Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 44 of 345
Found at i:12677092 original size:47 final size:47
Alignment explanation
Indices: 12677023--12677184 Score: 190
Period size: 47 Copynumber: 3.5 Consensus size: 47
12677013 AACGTTCGAA
12677023 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
* * * * *
12677070 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAC--GG---CCGAA
1 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAG
*
12677116 CTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
*
12677163 CTCGTTGAGTTGAGTCTGAGTT
1 CTCGTTGAGTTGAGTCCGAGTT
12677185 TACTTATGGA
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 2 0.02
46 25 0.27
47 46 0.49
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.30
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
Found at i:12682878 original size:5 final size:5
Alignment explanation
Indices: 12682868--12682912 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
12682858 GTGACAAGGG
* * *
12682868 GAGAC GAGAC GATGAC GAGAG GAGAC GAGAT GAGAC GAGAT GAGA
1 GAGAC GAGAC GA-GAC GAGAC GAGAC GAGAC GAGAC GAGAC GAGA
12682913 ATAGGGTCGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.40, C:0.11, G:0.42, T:0.07
Consensus pattern (5 bp):
GAGAC
Found at i:12694958 original size:16 final size:15
Alignment explanation
Indices: 12694930--12694962 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
12694920 AACATATACT
12694930 TTAAAATTTTATATA
1 TTAAAATTTTATATA
12694945 TTAAAATATTTATATA
1 TTAAAAT-TTTATATA
12694961 TT
1 TT
12694963 TTACAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAAATTTTATATA
Found at i:12697480 original size:47 final size:47
Alignment explanation
Indices: 12697411--12697504 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
12697401 ACATTGTATA
12697411 GAGGTCAATTAGTTATTTTTCTTTATTTCTAGAAATTTGATTAGTTT
1 GAGGTCAATTAGTTATTTTTCTTTATTTCTAGAAATTTGATTAGTTT
* *
12697458 GAGGTCAATTAGTTATTTTTCTTTATTTCTAGTAATTTGGTTAGTTT
1 GAGGTCAATTAGTTATTTTTCTTTATTTCTAGAAATTTGATTAGTTT
12697505 ATCTTAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.54
Consensus pattern (47 bp):
GAGGTCAATTAGTTATTTTTCTTTATTTCTAGAAATTTGATTAGTTT
Found at i:12697552 original size:2 final size:2
Alignment explanation
Indices: 12697545--12697598 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
12697535 GTAGTTTTTC
*
12697545 CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
12697587 CT CT CT GT CT CT
1 CT CT CT CT CT CT
12697599 GATCTCTTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.46, G:0.02, T:0.52
Consensus pattern (2 bp):
CT
Found at i:12704799 original size:26 final size:26
Alignment explanation
Indices: 12704770--12704877 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
12704760 TGATACAAAT
*
12704770 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCA
12704796 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCA
12704822 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCA
12704848 TGATAAT-AGGTTAGGTAAATGTTCCA
1 TGATAATGA-GTTAGGTAAATGTTCCA
12704874 TGAT
1 TGAT
12704878 GAGAATTTCA
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
25 1 0.01
26 79 0.99
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGAGTTAGGTAAATGTTCCA
Found at i:12719115 original size:20 final size:20
Alignment explanation
Indices: 12719077--12719116 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12719067 CTGTTAAAAT
*
12719077 AGTTATTTTTATTTAATTTA
1 AGTTATTTTTAATTAATTTA
12719097 AGTTATATTTTAATT-ATTTA
1 AGTTAT-TTTTAATTAATTTA
12719117 TATTTGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
AGTTATTTTTAATTAATTTA
Found at i:12719119 original size:15 final size:15
Alignment explanation
Indices: 12719099--12719149 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
12719089 TTAATTTAAG
12719099 TTATATTTTAATTAT
1 TTATATTTTAATTAT
* *
12719114 TTATATTTGAAATA-
1 TTATATTTTAATTAT
*
12719128 TTATATTTTAGTTAT
1 TTATATTTTAATTAT
*
12719143 TTGTATT
1 TTATATT
12719150 AATATATTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:12719143 original size:14 final size:14
Alignment explanation
Indices: 12719099--12719143 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
12719089 TTAATTTAAG
12719099 TTATATTTTAATTA
1 TTATATTTTAATTA
* *
12719113 TTTATATTTGAAATA
1 -TTATATTTTAATTA
*
12719128 TTATATTTTAGTTA
1 TTATATTTTAATTA
12719142 TT
1 TT
12719144 TGTATTAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (14 bp):
TTATATTTTAATTA
Found at i:12722756 original size:2 final size:2
Alignment explanation
Indices: 12722749--12722775 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12722739 ATATGGGAAA
12722749 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12722776 AACGATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12723433 original size:39 final size:38
Alignment explanation
Indices: 12723342--12723491 Score: 183
Period size: 39 Copynumber: 3.9 Consensus size: 38
12723332 ATTCCACTCC
* * * * *
12723342 CCCCATGCTACTTTGTTTTATTATTAATCAAAACCACT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
* ** *
12723380 CCCCGTGTTATTTTGTTTTATTGTTAATTAAAACTATTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTA-TT
*
12723419 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTA-TT
*
12723458 CCTCATACTATTTTGTTTTATTATTAATTAAAAC
1 CCCCATACTATTTTGTTTTATTATTAATTAAAAC
12723492 CATACTTTAT
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
38 30 0.31
39 68 0.69
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (38 bp):
CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
Found at i:12724017 original size:5 final size:6
Alignment explanation
Indices: 12724002--12724027 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12723992 AAAGAAGATC
12724002 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
12724028 GGACAAACAC
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:12724784 original size:45 final size:45
Alignment explanation
Indices: 12724720--12724805 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
12724710 CGATATCTGC
* *
12724720 TATCTTTGATCTGCCCCCCGTCTACTACAGAGACGCCAAATCTAT
1 TATCTTCGATCTGCCCCCCGTCTAATACAGAGACGCCAAATCTAT
*
12724765 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
1 TATCTTCGATCTGCCCCCCGTCTAATACAGAGACGCCAAAT
12724806 TTGCTTCTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.28
Consensus pattern (45 bp):
TATCTTCGATCTGCCCCCCGTCTAATACAGAGACGCCAAATCTAT
Found at i:12725328 original size:210 final size:210
Alignment explanation
Indices: 12724899--12726290 Score: 2025
Period size: 210 Copynumber: 6.7 Consensus size: 210
12724889 AAATCTGCTT
* * * * * *
12724899 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * ** * **
12724964 GTGAAAGCCAAATCAACTATGA--TTCGATTTGCTCCTTGTAAGCATA-AG-GATGCCAA-A-C-
66 GTGAAAGCCAAATCAGCTAT-ATCTTCGATCTGCTCCCTG-CCGAATACAGAGA-GATAAGATCT
* * ** *
12725022 --CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATATGTCTG-CTCTCCA
128 GTCATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCT-TCCA
*
12725084 TCAAAGT-GAAGATGCCAAA
192 TCAAAGTGGAA-ATGCCAGA
* * *
12725103 CTTTGATTCGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
12725168 GTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCCTGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
* * *
12725233 ATCTTGGATCTGCTTCAGCGTAAACATCTGAGGGTAAGATCTGCTATGTGTCTGTCTTCCATCAA
131 ATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
12725298 AGTGGAAATGCCAGA
196 AGTGGAAATGCCAGA
*
12725313 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGAAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
12725378 GTGAAAGCCAAATCAGTTATATCTTCGATCTACTCCCTGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
* *
12725443 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCTATCAA
131 ATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
12725508 AGTGGAAATGCCAGA
196 AGTGGAAATGCCAGA
*
12725523 CTTCGATTTGTTCTTTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
12725588 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCTTGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
* * *
12725653 ATCTTGGATCTACTTCAGCATAAACATCTGAAGGTAAAATCTGCTATGTGTCTACCTTCCATCAA
131 ATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
*
12725718 AGTAGAAATGCCAGA
196 AGTGGAAATGCCAGA
12725733 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
12725798 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAAAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
* *
12725863 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTACTATGTGTCTGCCTTCCATCAA
131 ATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
12725928 AGTGGAAATGCCAGA
196 AGTGGAAATGCCAGA
* *
12725943 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * ** *
12726008 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTG-TAAACACA-AGA-ATGCCAA-A-C-
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGAT---AAGATCT
* *
12726067 --CATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTCAGATCTGCTATGTGTCTG-CTCTCCA
128 GTCATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCT-TCCA
*
12726129 TCAAAGT-GAAGATGCCAAA
192 TCAAAGTGGAA-ATGCCAGA
*
12726148 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * *
12726213 GTGAAAGCCAAATCAACTATATCTTCGATATGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
*
12726278 ATCTTAGATCTGC
131 ATCTTGGATCTGC
12726291 CTCGATAAAG
Statistics
Matches: 1082, Mismatches: 82, Indels: 42
0.90 0.07 0.03
Matches are distributed among these distances:
203 1 0.00
204 86 0.08
205 184 0.17
206 9 0.01
207 7 0.01
208 6 0.01
209 6 0.01
210 778 0.72
211 5 0.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (210 bp):
CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
ATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
AGTGGAAATGCCAGA
Found at i:12734312 original size:13 final size:15
Alignment explanation
Indices: 12734282--12734312 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12734272 TTTCCAGATT
12734282 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
12734297 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
12734312 T
1 T
12734313 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:12734397 original size:15 final size:14
Alignment explanation
