3
Alignment explanation
Indices: 2104270--2104309 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
2104260 TTTATATCTG
*
2104270 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2104310 CTTTTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2115597 original size:7 final size:6
Alignment explanation
Indices: 2115591--2115646 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 6
2115581 AAGGAGAAAG
*
2115591 GAAAAA GAAAAA GAAAAA -AAAAGA AAAAAA GAAAGAA -AAAAA GAGAAAA
1 GAAAAA GAAAAA GAAAAA GAAAA-A GAAAAA GAAA-AA GAAAAA GA-AAAA
2115640 GAGAAAA
1 GA-AAAA
2115647 AAAGAGGCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
5 6 0.14
6 21 0.48
7 17 0.39
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:2115613 original size:10 final size:10
Alignment explanation
Indices: 2115593--2115639 Score: 58
Period size: 11 Copynumber: 4.4 Consensus size: 10
2115583 GGAGAAAGGA
2115593 AAAAGAAAAAG
1 AAAA-AAAAAG
2115604 AAAAAAAAAG
1 AAAAAAAAAG
2115614 AAAAAAAGAAAG
1 -AAAAAA-AAAG
*
2115626 AAAAAAAGAG
1 AAAAAAAAAG
2115636 AAAA
1 AAAA
2115640 GAGAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
10 13 0.39
11 16 0.48
12 4 0.12
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:2115616 original size:22 final size:22
Alignment explanation
Indices: 2115591--2115647 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 22
2115581 AAGGAGAAAG
2115591 GAAAAAGAAAAAGAAAAAAAAA
1 GAAAAAGAAAAAGAAAAAAAAA
*
2115613 GAAAAA-AAGAAAGAAAAAAAGA
1 GAAAAAGAA-AAAGAAAAAAAAA
2115635 GAAAAGAGAAAAA
1 GAAAA-AGAAAAA
2115648 AAGAGGCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 2 0.06
22 23 0.74
23 4 0.13
24 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (22 bp):
GAAAAAGAAAAAGAAAAAAAAA
Found at i:2115617 original size:8 final size:8
Alignment explanation
Indices: 2115598--2115651 Score: 58
Period size: 8 Copynumber: 6.9 Consensus size: 8
2115588 AAGGAAAAAG
2115598 AAAAAGAA
1 AAAAAGAA
2115606 AAAAA-AA
1 AAAAAGAA
*
2115613 GAAAA-AA
1 AAAAAGAA
*
2115620 AGAAAGAA
1 AAAAAGAA
2115628 AAAAAGAGA
1 AAAAAGA-A
*
2115637 AAAGAGAA
1 AAAAAGAA
2115645 AAAAAGA
1 AAAAAGA
2115652 GGCTTAGGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
7 11 0.29
8 20 0.53
9 7 0.18
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:2115631 original size:29 final size:28
Alignment explanation
Indices: 2115594--2115651 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
2115584 GAGAAAGGAA
2115594 AAAG-AAAAAGAAAAAAAAAGAAAAAAAG
1 AAAGAAAAAAG-AAAAAAAAGAAAAAAAG
* *
2115622 AAAGAAAAAAAGAGAAAAGAGAAAAAAAG
1 AAAG-AAAAAAGAAAAAAAAGAAAAAAAG
2115651 A
1 A
2115652 GGCTTAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.15
29 16 0.62
30 6 0.23
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (28 bp):
AAAGAAAAAAGAAAAAAAAGAAAAAAAG
Found at i:2115649 original size:10 final size:10
Alignment explanation
Indices: 2115598--2115652 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
2115588 AAGGAAAAAG
2115598 AAAAAGA-AA
1 AAAAAGAGAA
2115607 AAAAA-AGAA
1 AAAAAGAGAA
2115616 AAAAAGAAAGAA
1 AAAAAG--AGAA
2115628 AAAAAGAG--
1 AAAAAGAGAA
2115636 -AAAAGAGAA
1 AAAAAGAGAA
2115645 AAAAAGAG
1 AAAAAGAG
