Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
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: 5892847
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 27
Found at i:4313182 original size:64 final size:64
Alignment explanation
Indices: 4313081--4313206 Score: 234
Period size: 64 Copynumber: 2.0 Consensus size: 64
4313071 TATATTATAT
4313081 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATAAAATAAG
1 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATAAAATAAG
* *
4313145 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATA
1 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATAAAATA
4313207 GGTAGCGCTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.30
Consensus pattern (64 bp):
CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATAAAATAAG
Found at i:4313208 original size:23 final size:23
Alignment explanation
Indices: 4313173--4313224 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
4313163 ATCAAGTACA
* *
4313173 ATAACATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
4313196 ATAATATAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
4313219 ATAATA
1 ATAATA
4313225 AAAAAGACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:4313210 original size:87 final size:87
Alignment explanation
Indices: 4313109--4313300 Score: 341
Period size: 87 Copynumber: 2.2 Consensus size: 87
4313099 ATCAAGCACA
* *
4313109 ATAACATATTAGGTAGCGCTTATATAATAAAATAAG-CATTTAACCGGAAATATTATCAAGTACA
1 ATAATATAATAGGTAGCGCTTATATAATAAAA-AAGACATTTAACCGGAAATATTATCAAGTACA
4313173 ATAACATATTAGGTAGCGCTTAT
65 ATAACATATTAGGTAGCGCTTAT
4313196 ATAATATAATAGGTAGCGCTTATATAATAAAAAAGACATTTAACCGGAAATATTATCAAGTACAA
1 ATAATATAATAGGTAGCGCTTATATAATAAAAAAGACATTTAACCGGAAATATTATCAAGTACAA
4313261 TAACATATTAGGTAGCGCTTAT
66 TAACATATTAGGTAGCGCTTAT
*
4313283 ATAATGTAATAGGTAGCG
1 ATAATATAATAGGTAGCG
4313301 TTTACATTGA
Statistics
Matches: 101, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
86 3 0.03
87 98 0.97
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (87 bp):
ATAATATAATAGGTAGCGCTTATATAATAAAAAAGACATTTAACCGGAAATATTATCAAGTACAA
TAACATATTAGGTAGCGCTTAT
Found at i:4316876 original size:200 final size:200
Alignment explanation
Indices: 4316262--4318453 Score: 3551
Period size: 200 Copynumber: 10.8 Consensus size: 200
4316252 AGACATTTAG
*
4316262 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGATACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
4316327 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
* * * *
4316392 CTTTTTATACACATGTTTTCTCAAAAACTGGTATATTTAGACCAGTTACATTAATAATTTACCTA
131 CTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
4316457 TTACA
196 TTACA
*
4316462 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTATTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
*
4316527 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCAACAC-TTTTTTATTTGTGTCGATA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
* * * *
4316591 CTTTTTGTACACTTGTTTTCTCAAAAACCGGTATATTTAGACTGGTTATATTAATCATTTACCTA
131 CTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
4316656 TTACA
196 TTACA
* *
4316661 TTATAATTATGTTTTTCAATGTTTTCAGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
* * *
4316726 TGCACTTGGTTTTTAAAATGCAATCTGGACAACATGTATCGACATTTTTTTTATTTGTGTCGATA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
* * *
4316791 CTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGATACATTAATCATTTACCTA
131 CTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
4316856 TTACA
196 TTACA
*
4316861 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
*
4316926 CGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTTATTTGTGTCGAT
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC-TTTTTTTATTTGTGTCGAT
*
4316991 ACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATCATTTACCT
130 ACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCT
4317056 ATTACA
195 ATTACA
*
4317062 TTATAATTATGTTTTTAGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
4317127 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTTATTTGTGTCGAT
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC-TTTTTTTATTTGTGTCGAT
* *
4317192 ACTTTTTGTAAACCTGTTTTCTCAAAAACCGGTATATTTAGACATATTACATTAATAATTTACCT
130 ACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAG--------------------ACCG
*
4317257 ATTACATTAATAATTTACCTATTACA
175 GTTACATTAATAATTTACCTATTACA
* *
4317283 TTATAATTATGTTTTTCGATGTTTTCCGGATCGACACTTGTTTTAAATATATCGACACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
* *
4317348 TGCACTTAGTTTTTAAAATACAATCTGAACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
* *
4317413 CTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATCATTTACCTA
131 CTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
4317478 TTACA
196 TTACA
* * *
4317483 TTATAATTATGTTTTTCGATGTTTTTGGGATCGGCACTTGTTTTAAATGCATCGACACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
** *
4317548 TATACTTGGTTTTTAAAATACAATCTGTACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
* *
4317613 CTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
131 CTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
*
4317678 TTATA
196 TTACA
* * *
4317683 TTATAATTATGTTTTTCGATGTTTTCCGGATTGACATTTGTTTTAAATGTATCGACACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
*
4317748 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTTTATTTGTGTCAA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC--TTTTTTTATTTGTGTCGA
* *
4317813 TACTTTTTGTACACGTGTTTTCTTAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACC
129 TACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACC
4317878 TATTACA
194 TATTACA
*
4317885 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACAATTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
*
4317950 TGCACTTGGTTTTTAAAATACAATCTGGACATGATGTATCGACACTTTTTTTATTTGTGTCGATA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
* * * * **
4318015 CTTTTTGGACACCTATTTTCTCGAAAACCTGTATATTTAGACTAGTTACATTAATAATTTACCTA
131 CTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
4318080 TTACA
196 TTACA
*
4318085 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTGTTTTAAATGTATCGACACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
** * *
4318150 TGCACTTGGTTTTTAAAATACAATCTAAACAATATGTATTGACACTTTTTTTATTTGTGTCGATA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
*
4318215 CTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
131 CTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
4318280 TTACA
196 TTACA
* *
4318285 TTATAATTATATTTTTCAATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
* *
4318350 TGCACTTGGTTTTTAAAATACAATCTAGACAAGATGTATCGACACTTTTTTTAATTT-TGATTGA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTT-ATTTGTG-TCGA
4318414 TACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTT
129 TACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTT
4318454 GAAAAAGGTA
Statistics
Matches: 1859, Mismatches: 107, Indels: 51
0.92 0.05 0.03
Matches are distributed among these distances:
199 185 0.10
200 993 0.53
201 301 0.16
202 190 0.10
220 58 0.03
221 132 0.07
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (200 bp):
TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
CTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
TTACA
Found at i:4317261 original size:20 final size:20
Alignment explanation
Indices: 4317236--4317290 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
4317226 TATTTAGACA
4317236 TATTACATTAATAATTTACC
1 TATTACATTAATAATTTACC
4317256 TATTACATTAATAATTTACC
1 TATTACATTAATAATTTACC
4317276 TATTACATT-ATAATT
1 TATTACATTAATAATT
4317291 ATGTTTTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 6 0.17
20 29 0.83
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTACATTAATAATTTACC
Found at i:4318051 original size:602 final size:601
Alignment explanation
Indices: 4316262--4318453 Score: 3580
Period size: 602 Copynumber: 3.6 Consensus size: 601
4316252 AGACATTTAG
*
4316262 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGATACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
4316327 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
* * *
4316392 CTTTTTATACACATGTTTTCTCAAAAACTGGTATATTTAGACCAGTTACATTAATAATTTACCTA
131 CTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
4316457 TTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTT
196 TTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTT
* *
4316522 TATTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCAACAC--TTTTTTATTTGTG
261 TGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTTATTTGTG
* * * *
4316585 TCGATACTTTTTGTACACTTGTTTTCTCAAAAACCGGTATATTTAGACTGGTTATATTAATCATT
326 TCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATT
*
4316650 TACCTATTACATTATAATTATGTTTTTCAATGTTTTCAGGATCGACACTTGTTTTAAATGTATCG
391 TACCTATTACATTATAATTATGTTTTTCGATGTTTTCAGGATCGACACTTGTTTTAAATGTATCG
* * *
4316715 ACACTTTGTTGTGCACTTGGTTTTTAAAATGCAATCTGGACAACATGTATCGACATTTTTTTTAT
456 ACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTAT
*
4316780 TTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGATACATTAA
521 TTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAA
4316845 TCATTTACCTATTACA
586 TCATTTACCTATTACA
*
4316861 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
*
4316926 CGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTTATTTGTGTCGAT
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC-TTTTTTTATTTGTGTCGAT
* *
4316991 ACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATCATTTACCT
130 ACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCT
*
4317056 ATTACATTATAATTATGTTTTTAGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACT
195 ATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACT
4317121 TTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTTATTTGT
260 TTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTTATTTGT
*
4317186 GTCGATACTTTTTGTAAACCTGTTTTCTCAAAAACCGGTATATTTAGACATATTACATTAATAAT
325 GTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAG------------------
** *
4317251 TTACCTATTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCCGGATCG
372 --ACCGGTTACATTAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCAGGATCG
* * *
4317316 ACACTTGTTTTAAATATATCGACACTTTGTTGTGCACTTAGTTTTTAAAATACAATCTGAACAAG
435 ACACTTGTTTTAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAG
4317381 ATGTATCGACACTTTTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTA
500 ATGTATCGACACTTTTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTA
4317446 TATTTAGACCGGTTACATTAATCATTTACCTATTACA
565 TATTTAGACCGGTTACATTAATCATTTACCTATTACA
* * *
4317483 TTATAATTATGTTTTTCGATGTTTTTGGGATCGGCACTTGTTTTAAATGCATCGACACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
** *
4317548 TATACTTGGTTTTTAAAATACAATCTGTACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
*
4317613 CTTTTTGTACACATGTTTTCTCAAAAATCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