Indices: 12734355--12734404 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
12734345 ATAACCTTGA
*
12734355 ATGCAAATGATGTG
1 ATGCAAATGATGAG
12734369 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
12734384 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
12734398 ATGCAAA
1 ATGCAAA
12734405 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:12738234 original size:2 final size:2
Alignment explanation
Indices: 12738227--12738255 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12738217 ATATTAAAAG
12738227 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12738256 AAATGTATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12738889 original size:39 final size:38
Alignment explanation
Indices: 12738796--12738945 Score: 192
Period size: 39 Copynumber: 3.9 Consensus size: 38
12738786 ATTCCACTCC
* * * * *
12738796 CCCCATTCTACTTTGTTTTATTATTAATCAAAACCACT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
* * *
12738834 GCCCATGCTATTTTGTTTTATTGTTAATTAAAACTATTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTA-TT
*
12738873 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTA-TT
*
12738912 CCTCATACTATTTTGTTTTATTATTAATTAAAAC
1 CCCCATACTATTTTGTTTTATTATTAATTAAAAC
12738946 CATACTTTGT
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 30 0.30
39 69 0.70
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.48
Consensus pattern (38 bp):
CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
Found at i:12738889 original size:77 final size:78
Alignment explanation
Indices: 12738796--12738945 Score: 221
Period size: 77 Copynumber: 1.9 Consensus size: 78
12738786 ATTCCACTCC
* * *
12738796 CCCCATTCTACTTTGTTTTATTATTAATCAAAACCACTGCC-CATGCTATTTTGTTTTATTGTTA
1 CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTGCCTCATACTATTTTGTTTTATTATTA
12738860 ATTAAAACTATTT
66 ATTAAAACTATTT
* * * * *
12738873 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTTCCTCATACTATTTTGTTTTATTATTA
1 CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTGCCTCATACTATTTTGTTTTATTATTA
12738938 ATTAAAAC
66 ATTAAAAC
12738946 CATACTTTGT
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
77 35 0.55
78 29 0.45
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.48
Consensus pattern (78 bp):
CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTGCCTCATACTATTTTGTTTTATTATTA
ATTAAAACTATTT
Found at i:12740811 original size:27 final size:26
Alignment explanation
Indices: 12740763--12740856 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
12740753 AAAGTAAACA
*
12740763 ATAAAACAATTTAAAATGAATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
**
12740789 ATAAAACAAGTTTAAAATAAATAATGT
1 ATAAAACAA-TTTAAAATAAATAATAC
* * **
12740816 ATAAAGCATTTTAAAATTTATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
* * *
12740842 ACAAAGCAAATTAAA
1 ATAAAACAATTTAAA
12740857 GAATGACATA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 34 0.62
27 21 0.38
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (26 bp):
ATAAAACAATTTAAAATAAATAATAC
Found at i:12740893 original size:26 final size:27
Alignment explanation
Indices: 12740864--12740919 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
12740854 AAAGAATGAC
* *
12740864 ATATATGAA-TAATTTTAAAATAAATA
1 ATATATAAATTAATTTAAAAATAAATA
*
12740890 ATATATAAATTAATTTAAAAATAATTA
1 ATATATAAATTAATTTAAAAATAAATA
12740917 ATA
1 ATA
12740920 AGAAGTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
ATATATAAATTAATTTAAAAATAAATA
Found at i:12741051 original size:17 final size:17
Alignment explanation
Indices: 12741029--12741068 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12741019 TGAAACATAT
*
12741029 AATATACAATAACTTAA
1 AATATAAAATAACTTAA
* *
12741046 AATATAAAATAATTTGA
1 AATATAAAATAACTTAA
12741063 AATATA
1 AATATA
12741069 TATATAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (17 bp):
AATATAAAATAACTTAA
Found at i:12742821 original size:16 final size:16
Alignment explanation
Indices: 12742800--12742830 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12742790 CTGCATCATA
12742800 CATGGAATTTGGAATG
1 CATGGAATTTGGAATG
12742816 CATGGAATTTGGAAT
1 CATGGAATTTGGAAT
12742831 CCAAGTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (16 bp):
CATGGAATTTGGAATG
Found at i:12745953 original size:21 final size:21
Alignment explanation
Indices: 12745911--12746087 Score: 66
Period size: 21 Copynumber: 8.2 Consensus size: 21
12745901 ATATATTATT
12745911 AATATATATAAAAATCATAATTTAA
1 AATAT-TAT-AAAAT-A-AATTTAA
*
12745936 AATATTATAAAATAAATTAAA
1 AATATTATAAAATAAATTTAA
*
12745957 TAATA-TATAAAAT-ATTTTAA
1 -AATATTATAAAATAAATTTAA
*
12745977 AACTAATA-ACAAATTTGAAAGTTTAA
1 AA-TATTATA-AAA--T-AAA-TTTAA
* **
12746003 AATATT-T-AAAT-ATTTTCT
1 AATATTATAAAATAAATTTAA
* * *
12746021 ATTATTAAAAAATATATTTAA
1 AATATTATAAAATAAATTTAA
*
12746042 TAT-TTA-AAAATAATATTTAA
1 AATATTATAAAATAA-ATTTAA
* *
12746062 AATTTTA-AAAATTAATTTTAA
1 AATATTATAAAA-TAAATTTAA
12746083 AATAT
1 AATAT
12746088 ATATTTAAAA
Statistics
Matches: 116, Mismatches: 20, Indels: 36
0.67 0.12 0.21
Matches are distributed among these distances:
18 8 0.07
19 9 0.08
20 23 0.20
21 40 0.34
22 8 0.07
23 9 0.08
24 3 0.03
25 9 0.08
26 7 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (21 bp):
AATATTATAAAATAAATTTAA
Found at i:12746035 original size:20 final size:19
Alignment explanation
Indices: 12746023--12746112 Score: 62
Period size: 19 Copynumber: 4.8 Consensus size: 19
12746013 TATTTTCTAT
12746023 TATTAAAAAATATATTTAA
1 TATTAAAAAATATATTTAA
*
12746042 TATTTAAAAATAATATTTAA
1 TATTAAAAAAT-ATATTTAA
* **
12746062 AATT-TTAAA-A-A-TTAA
1 TATTAAAAAATATATTTAA
* *
12746077 TTTTAAAATATATATTTAA
1 TATTAAAAAATATATTTAA
*
12746096 AATTTAGAAAAATATAT
1 TA-TTA-AAAAATATAT
12746113 ATATTAATAA
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
15 6 0.12
16 3 0.06
17 2 0.04
18 1 0.02
19 17 0.33
20 14 0.27
21 9 0.17
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (19 bp):
TATTAAAAAATATATTTAA
Found at i:12746045 original size:22 final size:22
Alignment explanation
Indices: 12746011--12746082 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
12746001 AAAATATTTA
**
12746011 AATATTTTCTATTATTAAAAAAT
1 AATATTTAATATT-TTAAAAAAT
12746034 -ATATTTAATA-TTT-AAAAAT
1 AATATTTAATATTTTAAAAAAT
* *
12746053 AATATTTAAAATTTTAAAAATT
1 AATATTTAATATTTTAAAAAAT
12746075 AAT-TTTAA
1 AATATTTAA
12746083 AATATATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 6 0.14
20 11 0.26
21 9 0.21
22 16 0.38
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATTTAATATTTTAAAAAAT
Found at i:12746055 original size:13 final size:13
Alignment explanation
Indices: 12746039--12746097 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
12746029 AAAATATATT
12746039 TAATATTTAAAAA
1 TAATATTTAAAAA
12746052 TAATATTT---AA
1 TAATATTTAAAAA
12746062 -AAT-TTTAAAAA
1 TAATATTTAAAAA
12746073 TTAAT-TTT-AAAA
1 -TAATATTTAAAAA
12746085 TATATATTTAAAA
1 TA-ATATTTAAAA
12746098 TTTAGAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 2 0.05
11 4 0.11
12 6 0.16
13 17 0.45
14 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:12746092 original size:34 final size:35
Alignment explanation
Indices: 12746038--12746127 Score: 103
Period size: 34 Copynumber: 2.5 Consensus size: 35
12746028 AAAAATATAT
*
12746038 TTAATATTTAAAA-ATAATATTTAAAATTT-TAAAAA
1 TTAAT-TTTAAAATAT-ATATTTAAAATTTAGAAAAA
12746073 TTAATTTTAAAATATATATTTAAAATTTAGAAAAA
1 TTAATTTTAAAATATATATTTAAAATTTAGAAAAA
*
12746108 TATATATATTAATAATATAT
1 T-TA-ATTTTAA-AATATAT
12746128 TCTAAATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
34 20 0.42
35 13 0.27
36 2 0.04
37 6 0.12
38 7 0.15
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (35 bp):
TTAATTTTAAAATATATATTTAAAATTTAGAAAAA
Found at i:12746169 original size:9 final size:9
Alignment explanation
Indices: 12746155--12746218 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
12746145 TAATAATAAT
12746155 AAATAAATA
1 AAATAAATA
12746164 AAATAAATA
1 AAATAAATA
12746173 AAA-AAATA
1 AAATAAATA
12746181 AACATAAA-A
1 AA-ATAAATA
*
12746190 AAGTCAAAT-
1 AAAT-AAATA
12746199 AAATAAA-A
1 AAATAAATA
12746207 AAAGTAAA-A
1 AAA-TAAATA
12746216 AAA
1 AAA
12746219 AAAGAAAACT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
8 14 0.30
9 30 0.64
10 3 0.06
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (9 bp):
AAATAAATA
Found at i:12746170 original size:13 final size:12
Alignment explanation
Indices: 12746152--12746218 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 12
12746142 AGTTAATAAT
12746152 AATAAATAAATAA
1 AATAAATAAA-AA
12746165 AATAAATAAAAA
1 AATAAATAAAAA
12746177 AATAAACATAAAAA
1 AAT-AA-ATAAAAA
*
12746191 AGTCAAATAAATAA
1 AAT-AAATAAA-AA
12746205 AA-AAAGTAAAAA
1 AATAAA-TAAAAA
12746217 AA
1 AA
12746219 AAAGAAAACT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
12 12 0.26
13 21 0.45
14 14 0.30
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:12746181 original size:31 final size:31
Alignment explanation
Indices: 12746153--12746226 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
12746143 GTTAATAATA
12746153 ATAAATAAA-TAAAATAAATAAAAAAATAAAC
1 ATAAA-AAAGTAAAATAAATAAAAAAATAAAC
*
12746184 ATAAAAAAGTCAAATAAATAAAAAAAGTAAA-
1 ATAAAAAAGTAAAATAAATAAAAAAA-TAAAC
12746215 A-AAAAAAG-AAAA
1 ATAAAAAAGTAAAA
12746227 CTGATATGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 3 0.08
30 10 0.26
31 22 0.56
32 4 0.10
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (31 bp):
ATAAAAAAGTAAAATAAATAAAAAAATAAAC
Found at i:12746226 original size:17 final size:18
Alignment explanation
Indices: 12746176--12746226 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
12746166 ATAAATAAAA
*
12746176 AAATAAACATAAAAAAGTC
1 AAATAAA-AAAAAAAAGTC
*
12746195 AAATAAATAAAAAAAGT-
1 AAATAAAAAAAAAAAGTC
12746212 AAA-AAAAAAAGAAAA
1 AAATAAAAAAA-AAAA
12746227 CTGATATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 6 0.21
17 7 0.25
18 8 0.29
19 7 0.25
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (18 bp):
AAATAAAAAAAAAAAGTC
Found at i:12748167 original size:19 final size:19
Alignment explanation
Indices: 12748143--12748199 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
12748133 GTTTAATTAA
12748143 TATAAATAAATAGCTTAG-
