Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3453450
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 16
Found at i:971824 original size:22 final size:22
Alignment explanation
Indices: 971799--971843 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
971789 CAAAAATGCA
*
971799 AATGGGTACCGATACCCCTATG
1 AATGGGTACCAATACCCCTATG
*
971821 AATGGGTATCAATACCCCTATG
1 AATGGGTACCAATACCCCTATG
971843 A
1 A
971844 CTGCTCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (22 bp):
AATGGGTACCAATACCCCTATG
Found at i:976598 original size:213 final size:214
Alignment explanation
Indices: 976225--976651 Score: 847
Period size: 213 Copynumber: 2.0 Consensus size: 214
976215 AAAGCCTTCT
976225 CAAACTGCCCAGATTTAGAGTACATATTCATCAATGAATTTGGAACAGTAACGAAGGACATGATT
1 CAAACTGCCCAGATTTAGAGTACATATTCATCAATGAATTTGGAACAGTAACGAAGGACATGATT
976290 CCGGAGATGATAACAAATTTGTGAACTTGGGTCCCCTGTTTCGAATTACCGCAAGATCCCTTGAG
66 CCGGAGATGATAACAAATTTGTGAACTTGGGTCCCCTGTTTCGAATTACCGCAAGATCCCTTGAG
976355 AGCCAGACCCAGTGTAACTTCATCGATAGCATTAAGTAGGCCTGATTTAAGAAGTAGTTTGAACC
131 AGCCAGACCCAGTGTAACTTCATCGATAGCATTAAGTAGGCCTGATTTAAGAAGTAGTTTGAACC
976420 TTTTAAAGGCGTCAAAGGG
196 TTTTAAAGGCGTCAAAGGG
976439 CAAACTGCCCAGATTTAGAGTACATATTCATCAATGAATTTGGAACAGTAACGAAGGACATGATT
1 CAAACTGCCCAGATTTAGAGTACATATTCATCAATGAATTTGGAACAGTAACGAAGGACATGATT
976504 CCGGAGATGATAAC-AATTTGTGAACTTGGGTCCCCTGTTTCGAATTACCGCAAGATCCCTTGAG
66 CCGGAGATGATAACAAATTTGTGAACTTGGGTCCCCTGTTTCGAATTACCGCAAGATCCCTTGAG
976568 AGCCAGACCCAGTGTAACTTCATCGATAGCATTAAGTAGGCCTGATTTAAGAAGTAGTTTGAACC
131 AGCCAGACCCAGTGTAACTTCATCGATAGCATTAAGTAGGCCTGATTTAAGAAGTAGTTTGAACC
976633 TTTTAAAGGCGTCAAAGGG
196 TTTTAAAGGCGTCAAAGGG
976652 GAGAATAACA
Statistics
Matches: 213, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
213 134 0.63
214 79 0.37
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (214 bp):
CAAACTGCCCAGATTTAGAGTACATATTCATCAATGAATTTGGAACAGTAACGAAGGACATGATT
CCGGAGATGATAACAAATTTGTGAACTTGGGTCCCCTGTTTCGAATTACCGCAAGATCCCTTGAG
AGCCAGACCCAGTGTAACTTCATCGATAGCATTAAGTAGGCCTGATTTAAGAAGTAGTTTGAACC
TTTTAAAGGCGTCAAAGGG
Found at i:976908 original size:2 final size:2
Alignment explanation
Indices: 976901--976942 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
976891 TTATGGCAAA
976901 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
976943 TATTTGCATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:983341 original size:45 final size:45
Alignment explanation
Indices: 983277--983366 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
983267 TCGATCTAAT
983277 ATGAATATGGACTCGAGATTAACTTGATAAACAACTGATATTATC
1 ATGAATATGGACTCGAGATTAACTTGATAAACAACTGATATTATC
983322 ATGAATATGGACTCGAGATTAACTTGATAAACAACTGATATTATC
1 ATGAATATGGACTCGAGATTAACTTGATAAACAACTGATATTATC
983367 TGACTTATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (45 bp):
ATGAATATGGACTCGAGATTAACTTGATAAACAACTGATATTATC
Found at i:983364 original size:22 final size:22
Alignment explanation
Indices: 983294--983364 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
983284 TGGACTCGAG
983294 ATTAACTTGATAAACAACTGAT
1 ATTAACTTGATAAACAACTGAT
* * *** *
983316 ATTATCATGA-ATATGGACTCGAG
1 ATTAACTTGATA-AACAACT-GAT
983339 ATTAACTTGATAAACAACTGAT
1 ATTAACTTGATAAACAACTGAT
983361 ATTA
1 ATTA
983365 TCTGACTTAT
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
21 1 0.03
22 18 0.53
23 14 0.41
24 1 0.03
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (22 bp):
ATTAACTTGATAAACAACTGAT
Found at i:990949 original size:6 final size:6
Alignment explanation
Indices: 990938--990985 Score: 78
Period size: 6 Copynumber: 8.0 Consensus size: 6
990928 TGGTATGTCA
* *
990938 GCATAT GCATAT TCATAT GCATAT GCATAT TCATAT GCATAT GCATAT
1 GCATAT GCATAT GCATAT GCATAT GCATAT GCATAT GCATAT GCATAT
990986 ACGTATACGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (6 bp):
GCATAT
Found at i:990961 original size:18 final size:18
Alignment explanation
Indices: 990938--990985 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
990928 TGGTATGTCA
990938 GCATATGCATATTCATAT
1 GCATATGCATATTCATAT
990956 GCATATGCATATTCATAT
1 GCATATGCATATTCATAT
990974 GCATATGCATAT
1 GCATATGCATAT
990986 ACGTATACGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (18 bp):
GCATATGCATATTCATAT
Found at i:990992 original size:6 final size:6
Alignment explanation
Indices: 990983--991046 Score: 94
Period size: 6 Copynumber: 10.8 Consensus size: 6
990973 TGCATATGCA
*
990983 TATACG TATACG TATAC- TATACG TATGCG TATACG TATACG TATACG
1 TATACG TATACG TATACG TATACG TATACG TATACG TATACG TATACG
* *
991030 TATACA TATATG TATAC
1 TATACG TATACG TATAC
991047 ACACACACAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
5 5 0.10
6 46 0.90
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (6 bp):
TATACG
Found at i:991010 original size:29 final size:30
Alignment explanation
Indices: 990977--991034 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
990967 TTCATATGCA
990977 TATGCATATACGTATACGTATAC-TATACG
1 TATGCATATACGTATACGTATACGTATACG
*
991006 TATGCGTATACGTATACGTATACGTATAC
1 TATGCATATACGTATACGTATACGTATAC
991035 ATATATGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (30 bp):
TATGCATATACGTATACGTATACGTATACG
Found at i:991063 original size:4 final size:4
Alignment explanation
Indices: 991056--991254 Score: 194
Period size: 4 Copynumber: 52.8 Consensus size: 4
991046 CACACACACA
991056 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
991104 CACG CACG CACG CCACG CACG CA-- CACG CACG CA-- CACG CACAG CA--
1 CACG CACG CACG -CACG CACG CACG CACG CACG CACG CACG CAC-G CACG
* *
991148 CACG CACG CAC- CACG CACG CACG CACG CACG TACG CACG CA-- CACT
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
* * * * *
991193 CACT CACG CACA CAC- CACA CACT CACG C-CG CAC- TACG -ACG CA--
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
*
991235 CACG CACAC CACG CACG CAC
1 CACG CAC-G CACG CACG CAC
991255 ACTCACTCAC
Statistics
Matches: 168, Mismatches: 9, Indels: 36
0.79 0.04 0.17
Matches are distributed among these distances:
2 10 0.06
3 14 0.08
4 134 0.80
5 10 0.06
ACGTcount: A:0.28, C:0.50, G:0.19, T:0.03
Consensus pattern (4 bp):
CACG
Found at i:991132 original size:6 final size:6
Alignment explanation
Indices: 991121--995832 Score: 1159
Period size: 6 Copynumber: 783.7 Consensus size: 6
991111 GCACGCCACG
991121 CACGCA CACG-- CACGCA CACGCA CA-GCA CACG-- CACGCA CCACGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA -CACGCA
* * * * * * *
991165 CGCACG CACGCA CGTACG-- CACGCA CACTCA CTCACGCA CACACCA CACACT
1 CACGCA CACGCA C--ACGCA CACGCA CACGCA --CACGCA CAC-GCA CACGCA
* * * * * *
991216 CACGCCG CAC-TA CGACGCA CACGCA CAC-CA CGCACGCA CACTCA CTCACT
1 CACG-CA CACGCA C-ACGCA CACGCA CACGCA --CACGCA CACGCA CACGCA
* * * *
991266 C-CGCA CGCCGCT CACGCA CCACACA CTCACTCA CACGCA C-C--A CACGCA
1 CACGCA C-ACGCA CACGCA -CACGCA --CACGCA CACGCA CACGCA CACGCA
* * * *
991314 CACACA -ACGCC CACG-- CACGCA CACG-- CACGCA C-CACT CACGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * *
991356 CACTCA CTCACACT CACGCA CACG-- CACGCA CACG-- CACTCA CACGCA
1 CACGCA --CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * *
991402 C-CACA CCACCCA CACG-- CAC-CA CACGCA CACACA CCACACA CACGCA
1 CACGCA -CACGCA CACGCA CACGCA CACGCA CACGCA -CACGCA CACGCA
* * * * * * *
991448 CACACA CACACA CACACCA CACACAA TCACACA CACGCA CACACA -ATCACA
1 CACGCA CACGCA CAC-GCA CACGC-A -CACGCA CACGCA CACGCA CA-CGCA
* * * * * * * *
991499 CAC-CT CACACA CACGCA CACACA CCACACA CACCGCA CACACT CTCACA
1 CACGCA CACGCA CACGCA CACGCA -CACGCA CA-CGCA CACGCA CACGCA
* * * * * * * * *
991548 CACGCA CACACG CGCACA CACGCG CACACA CGCGCA CACACG CAC-CA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* *
991595 CAC-CA CA--CA CACGCA CA--CA CACGCA CACACCA CACACCA CACGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CAC-GCA CAC-GCA CACGCA
* * ** * * ** *
991640 CACGCA CGCGCA TGCACGCG CACATA CACACA CGCGCA CATACA CATGCA
1 CACGCA CACGCA --CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
** ** * ** * * * **
991690 CATACA CATACA CATGCA CATACA CATGCA CATGCA CATGCA CATACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* ** * * * *
991738 CATGCA CATACA CATGCA CATGCA C-CTGCA CATGCA CACGCA CAAGCA
1 CACGCA CACGCA CACGCA CACGCA CAC-GCA CACGCA CACGCA CACGCA
* * * *
991786 CAAGCA CACGCA CACGCA CACGCA CACGTA CACGCA CACCCA CATGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * *
991834 CACGCA CACGCA CACGCA CACGCG CACGCG CACGCG CACGCA CACGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
** * * * * *
991882 CAC-C- CACATA CACACA CACGCA CACGCGCA CACGGA CACACA CGCACA
1 CACGCA CACGCA CACGCA CACGCA CA--CGCA CACGCA CACGCA CACGCA
* * *
991930 CACGCA CACGCA CACGCA CACGCA AACGCA CACGCA CACCCA CATACACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA C--ACGCA
* * * * * *
991980 CACTCA CACGCA CACCCA CACAG-A CACACA CGCACA CACACA CACGCA
1 CACGCA CACGCA CACGCA CAC-GCA CACGCA CACGCA CACGCA CACGCA
* * * *
992028 CATGCA CACGCA CACGCA CACGCA CACCCA CATACACA CACTCA CACGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA C--ACGCA CACGCA CACGCA
* *
992078 CACCCA CA-GACA CACGCA CACGCACA CACGCA CACGCA CACGCA TACGCA
1 CACGCA CACG-CA CACGCA CACG--CA CACGCA CACGCA CACGCA CACGCA
* * * *
992128 CATGCGCA CACGCA CACACA CACGCA CACCCA CA-GCCA CACCCG CACGAACA
1 CA--CGCA CACGCA CACGCA CACGCA CACGCA CACG-CA CACGCA CACG--CA
* * * * * *
992180 CACGCA CACGCA CACGCA CA--CA CACTCA TACTCA CTCACA CACGAA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * ** * * * *
992226 CACACA CTAC-CA CGCTCA CTCAAA CACACA CTCTCA CACGCA CACACA
1 CACGCA C-ACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * * * * * *
992274 CACACC CACCCA CACCCA CCACTTCA CA--CT CACTCA CACTCA CTCACA
1 CACGCA CACGCA CACGCA -CAC-GCA CACGCA CACGCA CACGCA CACGCA
* * * * * **
992322 CACGCA CCACGCA CGCACA CAC-CAA CACTCA CACAC- CA-ACA CACATA
1 CACGCA -CACGCA CACGCA CACGC-A CACGCA CACGCA CACGCA CACGCA
* * * * * *
992369 CACTCA CACACA CACGCA CACGCA TACGAA CATGCA CACGCA CACTCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * ** * * * * *
992417 CACTCA CACGCA CAC-CA TATACA CACACA CACGTACA CACACT CCCACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACG--CA CACGCA CACGCA
* * * * ** * *
992466 CACCCA CACACA CAC-CA CACGCA CACACT CATACA CGCACA CACGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * * *
992513 CACACG CACACA CGCACA CACGCATA CACGCACA CACGCA CACACGA CACACA
1 CACGCA CACGCA CACGCA CACGC--A CACG--CA CACGCA CACGC-A CACGCA
* * * * * ** * * * *
992566 CAC-CA CACACT CACACA CACACA CTCAAAA CACACA CACACA AAAGCA
1 CACGCA CACGCA CACGCA CACGCA CAC-GCA CACGCA CACGCA CACGCA
* ** * * * **
992614 CACACA CAC-CA CAAACA CACACA CACACA CACACA CATTCA CACGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * * * *
992661 CACCTCA CACCCA CAC-TA CACCCA CACACCA CACTCA CACACA CACACA
1 CA-CGCA CACGCA CACGCA CACGCA CAC-GCA CACGCA CACGCA CACGCA
* * * * * * * *
992710 CCACACA CACACA CAC-AA CACACA CACACA CACTCA CAC-C- CCCCCA
1 -CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * *
992756 CACACA CACACA CACACA CACCCA CACACA CCACGCA CACCCA CA-GACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA -CACGCA CACGCA CACG-CA
* * * * * * * * *
992805 CACACA CAC-CA CACACA CACACA CACACT CACCCA CACACT CACACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * *
992852 CACCCA CAC-CA CACACCA CACTCA CAC-CA CACCACA CACACA CACGCA
1 CACGCA CACGCA CAC-GCA CACGCA CACGCA CA-CGCA CACGCA CACGCA
* ** * * * *
992900 CACACA CACGCA CACAAA CACACA CACACA CACGCA CAC-C- C-CCCC
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * *
992945 CACACA CACACA CACACA CACGCA CACCCA CACACA CACGCA CAC-C-
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * *
992991 CACACA CAC-CA CACACA CACG-A CACACA CACGCA C-C-CA CACACT
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * * * *
993035 CA-ACA CACCCA CACACA CACACA CACTCA CACGCA CGCACGCA CGCACG
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA --CACGCA CACGCA
* * * * * *
993084 CACGCA CGCACA CACGCA CGCTCA CAC-CA CGCGCA CCTACCGCA CATGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA -C-A-CGCA CACGCA
* * * * *
993134 CACGCA CGCACGCA CACACA CACAACA CACTCA CATGCA CACGCA CACAC-
1 CACGCA --CACGCA CACGCA CAC-GCA CACGCA CACGCA CACGCA CACGCA
*
993184 CACGCA CAC-CA CAC-CA CGACGCA CACGC- CACCACA CACGCA CACGCA
1 CACGCA CACGCA CACGCA C-ACGCA CACGCA CA-CGCA CACGCA CACGCA
* * * * * * *
993231 CTCACTCA CACACG CACGCA CGCACTCG CACGCA CACTCA CA--CA CACACA
1 --CACGCA CACGCA CACGCA --CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * *
993281 CACGCA CATCACG CACGCA CACCCG CAC-CA CACTCA -ACGCA CACGCA
1 CACGCA CA-CGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * *
993328 C-CACT CACGCA CACGCA CA--C- CACGCA CACGCA CACACT CACCCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * *
993372 CACAC- CA-GCA CACACA CTCACACA CACGCA CA--CA CACACA CACGCA
1 CACGCA CACGCA CACGCA --CACGCA CACGCA CACGCA CACGCA CACGCA
* * * *
993418 CACACAA TCACACA CACGCA CACACAA TCACACA CACGCA CA--CA CACGCA
1 CACGC-A -CACGCA CACGCA CACGC-A -CACGCA CACGCA CACGCA CACGCA
* * * * * * *
993468 CA--CA CACTCA CACACA CCTCACA CACACA CACGC- C-CACA CACGCT
1 CACGCA CACGCA CACGCA -CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * * * *
993513 CACACA CTCGCA CACACG CTCACA CACGCA CAC-AA CCAC-CA CACACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA -CACGCA CACGCA
* * * * * *
993560 CACACA CAC-CA CACACA CACACCA CACACA CACCACA CACTCA CACGCA
1 CACGCA CACGCA CACGCA CAC-GCA CACGCA CA-CGCA CACGCA CACGCA
* * * ** ** ** **
993609 CA--CA CGCGCA CATACACA CGCGCA CATACA CATTCA CATACA CATACA
1 CACGCA CACGCA C--ACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* ** * * ** * **
993657 CATGCA CATACA CATGCA CATGCA CA--CA CATACA CATGCA CATACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * *
993703 CATGCA CATGCA C-CTGCA CATGCA CACGCA CAAGCA CAAGCA CACGCA
1 CACGCA CACGCA CAC-GCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * *
993751 CACGCA CACGCA CCCGCA CACCCCA TCACACG CACGCA CACGCA CACGCGC
1 CACGCA CACGCA CACGCA CA-CGCA -CACGCA CACGCA CACGCA CACGC-A
* * ** *
993802 CACGCG CACCGCA CA--CA CAC-CA CAC-CC CATACA CACACA CCACGCA
1 CACGCA CA-CGCA CACGCA CACGCA CACGCA CACGCA CACGCA -CACGCA
* * * *
993848 CACGCGCA CACGGA CACACA CACACA CACTCA CAC-CA CA--CA CACGCA
1 CA--CGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * *
993895 AACGCA CAC-CA CACCCA CATACACA CACTCA CACGCA CACCCA CAACACA
1 CACGCA CACGCA CACGCA C--ACGCA CACGCA CACGCA CACGCA C-ACGCA
* * * *
993945 CAC-CA CACACA CACGCA CATC-CA CA--CA CACGCA CACACA CCCACA
1 CACGCA CACGCA CACGCA CA-CGCA CACGCA CACGCA CACGCA CACGCA
* * * * * *
993990 TACACA CACTCA CACGCA CACCCA CA-GACA CACGCA CACGCA CACACG
1 CACGCA CACGCA CACGCA CACGCA CACG-CA CACGCA CACGCA CACGCA
* * * ** * * * *
994038 CACACA CACACA CTCATA CACGCA CACACA CACGCA CACAGCC CACCCC
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CAC-GCA CACGCA
* * *
994087 CAC-CA CACCCA CA-ACA CACGCA CACGCA CACGCA CA--CA CACTCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * *
994131 TACGCA CGCACA CACG-A -ACACA CACG-A CCACGCG CACGCAAA CACACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA -CACGCA CACGC--A CACGCA
* * * * * *
994179 CGCGCA CACGCA CACACA CACACA CACCCA CAC-C- CACACA CATGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * *
994225 CACGCA CGCACGCA CGCACA CACGCA CGCACGCA CGCACA CACGCAAA
1 CACGCA --CACGCA CACGCA CACGCA --CACGCA CACGCA CACGC--A
* ** ** * *
994273 CACGCA CACACA CATACA CACATA CACGCA CACACA CACTCA CACGCATA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGC--A
* * * * * *
994323 CTATGCA CACGCA CACTCA CACTACA CACGCA CACCCA TA-GACA CACACA
1 C-ACGCA CACGCA CACGCA CAC-GCA CACGCA CACGCA CACG-CA CACGCA
* * * * * * *
994373 CACGTA CA--CA CACGCC CACACA CACCCA CACACA CACGCA CGCACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * ** * *
994419 CTACACA CTCACA CACGCA CACAAA CACGCACA CACGCA CACACA CACACATA
1 C-ACGCA CACGCA CACGCA CACGCA CACG--CA CACGCA CACGCA CACGC--A
* * * * * *
994472 CACGCA CA--CA C-CACA CACACA CACACA CACACA CACACA CACACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* ** * * *
994517 CACGCAAAA CACACA CACAAA TCACACA CACACA CACGCA CAAACACA
1 CACGC---A CACGCA CACGCA -CACGCA CACGCA CACGCA C--ACGCA
* * * * *
994565 CACACA CACACA CACTGCA CACGCA CA--CA C-CACA CACCCA CACGTA
1 CACGCA CACGCA CAC-GCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * * **
994611 CACCCA CACACA CAC-CA CACACA CACACA CACACA CACACA CACAAA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * * * * *
994658 CACACA CACACA CCCGCA CAC-C- CCCCCC CACACA CACACA CACACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * *
994704 CACGCA CACCCA CACACA CACGCA CACCCA CATAC-CA CACACA CACACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA C--ACGCA CACGCA CACGCA
* * * * * * * * *
994753 CAACACA CACACT CACCCA CAC-CA CACACA CACACC CACACA CACACA
1 C-ACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * *
994801 CAC-CA CTCACT CACGCA CGCACGCA CTCACCCA CACGCA CGCTCA CACGCA
1 CACGCA CACGCA CACGCA --CACGCA --CACGCA CACGCA CACGCA CACGCA
* * * * *
994852 C-CGCA C-C-TA CACGCA CATGCA CCACGCA CGCACA CACGCA CAAGCA
1 CACGCA CACGCA CACGCA CACGCA -CACGCA CACGCA CACGCA CACGCA
* * * * *
994898 CACTCA CATGCA CACGCA CGCACGCA CGCACGTA CGCACA CACGCA CACAG-A
1 CACGCA CACGCA CACGCA --CACGCA --CACGCA CACGCA CACGCA CAC-GCA
* * *
994950 CACAGACA CACACA CACGCA CGTACG-- CACGCA CGCACA CACGCAAA
1 CAC-G-CA CACGCA CACGCA C--ACGCA CACGCA CACGCA CACGC--A
* * * * *
994996 CACGCA CA--CA CACACA CACACA CACACA CACGCA CACGAA CATGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
** * *
995042 CACGCA CACGTGCA CACGCA TTCGTACA CACGCA CACCCA CA-GACA CACACA
1 CACGCA CAC--GCA CACGCA CACG--CA CACGCA CACGCA CACG-CA CACGCA
* * * * * * * *
995094 CACGCC CACACA CACCCA CA-GACA CACGCA CACACA TACCCC CACACA
1 CACGCA CACGCA CACGCA CACG-CA CACGCA CACGCA CACGCA CACGCA
* *** * *
995142 CACACA CACATG C-CTCA CACGCA CACGCA CACGCA CACGTA CACGCA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * * *
995189 CGCGCA CATGTA CGA-GCA CACACA CGCGCA CACGCA CGA-GCA CGCGCT
1 CACGCA CACGCA C-ACGCA CACGCA CACGCA CACGCA C-ACGCA CACGCA
** * * * * * * *
995237 CGTGCA CGCGCA CACGCA CGCGCA CATGCA CGCGCA CATGCA CGCACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * * * *
995285 CACGCA CTCCCA CACACC CACGCA CCACACA CACACA CAC-TA CACACA
1 CACGCA CACGCA CACGCA CACGCA -CACGCA CACGCA CACGCA CACGCA
* * * * *
995333 CACGCA CACACA AACAG-A CACACA CACGCA CACCCCA CATG-- CACGCA
1 CACGCA CACGCA CAC-GCA CACGCA CACGCA CA-CGCA CACGCA CACGCA
* * * * * *
995380 CGCACA CACGCA CACGCA CACCCA C-CCCA CACACA CACGCA CACACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * *
995427 CCAC-CA CACCTCA CACACA CACGCA CACACA CACGCA CACACA CACGCA
1 -CACGCA CA-CGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * * *
995476 CGTACACA CACACA CTCGCA CACGCG CA--CA TACGCG CACGCA CACACA
1 C--ACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
** * * * * * *
995524 CATACA CACAC- CTCGCT CA--CA CTCGCA CACGC- CACACA CCACACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA -CACGCA
* * * * * * *
995569 CACGCA CACACATA CACCCA CCCACT CACGCA CACGTAA CGTACGC- CATGCA
1 CACGCA CACGC--A CACGCA CACGCA CACGCA CACG-CA C--ACGCA CACGCA
* * * *
995621 CACACA CACCCCA CAC-CA CACGCA CACCCCATA CACACA CACGCA CA--CA
1 CACGCA CA-CGCA CACGCA CACGCA CA-CGC--A CACGCA CACGCA CACGCA
* * * *
995670 CACACA CACGCA CACGTA CA--CA CACGCA CACAC- CACACA CAC-CA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* *** * * * *
995714 CACCGCA CACGCACA CACGCG GGTGCA CACACA CACACA CACGCG CGCGCA
1 CA-CGCA CACG--CA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
** * *
995765 CACTCGCA CACGTGCA CACGTG CA--CA CACGCA CACACA CCCACACA
1 CA--CGCA CAC--GCA CACGCA CACGCA CACGCA CACGCA --CACGCA
995811 CACGCA CACGCA CACGCA CACG
1 CACGCA CACGCA CACGCA CACG
995833 TGTACGCGCA
Statistics
Matches: 3617, Mismatches: 747, Indels: 684
0.72 0.15 0.14
Matches are distributed among these distances:
3 5 0.00
4 144 0.04
5 253 0.07
6 2667 0.74
7 271 0.07
8 258 0.07
9 18 0.00
10 1 0.00
ACGTcount: A:0.37, C:0.49, G:0.09, T:0.04
Consensus pattern (6 bp):
CACGCA
Found at i:991132 original size:10 final size:10
Alignment explanation
Indices: 991054--991658 Score: 329
Period size: 10 Copynumber: 62.1 Consensus size: 10
991044 TACACACACA
991054 CACACGCACG
1 CACACGCACG
991064 --CACGCACG
1 CACACGCACG
991072 --CACGCACG
1 CACACGCACG
991080 CACGCACGCACG
1 CA--CACGCACG
991092 CACGCACGCACG
1 CA--CACGCACG
991104 CACGCACGCACG
1 CA--CACGCACG
991116 C-CACGCACG
1 CACACGCACG
991125 CACACGCACG
1 CACACGCACG
991135 CACACGCACAG
1 CACACGCAC-G
991146 CACACGCACG
1 CACACGCACG
991156 CACCACGCACG
1 CA-CACGCACG
991167 --CACGCACG
1 CACACGCACG
991175 CACGTACGCACG
1 CAC--ACGCACG
*
991187 CACACTCA--
1 CACACGCACG
* *
991195 CTCACGCACA
1 CACACGCACG
* *
991205 CAC-CACACA
1 CACACGCACG
*
991214 CTCACGC-CG
1 CACACGCACG
991223 CACTACG-ACG
1 CAC-ACGCACG
*
991233 CACACGCACA
1 CACACGCACG
991243 C-CACGCACG
1 CACACGCACG
* *
991252 CACACTCACT
1 CACACGCACG
*
991262 CACTCCGCACG
1 CAC-ACGCACG
* *
991273 C-CGCTCACG
1 CACACGCACG
* *
991282 CACCACACACT
1 CA-CACGCACG
* *
991293 CACTCACACG
1 CACACGCACG
*
991303 CAC-CACACG
1 CACACGCACG
*
991312 CACACACAACG
1 CACACGC-ACG
*
991323 CCCACGCACG
1 CACACGCACG
991333 CACACGCACG
1 CACACGCACG
*
991343 CACCACTCACG
1 CA-CACGCACG
* *
991354 CACACTCACT
1 CACACGCACG
*
991364 CACACTCACG
1 CACACGCACG
991374 CACACGCACG
1 CACACGCACG
*
991384 CACACGCACT
1 CACACGCACG
991394 CACACGCAC-
1 CACACGCACG
*
991403 CACAC-CACC
1 CACACGCACG
991412 CACACGCAC-
1 CACACGCACG
*
991421 CACACGCACA
1 CACACGCACG
*
991431 CACAC-CACA
1 CACACGCACG
*
991440 CACACGCACA
1 CACACGCACG
* *
991450 CACACACACA
1 CACACGCACG
*
991460 CACAC-CACA
1 CACACGCACG
** *
991469 CACAATCACA
1 CACACGCACG
*
991479 CACACGCACA
1 CACACGCACG
** *
991489 CACAATCACA
1 CACACGCACG
* *
991499 CAC-CTCACA
1 CACACGCACG
*
991508 CACACGCACA
1 CACACGCACG
*
991518 CACAC-CACA
1 CACACGCACG
991527 CACACCGCA--
1 CACA-CGCACG
* * *
991536 CACACTCTCA
1 CACACGCACG
991546 CACACGCA--
1 CACACGCACG
* *
991554 CACACGCGCA
1 CACACGCACG
* *
991564 CACACGCGCA
1 CACACGCACG
* *
991574 CACACGCGCA
1 CACACGCACG
991584 CACACGCAC-
1 CACACGCACG
*
991593 CACAC-CACA
1 CACACGCACG
*
991602 CACACGCACA
1 CACACGCACG
991612 CACACGCA--
1 CACACGCACG
*
991620 CACAC-CACA
1 CACACGCACG
*
991629 CAC-CACACG
1 CACACGCACG
991638 CACACGCACG
1 CACACGCACG
* *
991648 CGCATGCACG
1 CACACGCACG
991658 C
1 C
991659 GCACATACAC
Statistics
Matches: 504, Mismatches: 49, Indels: 84
0.79 0.08 0.13
Matches are distributed among these distances:
7 2 0.00
8 51 0.10
9 120 0.24
10 239 0.47
11 49 0.10
12 43 0.09
ACGTcount: A:0.32, C:0.51, G:0.13, T:0.04
Consensus pattern (10 bp):
CACACGCACG
Found at i:991987 original size:14 final size:14
Alignment explanation
Indices: 991874--995731 Score: 1818
Period size: 14 Copynumber: 280.2 Consensus size: 14
991864 CACGCGCACG
* *
991874 CACACGCACACCCA
1 CACACACACACACA
* *
991888 CATACACACACACG
1 CACACACACACACA
* * *
991902 CACACGCGCACACG
1 CACACACACACACA
* *
991916 GACACACACGCACA
1 CACACACACACACA
* *
991930 CACGCACACGCACA
1 CACACACACACACA
* * * *
