Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 74 of 310
Found at i:23649256 original size:22 final size:24
Alignment explanation
Indices: 23649208--23649267 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 24
23649198 CTTTTTTTTA
*
23649208 TATATTATTTATTTAAAACT-GTC
1 TATATTATTTATTTAAAACTATTC
* * *
23649231 T-TATTATTTATTTTAAATTATTT
1 TATATTATTTATTTAAAACTATTC
23649254 TATATTATTTATTT
1 TATATTATTTATTT
23649268 CATTTTTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 16 0.52
23 3 0.10
24 12 0.39
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (24 bp):
TATATTATTTATTTAAAACTATTC
Found at i:23661157 original size:44 final size:44
Alignment explanation
Indices: 23660986--23661149 Score: 177
Period size: 44 Copynumber: 3.7 Consensus size: 44
23660976 TCATCATAGT
* * * * **
23660986 GAATCTTATCTCTCTAAAGTTGCAGTGAAGCAGATTAAAACCAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAC
* * *
23661030 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTCAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAC
* * *
23661074 GAATCTCATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAC
* * *
23661118 -AAGTTTTATGTCCCTGAAGTTGTAGTGGAGCA
1 GAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCA
23661150 AACTGAAGAT
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
43 2 0.02
44 97 0.98
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAC
Found at i:23661360 original size:44 final size:44
Alignment explanation
Indices: 23660991--23661341 Score: 127
Period size: 44 Copynumber: 7.8 Consensus size: 44
23660981 ATAGTGAATC
* * * **
23660991 TTATCTCTCTAAAGTTGCAGTGAAGCAGATT-AAAACCACAAACC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGA-CACAAATA
* * * * *
23661035 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACGAATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAATA
* * * ** * *
23661079 TCATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTT
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAATA
* * * * * * *
23661123 TTATGTCCCTGAAGTTGTAGTGGAGCAAACTGAAGATAGAAA-A
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAATA
* * * * * * *
23661166 TCATATCCCTTTTGAAGTTGCAGTGGAGCGGATTAAAG-CTATAAATC
1 TTATCTCCC---TAAAGTTGCAGTGGAGCAGATTGAAGAC-ACAAATA
* ** * * * * ** * * *
23661213 CTATAC-CTTTGAAGCTGCAGTAGG-TCGGATCAAATCCATCATGGTAAATC
1 TTAT-CTCCCTAAAGTTGCAGT-GGAGCAGATTGAA--GA-CA---CAAATA
* * *
23661263 TTATCTCCTTAAAGTTGCAGTGGAGTAGATTGGAGACACAAATA
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAATA
*
23661307 TTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAG
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
23661342 TTATGAGTAT
Statistics
Matches: 229, Mismatches: 61, Indels: 34
0.71 0.19 0.10
Matches are distributed among these distances:
43 7 0.03
44 157 0.69
45 4 0.02
46 25 0.11
47 6 0.03
48 2 0.01
49 3 0.01
50 25 0.11
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAATA
Found at i:23661708 original size:21 final size:21
Alignment explanation
Indices: 23661683--23661724 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23661673 TCAGTCCATT
*
23661683 TTTACAAACAT-CATGGCCCAA
1 TTTAC-AACATGCATAGCCCAA
23661704 TTTACAACATGCATAGCCCAA
1 TTTACAACATGCATAGCCCAA
23661725 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.24
Consensus pattern (21 bp):
TTTACAACATGCATAGCCCAA
Found at i:23661920 original size:13 final size:14
Alignment explanation
Indices: 23661896--23661924 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23661886 ACGCAAGCGA
23661896 AAGAATCCAAGCAG
1 AAGAATCCAAGCAG
23661910 AAGAA-CCAAGCAG
1 AAGAATCCAAGCAG
23661923 AA
1 AA
23661925 ACAACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.21, G:0.21, T:0.03
Consensus pattern (14 bp):
AAGAATCCAAGCAG
Found at i:23663330 original size:23 final size:21
Alignment explanation
Indices: 23663297--23663348 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
23663287 ATTTTATAGG
*
23663297 TTATTCATTTTAAAATTTTTGTA
1 TTATT-ATTTTAAAATGTTT-TA
*
23663320 TTACTTATTTTAAGATGTTTTA
1 TTA-TTATTTTAAAATGTTTTA
23663342 TTATTAT
1 TTATTAT
23663349 ATATTTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 4 0.15
22 5 0.19
23 15 0.58
24 2 0.08
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.62
Consensus pattern (21 bp):
TTATTATTTTAAAATGTTTTA
Found at i:23663473 original size:24 final size:23
Alignment explanation
Indices: 23663446--23663511 Score: 89
Period size: 22 Copynumber: 2.8 Consensus size: 23
23663436 TTTAAACCCT
23663446 TTTTTATATATTATTTATTTAAAA
1 TTTTT-TATATTATTTATTTAAAA
* *
23663470 TTTTCT-TATTATTTATTTTAAA
1 TTTTTTATATTATTTATTTAAAA
23663492 TTGTTTTATATTATTTATTT
1 TT-TTTTATATTATTTATTT
23663512 CATTTTTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 17 0.46
23 4 0.11
24 16 0.43
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTTTATATTATTTATTTAAAA
Found at i:23668189 original size:19 final size:19
Alignment explanation
Indices: 23668167--23668233 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
23668157 ATTTTGAATA
23668167 TTATTTAATATTTTTTCAT
1 TTATTTAATATTTTTTCAT
***
23668186 TTATTTTAA-A-TTTCAAAT
1 TTA-TTTAATATTTTTTCAT
23668204 ATTATTTAATATTTTTTGCAT
1 -TTATTTAATATTTTTT-CAT
*
23668225 TTATGTAAT
1 TTATTTAAT
23668234 TTTAATTAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
18 10 0.28
19 8 0.22
20 16 0.44
21 2 0.06
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (19 bp):
TTATTTAATATTTTTTCAT
Found at i:23668205 original size:38 final size:39
Alignment explanation
Indices: 23668151--23668228 Score: 131
Period size: 38 Copynumber: 2.0 Consensus size: 39
23668141 TAATGGTTTG
**
23668151 TTTTAAATTTTGAATATTATTTAATATTTTTT-CATTTA
1 TTTTAAATTTCAAATATTATTTAATATTTTTTGCATTTA
23668189 TTTTAAATTTCAAATATTATTTAATATTTTTTGCATTTA
1 TTTTAAATTTCAAATATTATTTAATATTTTTTGCATTTA
23668228 T
1 T
23668229 GTAATTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 30 0.81
39 7 0.19
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (39 bp):
TTTTAAATTTCAAATATTATTTAATATTTTTTGCATTTA
Found at i:23669199 original size:7 final size:7
Alignment explanation
Indices: 23669187--23669211 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23669177 AGTCGTTTCA
23669187 TATTTAG
1 TATTTAG
23669194 TATTTAG
1 TATTTAG
23669201 TATTTAG
1 TATTTAG
23669208 TATT
1 TATT
23669212 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:23672091 original size:42 final size:40
Alignment explanation
Indices: 23672002--23672104 Score: 100
Period size: 42 Copynumber: 2.5 Consensus size: 40
23671992 AGCTTGGTCT
* *
23672002 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTT
1 CGAAGGGCTTTTGAGCCAGTGC-AATAACCGAACTTAATTC
* * *
23672043 CAAAGGGCTTTTTAGAGCCAGTG-ACATAACTGGACTTAATTC
1 CGAAGGGC-TTTT-GAGCCAGTGCA-ATAACCGAACTTAATTC
* *
23672085 CGAAGGGCCTTCGAGCCAGT
1 CGAAGGGCTTTTGAGCCAGT
23672105 AGTCTAATCC
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
40 8 0.16
41 10 0.20
42 24 0.47
43 9 0.18
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (40 bp):
CGAAGGGCTTTTGAGCCAGTGCAATAACCGAACTTAATTC
Found at i:23680428 original size:41 final size:40
Alignment explanation
Indices: 23680276--23680445 Score: 152
Period size: 41 Copynumber: 4.2 Consensus size: 40
23680266 GCTAATCGGG
*
23680276 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
23680317 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* * *
23680360 GTCATAA-CCG-GACTTAAT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
23680400 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
23680441 G-CTAA
1 GTCTAA
23680446 GAGTCGGACT
Statistics
Matches: 105, Mismatches: 12, Indels: 26
0.73 0.08 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 49 0.47
42 22 0.21
43 9 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:23687706 original size:42 final size:42
Alignment explanation
Indices: 23687583--23687754 Score: 174
Period size: 42 Copynumber: 4.1 Consensus size: 42
23687573 ATAAAATTTT
*
23687583 CTAGGC-ATAAAG-CCTAGTATAATACACTGGCACAGAA-CTTG
1 CTAGGCAATAAAGCCCTA-TATAATACACTGGCACA-AAGCCTG
* * * * *
23687624 CTAGGCAAT--AGGCCTGACATAAGACACTAGCATAAAGCCTG
1 CTAGGCAATAAAGCCCT-ATATAATACACTGGCACAAAGCCTG
* *
23687665 CTAGGCAATAAAGCCCTATATAATACACCGGCATAAAGCCTG
1 CTAGGCAATAAAGCCCTATATAATACACTGGCACAAAGCCTG
* * * *
23687707 CTAGGCAATAAAGCCCAATTTAATACACTGGCACAAGGCTTG
1 CTAGGCAATAAAGCCCTATATAATACACTGGCACAAAGCCTG
23687749 CTAGGC
1 CTAGGC
23687755 TCAAAGTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
40 4 0.04
41 34 0.31
42 66 0.61
43 5 0.05
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (42 bp):
CTAGGCAATAAAGCCCTATATAATACACTGGCACAAAGCCTG
Found at i:23689656 original size:20 final size:20
Alignment explanation
Indices: 23689631--23689670 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23689621 ATGTTCTCTT
23689631 TATTTCTATCCCTGTTTCAA
1 TATTTCTATCCCTGTTTCAA
23689651 TATTTCTATCCCTGTTTCAA
1 TATTTCTATCCCTGTTTCAA
23689671 GCTAGGGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTCTATCCCTGTTTCAA
Found at i:23691955 original size:22 final size:22
Alignment explanation
Indices: 23691929--23691973 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23691919 AATTCCTAGA
23691929 ACTCAGGCAGGGAAATAAGACT
1 ACTCAGGCAGGGAAATAAGACT
23691951 ACTCAGGCAGGGAAATAAGACT
1 ACTCAGGCAGGGAAATAAGACT
23691973 A
1 A
23691974 TGTCAGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.13
Consensus pattern (22 bp):
ACTCAGGCAGGGAAATAAGACT
Found at i:23698364 original size:46 final size:47
Alignment explanation
Indices: 23698234--23698494 Score: 211
Period size: 46 Copynumber: 5.6 Consensus size: 47
23698224 ACATCGACGC
* ** * *
23698234 CATGTCCCAGACATGGTCTTACACAAGTTTAGCATATCTGT-GTTGATG
1 CATGTCCCAGACATGGTCTTACACTAGCATA-CATCTC-GTAGTCGATG
* *
23698282 CCATGTCCTAGACATGGTCTTACACT-G-ACACATCTCGTAGTCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCATACATCTCGTAGTCGATG
*
23698328 CATGTCCCAGACAT-GTCTTACACTAGCATACATCTCG-AGGTTGATG
1 CATGTCCCAGACATGGTCTTACACTAGCATACATCTCGTA-GTCGATG
* * * *