1 TATAAATAAATAGCTTAGT
*
12748161 T-T--ATAAAT---TTAAT
1 TATAAATAAATAGCTTAGT
12748174 TATAAATAAATAGCTTAGT
1 TATAAATAAATAGCTTAGT
12748193 TATAAAT
1 TATAAAT
12748200 TTAATTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 13
0.67 0.04 0.29
Matches are distributed among these distances:
12 3 0.10
13 1 0.03
14 1 0.03
15 6 0.20
16 6 0.20
17 1 0.03
18 1 0.03
19 11 0.37
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (19 bp):
TATAAATAAATAGCTTAGT
Found at i:12748181 original size:31 final size:31
Alignment explanation
Indices: 12748139--12748207 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
12748129 GTTTGTTTAA
12748139 TTAA-TATAAATAAATAGCTTAGTTATAAAT
1 TTAATTATAAATAAATAGCTTAGTTATAAAT
12748169 TTAATTATAAATAAATAGCTTAGTTATAAAT
1 TTAATTATAAATAAATAGCTTAGTTATAAAT
12748200 TTAATTAT
1 TTAATTAT
12748208 GTTAAATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 34 0.89
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (31 bp):
TTAATTATAAATAAATAGCTTAGTTATAAAT
Found at i:12748232 original size:5 final size:5
Alignment explanation
Indices: 12748203--12748253 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
12748193 TATAAATTTA
* * * *
12748203 ATTAT GTTAA ATTAT AATA- ATTAT ATTAT AATTAT ATTAT AATAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT -ATTAT ATTAT ATTAT ATTAT
12748253 A
1 A
12748254 AAATAAATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
4 3 0.08
5 28 0.78
6 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (5 bp):
ATTAT
Found at i:12748235 original size:11 final size:11
Alignment explanation
Indices: 12748201--12748254 Score: 71
Period size: 10 Copynumber: 5.3 Consensus size: 11
12748191 GTTATAAATT
*
12748201 TAATTATGTTA
1 TAATTATATTA
12748212 -AATTATA--A
1 TAATTATATTA
12748220 TAATTATATTA
1 TAATTATATTA
12748231 TAATTATATTA
1 TAATTATATTA
12748242 TAA-TATATTA
1 TAATTATATTA
12748252 TAA
1 TAA
12748255 AATAAATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
8 1 0.03
9 7 0.18
10 16 0.41
11 15 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (11 bp):
TAATTATATTA
Found at i:12749558 original size:23 final size:21
Alignment explanation
Indices: 12749532--12749581 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
12749522 AGGCACTTTA
12749532 TGTGTCATATTTCAGGCACCTCG
1 TGTGTCATA--TCAGGCACCTCG
*
12749555 TGTGTCGTATCAGGCACCTCG
1 TGTGTCATATCAGGCACCTCG
*
12749576 TATGTC
1 TGTGTC
12749582 GTTTCAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.68
23 8 0.32
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (21 bp):
TGTGTCATATCAGGCACCTCG
Found at i:12749567 original size:21 final size:21
Alignment explanation
Indices: 12749543--12749592 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
12749533 GTGTCATATT
*
12749543 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTATGTCGTA
*
12749564 TCAGGCACCTCGTATGTCGTT
1 TCAGGCACCTCGTATGTCGTA
*
12749585 TCAAGCAC
1 TCAGGCAC
12749593 TTATGTGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.30, G:0.24, T:0.28
Consensus pattern (21 bp):
TCAGGCACCTCGTATGTCGTA
Found at i:12750198 original size:13 final size:15
Alignment explanation
Indices: 12750180--12750211 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12750170 TATGTGAAAT
12750180 AATGATT-TT-ATGA
1 AATGATTATTGATGA
12750193 AATGATTATTGATGA
1 AATGATTATTGATGA
12750208 AATG
1 AATG
12750212 CATGCAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (15 bp):
AATGATTATTGATGA
Found at i:12751245 original size:13 final size:11
Alignment explanation
Indices: 12751209--12751258 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
12751199 ATTTAATTAG
*
12751209 TTTATTATTAT
1 TTTATTAATAT
*
12751220 TTTAATAATAT
1 TTTATTAATAT
12751231 TTTATTTAGATAT
1 TTTA-TTA-ATAT
12751244 TTTATTAATAT
1 TTTATTAATAT
12751255 TTTA
1 TTTA
12751259 ATTATAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 21 0.62
12 5 0.15
13 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:12753653 original size:46 final size:46
Alignment explanation
Indices: 12753584--12753841 Score: 374
Period size: 46 Copynumber: 5.6 Consensus size: 46
12753574 GCCATAGTGC
* * ** * *
12753584 CTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCTTGGTAT
1 CTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTAT
* * ** **
12753630 ATTTCAACCATAGTCTTATTCATTTCATGA-CACATTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCAT-ATCATGTTGCCATGGTAT
*
12753676 CTTTCAACTATGGTCTTACACATTTCATATCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTAT
*
12753722 CTTTCAACCATGGTCTTACACATTTCATATCATGTTGTCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTAT
12753768 CTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTAT
12753814 CTTTCAACCATGGTCTTACACATTTCAT
1 CTTTCAACCATGGTCTTACACATTTCAT
12753842 TTCAGAAAGC
Statistics
Matches: 190, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 189 0.99
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.42
Consensus pattern (46 bp):
CTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTAT
Found at i:12753747 original size:21 final size:21
Alignment explanation
Indices: 12753723--12753794 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
12753713 CCATGGTATC
12753723 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* *
12753744 TTTCATATCATGTTGTCATGGTA-TC-
1 TTTCA-ACCATG--GTC-T--TACACA
12753769 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
12753790 TTTCA
1 TTTCA
12753795 TATCATGTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 11 0.28
22 8 0.21
24 8 0.21
25 6 0.15
26 1 0.03
27 2 0.05
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:12758822 original size:11 final size:11
Alignment explanation
Indices: 12758806--12758847 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
12758796 CTTCGAGGCC
12758806 TTAGAAACACT
1 TTAGAAACACT
12758817 TTAGAAACACT
1 TTAGAAACACT
12758828 TTAGAAACACT
1 TTAGAAACACT
*
12758839 TTATAAACA
1 TTAGAAACA
12758848 AATTGAGACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.29
Consensus pattern (11 bp):
TTAGAAACACT
Found at i:12759088 original size:12 final size:12
Alignment explanation
Indices: 12759071--12759100 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12759061 GGCCTCACGC
12759071 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
12759083 CCGTGTGCTAGG
1 CCGTGTGCCAGG
12759095 CCGTGT
1 CCGTGT
12759101 AACTACTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:12760614 original size:13 final size:14
Alignment explanation
Indices: 12760596--12760624 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
12760586 TTTGTTTCAG
12760596 ATTTTTTA-AGATT
1 ATTTTTTAGAGATT
12760609 ATTTTTTAGAGATT
1 ATTTTTTAGAGATT
12760623 AT
1 AT
12760625 GATTATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (14 bp):
ATTTTTTAGAGATT
Found at i:12765736 original size:30 final size:30
Alignment explanation
Indices: 12765687--12765766 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
12765677 CACCTGTTAG
* * *
12765687 TTCACCGCCTCCATCATCACAACCTTCCCC-
1 TTCAACGCCACCACCATCACAACC-TCCCCT
12765717 TTCAACGCCACCACCATCACAACCTCCCCT
1 TTCAACGCCACCACCATCACAACCTCCCCT
12765747 TTCAACGCCACCACCATCAC
1 TTCAACGCCACCACCATCAC
12765767 GATCTCCACC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 5 0.11
30 41 0.89
ACGTcount: A:0.25, C:0.53, G:0.04, T:0.19
Consensus pattern (30 bp):
TTCAACGCCACCACCATCACAACCTCCCCT
Found at i:12765824 original size:36 final size:36
Alignment explanation
Indices: 12765752--12765824 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
12765742 CCCCTTTCAA
* * *
12765752 CGCCACCACCATCACGATCTCCACCACCAAATCCAC
1 CGCCACCACCATCACAAACTCCACCAACAAATCCAC
*
12765788 CGCCACCACCATCACAAACTCCGCCAACAGAA-CCAC
1 CGCCACCACCATCACAAACTCCACCAACA-AATCCAC
12765824 C
1 C
12765825 AAATTCCCGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 30 0.94
37 2 0.06
ACGTcount: A:0.33, C:0.52, G:0.07, T:0.08
Consensus pattern (36 bp):
CGCCACCACCATCACAAACTCCACCAACAAATCCAC
Found at i:12767940 original size:15 final size:16
Alignment explanation
Indices: 12767910--12767943 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
12767900 GAGGTAGATT
12767910 AACCAAAAGAAAAAAG
1 AACCAAAAGAAAAAAG
*
12767926 AACCAAAA-TAAAAAG
1 AACCAAAAGAAAAAAG
12767941 AAC
1 AAC
12767944 AAGGAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.74, C:0.15, G:0.09, T:0.03
Consensus pattern (16 bp):
AACCAAAAGAAAAAAG
Found at i:12772453 original size:3 final size:3
Alignment explanation
Indices: 12772447--12772486 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
12772437 AGAAGAAGAA
* *
12772447 GAG GAG GAG GAG GAG GAG GAG GAG GA- GAA GAA GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
12772487 AAAATAGAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:12775982 original size:15 final size:15
Alignment explanation
Indices: 12775962--12775991 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12775952 GAGTATGATA
12775962 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
*
12775977 AAATATTTAAAAAAT
1 AAATATTAAAAAAAT
12775992 TACTAATAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:12777196 original size:29 final size:29
Alignment explanation
Indices: 12777128--12777197 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
12777118 TTGGATTTTT
* ** *
12777128 TGACCCATTCT-AGTAAATAAAGTTTTAAG
1 TGACCCATTTTCA-TAAATAAAGTTAGAAA
12777157 TGACCCATTTTCATAAATAAAGTTAGAAA
1 TGACCCATTTTCATAAATAAAGTTAGAAA
*
12777186 TGAACCCTTTTT
1 TG-ACCCATTTT
12777198 TTTAGTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 25 0.74
30 9 0.26
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (29 bp):
TGACCCATTTTCATAAATAAAGTTAGAAA
Found at i:12789938 original size:22 final size:23
Alignment explanation
Indices: 12789913--12789955 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
12789903 TAATAAATAA
12789913 AATT-TAAATAAT-AAAATTTTAT
1 AATTCTAAA-AATAAAAATTTTAT
*
12789935 AATTCTATAAATAAAAATTTT
1 AATTCTAAAAATAAAAATTTT
12789956 CATTTGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AATTCTAAAAATAAAAATTTTAT
Found at i:12790429 original size:37 final size:36
Alignment explanation
Indices: 12790349--12790434 Score: 84
Period size: 37 Copynumber: 2.3 Consensus size: 36
12790339 ACATTTAATT
* *