2115653 GCTTAGGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
7 7 0.18
8 1 0.03
9 12 0.31
10 9 0.23
12 10 0.26
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAGAGAA
Found at i:2116590 original size:18 final size:18
Alignment explanation
Indices: 2116567--2116615 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
2116557 ATAGTCACTG
*
2116567 AAAAAAGTGTTTTCGAAC
1 AAAAAAGTATTTTCGAAC
*
2116585 AAAAAATTATTTTCGAACC
1 AAAAAAGTATTTTCGAA-C
*
2116604 CAAAAAG-ATTTT
1 AAAAAAGTATTTT
2116616 TTATTGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (18 bp):
AAAAAAGTATTTTCGAAC
Found at i:2117243 original size:16 final size:16
Alignment explanation
Indices: 2117222--2117254 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2117212 TGAAATAATT
*
2117222 TTGGGTTATATATAGG
1 TTGGGTCATATATAGG
2117238 TTGGGTCATATATAGG
1 TTGGGTCATATATAGG
2117254 T
1 T
2117255 CCCATGAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.30, T:0.42
Consensus pattern (16 bp):
TTGGGTCATATATAGG
Found at i:2121535 original size:20 final size:18
Alignment explanation
Indices: 2121510--2121548 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2121500 TTTAAAATAA
2121510 AAAACACTTGAAATTATTTG
1 AAAACA-TT-AAATTATTTG
*
2121530 AAAACATTTAATTATTTG
1 AAAACATTAAATTATTTG
2121548 A
1 A
2121549 TAATATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (18 bp):
AAAACATTAAATTATTTG
Found at i:2122331 original size:5 final size:5
Alignment explanation
Indices: 2122321--2122346 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2122311 ATTTTCATAA
2122321 AAATC AAATC AAATC AAATC AAATC A
1 AAATC AAATC AAATC AAATC AAATC A
2122347 TGATTATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATC
Found at i:2123397 original size:2 final size:2
Alignment explanation
Indices: 2123390--2123427 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2123380 TGAATTCTGA
2123390 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2123428 TATGAAAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2124099 original size:3 final size:3
Alignment explanation
Indices: 2124085--2124122 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
2124075 AATACATTCG
*
2124085 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2124123 TAAACCTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2124464 original size:19 final size:19
Alignment explanation
Indices: 2124440--2124485 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
2124430 AATCTTTCCC
2124440 TTTTTTCTATT-TCCTTCTA
1 TTTTTTCT-TTCTCCTTCTA
*
2124459 TTTTTTCTTTCTCGTTCTA
1 TTTTTTCTTTCTCCTTCTA
2124478 TTTTTTCT
1 TTTTTTCT
2124486 CTTTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTTCTTTCTCCTTCTA
Found at i:2124963 original size:21 final size:21
Alignment explanation
Indices: 2124925--2124980 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
2124915 TTAATTAATA
2124925 TATTATTTA-ATT-TT-AAAT
1 TATTATTTATATTATTAAAAT
2124943 TATTATTTATATTATTAAAAT
1 TATTATTTATATTATTAAAAT
*
2124964 T-TTATTTTTAATTATTA
1 TATTATTTAT-ATTATTA
2124981 GTTATATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 9 0.27
19 3 0.09
20 9 0.27