23698374 CATGTTCGAGACAT-GTCTTACACTAGCACT-CATCTCAATA-CCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCA-TACATCTC-GTAGTCGATG
* * * * *
23698420 CCATGTCCTAGACATGGTCTTACACTGGC-TCTCATAAT-GTGGTCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCAT-ACAT-CTCGTAGTCGATG
23698468 CATGTCCCAGACAT-GTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
23698495 TCACACAAGT
Statistics
Matches: 176, Mismatches: 23, Indels: 29
0.77 0.10 0.13
Matches are distributed among these distances:
44 10 0.06
45 17 0.10
46 75 0.43
47 28 0.16
48 22 0.12
49 24 0.14
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCATACATCTCGTAGTCGATG
Found at i:23703271 original size:47 final size:47
Alignment explanation
Indices: 23703159--23703281 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 47
23703149 AGGATTCTAT
* * * * * *
23703159 GTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGAT
1 GTGATGGATGTGAA-AGTGTATATATGTGACAAGGCCGAATGGCCAAC
* * *
23703206 GTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 GTGATGGATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAAC
*
23703253 GTGATGGATGTGAAAGTGTATAAATGTGA
1 GTGATGGATGTGAAAGTGTATATATGTGA
23703282 TAAGTCCCGA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.02
47 63 0.98
ACGTcount: A:0.32, C:0.10, G:0.33, T:0.26
Consensus pattern (47 bp):
GTGATGGATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAAC
Found at i:23703460 original size:37 final size:37
Alignment explanation
Indices: 23703404--23703482 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23703394 CCGAGCTCTA
* * *
23703404 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
23703441 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
23703478 AAGAC
1 AAGAC
23703483 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:23707943 original size:20 final size:20
Alignment explanation
Indices: 23707916--23707967 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
23707906 TGGGCTGAGG
23707916 ACACGGGCGTGTCCTAAGAC
1 ACACGGGCGTGTCCTAAGAC
* *
23707936 ATACGGGCATGTCCTAAGAC
1 ACACGGGCGTGTCCTAAGAC
*
23707956 ACACGAGCGTGT
1 ACACGGGCGTGT
23707968 GTGACCACAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.17
Consensus pattern (20 bp):
ACACGGGCGTGTCCTAAGAC
Found at i:23710176 original size:46 final size:46
Alignment explanation
Indices: 23710033--23710176 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
23710023 CCCGCCCATA
*
23710033 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * * *
23710082 --CGAACTCGGACTCAACTCAACGAGTTTGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
23710125 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
23710172 AGTGA
1 AGTGA
23710177 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 33 0.43
47 28 0.37
48 6 0.08
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:23715506 original size:46 final size:46
Alignment explanation
Indices: 23715439--23715659 Score: 257
Period size: 46 Copynumber: 4.8 Consensus size: 46
23715429 TGTAACCCGC
*
23715439 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
23715485 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * * *
23715531 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCAT
* *** * * * * * *
23715577 ACATCTCTCGAACTCGGTCTCAACTCAACGAGTTCTGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
23715624 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
23715660 ATGCCCAAAC
Statistics
Matches: 147, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
45 1 0.01
46 112 0.76
47 32 0.22
48 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:23715629 original size:93 final size:93
Alignment explanation
Indices: 23715439--23715664 Score: 287
Period size: 93 Copynumber: 2.4 Consensus size: 93
23715429 TGTAACCCGC
* * * *
23715439 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGTATCCATAAGTGAACTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTATACATAACTGAACTCGGA
* *
23715502 CTCAACTCAACGAGCTCGGGCGTTCGCAT
65 CTCAACTCAACGAGCTCGGACATTCGCAT
* ** *
23715531 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-TACATCTCTCGAACTCGGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTATACATAACT-GAACTCGGA
* * *
23715595 CTCAACTCAACGAGTTCTGACATTTGCAT
65 CTCAACTCAACGAGCTCGGACATTCGCAT
*
23715624 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC
23715665 CAAACATCCT
Statistics
Matches: 116, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
92 40 0.34
93 74 0.64
94 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTATACATAACTGAACTCGGAC
TCAACTCAACGAGCTCGGACATTCGCAT
Found at i:23717017 original size:38 final size:38
Alignment explanation
Indices: 23716961--23717036 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
23716951 GTTTTTGAGG
*
23716961 AATTGTCATGCACATCGGAAGAATGCATGAAATGTGTT
1 AATTGTCATGCACATCGGAAGAATGAATGAAATGTGTT
* *
23716999 AATTGTCATGCACCTCGGAAGAGTGAATGAAATGTGTT
1 AATTGTCATGCACATCGGAAGAATGAATGAAATGTGTT
23717037 TGTCATTGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (38 bp):
AATTGTCATGCACATCGGAAGAATGAATGAAATGTGTT
Found at i:23719734 original size:45 final size:44
Alignment explanation
Indices: 23719674--23719843 Score: 147
Period size: 45 Copynumber: 3.9 Consensus size: 44
23719664 ATAGGATCCG
* *
23719674 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
1 ATATGTGGTTATGTGTAAGACCACGTCTAGGACGTTGGCATCG-T
* * * *
23719719 ATATGTGGTTATGTGTAAGACCATGTCTGGGACATCGGCATCGT
1 ATATGTGGTTATGTGTAAGACCACGTCTAGGACGTTGGCATCGT
* * *
23719763 AT-T-TGATT-CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCG-
1 ATATGTGGTTATGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGT
* * *
23719803 ATATG-AGATATCATGTAAGACCACGTCTAGGACGTTGGCAT
1 ATATGTGGTTAT-GTGTAAGACCACGTCTAGGACGTTGGCAT
23719844 TGTTCGATAT
Statistics
Matches: 100, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
40 2 0.02
41 28 0.28
42 5 0.05
43 24 0.24
44 4 0.04
45 37 0.37
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (44 bp):
ATATGTGGTTATGTGTAAGACCACGTCTAGGACGTTGGCATCGT
Found at i:23725070 original size:79 final size:81
Alignment explanation
Indices: 23724967--23725151 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
23724957 GCTACTTGTT
* * *
23724967 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
23725030 GGATTTAGTAAC-TAGCA
64 GGATATAGTAACTTAGCA
* **
23725047 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
23725111 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
23725127 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23725152 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 35 0.38
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:23725151 original size:40 final size:40
Alignment explanation
Indices: 23724967--23725151 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
23724957 GCTACTTGTT
* * *
23724967 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
23725007 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
23725047 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* * *
23725086 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
23725127 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23725152 CATCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:23728352 original size:7 final size:7
Alignment explanation
Indices: 23728334--23728394 Score: 63
Period size: 7 Copynumber: 8.7 Consensus size: 7
23728324 ATTTAGTTTA
*
23728334 TAGGGGT
1 TAGGGTT
*
23728341 TAAGGTT
1 TAGGGTT
*
23728348 TAAGGTT
1 TAGGGTT
23728355 TAGGGTAT
1 TAGGGT-T
23728363 T-GGGTT
1 TAGGGTT
23728369 TAGGGTT
1 TAGGGTT
23728376 TAGGGTAT
1 TAGGGT-T
23728384 TA-GGTT
1 TAGGGTT
23728390 TAGGG
1 TAGGG
23728395 CTTAATTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.11
7 37 0.79
8 5 0.11
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (7 bp):
TAGGGTT
Found at i:23728392 original size:21 final size:21
Alignment explanation
Indices: 23728343--23728394 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
23728333 ATAGGGGTTA
*
23728343 AGGTTTAAGGTTTAGGGTATT
1 AGGTTTAGGGTTTAGGGTATT
*
23728364 GGGTTTAGGGTTTAGGGTATT
1 AGGTTTAGGGTTTAGGGTATT
23728385 AGGTTTAGGG
1 AGGTTTAGGG
23728395 CTTAATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.40
Consensus pattern (21 bp):
AGGTTTAGGGTTTAGGGTATT
Found at i:23728808 original size:124 final size:122
Alignment explanation
Indices: 23728575--23728884 Score: 430
Period size: 123 Copynumber: 2.5 Consensus size: 122
23728565 GGTAGTGGAC
* * * * * *
23728575 TTAGCAACGCTTATTTA-AAAACACTGC-AAAAA-ATGATAAATTGAATGAAAACGACATCGTTT
1 TTAGCAGCGCTTA-TTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTT
* * *
23728637 TAGTTGGTGGGTAGTGTACTTAGTGGCGCTAGGCAATAAACTCCGCAATAGATCAGAA
65 TAGTTGGAGGGTAGTGGACTTAGTGGCGCCAGGCAATAAACTCCGCAATAGATCAGAA
* *
23728695 TTAGCAGTGCTTATTAGAAAACGCCGCTAAAAAATATGAGAAATTGAATGGAAACGGCGTCGTTT
1 TTAGCAGCGCTTATTAGAAAACGCCGCT-AAAAATATGAGAAATTGAATGGAAACGGCATCGTTT
* *
23728760 TAGTTGGCAGGGTAGTGGATTTAGTGGCGCCAGGTAATAAACGT-CGCAATAGATCAGAA
65 TAGTTGG-AGGGTAGTGGACTTAGTGGCGCCAGGCAATAAAC-TCCGCAATAGATCAGAA
*
23728819 TTAGCGGCGCTTATTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTTT
1 TTAGCAGCGCTTATTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTTT
23728884 A
66 A
23728885 TGTGGCTCGG
Statistics
Matches: 168, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
119 3 0.02
120 19 0.11
122 5 0.03
123 70 0.42
124 70 0.42
125 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (122 bp):
TTAGCAGCGCTTATTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTTT
AGTTGGAGGGTAGTGGACTTAGTGGCGCCAGGCAATAAACTCCGCAATAGATCAGAA
Found at i:23728939 original size:123 final size:124
Alignment explanation
Indices: 23728602--23728965 Score: 353
Period size: 123 Copynumber: 3.0 Consensus size: 124
23728592 AAAACACTGC
* * * ** * * **
23728602 AAAAA-ATGATAAATTGAATGAAAACGACATCGTTTTAGTTGG-TGGGTAGTGTACTTAGTGGCG
1 AAAAATATGAGAAATTGAATGGAAACGGCATCGTTTTAGTTGGCACGGTAGTGGAATTAGCAGCG
* * * * * *
23728665 CTAGGCAATAAACTCCGCAATAGATCAGAATTAGCAGTGCTTATTAGAAAACGCCGCTA
66 CCAGGTAAGAAACGCCGCAATAGATCAGAATTAGCGGCGCTTATTAGAAAACGCCGCTA