12790349 ATTTTTTTAAATTTAAAAATTCAATAAATTATATAA
1 ATTTTTTAAAAGTTAAAAATTCAATAAATTATATAA
* * *
12790385 CTATTTTTAAAAGTTAAAAA-TCATTAAAATTATTTTAA
1 AT-TTTTTAAAAGTTAAAAATTCAAT-AAATTA-TATAA
12790423 ATTTTTTTAAAA
1 A-TTTTTTAAAA
12790435 TTTTAAGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
36 5 0.12
37 21 0.52
38 13 0.32
39 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (36 bp):
ATTTTTTAAAAGTTAAAAATTCAATAAATTATATAA
Found at i:12791555 original size:4 final size:4
Alignment explanation
Indices: 12791548--12791576 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
12791538 TAGTTATTGC
12791548 AATT AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT AATT A
12791577 TCAAACACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:12805545 original size:13 final size:13
Alignment explanation
Indices: 12805527--12805556 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
12805517 CTCGAACAGA
12805527 ACCTGGCATGAAC
1 ACCTGGCATGAAC
12805540 ACCTGGCATGAAC
1 ACCTGGCATGAAC
12805553 ACCT
1 ACCT
12805557 TTAGTCAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (13 bp):
ACCTGGCATGAAC
Found at i:12816146 original size:22 final size:20
Alignment explanation
Indices: 12816120--12816164 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
12816110 TCACCTGTTC
*
12816120 TTCTCTGTTTCGTCTCTTTACT
1 TTCTCTGTTTC-TATCTTTA-T
*
12816142 TTCTCTTTTTCTATCTTTAT
1 TTCTCTGTTTCTATCTTTAT
12816162 TTC
1 TTC
12816165 ATTTATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 7 0.33
22 10 0.48
ACGTcount: A:0.07, C:0.24, G:0.04, T:0.64
Consensus pattern (20 bp):
TTCTCTGTTTCTATCTTTAT
Found at i:12816160 original size:21 final size:21
Alignment explanation
Indices: 12816098--12816164 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
12816088 TTTCTTTTTT
*
12816098 TTTCTCTTTTTCTCACCTGTT-C
1 TTTCTCTTTTTCT-ATCT-TTAC
* *
12816120 -TTCTCTGTTTCGTCTCTTTAC
1 TTTCTCTTTTTC-TATCTTTAC
12816141 TTTCTCTTTTTCTATCTTTA-
1 TTTCTCTTTTTCTATCTTTAC
12816161 TTTC
1 TTTC
12816165 ATTTATTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 6 0.16
21 20 0.54
22 11 0.30
ACGTcount: A:0.06, C:0.27, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTCTCTTTTTCTATCTTTAC
Found at i:12816193 original size:17 final size:16
Alignment explanation
Indices: 12816157--12816195 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
12816147 TTTTTCTATC
12816157 TTTATTTCATTTATTA
1 TTTATTTCATTTATTA
* *
12816173 TTTATTTTATGTTATTT
1 TTTATTTCAT-TTATTA
12816190 TTTATT
1 TTTATT
12816196 ATATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTATTTCATTTATTA
Found at i:12816213 original size:25 final size:24
Alignment explanation
Indices: 12816166--12816215 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
12816156 CTTTATTTCA
*
12816166 TTTATTATTTATTTTATGTTATTT
1 TTTATTATTTATTATATGTTATTT
12816190 TTTATTATATTATTATAT-TATATTT
1 TTTATTAT-TTATTATATGT-TATTT
12816215 T
1 T
12816216 AGTAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTATTATTTATTATATGTTATTT
Found at i:12817269 original size:14 final size:14
Alignment explanation
Indices: 12817245--12817283 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
12817235 TTAAAAAAGT
*
12817245 AAATCAATTTCTAA
1 AAATCATTTTCTAA
* *
12817259 AAATTATTTTCTGA
1 AAATCATTTTCTAA
12817273 AAATCATTTTC
1 AAATCATTTTC
12817284 AATCAAACAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.44
Consensus pattern (14 bp):
AAATCATTTTCTAA
Found at i:12817940 original size:2 final size:2
Alignment explanation
Indices: 12817933--12817967 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12817923 TCCAACACTC
12817933 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12817968 AAATAATCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12821925 original size:23 final size:24
Alignment explanation
Indices: 12821876--12821926 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
12821866 TTCTTTTTAG
* *
12821876 AAACATTATAGCTAATTATTCTCA
1 AAACATTATAACTAATTATTCTAA
*
12821900 AAACATTATAACT-ATTATTGTAA
1 AAACATTATAACTAATTATTCTAA
12821923 AAAC
1 AAAC
12821927 GATACCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (24 bp):
AAACATTATAACTAATTATTCTAA
Found at i:12824041 original size:30 final size:30
Alignment explanation
Indices: 12824005--12824103 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
12823995 CTAGCCTTTG
12824005 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
12824035 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
12824065 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
12824095 CCACCACCA
1 CCACCACCA
12824104 CTTGTACCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:12824619 original size:23 final size:23
Alignment explanation
Indices: 12824582--12824705 Score: 83
Period size: 23 Copynumber: 5.3 Consensus size: 23
12824572 TTTTTTTTGT
*
12824582 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
12824605 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
12824627 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
12824650 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATACTA
* *
12824675 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
12824700 TATTAT
1 TATTAT
12824706 TTAGATATAT
Statistics
Matches: 77, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
22 17 0.22
23 27 0.35
24 6 0.08
25 25 0.32
26 2 0.03
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:12824687 original size:27 final size:27
Alignment explanation
Indices: 12824647--12824720 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 27
12824637 ATTCTAAATT
*
12824647 CTATATTACGTATATATATAT-T-ATA
1 CTATATTATGTATATATATATATAATA
* *
12824672 CTATTTTATGTATATATCT-T-TAATA
1 CTATATTATGTATATATATATATAATA
* *
12824697 CTATATTATTTAGATATATATATA
1 CTATATTATGTATATATATATATA
12824721 TTTACATGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 2 0.05
25 34 0.87
26 1 0.03
27 2 0.05
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (27 bp):
CTATATTATGTATATATATATATAATA
Found at i:12824701 original size:16 final size:16
Alignment explanation
Indices: 12824682--12824724 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
12824672 CTATTTTATG
*
12824682 TATATATCTTTA-ATA
1 TATATATATTTAGATA
12824697 CTATAT-TATTTAGATA
1 -TATATATATTTAGATA
12824713 TATATATATTTA
1 TATATATATTTA
12824725 CATGTTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (16 bp):
TATATATATTTAGATA
Found at i:12824754 original size:22 final size:23
Alignment explanation
Indices: 12824713--12824794 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 23
12824703 TATTTAGATA
*
12824713 TATATATATTTACATGTTATCTTATG
1 TATATAT-TTTACA--TTATATTATG
12824739 TATATATTTTA-ATTATATTATG
1 TATATATTTTACATTATATTATG
* *
12824761 TATGTATTTTTACACTATATTATG
1 TATATA-TTTTACATTATATTATG
*
12824785 TACATATTTT
1 TATATATTTT
12824795 TAATATTATC
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
22 14 0.29
23 9 0.18
24 15 0.31
25 4 0.08
26 7 0.14
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (23 bp):
TATATATTTTACATTATATTATG
Found at i:12824785 original size:24 final size:23
Alignment explanation
Indices: 12824735--12824835 Score: 88
Period size: 23 Copynumber: 4.6 Consensus size: 23
12824725 CATGTTATCT
*
12824735 TATGTATATA-TTTTAATTATAT
1 TATGTATATATTTTTAACTATAT
*
12824757 TATGTATGTATTTTTACACTATAT
1 TATGTATATATTTTTA-ACTATAT
*
12824781 TATGTACATATTTTTAA-TATTAT
1 TATGTATATATTTTTAACTA-TAT
* * *
12824804 CACGTATTTATTTTT---TATA-
1 TATGTATATATTTTTAACTATAT
12824823 TATGTATATATTT
1 TATGTATATATTT
12824836 ATGTAGTATT
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 10 0.15
20 2 0.03
21 2 0.03
22 11 0.17
23 20 0.31
24 20 0.31
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (23 bp):
TATGTATATATTTTTAACTATAT
Found at i:12824973 original size:16 final size:15
Alignment explanation
Indices: 12824949--12824983 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
12824939 TAATTATTAT
12824949 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
12824965 TATTTTAATATTTTA
1 TATTCTAATATTTTA
12824980 TATT
1 TATT
12824984 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:12828956 original size:15 final size:15
Alignment explanation
Indices: 12828936--12828974 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
12828926 TATGTATATA
*
12828936 ATATAATATGAAAAT
1 ATATAATATGAAAAC
*
12828951 ATATAATATTAAAAC
1 ATATAATATGAAAAC
12828966 ATAATAATA
1 AT-ATAATA
12828975 CGATATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATAATATGAAAAC
Found at i:12828996 original size:21 final size:20
Alignment explanation
Indices: 12828956--12829000 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
12828946 AAAATATATA
12828956 ATATTAAAACATAATAATAC
1 ATATTAAAACATAATAATAC
*
12828976 GATATTAAAA-ATATATGATAC
1 -ATATTAAAACATA-ATAATAC
12828997 ATAT
1 ATAT
12829001 AAAGTATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (20 bp):
ATATTAAAACATAATAATAC
Found at i:12829188 original size:3 final size:3
Alignment explanation
Indices: 12829174--12829292 Score: 130
Period size: 3 Copynumber: 38.7 Consensus size: 3
12829164 AAACATAAAC
12829174 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
12829220 TAA TAA TGA TAA TAA TAA TAA TAA GAA CAA TAG TAA TAG TAA TAG TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
12829268 TAA TAT TATA TAAA TAA TAA GAA TA
1 TAA TAA TA-A T-AA TAA TAA TAA TA
12829293 TTTAATAAGA
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
3 90 0.93
4 6 0.06
5 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:12831287 original size:54 final size:54
Alignment explanation
Indices: 12831196--12831403 Score: 292
Period size: 54 Copynumber: 3.8 Consensus size: 54
12831186 CATATGACCT
* * *
12831196 AAGGCTCAACTCACTTCTCGCAATATGGGTTGATTTTTGAAAAACAAAAATCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAA
* * *
12831250 AAGG-TACAACTCACCTCTTGCAATATGAGTTGCTTTTTGAAAAACAGAAATTAA
1 AAGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAA
* * *
12831304 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAAAAATTAA
*
12831360 AAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
12831404 ACAGGAATTG
Statistics
Matches: 138, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 86 0.62
55 1 0.01
56 50 0.36