991944 CGCACACGCAAACG
1 CACACACACACACA
* *
991958 CACACGCACACCCA
1 CACACACACACACA
* *
991972 CATACACACACTCA
1 CACACACACACACA
* *
991986 CACGCACACCCACA
1 CACACACACACACA
* *
992000 CAGACACACACGCA
1 CACACACACACACA
*
992014 CACACACACACGCA
1 CACACACACACACA
** *
992028 CATGCACACGCACA
1 CACACACACACACA
* * *
992042 CGCACACGCACACC
1 CACACACACACACA
* *
992056 CACATACACACACT
1 CACACACACACACA
* *
992070 CACACGCACACCCA
1 CACACACACACACA
* *
992084 CAGACACACGCACA
1 CACACACACACACA
* *
992098 CGCACACACGCACA
1 CACACACACACACA
* * * *
992112 CGCACACGCATACG
1 CACACACACACACA
** * *
992126 CACATGCGCACACG
1 CACACACACACACA
*
992140 CACACACACACGCA
1 CACACACACACACA
*
992154 CACCCACAGC-CACA
1 CACACACA-CACACA
* *
992168 CCCGCACGA-ACACA
1 CACACAC-ACACACA
* * *
992182 CGCACACGCACACG
1 CACACACACACACA
* *
992196 CACACACACTCATA
1 CACACACACACACA
* *
992210 CTCACTCACACACGA
1 CACACACACACAC-A
992225 -ACACACACTAC-CA
1 CACACACAC-ACACA
* * * *
992238 CGCTCACTCAAACA
1 CACACACACACACA
* * *
992252 CACACTCTCACACG
1 CACACACACACACA
*
992266 CACACACACACACC
1 CACACACACACACA
* *
992280 CACCCACACCCAC-
1 CACACACACACACA
* * *
992293 CACTTCACACTCACT
1 CAC-ACACACACACA
* *
992308 CACACTCACTCACA
1 CACACACACACACA
* *
992322 CACGCAC-CACGCA
1 CACACACACACACA
*
992335 CGCACACAC-CA-A
1 CACACACACACACA
*
992347 CACTCACACAC-CA
1 CACACACACACACA
* *
992360 -ACACACATACACT
1 CACACACACACACA
*
992373 CACACACACACGCA
1 CACACACACACACA
* *
992387 CACGCATACGA-ACA
1 CACACACAC-ACACA
** * *
992401 TGCACACGCACACT
1 CACACACACACACA
* *
992415 CACACTCACACGCA
1 CACACACACACACA
* *
992429 CAC-CATATACACA
1 CACACACACACACA
**
992442 CACACACGTACACA
1 CACACACACACACA
* * *
992456 CACTCCCACACACC
1 CACACACACACACA
992470 CACACACACAC-CA
1 CACACACACACACA
* *
992483 CACGCACACACTCA
1 CACACACACACACA
* * *
992497 TACACGCACACACG
1 CACACACACACACA
*
992511 CACACACGCACACA
1 CACACACACACACA
* * *
992525 CGCACACACGCATA
1 CACACACACACACA
* *
992539 CACGCACACACGCA
1 CACACACACACACA
992553 CACACGACACACACA
1 CACAC-ACACACACA
*
992568 C-CACACACTCACA
1 CACACACACACACA
*
992581 CACACACACTCA-A
1 CACACACACACACA
*
992594 AACACACACACACA
1 CACACACACACACA
*
992608 -AAAGCACACACACA
1 CACA-CACACACACA
*
992622 C-CACAAACACACA
1 CACACACACACACA
992635 CACACACACACACA
1 CACACACACACACA
** *
992649 CATTCACACGCACA
1 CACACACACACACA
* *
992663 C-CTCACACCCACA
1 CACACACACACACA
*
992676 CTACACCCACACAC-
1 C-ACACACACACACA
*
992690 CACACTCACACACA
1 CACACACACACACA
992704 CACACAC-CACACA
1 CACACACACACACA
992717 CACACACACA-ACA
1 CACACACACACACA
*
992730 CACACACACACACT
1 CACACACACACACA
* * *
992744 CACACCCCCCCACA
1 CACACACACACACA
992758 CACACACACACACA
1 CACACACACACACA
*
992772 CACACCCACACACA
1 CACACACACACACA
* *
992786 C-CACGCACACCCA
1 CACACACACACACA
*
992799 CAGACACACACACA
1 CACACACACACACA
992813 C-CACACACACACA
1 CACACACACACACA
* *
992826 CACACACTCACCCA
1 CACACACACACACA
*
992840 CACACTCACACACA
1 CACACACACACACA
*
992854 CCCACAC-CACACA
1 CACACACACACACA
*
992867 C-CACACTCACAC-
1 CACACACACACACA
992879 CACAC-CACACACA
1 CACACACACACACA
*
992892 CACACGCACACACA
1 CACACACACACACA
* *
992906 CACGCACACAAACA
1 CACACACACACACA
*
992920 CACACACACACACG
1 CACACACACACACA
* * *
992934 CACAC-CCCCCCCA
1 CACACACACACACA
992947 CACACACACACACA
1 CACACACACACACA
* *
992961 CACACGCACACCCA
1 CACACACACACACA
*
992975 CACACACACGCACA
1 CACACACACACACA
*
992989 CCCACACACAC-CA
1 CACACACACACACA
993002 CACACACACGACACA
1 CACACACAC-ACACA
* *
993017 CACACGCACCCACA
1 CACACACACACACA
* *
993031 CACTCA-ACACACC
1 CACACACACACACA
993044 CACACACACACACA
1 CACACACACACACA
* * *
993058 CACTCACACGCACG
1 CACACACACACACA
* * *
993072 CACGCACGCACGCA
1 CACACACACACACA
* * *
993086 CGCACGCACACACG
1 CACACACACACACA
* *
993100 CACGCTCACAC-CA
1 CACACACACACACA
* * *
993113 CGCGCAC-CTAC-CG
1 CACACACAC-ACACA
** *
993126 CACATGCACACGCA
1 CACACACACACACA
* *
993140 CGCACGCACACACA
1 CACACACACACACA
*
993154 CACA-ACACACTCA
1 CACACACACACACA
** *
993167 CATGCACACGCACA
1 CACACACACACACA
*
993181 CAC-CACGCACAC-
1 CACACACACACACA
*
993193 CACAC-CACGACGCA
1 CACACACAC-ACACA
*
993207 CACGC-CAC-CACA
1 CACACACACACACA
* * *
993219 CACGCACACGCACT
1 CACACACACACACA
* *
993233 CACTCACACACGCA
1 CACACACACACACA
* * * *
993247 CGCACGCACTCGCA
1 CACACACACACACA
* *
993261 CGCACACTCACACA
1 CACACACACACACA
*
993275 CACACACACGCACA
1 CACACACACACACA
* * *
993289 TCACGCACGCACACC
1 -CACACACACACACA
* *
993304 CGCAC-CACACTCA
1 CACACACACACACA
* *
993317 -ACGCACACGCAC-
1 CACACACACACACA
* * *
993329 CACTCACGCACACG
1 CACACACACACACA
*
993343 CACAC-CACGCACA
1 CACACACACACACA
* * *
993356 CGCACACACTCACC
1 CACACACACACACA
993370 CACACAC-CAGCACA
1 CACACACACA-CACA
*
993384 CACACTCACACACA
1 CACACACACACACA
*
993398 CGCACACACACACA
1 CACACACACACACA
*
993412 CACGCACACACA-A
1 CACACACACACACA
*
993425 TCACACACACGCACA
1 -CACACACACACACA
993440 CACA-ATCACACACA
1 CACACA-CACACACA
* *
993454 CGCACACACACGCA
1 CACACACACACACA
*
993468 CACACACTCACACA
1 CACACACACACACA
*
993482 CAC-CTCACACACA
1 CACACACACACACA
* *
993495 CACACGCCCACACA
1 CACACACACACACA
* * * *
993509 CGCTCACACACTCG
1 CACACACACACACA
* *
993523 CACACACGCTCACA
1 CACACACACACACA
*
993537 CACGCACACA-AC-
1 CACACACACACACA
993549 CAC-CACACACACA
1 CACACACACACACA
993562 CACACAC-CACACA
1 CACACACACACACA
993575 CACACAC-CACACA
1 CACACACACACACA
*
993588 CACAC-CACACACT
1 CACACACACACACA
* *
993601 CACACGCACACACG
1 CACACACACACACA
* * *
993615 CGCACATACACACG
1 CACACACACACACA
* * **
993629 CGCACATACACATT
1 CACACACACACACA
* *
993643 CACATACACATACA
1 CACACACACACACA
** *
993657 CATGCACATACACA
1 CACACACACACACA
** **
993671 TGCACATGCACACA
1 CACACACACACACA
* **
993685 CATACACATGCACA
1 CACACACACACACA
* ** **
993699 TACACATGCACATG
1 CACACACACACACA
* **
993713 CAC-CTGCACATGCA
1 CACAC-ACACACACA
*
993727 CACGCACA-AGCACA
1 CACACACACA-CACA
* *
993741 -AGCACACGCACACG
1 CA-CACACACACACA
* * *
993755 CACACGCACCCGCA
1 CACACACACACACA
* *
993769 CAC-CCCATCACACG
1 CACACACA-CACACA
* *
993783 CACGCACACGCACA
1 CACACACACACACA
* * * *
993797 CGCGC-CACGCGCA
1 CACACACACACACA
*
993810 C-CGCACACACAC-
1 CACACACACACACA
* *
993822 CACAC-CCCATACA
1 CACACACACACACA
*
993835 CACACAC-CACGCA
1 CACACACACACACA
* * **
993848 CACGCGCACACGGA
1 CACACACACACACA
993862 CACACACACACACA
1 CACACACACACACA
*
993876 CTCACAC-CACACA
1 CACACACACACACA
* * *
993889 CACGCAAACGCACA
1 CACACACACACACA
* *
993903 C-CACACCCACATA
1 CACACACACACACA
* *
993916 CACACACTCACACG
1 CACACACACACACA
*
993930 CACACCCACA-ACA
1 CACACACACACACA
993943 CACAC-CACACACA
1 CACACACACACACA
*
993956 CACGCACATC-CACA
1 CACACACA-CACACA
*
993970 CACACGCACACACA
1 CACACACACACACA
* *
993984 CCCACATACACACA
1 CACACACACACACA
* * *
993998 CTCACACGCACACC
1 CACACACACACACA
* *
994012 CACAGACACACGCA
1 CACACACACACACA
* *
994026 CACGCACACACGCA
1 CACACACACACACA
*
994040 CACACACACACTCA
1 CACACACACACACA
* *
994054 TACACGCACACACA
1 CACACACACACACA
* *
994068 CACGCACACAGCCCA
1 CACACACACA-CACA
* * *
994083 CCCCCAC-CACACC
1 CACACACACACACA
*
994096 CACA-ACACACGCA
1 CACACACACACACA
* *
994109 CACGCACACGCACA
1 CACACACACACACA
* * *
994123 CACACTCATACGCA
1 CACACACACACACA
*
994137 CGCACACACGA-ACA
1 CACACACAC-ACACA
* *
994151 CACACGAC-CACGCG
1 CACAC-ACACACACA
* *
994165 CACGCAAACACACA
1 CACACACACACACA
* * *
994179 CGCGCACACGCACA
1 CACACACACACACA
*
994193 CACACACACACACC
1 CACACACACACACA
*
994207 CACACCCACACACA
1 CACACACACACACA
** * *
994221 TGCACACGCACGCA
1 CACACACACACACA
* * *
994235 CGCACGCACACACG
1 CACACACACACACA
* * *
994249 CACGCACGCACGCA
1 CACACACACACACA
* * *
994263 CACACGCAAACACG
1 CACACACACACACA
*
994277 CACACACACATACA
1 CACACACACACACA
* *
994291 CACATACACGCACA
1 CACACACACACACA
* *
994305 CACACACTCACACG
1 CACACACACACACA
* ** *
994319 CATACTATGCACACG
1 CACAC-ACACACACA
*
994334 CACACTCACACTACA
1 CACACACACAC-ACA
* * *
994349 CACGCACACCCATA
1 CACACACACACACA
* *
994363 GACACACACACACG
1 CACACACACACACA
* * *
994377 TACACACACGCCCA
1 CACACACACACACA
*
994391 CACACACCCACACA
1 CACACACACACACA
* *
994405 CACACGCACGCACA
1 CACACACACACACA
*
994419 CTACACACTCACACA
1 C-ACACACACACACA
* * *
994434 CGCACACAAACACG
1 CACACACACACACA
*
994448 CACACACGCACACA
1 CACACACACACACA
* *
994462 CACACACATACACG
1 CACACACACACACA
994476 CACACAC-CACACA
1 CACACACACACACA
994489 CACACACACACACA
1 CACACACACACACA
994503 CACACACACACACA
1 CACACACACACACA
* *
994517 CACGCA-AAACACA
1 CACACACACACACA
*
994530 CACACAAATCACACA
1 CACACACA-CACACA
*
994545 CACACACACGCACA
1 CACACACACACACA
*
994559 AACACACACACACA
1 CACACACACACACA
* *
994573 CACACACTGCACACG
1 CACACAC-ACACACA
994588 CACACAC-CACACA
1 CACACACACACACA
* ** *
994601 CCCACACGTACACC
1 CACACACACACACA
994615 CACACACACAC-CA
1 CACACACACACACA
994628 CACACACACACACA
1 CACACACACACACA
994642 CACACACACACACA
1 CACACACACACACA
*
994656 AACACACACACACA
1 CACACACACACACA
* * * * *
994670 CCCGCACACCCCCC
1 CACACACACACACA
*
994684 CCCACACACACACA
1 CACACACACACACA
*
994698 CACACACACGCACA
1 CACACACACACACA
* *
994712 CCCACACACACACG
1 CACACACACACACA
* *
994726 CACACCCACATAC-
1 CACACACACACACA
994739 CACACACACACACA
1 CACACACACACACA
*
994753 CA-ACACACACACT
1 CACACACACACACA
*
994766 CACCCACAC-CACA
1 CACACACACACACA
*
994779 CACACACACCCACA
1 CACACACACACACA
994793 CACACACACAC-CA
1 CACACACACACACA
* * * *
994806 CTCACTCACGCACG
1 CACACACACACACA
* * *
994820 CACGCACTCACCCA
1 CACACACACACACA
* * *
994834 CACGCACGCTCACA
1 CACACACACACACA
* *
994848 CGCAC-CGCAC-CTA
1 CACACACACACAC-A
* **
994861 CACGCACATGCAC-
1 CACACACACACACA
* *
994874 CACGCACGCACACA
1 CACACACACACACA
* *
994888 CGCACA-AGCACACT
1 CACACACA-CACACA
** *
994902 CACATGCACACGCA
1 CACACACACACACA
* * * *
994916 CGCACGCACGCACG
1 CACACACACACACA
* * *
994930 TACGCACACACGCA
1 CACACACACACACA
* *
994944 CACAGACACAGACA
1 CACACACACACACA
* *
994958 CACACACACGCACG
1 CACACACACACACA
* * * *
994972 TACGCACGCACGCA
1 CACACACACACACA
* * *
994986 CACACGCAAACACG
1 CACACACACACACA
995000 CACACACACACACA
1 CACACACACACACA
*
995014 CACACACACACACG
1 CACACACACACACA
**
995028 CACACGA-ACATGCA
1 CACAC-ACACACACA
* ***
995042 CACGCACACGTGCA
1 CACACACACACACA
* ** **
995056 CACGCATTCGTACA
1 CACACACACACACA
* *
995070 CACGCACACCCACA
1 CACACACACACACA
* *
995084 GACACACACACACG
1 CACACACACACACA
* *
995098 CCCACACACACCCA
1 CACACACACACACA
* *
995112 CAGACACACGCACA
1 CACACACACACACA
* * *
995126 CACATACCCCCACA
1 CACACACACACACA
**
995140 CACACACACACATG
1 CACACACACACACA
* *
995154 C-CTCACACGCACA
1 CACACACACACACA
* * *
995167 CGCACACGCACACG
1 CACACACACACACA
* * * *
995181 TACACGCACGCGCA
1 CACACACACACACA
***
995195 CATGTACGAGCACACA
1 CACACAC-A-CACACA
* * *
995211 CACGCGCACACGCA
1 CACACACACACACA
* * * ***
995225 CGAGCACGCGCTCGTG
1 C-A-CACACACACACA
* * *
995241 CACGCGCACACGCA
1 CACACACACACACA
* * ** *
995255 CGCGCACATGCACG
1 CACACACACACACA
* ** *
995269 CGCACATGCACGCA
1 CACACACACACACA
* * *
995283 CACACGCACTCCCA
1 CACACACACACACA
* *
995297 CACACCCACGCAC-
1 CACACACACACACA
995310 CACACACACACACA
1 CACACACACACACA
*
995324 CTACACACACACGCA
1 C-ACACACACACACA
* *
995339 CACACAAACAGACA
1 CACACACACACACA
*
995353 CACACACGCACAC-
1 CACACACACACACA
* ** *
995366 CCCACATGCACGCA
1 CACACACACACACA
* *
995380 CGCACACACGCACA
1 CACACACACACACA
* * *
995394 CGCACACCCAC-CC
1 CACACACACACACA
*
995407 CACACACACACGCA
1 CACACACACACACA
995421 CACACAC-CAC-CA
1 CACACACACACACA
*
995433 CAC-CTCACACACA
1 CACACACACACACA
*
995446 CACGCACACACACA
1 CACACACACACACA
* *
995460 CGCACACACACACG
1 CACACACACACACA
**
995474 CACGTACACACACA
1 CACACACACACACA
* * * *
995488 CACTCGCACACGCG
1 CACACACACACACA
* * * *
995502 CACATACGCGCACG
1 CACACACACACACA
*
995516 CACACACACATACA
1 CACACACACACACA
* * *
995530 CACAC-CTCGCTCA
1 CACACACACACACA
* * *
995543 CACTCGCACACGC-
1 CACACACACACACA
995556 CACACAC-CACACA
1 CACACACACACACA
* *
995569 CACGCACACACATA
1 CACACACACACACA
* * *