* * * **
23728724 AAAAATATGAGAAATTGAATGGAAACGGCGTCGTTTTAGTTGGCAGGGTAGTGGATTTAGTGGCG
1 AAAAATATGAGAAATTGAATGGAAACGGCATCGTTTTAGTTGGCACGGTAGTGGAATTAGCAGCG
* *
23728789 CCAGGTAATAAACGTCGCAATAGATCAGAATTAGCGGCGCTTATTAGAAAACGCCGCT-
66 CCAGGTAAGAAACGCCGCAATAGATCAGAATTAGCGGCGCTTATTAGAAAACGCCGCTA
* *
23728847 AAAAATATGAGAAATTGAATGGAAACGGCATCGTTTTA-TGTGGCTCGGT-TTAGGAATTAGCAG
1 AAAAATATGAGAAATTGAATGGAAACGGCATCGTTTTAGT-TGGCACGGTAGT-GGAATTAGCAG
* * ** * * * * **
23728910 CGCTATGTTGGAAATGCCGCAAAAAATCAGCATTATTGGCGCTTATTCA-AAAACGC
64 CGCCAGGTAAGAAACGCCGCAATAGATCAGAATTAGCGGCGCTTATT-AGAAAACGC
23728966 TGCAAATGTC
Statistics
Matches: 205, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
122 7 0.03
123 127 0.62
124 71 0.35
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (124 bp):
AAAAATATGAGAAATTGAATGGAAACGGCATCGTTTTAGTTGGCACGGTAGTGGAATTAGCAGCG
CCAGGTAAGAAACGCCGCAATAGATCAGAATTAGCGGCGCTTATTAGAAAACGCCGCTA
Found at i:23730238 original size:5 final size:5
Alignment explanation
Indices: 23730228--23730269 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
23730218 ATTTTGTCCT
23730228 TATAC TATAC TATAC TATAC TATAC TATAC TATAC TATAC TA
1 TATAC TATAC TATAC TATAC TATAC TATAC TATAC TATAC TA
23730270 GACTGCATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAC
Found at i:23730588 original size:16 final size:17
Alignment explanation
Indices: 23730567--23730615 Score: 59
Period size: 15 Copynumber: 3.1 Consensus size: 17
23730557 GCTAGCCCTC
23730567 TGCTGCT-TCTCCAGTT
1 TGCTGCTATCTCCAGTT
23730583 TGCTGCTATCT--AGTT
1 TGCTGCTATCTCCAGTT
* *
23730598 TTCTGTTATCTCCAGTT
1 TGCTGCTATCTCCAGTT
23730615 T
1 T
23730616 TGGTATGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 13 0.46
16 7 0.25
17 8 0.29
ACGTcount: A:0.10, C:0.24, G:0.16, T:0.49
Consensus pattern (17 bp):
TGCTGCTATCTCCAGTT
Found at i:23731432 original size:28 final size:27
Alignment explanation
Indices: 23731376--23731432 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
23731366 TTTGATTATG
* *
23731376 TTATTTTATTTTTAATATAAATTACTA
1 TTATTTTATTTTTAATACAAAGTACTA
*
23731403 TTATTCTTATTTTTCATACAAACGTA-TA
1 TTATT-TTATTTTTAATACAAA-GTACTA
23731431 TT
1 TT
23731433 GGATAATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 5 0.20
28 18 0.72
29 2 0.08
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (27 bp):
TTATTTTATTTTTAATACAAAGTACTA
Found at i:23731851 original size:105 final size:105
Alignment explanation
Indices: 23731659--23732021 Score: 566
Period size: 105 Copynumber: 3.4 Consensus size: 105
23731649 TTTTTAAATA
*
23731659 TTTTATTTTATTTTTAAATTACCTAATTGAATTAAATTGTATTTAAAGTTTTATTTTGAATAATT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT--A-AA--
*
23731724 TATTTTATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTAC
61 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
*
23731769 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTTTTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* *
23731834 TATTTTATTTTATTTTAATCACGAAAAATACTTTGTCTGC
66 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
*
23731874 TTTTATTTTATTTTAAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* ** * *
23731939 TATTCTATTTTAACTTAATCCCGAAAAATATTTTGTTTAC
66 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
*
23731979 TTTTATTTTATTGTTAAATTACCTAATTAAATT-AATTGTATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
23732022 TTAAATATTG
Statistics
Matches: 237, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
104 10 0.04
105 169 0.71
107 2 0.01
108 1 0.00
110 55 0.23
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (105 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
Found at i:23732305 original size:9 final size:9
Alignment explanation
Indices: 23732299--23732417 Score: 91
Period size: 9 Copynumber: 13.0 Consensus size: 9
23732289 ATATCATATC
23732299 TTACATAAT
1 TTACATAAT
23732308 TTACATAAT
1 TTACATAAT
*
23732317 TTACATAAC
1 TTACATAAT
23732326 TTACA-AA-
1 TTACATAAT
*
23732333 ATACATAAAAAT
1 TTACAT---AAT
*
23732345 ATATCAT-AT
1 TTA-CATAAT
23732354 CTTACATAAT
1 -TTACATAAT
*
23732364 TTACATAAG
1 TTACATAAT
* * *
23732373 ATAAACAAT
1 TTACATAAT
23732382 TTACATAAT
1 TTACATAAT
*
23732391 TTACATAAC
1 TTACATAAT
*
23732400 TTACATAAC
1 TTACATAAT
23732409 TTACATAAT
1 TTACATAAT
23732418 ACATAAATAT
Statistics
Matches: 89, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
7 4 0.04
8 2 0.02
9 71 0.80
10 4 0.04
11 2 0.02
12 3 0.03
13 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.01, T:0.36
Consensus pattern (9 bp):
TTACATAAT
Found at i:23732386 original size:56 final size:56
Alignment explanation
Indices: 23732279--23732386 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 56
23732269 AATCCTATCA
* ** * *
23732279 ACATAAATATATATCATATCTTACATAATTTACATAATTTACATAACTTACAAAAT
1 ACATAAAAATATATCATATCTTACATAATTTACATAAGATAAACAACTTACAAAAT
*
23732335 ACATAAAAATATATCATATCTTACATAATTTACATAAGATAAACAATTTACA
1 ACATAAAAATATATCATATCTTACATAATTTACATAAGATAAACAACTTACA
23732387 TAATTTACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.50, C:0.14, G:0.01, T:0.35
Consensus pattern (56 bp):
ACATAAAAATATATCATATCTTACATAATTTACATAAGATAAACAACTTACAAAAT
Found at i:23737536 original size:266 final size:266
Alignment explanation
Indices: 23737062--23737593 Score: 1064
Period size: 266 Copynumber: 2.0 Consensus size: 266
23737052 GTTGAGGTAC
23737062 CAATGGGAAGATGCGGTTAGATTCTGGAATTCAAAGAAAGGAGAGGTATTACATCCTTCCAAATT
1 CAATGGGAAGATGCGGTTAGATTCTGGAATTCAAAGAAAGGAGAGGTATTACATCCTTCCAAATT
23737127 CTTATAAATTTTTTTGGTATATAGTGTTTACTATATACGTAATAATAATTACATTATGTAGGATC
66 CTTATAAATTTTTTTGGTATATAGTGTTTACTATATACGTAATAATAATTACATTATGTAGGATC
23737192 GTGAGCGAGTTGGAACAAGCAGCAGGCAAAAACAAAAATTCACGCACACGGCAGGGTCGATAAAT
131 GTGAGCGAGTTGGAACAAGCAGCAGGCAAAAACAAAAATTCACGCACACGGCAGGGTCGATAAAT
23737257 TTTGCTTCTATAGCTGAGGCCTAGGTATTATGAATTTATTAATTTTATCAAATATTAATTACTTT
196 TTTGCTTCTATAGCTGAGGCCTAGGTATTATGAATTTATTAATTTTATCAAATATTAATTACTTT
23737322 CTACAA
261 CTACAA
23737328 CAATGGGAAGATGCGGTTAGATTCTGGAATTCAAAGAAAGGAGAGGTATTACATCCTTCCAAATT
1 CAATGGGAAGATGCGGTTAGATTCTGGAATTCAAAGAAAGGAGAGGTATTACATCCTTCCAAATT
23737393 CTTATAAATTTTTTTGGTATATAGTGTTTACTATATACGTAATAATAATTACATTATGTAGGATC
66 CTTATAAATTTTTTTGGTATATAGTGTTTACTATATACGTAATAATAATTACATTATGTAGGATC
23737458 GTGAGCGAGTTGGAACAAGCAGCAGGCAAAAACAAAAATTCACGCACACGGCAGGGTCGATAAAT
131 GTGAGCGAGTTGGAACAAGCAGCAGGCAAAAACAAAAATTCACGCACACGGCAGGGTCGATAAAT
23737523 TTTGCTTCTATAGCTGAGGCCTAGGTATTATGAATTTATTAATTTTATCAAATATTAATTACTTT
196 TTTGCTTCTATAGCTGAGGCCTAGGTATTATGAATTTATTAATTTTATCAAATATTAATTACTTT
23737588 CTACAA
261 CTACAA
23737594 TTAAATAATA
Statistics
Matches: 266, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
266 266 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (266 bp):
CAATGGGAAGATGCGGTTAGATTCTGGAATTCAAAGAAAGGAGAGGTATTACATCCTTCCAAATT
CTTATAAATTTTTTTGGTATATAGTGTTTACTATATACGTAATAATAATTACATTATGTAGGATC
GTGAGCGAGTTGGAACAAGCAGCAGGCAAAAACAAAAATTCACGCACACGGCAGGGTCGATAAAT
TTTGCTTCTATAGCTGAGGCCTAGGTATTATGAATTTATTAATTTTATCAAATATTAATTACTTT
CTACAA
Found at i:23737782 original size:13 final size:14
Alignment explanation
Indices: 23737764--23737792 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23737754 TTATAAATAT
23737764 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
23737777 TTATAATGGTTTAA
1 TTATAATGGTTTAA
23737791 TT
1 TT
23737793 CTTTGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:23738212 original size:238 final size:238
Alignment explanation
Indices: 23737794--23738268 Score: 950
Period size: 238 Copynumber: 2.0 Consensus size: 238
23737784 GGTTTAATTC
23737794 TTTGTTAGTAGTTTTAAATAATGTTAAGTTATGTTGCATTCCTTTTTATTATATATTTCGTTTCT
1 TTTGTTAGTAGTTTTAAATAATGTTAAGTTATGTTGCATTCCTTTTTATTATATATTTCGTTTCT
23737859 AACTCTTTGATTGATTTATTAGGACAAACTAAAGGAGAAGAAGGCGGAGTATGAAGCGATTGCTT
66 AACTCTTTGATTGATTTATTAGGACAAACTAAAGGAGAAGAAGGCGGAGTATGAAGCGATTGCTT
23737924 CGATTGATAGTTTTGTTAATCTTGAGAACATTGATAACAGAATTATTACTGAAGTTTTGGGTCCT
131 CGATTGATAGTTTTGTTAATCTTGAGAACATTGATAACAGAATTATTACTGAAGTTTTGGGTCCT
23737989 GAAAGGTATGGTCGGATTCGATTTCAAGGATCTAGTGTTACTT
196 GAAAGGTATGGTCGGATTCGATTTCAAGGATCTAGTGTTACTT
23738032 TTTGTTAGTAGTTTTAAATAATGTTAAGTTATGTTGCATTCCTTTTTATTATATATTTCGTTTCT
1 TTTGTTAGTAGTTTTAAATAATGTTAAGTTATGTTGCATTCCTTTTTATTATATATTTCGTTTCT
23738097 AACTCTTTGATTGATTTATTAGGACAAACTAAAGGAGAAGAAGGCGGAGTATGAAGCGATTGCTT
66 AACTCTTTGATTGATTTATTAGGACAAACTAAAGGAGAAGAAGGCGGAGTATGAAGCGATTGCTT
23738162 CGATTGATAGTTTTGTTAATCTTGAGAACATTGATAACAGAATTATTACTGAAGTTTTGGGTCCT
131 CGATTGATAGTTTTGTTAATCTTGAGAACATTGATAACAGAATTATTACTGAAGTTTTGGGTCCT
23738227 GAAAGGTATGGTCGGATTCGATTTCAAGGATCTAGTGTTACT
196 GAAAGGTATGGTCGGATTCGATTTCAAGGATCTAGTGTTACT
23738269 CCGACCCAAT
Statistics
Matches: 237, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
238 237 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (238 bp):
TTTGTTAGTAGTTTTAAATAATGTTAAGTTATGTTGCATTCCTTTTTATTATATATTTCGTTTCT
AACTCTTTGATTGATTTATTAGGACAAACTAAAGGAGAAGAAGGCGGAGTATGAAGCGATTGCTT
CGATTGATAGTTTTGTTAATCTTGAGAACATTGATAACAGAATTATTACTGAAGTTTTGGGTCCT
GAAAGGTATGGTCGGATTCGATTTCAAGGATCTAGTGTTACTT
Found at i:23738876 original size:43 final size:42
Alignment explanation
Indices: 23738814--23738945 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 42
23738804 TCTGCCAAAA
* *
23738814 TTAGCGGTGTTTTTACCACAAATGTCGCTAAAAGCCATGACTT
1 TTAGCGGTGCTTTTCCCACAAATG-CGCTAAAAGCCATGACTT
* * *
23738857 TTAGCGGTGCTTTCCCCACAAATGCCACTACAAGCCATGACTT
1 TTAGCGGTGCTTTTCCCACAAATG-CGCTAAAAGCCATGACTT
** *
23738900 TTAGCGGCACTTTTCTCACAAATGCTGCTAAAAGCCATGATCTT
1 TTAGCGGTGCTTTTCCCACAAATGC-GCTAAAAGCCATGA-CTT
23738944 TT
1 TT
23738946 GTGGCATTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 69 0.92
44 5 0.07
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (42 bp):
TTAGCGGTGCTTTTCCCACAAATGCGCTAAAAGCCATGACTT
Found at i:23739429 original size:28 final size:28
Alignment explanation
Indices: 23739389--23739446 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
23739379 GTTTATGAAC
