Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 79 of 322
Found at i:25235141 original size:24 final size:24
Alignment explanation
Indices: 25235109--25235159 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
25235099 GTGAGTTTTA
25235109 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
25235133 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
25235157 AAT
1 AAT
25235160 GTTTTTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (24 bp):
AATTCTGACCTAAATTAATCTGCC
Found at i:25237252 original size:12 final size:12
Alignment explanation
Indices: 25237235--25237262 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25237225 TTGGTTATTG
25237235 CTGTAGCAGCTT
1 CTGTAGCAGCTT
25237247 CTGTAGCAGCTT
1 CTGTAGCAGCTT
25237259 CTGT
1 CTGT
25237263 TTTTTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (12 bp):
CTGTAGCAGCTT
Found at i:25246399 original size:12 final size:12
Alignment explanation
Indices: 25246379--25246408 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25246369 TATGGTTAAT
*
25246379 TTCTTTAGCAGC
1 TTCTGTAGCAGC
25246391 TTCTGTAGCAGC
1 TTCTGTAGCAGC
25246403 TTCTGT
1 TTCTGT
25246409 TGTTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (12 bp):
TTCTGTAGCAGC
Found at i:25247054 original size:91 final size:91
Alignment explanation
Indices: 25246922--25247129 Score: 274
Period size: 91 Copynumber: 2.3 Consensus size: 91
25246912 TTGATTTTAG
* *
25246922 TAAATTCATATAAGAACATTTTATTATTAACAATTTCATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTAT
* *
25246987 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * * * *
25247014 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTTATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
25247079 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
25247105 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
25247130 GTTATAATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
91 83 0.81
92 19 0.19
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:25247178 original size:16 final size:17
Alignment explanation
Indices: 25247159--25247190 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25247149 TTATTAAATC
25247159 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
25247175 ATATATTTAATATTAA
1 ATATATTTAATATTAA
25247191 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:25250777 original size:13 final size:13
Alignment explanation
Indices: 25250761--25250786 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25250751 TAAATTGGAC
25250761 TCATAAATATTTA
1 TCATAAATATTTA
25250774 TCATAAATATTTA
1 TCATAAATATTTA
25250787 CGAAGTTAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TCATAAATATTTA
Found at i:25251039 original size:5 final size:5
Alignment explanation
Indices: 25251021--25251082 Score: 60
Period size: 5 Copynumber: 12.6 Consensus size: 5
25251011 AATAAATAAG
*
25251021 TATTA TATTA -ATTA TATTA TTATAA TATTA TA--A TATTA TATTA T-TATA
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TAT-TA
25251069 TATTA TATATA TAT
1 TATTA TAT-TA TAT
25251083 AAAAAAGAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
3 3 0.06
4 5 0.10
5 30 0.62
6 10 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:25251044 original size:8 final size:8
Alignment explanation
Indices: 25251021--25251076 Score: 78
Period size: 8 Copynumber: 7.0 Consensus size: 8
25251011 AATAAATAAG
25251021 TATTATAT
1 TATTATAT
25251029 TAATTATAT
1 T-ATTATAT
*
25251038 TATTATAA
1 TATTATAT
*
25251046 TATTATAA
1 TATTATAT
25251054 TATTATAT
1 TATTATAT
25251062 TATTATA-
1 TATTATAT
25251069 TATTATAT
1 TATTATAT
25251077 ATATATAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.16
8 29 0.66
9 8 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATTATAT
Found at i:25251081 original size:11 final size:11
Alignment explanation
Indices: 25251024--25251082 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
25251014 AAATAAGTAT
25251024 TATATTA-AT-
1 TATATTATATA
25251033 TATATTAT-TA
1 TATATTATATA
25251043 TAATATTATAATA
1 T-ATATTAT-ATA
25251056 TTATATTAT-TA
1 -TATATTATATA
25251067 TATATTATATA
1 TATATTATATA
25251078 TATAT
1 TATAT
25251083 AAAAAAGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
9 8 0.19
10 9 0.21
11 16 0.37
13 9 0.21
14 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATTATATA
Found at i:25252367 original size:41 final size:40
Alignment explanation
Indices: 25252310--25252419 Score: 131
Period size: 38 Copynumber: 2.8 Consensus size: 40
25252300 TGACCTCGAG
** * *
25252310 TCGATGAGACACTGGGTGTCACTATA-TTTCTTCGGATAGAT
1 TCGATGAGGTACTGGGTGT-ACCA-ACTTTCTTCGAATAGAT
25252351 TCGATGAGGTACT-GG-GTACCAACTTTCTTCGAATAGAT
1 TCGATGAGGTACTGGGTGTACCAACTTTCTTCGAATAGAT
25252389 TCGATGAGGTACT-GG-GTACCAACTTTCTTCG
1 TCGATGAGGTACTGGGTGTACCAACTTTCTTCG
25252420 GCTTTGCCGA
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
37 1 0.02
38 48 0.75
39 2 0.03
40 2 0.03
41 11 0.17
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (40 bp):
TCGATGAGGTACTGGGTGTACCAACTTTCTTCGAATAGAT
Found at i:25252387 original size:38 final size:38
Alignment explanation
Indices: 25252336--25252419 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
25252326 TGTCACTATA
*
25252336 TTTCTTCGGATAGATTCGATGAGGTACTGGGTACCAAC
1 TTTCTTCGAATAGATTCGATGAGGTACTGGGTACCAAC
25252374 TTTCTTCGAATAGATTCGATGAGGTACTGGGTACCAAC
1 TTTCTTCGAATAGATTCGATGAGGTACTGGGTACCAAC
25252412 TTTCTTCG
1 TTTCTTCG
25252420 GCTTTGCCGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (38 bp):
TTTCTTCGAATAGATTCGATGAGGTACTGGGTACCAAC
Found at i:25252449 original size:37 final size:39
Alignment explanation
Indices: 25252352--25252485 Score: 118
Period size: 38 Copynumber: 3.5 Consensus size: 39
25252342 CGGATAGATT
* * *
25252352 CGATGAGGTACTGGGTACCAACT-TT-CTTCGAA-TAGATT
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACT--ATC
* * * *
25252390 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
25252427 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
25252466 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
25252486 TTCTGGTGTG
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
36 1 0.01
37 19 0.24
38 33 0.41
39 24 0.30
40 3 0.04
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:25256216 original size:19 final size:19
Alignment explanation
Indices: 25256192--25256229 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
25256182 GTCGAAAGCA
25256192 AAGACTACAGCAAGTAATT
1 AAGACTACAGCAAGTAATT
*
25256211 AAGACTACAGCCAGTAATT
1 AAGACTACAGCAAGTAATT
25256230 CTTTCTCGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (19 bp):
AAGACTACAGCAAGTAATT
Found at i:25262177 original size:227 final size:227
Alignment explanation
Indices: 25261782--25262236 Score: 910
Period size: 227 Copynumber: 2.0 Consensus size: 227
25261772 ACTTATGCAA
25261782 TCAATTAATCATAAATACGGTAAGAGTTTATATGGATATTATTATTAAATATACACATATTATTT
1 TCAATTAATCATAAATACGGTAAGAGTTTATATGGATATTATTATTAAATATACACATATTATTT
25261847 ATGGATAGAACATTCACAGTCTTTAATTGGTTACAACCCACACCTTCAATTGCAAATCCAAATTA
66 ATGGATAGAACATTCACAGTCTTTAATTGGTTACAACCCACACCTTCAATTGCAAATCCAAATTA
25261912 CAAACCTCGATCCTCAATACTCCTATGGTGCAGGTTTGGTCAAATTTCGCCAAGATAAGAACTTT
131 CAAACCTCGATCCTCAATACTCCTATGGTGCAGGTTTGGTCAAATTTCGCCAAGATAAGAACTTT
25261977 AAACAAACAAGACACACAAAGTCTCTCTATGT
196 AAACAAACAAGACACACAAAGTCTCTCTATGT
25262009 TCAATTAATCATAAATACGGTAAGAGTTTATATGGATATTATTATTAAATATACACATATTATTT
1 TCAATTAATCATAAATACGGTAAGAGTTTATATGGATATTATTATTAAATATACACATATTATTT
25262074 ATGGATAGAACATTCACAGTCTTTAATTGGTTACAACCCACACCTTCAATTGCAAATCCAAATTA
66 ATGGATAGAACATTCACAGTCTTTAATTGGTTACAACCCACACCTTCAATTGCAAATCCAAATTA
25262139 CAAACCTCGATCCTCAATACTCCTATGGTGCAGGTTTGGTCAAATTTCGCCAAGATAAGAACTTT
131 CAAACCTCGATCCTCAATACTCCTATGGTGCAGGTTTGGTCAAATTTCGCCAAGATAAGAACTTT
25262204 AAACAAACAAGACACACAAAGTCTCTCTATGT
196 AAACAAACAAGACACACAAAGTCTCTCTATGT
25262236 T
1 T
25262237 AGTTTTGATT
Statistics
Matches: 228, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 228 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (227 bp):
TCAATTAATCATAAATACGGTAAGAGTTTATATGGATATTATTATTAAATATACACATATTATTT
ATGGATAGAACATTCACAGTCTTTAATTGGTTACAACCCACACCTTCAATTGCAAATCCAAATTA
CAAACCTCGATCCTCAATACTCCTATGGTGCAGGTTTGGTCAAATTTCGCCAAGATAAGAACTTT
AAACAAACAAGACACACAAAGTCTCTCTATGT
Found at i:25263772 original size:200 final size:200
Alignment explanation
Indices: 25263548--25263947 Score: 800
Period size: 200 Copynumber: 2.0 Consensus size: 200
25263538 AATTTTATAC
25263548 GAATCAAATTCACATATATATATATTAATTTAACCATGTTCTTATTATGTGTACAACATACTTGT
1 GAATCAAATTCACATATATATATATTAATTTAACCATGTTCTTATTATGTGTACAACATACTTGT
25263613 ACATATAATTCGTTCGATATTTAACGACCCAATTAAATTAATTCTATAATTAATTTAATTCATGT
66 ACATATAATTCGTTCGATATTTAACGACCCAATTAAATTAATTCTATAATTAATTTAATTCATGT
25263678 GGCAGTTAAAAACAATATCAATTATGTTTGGATTCTATTCATTTCAACCATAGAGTGTGACCCTA
131 GGCAGTTAAAAACAATATCAATTATGTTTGGATTCTATTCATTTCAACCATAGAGTGTGACCCTA
25263743 TAGGT
196 TAGGT
25263748 GAATCAAATTCACATATATATATATTAATTTAACCATGTTCTTATTATGTGTACAACATACTTGT
1 GAATCAAATTCACATATATATATATTAATTTAACCATGTTCTTATTATGTGTACAACATACTTGT
25263813 ACATATAATTCGTTCGATATTTAACGACCCAATTAAATTAATTCTATAATTAATTTAATTCATGT
66 ACATATAATTCGTTCGATATTTAACGACCCAATTAAATTAATTCTATAATTAATTTAATTCATGT
25263878 GGCAGTTAAAAACAATATCAATTATGTTTGGATTCTATTCATTTCAACCATAGAGTGTGACCCTA
131 GGCAGTTAAAAACAATATCAATTATGTTTGGATTCTATTCATTTCAACCATAGAGTGTGACCCTA
25263943 TAGGT
196 TAGGT
25263948 TCTTGTAATG
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (200 bp):
GAATCAAATTCACATATATATATATTAATTTAACCATGTTCTTATTATGTGTACAACATACTTGT
ACATATAATTCGTTCGATATTTAACGACCCAATTAAATTAATTCTATAATTAATTTAATTCATGT
GGCAGTTAAAAACAATATCAATTATGTTTGGATTCTATTCATTTCAACCATAGAGTGTGACCCTA
TAGGT
Found at i:25265591 original size:79 final size:80
Alignment explanation
Indices: 25265489--25265673 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
25265479 GCTACTCGTT
* *
25265489 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
25265552 GGATTTAGTAAC-TCGCA
63 GGATATAGTAACTTAGCA
* **
25265569 CAAAGGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
25265633 ATATGGTCACTTAGCA
65 ATATAGTAACTTAGCA
25265649 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
25265674 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 33 0.36
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:25265673 original size:40 final size:40
Alignment explanation
Indices: 25265470--25265673 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
25265460 CGGAATTTAA
** *
25265470 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25265510 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25265550 CCGGATTTAGTAACTCGCACAAAGGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25265589 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
25265629 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
25265669 CCGGA
1 CCGGA
25265674 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:25267758 original size:40 final size:40
Alignment explanation
Indices: 25267701--25267883 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
25267691 CCAGCATGAT
* *
25267701 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
25267741 TGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
25267781 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* * *
25267822 TGC-CTTC-GGATCTTAGTCCAGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
25267862 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
25267884 CATCATTCGA
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 95 0.81
41 19 0.16