131 CTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
* * * *
4317678 TTATATTATAATTATGTTTTTCGATGTTTTCCGGATTGACATTTGTTTTAAATGTATCGACACTT
196 TTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTT
4317743 TGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTTTATTTGT
261 TGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACAC-TTTTTTTTATTTGT
* * *
4317808 GTCAATACTTTTTGTACACGTGTTTTCTTAAAAACCGGTATATTTAGACCGGTTACATTAATAAT
325 GTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAAT
*
4317873 TTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATC
390 TTACCTATTACATTATAATTATGTTTTTCGATGTTTTCAGGATCGACACTTGTTTTAAATGTATC
* *
4317938 GACAATTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACATGATGTATCGACACTTTTTTTA
455 GACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTA
* * * * * **
4318003 TTTGTGTCGATACTTTTTGGACACCTATTTTCTCGAAAACCTGTATATTTAGACTAGTTACATTA
520 TTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTA
*
4318068 ATAATTTACCTATTACA
585 ATCATTTACCTATTACA
*
4318085 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACATTTGTTTTAAATGTATCGACACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
** * *
4318150 TGCACTTGGTTTTTAAAATACAATCTAAACAATATGTATTGACACTTTTTTTATTTGTGTCGATA
66 TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
* *
4318215 CTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
131 CTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
* *
4318280 TTACATTATAATTATATTTTTCAATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTT
196 TTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTT
* *
4318345 TGTTGTGCACTTGGTTTTTAAAATACAATCTAGACAAGATGTATCGACACTTTTTTTAATTT-TG
261 TGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTTATTTGTG
*
4318409 ATTGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTT
326 -TCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTT
4318454 GAAAAAGGTA
Statistics
Matches: 1482, Mismatches: 86, Indels: 48
0.92 0.05 0.03
Matches are distributed among these distances:
599 107 0.07
600 194 0.13
601 51 0.03
602 561 0.38
621 192 0.13
622 377 0.25
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (601 bp):
TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTGTTG
TGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTATTTGTGTCGATA
CTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATTTACCTA
TTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTT
TGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTTATTTGTG
TCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAATAATT
TACCTATTACATTATAATTATGTTTTTCGATGTTTTCAGGATCGACACTTGTTTTAAATGTATCG
ACACTTTGTTGTGCACTTGGTTTTTAAAATACAATCTGGACAAGATGTATCGACACTTTTTTTAT
TTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTAA
TCATTTACCTATTACA
Found at i:4321756 original size:35 final size:35
Alignment explanation
Indices: 4321710--4321784 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
4321700 TTTTATCATA
*
4321710 TTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTTAAATGTTATATTGTTATGGATCGATACATT
4321745 TTTTTAAATGTTATATTGTTATGGATCGATACATT
1 TTTTTAAATGTTATATTGTTATGGATCGATACATT
4321780 TTTTT
1 TTTTT
4321785 TAAAGTATCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.25, C:0.07, G:0.13, T:0.55
Consensus pattern (35 bp):
TTTTTAAATGTTATATTGTTATGGATCGATACATT
Found at i:4321924 original size:219 final size:218
Alignment explanation
Indices: 4321535--4321971 Score: 630
Period size: 219 Copynumber: 2.0 Consensus size: 218
4321525 TATTTTTACC
* *
4321535 TGTTATATTGTTATGGATCGATATATTTTTTAAAAGTATCGACACTTTATAGGCGCTATAACTTC
1 TGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCAACACTTTATAGGCGCTATAACTTC
* ** * *
4321600 TTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCGACACTTTTAACATATCCAG
66 TTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAAGTATAAACACTTTCAACAGATCCAG
*
4321665 TAGCGTTTTACTAGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTA-CATGTTATATTGT
131 TAGCGTTTTACTAGTTTTGTCAATTTTGAGACCGGTTTTATCATATTTTTAGC-TGTTATATTGT
* *
4321729 TATGGATCGATACATTTTTTTAAA
195 TATAGATCGATACATTTTTATAAA
*
4321753 TGTTATATTGTTATGGATCGATACATTTTTTTTAAAGTATCAACACTTTATAGGCGCTATAACTT
1 TGTTATATTGTTATGGATCGATACA-TTTTTTAAAAGTATCAACACTTTATAGGCGCTATAACTT
* * *
4321818 CTTCTCTTTTAAATTTCA-AAAGTGTCGATAGTTATATTAAAGTATAAACACTTTCACCAGATTC
65 CTTCTCTTTTAAA-TTCATAAAGTGTCGATACTTATATTAAAGTATAAACACTTTCAACAGATCC
* * * *
4321882 GGTATCGTTTTACT-GATTTTTTC-ATTGTTGATACCGGTTTTATCATATTTTTAGCTGTTATAT
129 AGTAGCGTTTTACTAG-TTTTGTCAATT-TTGAGACCGGTTTTATCATATTTTTAGCTGTTATAT
*
4321945 TGTTATAGATCGATATATTTTTATAAA
192 TGTTATAGATCGATACATTTTTATAAA
4321972 GTGTCGACAC
Statistics
Matches: 195, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
218 28 0.14
219 162 0.83
220 5 0.03
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.46
Consensus pattern (218 bp):
TGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCAACACTTTATAGGCGCTATAACTTC
TTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAAGTATAAACACTTTCAACAGATCCAG
TAGCGTTTTACTAGTTTTGTCAATTTTGAGACCGGTTTTATCATATTTTTAGCTGTTATATTGTT
ATAGATCGATACATTTTTATAAA
Found at i:4322070 original size:183 final size:183
Alignment explanation
Indices: 4321753--4322172 Score: 556
Period size: 183 Copynumber: 2.3 Consensus size: 183
4321743 TTTTTTTAAA
* * * *
4321753 TGTTATATTGTTATGGATCGATACATTTTTTTTAAAGTATCAACACTTTATAGGCGCTATAACTT
1 TGTTATATTGTTATGGATCGATACA-TTTTTATAAAGTGTCGACACTTTTTAGGCGCTATAACTT
* * *
4321818 CTTCTCTTTTAAATTTCAAAAGTGTCGATAGTTATATTAAAGTATAAACACTTTCACCAGATTCG
65 ATTCTCTTTTAAATTTCAAAAGTGTCGATAGTTATATTAAAGTATAAACACTTTCAACAGATCCG
* * * *
4321883 GTATCGTTTTACTGATTTTTTCATTGTTGATACCGGTTTTATCATATTTTTAGC-
130 GTATCGTTTTACCGATTTTGTCATTGTTGAGACCGATTTTATCATATTTTTA-CT
* * *
4321937 TGTTATATTGTTATAGATCGATATATTTTTATAAAGTGTCGACACTTTTTAGGCTCTATAACTTA
1 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACTTTTTAGGCGCTATAACTTA
* * * ** *
4322002 TTCTCTTTTAAA-TTCATAAAGTGTCGATATTTGTATTAAATTATCGACACTTTCAACATATCCG
66 TTCTCTTTTAAATTTCA-AAAGTGTCGATAGTTATATTAAAGTATAAACACTTTCAACAGATCCG
* * * * *
4322066 GTATCTTTTTTCCGGTTTTGTCATTTTTGAGACCTATTTTATCATATTTTTACT
130 GTATCGTTTTACCGATTTTGTCATTGTTGAGACCGATTTTATCATATTTTTACT
*
4322120 TGTTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAG
1 TG-TTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACTTTTTAG
4322173 TTTAATTTCA
Statistics
Matches: 205, Mismatches: 28, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
182 5 0.02
183 130 0.63
184 70 0.34
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (183 bp):
TGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACTTTTTAGGCGCTATAACTTA
TTCTCTTTTAAATTTCAAAAGTGTCGATAGTTATATTAAAGTATAAACACTTTCAACAGATCCGG
TATCGTTTTACCGATTTTGTCATTGTTGAGACCGATTTTATCATATTTTTACT
Found at i:4322214 original size:165 final size:164
Alignment explanation
Indices: 4322008--4322328 Score: 471
Period size: 165 Copynumber: 2.0 Consensus size: 164
4321998 CTTATTCTCT
* * * * * *
4322008 TTTAAATTCATAAAGTGTCGATATTTGTATTAAATTATCGACACTTTCAACATATCCGGTATCTT
1 TTTAAATTCATAAAGTGCCGATACTTATATTAAAGTATCGACACTTTCAACATATCCAGTATCGT
* * * *
4322073 TTTTCCGGTTTTGTCATTTTTGAGACCTATTTTATCATATTTTTACTTGTTTATATTGTTATGGA
66 TTTACCGGTTTTGTCAATTTTGAGACATATTTTATCATATTTTTACATG-TTATATTGTTATGGA
*
4322138 TCGATACATTTTCATAAAGTGTCGACACTTTTTAG
130 TCGATACATTTTCATAAAGTATCGACACTTTTTAG
* *
4322173 TTTAATTTCATAAAGTGCCGATACTTATATTAAAGTATCGACACTTTCAACATATCTAGTATCGT
1 TTTAAATTCATAAAGTGCCGATACTTATATTAAAGTATCGACACTTTCAACATATCCAGTATCGT
* *
4322238 TTTACTGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACATGTTATATTGTTATGGAT
66 TTTACCGGTTTTGTCAATTTTGAGACATATTTTATCATATTTTTACATGTTATATTGTTATGGAT
* **
4322303 CGATATATTTTTTTAAAGTATCGACA
131 CGATACATTTTCATAAAGTATCGACA
4322329 TTTATAGGCG
Statistics
Matches: 138, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
164 38 0.28
165 100 0.72
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (164 bp):
TTTAAATTCATAAAGTGCCGATACTTATATTAAAGTATCGACACTTTCAACATATCCAGTATCGT
TTTACCGGTTTTGTCAATTTTGAGACATATTTTATCATATTTTTACATGTTATATTGTTATGGAT
CGATACATTTTCATAAAGTATCGACACTTTTTAG
Found at i:4324833 original size:2 final size:2
Alignment explanation
Indices: 4324826--4324878 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
4324816 GGTAAGACAT
*
4324826 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4324868 TA TG TA TA TA T
1 TA TA TA TA TA T
4324879 TCTTAAATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4329897 original size:284 final size:283
Alignment explanation
Indices: 4329385--4329951 Score: 1125
Period size: 284 Copynumber: 2.0 Consensus size: 283
4329375 GCATCGGTGC
4329385 ACATTCAAAGTGTACCGATGCATCAAGAGAAAATCCCAGAATTTGTTGAAGGTGCATCGATGCAT
1 ACATTCAAAGTGTACCGATGCATCAAGAGAAAATCCCAGAATTTGTTGAAGGTGCATCGATGCAT
4329450 AAGGAGTGCATCGATGCACTCATTTAAATTAAATGAACATCGAATGCCATAATGCATCGATGCAC
66 AAGGAGTGCATCGATGCACTCATTTAAATTAAATGAACATCGAATGCCATAATGCATCGATGCAC
4329515 CTGCTTAAAATACAAACATCGAATAGGATTTATGCATCGAAGCATGGGTAGTGCATCGATGCACC
131 CTGCTTAAAATACAAACATCGAATAGGATTTATGCATCGAAGCATGGGTAGTGCATCGATGCACC
4329580 CGTTAAGGGATGTATCGATACATGGTGTAGTGCATCGATGCATACCTTCAATAAGAGATGGAAAT
196 CGTTAAGGGATGTATCGATACATGGTGTAGTGCATCGATGCATACCTTCAATAAGAGATGGAAAT
4329645 AGCTTTCTTTTAGCCTAAGGATT
261 AGCTTTCTTTTAGCCTAAGGATT
4329668 ACATTCAAAGTGTACCGATGCATCAAGAGAAAATCCCAGAATTTGTTGAAGGTGCATCGATGCAT
1 ACATTCAAAGTGTACCGATGCATCAAGAGAAAATCCCAGAATTTGTTGAAGGTGCATCGATGCAT
4329733 AAGGAGTGCATCGATGCACTCATTTAAATTAAATGAACATCGAATGCCATTAATGCATCGATGCA
66 AAGGAGTGCATCGATGCACTCATTTAAATTAAATGAACATCGAATGCCA-TAATGCATCGATGCA
4329798 CCTGCTTAAAATACAAACATCGAATAGGATTTATGCATCGAAGCATGGGTAGTGCATCGATGCAC
130 CCTGCTTAAAATACAAACATCGAATAGGATTTATGCATCGAAGCATGGGTAGTGCATCGATGCAC
4329863 CCGTTAAGGGATGTATCGATACATGGTGTAGTGCATCGATGCATACCTTCAATAAGAGATGGAAA
195 CCGTTAAGGGATGTATCGATACATGGTGTAGTGCATCGATGCATACCTTCAATAAGAGATGGAAA
4329928 TAGCTTTCTTTTAGCCTAAGGATT
260 TAGCTTTCTTTTAGCCTAAGGATT
4329952 TATAGTTTGA
Statistics
Matches: 283, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
283 114 0.40
284 169 0.60
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (283 bp):
ACATTCAAAGTGTACCGATGCATCAAGAGAAAATCCCAGAATTTGTTGAAGGTGCATCGATGCAT
AAGGAGTGCATCGATGCACTCATTTAAATTAAATGAACATCGAATGCCATAATGCATCGATGCAC
CTGCTTAAAATACAAACATCGAATAGGATTTATGCATCGAAGCATGGGTAGTGCATCGATGCACC
CGTTAAGGGATGTATCGATACATGGTGTAGTGCATCGATGCATACCTTCAATAAGAGATGGAAAT
AGCTTTCTTTTAGCCTAAGGATT
Found at i:4330441 original size:22 final size:22
Alignment explanation
Indices: 4330412--4330489 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
4330402 GGGTATATTA
*
4330412 GTCCTTCGGGACGTATGCAGTG
1 GTCCTTCGGGACGTATACAGTG
* *
4330434 GTCATTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATACAGTG
*
4330456 GTCCTTCGGGACGTATATAGTG
1 GTCCTTCGGGACGTATACAGTG
4330478 GTCCTTCGGGAC
1 GTCCTTCGGGAC
4330490 ATGTCGGGAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.28
Consensus pattern (22 bp):
GTCCTTCGGGACGTATACAGTG
Found at i:4332399 original size:13 final size:14