23739389 CTCCATATTCAGCTGAATTTTGGGTTTA
1 CTCCATATTCAGCTGAATTTTGGGTTTA
23739417 CTCCATATTCAGCTGAATTTTGGGTTTA
1 CTCCATATTCAGCTGAATTTTGGGTTTA
23739445 CT
1 CT
23739447 TGGCCCTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (28 bp):
CTCCATATTCAGCTGAATTTTGGGTTTA
Found at i:23743264 original size:46 final size:46
Alignment explanation
Indices: 23743214--23743386 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
23743204 TGGTTGAGCA
23743214 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23743260 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
23743305 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
23743353 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
23743387 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23743370 original size:93 final size:93
Alignment explanation
Indices: 23743211--23743381 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
23743201 GGATGGTTGA
* *
23743211 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23743276 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
23743304 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23743369 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
23743382 ACTTAGGGGC
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:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23750843 original size:46 final size:46
Alignment explanation
Indices: 23750793--23750968 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
23750783 TGGTTGAGCA
23750793 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23750839 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
23750884 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23750932 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23750969 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23750949 original size:93 final size:93
Alignment explanation
Indices: 23750790--23750961 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23750780 GGATGGTTGA
* *
23750790 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23750855 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
23750883 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23750948 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
23750962 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23755686 original size:25 final size:25
Alignment explanation
Indices: 23755649--23755701 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
23755639 TGGCATCTTA
* **
23755649 TTATGTATAGTAATTTTGAGTATCC
1 TTATATATAGTAATTCCGAGTATCC
*
23755674 TTATATATGGTAATTCCGAGTATCC
1 TTATATATAGTAATTCCGAGTATCC
23755699 TTA
1 TTA
23755702 GTATTCCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (25 bp):
TTATATATAGTAATTCCGAGTATCC
Found at i:23757902 original size:40 final size:40
Alignment explanation
Indices: 23757736--23757911 Score: 244
Period size: 40 Copynumber: 4.4 Consensus size: 40
23757726 GAAATTTGAT
*
23757736 CGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTG
1 CGGGTTATTATATCCGGGTTAAGTCCCGAAGGCATTCGTG
* *
23757776 CGGGTTATTATAACCGGGTTAAGTCCCAAAGGCATTCGTG
1 CGGGTTATTATATCCGGGTTAAGTCCCGAAGGCATTCGTG
* * * *
23757816 CGAGTTATTATATCCGAGTTACGTCCTGAAGGCATTCGTG
1 CGGGTTATTATATCCGGGTTAAGTCCCGAAGGCATTCGTG
* *
23757856 AGGGTTGTTATATCCGGGTTAAGTCCCGAAGGCATTCGTG
1 CGGGTTATTATATCCGGGTTAAGTCCCGAAGGCATTCGTG
* * *
23757896 CTGGTTGTTACATCCG
1 CGGGTTATTATATCCG
23757912 AGCCAAATTC
Statistics
Matches: 120, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (40 bp):
CGGGTTATTATATCCGGGTTAAGTCCCGAAGGCATTCGTG
Found at i:23770710 original size:39 final size:40
Alignment explanation
Indices: 23770615--23770837 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
23770605 TTGAATGATG
*
23770615 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
23770653 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
23770694 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
23770733 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
23770772 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
23770811 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
23770838 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:23770801 original size:79 final size:81
Alignment explanation
Indices: 23770615--23770837 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
23770605 TTGAATGATG
* * *
23770615 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
23770676 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
23770694 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
23770756 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
23770772 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
23770836 TG
66 TG
23770838 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:23770859 original size:79 final size:79
Alignment explanation
Indices: 23770615--23770870 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
23770605 TTGAATGATG
* * * *
23770615 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
23770676 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
23770694 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
23770758 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
23770772 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
23770836 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
23770852 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
23770871 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:23772445 original size:126 final size:126
Alignment explanation
Indices: 23772180--23772497 Score: 514
Period size: 126 Copynumber: 2.5 Consensus size: 126
23772170 GGTGTTACAC
*
23772180 TGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT-
1 TGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTC
*
23772244 AGGAATTACTATAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCTGTAATTTTGCTGACAG
66 AGGAACTACTATAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCTGTAATTTTGCTGACAG
* *
23772305 TGCATCCTGCTTGAAGCATTTTTGACACTATTTTTTTAGAAACGTCTTCTCAAAATTATTTTTTC
1 TGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTC
* * *
23772370 AGGAACTACTGTAGAAAAAGAGTGTCCACGTG-GAAGCTTTTTTCTGTAATTTTGCTGACAG
66 AGGAACTACTATAGAAAAAAAGCGTCCACGTGAG-AGCTTTTTTCTGTAATTTTGCTGACAG
** * *
23772431 TGCATCCTGCTTGAAGTGTTTTTGACACTAATTGTTCAAAAACGTCTTCTCAAAATTATTTTTTC
1 TGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTC
23772496 AG
66 AG
23772498 AGTACAAAAT
Statistics
Matches: 178, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
125 62 0.35
126 116 0.65
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (126 bp):
TGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTC
AGGAACTACTATAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCTGTAATTTTGCTGACAG
Found at i:23772657 original size:240 final size:237
Alignment explanation
Indices: 23772358--23772838 Score: 829
Period size: 240 Copynumber: 2.0 Consensus size: 237
23772348 GTCTTCTCAA
* *
23772358 AATTATTTTTTCAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGAAGCTTTTTTCTGTAATTTT
1 AATTATTTTTTCAGGAACTACTGTAGAAAAAGAGCGCCCACGTGGAAGCTTTTTTCTGTAATTTT
* *
23772423 GCTGACAGTGCATCCTGCTTGAAGTGTTTTTGACACTAATTGTTCAAAAACGTCTTCTCAAAATT
66 GCTGACAGTGCATCCTGCTTGAAGGGTTTTTGACACTAATTGTTCAAAAACATCTTCTCAAAATT
23772488 ATTTTTTCAGAGTACAAAATAGACAATTTTGTTAAAAAAATAAACACAATGTTATTTTT-AAAAA
131 ATTTTTTCAGAGTACAAAATAGACAATTTTGTT---AAAA-AAACACAATGTTATTTTTAAAAAA
23772552 ATCCTAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
192 ATCCTAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
* * *
23772598 AATTATTTTTTCAGGAACTACTGTCGAAAAAGAGCGCCCACGTGGAAGTTTTTTTCTGTATTTTT
1 AATTATTTTTTCAGGAACTACTGTAGAAAAAGAGCGCCCACGTGGAAGCTTTTTTCTGTAATTTT
* * *
23772663 GCTGACAGTGCATCCTGCTTGAAGGGTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATT
66 GCTGACAGTGCATCCTGCTTGAAGGGTTTTTGACACTAATTGTTCAAAAACATCTTCTCAAAATT
23772728 ATTTTTTCAGAGTACAAAATAGACAATTTTGTTAAAAAAACACAATGTTATTTTTAAAAAAATCC
131 ATTTTTTCAGAGTACAAAATAGACAATTTTGTTAAAAAAACACAATGTTATTTTTAAAAAAATCC
23772793 TAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
196 TAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
23772835 AATT
1 AATT
23772839 TAATTTATTT
Statistics
Matches: 230, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
236 18 0.08
237 59 0.26
240 153 0.67
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (237 bp):
AATTATTTTTTCAGGAACTACTGTAGAAAAAGAGCGCCCACGTGGAAGCTTTTTTCTGTAATTTT
GCTGACAGTGCATCCTGCTTGAAGGGTTTTTGACACTAATTGTTCAAAAACATCTTCTCAAAATT
ATTTTTTCAGAGTACAAAATAGACAATTTTGTTAAAAAAACACAATGTTATTTTTAAAAAAATCC
TAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
Found at i:23772940 original size:22 final size:22
Alignment explanation
Indices: 23772912--23772953 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
23772902 CCCTAAATCC
23772912 TAATTTATTTAAAACCCTAATT
1 TAATTTATTTAAAACCCTAATT
23772934 TAATTTATTTAAAACCCTAA
1 TAATTTATTTAAAACCCTAA
23772954 AAACCCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATTTATTTAAAACCCTAATT
Found at i:23773007 original size:34 final size:35
Alignment explanation
Indices: 23772934--23773008 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 35
23772924 AACCCTAATT
* * *
23772934 TAATTTATTTAAAACCCTAAAAACCCTAATTTAAT
1 TAATTTATTTAAAACACTAAAAACCCTAAATTAAA
**
23772969 TAATTTATTTAAAA-ACTTTAAACCCTAAATTAAA
1 TAATTTATTTAAAACACTAAAAACCCTAAATTAAA
23773003 TAATTT
1 TAATTT
23773009 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 21 0.60
35 14 0.40
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (35 bp):
TAATTTATTTAAAACACTAAAAACCCTAAATTAAA
Found at i:23773117 original size:35 final size:34
Alignment explanation
Indices: 23773059--23773137 Score: 86
Period size: 35 Copynumber: 2.3 Consensus size: 34
23773049 ACTAAAATTC
*
23773059 TAAACCATAACTTTTTTAACAAAAACCTAAACAT
1 TAAACCCTAACTTTTTTAACAAAAACCTAAACAT
** * * *
23773093 TAAACCCTAACTTATTTTGGCAAAATCCTAACCCT
1 TAAACCCTAACTT-TTTTAACAAAAACCTAAACAT
*
23773128 AAAACCCTAA
1 TAAACCCTAA
23773138 AAAACCCTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 12 0.32