995583 CACCCACCCACTCA
1 CACACACACACACA
* ** *
995597 CGCACACGTA-ACG
1 CACACACACACACA
* * **
995610 TACGC-CATGCACA
1 CACACACACACACA
*
995623 CACACAC-CCCACA
1 CACACACACACACA
*
995636 C-CACACGCACAC-
1 CACACACACACACA
* *
995648 CCCATACACACACA
1 CACACACACACACA
*
995662 CGCACACACACACA
1 CACACACACACACA
* **
995676 CACGCACACGTACA
1 CACACACACACACA
*
995690 CACACGCACACAC-
1 CACACACACACACA
995703 CACACACAC-CACA
1 CACACACACACACA
* *
995716 C-CGCACACGCACA
1 CACACACACACACA
995729 CAC
1 CAC
995732 GCGGGTGCAC
Statistics
Matches: 2803, Mismatches: 905, Indels: 272
0.70 0.23 0.07
Matches are distributed among these distances:
11 8 0.00
12 95 0.03
13 605 0.22
14 1935 0.69
15 144 0.05
16 16 0.01
ACGTcount: A:0.38, C:0.49, G:0.08, T:0.04
Consensus pattern (14 bp):
CACACACACACACA
Found at i:994853 original size:22 final size:22
Alignment explanation
Indices: 994369--995020 Score: 106
Period size: 22 Copynumber: 29.3 Consensus size: 22
994359 CATAGACACA
* * * *
994369 CACACACGTACACACACGCCCA
1 CACACACGCACCCACACGCACG
*
994391 CACACACCCACACACACACGCACG
1 CACACACGCAC-C-CACACGCACG
* *
994415 CACACTACACACTCACACACGCACA
1 CACAC-ACGCAC-C-CACACGCACG
*
994440 CAAACACGCA--CACACGCA--
1 CACACACGCACCCACACGCACG
* ** *
994458 CACACACACACATACACGCACA
1 CACACACGCACCCACACGCACG
* * * *
994480 CACCACACACACACACACACACA
1 CA-CACACGCACCCACACGCACG
* * *
994503 CACACACACACACACACGCA-A
1 CACACACGCACCCACACGCACG
* * ** * *
994524 AACACACACACAAATCACACACA
1 CACACACGCACCCA-CACGCACG
** * *
994547 CACACACGCACAAACACACACA
1 CACACACGCACCCACACGCACG
* * *
994569 CACACACACACTGCACACGCACA
1 CACACACGCAC-CCACACGCACG
* *
994592 CAC-CACACACCCACACGTACACC
1 CACACACGCACCCACACG--CACG
* * *
994615 CACACACACACCACACACACACA
1 CACACACGCACC-CACACGCACG
* * ** *
994638 CACACACACACACACACAAACA
1 CACACACGCACCCACACGCACG
* * * *
994660 CACACACACACCCGCACACCCCCCCC
1 CACACACGCA-CC-CACA--CGCACG
* * *
994686 CACACACACACACACACACACG
1 CACACACGCACCCACACGCACG
* * * *
994708 CACACCCACACACACACGCACACC
1 CACACACGCACCCACACG--CACG
* * * *
994732 CACATAC-CACACACACACACA
1 CACACACGCACCCACACGCACG
* * * *
994753 CAACACACACACTCACCCACAC-
1 C-ACACACGCACCCACACGCACG
* * *
994775 CACACACACACACC-CACACACA
1 CACACACGCAC-CCACACGCACG
*
994797 CACACAC-CACTCACTCACGCACG
1 CACACACGCAC-C-CACACGCACG
* *
994820 CACGCACTCACCCACACGCACG
1 CACACACGCACCCACACGCACG
* *
994842 CTCACACGCACCGCAC-CTACACG
1 CACACACGCACC-CACAC-GCACG
*
994865 --CACATGCA--C-CACGCACG
1 CACACACGCACCCACACGCACG
* * *
994882 CACACACGCACAAGCACACTCACA
1 CACACACGCAC--CCACACGCACG
** *
994906 TGCACACGCA--CGCACGCACG
1 CACACACGCACCCACACGCACG
** *
994926 CACGTACGCA--CACACGCACA
1 CACACACGCACCCACACGCACG
*
994946 CAGACACAGACACACACACACGCACG
1 CACACAC-G-CAC-C-CACACGCACG
* * *
994972 TACGCACGCACGCACA--CACG
1 CACACACGCACCCACACGCACG
* * * *
994992 CAAACACGCACACACACACACA
1 CACACACGCACCCACACGCACG
995014 CACACAC
1 CACACAC
995021 ACACACGCAC
Statistics
Matches: 493, Mismatches: 91, Indels: 92
0.73 0.13 0.14
Matches are distributed among these distances:
17 5 0.01
18 10 0.02
19 7 0.01
20 56 0.11
21 51 0.10
22 145 0.29
23 106 0.22
24 61 0.12
25 27 0.05
26 25 0.05
ACGTcount: A:0.40, C:0.50, G:0.07, T:0.03
Consensus pattern (22 bp):
CACACACGCACCCACACGCACG
Found at i:995378 original size:41 final size:41
Alignment explanation
Indices: 995295--995831 Score: 187
Period size: 41 Copynumber: 12.4 Consensus size: 41
995285 CACGCACTCC
** **
995295 CACACACCCACGCACCACACACACACACACTACACACACACG
1 CACACACAAACGCA-CACACACACACACACCCCACACACACG
* **
995337 CACACACAAACAG-ACACACACACGCACACCCCACATGCACG
1 CACACACAAAC-GCACACACACACACACACCCCACACACACG
* * * *
995378 CACGCACACACGCACACGCACACCCAC-CCCACACACACACG
1 CACACACAAACGCACACACACACACACACCC-CACACACACG
* * *
995419 CACACACACCAC-CACACCTCACACACACACGCACACACACACG
1 CACACACA-AACGCACA-CACACACACACAC-CCCACACACACG
* ** * * *
995462 CACACACACACGCACGTACACACACACA-CTCGCACACGCG
1 CACACACAAACGCACACACACACACACACCCCACACACACG
* ** * *
995502 CACATACGCGCACGCACACACACATACACACACCTCGCTCACACTCG
1 CAC--ACACAAACGCACACACAC--ACACACACC-C-CACACACACG
* *
995549 CACACGCCACACAC-CACACACACGCACACACATACACCCACCCACTCACG
1 CACA---CACAAACGCACACACA--CACACAC--AC-CCCA--CACACACG
** * *
995599 CACAC-GTAACGTACGC-CATGCACACACACACCCCACACCACACG
1 CACACACAAACGCACACACA--CACA--CACACCCCACA-CACACG
* * * * * *
995643 CACACCCCATACACACACACGCACACACACACACACGCACACG
1 CACA-CACAAACGCACACACACACACACAC-CCCACACACACG
* * *
995686 TACACAC--ACGCACACAC-CACACACACCACACCGCACACG
1 CACACACAAACGCACACACACACACACACCCCA-CACACACG
**** * *
995725 CACACACGCGGGTGCACACACACACACACACGCGCGCGCACACTCG
1 CACACA--CAAACGCACACACACACACACAC-C-C-CACACACACG
* * *
995771 CACACGTGCACACGTGCACACACGCACACACA-CCCACACACACG
1 CACAC--ACAAAC--GCACACACACACACACACCCCACACACACG
* *
995815 CACACGCACACGCACAC
1 CACACACAAACGCACAC
995832 GTGTACGCGC
Statistics
Matches: 380, Mismatches: 69, Indels: 94
0.70 0.13 0.17
Matches are distributed among these distances:
38 4 0.01
39 22 0.06
40 31 0.08
41 63 0.17
42 57 0.15
43 47 0.12
44 43 0.11
45 13 0.03
46 29 0.08
47 31 0.08
48 25 0.07
49 4 0.01
50 11 0.03
ACGTcount: A:0.36, C:0.50, G:0.10, T:0.04
Consensus pattern (41 bp):
CACACACAAACGCACACACACACACACACCCCACACACACG
Found at i:995751 original size:4 final size:4
Alignment explanation
Indices: 991285--995731 Score: 1938
Period size: 4 Copynumber: 1131.8 Consensus size: 4
991275 GCTCACGCAC
* * * * * * *
991285 CACA CACT CACT CACA CGCA C-CA CACG CACA CACA -ACG CCCA CGCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * *
991331 CGCA CACG CACG CAC- CACT CACG CACA CTCA CTCA CACT CACG CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *
991378 CGCA CGCA CACG CACT CACA CGCA C-CA CAC- CACC CACA CGCA C-CA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* *
991423 CACG CACA CACA C-CA CACA CACG CACA CACA CACA CACA CAC- CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * *
991469 CACA -ATCA CACA CACG CACA CACA -ATCA CACA C-CT CACA CACA CGCA
1 CACA CA-CA CACA CACA CACA CACA CA-CA CACA CACA CACA CACA CACA
* * * * * *
991516 CACA CAC- CACA CACA C-CG CACA CACT CTCA CACA CGCA CACA CGCG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * *
991562 CACA CACG CGCA CACA CGCG CACA CACG CAC- CACA C-CA CACA CACG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * **
991608 CACA CACA CGCA CACA C-CA CACA C-CA CACG CACA CGCA CGCG CATG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * ** * *
991654 CACG CGCA CATA CACA CACG CGCA CATA CACA TGCA CATA CACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
** * ** ** ** * ** *
991702 CATG CACA TACA CATG CACA TGCA CATG CACA TACA CATG CACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
** ** * ** * *
991750 CATG CACA TGCA C-CTG CACA TGCA CACG CACA -AGCA CA-A GCACA CGCA
1 CACA CACA CACA CAC-A CACA CACA CACA CACA CA-CA CACA -CACA CACA
* * * * * * ** * *
991798 CACG CACA CGCA CACG TACA CGCA CACC CACA TGCA CACG CACA CGCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * * * *
991846 CACG CACA CGCG CACG CGCA CGCG CACG CACA CGCA CACC CACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * ** * * *
991894 CACA CACG CACA CGCG CACA CGGA CACA CACG CACA CACG CACA CGCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * *
991942 CACG CACA CGCA AACG CACA CGCA CACC CACA TACA CACA CTCA CACG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * ** *
991990 CACA CCCA CACA GACA CACA CGCA CACA CACA CACG CACA TGCA CACG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *
992038 CACA CGCA CACG CACA CCCA CATA CACA CACT CACA CGCA CACC CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * ** *
992086 GACA CACG CACA CGCA CACA CGCA CACG CACA CGCA TACG CACA TGCG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * *
992134 CACA CGCA CACA CACA CGCA CACC CACA GC-CA CACC CGCA CGA-A CACA
1 CACA CACA CACA CACA CACA CACA CACA -CACA CACA CACA C-ACA CACA
* * * * * * *
992182 CGCA CACG CACA CGCA CACA CACT CATA CTCA CTCA CACA CGA-A CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA C-ACA CACA
* * * * * * *
992230 CACTA C-CA CGCT CACT CAAA CACA CACT CTCA CACG CACA CACA CACA
1 CAC-A CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * *
992278 CCCA CCCA CACC CAC- CACTT CACA CTCA CTCA CACT CACT CACA CACG
1 CACA CACA CACA CACA CAC-A CACA CACA CACA CACA CACA CACA CACA
* * * *
992326 CAC- CACG CACG CACA CAC- CA-A CACT CACA CAC- CA-A CACA CATA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * ** * *
992369 CACT CACA CACA CACG CACA CGCA TACGA -ACA TGCA CACG CACA CTCA
1 CACA CACA CACA CACA CACA CACA CAC-A CACA CACA CACA CACA CACA
* * * * ** * *
992417 CACT CACA CGCA CAC- CATA TACA CACA CACA CGTA CACA CACT CCCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * *
992464 CACA CCCA CACA CACA C-CA CACG CACA CACT CATA CACG CACA CACG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * *
992511 CACA CACG CACA CACG CACA CACG CATA CACG CACA CACG CACA CACGA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CAC-A
* * *
992560 CACA CACA C-CA CACA CTCA CACA CACA CACT CA-A AACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * **
992606 CA-A AAGCA CACA CACA C-CA CAAA CACA CACA CACA CACA CACA CATT
1 CACA CA-CA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * *
992653 CACA CGCA CAC- CTCA CACC CACA CTACA CCCA CACA C-CA CACT CACA
1 CACA CACA CACA CACA CACA CACA C-ACA CACA CACA CACA CACA CACA
*
992700 CACA CACA CAC- CACA CACA CACA CACA -ACA CACA CACA CACA CTCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * *
992746 CACC CCCC CACA CACA CACA CACA CACA CACC CACA CACA C-CA CGCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * *
992793 CACC CACA GACA CACA CACA C-CA CACA CACA CACA CACA CTCA CCCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * *
992840 CACA CTCA CACA CACC CACA C-CA CACA C-CA CACT CACA C-CA CAC-
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * *
992884 CACA CACA CACA CGCA CACA CACA CGCA CACA AACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * *
992932 CGCA CAC- CCCC CCCA CACA CACA CACA CACA CACG CACA CCCA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * *
992979 CACA CGCA CACC CACA CACA C-CA CACA CACA CGACA CACA CACG CACC
1 CACA CACA CACA CACA CACA CACA CACA CACA C-ACA CACA CACA CACA
* * * * *
993027 CACA CACT CA-A CACA CCCA CACA CACA CACA CACT CACA CGCA CGCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * * *
993074 CGCA CGCA CGCA CGCA CGCA CACA CGCA CGCT CACA C-CA CGCG CAC-
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* ** * * * *
993120 CTAC- CGCA CATG CACA CGCA CGCA CGCA CACA CACA CA-A CACA CTCA
1 C-ACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
** * * * *
993167 CATG CACA CGCA CACA C-CA CGCA CAC- CACA C-CA CGACG CACA CGC-
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA C-ACA CACA CACA
* * * * * * * * *
993212 CAC- CACA CACG CACA CGCA CTCA CTCA CACA CGCA CGCA CGCA CTCG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *
993259 CACG CACA CTCA CACA CACA CACA CGCA CATCA CGCA CGCA CACC CGCA
1 CACA CACA CACA CACA CACA CACA CACA CA-CA CACA CACA CACA CACA
* * * * * * *
993308 C-CA CACT CA-A CGCA CACG CAC- CACT CACG CACA CGCA CAC- CACG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * *
993352 CACA CGCA CACA CTCA CCCA CACA C-CA GCACA CACA CTCA CACA CACG
1 CACA CACA CACA CACA CACA CACA CACA -CACA CACA CACA CACA CACA
* *
993400 CACA CACA CACA CACG CACA CACA -ATCA CACA CACG CACA CACA -ATCA
1 CACA CACA CACA CACA CACA CACA CA-CA CACA CACA CACA CACA CA-CA
* * * *
993448 CACA CACG CACA CACA CGCA CACA CACT CACA CACA C-CT CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * *
993495 CACA CGCC CACA CACG CTCA CACA CTCG CACA CACG CTCA CACA CGCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