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:25268230 original size:29 final size:29
Alignment explanation
Indices: 25268191--25268269 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
25268181 CTTAATAATC
*
25268191 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
25268221 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
25268250 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
25268270 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:25268312 original size:43 final size:43
Alignment explanation
Indices: 25268251--25268353 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
25268241 TGCATTTCAA
25268251 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
25268294 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
25268337 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
25268354 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:25269021 original size:46 final size:46
Alignment explanation
Indices: 25268970--25269058 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
25268960 TGGCTAACTA
*
25268970 CGACACTGTCACCTTAAAAATCATATCTTGAGTTTCACAACTCGAG
1 CGACACTGTCACCTTAAAAATCATATATTGAGTTTCACAACTCGAG
25269016 CGACACTGTCACCTTAAAAATCATATATTGAGTTTCACAACTC
1 CGACACTGTCACCTTAAAAATCATATATTGAGTTTCACAACTC
25269059 AAAAATAAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (46 bp):
CGACACTGTCACCTTAAAAATCATATATTGAGTTTCACAACTCGAG
Found at i:25270116 original size:54 final size:54
Alignment explanation
Indices: 25270034--25270141 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
25270024 AGGCAGATAA
25270034 ACTTTCACATAAAAGTGAGCTCATGTGACATAGATATATCGTATGATTTCACAT
1 ACTTTCACATAAAAGTGAGCTCATGTGACATAGATATATCGTATGATTTCACAT
25270088 ACTTTCACATAAAAGTGAGCTCATGTGACATAGATATATCGTATGATTTCACAT
1 ACTTTCACATAAAAGTGAGCTCATGTGACATAGATATATCGTATGATTTCACAT
25270142 GACCTCTCAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (54 bp):
ACTTTCACATAAAAGTGAGCTCATGTGACATAGATATATCGTATGATTTCACAT
Found at i:25270369 original size:37 final size:37
Alignment explanation
Indices: 25270319--25270434 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
25270309 TTATTACGAA
* * * *
25270319 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
25270356 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
25270393 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
25270430 GTCTT
1 GTCTT
25270435 TAGAGCTCGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:25270632 original size:47 final size:47
Alignment explanation
Indices: 25270553--25271576 Score: 1908
Period size: 47 Copynumber: 21.7 Consensus size: 47
25270543 CCCTTCGGGA
* * * * *
25270553 CTTATCACATTTATACACTTTCACA-TCAATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTC-ATCACATCGGCCATTAGGC
* *
25270600 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25270647 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25270694 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25270741 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25270788 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25270835 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25270882 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25270929 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25270976 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25271023 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25271070 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25271117 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25271164 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25271211 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25271258 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25271305 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25271352 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25271399 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25271446 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25271493 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
25271542 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
25271577 AGAATCCTAA
Statistics
Matches: 961, Mismatches: 12, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 912 0.95
48 2 0.00
49 46 0.05
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25273634 original size:106 final size:106
Alignment explanation
Indices: 25273447--25273657 Score: 395
Period size: 106 Copynumber: 2.0 Consensus size: 106
25273437 CCATCACATA
25273447 GCAAGATTTAGACCATGGGCTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCAGCTCATG
1 GCAAGATTTAGACCATGGGCTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCAGCTCATG
*
25273512 GAACATCATCAAACATACCTTAGCCTAGTTACTTGCATGGC
66 GAACATCATCAAACATACCTTAGCCTAGTTACATGCATGGC
*
25273553 GCAAGATTTAGACCATGGGCTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCATCTCATG
1 GCAAGATTTAGACCATGGGCTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCAGCTCATG
*
25273618 GAACATCATCATACATACCTTAGCCTAGTTACATGCATGG
66 GAACATCATCAAACATACCTTAGCCTAGTTACATGCATGG
25273658 TCGAACCTCT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 102 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (106 bp):
GCAAGATTTAGACCATGGGCTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCAGCTCATG
GAACATCATCAAACATACCTTAGCCTAGTTACATGCATGGC
Found at i:25274526 original size:24 final size:24
Alignment explanation
Indices: 25274487--25274540 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
25274477 CCGTAGCCAA
*
25274487 ACTTTT-AGCTTTTTGGCATTTTG
1 ACTTTTCAGCATTTTGGCATTTTG
*
25274510 ACTTTTCAGCATTTTGGCTTTTTG
1 ACTTTTCAGCATTTTGGCATTTTG
*
25274534 GCTTTTC
1 ACTTTTC
25274541 GGCTTTTACC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.11, C:0.17, G:0.17, T:0.56
Consensus pattern (24 bp):
ACTTTTCAGCATTTTGGCATTTTG
Found at i:25274544 original size:16 final size:16
Alignment explanation
Indices: 25274489--25274547 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
25274479 GTAGCCAAAC
*
25274489 TTTTAGCTTTTTGGCA
1 TTTTGGCTTTTTGGCA
* **
25274505 TTTTGACTTTTCAGCA
1 TTTTGGCTTTTTGGCA
25274521 TTTTGGCTTTTTGGC-
1 TTTTGGCTTTTTGGCA
25274536 TTTTCGGCTTTT
1 TTTT-GGCTTTT
25274548 ACCGATCTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
15 4 0.11
16 31 0.89
ACGTcount: A:0.08, C:0.15, G:0.19, T:0.58
Consensus pattern (16 bp):
TTTTGGCTTTTTGGCA
Found at i:25276588 original size:41 final size:41
Alignment explanation
Indices: 25276525--25276642 Score: 139
Period size: 41 Copynumber: 2.9 Consensus size: 41
25276515 GCCACCGGTG
* * * *
25276525 GATCCACGGTCGCCAAGTAACCATGTAATCCTTAATCGATC
1 GATCCACGGTCGTCAAGAAACCATGCAATCCTCAATCGATC
* * * *
25276566 GATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCGGTG
1 GATCCACGGTCGTCAAGAAACCATGCAATCCTCAATCGATC
*
25276607 GATCCACGGTTGTCAAGAAACCATG-AGATCCTCAAT
1 GATCCACGGTCGTCAAGAAACCATGCA-ATCCTCAAT
25276643 TTCTTCCTCC
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (41 bp):
GATCCACGGTCGTCAAGAAACCATGCAATCCTCAATCGATC
Found at i:25276915 original size:27 final size:27
Alignment explanation
Indices: 25276872--25276938 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
25276862 AAGGGCAAAA
* *
25276872 CAGTCATTTTACCCTACAGGGGTATGT
1 CAGTCATTTTACACTACAAGGGTATGT
* *
25276899 CGGTCATTTTACACTACAAGGGTATTT
1 CAGTCATTTTACACTACAAGGGTATGT
*
25276926 CAGTAATTTTACA
1 CAGTCATTTTACA
25276939 AATCGAGAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
CAGTCATTTTACACTACAAGGGTATGT
Found at i:25276950 original size:27 final size:27
Alignment explanation
Indices: 25276917--25277469 Score: 613
Period size: 27 Copynumber: 20.7 Consensus size: 27
25276907 TTACACTACA
25276917 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
25276944 AGAGTATTTTTTGTAATTTTACAAATCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* * * *
25276972 AGGGTGTTTCGGTAATTTTACGAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
25276999 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
25277026 AGAGTATTTTTGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
25277053 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
25277080 AGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
25277106 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
25277133 AGGATATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
25277160 AGGATATTTTAGTAATTTTAC-ATTCG
1 AGGGTATTTCAGTAATTTTACAAATCG
** *
25277186 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
25277213 AGGGTATTTC-GATAATTTCAC-AATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* **
25277239 AGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
25277266 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
25277292 AGGGTATTTTAGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
25277319 AGAGTATTTCGGTAATTTTAAAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
25277346 ACGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
25277372 AGGGTATTTC-GATAATTTTACAGATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
*
25277399 AGGGTATTTCAGTAATTTCT-C-AATCA
1 AGGGTATTTCAGTAATTT-TACAAATCG
25277425 AGGGTATTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* **
25277452 GGGGTATTTTGGTAATTT
1 AGGGTATTTCAGTAATTT
25277470 CTCTTTATTA
Statistics
Matches: 444, Mismatches: 67, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
25 3 0.01
26 133 0.30
27 282 0.64
28 26 0.06
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:25277128 original size:53 final size:54
Alignment explanation
Indices: 25276891--25277469 Score: 661
Period size: 53 Copynumber: 10.8 Consensus size: 54
25276881 TACCCTACAG
* * * * *
25276891 GGGTATGTCGGTCATTTTAC-ACTACAAGGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTTAGTAATTTTACAAATCGA
* ** * ** * *
25276945 GAGTATTTTTTGTAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACGAATCAA
1 GGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGA
* *
25277000 GGGTATTTCGGTAATTTTACAAATCGAGAGTATTTTTGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGA
* *
25277054 GGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGA
** * *
25277107 GGGTATTTCAATAATTTTACAAATCGAGGATATTTTGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGA
* ** * * *
25277161 GGATATTTTAGTAATTTTAC-ATTCGAGGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGA
* * * *
25277214 GGGTATTTCGATAATTTCAC-AATCGAGGGTGTTTTGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGA
* * *
25277267 GGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTTAGTAATTTTACAAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGA
* * * * *
25277320 GAGTATTTCGGTAATTTTAAAAATCGACGGTATTTCAGTAATTTCAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGA
* * * *
25277373 GGGTATTTCGATAATTTTACAGATCGAGGGTATTTCAGTAATTTCT-C-AATCAA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTT-TACAAATCGA
* * *
25277426 GGGTATTTCGATAATTTTACAAATCGGGGGTATTTTGGTAATTT
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTT
25277470 CTCTTTATTA
Statistics
Matches: 452, Mismatches: 68, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
53 276 0.61
54 134 0.30
55 40 0.09
56 2 0.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGA
Found at i:25277154 original size:80 final size:80
Alignment explanation
Indices: 25276891--25277469 Score: 639
Period size: 80 Copynumber: 7.2 Consensus size: 80
25276881 TACCCTACAG
* * * * * *
25276891 GGGTATGTCGGTCATTTTAC-ACTACAAGGGTATTTCAGTAATTTTACAAATCGAGAGTATTTTT
1 GGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCAGTAATTTTAC-AATCGAGGGTA-TTTC
*
25276955 TGTAATTTTACAAATCGA
63 AGTAATTTTACAAATCGA
* * * * * **