Alignment explanation
Indices: 4332381--4332410 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4332371 TAAACATCTA
4332381 AAAATAT-TTTTTT
1 AAAATATATTTTTT
4332394 AAAATATATTTTTT
1 AAAATATATTTTTT
4332408 AAA
1 AAA
4332411 TTTTTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AAAATATATTTTTT
Found at i:4333384 original size:64 final size:63
Alignment explanation
Indices: 4333302--4333458 Score: 172
Period size: 64 Copynumber: 2.5 Consensus size: 63
4333292 TTCAATGTGT
* * * * *
4333302 ATCGATGCACAGGAAGTGCATCGATGCACCCCTTAAAAATGGAAATATCGAATGCAATTAGTGC
1 ATCGATGCATAGGGAGTGCATCGATGCACCCCTT-AAAATGAAAACATCGAAGGCAATTAGTGC
* * * * * * *
4333366 ATCGATGCATAGGGAGTGCATCGATACACCCCCTTAAGATTAAAACATCGAAGGTACTTTGTGT
1 ATCGATGCATAGGGAGTGCATCGATGCA-CCCCTTAAAATGAAAACATCGAAGGCAATTAGTGC
4333430 ATCGATGCAT-GGGTAGTGCATCGATGCAC
1 ATCGATGCATAGGG-AGTGCATCGATGCAC
4333459 ATGTTAAGGG
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
63 4 0.05
64 68 0.87
65 6 0.08
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (63 bp):
ATCGATGCATAGGGAGTGCATCGATGCACCCCTTAAAATGAAAACATCGAAGGCAATTAGTGC
Found at i:4337309 original size:23 final size:23
Alignment explanation
Indices: 4337265--4337309 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4337255 CATCATTTAT
*
4337265 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
4337288 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
4337310 AGTTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:4341600 original size:25 final size:26
Alignment explanation
Indices: 4341566--4341616 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
4341556 GAGTAGAGGG
4341566 TCTACGCGGTCCTTCGGGATA-ATAT
1 TCTACGCGGTCCTTCGGGATATATAT
4341591 TCTACGCGGTCCTTCGGGATATATAT
1 TCTACGCGGTCCTTCGGGATATATAT
4341617 ATATTCTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (26 bp):
TCTACGCGGTCCTTCGGGATATATAT
Found at i:4341764 original size:23 final size:23
Alignment explanation
Indices: 4341720--4341764 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4341710 ATCATTATAT
*
4341720 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
4341743 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
4341765 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:4342620 original size:23 final size:23
Alignment explanation
Indices: 4342589--4342650 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
4342579 GACATTTTAT
4342589 ATGGCACTTCGGTGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
* *
4342612 GTGGCACTTCGGTGTAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
*
4342635 ATGGTACTTCGGTGCA
1 ATGGCACTTCGGTGCA
4342651 TTTATATGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:4344969 original size:64 final size:64
Alignment explanation
Indices: 4344897--4345035 Score: 201
Period size: 64 Copynumber: 2.2 Consensus size: 64
4344887 CGGATCTTGG
* *
4344897 CAGGTCAGGTAAAATCGGGTACATGTCA-ATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
1 CAGGTCAGGTAAAATC-AGTACAAGTCATATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
* * * *
4344961 CAGGTCAGGTCAAATCAGTTCAAGTTATTTTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
1 CAGGTCAGGTAAAATCAGTACAAGTCATATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
4345025 CAGGTC-GGTAA
1 CAGGTCAGGTAA
4345036 TTTTCAGTTC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
63 11 0.16
64 56 0.84
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (64 bp):
CAGGTCAGGTAAAATCAGTACAAGTCATATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
Found at i:4345691 original size:11 final size:11
Alignment explanation
Indices: 4345675--4345748 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 11
4345665 AAATAATATA
4345675 TATATATAAAT
1 TATATATAAAT
*
4345686 TATATATAAAC
1 TATATATAAAT
*
4345697 TATAT-T-TAT
1 TATATATAAAT
4345706 TATAAACTATATAAT
1 TAT--A-TATA-AAT
4345721 TAT-TATAAACT
1 TATATATAAA-T
4345732 ATATATATAAAT
1 -TATATATAAAT
4345744 TATAT
1 TATAT
4345749 TTATGTGCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
9 4 0.08
10 3 0.06
11 26 0.52
12 5 0.10
13 7 0.14
15 5 0.10
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (11 bp):
TATATATAAAT
Found at i:4345816 original size:13 final size:13
Alignment explanation
Indices: 4345673--4345815 Score: 76
Period size: 13 Copynumber: 10.4 Consensus size: 13
4345663 AAAAATAATA
4345673 TATATATATAAA-
1 TATATATATAAAC
4345685 T-TATATATAAAC
1 TATATATATAAAC
4345697 TATATTTATTATAAAC
1 TATA--TA-TATAAAC
4345713 TATATAATTATTATAAAC
1 --TAT-A-TA-TATAAAC
*
4345731 TATATATATAAAT
1 TATATATATAAAC
* **
4345744 TATATTTATGTGCAC
1 TATA--TATATAAAC
4345759 TATATATATAAAC
1 TATATATATAAAC
* *
4345772 TATGTATATAAAA
1 TATATATATAAAC
* * *
4345785 T-TATAAACTATAT
1 TATATATA-TAAAC
*
4345798 TATATTTATAAAC
1 TATATATATAAAC
4345811 TATAT
1 TATAT
4345816 TATTATTATA
Statistics
Matches: 101, Mismatches: 18, Indels: 23
0.71 0.13 0.16
Matches are distributed among these distances:
11 10 0.10
12 6 0.06
13 42 0.42
14 6 0.06
15 12 0.12
16 10 0.10
18 14 0.14
19 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.45
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:4345863 original size:87 final size:85
Alignment explanation
Indices: 4345761--4345932 Score: 326
Period size: 87 Copynumber: 2.0 Consensus size: 85
4345751 ATGTGCACTA
4345761 TATATATAAACTATGTATATAAAATTATAAACTATATTATATTTATAAACTATATTATTATTATA
1 TATATATAAACTATGTATATAAAATTATAAACTATATTATATTTATAAACTATATTATTATTAT-
4345826 AGCTAATATATAAATTATGTTT
65 AGCT-ATATATAAATTATGTTT
4345848 TATATATAAACTATGTATATAAAATTATAAACTATATTATATTTATAAACTATATTATTATTATA
1 TATATATAAACTATGTATATAAAATTATAAACTATATTATATTTATAAACTATATTATTATTATA
4345913 GCTATATATAAATTATGTTT
66 GCTATATATAAATTATGTTT
4345933 ATGTGAACTA
Statistics
Matches: 85, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
85 17 0.20
86 4 0.05
87 64 0.75
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (85 bp):
TATATATAAACTATGTATATAAAATTATAAACTATATTATATTTATAAACTATATTATTATTATA
GCTATATATAAATTATGTTT
Found at i:4345911 original size:18 final size:18
Alignment explanation
Indices: 4345684--4345912 Score: 113
Period size: 18 Copynumber: 12.5 Consensus size: 18
4345674 ATATATATAA
4345684 ATTATATATAAACTATA-T
1 ATTAT-TATAAACTATATT
*
4345702 -TTATTATAAACTATATA
1 ATTATTATAAACTATATT
4345719 ATTATTATAAACTATATAT
1 ATTATTATAAACTATAT-T
* ** * *
4345738 ATAAATTAT-ATTTATGTGC
1 AT-TATTATAAACTATAT-T
4345757 ACTATATATATAAACTATGTATAT
1 A-T-TAT-TATAAACTA--TAT-T
**
4345781 AAAATTATAAACTATATT
1 ATTATTATAAACTATATT
4345799 A-TATTTATAAACTATATT
1 ATTA-TTATAAACTATATT
*
4345817 ATTATTATAAGC--TA--
1 ATTATTATAAACTATATT
* *
4345831 A-TA-TATAAATTATGTT
1 ATTATTATAAACTATATT
4345847 -TTATATATAAACTATGTATAT
1 ATTAT-TATAAACTA--TAT-T
**
4345868 AAAATTATAAACTATATT
1 ATTATTATAAACTATATT
4345886 A-TATTTATAAACTATATT
1 ATTA-TTATAAACTATATT
4345904 ATTATTATA
1 ATTATTATA
4345913 GCTATATATA
Statistics
Matches: 161, Mismatches: 26, Indels: 48
0.69 0.11 0.20
Matches are distributed among these distances:
12 5 0.03
13 2 0.01
14 2 0.01
16 15 0.09
17 6 0.04
18 70 0.43
19 18 0.11
20 11 0.07
21 22 0.14
22 7 0.04
24 3 0.02
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (18 bp):
ATTATTATAAACTATATT
Found at i:4346008 original size:7 final size:7
Alignment explanation
Indices: 4345992--4346140 Score: 51
Period size: 7 Copynumber: 21.0 Consensus size: 7
4345982 GTTTATAAAC
4345992 TATATT-
1 TATATTA
4345998 TATATTA
1 TATATTA
*
4346005 TATAGTA
1 TATATTA
4346012 TATATCTA
1 TATAT-TA
4346020 TATATATA
1 TATAT-TA
*
4346028 TAATAAATA
1 T-AT-ATTA
*
4346037 TATAGTA
1 TATATTA
* *
4346044 TAAACTA
1 TATATTA
* *
4346051 TAAACTA
1 TATATTA
4346058 TATAATTTA
1 TAT-A-TTA
*
4346067 TATGTTA
1 TATATTA
4346074 TA-ATT-
1 TATATTA
4346079 TATATTAA
1 TATATT-A
*
4346087 TATAGTA
1 TATATTA
4346094 TATATGTA
1 TATAT-TA
*
4346102 TGTA-TA
1 TATATTA
*
4346108 -ACTAATA
1 TA-TATTA
**
4346115 TATAGAA
1 TATATTA
4346122 TATA-TA
1 TATATTA
4346128 TATA-TA
1 TATATTA
4346134 TATATTA
1 TATATTA
4346141 AAAAAAACAC
Statistics
Matches: 111, Mismatches: 18, Indels: 27
0.71 0.12 0.17
Matches are distributed among these distances:
5 2 0.02
6 26 0.23
7 48 0.43
8 24 0.22
9 10 0.09
10 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (7 bp):
TATATTA
Found at i:4346015 original size:2 final size:2
Alignment explanation
Indices: 4345992--4346138 Score: 71
Period size: 2 Copynumber: 75.5 Consensus size: 2
4345982 GTTTATAAAC
* *
4345992 TA TA TT TA TA T- TA TA TA GTA TA TA TC TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
4346033 AA TA TA TA GTA TA AA CTA TA AA CTA TA TA -A TT TA TA TG T- TA
1 TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * *
4346074 TA -A TT TA TA T- TA -A TA TA GTA TA TA TG TA TG TA TA -A CTA -A
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
*
4346113 TA TA TA GA -A TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4346139 TAAAAAAAAC
Statistics
Matches: 109, Mismatches: 20, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
1 10 0.09
2 90 0.83
3 9 0.08
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:4346039 original size:32 final size:32
Alignment explanation
Indices: 4345985--4346063 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
4345975 GTATATAGTT
* * *
4345985 TATAAACTATAT-TTATATTATATAGTATATATC
1 TATAAACTATATAATA-AATATATAGTATA-AAC
*
4346018 TATATA-TATATAATAAATATATAGTATAAAC
1 TATAAACTATATAATAAATATATAGTATAAAC
4346049 TATAAACTATATAAT
1 TATAAACTATATAAT
4346064 TTATATGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 7 0.18
32 25 0.64
33 7 0.18
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (32 bp):
TATAAACTATATAATAAATATATAGTATAAAC
Found at i:4346096 original size:82 final size:82
Alignment explanation
Indices: 4345941--4346107 Score: 214
Period size: 82 Copynumber: 2.0 Consensus size: 82
4345931 TTATGTGAAC
* *
4345941 TATATATAAACTATATATGTATAAACTATAAAAAGTATATAGTTTATAAACTATATTTATATTAT
1 TATATATAAACTATATATGTATAAACTAT-AAAACTATATAATTTATAAACTATATTTATATTAT
4346006 ATAGTATATATCTATATA
65 ATAGTATATATCTATATA
***
4346024 TATATAATAAA-TATATA-GTATAAACTAT-AAACTATATAATTTATATGTTATAATTTATATTA
1 TATAT-ATAAACTATATATGTATAAACTATAAAACTATATAATTTATAAACTAT-ATTTATATT-
* *
4346086 ATATAGTATATATGTATGTA
63 ATATAGTATATATCTATATA
4346106 TA
1 TA
4346108 ACTAATATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
80 18 0.24
81 9 0.12
82 31 0.42
83 11 0.15
84 5 0.07
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (82 bp):
TATATATAAACTATATATGTATAAACTATAAAACTATATAATTTATAAACTATATTTATATTATA
TAGTATATATCTATATA
Found at i:4346473 original size:13 final size:13
Alignment explanation
Indices: 4346390--4346473 Score: 50
Period size: 13 Copynumber: 6.2 Consensus size: 13
4346380 GCAATGTAAC
4346390 TATATGTAACTATA
1 TATATGTAACT-TA
4346404 GTATAT-TAAAC-TA
1 -TATATGT-AACTTA
4346417 TATATGTAACTTATA
1 TATATGTAAC-T-TA
* *
4346432 GTATATGTATACATG
1 -TATATGTA-ACTTA
4346447 TA-ATGTAAAC-TA
1 TATATGT-AACTTA
4346459 TATATGTAACTTA
1 TATATGTAACTTA