993543 CACA -AC- CAC- CACA CACA CACA CACA C-CA CACA CACA CAC- CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *
993586 CACA CAC- CACA CACT CACA CGCA CACA CGCG CACA TACA CACG CGCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* ** * * ** * ** **
993633 CATA CACA TTCA CATA CACA TACA CATG CACA TACA CATG CACA TGCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* ** * ** ** * **
993681 CACA CATA CACA TGCA CATA CACA TGCA CATG CAC- CTGCA CATG CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA C-ACA CACA CACA
* * * * * * *
993729 CGCA CA-A GCACA -AGCA CACG CACA CGCA CACG CACC CGCA CAC- CCCA
1 CACA CACA -CACA CA-CA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * *
993776 TCACA CGCA CGCA CACG CACA CGCG C-CA CGCG CAC- CGCA CACA CAC-
1 -CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *
993822 CACA C-CC CATA CACA CACA C-CA CGCA CACG CGCA CACG GACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * *
993868 CACA CACA CTCA CAC- CACA CACA CGCA AACG CACA C-CA CACC CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * *
993914 TACA CACA CTCA CACG CACA CCCA CA-A CACA CAC- CACA CACA CACG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * *
993960 CACA TC-CA CACA CACG CACA CACA CCCA CATA CACA CACT CACA CGCA
1 CACA -CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *
994008 CACC CACA GACA CACG CACA CGCA CACA CGCA CACA CACA CACT CATA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * *
994056 CACG CACA CACA CACG CACA CAGCC CACC CCCA C-CA CACC CACA -ACA
1 CACA CACA CACA CACA CACA CA-CA CACA CACA CACA CACA CACA CACA
* * * * * * *
994103 CACG CACA CGCA CACG CACA CACA CTCA TACG CACG CACA CACGA -ACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CAC-A CACA
* * * * * * *
994151 CACA CGAC- CACG CGCA CGCA AACA CACA CGCG CACA CGCA CACA CACA
1 CACA C-ACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * ** * * * *
994199 CACA CACC CACA CCCA CACA CATG CACA CGCA CGCA CGCA CGCA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * *
994247 CGCA CGCA CGCA CGCA CACA CGCA AACA CGCA CACA CACA TACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * ** * *
994295 TACA CGCA CACA CACA CTCA CACG CATA CTATG CACA CGCA CACT CACA
1 CACA CACA CACA CACA CACA CACA CACA C-ACA CACA CACA CACA CACA
* * * * * * * *
994344 CTACA CACG CACA CCCA TAGA CACA CACA CACG TACA CACA CGCC CACA
1 C-ACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * *
994393 CACA CCCA CACA CACA CGCA CGCA CACTA CACA CTCA CACA CGCA CACA
1 CACA CACA CACA CACA CACA CACA CAC-A CACA CACA CACA CACA CACA
* * * * *
994442 AACA CGCA CACA CGCA CACA CACA CACA TACA CGCA CACA C-CA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* *
994489 CACA CACA CACA CACA CACA CACA CACA CACG CA-A AACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * *
994536 AATCA CACA CACA CACA CGCA CAAA CACA CACA CACA CACA CACTG CACA
1 CA-CA CACA CACA CACA CACA CACA CACA CACA CACA CACA CAC-A CACA
* * * * *
994586 CGCA CACA C-CA CACA CCCA CACG TACA CCCA CACA CACA C-CA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * *
994632 CACA CACA CACA CACA CACA CACA AACA CACA CACA CACC CGCA CACC
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * *
994680 CCCC CCCA CACA CACA CACA CACA CACG CACA CCCA CACA CACA CGCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * *
994728 CACC CACA TAC- CACA CACA CACA CACA -ACA CACA CACT CACC CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * *
994774 C-CA CACA CACA CACC CACA CACA CACA CAC- CACT CACT CACG CACG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * *
994820 CACG CACT CACC CACA CGCA CGCT CACA CGCA C-CG CAC- CTACA CGCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA C-ACA CACA
** * * * * ** *
994867 CATG CAC- CACG CACG CACA CACG CACA -AGCA CACT CACA TGCA CACG
1 CACA CACA CACA CACA CACA CACA CACA CA-CA CACA CACA CACA CACA
* * * * * * * * *
994914 CACG CACG CACG CACG TACG CACA CACG CACA CAGA CACA GACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* ** * * * * * *
994962 CACA CGCA CGTA CGCA CGCA CGCA CACA CGCA AACA CGCA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* ** * ***
995010 CACA CACA CACA CACA CGCA CACGA -ACA TGCA CACG CACA CGTG CACA
1 CACA CACA CACA CACA CACA CAC-A CACA CACA CACA CACA CACA CACA
* ** * * * * * * *
995058 CGCA TTCG TACA CACG CACA CCCA CAGA CACA CACA CACG CCCA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * **
995106 CACC CACA GACA CACG CACA CACA TACC CCCA CACA CACA CACA CATG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * * ***
995154 C-CT CACA CGCA CACG CACA CGCA CACG TACA CGCA CGCG CACA TGTA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *** * *
995201 CGAGCA CACA CACG CGCA CACG CACGA GCACG CGCT CGTG CACG CGCA
1 C-A-CA CACA CACA CACA CACA CAC-A -CACA CACA CACA CACA CACA
* * * ** * * ** * * * *
995249 CACG CACG CGCA CATG CACG CGCA CATG CACG CACA CACG CACT CCCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * *
995297 CACA CCCA CGCA C-CA CACA CACA CACA CTACA CACA CACG CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA C-ACA CACA CACA CACA CACA
* * * * ** * * *
995345 AACA GACA CACA CACG CACA C-CC CACA TGCA CGCA CGCA CACA CGCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * *
995392 CACG CACA CCCA C-CC CACA CACA CACG CACA CACA C-CA C-CA CAC-
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * **
995436 CTCA CACA CACA CGCA CACA CACA CGCA CACA CACA CGCA CGTA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * *
995484 CACA CACT CGCA CACG CGCA CATA CGCG CACG CACA CACA CATA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *
995532 CAC- CTCG CTCA CACT CGCA CACG C-CA CACA C-CA CACA CACG CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * ** * **
995577 CACA TACA CCCA CCCA CTCA CGCA CACG TA-A CGTA CGC- CATG CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * *
995623 CACA CAC- CCCA CAC- CACA CGCA CAC- CCCA TACA CACA CACG CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* ** *
995668 CACA CACA CACG CACA CGTA CACA CACG CACA CAC- CACA CACA C-CA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* *
995714 CAC- CGCA CACG CACA CAC
1 CACA CACA CACA CACA CAC
995732 GCGGGTGCAC
Statistics
Matches: 3227, Mismatches: 1056, Indels: 320
0.70 0.23 0.07
Matches are distributed among these distances:
3 278 0.09
4 2870 0.89
5 74 0.02
6 5 0.00
ACGTcount: A:0.38, C:0.49, G:0.09, T:0.04
Consensus pattern (4 bp):
CACA
Found at i:995839 original size:12 final size:12
Alignment explanation
Indices: 995811--995853 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
995801 CACCCACACA
**
995811 CACGCACACGCA
1 CACGCACACGTG
995823 CACGCACACGTG
1 CACGCACACGTG
* *
995835 TACGCGCACGTG
1 CACGCACACGTG
995847 CACGCAC
1 CACGCAC
995854 TTACGGACTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.26, C:0.44, G:0.23, T:0.07
Consensus pattern (12 bp):
CACGCACACGTG
Found at i:996800 original size:2 final size:2
Alignment explanation
Indices: 996782--996820 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
996772 AGTAATAATA
996782 AT AT AT A- AT A- AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
996821 GGGGATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:998953 original size:139 final size:139
Alignment explanation
Indices: 998694--999060 Score: 515
Period size: 139 Copynumber: 2.7 Consensus size: 139
998684 TCCAAATAAT
* * * * * *
998694 TTTTAATAAATT-TTTGAATCAAATAATTAAAATTGAACCTCAAGTAAAAGCAAGGACCAAA-TA
1 TTTTAATAAATTATTTGATTCAAATAATTAAAATGGAACCTCGAGCAAAAGCGATGACCAAATTA
* * * * *
998757 AAAATTCCCCTAAATTTAAGGACTAAGTTTGAAATTAAACCTAAATTGGAGGATCTAATTATTAA
66 AAAATTTCCCTAAATTTAAAGACTAAGTTTGAAAATAAACCTAAAATGGAAGATCTAATTATTAA
998822 CCTAGTCAA
131 CCTAGTCAA
* *
998831 TTTTAATTAATTATTTGATTCAAATAATTGAAATGGAACCTCGAGCAAAAGCGATGACCAAATTA
1 TTTTAATAAATTATTTGATTCAAATAATTAAAATGGAACCTCGAGCAAAAGCGATGACCAAATTA
*
998896 AAAATTTCCCTAAATTTAAAGACTAAGTTTGAAAATAAACCTAAAATGGAAGCTCTAATTATTAA
66 AAAATTTCCCTAAATTTAAAGACTAAGTTTGAAAATAAACCTAAAATGGAAGATCTAATTATTAA
*
998961 CCTAGTCGA
131 CCTAGTCAA
* * * *
998970 TTTTAATCAATTATTTGATTCAGATAATTAAAATGGAAGCACGAGCAAAAGCGATGACCAAATTA
1 TTTTAATAAATTATTTGATTCAAATAATTAAAATGGAACCTCGAGCAAAAGCGATGACCAAATTA
* *
999035 ATAA-TTCCTCTAAATTTAAATACTAA
66 AAAATTTCC-CTAAATTTAAAGACTAA
999061 ACCTAAAATC
Statistics
Matches: 205, Mismatches: 22, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
137 11 0.05
138 46 0.22
139 148 0.72
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (139 bp):
TTTTAATAAATTATTTGATTCAAATAATTAAAATGGAACCTCGAGCAAAAGCGATGACCAAATTA
AAAATTTCCCTAAATTTAAAGACTAAGTTTGAAAATAAACCTAAAATGGAAGATCTAATTATTAA
CCTAGTCAA
Found at i:1008713 original size:24 final size:24
Alignment explanation
Indices: 1008681--1008726 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1008671 GCATGATATG
1008681 GTACATAGATGTTCTATACATCGT
1 GTACATAGATGTTCTATACATCGT
*
1008705 GTACATAGATGTTTTATACATC
1 GTACATAGATGTTCTATACATC
1008727 ATATGGAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (24 bp):
GTACATAGATGTTCTATACATCGT
Found at i:1017924 original size:66 final size:66
Alignment explanation
Indices: 1017818--1018173 Score: 653
Period size: 66 Copynumber: 5.4 Consensus size: 66
1017808 TCCGCTTTTG
* * * *
1017818 CTGAAGGGAATATCAGATC-TGG-GGATTTGATCCATTGAATCGAAGCAGACTTGTACCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1017881 T
66 T
1017882 CTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1017947 T
66 T
*
1017948 CTGAAGGGAATATCAAATCTTAGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1018013 T
66 T
1018014 CTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1018079 T
66 T
1018080 CTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1018145 T
66 T
1018146 CTGAAGGGAATATCAAATCTTGGAGAAG
1 CTGAAGGGAATATCAAATCTTGGAGAAG
1018174 AGAGACCTAT
Statistics
Matches: 284, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
64 18 0.06
65 3 0.01
66 263 0.93
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (66 bp):
CTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
T
Found at i:1018214 original size:48 final size:48
Alignment explanation
Indices: 1018135--1018265 Score: 235
Period size: 48 Copynumber: 2.7 Consensus size: 48
1018125 AGCAGACTTG
* *
1018135 TTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTA
1 TTCCACTTACTCTGGAGGGAATATCAGATCTTGGAGAAGAGAGACCTA
*
1018183 TTCCGCTTACTCTGGAGGGAATATCAGATCTTGGAGAAGAGAGACCTA
1 TTCCACTTACTCTGGAGGGAATATCAGATCTTGGAGAAGAGAGACCTA
1018231 TTCCACTTACTCTGGAGGGAATATCAGATCTTGGA
1 TTCCACTTACTCTGGAGGGAATATCAGATCTTGGA
1018266 AAGTTGATCC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (48 bp):
TTCCACTTACTCTGGAGGGAATATCAGATCTTGGAGAAGAGAGACCTA
Found at i:1019425 original size:26 final size:26
Alignment explanation
Indices: 1019396--1019446 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1019386 TCCTTTTATT
*
1019396 TTTTCTTTTATTTTT-TTCTCATTTTG
1 TTTTCTTTCATTTTTCTT-TCATTTTG
*
1019422 TTTTCTTTCCTTTTTCTTTCATTTT
1 TTTTCTTTCATTTTTCTTTCATTTT
1019447 TCATTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTTCTTTCATTTTTCTTTCATTTTG
Found at i:1019453 original size:18 final size:17
Alignment explanation
Indices: 1019427--1019476 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
1019417 TTTTGTTTTC
*
1019427 TTTCCTTTTTCTTTCATT
1 TTTCATTTTT-TTTCATT
*
1019445 TTTCATTTTTTAGTC-TT
1 TTTCATTTTTT-TTCATT
1019462 TTTCATTTTTTTTCA
1 TTTCATTTTTTTTCA
1019477 GGCGGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 2 0.07
17 14 0.52
18 11 0.41
ACGTcount: A:0.10, C:0.16, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTCATTTTTTTTCATT
Found at i:1036490 original size:36 final size:36
Alignment explanation
Indices: 1036450--1036522 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
1036440 TAAGATGAAC
1036450 ACATTAAATCCATCATTTAGCATCGATGGCCTTGTT
1 ACATTAAATCCATCATTTAGCATCGATGGCCTTGTT
1036486 ACATTAAATCCATCATTTAGCATCGATGGCCTTGTT
1 ACATTAAATCCATCATTTAGCATCGATGGCCTTGTT
1036522 A
1 A
1036523 ATCAAATGCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (36 bp):
ACATTAAATCCATCATTTAGCATCGATGGCCTTGTT
Found at i:1036691 original size:2 final size:2
Alignment explanation
Indices: 1036684--1036723 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1036674 AAAGCAATGT
1036684 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1036724 GTCAGTGGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1037859 original size:64 final size:64
Alignment explanation
Indices: 1037631--1037842 Score: 243
Period size: 64 Copynumber: 3.3 Consensus size: 64
1037621 TTTTTCAAAG
* * *
1037631 TCATGCACCGATGCATCAGTCCATGCATCGATGCAC-CTATG-AT-TTAATT-GAACATCGAATG
1 TCATGCATCGATGCA-CACTCCATGCATCGATGCACTC-A-GAATATT--TTCAAACATCGAATG
1037692 CATT
61 CATT
** *
1037696 TCATGCGCCGATGCACTCTCCATGCATCGATGCACTCAGAATATTTTCAAACATCGAATGCATT
1 TCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAACATCGAATGCATT
* ** **
1037760 TGATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTCAAACATCGAATGCATT
1 TCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAACATCGAATGCATT
*
1037824 TTATGCATCGATGCACACT
1 TCATGCATCGATGCACACT
1037843 TGGTGCACCG
Statistics
Matches: 128, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
63 3 0.02
64 108 0.84
65 17 0.13
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (64 bp):
TCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAACATCGAATGCATT
Found at i:1038811 original size:98 final size:98
Alignment explanation
Indices: 1038702--1038895 Score: 388
Period size: 98 Copynumber: 2.0 Consensus size: 98
1038692 CCCCCTAATA
1038702 AATGAACATTGCCTCATTTTGAAAACAAAGTGCGATCAAACAATCAATTATGGAACCTACTTATT
1 AATGAACATTGCCTCATTTTGAAAACAAAGTGCGATCAAACAATCAATTATGGAACCTACTTATT
1038767 CTAAATGGATTAATTAAGGGCTTCCCTCTAAAT
66 CTAAATGGATTAATTAAGGGCTTCCCTCTAAAT
1038800 AATGAACATTGCCTCATTTTGAAAACAAAGTGCGATCAAACAATCAATTATGGAACCTACTTATT
1 AATGAACATTGCCTCATTTTGAAAACAAAGTGCGATCAAACAATCAATTATGGAACCTACTTATT
1038865 CTAAATGGATTAATTAAGGGCTTCCCTCTAA
66 CTAAATGGATTAATTAAGGGCTTCCCTCTAA
1038896 CTTAAAGTGT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (98 bp):
AATGAACATTGCCTCATTTTGAAAACAAAGTGCGATCAAACAATCAATTATGGAACCTACTTATT
CTAAATGGATTAATTAAGGGCTTCCCTCTAAAT
Found at i:1040015 original size:12 final size:12
Alignment explanation
Indices: 1039998--1040022 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1039988 ATATCATCTA
1039998 TTCATTTCTATT
1 TTCATTTCTATT
1040010 TTCATTTCTATT
1 TTCATTTCTATT
1040022 T
1 T
1040023 CAGGTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCATTTCTATT
Found at i:1041114 original size:22 final size:22
Alignment explanation
Indices: 1041084--1041125 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1041074 TCATTTGCAC
1041084 AAAAAATTATTT-GATATTTTAT
1 AAAAAATTATTTAGA-ATTTTAT
*
1041106 AAAATATTATTTAGAATTTT
1 AAAAAATTATTTAGAATTTT
1041126 TAATTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
AAAAAATTATTTAGAATTTTAT
Found at i:1041333 original size:23 final size:23
Alignment explanation
Indices: 1041296--1041346 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1041286 ACTACCATTA
1041296 TATATAAACGATACCTATTACAT
1 TATATAAACGATACCTATTACAT
* *
1041319 TATATAAGCGCTACCTATTACAT
1 TATATAAACGATACCTATTACAT
*
1041342 CATAT
1 TATAT
1041347 TTTTACCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (23 bp):
TATATAAACGATACCTATTACAT
Found at i:1041724 original size:23 final size:23
Alignment explanation
Indices: 1041698--1041766 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
1041688 AGACACTTAC
*
1041698 AATATAACCACTACCTATTACAT
1 AATATAAACACTACCTATTACAT
*
1041721 AATATAAACAATACCTATTACAT
1 AATATAAACACTACCTATTACAT
* *
1041744 -ATATAAGCGCTACCTATTCACAT
1 AATATAAACACTACCTATT-ACAT
1041767 TTTTACCTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 15 0.38
23 25 0.62
ACGTcount: A:0.43, C:0.23, G:0.03, T:0.30
Consensus pattern (23 bp):
AATATAAACACTACCTATTACAT
Found at i:1041802 original size:420 final size:420
Alignment explanation
Indices: 1040953--1042383 Score: 2346
Period size: 420 Copynumber: 3.5 Consensus size: 420
1040943 TATTACATTA
1040953 TATTATATTGAAA--GTCC--ACTTTTTAT-AAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1041013 TTATGTTTCAATTTTTTTTAATAG-GTTTCATGTTTCCACCTACAATATTAATTTACTAATTTCA
66 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTA-TAATTTCA
1041077 TTTGCAC--AAAA--A---ATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT-AT
129 TTTGCACAAAAAATTATTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAAT
1041134 AATAATATATATCGTAACGT---AAA-AAATCATTAGACGCCTATAATTACTAATTAATATCTTA
194 AATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCC-ATAATTACTAATTAATATCTTA
*
1041195 AAACTCACTCAAAAG-AACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATAGACACTTTTATA
258 AAACTCACTCAAAAGAAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATA
1041259 AAAAGGATAGACACTTTA-AATATAACCACTACC-ATT--ATATATAAACGATACCTATTACATT
323 AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATATATAAACGATACCTATTACATT
1041320 ATATAAGCGCTACCTATTACATCATATTTTTACC
388 ATATAAGCGCTACCTATTACATCA-ATTTTTACC
*
1041354 TATTATATTGAAAGTGTCCATTACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAA
1 TATTATATTGAAAGTGTCCA-TACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAA
1041419 TTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTATAATTTC
65 TTTATGTTTCAA-TTTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTATAATTTC
1041484 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
128 ATTTGCACAAAAAATTA-TTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
* *
1041549 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAAACACC-TAATTACTAAATTAATATCT
192 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCATAATTACT-AATTAATATCT
* *
1041613 TAAAACTCAATCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAATATGGACACTTTT
256 TAAAACTCACTCAAAAGA-AACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTT
*
1041678 AT-AAAAGGATAGACAC-TTACAATATAACCACTACCTATTACATAATATAAACAATACCTATTA
320 ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACAT-ATATAAACGATACCTATTA
1041741 CA-TATATAAGCGCTACCTATT-CA-C-ATTTTTACC
384 CATTATATAAGCGCTACCTATTACATCAATTTTTACC
1041774 TATTATATATGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTT-TGTAA
1 TATTATAT-TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAA
*
1041838 -TTATGTTTCAATTTTTTTAATAGTG-TTCATGTTTCCACCTACAATATTAATTAATAATTTCAT
65 TTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTATAATTTCAT
1041901 TTGCACAAAAAATTATTGATT-TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA-A
130 TTGCACAAAAAATTATTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATA
1041964 ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA--AATATCTTAA
195 ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCC-ATAATTACTAATTAATATCTTAA
1042027 AACTCACTCAAAAGAAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAA
259 AACTCACTCAAAAGAAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAA
*
1042092 AAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCCATTACATT
324 AAAGGATAGACACTTTACAATATAACCACTACCTATTACA-TATATAAACGATACCTATTACATT
1042157 ATATAAGCGCTACCTATTACATCATATTTTTACC
388 ATATAAGCGCTACCTATTACATCA-ATTTTTACC
1042191 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTT-AAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1042255 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTT-ATAATTTCA
1042320 TTTGCACAAAAAATTATTTGATTATTTGATATTTTAT-AAATATTATTTAGAATTTTTAATTTAA
129 TTTGCACAAAAAATTA-TTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
1042384 CAACATTACC
Statistics
Matches: 967, Mismatches: 16, Indels: 74
0.91 0.02 0.07
Matches are distributed among these distances:
401 13 0.01
403 4 0.00
406 9 0.01
407 57 0.06
408 23 0.02
409 23 0.02
410 51 0.05
411 38 0.04
412 86 0.09
413 63 0.07
414 16 0.02
415 52 0.05
416 98 0.10
417 78 0.08
418 17 0.02
419 34 0.04
420 112 0.12
421 87 0.09
422 63 0.07
423 2 0.00
424 21 0.02
425 20 0.02
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (420 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTATAATTTCATT
TGCACAAAAAATTATTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAA
TAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCATAATTACTAATTAATATCTTAAAA
CTCACTCAAAAGAAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAA
AGGATAGACACTTTACAATATAACCACTACCTATTACATATATAAACGATACCTATTACATTATA
TAAGCGCTACCTATTACATCAATTTTTACC
Found at i:1042147 original size:23 final size:23
Alignment explanation
Indices: 1042121--1042183 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1042111 ATATAACCAC
1042121 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
1042144 TACCCATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1042167 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1042184 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1042654 original size:39 final size:39
Alignment explanation
Indices: 1042600--1042685 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
1042590 TCAGTTGTAG
*
1042600 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
1042639 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
1042678 ATTTTGAT
1 ATTTTGAT
1042686 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:1042963 original size:18 final size:18
Alignment explanation
Indices: 1042940--1042976 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1042930 GCCGAAATAT
1042940 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1042958 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1042976 A
1 A
1042977 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1043443 original size:21 final size:22
Alignment explanation
Indices: 1043419--1043475 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
1043409 AACCACTACA
1043419 TATTACATTATATAAACG-ACC
1 TATTACATTATATAAACGCACC
*
1043440 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGC-ACC
*
1043463 TATTACATCATAT
1 TATTACATTATAT
1043476 GTTTACCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 17 0.53
23 15 0.47
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (22 bp):
TATTACATTATATAAACGCACC
Found at i:1043463 original size:23 final size:23
Alignment explanation
Indices: 1043405--1043475 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
1043395 ATACTTTACA
* * *
1043405 ATATAACCACTACATATTACATT
1 ATATAAACGCTACCTATTACATT
1043428 ATATAAACG--ACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
1043449 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
1043472 ATAT
1 ATAT
1043476 GTTTACCTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 19 0.46
23 22 0.54
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:1045954 original size:395 final size:395
Alignment explanation
Indices: 1045374--1046339 Score: 1614
Period size: 395 Copynumber: 2.4 Consensus size: 395
1045364 TTTAAATTAG
*
1045374 TATCGACACAAACTATAA--CGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTA-AATTAGTGTCGA-ACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1045437 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
64 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGA
1045502 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCA-CCTGTTTTCCATTCATTCTGGAAC