35 25 0.68
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.28
Consensus pattern (34 bp):
TAAACCCTAACTTTTTTAACAAAAACCTAAACAT
Found at i:23779511 original size:126 final size:126
Alignment explanation
Indices: 23779246--23779563 Score: 514
Period size: 126 Copynumber: 2.5 Consensus size: 126
23779236 GGTGTTACAC
*
23779246 TGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT-
1 TGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTC
*
23779310 AGGAATTACTATAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCTGTAATTTTGCTGACAG
66 AGGAACTACTATAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCTGTAATTTTGCTGACAG
* *
23779371 TGCATCCTGCTTGAAGCATTTTTGACACTATTTTTTTAGAAACGTCTTCTCAAAATTATTTTTTC
1 TGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTC
* * *
23779436 AGGAACTACTGTAGAAAAAGAGTGTCCACGTG-GAAGCTTTTTTCTGTAATTTTGCTGACAG
66 AGGAACTACTATAGAAAAAAAGCGTCCACGTGAG-AGCTTTTTTCTGTAATTTTGCTGACAG
** * *
23779497 TGCATCCTGCTTGAAGTGTTTTTGACACTAATTGTTCAAAAACGTCTTCTCAAAATTATTTTTTC
1 TGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTC
23779562 AG
66 AG
23779564 AGTACAAAAT
Statistics
Matches: 178, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
125 62 0.35
126 116 0.65
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (126 bp):
TGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTC
AGGAACTACTATAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCTGTAATTTTGCTGACAG
Found at i:23779723 original size:240 final size:237
Alignment explanation
Indices: 23779424--23779904 Score: 829
Period size: 240 Copynumber: 2.0 Consensus size: 237
23779414 GTCTTCTCAA
* *
23779424 AATTATTTTTTCAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGAAGCTTTTTTCTGTAATTTT
1 AATTATTTTTTCAGGAACTACTGTAGAAAAAGAGCGCCCACGTGGAAGCTTTTTTCTGTAATTTT
* *
23779489 GCTGACAGTGCATCCTGCTTGAAGTGTTTTTGACACTAATTGTTCAAAAACGTCTTCTCAAAATT
66 GCTGACAGTGCATCCTGCTTGAAGGGTTTTTGACACTAATTGTTCAAAAACATCTTCTCAAAATT
23779554 ATTTTTTCAGAGTACAAAATAGACAATTTTGTTAAAAAAATAAACACAATGTTATTTTT-AAAAA
131 ATTTTTTCAGAGTACAAAATAGACAATTTTGTT---AAAA-AAACACAATGTTATTTTTAAAAAA
23779618 ATCCTAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
192 ATCCTAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
* * *
23779664 AATTATTTTTTCAGGAACTACTGTCGAAAAAGAGCGCCCACGTGGAAGTTTTTTTCTGTATTTTT
1 AATTATTTTTTCAGGAACTACTGTAGAAAAAGAGCGCCCACGTGGAAGCTTTTTTCTGTAATTTT
* * *
23779729 GCTGACAGTGCATCCTGCTTGAAGGGTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATT
66 GCTGACAGTGCATCCTGCTTGAAGGGTTTTTGACACTAATTGTTCAAAAACATCTTCTCAAAATT
23779794 ATTTTTTCAGAGTACAAAATAGACAATTTTGTTAAAAAAACACAATGTTATTTTTAAAAAAATCC
131 ATTTTTTCAGAGTACAAAATAGACAATTTTGTTAAAAAAACACAATGTTATTTTTAAAAAAATCC
23779859 TAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
196 TAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
23779901 AATT
1 AATT
23779905 TAATTTATTT
Statistics
Matches: 230, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
236 18 0.08
237 59 0.26
240 153 0.67
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (237 bp):
AATTATTTTTTCAGGAACTACTGTAGAAAAAGAGCGCCCACGTGGAAGCTTTTTTCTGTAATTTT
GCTGACAGTGCATCCTGCTTGAAGGGTTTTTGACACTAATTGTTCAAAAACATCTTCTCAAAATT
ATTTTTTCAGAGTACAAAATAGACAATTTTGTTAAAAAAACACAATGTTATTTTTAAAAAAATCC
TAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
Found at i:23780006 original size:22 final size:22
Alignment explanation
Indices: 23779978--23780019 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
23779968 CCCTAAATCC
23779978 TAATTTATTTAAAACCCTAATT
1 TAATTTATTTAAAACCCTAATT
23780000 TAATTTATTTAAAACCCTAA
1 TAATTTATTTAAAACCCTAA
23780020 AAACCCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATTTATTTAAAACCCTAATT
Found at i:23780073 original size:34 final size:35
Alignment explanation
Indices: 23780000--23780074 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 35
23779990 AACCCTAATT
* * *
23780000 TAATTTATTTAAAACCCTAAAAACCCTAATTTAAT
1 TAATTTATTTAAAACACTAAAAACCCTAAATTAAA
**
23780035 TAATTTATTTAAAA-ACTTTAAACCCTAAATTAAA
1 TAATTTATTTAAAACACTAAAAACCCTAAATTAAA
23780069 TAATTT
1 TAATTT
23780075 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 21 0.60
35 14 0.40
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (35 bp):
TAATTTATTTAAAACACTAAAAACCCTAAATTAAA
Found at i:23780183 original size:35 final size:34
Alignment explanation
Indices: 23780125--23780203 Score: 86
Period size: 35 Copynumber: 2.3 Consensus size: 34
23780115 ACTAAAATTC
*
23780125 TAAACCATAACTTTTTTAACAAAAACCTAAACAT
1 TAAACCCTAACTTTTTTAACAAAAACCTAAACAT
** * * *
23780159 TAAACCCTAACTTATTTTGGCAAAATCCTAACCCT
1 TAAACCCTAACTT-TTTTAACAAAAACCTAAACAT
*
23780194 AAAACCCTAA
1 TAAACCCTAA
23780204 AAAACCCTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 12 0.32
35 25 0.68
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.28
Consensus pattern (34 bp):
TAAACCCTAACTTTTTTAACAAAAACCTAAACAT
Found at i:23786035 original size:30 final size:30
Alignment explanation
Indices: 23785980--23786041 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
23785970 CACTAAGCAA
23785980 GTTTCATATACATGTATCATCCATTTC-AT
1 GTTTCATATACATGTATCATCCATTTCTAT
23786009 GTTTCAATATATCATGTAAT-AT-CATTTCTAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCTAT
23786040 GT
1 GT
23786042 ATTTCATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 11 0.38
31 11 0.38
32 2 0.07
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCTAT
Found at i:23786230 original size:25 final size:25
Alignment explanation
Indices: 23786202--23786272 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
23786192 TGCTTATACA
*
23786202 AGCTATGAATTGGTAAGCTCTTAAG
1 AGCTATGAATCGGTAAGCTCTTAAG
* * *
23786227 AGCTGTGAATCGGTAAGCTCATACG
1 AGCTATGAATCGGTAAGCTCTTAAG
* *
23786252 AGCTAAGAATCAGTAAGCTCT
1 AGCTATGAATCGGTAAGCTCT
23786273 CATGAGCTGC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (25 bp):
AGCTATGAATCGGTAAGCTCTTAAG
Found at i:23786304 original size:25 final size:26
Alignment explanation
Indices: 23786214--23786306 Score: 79
Period size: 25 Copynumber: 3.7 Consensus size: 26
23786204 CTATGAATTG
* * * *
23786214 GTAAGCTCTTAAGAGCTG-TGAATCG
1 GTAAGCTCATACGAGCTGAAGAATCA
23786239 GTAAGCTCATACGAGCT-AAGAATCA
1 GTAAGCTCATACGAGCTGAAGAATCA
* *
23786264 GTAAGCTC-TCATGAGCTGCA-AATCTA
1 GTAAGCTCAT-ACGAGCTGAAGAATC-A
23786290 G-AAGCTCATACGAGCTG
1 GTAAGCTCATACGAGCTG
23786307 TGGTGTGCCT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
24 1 0.02
25 51 0.91
26 4 0.07
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (26 bp):
GTAAGCTCATACGAGCTGAAGAATCA
Found at i:23789928 original size:42 final size:42
Alignment explanation
Indices: 23789873--23789999 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
23789863 TGAAGGCTGC
* * *
23789873 ACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGA
* * * *
23789915 ACGGAAGCTCATAAGAGCTGAA-TGAAAACCCATAAAGGTTAA
1 ACAGAAGCTCATAAGAGCTGAACAG-AAACCCATAAGGGTTGA
* *
23789957 ACAGAAGCTCA-ATAGAGCTGAACGGAAACCCATTAGGGTTGA
1 ACAGAAGCTCATA-AGAGCTGAACAGAAACCCATAAGGGTTGA
23789999 A
1 A
23790000 TTAAAACTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
41 2 0.03
42 67 0.96
43 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGA
Found at i:23789936 original size:21 final size:21
Alignment explanation
Indices: 23789868--23789936 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
23789858 AAATCTGAAG
* *
23789868 GCTGCACAGAAGCACATAAGT
1 GCTGAACAGAAGCACATAAGA
* * * *
23789889 GCTAAACAGAAACCCATAAGG
1 GCTGAACAGAAGCACATAAGA
* * *
23789910 GTTGAACGGAAGCTCATAAGA
1 GCTGAACAGAAGCACATAAGA
23789931 GCTGAA
1 GCTGAA
23789937 TGAAAACCCA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (21 bp):
GCTGAACAGAAGCACATAAGA
Found at i:23789981 original size:63 final size:63
Alignment explanation
Indices: 23789912--23790047 Score: 150
Period size: 63 Copynumber: 2.2 Consensus size: 63
23789902 CCATAAGGGT
* *
23789912 TGAACGGAAGCTCATAAGAGCTGAATGAAAACCCATAA-AGGTTAAACAGAAGCTCAAT-AGAGC
1 TGAACGGAAACCCATAAGAGCTGAATGAAAACCCATAAGA-GTTAAACAGAAGCTC-ATGAGAGC
* * * * * * *
23789975 TGAACGGAAACCCATTAGGGTTGAATTAAAACTCATATGAGTTAAACAGAAGCTCGTGAGAGC
1 TGAACGGAAACCCATAAGAGCTGAATGAAAACCCATAAGAGTTAAACAGAAGCTCATGAGAGC
*
23790038 TAAACGGAAA
1 TGAACGGAAA
23790048 GTAAACACGA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
62 1 0.02
63 59 0.97
64 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (63 bp):
TGAACGGAAACCCATAAGAGCTGAATGAAAACCCATAAGAGTTAAACAGAAGCTCATGAGAGC
Found at i:23790134 original size:24 final size:24
Alignment explanation
Indices: 23790102--23790168 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
23790092 GGATAATTTG
*
23790102 CCGTCAATTCATCCTTTTCATATA
1 CCGTCAATTCATCCTTTGCATATA
* *
23790126 CCGTCAATTTATCCTTTGCATTTA
1 CCGTCAATTCATCCTTTGCATATA
23790150 CCGTCAATTCATCCTTTGC
1 CCGTCAATTCATCCTTTGC
23790169 CATAGAACGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.30, G:0.07, T:0.42
Consensus pattern (24 bp):
CCGTCAATTCATCCTTTGCATATA
Found at i:23799609 original size:24 final size:25
Alignment explanation
Indices: 23799582--23799628 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23799572 GCGTTACGAT
23799582 TGTA-AACCAAGTGATTTCCCTTCA
1 TGTAGAACCAAGTGATTTCCCTTCA
* *
23799606 TGTAGCATCAAGTGATTTCCCTT
1 TGTAGAACCAAGTGATTTCCCTT
23799629 GTCTTTGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (25 bp):
TGTAGAACCAAGTGATTTCCCTTCA
Found at i:23800498 original size:18 final size:18
Alignment explanation
Indices: 23800471--23800511 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
23800461 GTATATGGGG
*
23800471 CCGTGTGGTCACACACGC
1 CCGTGCGGTCACACACGC
* *
23800489 CCGTGCGGTCACATACTC
1 CCGTGCGGTCACACACGC
23800507 CCGTG
1 CCGTG
23800512 TGGCTTGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.20
Consensus pattern (18 bp):
CCGTGCGGTCACACACGC
Found at i:23810142 original size:20 final size:21
Alignment explanation
Indices: 23810117--23810164 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
23810107 TTGTGTGATT
*