25276973 GGGTGTTTCGGTAATTTTACGAATCAAGGGTATTTCGGTAATTTTACAAATCGAGAGTATTTTTG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTCAG
25277038 TAATTTTACAAATCGA
65 TAATTTTACAAATCGA
* * * *
25277054 GGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCAAT
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCAGT
25277119 AATTTTACAAATCGA
66 AATTTTACAAATCGA
* * * * * **
25277134 GGATATTTTGGTAATTTTACAAATCGAGGATATTTTAGTAATTTTACATTCGAGGGTATTTTGGT
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCAGT
*
25277199 AATTTTACAAATTGA
66 AATTTTACAAATCGA
* * * **
25277214 GGGTATTTCGATAATTTCAC-AATCGAGGGTGTTTTGGTAATTTTACAAATCGAGGGTATTTCAG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTCAG
*
25277278 TAATTTCAC-AATCGA
65 TAATTTTACAAATCGA
** * * * * *
25277293 GGGTATTTTAGTAATTTTACAAATCAAGAGTATTTCGGTAATTTTAAAAATCGACGGTATTTCAG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTT-ACAATCGAGGGTATTTCAG
*
25277358 TAATTTCAC-AATCGA
65 TAATTTTACAAATCGA
* * *
25277373 GGGTATTTCGATAATTTTACAGATCGAGGGTATTTCAGTAATTTCT-CAATCAAGGGTATTTC-G
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT-TACAATCGAGGGTATTTCAG
*
25277436 ATAATTTTACAAATCGG
65 -TAATTTTACAAATCGA
*
25277453 GGGTATTTTGGTAATTT
1 GGGTATTTCGGTAATTT
25277470 CTCTTTATTA
Statistics
Matches: 430, Mismatches: 60, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.00
79 65 0.15
80 245 0.57
81 66 0.15
82 51 0.12
83 2 0.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (80 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCAGT
AATTTTACAAATCGA
Found at i:25277813 original size:28 final size:28
Alignment explanation
Indices: 25277777--25277840 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
25277767 TGGCCGCTGT
* *
25277777 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
25277805 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
25277833 AGGCCCAA
1 AGGCCCAA
25277841 CTACTTCCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.27, C:0.38, G:0.17, T:0.19
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:25279811 original size:20 final size:21
Alignment explanation
Indices: 25279776--25279816 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25279766 ATAGGAGAGT
*
25279776 AAAAACGGCGAGAAATGGACC
1 AAAAACGGCGAGAAATAGACC
*
25279797 AAAAACGGTGA-AAATAGACC
1 AAAAACGGCGAGAAATAGACC
25279817 CATGCGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.51, C:0.17, G:0.24, T:0.07
Consensus pattern (21 bp):
AAAAACGGCGAGAAATAGACC
Found at i:25282097 original size:41 final size:41
Alignment explanation
Indices: 25282032--25282148 Score: 153
Period size: 41 Copynumber: 2.9 Consensus size: 41
25282022 CTACCAGTGG
* * * **
25282032 ATCCACGGTCGTCAAGAAACCATGCGATCCTTAATCGGTCA
1 ATCCACGATCGTCAAGCAACCATGCGATCCTCAATCAATCA
* **
25282073 ATGCACGATCGTCAAGCAACCATGCGATCCTCAATCAATGG
1 ATCCACGATCGTCAAGCAACCATGCGATCCTCAATCAATCA
*
25282114 ATCCACGATCATCAAGCAACCATGCGATCCTCAAT
1 ATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
25282149 TTCTTCCTCC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.21
Consensus pattern (41 bp):
ATCCACGATCGTCAAGCAACCATGCGATCCTCAATCAATCA
Found at i:25282106 original size:19 final size:19
Alignment explanation
Indices: 25282078--25282147 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
25282068 GGTCAATGCA
*
25282078 CGATCGTCAAGCAACCATG
1 CGATCCTCAAGCAACCATG
* ** *
25282097 CGATCCTCAATCAATGGATCCA
1 CGATCCTCAAGCAA-CCAT--G
*
25282119 CGATCATCAAGCAACCATG
1 CGATCCTCAAGCAACCATG
25282138 CGATCCTCAA
1 CGATCCTCAA
25282148 TTTCTTCCTC
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
19 21 0.57
20 2 0.05
21 2 0.05
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.19
Consensus pattern (19 bp):
CGATCCTCAAGCAACCATG
Found at i:25282456 original size:27 final size:27
Alignment explanation
Indices: 25282382--25282470 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
25282372 CAAAACAGTC
* * * * * *
25282382 ATTTTACCCAACAGGGGTATGTCAGTC
1 ATTTTACACTACAAGGGTATTTTAGTA
25282409 ATTTTACACTACAAGGGTATTTTAGTA
1 ATTTTACACTACAAGGGTATTTTAGTA
25282436 ATTTTACACTACAAGGGTATTTT-GATA
1 ATTTTACACTACAAGGGTATTTTAG-TA
25282463 ATTTTACA
1 ATTTTACA
25282471 AATCGATGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTTAGTA
Found at i:25282517 original size:80 final size:80
Alignment explanation
Indices: 25282421--25282882 Score: 481
Period size: 80 Copynumber: 5.8 Consensus size: 80
25282411 TTTACACTAC
* * * * *
25282421 AAGGGTATTTTAGTAATTTTAC-ACTACAAGGGTATTTTGATAATTTTACAAATCGATGGTATTT
1 AAGGGTATTTCAGTAATTTTACAAAT-CGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTT
**
25282485 CGGTAATTTAAAAATT
65 CAATAATTTAAAAATT
** * * * *
25282501 AAGGGTATTTTGGTAATTTTACAAGTCGAGGGTGTTTCGGTAATTTTACAAATCGATGGTATTTC
1 AAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTC
* * * *
25282566 AGTAATTTCACAATGG
66 AATAATTTAAAAAT-T
* *
25282582 AA-GGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTC
1 AAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTC
* *
25282646 AATAATTTCACAATT
66 AATAATTTAAAAATT
* * * * *
25282661 GAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCAATAATGTCAC-AATCGAGGGTATTTC
1 AAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTC
*
25282725 AATAATTTTACAAATT
66 AATAA-TTTAAAAATT
** * * *
25282741 GGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTC-AGTAATTTTAC-AATCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTT
* * *
25282804 CGATAATTTTATAAATC
65 CAATAA-TTTAAAAATT
* *
25282821 GAGGGTATTTCAGTAATTTCT-C-AATCGAGGGTATTTCGGTAATTTTACAAATCGA-GGTATTT
1 AAGGGTATTTCAGTAATTT-TACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTT
25282883 TGGTAATTTC
Statistics
Matches: 331, Mismatches: 43, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
79 52 0.16
80 274 0.83
81 5 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (80 bp):
AAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTC
AATAATTTAAAAATT
Found at i:25282523 original size:53 final size:54
Alignment explanation
Indices: 25282396--25282891 Score: 501
Period size: 53 Copynumber: 9.3 Consensus size: 54
25282386 TACCCAACAG
* * * * ** * *
25282396 GGGTATGTCAGTCATTTTAC-ACTACAAGGGTATTTTAGTAATTTTAC-ACTACAA
1 GGGTATTTCAGTAATTTTACAAAT-CGAGGGTATTTCGGTAATTTTACAAAT-CGA
* * * **
25282450 GGGTATTT-TGATAATTTTACAAATCGATGGTATTTCGGTAA-TTTAAAAATTAA
1 GGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
** * *
25282503 GGGTATTTTGGTAATTTTACAAGTCGAGGGTGTTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
* * * * *
25282557 TGGTATTTCAGTAATTTCAC-AATGGAAGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
** ** * *
25282610 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCAC-AATTGA
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
* ** * *
25282663 GGGTATTTCAATAATTTTACAAATCGAGGGTATTTCAATAATGTCAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
* * * *
25282716 GGGTATTTCAATAATTTTACAAATTGGGGGTATTTCGGTAATTTTACAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
* * *
25282770 GGGTATTTCAGTAATTTTAC-AATCAAGGGTATTTCGATAATTTTATAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
25282823 GGGTATTTCAGTAATTTCT-C-AATCGAGGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTT-TACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
**
25282876 -GGTATTTTGGTAATTT
1 GGGTATTTCAGTAATTT
25282892 CTCTTTATTA
Statistics
Matches: 374, Mismatches: 60, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
52 14 0.04
53 255 0.68
54 103 0.28
55 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
Found at i:25282615 original size:133 final size:133
Alignment explanation
Indices: 25282422--25282891 Score: 613
Period size: 133 Copynumber: 3.5 Consensus size: 133
25282412 TTACACTACA
* * * * * *
25282422 AGGGTATTTTAGTAATTTTACACTACAAGGGTATTT-TGATAATTTTACAAATCGATGGTATTTC
1 AGGGTATTTCAGTAATTTCACAAT-CGAGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTC
* * ** * *
25282486 GGTAA-TTTAAAAATTAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTGTTTCGGTAATTTTAC
64 GGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAA-TCGAGGGTATTTCGATAATTTTAC
25282550 AAATCG
128 AAATCG
* * * *
25282556 ATGGTATTTCAGTAATTTCACAATGGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGG
1 AGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGG
* * * * *
25282621 TAATTTTACAAATCGAGGGTATTTCAATAATTTCACAATTGAGGGTATTTCAATAATTTTACAAA
66 TAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGATAATTTTACAAA
25282686 TCG
131 TCG
* * * * *
25282689 AGGGTATTTCAATAATGTCACAATCGAGGGTATTTCAATAATTTTACAAATTGGGGGTATTTCGG
1 AGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGG
* *
25282754 TAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAATCAAGGGTATTTCGATAATTTTATAAA
66 TAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGATAATTTTACAAA
25282819 TCG
131 TCG
* * *
25282822 AGGGTATTTCAGTAATTTCTCAATCGAGGGTATTTCGGTAATTTTACAAATCGA-GGTATTTTGG
1 AGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGG
25282886 TAATTT
66 TAATTT
25282892 CTCTTTATTA
Statistics
Matches: 289, Mismatches: 45, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
132 15 0.05
133 226 0.78
134 48 0.17
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (133 bp):
AGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGG
TAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGATAATTTTACAAA
TCG
Found at i:25285270 original size:9 final size:10
Alignment explanation
Indices: 25285256--25285307 Score: 58
Period size: 9 Copynumber: 5.5 Consensus size: 10
25285246 CATTGTTTGC
25285256 TTTATT-TTA
1 TTTATTATTA
25285265 TTTATTATTA
1 TTTATTATTA
25285275 -TTATTATTA
1 TTTATTATTA
25285284 -TTATTATTA
1 TTTATTATTA
*
25285293 TTCT-TTGTTA
1 TT-TATTATTA
25285303 TTTAT
1 TTTAT
25285308 ATTTTCTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
9 25 0.66
10 12 0.32
11 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTATTATTA
Found at i:25285274 original size:3 final size:3
Alignment explanation
Indices: 25285257--25285294 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
25285247 ATTGTTTGCT
25285257 TTA TT- TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25285295 CTTTGTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:25285365 original size:18 final size:19
Alignment explanation
Indices: 25285325--25285365 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
25285315 TTCTCTAGTT
*
25285325 ATTATTATTTTTAAGTTGC
1 ATTATTATTCTTAAGTTGC
*
25285344 -TTATTATTCTTAA-TTTC
1 ATTATTATTCTTAAGTTGC
25285361 ATTAT
1 ATTAT
25285366 GTCTATTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (19 bp):
ATTATTATTCTTAAGTTGC
Found at i:25287434 original size:40 final size:40
Alignment explanation
Indices: 25287344--25287604 Score: 271
Period size: 40 Copynumber: 6.5 Consensus size: 40
25287334 CTCAAGAAAT
* * * *
25287344 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
25287382 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
25287422 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
25287462 CTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* ** * *
25287502 CTTCGGGTCTTAGCCTAGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
25287542 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
*
25287583 CTTTGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
25287605 CATTCGAATA
Statistics
Matches: 185, Mismatches: 30, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
38 11 0.06
39 18 0.10
40 127 0.69
41 26 0.14
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:25287475 original size:80 final size:80
Alignment explanation