128 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
1045566 AAAAATATCGACACAAACTAAATTAGTGTAGACACATTATTTAGACATATTCTCTCATAAAAACC
193 AAAAATATCGACACAAACTAAATTAGTGTAGACACATTATTTAGACATATTCTCTCAT--AAACC
1045631 GGTATAATTGTACCGGTTAGATTGAAAAA-TACATA-TACATTATAC-TTTGGGTTC-ATGATTT
256 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TT
*
1045692 TTGGATCGACACGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCA
320 TGGGATCG--AC-AC-CTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCA
*
1045757 TTCTGG-AACAAAAA
381 TTCTGGAAAAAAAAA
*
1045771 TATCGACACAAACTAAATTAGTGTCG-ACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
1 TATCGACACAAACTAAATTAGTGTCGAACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1045835 TTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATCG
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATCG
1045899 ACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAA
131 ACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAA
*
1045964 AATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAACCGGTAT
196 AATATCGACACAAACTAAATTAGTGTAGACACATTATTTAGACATATTCTCTCATAAACCGGTAT
1046029 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGAT
261 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGAT
*
1046094 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
326 CGACACCTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1046159 AAAAA
391 AAAAA
* *
1046164 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTAGA
1 TATCGACACAAACTAAATTAGTGTCGA-ACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
1046228 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATTC-TTTGGTTTTCGATGTTTTTGGGA
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATG-ATTTGGGA
*
1046292 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
128 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1046340 GGCCATATTG
Statistics
Matches: 542, Mismatches: 13, Indels: 28
0.93 0.02 0.05
Matches are distributed among these distances:
392 54 0.10
393 68 0.13
394 99 0.18
395 169 0.31
396 87 0.16
397 59 0.11
398 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (395 bp):
TATCGACACAAACTAAATTAGTGTCGAACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATCG
ACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAA
AATATCGACACAAACTAAATTAGTGTAGACACATTATTTAGACATATTCTCTCATAAACCGGTAT
AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGAT
CGACACCTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAAA
Found at i:1046008 original size:197 final size:198
Alignment explanation
Indices: 1045374--1046339 Score: 1616
Period size: 197 Copynumber: 4.9 Consensus size: 198
1045364 TTTAAATTAG
*
1045374 TATCGACACAAACTATAA--CGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTA-AATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
*
1045437 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGA
1045502 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCA-CCTGTTTTCCATTCATTCTGGAAC
129 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
1045566 AAAAA
194 AAAAA
*
1045571 TATCGACACAAACTAAATTAGTGTAGACACATTATTTAGACATATTCTCTCATAAAAACCGGTAT
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAAACCGGTAT
*
1045636 AATTGTACCGGTTAGATTGAAAAA-TACATA-TACATTATAC-TTTGGGTTC-ATGATTTTTGGA
65 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGA
*
1045697 TCGACACGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
129 TCG--AC-AC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
1045762 GAACAAAAA
190 GAACAAAAA
1045771 TATCGACACAAACTAAATTAGTGTCG--ACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1045834 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
1045898 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAA
1045963 AAA
196 AAA
1045966 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1046030 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
*
1046095 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AACA
1046160 AAAA
195 AAAA
* *
1046164 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTAGA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * * *
1046228 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATTC-TTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATG-ATTTGGGA
*
1046292 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
129 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1046340 GGCCATATTG
Statistics
Matches: 733, Mismatches: 16, Indels: 37
0.93 0.02 0.05
Matches are distributed among these distances:
195 102 0.14
196 46 0.06
197 212 0.29
198 178 0.24
199 97 0.13
200 98 0.13
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (198 bp):
TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAA
AAA
Found at i:1046480 original size:18 final size:19
Alignment explanation
Indices: 1046457--1046500 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1046447 ATTATATCAC
1046457 ATACAAAA-TATAAATCGT
1 ATACAAAATTATAAATCGT
*
1046475 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1046494 ATACAAA
1 ATACAAA
1046501 TTACCCTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1048318 original size:33 final size:33
Alignment explanation
Indices: 1048281--1048346 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1048271 CATCTTAATA
*
1048281 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1048314 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
1048347 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1050915 original size:180 final size:182
Alignment explanation
Indices: 1050566--1051038 Score: 691
Period size: 181 Copynumber: 2.6 Consensus size: 182
1050556 CGTACTTACG
* * * *
1050566 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCAGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
1050631 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
1050696 AGGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
1050747 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
1050812 TATCATA-TTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
1050876 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * *
1050928 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* *
1050992 TTGTCATAGTTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATA-TTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
1051039 AATTTGGATC
Statistics
Matches: 262, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
180 96 0.37
181 130 0.50
182 1 0.00
183 35 0.13
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:1052556 original size:28 final size:28
Alignment explanation
Indices: 1052523--1052579 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
1052513 GTGTCTACAT
1052523 CCTAACATATTATTATGGTTAAAGTTTA
1 CCTAACATATTATTATGGTTAAAGTTTA
1052551 CCTAACATATTATTATGGTTAAAGTTTA
1 CCTAACATATTATTATGGTTAAAGTTTA
1052579 C
1 C
1052580 ATTTATAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (28 bp):
CCTAACATATTATTATGGTTAAAGTTTA
Found at i:1056985 original size:3 final size:3
Alignment explanation
Indices: 1056977--1057018 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
1056967 TTGGTTTGTA
* *
1056977 AAT AAT AAT AAT ATT TAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1057019 GATGATATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:1057862 original size:21 final size:21
Alignment explanation
Indices: 1057836--1057877 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1057826 CATGTGAAAA
*
1057836 CATCTTGGC-CGAAGGACTTAT
1 CATCTT-GCTCGAAAGACTTAT
1057857 CATCTTGCTCGAAAGACTTAT
1 CATCTTGCTCGAAAGACTTAT
1057878 AGATGACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (21 bp):
CATCTTGCTCGAAAGACTTAT
Found at i:1058020 original size:223 final size:224
Alignment explanation
Indices: 1057620--1058081 Score: 696
Period size: 223 Copynumber: 2.1 Consensus size: 224
1057610 TTATGGACAA
* * *
1057620 CCCGAAAGACTTATCATCTTGCTCGAAAGACTTATAGATGACCTGAAGGATTTAAACATCATGCT
1 CCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACATGAAGAATTTAAACATCATGCT
* * * *
1057685 CGAAAGACTTATTAATGCCCCGAATGACTTAATCAGTAAGAAACTTTGGAAATCACTTTCTTATT
66 CAAAAGACTTATTAATGCCCCGAAGGACTTAATCAGTAAGAAACTTTGGAAATCACTTTATTATC
* * * * *
1057750 TTTTCAAGAAAAATCAATTTTTAGAAAAAATTTAAATGAGGAACTTTGGAAATCGCTTTCTCA-T
131 CTTTCAAGAAAAATCAATTTTCAGAAAAAATTTAAATGAGAAACTTTGG-AATCACTTTATCATT
*
1057814 TTTTT-CGGAAATCATGTGAAAACATCTTG
195 TTTTTCCAGAAATCATGTGAAAACATCTTG
* *
1057843 GCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACATGAAGAATTTAAATATCATGCT
1 CCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACATGAAGAATTTAAACATCATGCT
* * *
1057908 CAAAAGACTTATTAATGGCTCGAAGGACTTACTCAGTAAGAAACTTTGGAAATCACTTTATTA-C
66 CAAAAGACTTATTAATGCCCCGAAGGACTTAATCAGTAAGAAACTTTGGAAATCACTTTATTATC
*
1057972 CTTTCAAGAAAAATCAATCTTTCAGAAAATATTTAAATGAGAAACTTTGGAATCACTTTATCATT
131 CTTTCAAGAAAAATCAAT-TTTCAGAAAAAATTTAAATGAGAAACTTTGGAATCACTTTATCA-T
1058037 TTTTTTCCAGAAATCATGTGAAAACATCTTG
194 TTTTTTCCAGAAATCATGTGAAAACATCTTG
*
1058068 CCCGAAGGTCTTAT
1 CCCGAAGGACTTAT
1058082 GGACGGCTCG
Statistics
Matches: 214, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
222 28 0.13
223 145 0.68
224 6 0.03
225 35 0.16
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (224 bp):
CCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACATGAAGAATTTAAACATCATGCT
CAAAAGACTTATTAATGCCCCGAAGGACTTAATCAGTAAGAAACTTTGGAAATCACTTTATTATC
CTTTCAAGAAAAATCAATTTTCAGAAAAAATTTAAATGAGAAACTTTGGAATCACTTTATCATTT
TTTTCCAGAAATCATGTGAAAACATCTTG
Found at i:1058190 original size:42 final size:42
Alignment explanation
Indices: 1058090--1058190 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
1058080 ATGGACGGCT
* *
1058090 CGAAGGACTT-CTCATCTTGCTCAAAAGACTTATAGATGACC
1 CGAAAGACTTACTCATCATGCTCAAAAGACTTATAGATGACC
* ** * * *
1058131 C-AAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGGCC
1 CGAAA-GACTTACTCATCATGCTCAAAAGACTTATAGATGACC
1058173 CGAAAGACTTACTCATCA
1 CGAAAGACTTACTCATCA
1058191 AGAAACCCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
40 2 0.04
41 5 0.11
42 36 0.78
43 3 0.07
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (42 bp):
CGAAAGACTTACTCATCATGCTCAAAAGACTTATAGATGACC
Found at i:1063716 original size:14 final size:13
Alignment explanation
Indices: 1063678--1063730 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
1063668 AGATTACACC
1063678 CTAAA-CCTAAACT
1 CTAAACCCTAAA-T
**
1063691 CTAAACTATAAATT
1 CTAAACCCTAAA-T
1063705 CTAAACCCTAAAT
1 CTAAACCCTAAAT
1063718 CTCAAACCCTAAA
1 CT-AAACCCTAAA
1063731 CCCCAAATCC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
13 8 0.24
14 25 0.76
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (13 bp):
CTAAACCCTAAAT
Found at i:1063852 original size:14 final size:14
Alignment explanation
Indices: 1063833--1063943 Score: 68
Period size: 14 Copynumber: 8.0 Consensus size: 14
1063823 GTTAGATTAT
*
1063833 ACCCTAAACTTTAA
1 ACCCTAAACCTTAA
*
1063847 ACCCTAAA-CATAA
1 ACCCTAAACCTTAA
*
1063860 ACCCTAAA-TTATAA
1 ACCCTAAACCT-TAA
** *
1063874 ACTATAAACCCTAA
1 ACCCTAAACCTTAA
** *
1063888 ATACTAAACCCTAA
1 ACCCTAAACCTTAA
1063902 ACCCTAAA-CTTGAA
1 ACCCTAAACCTT-AA
*
1063916 A-CCTAAGCCTTAA
1 ACCCTAAACCTTAA
*
1063929 ATCCTAAACCCTTAA
1 ACCCTAAA-CCTTAA
1063944 TTTGATTATA
Statistics
Matches: 75, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
13 21 0.28
14 48 0.64
15 6 0.08
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.23
Consensus pattern (14 bp):
ACCCTAAACCTTAA
Found at i:1063854 original size:7 final size:7
Alignment explanation
Indices: 1063833--1063940 Score: 60
Period size: 7 Copynumber: 15.7 Consensus size: 7
1063823 GTTAGATTAT
1063833 ACCCTAA
1 ACCCTAA