4346472 TA
1 TA
4346474 GTACATGTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 22
0.69 0.04 0.27
Matches are distributed among these distances:
12 14 0.25
13 17 0.30
14 4 0.07
15 11 0.20
16 8 0.14
17 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (13 bp):
TATATGTAACTTA
Found at i:4346610 original size:14 final size:14
Alignment explanation
Indices: 4346590--4346633 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
4346580 TATATTATAT
4346590 AACCCTAAAC-CTA
1 AACCCTAAACTCTA
4346603 ATACCCTAAACTCTA
1 A-ACCCTAAACTCTA
* *
4346618 AATCCTAAACTTTA
1 AACCCTAAACTCTA
4346632 AA
1 AA
4346634 TCTTAAACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 1 0.04
14 22 0.81
15 4 0.15
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (14 bp):
AACCCTAAACTCTA
Found at i:4346634 original size:14 final size:14
Alignment explanation
Indices: 4346607--4346646 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4346597 AACCTAATAC
*
4346607 CCTAAACTCTAAAT
1 CCTAAACTTTAAAT
4346621 CCTAAACTTTAAAT
1 CCTAAACTTTAAAT
* *
4346635 CTTAAACCTTAA
1 CCTAAACTTTAA
4346647 CCCTTACCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (14 bp):
CCTAAACTTTAAAT
Found at i:4346685 original size:18 final size:18
Alignment explanation
Indices: 4346662--4346696 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4346652 ACCTATGTAA
4346662 TTTACATATGAACTATAG
1 TTTACATATGAACTATAG
*
4346680 TTTACATATTAACTATA
1 TTTACATATGAACTATA
4346697 TATATAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (18 bp):
TTTACATATGAACTATAG
Found at i:4346786 original size:13 final size:13
Alignment explanation
Indices: 4346770--4347040 Score: 75
Period size: 13 Copynumber: 21.2 Consensus size: 13
4346760 AAAACAAAAT
4346770 TATAATATATATA
1 TATAATATATATA
4346783 TATAATATAAGTTTATA
1 TATAATAT-A---TATA
4346800 TATAA-ACTATATA
1 TATAATA-TATATA
*
4346813 TATAA-ACTATGTA
1 TATAATA-TATATA
4346826 TATAA-ACTATATA
1 TATAATA-TATATA
*
4346839 TGCATAA-ACTATAAA
1 T--ATAATA-TATATA
* * *
4346854 AAGTAA-AT-TGTT
1 TA-TAATATATATA
*
4346866 TATAAAATATA-A
1 TATAATATATATA
*
4346878 T-TTATAT-TA-A
1 TATAATATATATA
4346888 TATTAATATATATA
1 TA-TAATATATATA
*
4346902 TA-AACTATATATG
1 TATAA-TATATATA
4346915 TATAA-A-ATATA
1 TATAATATATATA
* *
4346926 TAAAATATATAGTT
1 TATAATATATA-TA
4346940 TATAA-AT-TATA
1 TATAATATATATA
*
4346951 -AT-TTATAT-TAA
1 TATAATATATAT-A
*
4346962 TATAATATATGTA
1 TATAATATATATA
*
4346975 TGT-ATA-ACTA-A
1 TATAATATA-TATA
*
4346986 TATAAGTA-ATCTA
1 TATAA-TATATATA
*
4346999 TAGAATATATATA
1 TATAATATATATA
*
4347012 TAATATTATATATA
1 T-ATAATATATATA
4347026 TAT-ATATATATA
1 TATAATATATATA
4347038 TAT
1 TAT
4347041 TTATAGAAAC
Statistics
Matches: 197, Mismatches: 30, Indels: 63
0.68 0.10 0.22
Matches are distributed among these distances:
10 9 0.05
11 22 0.11
12 37 0.19
13 79 0.40
14 27 0.14
15 11 0.06
16 2 0.01
17 10 0.05
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (13 bp):
TATAATATATATA
Found at i:4346814 original size:15 final size:15
Alignment explanation
Indices: 4346796--4346927 Score: 59
Period size: 15 Copynumber: 9.1 Consensus size: 15
4346786 AATATAAGTT
4346796 TATATATAAAC--TA
1 TATATATAAACTATA
4346809 TATATATAAAC--TA
1 TATATATAAACTATA
*
4346822 TGTATATAAACTATA
1 TATATATAAACTATA
**
4346837 TATGCATAAACTATA
1 TATATATAAACTATA
* *
4346852 -A-AAAGTAAA-T-TG
1 TATATA-TAAACTATA
*
4346864 T-T-TATAAAATATAA
1 TATATATAAACTAT-A
* *
4346878 TTTATATTAATATTAATA
1 TATATA-TAA-ACT-ATA
4346896 TATATATAAACTATA
1 TATATATAAACTATA
* *
4346911 TATGTATAAAATATA
1 TATATATAAACTATA
4346926 TA
1 TA
4346928 AAATATATAG
Statistics
Matches: 92, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
11 4 0.04
12 3 0.03
13 26 0.28
14 6 0.07
15 33 0.36
16 4 0.04
17 6 0.07
18 8 0.09
19 2 0.02
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.40
Consensus pattern (15 bp):
TATATATAAACTATA
Found at i:4346845 original size:28 final size:26
Alignment explanation
Indices: 4346798--4346850 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
4346788 TATAAGTTTA
4346798 TATATAAACTATATATATAAACTATG
1 TATATAAACTATATATATAAACTATG
4346824 TATATAAACTATATATGCATAAACTAT
1 TATATAAACTATATAT--ATAAACTAT
4346851 AAAAAGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 16 0.64
28 9 0.36
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (26 bp):
TATATAAACTATATATATAAACTATG
Found at i:4346899 original size:16 final size:15
Alignment explanation
Indices: 4346871--4346971 Score: 61
Period size: 15 Copynumber: 6.8 Consensus size: 15
4346861 TTGTTTATAA
*
4346871 AATATAATTTATATT
1 AATATAATATATATT
4346886 AATATTAATATATA-T
1 AATA-TAATATATATT
4346901 -ATA-AACTATATATGT
1 AATATAA-TATATAT-T
* *
4346916 -ATAAAATATATA-A
1 AATATAATATATATT
* *
4346929 AATAT-ATAGTTTATA
1 AATATAATA-TATATT
*
4346944 AATTATAATTTATATT
1 AA-TATAATATATATT
4346960 AATATAATATAT
1 AATATAATATAT
4346972 GTATGTATAA
Statistics
Matches: 68, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
12 2 0.03
13 9 0.13
14 9 0.13
15 27 0.40
16 19 0.28
17 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (15 bp):
AATATAATATATATT
Found at i:4346900 original size:2 final size:2
Alignment explanation
Indices: 4346893--4347045 Score: 64
Period size: 2 Copynumber: 81.5 Consensus size: 2
4346883 ATTAATATTA
* * * *
4346893 AT AT AT AT AT AA ACT AT AT AT GT AT A- AA AT AT AT A- AA AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
4346934 AT AGT TT AT AA AT -T AT A- AT TT AT AT -T A- AT AT A- AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
4346972 GT AT GT AT A- ACT A- AT AT A- AGT A- AT CT AT AG A- AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
*
4347011 AT A- AT AT -T AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4347046 GAAACACTAT
Statistics
Matches: 112, Mismatches: 21, Indels: 36
0.66 0.12 0.21
Matches are distributed among these distances:
1 14 0.12
2 94 0.84
3 4 0.04
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:4346910 original size:74 final size:73
Alignment explanation
Indices: 4346824--4346971 Score: 226
Period size: 74 Copynumber: 2.0 Consensus size: 73
4346814 ATAAACTATG
* *
4346824 TATATAAACTATATATGCATAAACTATA-AAAAGTAAATTGTTTATAAAATATAATTTATATTAA
1 TATATAAACTATATATGCATAAAATATATAAAA-TAAATAGTTTATAAAATATAATTTATATTAA
4346888 TATTAATATA
65 TA-TAATATA
* * *
4346898 TATATAAACTATATATGTATAAAATATATAAAATATATAGTTTATAAATTATAATTTATATTAAT
1 TATATAAACTATATATGCATAAAATATATAAAATAAATAGTTTATAAAATATAATTTATATTAAT
4346963 ATAATATA
66 ATAATATA
4346971 T
1 T
4346972 GTATGTATAA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
73 8 0.12
74 56 0.82
75 4 0.06
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (73 bp):
TATATAAACTATATATGCATAAAATATATAAAATAAATAGTTTATAAAATATAATTTATATTAAT
ATAATATA
Found at i:4346958 original size:58 final size:57
Alignment explanation
Indices: 4346866--4346975 Score: 129
Period size: 58 Copynumber: 1.9 Consensus size: 57
4346856 GTAAATTGTT
4346866 TATAAAATATAATTTATATTAATATTAATATATATATAA-ACT-ATATATGTATAAAATA
1 TATAAAATATAATTTATA-TAATATTAATATATAT-TAATA-TAATATATGTATAAAATA
*
4346924 TATAAAATATATAGTTTATA-AAT-TATAATTTATATTAATATAATATATGTAT
1 TATAAAATATA-A-TTTATATAATAT-TAATATATATTAATATAATATATGTAT
4346976 GTATAACTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
57 5 0.11
58 34 0.74
59 1 0.02
60 6 0.13
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (57 bp):
TATAAAATATAATTTATATAATATTAATATATATTAATATAATATATGTATAAAATA
Found at i:4347023 original size:14 final size:13
Alignment explanation
Indices: 4346872--4347040 Score: 76
Period size: 13 Copynumber: 13.3 Consensus size: 13
4346862 TGTTTATAAA
*
4346872 ATATAATTTATATT
1 ATATAATATATA-T
4346886 AATATTAATATATAT
1 -ATA-TAATATATAT
4346901 ATA-AACTATATAT
1 ATATAA-TATATAT
*
4346914 GTATAA-A-ATAT
1 ATATAATATATAT
*
4346925 ATAAAATATATAGT
1 ATATAATATATA-T
*
4346939 TTATAA-AT-TAT
1 ATATAATATATAT
*
4346950 A-AT-TTATAT-T
1 ATATAATATATAT
*
4346960 AATATAATATATGT
1 -ATATAATATATAT
*
4346974 ATGT-ATA-ACTA-
1 ATATAATATA-TAT
*
4346985 ATATAAGTA-ATCT
1 ATATAA-TATATAT
*
4346998 ATAGAATATATAT
1 ATATAATATATAT
*
4347011 ATAATATTATATAT
1 AT-ATAATATATAT
4347025 ATAT-ATATATAT
1 ATATAATATATAT
4347037 ATAT
1 ATAT
4347041 TTATAGAAAC
Statistics
Matches: 118, Mismatches: 18, Indels: 39
0.67 0.10 0.22
Matches are distributed among these distances:
10 5 0.04
11 15 0.13
12 27 0.23
13 37 0.31
14 22 0.19
15 4 0.03
16 8 0.07
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (13 bp):
ATATAATATATAT
Found at i:4347143 original size:7 final size:7
Alignment explanation
Indices: 4347133--4347165 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
4347123 CCTTAAATCT
4347133 TAAACCC
1 TAAACCC
4347140 TAAACCC
1 TAAACCC
4347147 TAAACCC
1 TAAACCC
4347154 TAAACCC
1 TAAACCC
4347161 TAAAC
1 TAAAC
4347166 ATTGTACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:4347289 original size:13 final size:13
Alignment explanation
Indices: 4347271--4347302 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
4347261 GCATATATAC
4347271 TATATATAAACTA
1 TATATATAAACTA
4347284 TATATAT-AACTA
1 TATATATAAACTA
4347296 TA-ATATA
1 TATATATA
4347303 TTTATATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 7 0.39
13 7 0.39
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:4347303 original size:13 final size:12
Alignment explanation
Indices: 4347263--4347353 Score: 63
Period size: 11 Copynumber: 8.1 Consensus size: 12
4347253 TATGTATAGC
4347263 ATATAT-ACTAT
1 ATATATAACTAT
4347274 ATATA-AACTAT
1 ATATATAACTAT
4347285 ATATATAACTAT
1 ATATATAACTAT
**
4347297 A-ATATATTTAT
1 ATATATAACTAT
*
4347308 ATA-ACAATCTAT
1 ATATATAA-CTAT
*
4347320 -T-TATAAGT-T
1 ATATATAACTAT
4347329 ATATA-AACTAT
1 ATATATAACTAT
*
4347340 ATATGTAACCTAT
1 ATATATAA-CTAT
4347353 A
1 A
4347354 GTTTATAAGC
Statistics
Matches: 61, Mismatches: 9, Indels: 18
0.69 0.10 0.20
Matches are distributed among these distances:
9 1 0.02
10 5 0.08
11 37 0.61
12 13 0.21
13 5 0.08
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (12 bp):
ATATATAACTAT
Found at i:4347438 original size:21 final size:21
Alignment explanation
Indices: 4347386--4347438 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4347376 TAGTGTACTA
* *
4347386 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
* *
4347407 TATTGTATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
4347428 TATAGTTTATA
1 TATAGTTTATA
4347439 TTAATGTTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.49
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:4347574 original size:29 final size:29
Alignment explanation
Indices: 4347514--4347574 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
4347504 AATTTATAAC
** *
4347514 ATATTTTATATTAATATTAATTTTAGACT
1 ATATTTTATATTAATATTAATTACAAACT
*
4347543 ATATTTTATATTAATATTAATTACAAATT
1 ATATTTTATATTAATATTAATTACAAACT
4347572 ATA
1 ATA
4347575 AACTCTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (29 bp):
ATATTTTATATTAATATTAATTACAAACT
Found at i:4347615 original size:28 final size:28