21 12 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATTTATATTATTAAAAT
Found at i:2124974 original size:40 final size:41
Alignment explanation
Indices: 2124925--2125001 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
2124915 TTAATTAATA
*
2124925 TATTATTTAATT-TTAAATTAT-TATTTATATTATTAAAATTT
1 TATTATTTAATTATT-AATTATATATTT-TATAATTAAAATTT
*
2124966 TATT-TTTAATTATTAGTTATATATTTTATAATTAAA
1 TATTATTTAATTATTAATTATATATTTTATAATTAAA
2125002 TTTAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
40 21 0.66
41 11 0.34
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (41 bp):
TATTATTTAATTATTAATTATATATTTTATAATTAAAATTT
Found at i:2126003 original size:18 final size:18
Alignment explanation
Indices: 2125972--2126023 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
2125962 AATTAACTAC
2125972 TAATT-TAT-TAAAA-TA
1 TAATTATATATAAAATTA
2125987 TTAATTATATATAAAATTA
1 -TAATTATATATAAAATTA
**
2126006 TAAAAATATATAAAATTA
1 TAATTATATATAAAATTA
2126024 ATTAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 5 0.16
17 3 0.10
18 21 0.68
19 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATTATATATAAAATTA
Found at i:2126489 original size:24 final size:24
Alignment explanation
Indices: 2126462--2126508 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
2126452 TAGACTCTAA
2126462 TAATAAAAAAATTATT-AAATTAAT
1 TAATAAAAAAATT-TTCAAATTAAT
2126486 TAATAAAAAAATTTTCAAATTAA
1 TAATAAAAAAATTTTCAAATTAA
2126509 ATAGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
TAATAAAAAAATTTTCAAATTAAT
Found at i:2126903 original size:37 final size:36
Alignment explanation
Indices: 2126849--2126922 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
2126839 ATTAAATATA
* *
2126849 TAATTTTAATATTATATAAATATTAAAT-ATAATAAT
1 TAATTTTAAAATTATATAAAAATTAAATAAT-ATAAT
*
2126885 TAATTATTAAAATTATATAAAAATTTAATAATATAAT
1 TAATT-TTAAAATTATATAAAAATTAAATAATATAAT
2126922 T
1 T
2126923 TTTATTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 5 0.15
37 26 0.79
38 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (36 bp):
TAATTTTAAAATTATATAAAAATTAAATAATATAAT
Found at i:2126991 original size:23 final size:22
Alignment explanation
Indices: 2126937--2126984 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
2126927 TTATATAATT
*
2126937 AAAAAT-TTTAAAATTTAAATA
1 AAAAATATTTAAAAATTAAATA
2126958 AAAAATTATTTAAAAATTAATATA
1 AAAAA-TATTTAAAAATTAA-ATA
2126982 AAA
1 AAA
2126985 TAAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 1 0.04
23 11 0.48
24 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAAATATTTAAAAATTAAATA
Found at i:2127102 original size:22 final size:20
Alignment explanation
Indices: 2127077--2127116 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2127067 TGTATTAAAA
2127077 TAAATAAATTTTTAATTTTTAT
1 TAAATAAA--TTTAATTTTTAT
*
2127099 TAAATTAATTTAATTTTT
1 TAAATAAATTTAATTTTT
2127117 TAAAATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TAAATAAATTTAATTTTTAT
Found at i:2132283 original size:18 final size:18
Alignment explanation
Indices: 2132207--2132285 Score: 65
Period size: 18 Copynumber: 4.1 Consensus size: 18
2132197 TATAATTTTA
2132207 TTTAAAATATTT-TATAT
1 TTTAAAATATTTATATAT