23810117 AATTAGGTTTTAGTT-AGGTG
1 AATTAGGTTTGAGTTAAGGTG
*
23810137 AATTA-GTTTGAGTTAAGGTT
1 AATTAGGTTTGAGTTAAGGTG
23810157 AATTAGGT
1 AATTAGGT
23810165 GAGAGGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.33
20 14 0.58
21 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (21 bp):
AATTAGGTTTGAGTTAAGGTG
Found at i:23810357 original size:5 final size:5
Alignment explanation
Indices: 23810349--23810410 Score: 124
Period size: 5 Copynumber: 12.4 Consensus size: 5
23810339 AAAATAATAT
23810349 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
23810399 TATTA TATTA TA
1 TATTA TATTA TA
23810411 ATAGTTTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:23824821 original size:25 final size:25
Alignment explanation
Indices: 23824793--23824840 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
23824783 CAATCCCCAT
* *
23824793 TCCAATCGAGTTAAGACTCAATTGG
1 TCCAATCAAGTTAAAACTCAATTGG
23824818 TCCAATCAAGTTAAAACTCAATT
1 TCCAATCAAGTTAAAACTCAATT
23824841 AGCTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (25 bp):
TCCAATCAAGTTAAAACTCAATTGG
Found at i:23837663 original size:15 final size:15
Alignment explanation
Indices: 23837637--23837673 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
23837627 ATTGAGGTGA
23837637 GTATTGGTATTGAATT
1 GTATT-GTATTGAATT
23837653 GTATTGTATTGAATT
1 GTATTGTATTGAATT
*
23837668 GAATTG
1 GTATTG
23837674 GATTATGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (15 bp):
GTATTGTATTGAATT
Found at i:23839342 original size:19 final size:20
Alignment explanation
Indices: 23839305--23839343 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
23839295 AAAGGGACAT
*
23839305 TATGATTAAATTGTGATGTG
1 TATGATTAAATTATGATGTG
*
23839325 TATGA-TAAATTATTATGTG
1 TATGATTAAATTATGATGTG
23839344 ATTATTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
TATGATTAAATTATGATGTG
Found at i:23848387 original size:27 final size:26
Alignment explanation
Indices: 23848350--23848464 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
23848340 AGCATGGCTG
* *
23848350 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
23848376 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
23848404 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
23848431 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
23848458 CCAGAAC
1 CCAGAAC
23848465 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:23848409 original size:54 final size:54
Alignment explanation
Indices: 23848350--23848464 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
23848340 AGCATGGCTG
*
23848350 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
23848404 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
23848458 CCAGAAC
1 CCAGAAC
23848465 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:23850105 original size:26 final size:26
Alignment explanation
Indices: 23850074--23850181 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
23850064 TGAAATGCCC
*
23850074 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
23850100 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
23850126 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
23850152 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
23850178 ATCA
1 ATCA
23850182 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:23855413 original size:26 final size:26
Alignment explanation
Indices: 23855375--23855458 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
23855365 CATGAAATGC
* *
23855375 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
23855401 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
23855427 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
23855453 TTATCA
1 TTATCA
23855459 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:23858494 original size:39 final size:39
Alignment explanation
Indices: 23858383--23858495 Score: 165
Period size: 40 Copynumber: 2.8 Consensus size: 39
23858373 TTATTTGATG
23858383 TGGAATGGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAAT-GTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
23858423 TGGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAAT-GTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
23858463 TGGAATGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATG-TATCCGGGCTTAAAGACCCGCAGGCT
23858496 GTGATAGATA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
39 16 0.24
40 52 0.76
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (39 bp):
TGGAATGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:23858900 original size:30 final size:30
Alignment explanation
Indices: 23858866--23858925 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
23858856 ATATATTCGA
*
23858866 CCAATAGTTTATAATTAATGTACTTGTGAG
1 CCAATAGGTTATAATTAATGTACTTGTGAG
23858896 CCAATAGGTTATAATTAATGTACTTGTGAG
1 CCAATAGGTTATAATTAATGTACTTGTGAG
23858926 TTTTTGGCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (30 bp):
CCAATAGGTTATAATTAATGTACTTGTGAG
Found at i:23865113 original size:13 final size:13
Alignment explanation
Indices: 23865095--23865119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23865085 GCCGTATGGT
23865095 TCACACGGCCGTG
1 TCACACGGCCGTG
23865108 TCACACGGCCGT
1 TCACACGGCCGT
23865120 ATTCTATGTC
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:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
TCACACGGCCGTG
Found at i:23868153 original size:13 final size:13
Alignment explanation
Indices: 23868126--23868158 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
23868116 TGCCAGAAGC
23868126 AATTAAAAAGAAA
1 AATTAAAAAGAAA
23868139 AATTAGAAAAGAAA
1 AATTA-AAAAGAAA
23868153 AATTAA
1 AATTAA
23868159 GCTAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (13 bp):
AATTAAAAAGAAA
Found at i:23869580 original size:27 final size:27
Alignment explanation
Indices: 23869542--23869609 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
23869532 TGGTTTATCA
23869542 GGTATTTTGGTCATTTTACCCTATGGG
1 GGTATTTTGGTCATTTTACCCTATGGG
*
23869569 GGTATTTCGGTCATTTTACCCTATGGG
1 GGTATTTTGGTCATTTTACCCTATGGG
23869596 GGTATTTTGGTCAT
1 GGTATTTTGGTCAT
23869610 CACTTTAGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.44
Consensus pattern (27 bp):
GGTATTTTGGTCATTTTACCCTATGGG
Found at i:23877470 original size:10 final size:10
Alignment explanation
Indices: 23877454--23877492 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
23877444 CGAAAATAAC
23877454 TAAAATTAAT
1 TAAAATTAAT
*
23877464 CAAAATTAATT
1 TAAAATTAA-T
23877475 ATAAAATTAAT
1 -TAAAATTAAT
23877486 TAAAATT
1 TAAAATT
23877493 CAACATGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 15 0.60
11 2 0.08
12 8 0.32
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAATTAAT
Found at i:23878803 original size:15 final size:15
Alignment explanation
Indices: 23878783--23878814 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23878773 GACGATTTTA
*
23878783 TTTATTTTTTATATT
1 TTTATTTTTAATATT
23878798 TTTATTTTTAATATT
1 TTTATTTTTAATATT
23878813 TT
1 TT
23878815 GATCAATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTTAATATT
Found at i:23880468 original size:14 final size:14
Alignment explanation
Indices: 23880436--23880467 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
23880426 CTTTTTTTAC
23880436 TAAAATAATAAATA
1 TAAAATAATAAATA
23880450 TAAAATAA-AAATA
1 TAAAATAATAAATA
23880463 TAAAA
1 TAAAA
23880468 AGCAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAAATAATAAATA
Found at i:23883634 original size:8 final size:8
Alignment explanation
Indices: 23883621--23883647 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
23883611 GAAATTTATA
23883621 TAAATTTT
1 TAAATTTT
23883629 TAAATTTT
1 TAAATTTT
23883637 TAAATTTT
1 TAAATTTT
23883645 TAA
1 TAA
23883648 GTGATGATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TAAATTTT
Found at i:23887427 original size:990 final size:990
Alignment explanation
Indices: 23885508--23887489 Score: 3955
Period size: 990 Copynumber: 2.0 Consensus size: 990
23885498 GAAGGAAACC
23885508 TCATTGTTTGCACTTCTGGTAAACTTTGTGGCACTGTTGACCGCTTCAAATTGATCACTTTTCCC
1 TCATTGTTTGCACTTCTGGTAAACTTTGTGGCACTGTTGACCGCTTCAAATTGATCACTTTTCCC
23885573 CCTTGGACTTTACAGGAATTATGCTCGAGTGATTCTACTTCAAGTCCAGTAACCTTTAACAACAA
66 CCTTGGACTTTACAGGAATTATGCTCGAGTGATTCTACTTCAAGTCCAGTAACCTTTAACAACAA
23885638 GAAAAGGATATTAGAACTTGATAATTGTTTGAGGATTTCAGAAAAAGAACGACTAAGCAAGGAAC
131 GAAAAGGATATTAGAACTTGATAATTGTTTGAGGATTTCAGAAAAAGAACGACTAAGCAAGGAAC
23885703 TCACACCAATAGTTGAACTGGCATCTGAGGAGTTGTCTATACTGGAACTCTCAACCTCCAATAAC
196 TCACACCAATAGTTGAACTGGCATCTGAGGAGTTGTCTATACTGGAACTCTCAACCTCCAATAAC
23885768 TCGTTGATAACATCAAATTGTAACTCCTCAGAAGTTGGTTGAAGATGCCACGTTATCTGTTATAA
261 TCGTTGATAACATCAAATTGTAACTCCTCAGAAGTTGGTTGAAGATGCCACGTTATCTGTTATAA
23885833 ATATTTAAAATTAGCATAAAAATGTTAGAAAACAGGTAAAATACATACATGGTTAAGTTTTGCAC
326 ATATTTAAAATTAGCATAAAAATGTTAGAAAACAGGTAAAATACATACATGGTTAAGTTTTGCAC
23885898 CTGACAATCCTGCATTTCCCGGAATTTTGCAGCAAACCATTGTCTCTGATGGGACTTACTACTTT
391 CTGACAATCCTGCATTTCCCGGAATTTTGCAGCAAACCATTGTCTCTGATGGGACTTACTACTTT
23885963 CCCATCGGCATGCACGAGGAAACATTGACTGGCATTCCATCAACTCTGGTCGGGCCAAGTCAATG
456 CCCATCGGCATGCACGAGGAAACATTGACTGGCATTCCATCAACTCTGGTCGGGCCAAGTCAATG
23886028 TGCTCATAACACCATACCTTTCACAAAAATGTAACAAAGATGGTGTAAATCAAGTATGCTTACAT
521 TGCTCATAACACCATACCTTTCACAAAAATGTAACAAAGATGGTGTAAATCAAGTATGCTTACAT
23886093 AAGCAGAAACCCTTCATGTTCTAATATCTAGAACTAGTCCCCATACCCTTAACTGTTTTTCCTTT
586 AAGCAGAAACCCTTCATGTTCTAATATCTAGAACTAGTCCCCATACCCTTAACTGTTTTTCCTTT
23886158 AAATCACAGAACATAAGGAGGGAAAAGGGAGTTTGAATTGACAGAATTCTTTAACAATAAAGAAT
651 AAATCACAGAACATAAGGAGGGAAAAGGGAGTTTGAATTGACAGAATTCTTTAACAATAAAGAAT
23886223 TTAGACAAAAACTATGGACTTTTACGACTCATTAGCATCTTAAGTAATCCCAACTTACTTGAAGA
716 TTAGACAAAAACTATGGACTTTTACGACTCATTAGCATCTTAAGTAATCCCAACTTACTTGAAGA
23886288 AGTATAAGACAACCTCCAACATACTGCACATTTGACTCTTTTCTTTTGTTCAACCACATAAATAT
781 AGTATAAGACAACCTCCAACATACTGCACATTTGACTCTTTTCTTTTGTTCAACCACATAAATAT
23886353 GTCCTCTAGAACAGCTGCACCCCACGCAAAGCGACTGATATCATCCAAATTTTTAAGGAAGGAAA