Alignment explanation
Indices: 4347597--4347672 Score: 145
Period size: 28 Copynumber: 2.8 Consensus size: 28
4347587 TTAATATAAG
4347597 TTAATATTAATTATAATATATAATTATT
1 TTAATATTAATTATAATATATAATTATT
4347625 TTAATATTAATTATAATATATAATTATT
1 TTAATATTAATTATAATATATAATTATT
4347653 TTAATATTAATTATAA-ATAT
1 TTAATATTAATTATAATATAT
4347673 CATTTTCTCT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 4 0.08
28 44 0.92
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTAATATTAATTATAATATATAATTATT
Found at i:4347628 original size:22 final size:23
Alignment explanation
Indices: 4347602--4347668 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 23
4347592 ATAAGTTAAT
4347602 ATTAATTATAATATATAATTAT-
1 ATTAATTATAATATATAATTATA
*
4347624 TTTAA-TATTAAT-TATAATATATA
1 ATTAATTA-TAATATATAAT-TATA
*
4347647 ATT-ATTTTAATAT-TAATTATA
1 ATTAATTATAATATATAATTATA
4347668 A
1 A
4347669 ATATCATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
21 13 0.35
22 20 0.54
23 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTAATTATAATATATAATTATA
Found at i:4349207 original size:20 final size:20
Alignment explanation
Indices: 4349184--4349228 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4349174 ATTCTATTTT
**
4349184 ATATTGTTTGCTTCTGTTTG
1 ATATTGTTTGCTTCTACTTG
*
4349204 ATATTGTTTGTTTCTACTTG
1 ATATTGTTTGCTTCTACTTG
4349224 ATATT
1 ATATT
4349229 TGTAAGGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.60
Consensus pattern (20 bp):
ATATTGTTTGCTTCTACTTG
Found at i:4349371 original size:23 final size:23
Alignment explanation
Indices: 4349319--4349374 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
4349309 TTCTTAATGC
* *
4349319 ATGATGCTTGTTGAATTGATGCA
1 ATGATGCTTGATGAATTGATACA
* *
4349342 ATAATGCTTGATGAATTGGTACA
1 ATGATGCTTGATGAATTGATACA
*
4349365 TTGATGCTTG
1 ATGATGCTTG
4349375 CCGGTTGCTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (23 bp):
ATGATGCTTGATGAATTGATACA
Found at i:4350012 original size:22 final size:22
Alignment explanation
Indices: 4349987--4350058 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
4349977 CATAATTTAA
4349987 TTAATATTCAGCTATTATCAAT
1 TTAATATTCAGCTATTATCAAT
* * *
4350009 TTAATTATTAATC-ATGT-TTAAT
1 TTAA-TATTCAGCTAT-TATCAAT
* *
4350031 ATTAACATTCAGTTATTATCAAT
1 -TTAATATTCAGCTATTATCAAT
4350054 TTAAT
1 TTAAT
4350059 TATTATTTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
22 19 0.53
23 17 0.47
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.49
Consensus pattern (22 bp):
TTAATATTCAGCTATTATCAAT
Found at i:4350063 original size:15 final size:15
Alignment explanation
Indices: 4349999--4350064 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
4349989 AATATTCAGC
4349999 TATTATCAATTTAAT
1 TATTATCAATTTAAT
*
4350014 TATTAATCATGTTTAA-
1 TATT-ATCA-ATTTAAT
* * *
4350030 TATTAAC-ATTCAGT
1 TATTATCAATTTAAT
4350044 TATTATCAATTTAAT
1 TATTATCAATTTAAT
4350059 TATTAT
1 TATTAT
4350065 TTTATTGCCA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
13 3 0.08
14 6 0.15
15 17 0.44
16 8 0.21
17 5 0.13
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.52
Consensus pattern (15 bp):
TATTATCAATTTAAT
Found at i:4350180 original size:23 final size:24
Alignment explanation
Indices: 4350153--4350202 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
4350143 TATTTTTTTC
4350153 TTTATATAAATTAAAATATA-TAA
1 TTTATATAAATTAAAATATATTAA
*
4350176 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAAATATATTAA
4350200 TTT
1 TTT
4350203 TCCTTTTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAAATATATTAA
Found at i:4350274 original size:13 final size:13
Alignment explanation
Indices: 4350242--4350268 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4350232 TAATTTACAT
4350242 TTAAATAATTTTA
1 TTAAATAATTTTA
4350255 TTAAATAATTTTA
1 TTAAATAATTTTA
4350268 T
1 T
4350269 ATAATAGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:4350473 original size:16 final size:16
Alignment explanation
Indices: 4350454--4350520 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
4350444 TCATTTACAA
4350454 GTCAGGTTAAAAACAG
1 GTCAGGTTAAAAACAG
4350470 GTCAGGTTAAAAACAG
1 GTCAGGTTAAAAACAG
* * * *
4350486 GTCAAGTTGAAAATAA
1 GTCAGGTTAAAAACAG
*
4350502 GTCAGGTTGAAAACAG
1 GTCAGGTTAAAAACAG
4350518 GTC
1 GTC
4350521 GGGTAATACC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (16 bp):
GTCAGGTTAAAAACAG
Found at i:4354685 original size:44 final size:44
Alignment explanation
Indices: 4354622--4354705 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
4354612 GAAATATGTA
* *
4354622 GGAATTGAAATCTAATTTCATATTCTGTTTGGTTGGCAGAAAAT
1 GGAATTGAAATCTAATTTCATATTCGGTTTGGTTCGCAGAAAAT
* *
4354666 GGAATTGGAATTTAATTTCATATTCGGTTTGGTTCGCAGA
1 GGAATTGAAATCTAATTTCATATTCGGTTTGGTTCGCAGA
4354706 TATGTCAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (44 bp):
GGAATTGAAATCTAATTTCATATTCGGTTTGGTTCGCAGAAAAT
Found at i:4354876 original size:24 final size:20
Alignment explanation
Indices: 4354832--4354880 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
4354822 ATATTAAATT
4354832 TTCATTTTATTGATTGATTA
1 TTCATTTTATTGATTGATTA
4354852 TTCATTTTATTGATTGATTA
1 TTCATTTTATTGATTGATTA
*
4354872 TTTATTTTA
1 TTCATTTTA
4354881 ATAAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.63
Consensus pattern (20 bp):
TTCATTTTATTGATTGATTA
Found at i:4359178 original size:34 final size:34
Alignment explanation
Indices: 4359134--4359242 Score: 128
Period size: 34 Copynumber: 3.2 Consensus size: 34
4359124 GAGCATTTTC
* *
4359134 ACGAAGGCTAAACGAACATGTTCATAAACATTAA
1 ACGAACGCTAAACGAACATGTTCACAAACATTAA
** *
4359168 ACGAACGCTAAACGAACATGTTCACGGACTTTAA
1 ACGAACGCTAAACGAACATGTTCACAAACATTAA
* * *
4359202 ACGAACGCTAAATGAACATGTTCGCGAACATTTAA
1 ACGAACGCTAAACGAACATGTTCACAAACA-TTAA
*
4359237 ATGAAC
1 ACGAAC
4359243 ATGTTCGCGA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
34 55 0.86
35 9 0.14
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (34 bp):
ACGAACGCTAAACGAACATGTTCACAAACATTAA
Found at i:4359278 original size:24 final size:24
Alignment explanation
Indices: 4359210--4359272 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
4359200 AAACGAACGC
4359210 TAAATGAACATGTTCGCGAACATT
1 TAAATGAACATGTTCGCGAACATT
4359234 TAAATGAACATGTTCGCGAACATT
1 TAAATGAACATGTTCGCGAACATT
*
4359258 TAAATGAACGTGTTC
1 TAAATGAACATGTTC
4359273 AAGAACGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (24 bp):
TAAATGAACATGTTCGCGAACATT
Found at i:4359296 original size:23 final size:23
Alignment explanation
Indices: 4359269--4359339 Score: 63
Period size: 27 Copynumber: 2.9 Consensus size: 23
4359259 AAATGAACGT
4359269 GTTCAAGAACGTTAAAAGAACAC
1 GTTCAAGAACGTTAAAAGAACAC
4359292 GTTCATA-AACGTTAAATAAAAGAACAC
1 GTTCA-AGAACG-T---TAAAAGAACAC
** *
4359319 GTTCGTGAACGTTAAATGAAC
1 GTTCAAGAACGTTAAAAGAAC
4359340 GAACACGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
23 17 0.44
24 2 0.05
26 1 0.03
27 19 0.49
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (23 bp):
GTTCAAGAACGTTAAAAGAACAC
Found at i:4359311 original size:27 final size:27
Alignment explanation
Indices: 4359281--4359346 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
4359271 TCAAGAACGT
4359281 TAAAAGAACACGTTCATAAACGTTAAA
1 TAAAAGAACACGTTCATAAACGTTAAA
* *
4359308 TAAAAGAACACGTTCGTGAACGTTAAA
1 TAAAAGAACACGTTCATAAACGTTAAA
* *
4359335 TGAACGAACACG
1 TAAAAGAACACG
4359347 AATATCTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.20
Consensus pattern (27 bp):
TAAAAGAACACGTTCATAAACGTTAAA
Found at i:4361151 original size:130 final size:130
Alignment explanation
Indices: 4360918--4361177 Score: 520
Period size: 130 Copynumber: 2.0 Consensus size: 130
4360908 CAGAAACCTG
4360918 TAGATGCATGGTTTACTAAGGAAATTTCATGGTTTACCATATATATGCTTGACTTTTAGCATTAT
1 TAGATGCATGGTTTACTAAGGAAATTTCATGGTTTACCATATATATGCTTGACTTTTAGCATTAT
4360983 CTGGTAATTTTGTATTATTGAGCTTTTCCAAAACTCACTTTGTTACTTACCATATCAAGCTAAAA
66 CTGGTAATTTTGTATTATTGAGCTTTTCCAAAACTCACTTTGTTACTTACCATATCAAGCTAAAA
4361048 TAGATGCATGGTTTACTAAGGAAATTTCATGGTTTACCATATATATGCTTGACTTTTAGCATTAT
1 TAGATGCATGGTTTACTAAGGAAATTTCATGGTTTACCATATATATGCTTGACTTTTAGCATTAT
4361113 CTGGTAATTTTGTATTATTGAGCTTTTCCAAAACTCACTTTGTTACTTACCATATCAAGCTAAAA
66 CTGGTAATTTTGTATTATTGAGCTTTTCCAAAACTCACTTTGTTACTTACCATATCAAGCTAAAA
4361178 AGAATCAGTC
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (130 bp):
TAGATGCATGGTTTACTAAGGAAATTTCATGGTTTACCATATATATGCTTGACTTTTAGCATTAT
CTGGTAATTTTGTATTATTGAGCTTTTCCAAAACTCACTTTGTTACTTACCATATCAAGCTAAAA
Found at i:4375162 original size:19 final size:19
Alignment explanation
Indices: 4375137--4375199 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
4375127 CTTACGACAT
*
4375137 TGCTTAAACGATATCAAAC
1 TGCTTAAGCGATATCAAAC
*
4375156 AGCTTAAGCGATATCAAAC
1 TGCTTAAGCGATATCAAAC
4375175 TGCTTAAGCGATATCAAAC
1 TGCTTAAGCGATATCAAAC
4375194 TGCTTA
1 TGCTTA
4375200 CCAGTTGAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (19 bp):
TGCTTAAGCGATATCAAAC
Found at i:4375454 original size:25 final size:25
Alignment explanation
Indices: 4375409--4375456 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4375399 CAAAATACTC
*
4375409 AAATAAAAGTAAATAATAAACCTAA
1 AAATAAAAGAAAATAATAAACCTAA
*
4375434 AAATACAAAGAAAATTA-AAACCT
1 AAATA-AAAGAAAATAATAAACCT
4375457 TCCATTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.67, C:0.10, G:0.04, T:0.19
Consensus pattern (25 bp):
AAATAAAAGAAAATAATAAACCTAA
Found at i:4375747 original size:12 final size:14
Alignment explanation
Indices: 4375718--4375746 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4375708 AAACGACCGC
4375718 AAATGTATGCGAAA
1 AAATGTATGCGAAA
4375732 AAATGTAT-CGAAA
1 AAATGTATGCGAAA
4375745 AA
1 AA
4375747 TATGAGGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.21
Consensus pattern (14 bp):
AAATGTATGCGAAA
Found at i:4377145 original size:28 final size:29
Alignment explanation
Indices: 4377104--4377162 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
4377094 CCATAGAAAT
*
4377104 AATATATATGTATATATACAT-ATAAATGA
1 AATATATATATATATA-ACATAATAAATGA
4377133 AATA-ATATATATATAACATAATAAATGA
1 AATATATATATATATAACATAATAAATGA
4377161 AA
1 AA
4377163 CAACATGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 4 0.14
28 20 0.71
29 4 0.14
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (29 bp):
AATATATATATATATAACATAATAAATGA
Found at i:4379771 original size:15 final size:15
Alignment explanation
Indices: 4379751--4379789 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4379741 AAACCATTTT
4379751 ATATAATAACATAAA
1 ATATAATAACATAAA
* *
4379766 ATATAATAGCATACA
1 ATATAATAACATAAA
*
4379781 ATAAAATAA
1 ATATAATAA
4379790 AAAAGATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (15 bp):
ATATAATAACATAAA
Found at i:4379890 original size:86 final size:87
Alignment explanation
Indices: 4379777--4379943 Score: 318
Period size: 86 Copynumber: 1.9 Consensus size: 87
4379767 TATAATAGCA
4379777 TACAATAAAATAAAAAAGATATTAAGATTTTATCCTATACGACTATACATTTTTAATAGAAAAAT