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAA
Found at i:12831387 original size:110 final size:109
Alignment explanation
Indices: 12831196--12831412 Score: 303
Period size: 110 Copynumber: 2.0 Consensus size: 109
12831186 CATATGACCT
* *
12831196 AAGGCTCAACTCACTTCTCGCAATATGGGTTGATTTTTGAAAAACAAAAATCAAAAGGTACAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATCAAAAGGTACAACT
* *
12831261 CACCTCTTGCAATATGAGTTGCTTTTTG-AAAAACAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTAA
* * **
12831304 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAGGCT-CA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAAAAATCAAAAGG-TACA
* *
12831368 ACTTACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGGAATT
63 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATT
12831413 GGAAAGTAGA
Statistics
Matches: 95, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
108 31 0.33
110 51 0.54
111 13 0.14
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.30
Consensus pattern (109 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATCAAAAGGTACAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTAA
Found at i:12831744 original size:172 final size:170
Alignment explanation
Indices: 12831420--12831821 Score: 519
Period size: 172 Copynumber: 2.4 Consensus size: 170
12831410 ATTGGAAAGT
12831420 AGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
*
12831485 TGAAACATAATTGAAATTACCTTAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
66 TGAAACATAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
12831550 ATTTTGGAAAAGTAAAAATTAAAGACAGGATTTGAACAAG
131 ATTTTGGAAAAGCAAAAATTAAAGACAGGATTTGAACAAG
* *
12831590 AGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCA-CTTCTCGCAATATGAGTTGATTT
1 AGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATC-TCTCGCAATATGAGTTGA--T
*
12831654 TTTTGAAGCATAAATTGAAATTA-CTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
63 TTTTGAAACAT-AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* **
12831718 GTTGATTTTCTGAAAA-CATGAATTAAA-A-A--A---G--CAA-
127 GTTGATTTT-GGAAAAGCAAAAATTAAAGACAGGATTTGAACAAG
* * * * *
12831752 A-AAA-TGAAAATACCTCGGCATGCGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AGAAATTGAAAATACCTCAGCGTGC--CCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATT
12831815 TTTGAAA
64 TTTGAAA
12831822 GCAGAAGTAC
Statistics
Matches: 211, Mismatches: 13, Indels: 26
0.84 0.05 0.10
Matches are distributed among these distances:
160 26 0.12
161 2 0.01
162 33 0.16
163 4 0.02
165 1 0.00
168 1 0.00
169 1 0.00
170 58 0.27
171 1 0.00
172 68 0.32
173 16 0.08
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (170 bp):
AGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
TGAAACATAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTGGAAAAGCAAAAATTAAAGACAGGATTTGAACAAG
Found at i:12839023 original size:14 final size:14
Alignment explanation
Indices: 12839004--12839210 Score: 209
Period size: 15 Copynumber: 13.5 Consensus size: 14
12838994 GGGAAGCAAA
12839004 AAAAAAATTCCAGC
1 AAAAAAATTCCAGC
12839018 AAAAAAAATTCCAGCAAC
1 -AAAAAAATTCCAG---C
12839036 AAAAAAAAATTTTTCCAGC
1 --AAAAAAA---TTCCAGC
12839055 AAAAAAATTCCAGCAAC
1 AAAAAAATTCCAG---C
12839072 AAAAAAATTTTCCAGC
1 AAAAAAA--TTCCAGC
12839088 AAAAAAATTCCAGC
1 AAAAAAATTCCAGC
12839102 AAAAAAATTTTCCAGC
1 AAAAAAA--TTCCAGC
12839118 -AAAAAATTCCAGC
1 AAAAAAATTCCAGC
12839131 AAAAAAATTTCCAGC
1 AAAAAAA-TTCCAGC
*
12839146 AAAAAAATTTCAGCC
1 AAAAAAATTCCAG-C
*
12839161 AAAAAAATTTCAGC
1 AAAAAAATTCCAGC
12839175 AAAGAAAATTCCAGC
1 AAA-AAAATTCCAGC
*
12839190 AAAAAATTTCCAGC
1 AAAAAAATTCCAGC
12839204 AAAAAAA
1 AAAAAAA
12839211 AACCAAAAAA
Statistics
Matches: 170, Mismatches: 4, Indels: 37
0.81 0.02 0.18
Matches are distributed among these distances:
13 7 0.04
14 51 0.30
15 60 0.35
16 15 0.09
17 15 0.09
18 1 0.01
19 15 0.09
22 6 0.04
ACGTcount: A:0.56, C:0.19, G:0.07, T:0.18
Consensus pattern (14 bp):
AAAAAAATTCCAGC
Found at i:12839023 original size:19 final size:19
Alignment explanation
Indices: 12839001--12839094 Score: 62
Period size: 19 Copynumber: 5.3 Consensus size: 19
12838991 GGGGGGAAGC
12839001 AAAAAAAAAATTCCAGC--
1 AAAAAAAAAATTCCAGCAA
12839018 --AAAAAAAATTCCAGCAA
1 AAAAAAAAAATTCCAGCAA
*
12839035 CAAAAAAAAATTTTTCCAGC--
1 -AAAAAAAAA--ATTCCAGCAA
12839055 ---AAAAAAATTCCAGCAA
1 AAAAAAAAAATTCCAGCAA
* **
12839071 CAAAAAAATTTTCCAGCAA
1 AAAAAAAAAATTCCAGCAA
12839090 AAAAA
1 AAAAA
12839095 TTCCAGCAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
14 7 0.12
15 15 0.25
16 6 0.10
19 18 0.30
20 7 0.12
22 7 0.12
ACGTcount: A:0.61, C:0.18, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAAAAAAAATTCCAGCAA
Found at i:12839121 original size:29 final size:29
Alignment explanation
Indices: 12839003--12839210 Score: 242
Period size: 29 Copynumber: 6.8 Consensus size: 29
12838993 GGGGAAGCAA
*
12839003 AAAAAAAATTCCAGCAAAAAAAATTCCAGCAAC
1 AAAAAAATTTCCAGC-AAAAAAATTCCAG---C
12839036 AAAAAAAAATTTTTCCAGCAAAAAAATTCCAGCAAC
1 --AAAAAAA--TTTCCAGCAAAAAAATTCCAG---C
12839072 AAAAAAATTTTCCAGCAAAAAAATTCCAGC
1 AAAAAAA-TTTCCAGCAAAAAAATTCCAGC
12839102 AAAAAAATTTTCCAGC-AAAAAATTCCAGC
1 AAAAAAA-TTTCCAGCAAAAAAATTCCAGC
*
12839131 AAAAAAATTTCCAGCAAAAAAATTTCAGCC
1 AAAAAAATTTCCAGCAAAAAAATTCCAG-C
12839161 AAAAAAATTT-CAGCAAAGAAAATTCCAGC
1 AAAAAAATTTCCAGCAAA-AAAATTCCAGC
12839190 -AAAAAATTTCCAGCAAAAAAA
1 AAAAAAATTTCCAGCAAAAAAA
12839211 AACCAAAAAA
Statistics
Matches: 164, Mismatches: 3, Indels: 19
0.88 0.02 0.10
Matches are distributed among these distances:
28 21 0.13
29 46 0.28
30 37 0.23
33 22 0.13
34 7 0.04
35 7 0.04
36 17 0.10
37 7 0.04
ACGTcount: A:0.56, C:0.19, G:0.07, T:0.18
Consensus pattern (29 bp):
AAAAAAATTTCCAGCAAAAAAATTCCAGC
Found at i:12840368 original size:16 final size:17
Alignment explanation
Indices: 12840325--12840369 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
12840315 AAATTTCAGG
12840325 TTTCAAAAATTTTCGTGT
1 TTTC-AAAATTTTCGTGT
12840343 TTTCAAAATTTTCGTGT
1 TTTCAAAATTTTCGTGT
12840360 TTT-AAAATTT
1 TTTCAAAATTT
12840370 CTCATTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 7 0.26
17 16 0.59
18 4 0.15
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (17 bp):
TTTCAAAATTTTCGTGT
Found at i:12841760 original size:12 final size:12
Alignment explanation
Indices: 12841740--12841775 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
12841730 ATTCATTTAA
12841740 CATTCATGCATT
1 CATTCATGCATT
*
12841752 CATTTATGCATT
1 CATTCATGCATT
*
12841764 CATTCATTCATT
1 CATTCATGCATT
12841776 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:12844808 original size:15 final size:14
Alignment explanation
Indices: 12844777--12844882 Score: 133
Period size: 15 Copynumber: 7.4 Consensus size: 14
12844767 GACACGTTGG
12844777 AAAAAATTCCAGC-
1 AAAAAATTCCAGCA
12844790 AAAAAATTCCAGCA
1 AAAAAATTCCAGCA
*
12844804 AAAAAATTTTCAGCA
1 AAAAAA-TTCCAGCA
12844819 AAAAAATTCCAGCCA
1 AAAAAATTCCAG-CA
*
12844834 AAAAAATTTCAGCA
1 AAAAAATTCCAGCA
*
12844848 AAGAAAATTCTAGCA
1 AA-AAAATTCCAGCA
* *
12844863 AAAAATTTTCAGCA
1 AAAAAATTCCAGCA
12844877 AAAAAA
1 AAAAAA
12844883 AAACCAAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
13 13 0.16
14 29 0.36
15 38 0.47
ACGTcount: A:0.57, C:0.17, G:0.08, T:0.19
Consensus pattern (14 bp):
AAAAAATTCCAGCA
Found at i:12844823 original size:29 final size:28
Alignment explanation
Indices: 12844777--12844882 Score: 151
Period size: 29 Copynumber: 3.7 Consensus size: 28
12844767 GACACGTTGG
*
12844777 AAAAAATTCCAGC-AAAAAATTCCAGCA
1 AAAAAATTTCAGCAAAAAAATTCCAGCA
12844804 AAAAAATTTTCAGCAAAAAAATTCCAGCCA
1 AAAAAA-TTTCAGCAAAAAAATTCCAG-CA
*
12844834 AAAAAATTTCAGCAAAGAAAATTCTAGCA
1 AAAAAATTTCAGCAAA-AAAATTCCAGCA
*
12844863 AAAAATTTTCAGCAAAAAAA
1 AAAAAATTTCAGCAAAAAAA
12844883 AAACCAAAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
27 6 0.08
28 10 0.14
29 39 0.54
30 17 0.24
ACGTcount: A:0.57, C:0.17, G:0.08, T:0.19
Consensus pattern (28 bp):
AAAAAATTTCAGCAAAAAAATTCCAGCA
Found at i:12844894 original size:29 final size:29
Alignment explanation
Indices: 12844790--12844894 Score: 97
Period size: 29 Copynumber: 3.6 Consensus size: 29
12844780 AAATTCCAGC
*
12844790 AAAAAATTCCAGCAAAAAAATTTTCAGC-A
1 AAAAAATTCCA-AAAAAAAATTTTCAGCAA
*
12844819 AAAAAATTCCAGCCAAAAAAA-TTTCAGCAA
1 AAAAAATTCCA--AAAAAAAATTTTCAGCAA
* * **
12844849 AGAAAATTCTAGCAAAAAATTTTCAGCAA
1 AAAAAATTCCAAAAAAAAATTTTCAGCAA
**
12844878 AAAAAAAACCAAAAAAA
1 AAAAAATTCCAAAAAAA
12844895 GGAACATTCA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 6 0.10
29 38 0.61
30 18 0.29
ACGTcount: A:0.60, C:0.16, G:0.07, T:0.17
Consensus pattern (29 bp):
AAAAAATTCCAAAAAAAAATTTTCAGCAA
Found at i:12846040 original size:16 final size:17
Alignment explanation
Indices: 12845997--12846041 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
12845987 AAATTTCAGG
12845997 TTTCAAAAATTTTCGTGT
1 TTTC-AAAATTTTCGTGT
12846015 TTTCAAAATTTTCGTGT
1 TTTCAAAATTTTCGTGT
12846032 TTT-AAAATTT
1 TTTCAAAATTT
12846042 CTCATTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 7 0.26
17 16 0.59
18 4 0.15
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (17 bp):
TTTCAAAATTTTCGTGT
Found at i:12852210 original size:15 final size:15
Alignment explanation
Indices: 12852190--12852228 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
12852180 TATGTATATA
*
12852190 ATATAATATGAAAAT
1 ATATAATATGAAAAC
*
12852205 ATATAATATTAAAAC
1 ATATAATATGAAAAC
12852220 ATAATAATA
1 AT-ATAATA
12852229 CGACATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATAATATGAAAAC
Found at i:12852442 original size:3 final size:3
Alignment explanation
Indices: 12852428--12852583 Score: 188
Period size: 3 Copynumber: 51.0 Consensus size: 3
12852418 AAACATCAAC
12852428 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
12852474 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
12852522 TAA TAG TAA TAG TAC TAA TAT TATA TAAA TAA TAA GAA TATT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA TA-A TAA TAA
* *
12852570 GAA -AA TAA GAA TAA
1 TAA TAA TAA TAA TAA
12852584 ACAACAAAAA
Statistics
Matches: 132, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
2 2 0.02
3 121 0.92
4 8 0.06
5 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12861534 original size:25 final size:23