Indices: 25287344--25287604 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
25287334 CTCAAGAAAT
* * * * * *
25287344 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
25287407 CACTAGCACAGATGC
66 CACTAGCACAAATGC
* *
25287422 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
25287486 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* ** * * * * *
25287502 CTTCGGGTCTTAGCCTAGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
25287567 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
*
25287583 CTTTGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
25287605 CATTCGAATA
Statistics
Matches: 153, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 95 0.62
81 30 0.20
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:25288251 original size:38 final size:38
Alignment explanation
Indices: 25288200--25288737 Score: 1076
Period size: 38 Copynumber: 14.2 Consensus size: 38
25288190 TGCTTACCTA
25288200 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288238 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288276 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288314 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288352 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288390 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288428 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288466 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288504 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288542 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288580 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288618 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288656 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288694 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
25288732 TGGCCG
1 TGGCCG
25288738 CCACTACTAA
Statistics
Matches: 500, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 500 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACTCATTCATG
Found at i:25295272 original size:40 final size:40
Alignment explanation
Indices: 25295182--25295441 Score: 262
Period size: 40 Copynumber: 6.5 Consensus size: 40
25295172 CTCAAGAAAT
* * * *
25295182 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
25295220 CTTCGGGTCTTAGCCCAGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
25295260 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
25295300 CTTCGGGTCTTAGTCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
25295340 CTTCAGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
25295380 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAG-ACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
25295420 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
25295442 CATTCGAATA
Statistics
Matches: 184, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
38 11 0.06
39 17 0.09
40 149 0.81
41 7 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:25295312 original size:80 final size:80
Alignment explanation
Indices: 25295182--25295441 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
25295172 CTCAAGAAAT
* * * * * * * *
25295182 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCAGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGTCCGGATATAGT
*
25295245 CACTAGCACAGATGC
66 CACTAGCACAAATGC
* *
25295260 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGTCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGTCCGGATATAG
*
25295324 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
25295340 CTTCAGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGTCCGGATATAGT
*
25295405 CACCTAG-ACAAAAGC
66 CA-CTAGCACAAATGC
25295420 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
25295442 CATTCGAATA
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 122 0.79
81 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGTCCGGATATAGT
CACTAGCACAAATGC
Found at i:25295432 original size:120 final size:118
Alignment explanation
Indices: 25295182--25295441 Score: 296
Period size: 120 Copynumber: 2.2 Consensus size: 118
25295172 CTCAAGAAAT
* * * *
25295182 CTTCGGGATTTAGCCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCAGATATGGTCA
1 CTTCGGGACTTAGCCGGATATAACTACTAGCACAAGGCCTTCAGGTCTTAGCCCAGATATAGTCA
* *
25295247 CTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
66 CTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCCCTAGCACAAAAGC
* * * *
25295300 CTTCGGGTCTTAGTCCGGATATAA-TCGCTAGCACAAATGCCTTCAGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAG-CCGGATATAACT-ACTAGCAC-AAGGCCTTCAGGTCTTAGCCCAGATATAG
* * *
25295364 -CAACTCGCAC-GAATGCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAG-ACAAAAGC
63 TC-ACTAGCACAG-ATGCCTTCGGGA-CTTAGCCCGGATATAGTC-CCTAGCACAAAAGC
25295420 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATAT
25295442 CATTCGAATA
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
118 12 0.10
119 21 0.17
120 83 0.69
121 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (118 bp):
CTTCGGGACTTAGCCGGATATAACTACTAGCACAAGGCCTTCAGGTCTTAGCCCAGATATAGTCA
CTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCCCTAGCACAAAAGC
Found at i:25307478 original size:46 final size:46
Alignment explanation
Indices: 25307411--25307585 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
25307401 TGTAACCCGC
*
25307411 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
25307457 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
25307507 --TTCAG-GAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
25307550 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
25307586 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 4 0.04
46 61 0.56
47 27 0.25
48 4 0.04
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:25307526 original size:93 final size:93
Alignment explanation
Indices: 25307419--25307589 Score: 324
Period size: 93 Copynumber: 1.8 Consensus size: 93
25307409 GCCCATAAGT
*
25307419 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25307484 CGAGTTCGGATGCCTAGTTACATTTCAG
66 CGAGTTCGGATGCCTAGTTACATTTCAG
*
25307512 GAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25307577 CGAGTTCGGATGC
66 CGAGTTCGGATGC
25307590 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAG
Found at i:25308044 original size:30 final size:29
Alignment explanation
Indices: 25308010--25308068 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
25308000 ATTTAATACG
25308010 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTT-GAAAAATTACACTTTTGCCCCTA
** *
25308040 AACTTTTCATAATTACACTTTTGCCCCTA
1 AACTTTGAAAAATTACACTTTTGCCCCTA
25308069 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTGAAAAATTACACTTTTGCCCCTA
Found at i:25316173 original size:21 final size:20
Alignment explanation
Indices: 25316144--25316183 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
25316134 CTTTCACGGT
*
25316144 AAGTTGGGCCTCAAGGGGCTG
1 AAGTAGGGCCT-AAGGGGCTG
*
25316165 AAGTAGGGCCTAATGGGCT
1 AAGTAGGGCCTAAGGGGCT
25316184 TTCGGGCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (20 bp):
AAGTAGGGCCTAAGGGGCTG
Found at i:25318365 original size:11 final size:11
Alignment explanation
Indices: 25318351--25318406 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
25318341 CATGATTTAT
25318351 ATGATATGCAC
1 ATGATATGCAC
*
25318362 ATGATATG--T
1 ATGATATGCAC
25318371 ATGATATGCAC
1 ATGATATGCAC
* *
25318382 ATGATCTG--T
1 ATGATATGCAC
25318391 ATGATATGCAC
1 ATGATATGCAC
25318402 ATGAT
1 ATGAT
25318407 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:25318365 original size:20 final size:20
Alignment explanation
Indices: 25318340--25318406 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
25318330 ATTTTGATAT
* *
25318340 ACATGATTTATATGATATGC
1 ACATGATATGTATGATATGC
25318360 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
25318380 ACATGATCTGTATGATATGC
1 ACATGATATGTATGATATGC
25318400 ACATGAT
1 ACATGAT
25318407 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:25318545 original size:23 final size:24
Alignment explanation
Indices: 25318456--25318574 Score: 188
Period size: 24 Copynumber: 5.0 Consensus size: 24
25318446 GAGGAAGTAC
25318456 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
25318480 GAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
25318504 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
25318528 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
25318551 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
25318575 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
23 19 0.21
24 62 0.70
25 8 0.09
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:25332529 original size:29 final size:29
Alignment explanation
Indices: 25332466--25332533 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
25332456 TAATCAACCG
25332466 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
25332495 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
25332524 CGCACACTTA
1 CGCACACTTA
25332534 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:25332819 original size:29 final size:30
Alignment explanation
Indices: 25332780--25332858 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
25332770 CTTAATAATC
25332780 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
25332810 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
25332839 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
25332859 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:25332823 original size:145 final size:145
Alignment explanation
Indices: 25332497--25332802 Score: 594
Period size: 145 Copynumber: 2.1 Consensus size: 145
25332487 TTTAAACTCA
25332497 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
25332562 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
25332627 TAATAATCAACCACG
131 TAATAATCAACCACG
25332642 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
*
25332707 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTTGCACACATAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
*
25332772 TAATAATCAACCGCG
131 TAATAATCAACCACG
25332787 CACACTTAGTGCCATG
1 CACACTTAGTGCCATG
25332803 TACTTTAAAC
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 159 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (145 bp):
CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
TAATAATCAACCACG
Found at i:25333651 original size:106 final size:106
Alignment explanation
Indices: 25333461--25333676 Score: 414
Period size: 106 Copynumber: 2.0 Consensus size: 106
25333451 AATTTAGCAC
*
25333461 ATGCATTACTCATTAACCTACAAAAATTATATTCGGCCTTAGCACACAACTTGCTAGTCGATTCT
1 ATGCATTACTCATTAACCTACAAAAATTATATTCGGCCTTAGCACACAACTTGCTAGCCGATTCT
25333526 TCCCCATCTAGCAACCAATGCACATATGTGCTCACTCAAAA
66 TCCCCATCTAGCAACCAATGCACATATGTGCTCACTCAAAA
*
25333567 ATGCCTTACTCATTAACCTACAAAAATTATATTCGGCCTTAGCACACAACTTGCTAGCCGATTCT
1 ATGCATTACTCATTAACCTACAAAAATTATATTCGGCCTTAGCACACAACTTGCTAGCCGATTCT
25333632 TCCCCATCTAGCAACCAATGCACATATGTGCTCACTCAAAA
66 TCCCCATCTAGCAACCAATGCACATATGTGCTCACTCAAAA
25333673 ATGC
1 ATGC
25333677 TAAAAAAAAA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 108 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.28
Consensus pattern (106 bp):
ATGCATTACTCATTAACCTACAAAAATTATATTCGGCCTTAGCACACAACTTGCTAGCCGATTCT
TCCCCATCTAGCAACCAATGCACATATGTGCTCACTCAAAA
Found at i:25344142 original size:47 final size:47
Alignment explanation
Indices: 25344073--25344427 Score: 395
Period size: 47 Copynumber: 7.6 Consensus size: 47
25344063 GATGCGAATG
25344073 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* *