1 TACAATAAAATAAAAAAGATATTAAGATTTTATCCTATACGACTATACATTTTTAATAGAAAAAT
*
4379842 TCACATACAGAATAAGGAAATT
66 TCACATACAAAATAAGGAAATT
4379864 TACAATAAAAT-AAAAAGATATTAAGATTTTATCCTATACGACTATACATTTTTAATAGAAAAAT
1 TACAATAAAATAAAAAAGATATTAAGATTTTATCCTATACGACTATACATTTTTAATAGAAAAAT
4379928 TCACATACAAAATAAG
66 TCACATACAAAATAAG
4379944 AAAAATTTCA
Statistics
Matches: 79, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
86 68 0.86
87 11 0.14
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (87 bp):
TACAATAAAATAAAAAAGATATTAAGATTTTATCCTATACGACTATACATTTTTAATAGAAAAAT
TCACATACAAAATAAGGAAATT
Found at i:4380046 original size:16 final size:17
Alignment explanation
Indices: 4380015--4380048 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4380005 GTGTTCGTTC
*
4380015 AAAAATTTAAATAATAA
1 AAAAACTTAAATAATAA
4380032 AAAAACTTAAA-AATAA
1 AAAAACTTAAATAATAA
4380048 A
1 A
4380049 CAATATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAACTTAAATAATAA
Found at i:4387192 original size:26 final size:26
Alignment explanation
Indices: 4387156--4387208 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
4387146 GGTTCTCCCG
4387156 TAAATTAAAATCAAACACACCGGCAA
1 TAAATTAAAATCAAACACACCGGCAA
4387182 TAAATTAAAATCAAACACACCGGCAA
1 TAAATTAAAATCAAACACACCGGCAA
4387208 T
1 T
4387209 CACGACGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.53, C:0.23, G:0.08, T:0.17
Consensus pattern (26 bp):
TAAATTAAAATCAAACACACCGGCAA
Found at i:4391347 original size:6 final size:6
Alignment explanation
Indices: 4391336--4391361 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4391326 CGGCCACAGA
4391336 CGGAGC CGGAGC CGGAGC CGGAGC CG
1 CGGAGC CGGAGC CGGAGC CGGAGC CG
4391362 ACGCCGACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.50, T:0.00
Consensus pattern (6 bp):
CGGAGC
Found at i:4393384 original size:22 final size:22
Alignment explanation
Indices: 4393356--4393413 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
4393346 TTCTTCCCTG
4393356 CATCAACAGTGACTCACAAATC
1 CATCAACAGTGACTCACAAATC
* *
4393378 CATCAACAATGACTCACCAATC
1 CATCAACAGTGACTCACAAATC
4393400 CATCAAACAGTGAC
1 CATC-AACAGTGAC
4393414 CCAGATCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 24 0.75
23 8 0.25
ACGTcount: A:0.41, C:0.33, G:0.09, T:0.17
Consensus pattern (22 bp):
CATCAACAGTGACTCACAAATC
Found at i:4396588 original size:31 final size:32
Alignment explanation
Indices: 4396552--4396613 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4396542 ATTTTACATG
4396552 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
4396583 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
4396614 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:4398706 original size:11 final size:11
Alignment explanation
Indices: 4398678--4398715 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
4398668 AATAGCAAAG
4398678 AGAAAAATCAA
1 AGAAAAATCAA
4398689 AGCAAAAATCAA
1 AG-AAAAATCAA
*
4398701 AGAAAAAGCAA
1 AGAAAAATCAA
4398712 AGAA
1 AGAA
4398716 CAAAAAGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.71, C:0.11, G:0.13, T:0.05
Consensus pattern (11 bp):
AGAAAAATCAA
Found at i:4399904 original size:4 final size:4
Alignment explanation
Indices: 4399895--4399928 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
4399885 AAAAGCATAC
4399895 ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4399929 GATACATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 26 0.93
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:4399918 original size:22 final size:21
Alignment explanation
Indices: 4399890--4399936 Score: 76
Period size: 22 Copynumber: 2.2 Consensus size: 21
4399880 TCGAGAAAAG
4399890 CATACACATACATACATACATA
1 CATACACATACATACAT-CATA
*
4399912 CATACACATACATACATGATA
1 CATACACATACATACATCATA
4399933 CATA
1 CATA
4399937 AAATTTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (21 bp):
CATACACATACATACATCATA
Found at i:4400581 original size:105 final size:102
Alignment explanation
Indices: 4400389--4400632 Score: 278
Period size: 105 Copynumber: 2.4 Consensus size: 102
4400379 AATTTTGAGA
* ** * *
4400389 ATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGAT
1 ATTTCAAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGAT
*
4400454 TCACTAAAAACAAAATTAATCTCACCTT-AGATTGTTGTTT
66 TCACTAAAAACAAAATTAATCTCA-CTTGAGA---TCGTTT
* * *
4400494 ATTTCAAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTT
1 ATTTCAAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGAT
* * *
4400559 TCAC-ATTAAACAAAGTTGATCTCACTTGAGATCGTTT
66 TCACTA-AAAACAAAATTAATCTCACTTGAGATCGTTT
* * *
4400596 -TCTCAAAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 ATTTC-AAAACAAATTTTGTCTCGCTTGAGACATTTTC
4400633 TCTAAAAACA
Statistics
Matches: 120, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
101 3 0.03
102 34 0.28
104 4 0.03
105 79 0.66
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (102 bp):
ATTTCAAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGAT
TCACTAAAAACAAAATTAATCTCACTTGAGATCGTTT
Found at i:4400623 original size:36 final size:36
Alignment explanation
Indices: 4400578--4400697 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
4400568 ACAAAGTTGA
**
4400578 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
4400614 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
4400650 TCTCATTTGAGACTATATCT-T-AAAGCAAA-TTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTT-G
*
4400684 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
4400698 TCATTTTCTC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
33 3 0.04
34 19 0.27
35 8 0.11
36 40 0.57
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:4401017 original size:29 final size:29
Alignment explanation
Indices: 4400948--4401075 Score: 172
Period size: 29 Copynumber: 4.5 Consensus size: 29
4400938 CTTTTGAGGA
*
4400948 AAAAATCTTTGAGTTTGTTCCTCTTG-A-
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
4400975 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
*
4401004 AAAAATCTTGGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
* * * *
4401033 AAAAATTTTTGAG-TTGTTTCGTTTGAAAC
1 AAAAATCTTTGAGTTTGTTCCTTTTG-AAT
4401062 AAAAATCTTTGAGT
1 AAAAATCTTTGAGT
4401076 CTATTTATTT
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
27 25 0.28
28 11 0.12
29 53 0.60
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.45
Consensus pattern (29 bp):
AAAAATCTTTGAGTTTGTTCCTTTTGAAT
Found at i:4401087 original size:58 final size:58
Alignment explanation
Indices: 4400975--4401089 Score: 133
Period size: 58 Copynumber: 2.0 Consensus size: 58
4400965 TTCCTCTTGA
* * * * *
4400975 AAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCGTTTGAACAAAAATCTTGGAGTCTATTCATTTTGAAT
* * * *
4401033 AAAAATTTTTGAG-TTGTTTCGTTTGAAACAAAAATCTTTGAGTCTATTTATTTTGAA
1 AAAAATCTTTGAGTTTGTTCCGTTTG-AACAAAAATCTTGGAGTCTATTCATTTTGAA
4401090 ACAAAGTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 10 0.21
58 37 0.79
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (58 bp):
AAAAATCTTTGAGTTTGTTCCGTTTGAACAAAAATCTTGGAGTCTATTCATTTTGAAT
Found at i:4401148 original size:52 final size:53
Alignment explanation
Indices: 4401086--4401188 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 53
4401076 CTATTTATTT
*
4401086 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGT-GAAAAATCTTTGAGTC
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAATCTTTGAGTC
*
4401138 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTAAAAAAATCTTTGAG
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAATCTTTGAG
4401189 ATTGTTTCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 35 0.73
53 13 0.27
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (53 bp):
TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAATCTTTGAGTC
Found at i:4401212 original size:30 final size:30
Alignment explanation
Indices: 4401168--4401373 Score: 121
Period size: 30 Copynumber: 6.4 Consensus size: 30
4401158 CTTGAGACAA
*
4401168 TTTTGTAA-AAAAATCTTTGAGATTGTTTC
1 TTTTGAAACAAAAATCTTTGAGATTGTTTC
* *
4401197 TTTTGAAACAAAAATCTTTGAGTTTGTTTA
1 TTTTGAAACAAAAATCTTTGAGATTGTTTC
* * * **
4401227 TTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTC
1 TTTTGAAACAAAA------ATCT-TTGAGATTGTTTC
4401264 TTTTGAAACAAAAATCTTTGAG-TCTGTTTC
1 TTTTGAAACAAAAATCTTTGAGAT-TGTTTC
* * * **
4401294 TTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTC
1 TTTTGAAACAAAA------ATCT-TTGAGATTGTTTC
4401331 TTTTGAAACAAAAATCTTTGAG-TCTGTTTC
1 TTTTGAAACAAAAATCTTTGAGAT-TGTTTC
*
4401361 TTTGGAAACAAAA
1 TTTTGAAACAAAA
4401374 TTTTGTCTCT
Statistics
Matches: 133, Mismatches: 26, Indels: 35
0.69 0.13 0.18
Matches are distributed among these distances:
29 9 0.07
30 71 0.53
31 6 0.05
36 6 0.05
37 40 0.30
38 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (30 bp):
TTTTGAAACAAAAATCTTTGAGATTGTTTC
Found at i:4401264 original size:67 final size:67
Alignment explanation
Indices: 4401193--4401428 Score: 454
Period size: 67 Copynumber: 3.5 Consensus size: 67
4401183 TTTGAGATTG
* *
4401193 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTATTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
4401258 AA
66 AA
4401260 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
4401325 AA
66 AA
4401327 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
4401392 AA
66 AA
4401394 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCT
4401429 CTTAAAATGA
Statistics
Matches: 167, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 167 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AA
Found at i:4401340 original size:37 final size:37
Alignment explanation
Indices: 4401290--4401410 Score: 125
Period size: 37 Copynumber: 3.5 Consensus size: 37
4401280 TTTGAGTCTG
4401290 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
* **
4401327 TTTCTTTTGAAACAAAAATCTTTG--AGTC-T--G----
1 TTTCTTTGGAAAC-AAAAT-TTTGTCTCTCTTAAGATAA
4401357 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
*
4401394 TTTCTTTTGAAACAAAA
1 TTTCTTTGGAAACAAAA
4401411 ATCTTTGAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
28 4 0.06
29 5 0.08
30 14 0.21
31 1 0.02
33 1 0.02
34 1 0.02
36 1 0.02
37 30 0.45
38 5 0.08
39 4 0.06
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (37 bp):
TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
Found at i:4402322 original size:36 final size:35
Alignment explanation
Indices: 4402269--4402382 Score: 109
Period size: 36 Copynumber: 3.4 Consensus size: 35
4402259 GAAACACTGA
*
4402269 TCTTTGAGATCA-ATTCCCTTTAAACGAATTTTGTC
1 TCTTTGAGA-CAGTTTCCCTTTAAACGAATTTTGTC
*
4402304 TCATTTGAGACAGTTTCCCTTTAAACG----TCG--
1 TC-TTTGAGACAGTTTCCCTTTAAACGAATTTTGTC
* *
4402334 TCTTTGAGTC-GTTTCCCTTAAAACGAATTTTGTC
1 TCTTTGAGACAGTTTCCCTTTAAACGAATTTTGTC
4402368 TCTTTTGAGACAGTT
1 TC-TTTGAGACAGTT
4402383 GCTTTTAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
28 14 0.22
29 7 0.11
30 2 0.03
32 4 0.06
34 2 0.03
35 11 0.17
36 23 0.37
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (35 bp):
TCTTTGAGACAGTTTCCCTTTAAACGAATTTTGTC