846 GTCCTCTAGAACAGCTGCACCCCACGCAAAGCGACTGATATCATCCAAATTTTTAAGGAAGGAAA
23886418 GATAACGGGAATCCACTTTTCCATTTGCATTGGGAAAAAGAATAGTGCCAAATGTAAAGAGCATG
911 GATAACGGGAATCCACTTTTCCATTTGCATTGGGAAAAAGAATAGTGCCAAATGTAAAGAGCATG
23886483 AATGTCCTAACAAAG
976 AATGTCCTAACAAAG
*
23886498 TCATTGTTTGCACTTCTGGTATACTTTGTGGCACTGTTGACCGCTTCAAATTGATCACTTTTCCC
1 TCATTGTTTGCACTTCTGGTAAACTTTGTGGCACTGTTGACCGCTTCAAATTGATCACTTTTCCC
23886563 CCTTGGACTTTACAGGAATTATGCTCGAGTGATTCTACTTCAAGTCCAGTAACCTTTAACAACAA
66 CCTTGGACTTTACAGGAATTATGCTCGAGTGATTCTACTTCAAGTCCAGTAACCTTTAACAACAA
23886628 GAAAAGGATATTAGAACTTGATAATTGTTTGAGGATTTCAGAAAAAGAACGACTAAGCAAGGAAC
131 GAAAAGGATATTAGAACTTGATAATTGTTTGAGGATTTCAGAAAAAGAACGACTAAGCAAGGAAC
23886693 TCACACCAATAGTTGAACTGGCATCTGAGGAGTTGTCTATACTGGAACTCTCAACCTCCAATAAC
196 TCACACCAATAGTTGAACTGGCATCTGAGGAGTTGTCTATACTGGAACTCTCAACCTCCAATAAC
23886758 TCGTTGATAACATCAAATTGTAACTCCTCAGAAGTTGGTTGAAGATGCCACGTTATCTGTTATAA
261 TCGTTGATAACATCAAATTGTAACTCCTCAGAAGTTGGTTGAAGATGCCACGTTATCTGTTATAA
23886823 ATATTTAAAATTAGCATAAAAATGTTAGAAAACAGGTAAAATACATACATGGTTAAGTTTTGCAC
326 ATATTTAAAATTAGCATAAAAATGTTAGAAAACAGGTAAAATACATACATGGTTAAGTTTTGCAC
23886888 CTGACAATCCTGCATTTCCCGGAATTTTGCAGCAAACCATTGTCTCTGATGGGACTTACTACTTT
391 CTGACAATCCTGCATTTCCCGGAATTTTGCAGCAAACCATTGTCTCTGATGGGACTTACTACTTT
23886953 CCCATCGGCATGCACGAGGAAACATTGACTGGCATTCCATCAACTCTGGTCGGGCCAAGTCAATG
456 CCCATCGGCATGCACGAGGAAACATTGACTGGCATTCCATCAACTCTGGTCGGGCCAAGTCAATG
23887018 TGCTCATAACACCATACCTTTCACAAAAATGTAACAAAGATGGTGTAAATCAAGTATGCTTACAT
521 TGCTCATAACACCATACCTTTCACAAAAATGTAACAAAGATGGTGTAAATCAAGTATGCTTACAT
23887083 AAGCAGAAACCCTTCATGTTCTAATATCTAGAACTAGTCCCCATACCCTTAACTGTTTTTCCTTT
586 AAGCAGAAACCCTTCATGTTCTAATATCTAGAACTAGTCCCCATACCCTTAACTGTTTTTCCTTT
23887148 AAATCACAGAACATAAGGAGGGAAAAGGGAGTTTGAATTGACAGAATTCTTTAACAATAAAGAAT
651 AAATCACAGAACATAAGGAGGGAAAAGGGAGTTTGAATTGACAGAATTCTTTAACAATAAAGAAT
23887213 TTAGACAAAAACTATGGACTTTTACGACTCATTAGCATCTTAAGTAATCCCAACTTACTTGAAGA
716 TTAGACAAAAACTATGGACTTTTACGACTCATTAGCATCTTAAGTAATCCCAACTTACTTGAAGA
23887278 AGTATAAGACAACCTCCAACATACTGCACATTTGACTCTTTTCTTTTGTTCAACCACATAAATAT
781 AGTATAAGACAACCTCCAACATACTGCACATTTGACTCTTTTCTTTTGTTCAACCACATAAATAT
23887343 GTCCTCTAGAACAGCTGCACCCCACGCAAAGCGACTGATATCATCCAAATTTTTAAGGAAGGAAA
846 GTCCTCTAGAACAGCTGCACCCCACGCAAAGCGACTGATATCATCCAAATTTTTAAGGAAGGAAA
23887408 GATAACGGGAATCCACTTTTCCATTTGCATTGGGAAAAAGAATAGTGCCAAATGTAAAGAGCATG
911 GATAACGGGAATCCACTTTTCCATTTGCATTGGGAAAAAGAATAGTGCCAAATGTAAAGAGCATG
23887473 AATGTCCTAACAAAG
976 AATGTCCTAACAAAG
23887488 TC
1 TC
23887490 TTCATTAACT
Statistics
Matches: 991, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
990 991 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (990 bp):
TCATTGTTTGCACTTCTGGTAAACTTTGTGGCACTGTTGACCGCTTCAAATTGATCACTTTTCCC
CCTTGGACTTTACAGGAATTATGCTCGAGTGATTCTACTTCAAGTCCAGTAACCTTTAACAACAA
GAAAAGGATATTAGAACTTGATAATTGTTTGAGGATTTCAGAAAAAGAACGACTAAGCAAGGAAC
TCACACCAATAGTTGAACTGGCATCTGAGGAGTTGTCTATACTGGAACTCTCAACCTCCAATAAC
TCGTTGATAACATCAAATTGTAACTCCTCAGAAGTTGGTTGAAGATGCCACGTTATCTGTTATAA
ATATTTAAAATTAGCATAAAAATGTTAGAAAACAGGTAAAATACATACATGGTTAAGTTTTGCAC
CTGACAATCCTGCATTTCCCGGAATTTTGCAGCAAACCATTGTCTCTGATGGGACTTACTACTTT
CCCATCGGCATGCACGAGGAAACATTGACTGGCATTCCATCAACTCTGGTCGGGCCAAGTCAATG
TGCTCATAACACCATACCTTTCACAAAAATGTAACAAAGATGGTGTAAATCAAGTATGCTTACAT
AAGCAGAAACCCTTCATGTTCTAATATCTAGAACTAGTCCCCATACCCTTAACTGTTTTTCCTTT
AAATCACAGAACATAAGGAGGGAAAAGGGAGTTTGAATTGACAGAATTCTTTAACAATAAAGAAT
TTAGACAAAAACTATGGACTTTTACGACTCATTAGCATCTTAAGTAATCCCAACTTACTTGAAGA
AGTATAAGACAACCTCCAACATACTGCACATTTGACTCTTTTCTTTTGTTCAACCACATAAATAT
GTCCTCTAGAACAGCTGCACCCCACGCAAAGCGACTGATATCATCCAAATTTTTAAGGAAGGAAA
GATAACGGGAATCCACTTTTCCATTTGCATTGGGAAAAAGAATAGTGCCAAATGTAAAGAGCATG
AATGTCCTAACAAAG
Found at i:23888801 original size:19 final size:21
Alignment explanation
Indices: 23888763--23888806 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
23888753 AAATTTAATA
23888763 AAATAATATTTGAATCGAGTC
1 AAATAATATTTGAATCGAGTC
* *
23888784 AAATAA-ATTT-ATTCGAGTT
1 AAATAATATTTGAATCGAGTC
23888803 AAAT
1 AAAT
23888807 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 4 0.19
21 6 0.29
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.36
Consensus pattern (21 bp):
AAATAATATTTGAATCGAGTC
Found at i:23890447 original size:10 final size:10
Alignment explanation
Indices: 23890432--23890477 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
23890422 CACTAAATCT
23890432 ATTTTAATAA
1 ATTTTAATAA
23890442 ATTTTAATAA
1 ATTTTAATAA
* *
23890452 TTTCTTATTAA
1 ATT-TTAATAA
*
23890463 AATTTAATAA
1 ATTTTAATAA
23890473 ATTTT
1 ATTTT
23890478 TCTATAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
10 22 0.76
11 7 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTTTAATAA
Found at i:23891944 original size:19 final size:19
Alignment explanation
Indices: 23891921--23891971 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
23891911 AAAAGTTCCA
* *
23891921 AAAAATTCAAAATAATTTTT
1 AAAAGTTCAAAAT-ATTTAT
23891941 AAAAGTTC-AAATATTTAT
1 AAAAGTTCAAAATATTTAT
*
23891959 AAAATTTCAAAAT
1 AAAAGTTCAAAAT
23891972 TTATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 12 0.44
19 8 0.30
20 7 0.26
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAAGTTCAAAATATTTAT
Found at i:23891961 original size:18 final size:18
Alignment explanation
Indices: 23891930--23891976 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
23891920 AAAAAATTCA
*
23891930 AAATAATTTTTAAAAGTTC
1 AAAT-ATTTATAAAAGTTC
*
23891949 AAATATTTATAAAATTTC
1 AAATATTTATAAAAGTTC
23891967 AAA-ATTTATA
1 AAATATTTATA
23891977 TTTTTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 7 0.27
18 15 0.58
19 4 0.15
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATATTTATAAAAGTTC
Found at i:23895669 original size:17 final size:17
Alignment explanation
Indices: 23895647--23895689 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
23895637 ATTTTATTTA
**
23895647 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
23895664 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
23895681 AAAT-TCAAT
1 AAATGTCAAT
23895690 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:23900492 original size:19 final size:20
Alignment explanation
Indices: 23900460--23900499 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
23900450 ATATAATAAC
23900460 AAAACAAATAAGAAAAAGAA
1 AAAACAAATAAGAAAAAGAA
* *
23900480 AAAAGAAAT-AGAAATAGAA
1 AAAACAAATAAGAAAAAGAA
23900499 A
1 A
23900500 GCCAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.78, C:0.03, G:0.12, T:0.07
Consensus pattern (20 bp):
AAAACAAATAAGAAAAAGAA
Found at i:23901308 original size:2 final size:2
Alignment explanation
Indices: 23901303--23901331 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23901293 GATATATATA
23901303 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
23901332 AAATGTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:23902524 original size:19 final size:21
Alignment explanation
Indices: 23902500--23902542 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
23902490 GCACGTAGGA
23902500 TGATTGT-TTTGA-CATGTTT
1 TGATTGTATTTGATCATGTTT
*
23902519 TGATTGTATTTGATCGTGTTT
1 TGATTGTATTTGATCATGTTT
23902540 TGA
1 TGA
23902543 ACTGGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.16, C:0.05, G:0.23, T:0.56
Consensus pattern (21 bp):
TGATTGTATTTGATCATGTTT
Found at i:23907296 original size:20 final size:20
Alignment explanation
Indices: 23907259--23907295 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
23907249 GACTAAATTG
*
23907259 AAAACTTAGGGAAATTTTAC
1 AAAACTTAGGAAAATTTTAC
23907279 AAAACTTA-GAAAATTTT
1 AAAACTTAGGAAAATTTT
23907296 TGCAATAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (20 bp):
AAAACTTAGGAAAATTTTAC
Found at i:23914744 original size:27 final size:27
Alignment explanation
Indices: 23914714--23914891 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23914704 ATATTGAGTC
* * * *
23914714 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23914741 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23914768 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23914796 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23914823 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23914850 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23914877 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23914892 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23914853 original size:82 final size:81
Alignment explanation
Indices: 23914735--23914890 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23914725 TGCTATATAA
* *
23914735 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23914800 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
23914817 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23914881 CACTTAGTGC
65 CACTTAGTGC
23914891 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23922811 original size:27 final size:27
Alignment explanation
Indices: 23922781--23922958 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23922771 ATATTGAGTC
* * * *
23922781 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23922808 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23922835 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23922863 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23922890 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23922917 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23922944 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23922959 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23922920 original size:82 final size:81
Alignment explanation
Indices: 23922802--23922957 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23922792 TGCTATATAA
* *
23922802 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23922867 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
23922884 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23922948 CACTTAGTGC
65 CACTTAGTGC
23922958 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23926681 original size:22 final size:22