Alignment explanation
Indices: 12861482--12861536 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
12861472 TTATAATAGT
12861482 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
12861505 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
12861530 AATAGTG
1 AATAGTG
12861537 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:12861656 original size:22 final size:24
Alignment explanation
Indices: 12861598--12861665 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
12861588 ATAGATATAA
* *
12861598 AAAAATATGTACATAATATACTGT
1 AAAAATATATACATAATATAATGT
*
12861622 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
12861646 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
12861666 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 18 0.47
24 1 0.03
25 19 0.50
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:12862320 original size:30 final size:30
Alignment explanation
Indices: 12862284--12862352 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
12862274 TAGGTACAAG
*
12862284 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTCGCTAGTGGAGT
12862314 TGGTGGTGGAGCAAGTGTCGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTCGCTAGTGGAGT
12862344 TGGTGGTGG
1 TGGTGGTGG
12862353 CAAAGGCTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.14, C:0.07, G:0.51, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTCGCTAGTGGAGT
Found at i:12863137 original size:87 final size:87
Alignment explanation
Indices: 12862986--12863191 Score: 245
Period size: 87 Copynumber: 2.4 Consensus size: 87
12862976 TCCTGAGCTT
* * *
12862986 AACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
1 AACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
* *
12863051 GCTCAGCACGTGAGCCAAGGCTC
65 CCTCAGCACGTGAACCAAGGCTC
* **
12863074 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAAC-AAA-ATTTGTAAAACAGATTTTGAAAAT
1 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACA-TT-AAAAACAGAAATTGAAAAT
* * * *
12863137 ACCTCGGTATGTGAACCGAGGCTC
64 ACCTCAGCACGTGAACCAAGGCTC
* *
12863161 AACTCACCTCTCGTAATATGAGTTGATTTTT
1 AACTCACTTCTCGCAATATGAGTTGATTTTT
12863192 GCAAAGCATA
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.01
86 5 0.05
87 72 0.71
88 24 0.24
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (87 bp):
AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATAC
CTCAGCACGTGAACCAAGGCTC
Found at i:12863296 original size:107 final size:108
Alignment explanation
Indices: 12863129--12863323 Score: 313
Period size: 107 Copynumber: 1.8 Consensus size: 108
12863119 AAAACAGATT
* *
12863129 TTGAAAATACCTCGGTATGTGAACCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTG
1 TTGAAAATACCTCGGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
12863193 -CAAAGCATAAATTGAAAAAAAAATAAAATAAAATAAAAATCAA
66 ACAAA-CATAAATTGAAAAAAAAATAAAATAAAATAAAAATCAA
* * *
12863236 TTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCGGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
12863301 GACAAACATAAATTGAAAAAAAA
65 GACAAACATAAATTGAAAAAAAA
12863324 GAAATTGAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
107 53 0.66
109 23 0.29
110 4 0.05
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (108 bp):
TTGAAAATACCTCGGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
ACAAACATAAATTGAAAAAAAAATAAAATAAAATAAAAATCAA
Found at i:12863380 original size:90 final size:90
Alignment explanation
Indices: 12863234--12863588 Score: 398
Period size: 92 Copynumber: 3.9 Consensus size: 90
12863224 AATAAAAATC
* * *
12863234 AATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
* *
12863299 TTGACAA-ACATAAATTGAAAAAAAAGA
65 TTGA-AACACAGAAATTG-AAAAACAGA
* * * *
12863326 AATTGAAAATATCTCAGCGTGT-CCTGGGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
* *
12863390 GGAAAAACA-AAATTTGAAAAACAGA
66 TGAAACACAGAAA-TTGAAAAACAGA
* ** * * *
12863415 ATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAACTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTT
*
12863480 TTTGAAACACAGAAATTGAAGAACAGA
64 TTTGAAACACAGAAATTGAAAAACAGA
* * * * *
12863507 AATGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTTGCAATATGAGCTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
*
12863569 TGAAAGACAGAAATTGAAAA
66 TGAAACACAGAAATTGAAAA
12863589 TACCTCAACG
Statistics
Matches: 225, Mismatches: 32, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
87 24 0.11
88 28 0.12
89 34 0.15
90 50 0.22
91 27 0.12
92 59 0.26
93 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (90 bp):
AATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
TGAAACACAGAAATTGAAAAACAGA
Found at i:12863423 original size:13 final size:14
Alignment explanation
Indices: 12863391--12863423 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
12863381 TGATTTTTTG
12863391 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
12863405 GAAAAACAGAATTT
1 GAAAAACAAAATTT
12863419 GAAAA
1 GAAAA
12863424 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:12863642 original size:73 final size:73
Alignment explanation
Indices: 12863501--12864009 Score: 579
Period size: 73 Copynumber: 6.9 Consensus size: 73
12863491 GAAATTGAAG
* * * * *
12863501 AACAGAAATGGAAAACACCTC-A-GCGTCTTGAGG-TTCAACTCACCTCTTGCAATATGAGCTGA
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTT-AACTCACCTCTCGCAATATGAGTTGA
12863563 TTTTTTTGA-A
65 --TTTTTGACA
12863573 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA
12863638 TTTTTGACA
65 TTTTTGACA
* * * * * *
12863647 AACAAAAATTGAAATTACCT-TA-GCGTCTTGAGG-TTCAACTCACCTATCGTAATATGAGTTGA
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTT-AACTCACCTCTCGCAATATGAGTTGA
*
12863709 TTTTTTTGAAA
65 --TTTTTGACA
* *
12863720 AACAGAAATT-AAAATACCTCAATGTGTCTTGAGG-TTCAACTCACCTCTCGCAATATGAGCTGA
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTT-AACTCACCTCTCGCAATATGAGTTGA
*
12863783 TTTTTTTTTA-A
65 ---TTTTTGACA
* *
12863794 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA
12863859 TTTTTGACA
65 TTTTTGACA
* * * * * * *
12863868 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAG
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGAT
12863933 TTTTGACA
66 TTTTGACA
* * * * *
12863941 AACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGAT
12864006 TTTT
66 TTTT
12864010 TTAGAAACAT
Statistics
Matches: 386, Mismatches: 36, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
70 2 0.01
71 34 0.09
72 10 0.03
73 196 0.51
74 43 0.11
75 51 0.13
76 49 0.13
77 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGAT
TTTTGACA
Found at i:12863713 original size:146 final size:146
Alignment explanation
Indices: 12863517--12864096 Score: 675
Period size: 146 Copynumber: 3.8 Consensus size: 146
12863507 AATGGAAAAC
* * * *
12863517 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTTGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
*
12863582 TTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
66 TTGAAAATACCTCAACGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
12863647 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
* * * *
12863663 ACCTTAGCGTCTTGAGGTTCAACTCACCTATCGTAATATGAGTTGATTTTTTTGAAAAACAGAAA
1 ACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
* * *
12863728 TT-AAAATACCTCAATGTGTCTTGAGG-TTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTT
66 TTGAAAATACCTCAACGTGTCCTGAGGCTT-AACTCACCTCTCGCAATATGAGTTGA---TTTTT
* * *
12863791 TA-AAGACAGAAATTGAAAAT
127 GACAA-ACAAAAATTGAAATT
* * * *
12863811 ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA--TTTTTGACAAACAAA
1 ACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
* * * * *
12863874 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTGA
64 AATTGAAAATACCTCAACGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGA
12863939 CAAACAAAAATTGAAATT
129 CAAACAAAAATTGAAATT
*
12863957 ACCTCAGCGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAGAAACATAA
1 ACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-G--------
* *
12864022 ATTAAAAAAACGAAAATTGAAAATACCTTAACGTGTCCTGAGGCTTAACTCACCTCTCGCAATAT
55 ---AAAAACA-G-AAATTGAAAATACCTCAACGTGTCCTGAGGCTTAACTCACCTCTCGCAATAT
12864087 GAGTTGATTT
115 GAGTTGATTT
12864097 GAAAAGCAGA
Statistics
Matches: 364, Mismatches: 42, Indels: 40
0.82 0.09 0.09
Matches are distributed among these distances:
144 3 0.01
145 49 0.13
146 120 0.33
147 4 0.01
148 45 0.12
149 46 0.13
150 36 0.10
160 5 0.01
162 56 0.15
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (146 bp):
ACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
TTGAAAATACCTCAACGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
AACAAAAATTGAAATT
Found at i:12864011 original size:221 final size:219
Alignment explanation
Indices: 12863512--12864016 Score: 755
Period size: 221 Copynumber: 2.3 Consensus size: 219
12863502 ACAGAAATGG
* *
12863512 AAAACACCTCAGC--GTCTTGAGGTTCAACTCACCTCTTGCAATATGAGCTGATTTTTTTGAAAG
1 AAAATACCTCAGCGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAG
* *
12863575 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATT
66 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATT
* * * *
12863640 TTTGACAAACAAAAATTGAAATTACCTTAGCGTCTTGAGGTTCAACTCACCTATCGTAATATGAG
131 TTTGACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACTCACCTATCGCAATATGAG
* *
12863705 TTGATTTTTTTGAAAAACAGAAATT
196 TTGA-TGTTTTGAAAAACAAAAATT
** *
12863730 AAAATACCTCAATGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTTAAA
1 AAAATACCTCAGCGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTTGAAA
12863795 GACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
65 GACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
* *
12863860 TTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATAT
130 TTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCCTGAGGCTCAACTCACCTATCGCAATAT
*
12863925 GAGTTGA-GTTTTGACAAACAAAAATT
193 GAGTTGATGTTTTGAAAAACAAAAATT
* * * *
12863951 GAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAGAA
1 -AAAATACCTCAGCGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT-GAA
12864016 A
64 A
12864017 CATAAATTAA
Statistics
Matches: 257, Mismatches: 23, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
218 10 0.04
220 37 0.14
221 127 0.49
222 50 0.19