Found at i:4402469 original size:28 final size:28
Alignment explanation
Indices: 4402398--4402479 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
4402388 TAAAAATATC
* * *
4402398 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
4402426 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
4402454 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
4402480 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:4402560 original size:40 final size:40
Alignment explanation
Indices: 4402505--4402739 Score: 161
Period size: 40 Copynumber: 5.6 Consensus size: 40
4402495 TGGCCAGCCG
* *
4402505 TCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGACC
* * **
4402545 TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAG---ACCAGACC
* * *
4402587 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGACC
* * * *
4402634 TCTTCATCACGTATGAGCCGTGTCATTCCCC-GACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCA-TCCCCAGACCAGACC
* * * *
4402674 TCTTCATCACGTAGGAGCCGTGTCAACCACAGATAACCAG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAG---ACCAGACC
4402716 GTCCTCATCACGTAGGAACCGTGT
1 -TCCTCATCACGTAGGAACCGTGT
4402740 TATCGCCCTT
Statistics
Matches: 155, Mismatches: 23, Indels: 31
0.74 0.11 0.15
Matches are distributed among these distances:
39 3 0.02
40 58 0.37
42 2 0.01
43 58 0.37
44 1 0.01
46 30 0.19
47 3 0.02
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (40 bp):
TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGACC
Found at i:4402821 original size:40 final size:39
Alignment explanation
Indices: 4402761--4402836 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 39
4402751 CTAAAGATGG
4402761 CCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCCGA
1 CCAGAACTCTTCATCACGTATGAGTCGTGTCA-CCCCCGA
* *
4402801 CCAGATCTCTTCATCGCGTATGAGTCGTGTCACCCC
1 CCAGAACTCTTCATCACGTATGAGTCGTGTCACCCC
4402837 TAGATAACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.20, C:0.36, G:0.18, T:0.26
Consensus pattern (39 bp):
CCAGAACTCTTCATCACGTATGAGTCGTGTCACCCCCGA
Found at i:4402831 original size:134 final size:132
Alignment explanation
Indices: 4402486--4402918 Score: 579
Period size: 134 Copynumber: 3.3 Consensus size: 132
4402476 AAACCATAAC
* * * * * * *
4402486 TCCTAAAGATGGCCAG-CCGTCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCCTC
1 TCCT-AAGATGGCCAGAAC-TCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCTTC
*
4402550 ATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
64 ATCACGTAGGAGCCGTGTCAACCACAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
*
4402615 ACCT
129 CCCT
*
4402619 T--T-AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCAT
1 TCCTAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCTTCAT
4402681 CACGTAGGAGCCGTGTCAACCACAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCGC
66 CACGTAGGAGCCGTGTCAACCACAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC-C
4402746 CCT
130 CCT
*
4402749 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCTTCA
1 TCCT-AAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCTTCA
* * * * * *
4402814 TCGCGTATGAGTCGTGTC-ACCCCTAGATAACCAGTCGTCCTCATCACGTAGGAACCGAGTTATC
65 TCACGTAGGAGCCGTGTCAACCAC-AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
4402878 ACCCT
129 -CCCT
* * * * *
4402883 CCCTTAGACGACCCGAACTCTTCATCACGTATGAGC
1 TCCTAAGATGGCCAGAACTCTTCATCACGTATGAGC
4402919 AATGTCGTCC
Statistics
Matches: 268, Mismatches: 25, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
129 112 0.42
130 5 0.02
131 1 0.00
132 1 0.00
133 32 0.12
134 117 0.44
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (132 bp):
TCCTAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCTTCAT
CACGTAGGAGCCGTGTCAACCACAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCCC
CT
Found at i:4403373 original size:23 final size:22
Alignment explanation
Indices: 4403317--4403374 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
4403307 TTCTTCCCTA
4403317 CATCAACAGTGACTCACAAATC
1 CATCAACAGTGACTCACAAATC
*
4403339 CATCAACAGTGACTCACCAATC
1 CATCAACAGTGACTCACAAATC
4403361 CATCAAACAGTGAC
1 CATC-AACAGTGAC
4403375 CCAGATCCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 25 0.74
23 9 0.26
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.17
Consensus pattern (22 bp):
CATCAACAGTGACTCACAAATC
Found at i:4410171 original size:14 final size:14
Alignment explanation
Indices: 4410152--4410182 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4410142 ATATAGCACT
4410152 ATCGTATTGCAACG
1 ATCGTATTGCAACG
4410166 ATCGTATTGCAACG
1 ATCGTATTGCAACG
4410180 ATC
1 ATC
4410183 CCACTATGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (14 bp):
ATCGTATTGCAACG
Found at i:4414020 original size:3 final size:3
Alignment explanation
Indices: 4414012--4414086 Score: 105
Period size: 3 Copynumber: 25.0 Consensus size: 3
4414002 TAATTATTTT
* * *
4414012 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
4414060 TAA TAA TTA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
4414087 ATCAAAATGG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:4414491 original size:113 final size:113
Alignment explanation
Indices: 4414347--4415344 Score: 1582
Period size: 113 Copynumber: 8.8 Consensus size: 113
4414337 TCTTGATGAG
* *
4414347 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
* * * *
4414412 GAAAGGCTGATCCATCA-ATTGAT-GAATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAGA-TGATGGATTTGA-GCAAAAGGTTGAACAAA
4414460 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCCTTCTTCAGATGAGTTCTT-TCATTATGAACT
1 TTCTTCTCATTATGAA-----T-TT-CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
4414524 TTTTCTGGAAAAGCTGATCCATCATGATGGATTGAGCAATTTGAGCAAAAGGTTG----AA
59 TTTTCTGGAAAAGCTGATCCATCA-GAT-GA-TG-G--ATTTGAGCAAAAGGTTGAACAAA
4414581 -TCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
* *
4414642 GAAATGCTGATCCATC--ATGATGGATTT-TGCAAAAGGTTGAAC-AA
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
*
4414686 TTCTTCTCATTATGAATTT-TTCTT-CTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
*
4414749 GAAAAGCTGATCCACCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
*
4414797 TTCTTCTAATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
*
4414862 GAAATGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
4414910 TTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
4414974 GAAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
66 G-AAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
*
4415023 TTCTTCTAATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
*
4415088 GAAATGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
*
4415136 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTAATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
4415201 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
*
4415249 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTAATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
4415314 GAAAAGCTGATCCATCAGATGATGGATTTGA
66 GAAAAGCTGATCCATCAGATGATGGATTTGA
4415345 ATCTTTGCTA
Statistics
Matches: 832, Mismatches: 22, Indels: 62
0.91 0.02 0.07
Matches are distributed among these distances:
102 11 0.01
103 4 0.00
105 3 0.00
106 17 0.02
107 54 0.06
108 7 0.01
109 11 0.01
110 40 0.05
111 54 0.06
112 54 0.06
113 428 0.51
114 49 0.06
119 37 0.04
120 42 0.05
121 5 0.01
122 1 0.00
124 1 0.00
125 10 0.01
126 4 0.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (113 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
Found at i:4414708 original size:19 final size:19
Alignment explanation
Indices: 4414686--4414747 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
4414676 GGTTGAACAA
4414686 TTCTTCTCATTATGAATTT
1 TTCTTCTCATTATGAATTT
* **
4414705 TTCTTCTCCTTCA-G-ATGAG
1 TTCTTCTCATT-ATGAAT-TT
4414724 TTCTTCTCATTATGAACTTT
1 TTCTTCTCATTATGAA-TTT
4414744 TTCT
1 TTCT
4414748 GGAAAAGCTG
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
18 3 0.09
19 22 0.69
20 6 0.19
21 1 0.03
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.53
Consensus pattern (19 bp):
TTCTTCTCATTATGAATTT
Found at i:4415769 original size:22 final size:22
Alignment explanation
Indices: 4415744--4415798 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
4415734 CATAAAGTTT
*
4415744 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
4415766 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
4415788 TCATCTTTGAA
1 TCATCTTTGAA
4415799 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:4416294 original size:54 final size:53
Alignment explanation
Indices: 4416165--4416315 Score: 166
Period size: 50 Copynumber: 2.9 Consensus size: 53
4416155 ATAATCACTG
* * *
4416165 GTTCATAAAACATTTGACAATACATTCATCTTTTCCTGTGGTTTCTGTCGAGAT
1 GTTCAT-AAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTCGAGAC
* *
4416219 G-T-A-AAACATTTGACAACACATTCATCCTTTCTTGTGGTTTTTGCTC-AGAC
1 GTTCATAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTG-TCGAGAC
* * * *
4416269 GTTCATAAAGCGTTTGACAACACATTCATCATTTTCTGTGGCTTCTG
1 GTTCATAAA-CATTTGACAACACATTCATCCTTTCCTGTGGTTTCTG
4416316 CCAAGATTTC
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
50 40 0.49
51 3 0.04
52 2 0.02
53 4 0.05
54 32 0.40
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (53 bp):
GTTCATAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTCGAGAC
Found at i:4426695 original size:3 final size:3
Alignment explanation
Indices: 4426687--4426755 Score: 102
Period size: 3 Copynumber: 23.0 Consensus size: 3
4426677 TAATTATTTT
* *
4426687 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
4426735 TTA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
4426756 ATCAAAATGG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:4429308 original size:32 final size:32
Alignment explanation
Indices: 4429271--4429340 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
4429261 TTATATATCG
4429271 GGTCGGATTCGGGTAGGGTGAAATCTTGTTTT
1 GGTCGGATTCGGGTAGGGTGAAATCTTGTTTT
*
4429303 GGTCGGATTCGGGTAGGGTTAAATCTTGTTTT
1 GGTCGGATTCGGGTAGGGTGAAATCTTGTTTT
4429335 GGTCGG
1 GGTCGG
4429341 GTCGGGTCGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.14, C:0.10, G:0.39, T:0.37
Consensus pattern (32 bp):
GGTCGGATTCGGGTAGGGTGAAATCTTGTTTT
Found at i:4430740 original size:4 final size:4
Alignment explanation
Indices: 4430723--4430762 Score: 64
Period size: 4 Copynumber: 10.0 Consensus size: 4
4430713 TTCGTCCTCA
4430723 TCTT TCTT GT-TT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
1 TCTT TCTT -TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
4430763 CGAGGTCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 1 0.03
4 32 0.94
5 1 0.03
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.75
Consensus pattern (4 bp):
TCTT
Found at i:4432852 original size:22 final size:22
Alignment explanation
Indices: 4432808--4432848 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
4432798 AATTTCATCA
* *
4432808 AAAAACTAAATTTATATAATAT
1 AAAAACTAAATTGACATAATAT