2132224 TTATATAAAT-TTTA-ATAT
1 TT-TA-AAATATTTATATAT
2132242 TTTAATAATTAATATTACATATAT
1 TTTAA-AA-T-AT-TT--ATATAT
2132266 TTTAAAATATTTATATAT
1 TTTAAAATATTTATATAT
2132284 TT
1 TT
2132286 ATATTATATT
Statistics
Matches: 51, Mismatches: 0, Indels: 21
0.71 0.00 0.29
Matches are distributed among these distances:
16 1 0.02
17 6 0.12
18 20 0.39
19 4 0.08
20 3 0.06
21 4 0.08
22 1 0.02
23 3 0.06
24 9 0.18
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAAAATATTTATATAT
Found at i:2132303 original size:77 final size:76
Alignment explanation
Indices: 2132153--2132303 Score: 164
Period size: 77 Copynumber: 2.0 Consensus size: 76
2132143 TTTATTAATT
* * ** * *
2132153 TAAATTTAATAATTTAATAATTTATATCATATTTTTTATCATATTATAATTTTATTTAAAATATT
1 TAAATTTAATAATTTAATAATTAATATCATATATTTTAAAATATTATAATTATATTTAAAATATA
2132218 TTATATTTATA
66 TTATATTTATA
* * *
2132229 TAAATTTTAATATTTTAATAATTAATATTACATATATTTTAAAATATT-T-A-TATATTTATATT
1 TAAA-TTTAATAATTTAATAATTAATA-T-CATATATTTTAAAATATTATAATTATATTTAAAAT
2132291 ATATTATAATTTA
63 ATATTAT-ATTTA
2132304 ATTTTTTTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
76 19 0.31
77 26 0.42
78 2 0.03
79 15 0.24
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (76 bp):
TAAATTTAATAATTTAATAATTAATATCATATATTTTAAAATATTATAATTATATTTAAAATATA
TTATATTTATA
Found at i:2132838 original size:21 final size:20
Alignment explanation
Indices: 2132794--2132832 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2132784 AAATTTATCA
*
2132794 AATTGATAAAAATCTAATTT
1 AATTAATAAAAATCTAATTT
2132814 AATTAATAAAAAT-TAATTT
1 AATTAATAAAAATCTAATTT
2132833 TTAATTGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
AATTAATAAAAATCTAATTT
Found at i:2133222 original size:22 final size:22
Alignment explanation
Indices: 2133187--2133252 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
2133177 AATTATTTAA
**
2133187 TTATTAATAAATAAAAAATTAT
1 TTATTAATCTATAAAAAATTAT
* *
2133209 TTATTTATCTATAAATTAA-TAT
1 TTATTAATCTATAAA-AAATTAT
* *
2133231 TTATTAATTTTTAAAAAATTAT
1 TTATTAATCTATAAAAAATTAT
2133253 ATGTTTCAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTATTAATCTATAAAAAATTAT
Found at i:2133235 original size:26 final size:26
Alignment explanation
Indices: 2133174--2133224 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2133164 ATTATTTTAT
*
2133174 AAAAATTATTTAATTATTAATAAATA
1 AAAAATTATTTATTTATTAATAAATA
2133200 AAAAATTATTTATTTATCT-ATAAAT
1 AAAAATTATTTATTTAT-TAATAAAT
2133225 TAATATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
AAAAATTATTTATTTATTAATAAATA
Found at i:2135842 original size:167 final size:164
Alignment explanation
Indices: 2135623--2135947 Score: 415
Period size: 167 Copynumber: 2.0 Consensus size: 164
2135613 AAATTAATTC
* * *
2135623 ATTTTCATGAGTTTTTTATTTTTTCTTGAAATTTTCTTTTTTTTTTAAATACGGTGTTTTCTA-T
1 ATTTTCATGAGTTTTTTATTTTTTCTTGAAA-TCTCTTTTTTTTTGAAATACGATGTTTTCTACT
* *
2135687 TTCGT-AAATTTTTTCGAGGGGAGTTTTCTCAGTTTTTAATTTTTAAAATTCATCAAACATCATT
65 CT-GTGAAATTTTTTCGAGGGG-GTTTTCTCAGTTTTTAATTTTTAAAATTCATCAAACACCATT
* * *
2135751 ATTTGAT-TCATATTAATTTAGTTTTCAAAATTCATCT
128 ATTT-ATATCATATTAAATCAGTTTTAAAAATTCATCT
* *
2135788 ATTTTCTTGAGTTTTTGATTTTTTTTCCTTGAAA-CTCTTATTTTTTTGAAATACGATGTTTTCT