223 33 0.13
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (219 bp):
AAAATACCTCAGCGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAG
ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATT
TTTGACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACTCACCTATCGCAATATGAG
TTGATGTTTTGAAAAACAAAAATT
Found at i:12864221 original size:13 final size:12
Alignment explanation
Indices: 12864199--12864242 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 12
12864189 TTGATTTTTG
12864199 AAAAACAGAAATT
1 AAAAA-AGAAATT
12864212 AAAAGAAGAAATT
1 AAAA-AAGAAATT
12864225 GAAAAAAGAAATT
1 -AAAAAAGAAATT
12864238 AAAAA
1 AAAAA
12864243 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.17
13 19 0.66
14 5 0.17
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.14
Consensus pattern (12 bp):
AAAAAAGAAATT
Found at i:12864235 original size:99 final size:96
Alignment explanation
Indices: 12864020--12864386 Score: 389
Period size: 99 Copynumber: 3.8 Consensus size: 96
12864010 TTAGAAACAT
* * * *
12864020 AAATTAAAAAAACGAAAATTGAAAATACCTTAACGTGTCCTGAGGCTTAACTCACCTCTCGCAAT
1 AAATTGAAAAAA-G-AAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAAT
**
12864085 ATGAGTTGA--TTTGAAAAGCAGAGTTTGTAAGGCAA-
63 ATGAGTTGATTTTTGAAAAGCAGA-AAT-TAA-G-AAG
12864120 AAATTGAAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTGAAAAA-AGAAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATA
*
12864185 TGAGTTGATTTTTGAAAAACAGAAATTAAAAGAAG
64 TGAGTTGATTTTTGAAAAGCAGAAATT--AAGAAG
* * *
12864220 AAATTGAAAAAAGAAATTAAAAATACCTCGGCGTGCCTCGAGGCTCAGCTCACCTCTCGCAATAT
1 AAATTGAAAAAAGAAATTGAAAATACCTCAGCGTGCCT-GAGGCTCAACTCACCTCTCGCAATAT
*
12864285 GAGTTGATTTTTGAAAAGCATAAATT-----G
65 GAGTTGATTTTTGAAAAGCAGAAATTAAGAAG
** *
12864312 -AA---AAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAAT
1 AAATTGAAAAAAGAAATTGAAAATACCTCAGC--GTG-CCTGAGGCTCAACTCACCTCTCGCAAT
12864373 ATGAGTTGATTTTT
63 ATGAGTTGATTTTT
12864387 TTGAAAGATA
Statistics
Matches: 238, Mismatches: 19, Indels: 30
0.83 0.07 0.10
Matches are distributed among these distances:
88 22 0.09
90 39 0.16
91 5 0.02
92 1 0.00
98 3 0.01
99 129 0.54
100 24 0.10
101 15 0.06
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (96 bp):
AAATTGAAAAAAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTGAAAAGCAGAAATTAAGAAG
Found at i:12864373 original size:90 final size:86
Alignment explanation
Indices: 12864220--12864386 Score: 246
Period size: 90 Copynumber: 1.9 Consensus size: 86
12864210 TTAAAAGAAG
* *
12864220 AAATTGAAAAAAGAAATTAAAAATACCTCGGCGTGCCTCGAGGCTCAGCTCACCTCTCGCAATAT
1 AAATTGAAAAAAGAAATTAAAAATACCTCGGCGTGCCTCGAGGCCCAACTCACCTCTCGCAATAT
12864285 GAGTTGATTTTTGAAAAGCAT
66 GAGTTGATTTTTGAAAAGCAT
* *
12864306 AAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCT-GAGGCCCAACTCACCTCTCGC
1 AAATTGAAAAAA--GAAATTAAAAATACCTC-G-GCGTG-CCTCGAGGCCCAACTCACCTCTCGC
12864370 AATATGAGTTGATTTTT
61 AATATGAGTTGATTTTT
12864387 TTGAAAGATA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
86 12 0.17
88 16 0.22
89 1 0.01
90 40 0.56
91 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (86 bp):
AAATTGAAAAAAGAAATTAAAAATACCTCGGCGTGCCTCGAGGCCCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAAGCAT
Found at i:12868246 original size:12 final size:12
Alignment explanation
Indices: 12868226--12868258 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12868216 AGGGCATCTT
12868226 AAAAA-AAAAGA
1 AAAAAGAAAAGA
*
12868237 GAAAAGAAAAGA
1 AAAAAGAAAAGA
12868249 AAAAAGAAAA
1 AAAAAGAAAA
12868259 AAAGAGAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:12868246 original size:17 final size:17
Alignment explanation
Indices: 12868226--12868258 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12868216 AGGGCATCTT
12868226 AAAA-AAAAAGAGAAAAG
1 AAAAGAAAAA-AGAAAAG
12868243 AAAAGAAAAAAGAAAA
1 AAAAGAAAAAAGAAAA
12868259 AAAGAGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAGAAAAG
Found at i:12870211 original size:93 final size:93
Alignment explanation
Indices: 12870099--12870270 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
12870089 GCCCATAAGT
* *
12870099 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
12870164 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
12870192 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
12870257 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
12870271 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:12870266 original size:46 final size:46
Alignment explanation
Indices: 12870091--12870266 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
12870081 TGTAACCCGC
* * *
12870091 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
12870137 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
12870187 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
12870230 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
12870267 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:12872694 original size:30 final size:30
Alignment explanation
Indices: 12872650--12872738 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
12872640 CAAAGATAAC
12872650 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
12872679 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
12872709 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
12872739 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:12872698 original size:15 final size:15
Alignment explanation
Indices: 12872650--12872729 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
12872640 CAAAGATAAC
*
12872650 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
12872664 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
12872679 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
12872694 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
12872709 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
12872724 AAGAAA
1 AAGAAA
12872730 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:12872738 original size:15 final size:15
Alignment explanation
Indices: 12872661--12872738 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
12872651 AGAAAACCGA
12872661 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
12872676 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
12872690 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
12872705 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
12872721 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
12872736 ATA
1 ATA
12872739 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:12875793 original size:93 final size:93
Alignment explanation
Indices: 12875681--12875852 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
12875671 GCCCATAAGT
* *
12875681 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
12875746 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
12875774 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
12875839 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
12875853 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:12875848 original size:46 final size:46
Alignment explanation
Indices: 12875673--12875848 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
12875663 TGTAACCCGC
* * *
12875673 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
12875719 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
12875769 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
12875812 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
12875849 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:12877632 original size:73 final size:73
Alignment explanation
Indices: 12877506--12877672 Score: 253
Period size: 73 Copynumber: 2.3 Consensus size: 73
12877496 ATTTCCGTTT
* *
12877506 TTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGTTGAGTTGAGCCTCAGGACACG
1 TTTCAATTTATGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACG
*
12877571 CTGAGGTAA
65 CCGAGGTAA
* *
12877580 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGC
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGC
12877645 CGAGGTAA
66 CGAGGTAA
* * *
12877653 TTTTAATTTCTGTTTTTCAA
1 TTTCAATTTATGCTTTTCAA
12877673 TTTCTGCTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 67 0.79
74 18 0.21
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (73 bp):
TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGC
CGAGGTAA
Found at i:12877696 original size:13 final size:13
Alignment explanation
Indices: 12877653--12877696 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
12877643 GCCGAGGTAA
12877653 TTTTAATTTCTGT
1 TTTTAATTTCTGT
*
12877666 TTTTCAATTTCTGC
1 TTTT-AATTTCTGT
12877680 TTTTAATTTCTGT
1 TTTTAATTTCTGT
12877693 TTTT
1 TTTT
12877697 CAAAAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.14, C:0.11, G:0.07, T:0.68
Consensus pattern (13 bp):
TTTTAATTTCTGT
Found at i:12877769 original size:100 final size:100
Alignment explanation
Indices: 12877584--12877769 Score: 275
Period size: 100 Copynumber: 1.9 Consensus size: 100
12877574 AGGTAATTTC
*
12877584 AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAG
1 AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCACGCCGAG
* * *
12877649 GTAATTTTAATTTCTGTTTTTCAATTTCTGCTTTT
66 ATAATTTTAAATTCTATTTTTCAATTTCTGCTTTT
* * * * *
12877684 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCACGCTGAG
1 AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCACGCCGAG
12877749 AT-ATTTTCAAATTCTATTTTT
66 ATAATTTT-AAATTCTATTTTT
12877770 ATCAAAAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
99 5 0.07
100 71 0.93
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (100 bp):
AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCACGCCGAG
ATAATTTTAAATTCTATTTTTCAATTTCTGCTTTT
Found at i:12877840 original size:177 final size:176
Alignment explanation
Indices: 12877490--12877849 Score: 505
Period size: 177 Copynumber: 2.0 Consensus size: 176
12877480 CGCTGAGGTA
* *
12877490 TTTTCAATTTCCGTTTTTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGTTGAGT
1 TTTTCAATTTCCGTCTTTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
12877555 TGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAG
66 TGAGCCTCAGGACACGCTGAGATAATTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAG
* *