25344120 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCT-ACGGATGCGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTGA--GATG-TAACTAGGCA
25344166 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* *
25344213 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCT-ACGGATGCGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTGA--GATG-TAACTAGGCA
25344259 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* *
25344306 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCT-ACGGATGCGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTGA--GATG-TAACTAGGCA
25344352 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
25344399 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
25344428 ACTTATGGAT
Statistics
Matches: 263, Mismatches: 12, Indels: 66
0.77 0.04 0.19
Matches are distributed among these distances:
42 6 0.02
43 15 0.06
44 6 0.02
45 6 0.02
46 84 0.32
47 113 0.43
48 6 0.02
49 6 0.02
50 15 0.06
51 6 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:25344183 original size:93 final size:93
Alignment explanation
Indices: 25344024--25344473 Score: 855
Period size: 93 Copynumber: 4.8 Consensus size: 93
25344014 GGATGGTTGA
25344024 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAATGTCCGAACTCGTTGAGT
25344089 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
25344117 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAATGTCCGAACTCGTTGAGT
25344182 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
25344210 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAATGTCCGAACTCGTTGAGT
25344275 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
25344303 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAATGTCCGAACTCGTTGAGT
25344368 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
25344396 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAATGTCCGAACTCGTTGAGT
25344461 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
25344474 ACTTAGGGGT
Statistics
Matches: 352, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 352 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25358620 original size:34 final size:34
Alignment explanation
Indices: 25358547--25358633 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
25358537 TATACTGAAT
* *
25358547 TGGGCTAAGGCCCACACTGATACTGTTATCGTAA
1 TGGGCTAAGGCCCACACTGATAATGCTATCGTAA
25358581 TGGGCTAAGGCCCACACTGATAATGCTA-CTGTTAA
1 TGGGCTAAGGCCCACACTGATAATGCTATC-G-TAA
* *
25358616 -GGGCTTAGGCCCAGACTG
1 TGGGCTAAGGCCCACACTG
25358634 TTTGCACTGC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
33 1 0.02
34 43 0.91
35 3 0.06
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATAATGCTATCGTAA
Found at i:25361792 original size:43 final size:42
Alignment explanation
Indices: 25361744--25361894 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 42
25361734 TATCCTAGAT
* *
25361744 ATGGTCTTACATGTTATCACATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCA-AC
* * * *
25361787 ATGGTCCTACACGAAATCATATAAT-GATGCCAATGCCCCTAAC
1 ATGGTCTTACACGTAATCACAT-ATCGATGCCAATGTCCC-AAC
* * *
25361830 ATGGTATTACACATAATCACA-ATACAATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCC-AAC
* *
25361873 ATGGTCTTATATGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
25361895 CTCGGTAATC
Statistics
Matches: 85, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
41 2 0.02
43 80 0.94
44 3 0.04
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAC
Found at i:25373434 original size:47 final size:44
Alignment explanation
Indices: 25373275--25373637 Score: 232
Period size: 47 Copynumber: 7.8 Consensus size: 44
25373265 GGGATATATT
* *
25373275 GCCGATGCCATGTCCCAGACATGGTCTTACACTGCTGCTCATATACGCGT-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTG--GCT-ATCT-C-TGTA
* * * * *
25373325 GCTGATACATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTA
* ** *
25373369 GCTGATGTGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--A
25373415 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTA
* * *
25373462 GCCGGTGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT-AGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTA
* * **
25373508 TTGCAGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTAG-A
1 --GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATC-TCT-GTA
* * * * *
25373555 TGCCGATGCCATGCCCCAGACATGGTCGTACATTGGCTCTCATACTGTG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTA
* *
25373604 GCCGAAGCATGTTCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
25373638 ATAGAAATCA
Statistics
Matches: 252, Mismatches: 40, Indels: 46
0.75 0.12 0.14
Matches are distributed among these distances:
43 6 0.02
44 30 0.12
45 6 0.02
46 48 0.19
47 83 0.33
48 48 0.19
49 18 0.07
50 13 0.05
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTA
Found at i:25373525 original size:94 final size:94
Alignment explanation
Indices: 25373274--25373634 Score: 337
Period size: 94 Copynumber: 3.9 Consensus size: 94
25373264 TGGGATATAT
* * * *
25373274 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTGCTCATA-TACGCGTGCTGATACATGT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCATAGTA--TG-GCCGATGCATGT
*
25373337 CCCAGACATGTCTTACACTAGCA--CAACTCT-
62 CCCAGACATGTCTTACACTAGCACTCATCTCTG
* ** * *
25373367 TAGCTGATG-TGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGA-GGCCGATGCATGT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCCGATGCATGT
*
25373428 CCCAGACATGTCTTACACTGGCACTCATCTCTG
62 CCCAGACATGTCTTACACTAGCACTCATCTCTG
* * * *
25373461 TGCCGGTGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAGTATTGCAGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
* * *
25373526 GACATGTCTTACACTAGCCCTCGTCT-AG
66 GACATGTCTTACACTAGCACTCATCTCTG
* * * * * * * *
25373554 ATGCCGATGCCATGCCCCAGACATGGTCGTACATTGGCTCTCATACTGTGGCCGAAGCATGTTCC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCC
25373619 AGACATGTCTTACACT
65 AGACATGTCTTACACT
25373635 GGCATAGAAA
Statistics
Matches: 219, Mismatches: 35, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
91 33 0.15
92 13 0.06
93 29 0.13
94 124 0.57
95 19 0.09
96 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTCTG
Found at i:25373540 original size:141 final size:136
Alignment explanation
Indices: 25373275--25373634 Score: 361
Period size: 141 Copynumber: 2.6 Consensus size: 136
25373265 GGGATATATT
* * * *
25373275 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTGCTCATATACGCGTGCTGATACATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCAT-T-C-TGTGCCGATGCATGTCC
* * ** *
25373339 CAGACATGTCTTACACTAGCACAACTCTTAGCTGATGTGTGTCCCAGACACGTCTTACACTGGCT
62 CAGACATGTCTTACACTAGCACAACTATTAGCAGATGCATGTCCCAGACACGTCTTACACTAGC-
*
25373404 ATCTCTGTC-GAG
126 -CCTC-GTCAGAG
*
25373416 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTGTGCCGGTGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCAT-TCTGTGCCGATG-CATGTCCCA
* *
25373479 GACATGGTCTTACACTAGCTATCATAGTATT-GCAGATGCATGTCCCAGACATGTCTTACACTAG
64 GACAT-GTCTTACACTAGC-A-CA-ACTATTAGCAGATGCATGTCCCAGACACGTCTTACACTAG
*
25373543 CCCTCGTCTAGAT
125 CCCTCGTC-AGAG
* * * * * * *
25373556 GCCGATGCCATGCCCCAGACATGGTCGTACATTGGCTCTCATACTGTGGCCGAAGCATGTTCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATTCTGT-GCCGATGCATGTCCCAG
25373621 ACATGTCTTACACT
65 ACATGTCTTACACT
25373635 GGCATAGAAA
Statistics
Matches: 185, Mismatches: 23, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
137 6 0.03
138 18 0.10
139 32 0.17
140 36 0.19
141 68 0.37
142 25 0.14
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (136 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATTCTGTGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCACAACTATTAGCAGATGCATGTCCCAGACACGTCTTACACTAGCCCTCG
TCAGAG
Found at i:25379457 original size:24 final size:24
Alignment explanation
Indices: 25379425--25379474 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
25379415 TCACTCTCTA
25379425 GCGCAGTCCCTTCTACGGAAACTG
1 GCGCAGTCCCTTCTACGGAAACTG
**
25379449 GCGCAGTCCCTTCTGTGGAAACTG
1 GCGCAGTCCCTTCTACGGAAACTG
25379473 GC
1 GC
25379475 ACATTACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.32, G:0.28, T:0.22
Consensus pattern (24 bp):
GCGCAGTCCCTTCTACGGAAACTG
Found at i:25384705 original size:33 final size:33
Alignment explanation
Indices: 25384660--25384747 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 33
25384650 TTGAAAAAAC
* *
25384660 TGGGCCTAAGCCCATATCAATCGCAATATCAGTG
1 TGGGCCTTAGCCCATATCAATAGCAATAT-AGTG
* * *
25384694 T-GGCCTTAGCCCA-ATACAGTATCAGTATAGTG
1 TGGGCCTTAGCCCATAT-CAATAGCAATATAGTG
*
25384726 TGGGCCTTAGCCCATCTCAATA
1 TGGGCCTTAGCCCATATCAATA
25384748 CAGTAGCATA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
32 7 0.16
33 35 0.80
34 2 0.05
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (33 bp):
TGGGCCTTAGCCCATATCAATAGCAATATAGTG
Found at i:25386268 original size:14 final size:14
Alignment explanation
Indices: 25386249--25386277 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25386239 CAACCCAAAG
25386249 AACAAACACTTCAA
1 AACAAACACTTCAA
25386263 AACAAACACTTCAA
1 AACAAACACTTCAA
25386277 A
1 A
25386278 GTACCAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.14
Consensus pattern (14 bp):
AACAAACACTTCAA
Found at i:25392034 original size:47 final size:46
Alignment explanation
Indices: 25391838--25392199 Score: 209
Period size: 47 Copynumber: 7.7 Consensus size: 46
25391828 ATATATTGCC
* * **
25391838 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGGGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCT-C-TATGCT
* * * * *
25391888 GATGCATGTCCTAGACATATCTTACACTAGCA--CAACTCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTAT-GCT
* * * * * *
25391932 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTC-TGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-A-CTCATCTCTATGCT
* *
25391979 GATACATGTCCCAGACATGTCTTACACTGGCACTCATCTCTTTGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTATGCT
* **
25392025 GGTGCCATGTCCCAGACATGGTCTTACACTGGCTAC-CAT-AGTATGACT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATCTCTATG-CT
* * * * **
25392073 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTTTGGATG-T
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTATGCT
* * * * * * *
25392118 CGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATAATGT-GGCC
1 -GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTCTATGCT
* * *
25392167 GAAGCATGTTCCAGACACGTCTTACACTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
25392200 AGAAATCACC
Statistics
Matches: 245, Mismatches: 49, Indels: 40
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.00
44 28 0.11
45 7 0.03
46 42 0.17
47 92 0.38
48 54 0.22
49 17 0.07
50 4 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTATGCT
Found at i:25392081 original size:94 final size:94
Alignment explanation
Indices: 25391833--25392199 Score: 322
Period size: 94 Copynumber: 3.9 Consensus size: 94
25391823 ATGGGATATA
* * *
25391833 TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGGGTGCTGATGCATGT
1 TTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTA--TG-GCCGATGCATGT
* * *
25391897 CCTAGACATATCTTACACTAGCA--CAACTCT
63 CCCAGACATGTCTTACACTAGCACTCATCTCT
* * * * *
25391927 TAGCCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-T-GTCGA-GGCCGATACATG
1 TTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAGT--ATGGCCGATGCATG
*
25391987 TCCCAGACATGTCTTACACTGGCACTCATCTCT
62 TCCCAGACATGTCTTACACTAGCACTCATCTCT
* * *
25392020 TTGCTGGTGCCATGTCCCAGACATGGTCTTACACTGGCTAC-CATAGTATGACTGATGCATGTCC
1 TTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTCATAGTATGGCCGATGCATGTCC
* * * **