1 ATTTTCATGAGTTTTT--TATTTTTT-CTTGAAATCTCTT-TTTTTTTGAAATACGATGTTTTCT
** ** *
2135852 ACTCTGTGATTTTTTTTCGAGGGGGTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATACCAT
62 ACTCTGTGAAATTTTTTCGAGGGGGTTTTCTCAGTTTTTAATTTTTAAAATTCATCAAACACCAT
2135917 TATTTATATCATATTAAATCAGTTTTAAAAA
127 TATTTATATCATATTAAATCAGTTTTAAAAA
2135948 ATTCTTTCAT
Statistics
Matches: 138, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
165 15 0.11
166 6 0.04
167 94 0.68
168 23 0.17
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (164 bp):
ATTTTCATGAGTTTTTTATTTTTTCTTGAAATCTCTTTTTTTTTGAAATACGATGTTTTCTACTC
TGTGAAATTTTTTCGAGGGGGTTTTCTCAGTTTTTAATTTTTAAAATTCATCAAACACCATTATT
TATATCATATTAAATCAGTTTTAAAAATTCATCT
Found at i:2135987 original size:167 final size:166
Alignment explanation
Indices: 2135657--2136038 Score: 407
Period size: 167 Copynumber: 2.3 Consensus size: 166
2135647 CTTGAAATTT
* * *
2135657 TCTTTTTTTTTTAAATACGGTGTTTTCTATTTCGTAAATTTTTTCGAGGGGAGTTTTCTCAGTTT
1 TCTTTTTTTTTGAAATACGATGTTTTCTATCTCGTAAATTTTTTCGAGGGGAGTTTTCTCAGTTT
* * * *
2135722 TTAATTTTTAAAATTCATCAAACATCATTATTTGATTCATATTAATTTAGTTTTCAAAATTCATC
66 TTAATTTTTAAAATTCATCAAACACCATTATTTGATTCATATTAAATCAGTTTTAAAAATTCATC
* * * * * *
2135787 TATTTTCTTGAGTTTTTGATTTTTTTTCCTTGAAAC
131 TATTTTCTTAAATGTCTGATATTTTTCCCTTGAAAC
** **
2135823 TCTTATTTTTTTGAAATACGATGTTTTCTA-CTCTGTGATTTTTTTTCGAGGGG-GTTTTCTTGG
1 TCTT-TTTTTTTGAAATACGATGTTTTCTATCTC-GT-AAATTTTTTCGAGGGGAGTTTTCTCAG
*
2135886 TTTTTAATTTTTAAAATTCATCAAATACCATTATTT-ATATCATATTAAATCAGTTTTAAAAAAT
63 TTTTTAATTTTTAAAATTCATCAAACACCATTATTTGAT-TCATATTAAATCAGTTTT-AAAAAT
*
2135950 TC-TTTCATTTTCTTAAATGTCTGA-ATTTTTCCCTTGAAATC
126 TCATCT-ATTTTCTTAAATGTCTGATATTTTTCCCTTGAAA-C
* ** * * * * *
2135991 CCCATTTTCTTGAAAAATCGA-GTTTTCTATTTCATAAATATTTTCGAG
1 TCTTTTTTTTTGAAATA-CGATGTTTTCTATCTCGTAAATTTTTTCGAG
2136039 AGAATTTTCT
Statistics
Matches: 178, Mismatches: 29, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
166 18 0.10
167 118 0.66
168 42 0.24
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (166 bp):
TCTTTTTTTTTGAAATACGATGTTTTCTATCTCGTAAATTTTTTCGAGGGGAGTTTTCTCAGTTT
TTAATTTTTAAAATTCATCAAACACCATTATTTGATTCATATTAAATCAGTTTTAAAAATTCATC
TATTTTCTTAAATGTCTGATATTTTTCCCTTGAAAC
Found at i:2136652 original size:11 final size:12
Alignment explanation
Indices: 2136631--2136696 Score: 59
Period size: 12 Copynumber: 5.5 Consensus size: 12
2136621 AACTTAGCTG
2136631 AAAAGATAGAAA
1 AAAAGATAGAAA
2136643 AAAAGA-AGAAA
1 AAAAGATAGAAA
2136654 GAAAAGA-A-AAA
1 -AAAAGATAGAAA
2136665 GAAAA-ATAGAGAA
1 -AAAAGATAGA-AA
*
2136678 AATAGATAGAAA
1 AAAAGATAGAAA
2136690 AACAAGA
1 AA-AAGA
2136697 AAACTAAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
10 1 0.02
11 14 0.30
12 21 0.46
13 10 0.22
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (12 bp):
AAAAGATAGAAA
Found at i:2136656 original size:15 final size:15
Alignment explanation
Indices: 2136631--2136690 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
2136621 AACTTAGCTG
*
2136631 AAAAGATAGAAAA-A
1 AAAAGAAAGAAAAGA
2136645 AAGAAGAAAGAAAAGA
1 AA-AAGAAAGAAAAGA
2136661 AAAAGAAA-AATAGAGA
1 AAAAGAAAGAA-A-AGA