4432830 AAAAA-TAAATTGACATAAT
1 AAAAACTAAATTGACATAAT
4432849 TATATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAAACTAAATTGACATAATAT
Found at i:4434766 original size:14 final size:15
Alignment explanation
Indices: 4434729--4434758 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4434719 ACCACGTGTA
4434729 TGTGATTTTTATTTT
1 TGTGATTTTTATTTT
4434744 TGTGATTTTTATTTT
1 TGTGATTTTTATTTT
4434759 ATTATTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (15 bp):
TGTGATTTTTATTTT
Found at i:4435208 original size:3 final size:3
Alignment explanation
Indices: 4435200--4435240 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
4435190 ATTCAATACT
4435200 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4435241 TGAATTGACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4439895 original size:24 final size:24
Alignment explanation
Indices: 4439863--4439908 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
4439853 CAATTGCTCC
4439863 TGCTTCCTCATCTCTCTTCTTCGA
1 TGCTTCCTCATCTCTCTTCTTCGA
*
4439887 TGCTTCCTCTTCTCTCTTCTTC
1 TGCTTCCTCATCTCTCTTCTTC
4439909 TCCAACCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.04, C:0.39, G:0.07, T:0.50
Consensus pattern (24 bp):
TGCTTCCTCATCTCTCTTCTTCGA
Found at i:4449898 original size:2 final size:2
Alignment explanation
Indices: 4449893--4449922 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4449883 ATTCTGTGTG
4449893 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4449923 CATCTGTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4450293 original size:23 final size:23
Alignment explanation
Indices: 4450267--4450329 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
4450257 TTTTAAAAGA
* **
4450267 TTAAACATATAATTATAAATTAG
1 TTAAAAATATAAAGATAAATTAG
*
4450290 TTAAAAATTTAAAGATAAATTA-
1 TTAAAAATATAAAGATAAATTAG
*
4450312 TTTAAAATA-AAAGATAAA
1 TTAAAAATATAAAGATAAA
4450330 CTATATCAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 9 0.26
22 7 0.21
23 18 0.53
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (23 bp):
TTAAAAATATAAAGATAAATTAG
Found at i:4450326 original size:21 final size:23
Alignment explanation
Indices: 4450281--4450329 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
4450271 ACATATAATT
*
4450281 ATAAATTAGTTAAAAATTTAAAG
1 ATAAATTAGTTAAAAATTAAAAG
*
4450304 ATAAATTA-TTTAAAA-TAAAAG
1 ATAAATTAGTTAAAAATTAAAAG
4450325 ATAAA
1 ATAAA
4450330 CTATATCAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 6 0.25
23 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (23 bp):
ATAAATTAGTTAAAAATTAAAAG
Found at i:4451747 original size:11 final size:13
Alignment explanation
Indices: 4451711--4451770 Score: 88
Period size: 13 Copynumber: 4.7 Consensus size: 13
4451701 TATCATTTTA
4451711 AAAACACACACTT
1 AAAACACACACTT
*
4451724 AAAACATACACTT
1 AAAACACACACTT
4451737 AAAA-A-ACACTT
1 AAAACACACACTT
4451748 AAAAACACACACTT
1 -AAAACACACACTT
4451762 AAAACACAC
1 AAAACACAC
4451771 TTCTCCCCCT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
11 6 0.14
12 5 0.12
13 26 0.60
14 6 0.14
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAACACACACTT
Found at i:4451759 original size:25 final size:24
Alignment explanation
Indices: 4451718--4451772 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
4451708 TTAAAAACAC
*
4451718 ACACTTAAAACATACACTTAAAAA
1 ACACTTAAAACACACACTTAAAAA
*
4451742 ACACTTAAAAACACACACTTAAAAC
1 ACACTT-AAAACACACACTTAAAAA
4451767 ACACTT
1 ACACTT
4451773 CTCCCCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (24 bp):
ACACTTAAAACACACACTTAAAAA
Found at i:4451771 original size:11 final size:11
Alignment explanation
Indices: 4451716--4451772 Score: 60
Period size: 11 Copynumber: 4.7 Consensus size: 11
4451706 TTTTAAAAAC
4451716 ACACACTTAAA
1 ACACACTTAAA
4451727 ACATACACTTAAA
1 AC--ACACTTAAA
*
4451740 AAACACTTAAAAA
1 ACACACTT--AAA
4451753 CACACACTTAAA
1 -ACACACTTAAA
4451765 ACACACTT
1 ACACACTT
4451773 CTCCCCCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 16 0.41
12 3 0.08
13 13 0.33
14 7 0.18
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.19
Consensus pattern (11 bp):
ACACACTTAAA
Found at i:4454013 original size:21 final size:21
Alignment explanation
Indices: 4453987--4454026 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4453977 TAGAACCCCA
*
4453987 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
4454008 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
4454027 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:4454061 original size:20 final size:21
Alignment explanation
Indices: 4454007--4454069 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
4453997 GATTCCCCTG
4454007 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
4454031 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
4454051 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
4454070 TGCACAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:4457920 original size:22 final size:21
Alignment explanation
Indices: 4457878--4457917 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4457868 GAGTTTGTTT
*
4457878 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4457899 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4457918 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4467505 original size:35 final size:36
Alignment explanation
Indices: 4467466--4467551 Score: 149
Period size: 36 Copynumber: 2.4 Consensus size: 36
4467456 TAAGGGTTTG
4467466 GTGTTTCAAGAGAAAC-ATCTTCAAAGG-TTTTTTTT
1 GTGTTTCAAGAGAAACAAT-TTCAAAGGTTTTTTTTT
4467501 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTT
4467537 GTGTTTCAAGAGAAA
1 GTGTTTCAAGAGAAA
4467552 TTGTATTCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
35 24 0.49
36 25 0.51
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (36 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTT
Found at i:4467720 original size:15 final size:15
Alignment explanation
Indices: 4467696--4467733 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
4467686 AAAATATGCT
*
4467696 TCAAGAGAAACTGTC
1 TCAAGAGAAACTATC
*
4467711 TCAAGGGAAACTATC
1 TCAAGAGAAACTATC
4467726 TCAAGAGA
1 TCAAGAGA
4467734 GACAAAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.18
Consensus pattern (15 bp):
TCAAGAGAAACTATC
Found at i:4467831 original size:102 final size:102
Alignment explanation
Indices: 4467724--4467910 Score: 268
Period size: 102 Copynumber: 1.8 Consensus size: 102
4467714 AGGGAAACTA
* * * *
4467724 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG-TTTATGTTTCAAGAGAAACT
1 TCTCAAGAGAGACAAAATTCATTTCAAGGAAAATATATTCAAAGATTT-TGTTTCAAGAGAAACT
4467788 ATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATG
65 ATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATG
* * ** * *
4467826 TCTCAAGGGAGACGAAATTTGTTTCAAGGAAAATATATTCAAAGATTTTGTTTCAAGGGAAACTG
1 TCTCAAGAGAGACAAAATTCATTTCAAGGAAAATATATTCAAAGATTTTGTTTCAAGAGAAACTA
4467891 TCTCAAGAGAGACAAAACTT
66 TCTCAAGAGAGACAAAACTT
4467911 GGAAACTGTC
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
102 71 0.96
103 3 0.04
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (102 bp):
TCTCAAGAGAGACAAAATTCATTTCAAGGAAAATATATTCAAAGATTTTGTTTCAAGAGAAACTA
TCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATG
Found at i:4467914 original size:28 final size:28
Alignment explanation
Indices: 4467883--4467961 Score: 158
Period size: 28 Copynumber: 2.8 Consensus size: 28
4467873 TTGTTTCAAG
4467883 GGAAACTGTCTCAAGAGAGACAAAACTT
1 GGAAACTGTCTCAAGAGAGACAAAACTT
4467911 GGAAACTGTCTCAAGAGAGACAAAACTT
1 GGAAACTGTCTCAAGAGAGACAAAACTT
4467939 GGAAACTGTCTCAAGAGAGACAA
1 GGAAACTGTCTCAAGAGAGACAA
4467962 TGGTGAGCAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (28 bp):
GGAAACTGTCTCAAGAGAGACAAAACTT
Found at i:4468271 original size:106 final size:105
Alignment explanation
Indices: 4468086--4468347 Score: 375
Period size: 106 Copynumber: 2.5 Consensus size: 105
4468076 GTATTGTTCT
*
4468086 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGACTCTGGAACTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGT-GTGAAGTTGAAATTGACTCTGGAACTGGGAAATTGTTTGTTGACAA
*
4468151 CCAGCCTTCCCTTCGATGTGAAGATGAACTTGTGTTGTCTC
65 CCAGCCTTCCCTTCGATGTGAAGATGAACTTGTGTTATCTC
* * *
4468192 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG-GTTTTGAAGCTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGACTCTGGAA-CTGGGAAATTGTTTGTTGACA
* *
4468256 ACCAG-CTGTCCCTTCGCTGTGAAGTTGAACTTGTGTTATCTC
64 ACCAGCCT-TCCCTTCGATGTGAAGATGAACTTGTGTTATCTC
* * *
4468298 GAGTCCAATATTCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAA
1 GAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGACTCTGGAACTGGGAA
4468348 GCCCCTTCGT
Statistics
Matches: 138, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
105 7 0.05
106 126 0.91
107 5 0.04
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTGTGAAGTTGAAATTGACTCTGGAACTGGGAAATTGTTTGTTGACAAC
CAGCCTTCCCTTCGATGTGAAGATGAACTTGTGTTATCTC
Found at i:4469053 original size:32 final size:32
Alignment explanation
Indices: 4468999--4469111 Score: 120
Period size: 32 Copynumber: 3.5 Consensus size: 32
4468989 TTTGCATCAG
* * * *
4468999 GATGTTGAAT-TCCCAAATATGCCCCAATATTC
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTT
*
4469031 GATGTTGAATCTCAAAAAATGCCACAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTT
* ** *
4469063 GATCTAAAATCTAAAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTT
4469095 GATGTTGAATCTTCAAA
1 GATGTTGAATC-TCAAA
4469112 GATGCCCTCA
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
32 60 0.92
33 5 0.08
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAAATGCCCCAACATTT
Found at i:4470274 original size:14 final size:14
Alignment explanation
Indices: 4470244--4470294 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
4470234 TTTTCTTCAA
4470244 TTTTC-CTTTGTTTT
1 TTTTCTCTTTG-TTT
*
4470258 TTTTCTCTTT-TTA
1 TTTTCTCTTTGTTT
*
4470271 TTTTCTCTTTGCTT
1 TTTTCTCTTTGTTT
4470285 TTTTCTCTTT
1 TTTTCTCTTT
4470295 TTCTCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 12 0.38
14 16 0.50
15 4 0.12
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (14 bp):
TTTTCTCTTTGTTT
Found at i:4470310 original size:29 final size:27
Alignment explanation
Indices: 4470243--4470296 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
4470233 TTTTTCTTCA
*
4470243 ATTTTC-CTTTGTTTTTTTTCTCTTTTT
1 ATTTTCTCTTTG-CTTTTTTCTCTTTTT
4470270 ATTTTCTCTTTGCTTTTTTCTCTTTTT
1 ATTTTCTCTTTGCTTTTTTCTCTTTTT
4470297 CTCTTTTTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.76
Consensus pattern (27 bp):
ATTTTCTCTTTGCTTTTTTCTCTTTTT
Found at i:4476619 original size:21 final size:21
Alignment explanation
Indices: 4476593--4476633 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4476583 TCAATACTGC
* *
4476593 TAGAGTATCCATACTGCTTAG
1 TAGAGTATCAATACTCCTTAG
4476614 TAGAGTATCAATACTCCTTA
1 TAGAGTATCAATACTCCTTA
4476634 AAACTAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (21 bp):
TAGAGTATCAATACTCCTTAG
Done.