12877620 AGGTGAGCTGAGCCTCGGGGCACGCCGAGGTAATTTTAATTTCTGT
131 AGGTGAGCTGAGCCTCGGGACACGCCGAGGTAATTTTAATTTCTGC
* * *
12877666 TTTTCAATTTCTG-CTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTTCAATTTCCGTCTTTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
* * * *
12877728 TGAGCCTTAGGGCACGCTGAGATATTTTCAAATTCTAT-TTTTATCAAAAAAATCAACTCATATT
66 TGAGCCTCAGGACACGCTGAGATAATTTC-AATT-TATGCTTT-TC--AAAAATCAACTCATATT
* *
12877792 GCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT-ATTTTCAATTTCTGC
126 GCGAGAGGTGAGCTGAGCCTCGGGACACGCCGAGGTAATTTT-AATTTCTGC
12877843 TTTTCAA
1 TTTTCAA
12877850 AAGAATCAAC
Statistics
Matches: 164, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
173 54 0.33
174 19 0.12
175 9 0.05
176 17 0.10
177 65 0.40
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (176 bp):
TTTTCAATTTCCGTCTTTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAGGACACGCTGAGATAATTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAG
AGGTGAGCTGAGCCTCGGGACACGCCGAGGTAATTTTAATTTCTGC
Found at i:12877889 original size:75 final size:73
Alignment explanation
Indices: 12877680--12877891 Score: 302
Period size: 77 Copynumber: 2.8 Consensus size: 73
12877670 CAATTTCTGC
*
12877680 TTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGGCAC
12877743 GCTGAGATA
65 GCTGAGATA
* *
12877752 TTTTCAAATTCTATTTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
1 TTTTCAATTTCT-GTTTT-TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-
*
12877817 CACGCTGAGGTA
62 CACGCTGAGATA
* *
12877829 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGC
1 TTTTCAATTTCTGTTTTTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGC
12877892 TACACGTCGA
Statistics
Matches: 125, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
72 4 0.03
73 6 0.05
74 9 0.07
75 41 0.33
76 7 0.06
77 58 0.46
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACG
CTGAGATA
Found at i:12878032 original size:13 final size:13
Alignment explanation
Indices: 12878016--12878040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12878006 GGTGTTTTCC
12878016 ATTTCTATTTTTA
1 ATTTCTATTTTTA
12878029 ATTTCTATTTTT
1 ATTTCTATTTTT
12878041 CAAAAAAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCTATTTTTA
Found at i:12878073 original size:86 final size:88
Alignment explanation
Indices: 12877930--12878096 Score: 232
Period size: 86 Copynumber: 1.9 Consensus size: 88
12877920 TTTTAATTTC
* * *
12877930 TTTCTTTTTTTAAATTTATATGTTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCT
1 TTTCTATTTTTAAATTTATATGTTTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCT
*
12877995 CA-AGACGCTGAGGTGTTTTCCA
66 CAGACACGCTGAGGTGTTTTCCA
* * *
12878017 TTTCTATTTTT-AATTTCTAT-TTTTCAAAAAAATCAACTCATATTGCGATAGATGAGTTGAGCC
1 TTTCTATTTTTAAATTTATATGTTTT-AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACC
12878080 TCAGGACACGCTGAGGT
65 TCA-GACACGCTGAGGT
12878097 AATTTCAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 4 0.06
86 45 0.64
87 10 0.14
88 11 0.16
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (88 bp):
TTTCTATTTTTAAATTTATATGTTTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCT
CAGACACGCTGAGGTGTTTTCCA
Found at i:12878230 original size:75 final size:74
Alignment explanation
Indices: 12878021--12878410 Score: 476
Period size: 73 Copynumber: 5.3 Consensus size: 74
12878011 TTTCCATTTC
* * * * *
12878021 TATTTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGATAGATGAGTTGAGCCTCAGGA
1 TATTTTCAATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
12878086 CACGCTGAGG
65 CACGCTGAGG
*
12878096 TAATTTCAAGTTT-TGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
1 TATTTTCAA-TTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
*
12878158 ACACGTTGAGG
64 ACACGCTGAGG
* *
12878169 TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG-
1 TATTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
12878233 -ACGCTGAGG
65 CACGCTGAGG
* *
12878242 TAATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGCA-TTGAGCCTCAAG
1 TATTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTG-AGTTGAGCCTCAAG
* *
12878304 ACACGTTGAGA
64 ACACGCTGAGG
* *
12878315 TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG-
1 TATTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
12878379 -ACGCTGAGG
65 CACGCTGAGG
* * *
12878388 TGTTTTCCATTTCTATTCTTCAA
1 TATTTTCAATTTCTGTT-TTCAA
12878411 TTTTTGTGTT
Statistics
Matches: 274, Mismatches: 26, Indels: 32
0.83 0.08 0.10
Matches are distributed among these distances:
71 37 0.14
72 7 0.03
73 133 0.49
74 8 0.03
75 86 0.31
76 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (74 bp):
TATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
ACGCTGAGG
Found at i:12878287 original size:146 final size:146
Alignment explanation
Indices: 12878021--12878388 Score: 612
Period size: 146 Copynumber: 2.5 Consensus size: 146
12878011 TTTCCATTTC
* * * * * * *
12878021 TATTTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGATAGATGAGTTGAGCCTCAGGA
1 TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--A
*
12878086 CACGCTGAGGTAATTTCAAGTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTG-AGTTGA
64 GACGCTGAGGTAATTTCAAGTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGCA-TTGA
*
12878150 GCCTCAAGACACGTTGAGG
128 GCCTCAAGACACGTTGAGA
12878169 TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
1 TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
*
12878234 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGCATTGAGCC
66 CGCTGAGGTAATTTCAAGTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGCATTGAGCC
12878299 TCAAGACACGTTGAGA
131 TCAAGACACGTTGAGA
12878315 TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
1 TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
12878380 CGCTGAGGT
66 CGCTGAGGT
12878389 GTTTTCCATT
Statistics
Matches: 209, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
146 153 0.73
147 1 0.00
148 55 0.26
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (146 bp):
TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
CGCTGAGGTAATTTCAAGTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGCATTGAGCC
TCAAGACACGTTGAGA
Found at i:12878517 original size:15 final size:14
Alignment explanation
Indices: 12878481--12878513 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
12878471 CACTGAGGTA
12878481 TTTTCAAATTTTGT
1 TTTTCAAATTTTGT
12878495 TTTTCAAATTTTGT
1 TTTTCAAATTTTGT
12878509 TTTTC
1 TTTTC
12878514 CAAAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (14 bp):
TTTTCAAATTTTGT
Found at i:12878616 original size:89 final size:88
Alignment explanation
Indices: 12878317--12878911 Score: 430
Period size: 87 Copynumber: 6.7 Consensus size: 88
12878307 CGTTGAGATA
* * * *
12878317 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGA
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * * *
12878380 CGCTGAGGTGTTTTCCATTTCTAT
65 CGCTGAGGTATTTTCAATTTTTTT
* * * * * * * **
12878404 TCTTCAATTTTTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTAAGTTGAGTCTTGACTCA
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTCA-GGA
* * *
12878469 CACACTGAGGTATTTTCAAATTTTGT
63 CACGCTGAGGTATTTTCAATTTTTTT
*
12878495 TTTTCAAATTT-TGTTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGA
1 TTTTC-AATTTATG-TTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
12878559 CACGCTGAGGTA-TTTCAATTTCTTTT
63 CACGCTGAGGTATTTTCAATTT-TTTT
*
12878585 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCA
1 TTTTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
12878650 CACGCCGAGGTATTTTCAATTGATTTTT
63 CACGCTGAGGTATTTTCAATT--TTTTT
* * * * *
12878678 TTTTTAATTTATGCTTTGC--AAAAATTAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
** * ** * *
12878741 CATACCGAGGTATTTTCAAAATCTGT
63 CACGCTGAGGTATTTTCAATTTTTTT
* ** * * * **
12878767 TTTACAAATTT-TGTTTT---AAAAATCAACAAATATTGTGAGAAGTGAGTTGAGCCT-TGCTCA
1 TTTTC-AATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * *
12878827 CGTGCTGAGCTATTTTCAATTTCTGT
65 C--GCTGAGGTATTTTCAATTTTTTT
* * ** *
12878853 TTTT-AATGTCTA-GTTTT--AAAAAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGA
1 TTTTCAAT-T-TATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
12878912 TCACATGCCA
Statistics
Matches: 414, Mismatches: 70, Indels: 48
0.78 0.13 0.09
Matches are distributed among these distances:
84 5 0.01
85 1 0.00
86 30 0.07
87 108 0.26
88 6 0.01
89 67 0.16
90 28 0.07
91 101 0.24
92 47 0.11
93 17 0.04
94 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTTTTT
Found at i:12878662 original size:181 final size:178
Alignment explanation
Indices: 12878317--12878734 Score: 474
Period size: 181 Copynumber: 2.3 Consensus size: 178
12878307 CGTTGAGATA
* * * *
12878317 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACG
1 TTTTCAATTTATGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACG
* * * *
12878382 CTGAGGTGTTTTCCATTTCTATTCTTCAATTTTTGTGTTTCAAAAAAATCAGCTCATATTGCGAG
66 CTGAGGTGATTTCAATTTCTATTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAG
* * * * *
12878447 TGGTAAGTTGAGTCTTGACTCACACACTGAGGTATTTTCAA-ATTTTGT
131 AGGTAAGTTAAGCCTAGACTCACACACCGAGGTATTTTCAATATTTT-T
* *
12878495 TTTTCAAATTT-TGTTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGA
1 TTTTC-AATTTATGTCTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--A
* *
12878559 CACGCTGAGGT-ATTTCAATTTCTTTTTTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATAT
62 CACGCTGAGGTGATTTCAATTTC-TATTCTTCAATTTATGTGTT-TCAAAAAAATCAACTCATAT
* * *
12878622 TGCGAGAGGTGAGTTAAGCCTCAG-GTCACACGCCGAGGTATTTTCAATTGATTTTT
125 TGCGAGAGGTAAGTTAAGCCT-AGACTCACACACCGAGGTATTTTCAA-T-ATTTTT
* * *
12878678 TTTTTAATTTATG-CTTTGC--AAAAATTAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 TTTTCAATTTATGTCTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
12878735 GGGTCACATA
Statistics
Matches: 204, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
178 11 0.05
179 44 0.22
180 46 0.23
181 81 0.40
182 10 0.05
183 7 0.03
184 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (178 bp):
TTTTCAATTTATGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACG
CTGAGGTGATTTCAATTTCTATTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAG
AGGTAAGTTAAGCCTAGACTCACACACCGAGGTATTTTCAATATTTTT
Done.