*
2136677 AAATAGATAGAAAA
1 AAA-AGAAAGAAAA
2136691 ACAAGAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 4 0.11
15 17 0.45
16 10 0.26
17 5 0.13
18 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:2138037 original size:150 final size:149
Alignment explanation
Indices: 2137756--2138043 Score: 390
Period size: 150 Copynumber: 1.9 Consensus size: 149
2137746 TTTCAAATAT
* *
2137756 AAATAAATATCAATTATTTTCAAGTTTTTTATATTCCTATGGGTATCCGTAAGGGTATAAAAGAT
1 AAATAAATATCAATAATTTTCAAGTCTTTTATATTCCTATGGGTATCCGTAAGGGTATAAAAGAT
* *
2137821 TTCGAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTAGAAATAAT
66 TTC-AAAAACTTTTCGTATCTTTTCAGGTATCCATCAAGGTACGAAATGATTTTTTAGAAATAAT
2137886 TAAATTAACTCCCCTCACTA
130 TAAATTAACTCCCCTCACTA
* *
2137906 AAATAAATATTAATAATTTTTAA-TCTTTTATATTCCTATGGGTATCCG-AAGGGGTATTAAAAG
1 AAATAAATATCAATAATTTTCAAGTCTTTTATATTCCTATGGGTATCCGTAA-GGGTA-TAAAAG
* *
2137969 ATTTC-AAAATTTTTCGTAT-TTTGGT-AGGTTTCCATCAAGGTACGAAATGACATTTTTTGAGA
64 ATTTCAAAAACTTTTCGTATCTTT--TCAGGTATCCATCAAGGTACGAAATG--ATTTTTT-AGA
2138031 AA-AATTAAATTAA
124 AATAATTAAATTAA
2138044 ACATGTGAAA
Statistics
Matches: 123, Mismatches: 8, Indels: 14
0.85 0.06 0.10
Matches are distributed among these distances:
147 3 0.02
148 36 0.29
149 30 0.24
150 49 0.40
151 5 0.04
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (149 bp):
AAATAAATATCAATAATTTTCAAGTCTTTTATATTCCTATGGGTATCCGTAAGGGTATAAAAGAT
TTCAAAAACTTTTCGTATCTTTTCAGGTATCCATCAAGGTACGAAATGATTTTTTAGAAATAATT
AAATTAACTCCCCTCACTA
Found at i:2138310 original size:443 final size:442
Alignment explanation
Indices: 2137796--2138682 Score: 1614
Period size: 443 Copynumber: 2.0 Consensus size: 442
2137786 ATATTCCTAT
2137796 GGGTATCCGTAAGGGTATAAAAGATTTCGAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGG
1 GGGTATCCGTAAGGGTATAAAAGATTTCGAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGG
2137861 TACGAAATGATTTTTTAGAAATAATTAAATTAACTCCCCTCACTAAAATAAATATTAATAATTTT
66 TACGAAATGATTTTTTAGAAATAATTAAATTAACTCCCCTCACTAAAATAAATATTAATAATTTT
* *
2137926 TAATCTTTTATATTCCTATGGGTATCCGAAGGGGTATTAAAAGATTTCAAAATTTTTCGTATTTT
131 TAATCTTTTATATTCCTATAGGTATCAGAAGGGGTATTAAAAGATTTCAAAATTTTTCGTATTTT
* *
2137991 GGTAGGTTTCCATCAAGGTACGAAATGACATTTTTTGAGAAAAATTAAATTAAACATGTGAAATC
196 GGCAGGTTTCCATCAAGGTACGAAATGACATTTTTTGAGAAAAATTAAATTAAACATATGAAATC
*
2138056 TTTAAAAGGAAAATTTATAAAATAAAATAACAAATGAAAGCAAAATATGCGTGCAATAATAAAAA
261 TCTAAAAGGAAAATTTATAAAATAAAATAACAAATGAAAGCAAAATATGCGTGCAATAATAAAAA
2138121 TTTCAAATTTCCTTTGTCAATCACTAAGTAAAATCGCTGTTTATCTTGGTGTTCATTTTTTA-TT
326 TTTCAAATTTCCTTTGTCAATCACTAAGTAAAATCGCTGTTTATCTTGGTGTTCATTTTTTACTT
2138185 CAGTTTTGTTTATTATTCCTTCATTAAGAGGTAAGACACAACTCAGAACTTAGC
391 -AG-TTTGTTTATTATTCCTTCATTAAGAGGTAAGACACAACTCAGAACTTAGC
*
2138239 GGGTATTCGTAAGGGTATAAAAGATTTCGAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGG
1 GGGTATCCGTAAGGGTATAAAAGATTTCGAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGG
* * *
2138304 TACGAAATGATTTTTTAGAAATAATTAAATTAACTCCCTTTACTAAAATAAATATTAATCATTTT
66 TACGAAATGATTTTTTAGAAATAATTAAATTAACTCCCCTCACTAAAATAAATATTAATAATTTT
*
2138369 TAATCTTTTATATTCCTATAGGTATCAGTAGGGGTATTAAAAGATTTCAAAATTTTTCGTATTTT