25392084 CAGACATGTCTTACACTAGCCCTCGTTTGG
65 CAGACATGTCTTACACTAGCACTCATCTCT
* * * * * * *
25392114 ATG-TCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGAAGCATGTTC
1 TTGCT-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTATGGCCGATGCATGTCC
* *
25392178 CAGACACGTCTTACACTGGCAC
65 CAGACATGTCTTACACTAGCAC
25392200 AGAAATCACC
Statistics
Matches: 222, Mismatches: 36, Indels: 30
0.77 0.12 0.10
Matches are distributed among these distances:
91 30 0.14
92 14 0.06
93 31 0.14
94 131 0.59
95 16 0.07
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.28
Consensus pattern (94 bp):
TTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTATGGCCGATGCATGTCCC
AGACATGTCTTACACTAGCACTCATCTCT
Found at i:25400139 original size:23 final size:23
Alignment explanation
Indices: 25400096--25400139 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
25400086 TGATGTATAA
*
25400096 TTGAATTGATATTGCATGAATTT
1 TTGAATTGATATTGCAAGAATTT
*
25400119 TTGAATTG-TGATTGTAAGAAT
1 TTGAATTGAT-ATTGCAAGAAT
25400140 GCATATCGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (23 bp):
TTGAATTGATATTGCAAGAATTT
Found at i:25401774 original size:20 final size:21
Alignment explanation
Indices: 25401735--25401774 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
25401725 GTCATAATGG
25401735 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
25401756 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
25401775 GCTTCAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.40, G:0.30, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:25408257 original size:20 final size:22
Alignment explanation
Indices: 25408217--25408266 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
25408207 TGAATTATGG
*
25408217 GTTTTTATTTATGATTTTTTAA
1 GTTTTTATTTATGAATTTTTAA
25408239 GTTTTT-TTT-TGAATTTTTATA
1 GTTTTTATTTATGAATTTTTA-A
*
25408260 ATTTTTA
1 GTTTTTA
25408267 GATTTATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 9 0.38
21 9 0.38
22 6 0.25
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (22 bp):
GTTTTTATTTATGAATTTTTAA
Found at i:25409085 original size:3 final size:3
Alignment explanation
Indices: 25409077--25409109 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
25409067 GTAGGTCTAC
25409077 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25409110 ATCACCGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25409251 original size:24 final size:24
Alignment explanation
Indices: 25409201--25409251 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
25409191 ACAAATATAT
* *
25409201 TTTAAAATAATAATAATTAATTGC
1 TTTAAAATAATAACAATTAATGGC
*
25409225 TTTAAAATCAT-ACAATTAATGGTC
1 TTTAAAATAATAACAATTAATGG-C
25409249 TTT
1 TTT
25409252 TTTTCATCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (24 bp):
TTTAAAATAATAACAATTAATGGC
Found at i:25409887 original size:9 final size:9
Alignment explanation
Indices: 25409875--25409972 Score: 74
Period size: 9 Copynumber: 10.3 Consensus size: 9
25409865 AAAATACAAT
25409875 AAATTATTA
1 AAATTATTA
25409884 AAATTATTA
1 AAATTATTA
25409893 AAATTATTAA
1 AAATTATT-A
25409903 AAATT-TTA
1 AAATTATTA
*
25409911 TTAAATTAGTA
1 --AAATTATTA
25409922 AAACTTATTTA
1 AAA-TTA-TTA
25409933 AAA-TATTTA
1 AAATTA-TTA
**
25409942 AAATTAAAA
1 AAATTATTA
25409951 AAATTTATTA
1 AAA-TTATTA
* *
25409961 GAATTCTTA
1 AAATTATTA
25409970 AAA
1 AAA
25409973 AGAATAAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
8 1 0.01
9 42 0.58
10 22 0.31
11 7 0.10
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (9 bp):
AAATTATTA
Found at i:25409912 original size:30 final size:31
Alignment explanation
Indices: 25409878--25409941 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
25409868 ATACAATAAA
*
25409878 TTATTAAAATTATTAAAA-TTATTAAAAAT-T
1 TTATT-AAATTAGTAAAACTTATTAAAAATAT
*
25409908 TTATTAAATTAGTAAAACTTATTTAAAATAT
1 TTATTAAATTAGTAAAACTTATTAAAAATAT
25409939 TTA
1 TTA
25409942 AAATTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 11 0.37
30 15 0.50
31 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (31 bp):
TTATTAAATTAGTAAAACTTATTAAAAATAT
Found at i:25409953 original size:29 final size:27
Alignment explanation
Indices: 25409875--25409960 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 27
25409865 AAAATACAAT
*
25409875 AAATTATTAAAATTATTAAAATTATTAA
1 AAATT-TTAAAATTAATAAAATTATTAA
* *
25409903 AAATTTTATTAAATTAGTAAAACTTATTTA
1 AAATTTTA--AAATTAATAAAA-TTATTAA
*
25409933 AAATATTTAAAATTAAAAAAATTTATTA
1 AAAT-TTTAAAATTAATAAAA-TTATTA
25409961 GAATTCTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
27 3 0.06
28 5 0.10
29 26 0.54
30 10 0.21
31 4 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (27 bp):
AAATTTTAAAATTAATAAAATTATTAA
Found at i:25410005 original size:9 final size:9
Alignment explanation
Indices: 25409991--25410042 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
25409981 AATTGCAAAG
25409991 AAAATATAA
1 AAAATATAA
*
25410000 AAAATATTA
1 AAAATATAA
* *
25410009 AAATTCATAT
1 AAAAT-ATAA
*
25410019 AAAATTTAA
1 AAAATATAA
*
25410028 AAATTATAA
1 AAAATATAA
25410037 AAAATA
1 AAAATA
25410043 ATTAAAATTG
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
9 26 0.81
10 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAATATAA
Found at i:25410049 original size:19 final size:18
Alignment explanation
Indices: 25409991--25410051 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 18
25409981 AATTGCAAAG
25409991 AAAA-TATAAAAAATATT
1 AAAATTATAAAAAATATT
*
25410008 AAAATTCATATAAAAT-TT
1 AAAATT-ATAAAAAATATT
25410026 AAAAATTATAAAAAATAATT
1 -AAAATTATAAAAAAT-ATT
25410046 AAAATT
1 AAAATT
25410052 GAATAGGACA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 4 0.11
18 11 0.30
19 20 0.54
20 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTATAAAAAATATT
Found at i:25410566 original size:28 final size:29
Alignment explanation
Indices: 25410535--25410593 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
25410525 TTGAAAATAT
* *
25410535 AATAAAAAGTAATTAT-ACTAAAATTAAA
1 AATAAAAAGTAAATATGACTAAAAATAAA
* *
25410563 AATAAAATGTAAATATGATTAAAAATAAA
1 AATAAAAAGTAAATATGACTAAAAATAAA
25410592 AA
1 AA
25410594 AAATATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (29 bp):
AATAAAAAGTAAATATGACTAAAAATAAA
Found at i:25410605 original size:21 final size:22
Alignment explanation
Indices: 25410557--25410599 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
25410547 TTATACTAAA
*
25410557 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAA-GAAAATATG
25410580 ATTAAAAATAAAA-AAAATAT
1 ATTAAAAATAAAAGAAAATAT
25410600 ATTTAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (22 bp):
ATTAAAAATAAAAGAAAATATG
Found at i:25410885 original size:15 final size:16
Alignment explanation
Indices: 25410851--25410889 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
25410841 CAGTTCAATT
*
25410851 AAATAAAACTTTTAAA
1 AAATAAAACTATTAAA
*
25410867 AAATAAAAGTATT-AA
1 AAATAAAACTATTAAA
25410882 AAATAAAA
1 AAATAAAA
25410890 AAATTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATAAAACTATTAAA
Found at i:25411019 original size:10 final size:9
Alignment explanation
Indices: 25411006--25411292 Score: 74
Period size: 10 Copynumber: 30.7 Consensus size: 9
25410996 CCAATTCAAG
25411006 TTTTTATGAT
1 TTTTTAT-AT
25411016 TTTTT-TAT
1 TTTTTATAT
25411024 ATTTTTATAAT
1 -TTTTTAT-AT
* *
25411035 TTTATATCAA
1 TTTTTAT-AT
*
25411045 TTTTAATAT
1 TTTTTATAT
25411054 TTTTATATAT
1 TTTT-TATAT
25411064 TTTTTATAAT
1 TTTTTAT-AT
25411074 TTTTTGAT-T
1 TTTTT-ATAT
* *
25411083 TTTTATAGAA
1 TTTT-TATAT
*
25411093 TTTTAATAT
1 TTTTTATAT
*
25411102 GTTTTTATAAAAA
1 -TTTTTAT---AT
**
25411115 TTTAAATAT
1 TTTTTATAT
**
25411124 TTTAAATAT
1 TTTTTATAT
25411133 GTTTTGT-TA-
1 -TTTT-TATAT
*
25411142 ATTTTATAT
1 TTTTTATAT
25411151 ATTTTTATAAT
1 -TTTTTAT-AT
* * *
25411162 TTATTAGAA
1 TTTTTATAT
*
25411171 TTTTAATAT
1 TTTTTATAT
25411180 TTTTT-TAAT
1 TTTTTAT-AT
25411189 TTTTTA-AT
1 TTTTTATAT
*
25411197 TTTTT-TAA
1 TTTTTATAT
* *
25411205 ATTTTA-AG
1 TTTTTATAT
* *
25411213 TTTATATCAA
1 TTTTTAT-AT
25411223 TTTTTATAT
1 TTTTTATAT
*
25411232 TTTCTCATA-
1 TTT-TTATAT
*
25411241 -TTTAATAT
1 TTTTTATAT
25411249 TTTTTATAT
1 TTTTTATAT
25411258 TTTTCTA-AT
1 TTTT-TATAT
*
25411267 TTTTGATAAT
1 TTTTTAT-AT
*
25411277 TTATTATGAT
1 TTTTTAT-AT
25411287 TTTTTA
1 TTTTTA
25411293 AACATTTTAA
Statistics
Matches: 202, Mismatches: 45, Indels: 60
0.66 0.15 0.20
Matches are distributed among these distances:
7 5 0.02
8 28 0.14
9 70 0.35
10 87 0.43
11 6 0.03
12 5 0.02
13 1 0.00
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTATAT
Found at i:25411037 original size:18 final size:18
Alignment explanation
Indices: 25411006--25411292 Score: 93
Period size: 19 Copynumber: 15.9 Consensus size: 18
25410996 CCAATTCAAG
*
25411006 TTTTTATGATTTTTTTATA
1 TTTTTAT-AATTTTTTATA
*
25411025 TTTTTATAATTTTATATCA
1 TTTTTATAATTTTTTAT-A
*
25411044 ATTTTA-ATATTTTTATATA
1 TTTTTATA-ATTTTT-TATA
25411063 TTTTTTATAATTTTTTGAT-
1 -TTTTTATAATTTTTT-ATA
* *
25411082 TTTTTATAGAATTTTAATATG
1 TTTTTAT--AATTTT-TTATA
*** *
25411103 TTTTTATAAAAATTTAAA
1 TTTTTATAATTTTTTATA
*
25411121 TATTTTA-AA-----TATG
1 T-TTTTATAATTTTTTATA
*
25411134 TTTTGT-TAATTTTATATA
1 TTTT-TATAATTTTTTATA
* *
25411152 TTTTTATAATTTATTAGAA
1 TTTTTATAATTTTTTA-TA
* *
25411171 TTTTAATATTTTTTTA-A
1 TTTTTATAATTTTTTATA
25411188 TTTTT-TAATTTTTT-TA
1 TTTTTATAATTTTTTATA
** * *
25411204 AATTT-TAAGTTTATATCAA
1 TTTTTATAATTTTTTAT--A
*
25411223 TTTTTAT-ATTTTCTCATA
1 TTTTTATAATTTT-TTATA
*
25411241 -TTTAAT-ATTTTTTATA
1 TTTTTATAATTTTTTATA
* *
25411257 TTTTTCTAATTTTTGATAA
1 TTTTTATAATTTTTTAT-A
*
25411276 TTTATTATGATTTTTTA
1 TTT-TTATAATTTTTTA
25411293 AACATTTTAA
Statistics
Matches: 198, Mismatches: 40, Indels: 59
0.67 0.13 0.20
Matches are distributed among these distances:
12 3 0.02
13 6 0.03
16 23 0.12
17 21 0.11
18 45 0.23
19 54 0.27
20 37 0.19
21 9 0.05
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTTTATAATTTTTTATA
Found at i:25411047 original size:20 final size:19
Alignment explanation
Indices: 25411006--25411278 Score: 75
Period size: 17 Copynumber: 14.6 Consensus size: 19
25410996 CCAATTCAAG
* *
25411006 TTTTTATGATTTT-TTTATA
1 TTTTTATAATTTTATATA-A
25411025 TTTTTATAATTTTATATCAA
1 TTTTTATAATTTTATAT-AA
* * *
25411045 TTTTAATATTTTTATATAT
1 TTTTTATAATTTTATATAA
*
25411064 TTTTTATAATTTT-T-TGAT
1 TTTTTATAATTTTATAT-AA
*
25411082 TTTTTATAGAATTTTA-ATATG
1 TTTTTAT--AATTTTATATA-A
* *
25411103 TTTTTATAAAAATTTAAAT-A
1 TTTTTAT--AATTTTATATAA
* * *
25411123 TTTTAAATATGTTTTGT-TAA
1 TTTT-TATA-ATTTTATATAA
25411143 -TTTTATATATTTT-TATAA
1 TTTTTATA-ATTTTATATAA
*
25411161 TTTATTAGAATTTTA-AT-A
1 TTT-TTATAATTTTATATAA
*
25411179 TTTTTTTAATTTT-T-TAA
1 TTTTTATAATTTTATATAA
* * *
25411196 TTTTTTTAAATTT-TA-AG
1 TTTTTATAATTTTATATAA
*
25411213 TTTATATCAATTTT-TAT-A
1 TTTTTAT-AATTTTATATAA
*
25411231 TTTTCTCAT-A-TTTA-ATAT
1 TTTT-T-ATAATTTTATATAA
*
25411249 TTTTTAT-ATTTT-TCTAA
1 TTTTTATAATTTTATATAA
25411266 TTTTTGATAATTT
1 TTTTT-ATAATTT
25411279 ATTATGATTT
Statistics
Matches: 194, Mismatches: 31, Indels: 58
0.69 0.11 0.20
Matches are distributed among these distances:
16 4 0.02
17 46 0.24
18 42 0.22
19 43 0.22
20 39 0.20
21 18 0.09
22 2 0.01
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTTATAATTTTATATAA
Found at i:25411053 original size:28 final size:28
Alignment explanation
Indices: 25411017--25411076 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
25411007 TTTTATGATT
*
25411017 TTTTTATATTTTTATA-ATTTTATATCAA
1 TTTTAATATTTTTATATATTTTATAT-AA
*
25411045 TTTTAATATTTTTATATATTTTTTATAA
1 TTTTAATATTTTTATATATTTTATATAA