Alignment explanation
Indices: 23926655--23926701 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
23926645 TATTTTCTTG
23926655 TTTAAGCTCTAGAAATTCCTTC
1 TTTAAGCTCTAGAAATTCCTTC
*
23926677 TTTAAGCTCTAGAAATTCTTTC
1 TTTAAGCTCTAGAAATTCCTTC
23926699 TTT
1 TTT
23926702 TTCTAATCCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.47
Consensus pattern (22 bp):
TTTAAGCTCTAGAAATTCCTTC
Found at i:23930530 original size:21 final size:22
Alignment explanation
Indices: 23930506--23930547 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23930496 TTATTCAATA
*
23930506 AAAATTATAA-AAACTAAAATT
1 AAAATAATAATAAACTAAAATT
*
23930527 AAAATAATAATAAAGTAAAAT
1 AAAATAATAATAAACTAAAAT
23930548 GAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAATAATAATAAACTAAAATT
Found at i:23938362 original size:18 final size:17
Alignment explanation
Indices: 23938335--23938368 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23938325 TCGCTTTCAC
*
23938335 AGAAAGAAAATAGAAAAA
1 AGAAAAAAAAT-GAAAAA
23938353 AGAAAAAAAATGAAAA
1 AGAAAAAAAATGAAAA
23938369 GGGGAAGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (17 bp):
AGAAAAAAAATGAAAAA
Found at i:23938438 original size:19 final size:19
Alignment explanation
Indices: 23938411--23938450 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
23938401 AAGAAGAATA
*
23938411 AAAATTAAAAATTAAA-AAT
1 AAAAGTAAAAA-TAAATAAT
23938430 AAAAGTAAAAATAAATAAT
1 AAAAGTAAAAATAAATAAT
23938449 AA
1 AA
23938451 TAATAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAAGTAAAAATAAATAAT
Found at i:23938439 original size:25 final size:25
Alignment explanation
Indices: 23938409--23938480 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
23938399 GGAAGAAGAA
23938409 TAAAAATTAAA-AATTAAAAATAAAAG
1 TAAAAA-TAAATAA-TAAAAATAAAAG
* *
23938435 TAAAAATAAATAATAATAATAATAG
1 TAAAAATAAATAATAAAAATAAAAG
* * *
23938460 TAATAGT-AATAATAATAATAA
1 TAAAAATAAATAATAAAAATAA
23938481 TAATAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.34
25 19 0.46
26 8 0.20
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (25 bp):
TAAAAATAAATAATAAAAATAAAAG
Found at i:23938440 original size:7 final size:6
Alignment explanation
Indices: 23938407--23938456 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
23938397 AAGGAAGAAG
* *
23938407 AATAAA AATTAAA AATTAAA AATAAA AGTAAA AATAAA TAATAAT AATAA
1 AATAAA AA-TAAA AA-TAAA AATAAA AATAAA AATAAA -AATAAA AATAA
23938457 TAGTAATAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
6 21 0.54
7 18 0.46
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (6 bp):
AATAAA
Found at i:23938451 original size:3 final size:3
Alignment explanation
Indices: 23938443--23938491 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
23938433 AGTAAAAATA
* *
23938443 AAT AAT AAT AAT AAT AGT AAT AGT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
23938489 AAT
1 AAT
23938492 TAAACTAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23946523 original size:46 final size:46
Alignment explanation
Indices: 23946445--23946556 Score: 120
Period size: 46 Copynumber: 2.4 Consensus size: 46
23946435 GTGCTATTGT
23946445 AAGACATGTCTGGGACATGCATCAGCCTCGAGATG-TAAGCCAATGC
1 AAGACATGTCTGGGACATGCATCAGCCTCGAGATGAT-AGCCAATGC
* * * * * *
23946491 AAGACATGTCTGGGACATGCGT-TGGCTACGAGATGATAGTCAGTGT
1 AAGACATGTCTGGGACATGCATCAGCCT-CGAGATGATAGCCAATGC
*
23946537 AAGACCATGTCTAGGACATG
1 AAGA-CATGTCTGGGACATG
23946557 GCTTCAACTT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
45 3 0.05
46 38 0.68
47 15 0.27
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGCATCAGCCTCGAGATGATAGCCAATGC
Found at i:23966333 original size:96 final size:96
Alignment explanation
Indices: 23966210--23966389 Score: 256
Period size: 96 Copynumber: 1.9 Consensus size: 96
23966200 ACTTGTCGAG
* *
23966210 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG-CTCTTATCTCAAT-GCCGATACCATGTCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT-GTCTCTTATATC-ATGGCCAATACCATGTCC
*
23966273 CAGACATGGTCTTACAATGGCTCTCACAACATC
64 CAAACATGGTCTTACAATGGCTCTCACAACATC
* * * *
23966306 GCCGATGCCATGTTCCAACCATGGTCTTACACTGTCTCTTATATCGTGGCCAATGCCATGTCCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGTCTCTTATATCATGGCCAATACCATGTCCCA
*
23966371 AACATGGTCTTACACTGGC
66 AACATGGTCTTACAATGGC
23966390 ACACATATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
95 2 0.03
96 72 0.97
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGTCTCTTATATCATGGCCAATACCATGTCCCA
AACATGGTCTTACAATGGCTCTCACAACATC
Found at i:23966398 original size:48 final size:48
Alignment explanation
Indices: 23966165--23966399 Score: 222
Period size: 48 Copynumber: 4.9 Consensus size: 48
23966155 GTGAATTGCT
* * * * * * *
23966165 GATGCCATGTTCCAAACAAGGACTTACATTGGCTCACTTGTCGA-GGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGCC
* * *
23966213 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTTATCTCAAT-GCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGCC
* * * * * *
23966261 GATACCATGTCCCAGACATGGTCTTACAATGGCTCTCACAACATCGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGCC
* * * * *
23966309 GATGCCATGTTCCAACCATGGTCTTACACTGTCTCTTATATCGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGCC
* * *
23966357 AATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCA
23966400 CCCAAATTTC
Statistics
Matches: 148, Mismatches: 37, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
47 2 0.01
48 146 0.99
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGCC
Found at i:23968462 original size:23 final size:23
Alignment explanation
Indices: 23968414--23968462 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
23968404 TGCTAAAGTC
* **
23968414 TAACTTTTTCCCAAAGCCTGTTG
1 TAACTTTTTCCCAAAACCTGAAG
23968437 TAACTTTTT-CCAAAACCTCGAAG
1 TAACTTTTTCCCAAAACCT-GAAG
23968460 TAA
1 TAA
23968463 ACCTTAGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (23 bp):
TAACTTTTTCCCAAAACCTGAAG
Found at i:23973166 original size:30 final size:29
Alignment explanation
Indices: 23973109--23973166 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
23973099 AACCTACACA
* *
23973109 ACATTAACCAAAACCAATCCAAGCATAAC
1 ACATTAACCAAAACCAACCCAACCATAAC
23973138 ACATATAACCAAAA-CAACCACAACCATAA
1 ACAT-TAACCAAAACCAACC-CAACCATAA
23973167 GAAATTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.55, C:0.31, G:0.02, T:0.12
Consensus pattern (29 bp):
ACATTAACCAAAACCAACCCAACCATAAC
Found at i:23973872 original size:48 final size:48
Alignment explanation
Indices: 23973801--23974026 Score: 222
Period size: 48 Copynumber: 4.7 Consensus size: 48
23973791 GATGAATTGT
* * * * *
23973801 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTTGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCGAGGC
* * * *
23973849 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCGAGGC
* * * * *
23973897 CTATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCA-CAAC-ACCGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATC-TCGA-GGC
* * * * *
23973945 CGATGCCATGTTCAAAACATGGTCTTACATTGGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCGAGGC
* * *
23973993 TGATGCCATGTCCTAGACATGGTCTTACACTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGC
23974027 ACACATATCA
Statistics
Matches: 143, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
47 2 0.01
48 141 0.99
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCGAGGC
Found at i:23978445 original size:31 final size:31
Alignment explanation
Indices: 23978410--23978475 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
23978400 ACAATTTGGC
* *
23978410 CACTAAACTATTTAGAAATTTTCATTTAAGT
1 CACTAAACTATTCAGAAATTTTCATTTAAGA
* * *
23978441 CACTAAACTATTCATAAGTTTTTATTTAAGA
1 CACTAAACTATTCAGAAATTTTCATTTAAGA
23978472 CACT
1 CACT
23978476 TGGCTATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (31 bp):
CACTAAACTATTCAGAAATTTTCATTTAAGA
Found at i:23999876 original size:20 final size:20
Alignment explanation
Indices: 23999851--23999888 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23999841 GAAGCAAAAA
23999851 TACCAAG-TGAAAATGAAGTC
1 TACCAAGCTGAAAA-GAAGTC
23999871 TACCAAGCTGAAAAGAAG
1 TACCAAGCTGAAAAGAAG
23999889 CTTGGAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (20 bp):
TACCAAGCTGAAAAGAAGTC
Found at i:24006612 original size:13 final size:14
Alignment explanation
Indices: 24006594--24006627 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
24006584 AATACCAATA
24006594 AATAAATAAAA-TT
1 AATAAATAAAAGTT
24006607 AATAAATAAAAGTTT
1 AATAAATAAAAG-TT
24006622 AATAAA
1 AATAAA
24006628 CAGTCTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
15 8 0.42
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
AATAAATAAAAGTT
Found at i:24007479 original size:4 final size:4
Alignment explanation
Indices: 24007470--24007533 Score: 53
Period size: 4 Copynumber: 16.2 Consensus size: 4
24007460 ATCTATCAAC
** * *
24007470 TTAT TTAT TTAT TTAT TT-T CAAC TT-T TTAT TAAT TT-T TTACT GTTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T -TTAT
24007517 TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT T
24007534 ATTGCCTTGC
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
3 6 0.13
4 36 0.77
5 2 0.04
6 3 0.06
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:24007627 original size:12 final size:11
Alignment explanation
Indices: 24007614--24007647 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
24007604 ACTTCATTAT
24007614 TTTTATTTTTA
1 TTTTATTTTTA
*
24007625 TTTTATTATTTC
1 TTTTATT-TTTA
24007637 TTTTATTTTTA
1 TTTTATTTTTA
24007648 ATGCTTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:24007924 original size:17 final size:17
Alignment explanation
Indices: 24007865--24007906 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
24007855 GATTAGTACC
24007865 ATTATTATAAAATCGAT
1 ATTATTATAAAATCGAT
*
24007882 ATTATTATAAAATTGAT
1 ATTATTATAAAATCGAT
*
24007899 GTTATTAT
1 ATTATTAT
24007907 TATTATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (17 bp):
ATTATTATAAAATCGAT
Done.