131 TAATCTTTTATATTCCTATAGGTATCAGAAGGGGTATTAAAAGATTTCAAAATTTTTCGTATTTT
*
2138434 GGCATGTTTCCATCAAGGTACGAAATGACATTTTTTGAGAAAAATTAAATTAAACATATGAAATC
196 GGCAGGTTTCCATCAAGGTACGAAATGACATTTTTTGAGAAAAATTAAATTAAACATATGAAATC
* *
2138499 TCTAAAAGGAAAATTTATAAAATAAAATAATAAATGAAAGCAAAATTTGCGTGCAATAATAAAAA
261 TCTAAAAGGAAAATTTATAAAATAAAATAACAAATGAAAGCAAAATATGCGTGCAATAATAAAAA
*
2138564 TTTCAAATTTCCTTTGTCAATCACTAAGTAAAATCGTTGTTTATCTTGGTGTTCATTTTTTACTT
326 TTTCAAATTTCCTTTGTCAATCACTAAGTAAAATCGCTGTTTATCTTGGTGTTCATTTTTTACTT
*
2138629 AGTTTGTTTATTATTCCTTCATTAGGAGGTAAGACACAACTCAGAACTTAGC
391 AGTTTGTTTATTATTCCTTCATTAAGAGGTAAGACACAACTCAGAACTTAGC
2138681 GG
1 GG
2138683 TCAATATTAG
Statistics
Matches: 428, Mismatches: 15, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
442 51 0.12
443 375 0.88
444 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (442 bp):
GGGTATCCGTAAGGGTATAAAAGATTTCGAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGG
TACGAAATGATTTTTTAGAAATAATTAAATTAACTCCCCTCACTAAAATAAATATTAATAATTTT
TAATCTTTTATATTCCTATAGGTATCAGAAGGGGTATTAAAAGATTTCAAAATTTTTCGTATTTT
GGCAGGTTTCCATCAAGGTACGAAATGACATTTTTTGAGAAAAATTAAATTAAACATATGAAATC
TCTAAAAGGAAAATTTATAAAATAAAATAACAAATGAAAGCAAAATATGCGTGCAATAATAAAAA
TTTCAAATTTCCTTTGTCAATCACTAAGTAAAATCGCTGTTTATCTTGGTGTTCATTTTTTACTT
AGTTTGTTTATTATTCCTTCATTAAGAGGTAAGACACAACTCAGAACTTAGC
Found at i:2139181 original size:156 final size:155
Alignment explanation
Indices: 2138960--2139645 Score: 697
Period size: 154 Copynumber: 4.4 Consensus size: 155
2138950 ATTTGTTATG
* * * * *
2138960 AAACCAAGTCCTAGGTTGCCACCGAGTCTGCTTTTATGCCAAACGTGGGTATTTAGGATATGTTC
1 AAACCAAGTCTTAGGTTGTCACCGAGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTC
* * *
2139025 ATTCCTTTTATAGTTCTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTAT-C
66 A-CCCTTTTATAG-TCCTTTTAAGTCCTTTAGGGTTACCGAGATACTTTCACGTCGAAGGTATAC
*
2139089 CCCTAGGGGCATTTTCAT-ATTTTTCTA
129 CCATAGGGGCATTTTCATAATTTTT-TA
** *
2139116 AAATTAAGTCTTAGGTTGTCACCGAGTTTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTC
1 AAACCAAGTCTTAGGTTGTCACCGAGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTC
* * * * *
2139181 ACCTCTTTTATAGTCCTTTTAAATCCTTTAGGGTTA-CTAGGATACTTTCACGTTGAACGTGTAC
66 ACC-CTTTTATAGTCCTTTTAAGTCCTTTAGGGTTACCGA-GATACTTTCACGTCGAAGGTATAC
* *
2139245 CCATAGGGGCATTTGCGT-A-TTTTTA
129 CCATAGGGGCATTTTCATAATTTTTTA
* ** * * ** * ** *
2139270 AAACCAACTCTTAGGTCATCACTGGGTCTATTTTTATGCCAAAAATGGGCATTTAGGATAGGTTC
1 AAACCAAGTCTTAGGTTGTCACCGAGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTC
* * * * * * * *
2139335 ATCCATTTTATGAGTCTTTTTAAGCCCTTTAGGGTTGCTGGGATACTTTTATGTCGAAGGTATAC
66 A-CCCTTTTAT-AGTCCTTTTAAGTCCTTTAGGGTTACCGAGATACTTTCACGTCGAAGGTATAC
* * *
2139400 CCCTAGGGGTATTTTCATAATTTTTCA
129 CCATAGGGGCATTTTCATAATTTTTTA
* * * * * *
2139427 AAATCGAGTCCTAAGTTGTCACCAAGT-TCGCTTTTATGCCGAA-ATGGGTATTTAGGATAGGTT
1 AAACCAAGTCTTAGGTTGTCACCGAGTCT-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTT
* * *
2139490 CACCCCTTTATAGTCCTTTTAAGTCCTTTAGGGTTACCGGGATACTTTCACGTCGAAAGTATACC
65 CACCCTTTTATAGTCCTTTTAAGTCCTTTAGGGTTACCGAGATACTTTCACGTCGAAGGTATACC
* ** *
2139555 TATAGGGG-ATTTTGGTAATATTTTA