25411073 TTTT
1 TTTT
25411077 TTGATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTTAATATTTTTATATATTTTATATAA
Found at i:25411116 original size:22 final size:21
Alignment explanation
Indices: 25411082--25411123 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
25411072 ATTTTTTGAT
* *
25411082 TTTTTATAGAATTTTAATATG
1 TTTTTATAAAATTTAAATATG
25411103 TTTTTATAAAAATTTAAATAT
1 TTTTTAT-AAAATTTAAATAT
25411124 TTTAAATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTTTATAAAATTTAAATATG
Found at i:25413184 original size:70 final size:70
Alignment explanation
Indices: 25413056--25413240 Score: 183
Period size: 70 Copynumber: 2.6 Consensus size: 70
25413046 AATTAACGCG
* * * * ** * ** *
25413056 AGCTCAAGCTCTCAGCTGTACTCTTAAGGCTTGTTGATTCAATATTGCGGCTTATAAAATTGTTA
1 AGCTCAAGCTCCCAACTATACTCTTAAGGCTTGTTAATTCAATATCCCAGCCCATAAAATAGTTA
*
25413121 GC-ACG
66 GCGA-A
* * * *
25413126 AGCTTAAGTTCCCAACTATACTCTTAAGGCTCGTTAATTCAATATCCCAGCCCCTAAAATAGTTA
1 AGCTCAAGCTCCCAACTATACTCTTAAGGCTTGTTAATTCAATATCCCAGCCCATAAAATAGTTA
25413191 GCGAA
66 GCGAA
* * * *
25413196 AGCTCAAGCTGCCAACTATACACTTCAGGCTTGCTAATTCAATAT
1 AGCTCAAGCTCCCAACTATACTCTTAAGGCTTGTTAATTCAATAT
25413241 TACGGCCTCC
Statistics
Matches: 92, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
70 91 0.99
71 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (70 bp):
AGCTCAAGCTCCCAACTATACTCTTAAGGCTTGTTAATTCAATATCCCAGCCCATAAAATAGTTA
GCGAA
Found at i:25423238 original size:40 final size:40
Alignment explanation
Indices: 25423183--25423406 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
25423173 TATTCGGATG
25423183 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
25423223 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
25423266 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
25423306 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
25423346 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
25423386 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
25423407 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 114 0.69
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:25423326 original size:83 final size:80
Alignment explanation
Indices: 25423187--25423406 Score: 302
Period size: 83 Copynumber: 2.7 Consensus size: 80
25423177 CGGATGATAT
* **
25423187 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
25423252 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
25423270 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
25423335 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
25423350 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
25423407 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.35
81 2 0.02
83 64 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:25423426 original size:123 final size:122
Alignment explanation
Indices: 25423183--25423407 Score: 339
Period size: 123 Copynumber: 1.9 Consensus size: 122
25423173 TATTCGGATG
** * *
25423183 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
25423248 TTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTGTGC-AGTAGTTGCTATACCCGGGCTAAATCCCGAAGACATTTGTGCAAGTGACT
*
25423306 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
25423371 TTTGTGC-G-AGTTGCTATATCC-GGCTAAATCCCGAAGA
66 TTTGTGCAGTAGTTGCTATACCCGGGCTAAATCCCGAAGA
25423408 TACTTGGGTT
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
119 14 0.15
120 12 0.13
121 1 0.01
123 67 0.71
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (122 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCAGTAGTTGCTATACCCGGGCTAAATCCCGAAGACATTTGTGCAAGTGACT
Found at i:25429693 original size:40 final size:40
Alignment explanation
Indices: 25429638--25429945 Score: 348
Period size: 40 Copynumber: 7.6 Consensus size: 40
25429628 TATTCGGATG
* * *
25429638 ATATCTGGGCTAAGTCCAGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
25429678 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
25429718 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
25429761 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
25429801 ATATCCGGGCAAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TT-TGTGCG-AGTTACT
* * * *
25429844 ATACCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
25429884 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
25429924 ATA-CCCGGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
25429946 TACTTGGGTT
Statistics
Matches: 224, Mismatches: 38, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
39 15 0.07
40 135 0.60
41 6 0.03
42 6 0.03
43 62 0.28
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:25429886 original size:123 final size:121
Alignment explanation
Indices: 25429644--25429917 Score: 365
Period size: 123 Copynumber: 2.2 Consensus size: 121
25429634 GATGATATCT
* ** *
25429644 GGGCTAAGTCCAGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCAAAGTCCCGAAGGCATTTGTG
*
25429709 CTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCC
66 CTAGTGACTATACCCGGGCGAAGTCCCGAAGGCATTTGTGC--GTAGTTGCTATACCC
*
25429767 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCAAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCAAAGTCCCGAAGGCATTTGTG
* * * *
25429832 -TGAGTAGTTGCTATACCCGGGCTAAGTCCTGAAGGCATTTGTGC-TAG-TGACTATATCC
66 CT-AGT-G--ACTATACCCGGGCGAAGTCCCGAAGGCATTTGTGCGTAGTTG-CTATACCC
*
25429890 GGGCTAAGACCCGAAGGCATTTGTGCGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGA
25429918 ATTGCTATAC
Statistics
Matches: 134, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
122 3 0.02
123 99 0.74
124 1 0.01
126 31 0.23
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (121 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCAAAGTCCCGAAGGCATTTGTG
CTAGTGACTATACCCGGGCGAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATACCC
Found at i:25429964 original size:83 final size:82
Alignment explanation
Indices: 25429638--25429945 Score: 464
Period size: 83 Copynumber: 3.8 Consensus size: 82
25429628 TATTCGGATG
* * * *
25429638 ATATCTGGGCTAAGTCCAGAAGGCATTTGTGC--GAGTTCCTATATCCGGGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATACCCGGGCTAAGTCCCGAAGG
25429701 CATTTGTGCTAGTGACT
66 CATTTGTGCTAGTGACT
*
25429718 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-AGTTGCTATACCCGGGCTAAGTCCCGAAG
25429783 GCATTTGTGCTAGTGACT
65 GCATTTGTGCTAGTGACT
* * *
25429801 ATATCCGGGCAAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCTATACCCGGGCTAAGTCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-AGTTGCTATACCCGGGCTAAGTCCCGAAG
25429866 GCATTTGTGCTAGTGACT
65 GCATTTGTGCTAGTGACT
* * *
25429884 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-A-TTGCTATACCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATACCCGGGCTAAGTCCCGAAGG
25429946 TACTTGGGTT
Statistics
Matches: 213, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
79 15 0.07
80 40 0.19
81 1 0.00
82 1 0.00
83 156 0.73
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (82 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATACCCGGGCTAAGTCCCGAAGG
CATTTGTGCTAGTGACT
Found at i:25438278 original size:27 final size:27
Alignment explanation
Indices: 25438248--25438397 Score: 192
Period size: 27 Copynumber: 5.5 Consensus size: 27
25438238 AAATTGTACG
*
25438248 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTA
* * **
25438275 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTA
25438302 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTA
* *
25438330 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGATTTGACTATGTA
* * *
25438357 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTA
*
25438384 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
25438398 GACTCAATAT
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 85 0.79
28 23 0.21
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTA
Found at i:25438335 original size:55 final size:55
Alignment explanation
Indices: 25438246--25438397 Score: 200
Period size: 55 Copynumber: 2.8 Consensus size: 55
25438236 TTAAATTGTA
* *
25438246 CGGCACTAAGTGTGCGA-TTTGACTATGTTGCACTAAGTGTGCGAATTGACCATG
1 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
* **
25438300 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG
1 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
** * * *
25438355 TAGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG
25438398 GACTCAATAT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 39 0.45
55 48 0.55
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (55 bp):
CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
Found at i:25442136 original size:27 final size:28
Alignment explanation
Indices: 25442098--25442164 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
25442088 TAGATGTGCT
*
25442098 ATTATACCCCTATG-ATGCAAAATTACC
1 ATTATACCCCTATGTATGCAAAATGACC
25442125 ATTATACCCCTATGTATGCAAAATGACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
25442153 TTTATACCCCTA
1 ATTATACCCCTA
25442165 GGGTTAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
27 14 0.38
28 23 0.62
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.31
Consensus pattern (28 bp):
ATTATACCCCTATGTATGCAAAATGACC
Found at i:25442371 original size:29 final size:28
Alignment explanation
Indices: 25442267--25442360 Score: 136
Period size: 28 Copynumber: 3.3 Consensus size: 28
25442257 TGGAGGAAGC
*
25442267 GTTCTAGTGGCTA-TGCCACAAATTATCT
1 GTTCTGGTGGC-ACTGCCACAAATTATCT
*
25442295 GTTCTGGTGGCCCTGCCACAAATTATCT
1 GTTCTGGTGGCACTGCCACAAATTATCT
*
25442323 GTTCTGGTGGCACTGCCACAAAATATCT
1 GTTCTGGTGGCACTGCCACAAATTATCT
25442351 GTATCTGGTG
1 GT-TCTGGTG
25442361 ACTCTGTCAC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
28 53 0.88
29 7 0.12
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (28 bp):
GTTCTGGTGGCACTGCCACAAATTATCT
Found at i:25442385 original size:56 final size:55
Alignment explanation
Indices: 25442267--25442385 Score: 134
Period size: 56 Copynumber: 2.1 Consensus size: 55
25442257 TGGAGGAAGC
* * *
25442267 GTTCTAGTGGCTA-TGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCT
1 GTTCTGGTGGC-ACTGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCT
* * *
25442323 GTTCTGGTGGCACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCT
1 GTTCTGGTGGCACTGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCT
25442378 GTATCTGG
1 GT-TCTGG
25442386 CAGCCGTGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
55 9 0.17
56 31 0.57
57 14 0.26
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (55 bp):
GTTCTGGTGGCACTGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCT
Found at i:25442848 original size:20 final size:20
Alignment explanation
Indices: 25442823--25442863 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25442813 CTTTTAATTA
* *
25442823 TTTTTATGGTTTTGTTTTAC
1 TTTTTATGATTTTATTTTAC
*
25442843 TTTTTATTATTTTATTTTAC
1 TTTTTATGATTTTATTTTAC
25442863 T
1 T
25442864 ATGATGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (20 bp):
TTTTTATGATTTTATTTTAC
Found at i:25444127 original size:40 final size:40
Alignment explanation
Indices: 25444072--25444379 Score: 343
Period size: 40 Copynumber: 7.6 Consensus size: 40
25444062 TATTCGGATG
* *
25444072 ATATCCGGGCTAAGTCCCGAACGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
25444112 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
25444152 ATATCCGGG-TGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCT-AAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
25444195 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