130 CATAGGGGCATTTTCATAATTTTTTA
* * * * *
2139580 GAACCGAGTCTTAGGTTGTCACC-AGATCCGCTTTTATGTCGAAGGTGTGTATTTAGGATAGGTT
1 AAACCAAGTCTTAGGTTGTCACCGAG-TCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTT
2139644 CA
65 CA
2139646 TCCTATTTGG
Statistics
Matches: 430, Mismatches: 88, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
152 2 0.00
153 46 0.11
154 135 0.31
155 107 0.25
156 107 0.25
157 33 0.08
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (155 bp):
AAACCAAGTCTTAGGTTGTCACCGAGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTC
ACCCTTTTATAGTCCTTTTAAGTCCTTTAGGGTTACCGAGATACTTTCACGTCGAAGGTATACCC
ATAGGGGCATTTTCATAATTTTTTA
Found at i:2139617 original size:310 final size:309
Alignment explanation
Indices: 2138960--2139653 Score: 853
Period size: 310 Copynumber: 2.2 Consensus size: 309
2138950 ATTTGTTATG
* * * *
2138960 AAACCAAGTCCTAGGTTGCCACCGAGTCTGCTTTTATGCCAAACGTGGGTATTTAGGATATGTTC
1 AAACCAAGTCTTAGGTTGTCACCGA-TCTGCTTTTATGCCAAAAGTGGGTATTTAGGATAGGTTC
*
2139025 ATTCC-TTTTATAGTTCTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATC
65 A-TCCATTTTATAGTTCTTTTTAAGCCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATC
* * * * *
2139089 CCCTAGGGGCATTTTCATATTTTTCTAAAATTAAGTCTTAGGTTGTCACCGAGTTTGCTTTTATG
129 CCCTAGGGGCATTTTCATATTTTTCTAAAATCAAGTCCTAAGTTGTCACCAAGTTCGCTTTTATG
* * *
2139154 CCGAAGGTGGGTATTTAGGATAGGTTCACCTCTTTTATAGTCCTTTTAAATCCTTTAGGGTTACT
194 CCGAAGATGGGTATTTAGGATAGGTTCACCTCCTTTATAGTCCTTTTAAATCCTTTAGGGTTACC
* * *
2139219 AGGATACTTTCACGTTGAACGTGTACCCATAGGGGCATTTGCGTATTTTTA
259 AGGATACTTTCACGTCGAAAGTATACCCATAGGGGCATTTGCGTATTTTTA
* ** * * ** * *
2139270 AAACCAACTCTTAGGTCATCACTGGGTCTATTTTTATGCCAAAAATGGGCATTTAGGATAGGTTC
1 AAACCAAGTCTTAGGTTGTCAC-CGATCTGCTTTTATGCCAAAAGTGGGTATTTAGGATAGGTTC
* * * * * *
2139335 ATCCATTTTATGAG-TCTTTTTAAGCCCTTTAGGGTTGCTGGGATACTTTTATGTCGAAGGTATA
65 ATCCATTTTAT-AGTTCTTTTTAAGCCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTAT-
* *
2139399 CCCCTAGGGGTATTTTCATAATTTTTC-AAAATCGAGTCCTAAGTTGTCACCAAGTTCGCTTTTA
128 CCCCTAGGGGCATTTTCAT-ATTTTTCTAAAATCAAGTCCTAAGTTGTCACCAAGTTCGCTTTTA
*
2139463 TGCCGAA-ATGGGTATTTAGGATAGGTTCACC-CCTTTATAGTCCTTTTAAGTCCTTTAGGGTTA
192 TGCCGAAGATGGGTATTTAGGATAGGTTCACCTCCTTTATAGTCCTTTTAAATCCTTTAGGGTTA
* *
2139526 CCGGGATACTTTCACGTCGAAAGTATACCTATAGGGG-ATTTTG-GTAATATTTTA
257 CCAGGATACTTTCACGTCGAAAGTATACCCATAGGGGCA-TTTGCGT-AT-TTTTA
* * * * * * *
2139580 GAACCGAGTCTTAGGTTGTCACCAGATCCGCTTTTATGTCGAAGGTGTGTATTTAGGATAGGTTC
1 AAACCAAGTCTTAGGTTGTCACC-GATCTGCTTTTATGCCAAAAGTGGGTATTTAGGATAGGTTC
2139645 ATCCTATTT
65 ATCC-ATTT
2139654 GGATTCCTTT
Statistics
Matches: 322, Mismatches: 52, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
308 3 0.01
309 70 0.22
310 179 0.56
311 63 0.20
312 7 0.02
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (309 bp):
AAACCAAGTCTTAGGTTGTCACCGATCTGCTTTTATGCCAAAAGTGGGTATTTAGGATAGGTTCA
TCCATTTTATAGTTCTTTTTAAGCCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATCCC
CTAGGGGCATTTTCATATTTTTCTAAAATCAAGTCCTAAGTTGTCACCAAGTTCGCTTTTATGCC
GAAGATGGGTATTTAGGATAGGTTCACCTCCTTTATAGTCCTTTTAAATCCTTTAGGGTTACCAG
GATACTTTCACGTCGAAAGTATACCCATAGGGGCATTTGCGTATTTTTA
Done.