25444235 ATACCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTTCT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TT-TGTGCG-AGTTACT
* *
25444278 ATA-CTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATC-CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
25444318 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
25444358 ATATCC-GGCTAAATCTCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
25444380 TACTTGGGTT
Statistics
Matches: 227, Mismatches: 31, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
39 14 0.06
40 137 0.60
41 7 0.03
42 7 0.03
43 61 0.27
44 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:25444360 original size:123 final size:121
Alignment explanation
Indices: 25444072--25444365 Score: 357
Period size: 123 Copynumber: 2.4 Consensus size: 121
25444062 TATTCGGATG
* * * *
25444072 ATATCCGGGCTAAGTCCCGAACGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCAAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTGCTATATCCGGGCGAAGTCCCAAAGGCA
25444137 TTTGTGCTAGTGACTATATCCGGGTGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
66 TTTGTGCTAGTGACTATATCCGGGTGAAGTCCCGAAGGCATTTGTGC--GTAGTTGCT
* * * * *
25444195 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTATACCCGGGCGAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTG-CTATATCCGGGCGAAGTCCCAAAGGC
*
25444259 ATTTGTG-TGAGTAGTTTCTATA-CTCGGGCT-AAGTCCCGAAGGCATTTGTGC-TAG-TGACT
65 ATTTGTGCT-AGT-G--ACTATATC-CGGG-TGAAGTCCCGAAGGCATTTGTGCGTAGTTG-CT
*
25444318 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATATCCGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTGCTATATCCGG
25444366 CTAAATCTCG
Statistics
Matches: 147, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
122 4 0.03
123 107 0.73
124 4 0.03
125 1 0.01
126 30 0.20
127 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (121 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTGCTATATCCGGGCGAAGTCCCAAAGGCA
TTTGTGCTAGTGACTATATCCGGGTGAAGTCCCGAAGGCATTTGTGCGTAGTTGCT
Found at i:25444398 original size:83 final size:82
Alignment explanation
Indices: 25444072--25444379 Score: 432
Period size: 83 Copynumber: 3.8 Consensus size: 82
25444062 TATTCGGATG
* * *
25444072 ATATCCGGGCTAAGTCCCGAACGCATTTGTGC--GAGTTCCTATATCCGGGCTAAGTCCCAAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
25444135 CATTTGTGCTAGTGACT
66 CATTTGTGCTAGTGACT
*
25444152 ATATCCGGG-TGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAA
1 ATATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAG-AGTTGCTATATCCGGGCTAAGTCCCGAA
25444216 GGCATTTGTGCTAGTGACT
64 GGCATTTGTGCTAGTGACT
* * * *
25444235 ATACCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTTCTATA-CTCGGGCTAAGTCCCGAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-AGTTGCTATATC-CGGGCTAAGTCCCGAA
25444299 GGCATTTGTGCTAGTGACT
64 GGCATTTGTGCTAGTGACT
* * *
25444318 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-A-TTGCTATATCC-GGCTAAATCTCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
25444380 TACTTGGGTT
Statistics
Matches: 206, Mismatches: 15, Indels: 15
0.87 0.06 0.06
Matches are distributed among these distances:
79 15 0.07
80 37 0.18
81 2 0.01
82 2 0.01
83 150 0.73
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (82 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
CATTTGTGCTAGTGACT
Found at i:25448382 original size:23 final size:23
Alignment explanation
Indices: 25448356--25448400 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
25448346 TAATAAAGAA
25448356 GAAGGTTCACTCATTTTAATGAG
1 GAAGGTTCACTCATTTTAATGAG
25448379 GAAGGTTCACTCATTTTAATGA
1 GAAGGTTCACTCATTTTAATGA
25448401 CGATAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (23 bp):
GAAGGTTCACTCATTTTAATGAG
Found at i:25458256 original size:49 final size:48
Alignment explanation
Indices: 25458183--25458331 Score: 172
Period size: 49 Copynumber: 3.0 Consensus size: 48
25458173 AGCCGAAGCT
*
25458183 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAC
* * * *
25458231 AGTCTGGTACACGTAGTAGCATGCACTTCGTACTACACACGTGACCTCACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAC
** * * *
25458282 ATCTAATACACGTAGTAGCCTACATTTAGTACTACACATGCGACCTAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAC
25458331 A
1 A
25458332 ATAGATCATT
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.02
49 42 0.51
50 35 0.42
51 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (48 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAC
Found at i:25458327 original size:50 final size:51
Alignment explanation
Indices: 25458189--25458331 Score: 168
Period size: 50 Copynumber: 2.9 Consensus size: 51
25458179 AGCTATCTGG
* **
25458189 TACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAACAGTCTGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCAACAGTCTAA
* * * *
25458238 TACACGTAGTAGCATGCACTTCGTACTACACACGTGACCTCACCA-TCTAA
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCAACAGTCTAA
* * *
25458288 TACACGTAGTAGCCTACATTTAGTACTACACATGCGACCT-AACA
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCAACA
25458332 ATAGATCATT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 36 0.46
50 38 0.49
51 4 0.05
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.24
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCAACAGTCTAA
Found at i:25460494 original size:15 final size:15
Alignment explanation
Indices: 25460438--25460502 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
25460428 TAAAGATAAC
*
25460438 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
25460452 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
25460467 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
25460482 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
25460497 AAGAAA
1 AAGAAA
25460503 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:25460504 original size:30 final size:31
Alignment explanation
Indices: 25460438--25460506 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
25460428 TAAAGATAAC
*
25460438 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
25460468 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
25460497 AAGAAACCCA
1 AAGAAACCCA
25460507 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:25470867 original size:17 final size:18
Alignment explanation
Indices: 25470841--25470875 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
25470831 TTAAAAATAC
*
25470841 TTTTTATGAAAATAATTA
1 TTTTTATGAAAACAATTA
25470859 TTTTT-TGAAAACAATTA
1 TTTTTATGAAAACAATTA
25470876 CAAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (18 bp):
TTTTTATGAAAACAATTA
Found at i:25503807 original size:28 final size:29
Alignment explanation
Indices: 25503767--25503853 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 29
25503757 CATGACTGTA
*
25503767 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGATTTGGGCCTAATAGGCCATATG
* * *
25503795 AATGTGATTTGGGCTTAATAGGCCACATT
1 AATGTGATTTGGGCCTAATAGGCCATATG
*
25503824 AATGTGA-TTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATAGGCCATATG
25503852 AA
1 AA
25503854 AGAGATTGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
28 36 0.72
29 14 0.28
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATAGGCCATATG
Found at i:25503860 original size:28 final size:28
Alignment explanation
Indices: 25503767--25503878 Score: 109
Period size: 28 Copynumber: 4.0 Consensus size: 28
25503757 CATGACTGTA
*
25503767 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* * * *
25503795 AATGTGATTTGGGCTTAATAGGCCACATT
1 AATGTGA-TTGGGCCTAATGGGCCATATG
25503824 AATGTGATTGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* * ** *
25503852 AAAGAGATTGTACCTAGTGGGCCATAT
1 AATGTGATTGGGCCTAATGGGCCATAT
25503879 ACAGGTATGT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
28 56 0.80
29 14 0.20
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:25505440 original size:30 final size:31
Alignment explanation
Indices: 25505364--25505446 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
25505354 TCAGTCTCGA
25505364 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
25505394 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
25505425 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
25505447 ACTGTAAGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:25505701 original size:25 final size:24
Alignment explanation
Indices: 25505669--25505734 Score: 87
Period size: 25 Copynumber: 2.7 Consensus size: 24
25505659 TTTTAATAAT
25505669 TGGGGCAAAGCCCTTTCTGATAAAC
1 TGGGGCAAAGCCCTTTC-GATAAAC
* *
25505694 TGGGGCAAAGCTCGTTTCGGTAAAC
1 TGGGGCAAAGC-CCTTTCGATAAAC
*
25505719 TGGGGCATAGCCCTTT
1 TGGGGCAAAGCCCTTT
25505735 TAGCACTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 4 0.11
25 27 0.75
26 5 0.14
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (24 bp):
TGGGGCAAAGCCCTTTCGATAAAC
Found at i:25506573 original size:27 final size:27
Alignment explanation
Indices: 25506540--25506694 Score: 98
Period size: 27 Copynumber: 5.7 Consensus size: 27
25506530 TTGGTAAATC
25506540 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *
25506567 TATAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* ** *
25506595 TAAAAAGTGAAGGGTATTTCTGTAATTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
** ** * **
25506623 TGTAAATTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** * *
25506650 TACAAATTAAAGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*
25506677 CACAAACC-AGTGGTATTT
1 TACAAACCAAG-GGTATTT
25506695 TGGTAATTCT
Statistics
Matches: 101, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
26 1 0.01
27 71 0.70
28 16 0.16
29 13 0.13
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:25506648 original size:56 final size:54
Alignment explanation
Indices: 25506548--25506694 Score: 127
Period size: 56 Copynumber: 2.7 Consensus size: 54
25506538 TCTACAAACC
*
25506548 AAGGGTATTTCAGTAATTTTATAAACCAATGGTATTTCTATAATTTTTAAAAAGTG
1 AAGGGTATTTCAGTAATTTTATAAACCAAGGGTATTTCTATAA-TTTTAAAAA-TG
* * ** * * * *
25506604 AAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTT-TGGTAATTTTACAAATT
1 AAGGGTATTTCAGTAATTTTATAAACCAAGGGTATTTCT-ATAATTTTAAAAATG
* * * *
25506658 AAAGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AAGGGTATTTCAGTAATTTTATAAACCAAG-GGTATTT
25506695 TGGTAATTCT
Statistics
Matches: 72, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
53 1 0.01
54 28 0.39
55 9 0.12
56 34 0.47
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.41
Consensus pattern (54 bp):
AAGGGTATTTCAGTAATTTTATAAACCAAGGGTATTTCTATAATTTTAAAAATG
Found at i:25506699 original size:27 final size:27
Alignment explanation
Indices: 25506634--25506702 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
25506624 GTAAATTAGG
* **
25506634 GGTATTTTGGTAATTTTACAAATTAAA
1 GGTATTTTGGTAATTTCACAAACCAAA
* **
25506661 GGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTCACAAACCAAA
25506688 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
25506703 CTATCCTACA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
GGTATTTTGGTAATTTCACAAACCAAA
Found at i:25506754 original size:26 final size:26
Alignment explanation
Indices: 25506725--25506782 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
25506715 GGTATTTCAT
25506725 TAATTT-CACAATCAAGGGTAAAACGG
1 TAATTTGCA-AATCAAGGGTAAAACGG
* * *
25506751 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAA-TTTGCAAATCAAGGGTAAAACGG
25506778 TAATT
1 TAATT
25506783 CTATAAATCG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 5 0.19
27 21 0.78
28 1 0.04
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.31
Consensus pattern (26 bp):
TAATTTGCAAATCAAGGGTAAAACGG
Done.