**
1063840 ACTTTAA
1 ACCCTAA
1063847 ACCCTAA
1 ACCCTAA
*
1063854 A-CATAA
1 ACCCTAA
1063860 ACCCTAA
1 ACCCTAA
***
1063867 ATTATAA
1 ACCCTAA
**
1063874 ACTATAA
1 ACCCTAA
1063881 ACCCTAA
1 ACCCTAA
**
1063888 ATACTAA
1 ACCCTAA
1063895 ACCCTAA
1 ACCCTAA
1063902 ACCCTAA
1 ACCCTAA
*
1063909 A-CTTGAA
1 ACCCT-AA
1063916 A-CCTAA
1 ACCCTAA
* *
1063922 GCCTTAA
1 ACCCTAA
*
1063929 ATCCTAA
1 ACCCTAA
1063936 ACCCT
1 ACCCT
1063941 TAATTTGATT
Statistics
Matches: 74, Mismatches: 24, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
6 9 0.12
7 65 0.88
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (7 bp):
ACCCTAA
Found at i:1063882 original size:21 final size:20
Alignment explanation
Indices: 1063850--1063909 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 20
1063840 ACTTTAAACC
1063850 CTAAACATAAACCCTAAATTA
1 CTAAACATAAACCCTAAA-TA
1063871 -TAAACTATAAACCCTAAATA
1 CTAAAC-ATAAACCCTAAATA
*
1063891 CTAAACCCTAAACCCTAAA
1 CTAAA-CATAAACCCTAAA
1063910 CTTGAAACCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 7 0.20
21 27 0.77
22 1 0.03
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.22
Consensus pattern (20 bp):
CTAAACATAAACCCTAAATA
Found at i:1065336 original size:31 final size:31
Alignment explanation
Indices: 1065301--1065380 Score: 160
Period size: 31 Copynumber: 2.6 Consensus size: 31
1065291 GTTCGAGCCT
1065301 TTTCGAGTTCGAGTCGAGTTTTAATAATATA
1 TTTCGAGTTCGAGTCGAGTTTTAATAATATA
1065332 TTTCGAGTTCGAGTCGAGTTTTAATAATATA
1 TTTCGAGTTCGAGTCGAGTTTTAATAATATA
1065363 TTTCGAGTTCGAGTCGAG
1 TTTCGAGTTCGAGTCGAG
1065381 CTTGATAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (31 bp):
TTTCGAGTTCGAGTCGAGTTTTAATAATATA
Found at i:1071262 original size:22 final size:20
Alignment explanation
Indices: 1071225--1071265 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
1071215 ACATGAAAGT
*
1071225 AAAAGAAAAATAAAAACTTG
1 AAAAGAAAAAGAAAAACTTG
1071245 AAAAGTAAAAAGAGAAAACTT
1 AAAAG-AAAAAGA-AAAACTT
1071266 TAATAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (20 bp):
AAAAGAAAAAGAAAAACTTG
Found at i:1071281 original size:23 final size:23
Alignment explanation
Indices: 1071255--1071308 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
1071245 AAAAGTAAAA
1071255 AGAGAAAACTTTAATAAAACTAG
1 AGAGAAAACTTTAATAAAACTAG
*
1071278 AGAGAAAGCTTTAATAAAACTAG
1 AGAGAAAACTTTAATAAAACTAG
1071301 AGAGAAAA
1 AGAGAAAA
1071309 GAAGATTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.19
Consensus pattern (23 bp):
AGAGAAAACTTTAATAAAACTAG
Found at i:1072176 original size:24 final size:24
Alignment explanation
Indices: 1072143--1072208 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
1072133 AAAATTTCAG
*
1072143 GAGCTTGATTGAAGCTCGAGACTC
1 GAGCTCGATTGAAGCTCGAGACTC
** *
1072167 GAGCTCGATTGAAGCTCG-GTTTT
1 GAGCTCGATTGAAGCTCGAGACTC
*
1072190 GAGCTCGATTCAAGCTCGA
1 GAGCTCGATTGAAGCTCGA
1072209 TTCAAGCTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 19 0.53
24 17 0.47
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (24 bp):
GAGCTCGATTGAAGCTCGAGACTC
Found at i:1072184 original size:11 final size:11
Alignment explanation
Indices: 1072168--1072219 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
1072158 TCGAGACTCG
*
1072168 AGCTCGATTGA
1 AGCTCGATTCA
* **
1072179 AGCTCGGTTTTG
1 AGCTC-GATTCA
1072191 AGCTCGATTCA
1 AGCTCGATTCA
1072202 AGCTCGATTCA
1 AGCTCGATTCA
1072213 AGCTCGA
1 AGCTCGA
1072220 ACTCAAACTC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 26 0.76
12 8 0.24
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:1072280 original size:14 final size:14
Alignment explanation
Indices: 1072261--1072338 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
1072251 TTATATTACA
1072261 TTTAAAAATATATT
1 TTTAAAAATATATT
*
1072275 TTTAAAAAATTATAAT
1 TTT-AAAAA-TATATT
* *
1072291 TATAAATAATGTATT
1 TTTAAA-AATATATT
1072306 TTT---AATATATT
1 TTTAAAAATATATT
* * *
1072317 TTTAATAATGTAAT
1 TTTAAAAATATATT
1072331 TTTAAAAA
1 TTTAAAAA
1072339 ATCTAAAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
11 10 0.20
14 16 0.33
15 14 0.29
16 9 0.18
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:1086037 original size:2 final size:2
Alignment explanation
Indices: 1086032--1086058 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1086022 ATATAACTAA
1086032 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
1086059 ACGTTAATTT
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:1097947 original size:149 final size:149
Alignment explanation
Indices: 1097677--1097980 Score: 536
Period size: 149 Copynumber: 2.0 Consensus size: 149
1097667 GTGTCGATGG
* * * *
1097677 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTAGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACACGGTCCTTCGAGACATATATATATTCTGTAGAACATGTGTGAAGTCTTGAAAGACACAT
*
1097742 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
1097807 TATGACACTACGGTGCAAT
131 TATGACACTACGGTGCAAT
* *
1097826 TCTACACGGTCCTTCGAGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACACGGTCCTTCGAGACATATATATATTCTGTAGAACATGTGTGAAGTCTTGAAAGACACAT
1097891 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
*
1097956 TATGGCACTACGGTGCAAT
131 TATGACACTACGGTGCAAT
1097975 TCTACA
1 TCTACA
1097981 TGCACTTTGG
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 147 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (149 bp):
TCTACACGGTCCTTCGAGACATATATATATTCTGTAGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGACACTACGGTGCAAT
Found at i:1103346 original size:23 final size:23
Alignment explanation
Indices: 1103313--1103357 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1103303 ATTATTATAT
*
1103313 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
1103336 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
1103358 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1107577 original size:12 final size:12
Alignment explanation
Indices: 1107560--1107657 Score: 59
Period size: 12 Copynumber: 8.6 Consensus size: 12
1107550 ATTTTACTTG
1107560 AAAAAGAAATGA
1 AAAAAGAAATGA
*
1107572 AAAAAGAAAAAAGA
1 AAAAAG--AAATGA
1107586 AAAAA-AAGA-GA
1 AAAAAGAA-ATGA
*
1107597 AAAGAGAAA--A
1 AAAAAGAAATGA
*
1107607 GAAAA-AAATGA
1 AAAAAGAAATGA
**
1107618 AAAAATTAATGA
1 AAAAAGAAATGA
*
1107630 AAAAATAAATG-
1 AAAAAGAAATGA
1107641 AAAAA-AAA-GA
1 AAAAAGAAATGA
1107651 AAAAAGA
1 AAAAAGA
1107658 GAAGAGAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
9 4 0.06
10 12 0.17
11 20 0.29
12 24 0.34
14 10 0.14
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (12 bp):
AAAAAGAAATGA
Found at i:1107582 original size:7 final size:7
Alignment explanation
Indices: 1107570--1107750 Score: 74
Period size: 7 Copynumber: 25.7 Consensus size: 7
1107560 AAAAAGAAAT
1107570 GAAAAAA
1 GAAAAAA
1107577 GAAAAAA
1 GAAAAAA
1107584 GAAAAAAAA
1 G--AAAAAA
*
1107593 GAGAAAA
1 GAAAAAA
*
1107600 GAGAAAA
1 GAAAAAA
1107607 GAAAAAA
1 GAAAAAA
1107614 -ATGAAAAA
1 GA--AAAAA
** *
1107622 -ATTAAT
1 GAAAAAA
1107628 GAAAAAA
1 GAAAAAA
* *
1107635 TAAATGAA
1 GAAA-AAA
1107643 -AAAAAA
1 GAAAAAA
1107649 GAAAAAA
1 GAAAAAA
* *
1107656 GAGAAGA
1 GAAAAAA
*
1107663 GAAAAAGT
1 GAAAAA-A
1107671 GAAAAAA
1 GAAAAAA
*
1107678 TTTAAAAAAA
1 ---GAAAAAA
*
1107688 TAAAAAA
1 GAAAAAA
1107695 TGAAAAAA
1 -GAAAAAA
*
1107703 G-AGAAA
1 GAAAAAA
*
1107709 -AATAAA
1 GAAAAAA
1107715 GAAAAAA
1 GAAAAAA
*
1107722 G-GAAAA
1 GAAAAAA
1107728 G-AAAAA
1 GAAAAAA
1107734 G-AAAAA
1 GAAAAAA
1107740 G-AAAAA
1 GAAAAAA
1107746 GAAAA
1 GAAAA
1107751 GAATAAAAAG
Statistics
Matches: 134, Mismatches: 25, Indels: 30
0.71 0.13 0.16
Matches are distributed among these distances:
6 35 0.26
7 66 0.49
8 20 0.15
9 7 0.05
10 6 0.04
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.07
Consensus pattern (7 bp):
GAAAAAA
Found at i:1107666 original size:56 final size:56
Alignment explanation
Indices: 1107571--1107719 Score: 178
Period size: 56 Copynumber: 2.7 Consensus size: 56
1107561 AAAAGAAATG
* *
1107571 AAAAAAGAAAAAA-GAAAAAAAAGAGAAAAGAGAAAAGAAAAAAATGAAAAAA-TTA
1 AAAAAATAAAAAATGAAAAAAAAGAAAAAAGAGAAAAG-AAAAAATGAAAAAATTTA
* * * *
1107626 ATGAAAA-AATAAATGAAAAAAAAGAAAAAAGAGAAGAGAAAAAGTGAAAAAATTTA
1 A-AAAAATAAAAAATGAAAAAAAAGAAAAAAGAGAAAAGAAAAAATGAAAAAATTTA
* *
1107682 AAAAAATAAAAAATGAAAAAAGAGAAAAATAAAGAAAA
1 AAAAAATAAAAAATGAAAAAAAAGAAAAA-AGAGAAAA
1107720 AAGGAAAAGA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
55 23 0.29
56 50 0.63
57 6 0.08
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (56 bp):
AAAAAATAAAAAATGAAAAAAAAGAAAAAAGAGAAAAGAAAAAATGAAAAAATTTA
Found at i:1107721 original size:12 final size:11
Alignment explanation
Indices: 1107573--1107759 Score: 73
Period size: 12 Copynumber: 16.6 Consensus size: 11
1107563 AAGAAATGAA
1107573 AAAAGAAAAAAG
1 AAAA-AAAAAAG
*
1107585 AAAAAAAAGAG
1 AAAAAAAAAAG
*
1107596 AAAAGAGAAAAG
1 AAAA-AAAAAAG
*
1107608 --AAAAAAATG
1 AAAAAAAAAAG
* *
1107617 AAAAAATTAATG
1 AAAAAA-AAAAG
*
1107629 AAAAAATAAATG
1 AAAAAA-AAAAG
1107641 --AAAAAAAAG
1 AAAAAAAAAAG
*
1107650 AAAAAAGAGAAG
1 AAAAAA-AAAAG
* **
1107662 -AGAAAAAGTG
1 AAAAAAAAAAG
**
1107672 AAAAAATTTAA-
1 AAAAAA-AAAAG
*
1107683 AAAAATAAAA-
1 AAAAAAAAAAG
**
1107693 AATGAAAAAAG
1 AAAAAAAAAAG
*
1107704 AGAAAAATAAAG
1 A-AAAAAAAAAG
1107716 AAAAAAGGAAAAG
1 AAAAAA--AAAAG
1107729 AAAAAGAAAAAG
1 AAAAA-AAAAAG
*
1107741 AAAAAGAAAAG
1 AAAAAAAAAAG
1107752 AATAAAAA
1 AA-AAAAA
1107760 GAAGGGTTCA
Statistics
Matches: 130, Mismatches: 30, Indels: 30
0.68 0.16 0.16
Matches are distributed among these distances:
9 9 0.07
10 17 0.13
11 44 0.34
12 50 0.38
13 9 0.07
14 1 0.01
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:1107750 original size:18 final size:19
Alignment explanation
Indices: 1107559--1107762 Score: 84
Period size: 19 Copynumber: 10.5 Consensus size: 19
1107549 TATTTTACTT
*
1107559 GAAAAAG-AAATGAAAAAA
1 GAAAAAGAAAAAGAAAAAA
*
1107577 G-AAAA-AAGAA-AAAAAA
1 GAAAAAGAAAAAGAAAAAA
1107593 GAGAAAAGAGAAAAGAAAAAAA
1 GA-AAAAGA-AAAAG-AAAAAA
* *
1107615 TGAAAAA-ATTAATGAAAAAA
1 -GAAAAAGA-AAAAGAAAAAA
* *
1107635 TAAATGAAAAAAAAGAAAAAA
1 GAAA--AAGAAAAAGAAAAAA
*
1107656 GAGAAGAGAAAAAGTGAAAAAA
1 GA-AAAAGAAAAA--GAAAAAA
** * *
1107678 TTTAAAA-AAATA-AAAAAT
1 -GAAAAAGAAAAAGAAAAAA
* *
1107696 GAAAAAAGAGAAA-AATAAA
1 G-AAAAAGAAAAAGAAAAAA
*
1107715 GAAAAAAGGAAAAG-AAAAA
1 G-AAAAAGAAAAAGAAAAAA
1107734 GAAAAAGAAAAAGAAAAGAA
1 GAAAAAGAAAAAGAAAA-AA
*
1107754 TAAAAAGAA
1 GAAAAAGAA
1107763 GGGTTCAAGA
Statistics
Matches: 138, Mismatches: 28, Indels: 38
0.68 0.14 0.19
Matches are distributed among these distances:
16 7 0.05
17 6 0.04
18 25 0.18
19 30 0.22
20 25 0.18
21 20 0.14
22 23 0.17
23 2 0.01
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (19 bp):
GAAAAAGAAAAAGAAAAAA
Found at i:1109133 original size:35 final size:34
Alignment explanation
Indices: 1109027--1109140 Score: 106
Period size: 35 Copynumber: 3.2 Consensus size: 34
1109017 GTTCCTTCGG
*
1109027 AGCAAATCAATATTAAGCCTTCACGAAGGAGTAGTGGAGA
1 AGCAAATC-A-ATTAAGCCTTCAGGAA-GAGTAGT---GA
* * *
1109067 AGTAAATC--TTAAGCCTTCACGAAAGAATAGTGA
1 AGCAAATCAATTAAGCCTTCA-GGAAGAGTAGTGA
1109100 AGCAAATCAATTAAGCCTTCATGGAAGAGTAGTGA
1 AGCAAATCAATTAAGCCTTCA-GGAAGAGTAGTGA
1109135 AGCAAA
1 AGCAAA
1109141 CCATCAATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
33 9 0.14
35 28 0.44
36 17 0.27
37 2 0.03
40 7 0.11
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (34 bp):
AGCAAATCAATTAAGCCTTCAGGAAGAGTAGTGA
Found at i:1109462 original size:55 final size:55
Alignment explanation
Indices: 1109388--1109582 Score: 228
Period size: 55 Copynumber: 3.5 Consensus size: 55
1109378 GACACAAATC
* * *
1109388 GAGTCCTATACTCCCTGAAAGAATAGAGAGCAGACCTATTTTTCGAAGATAGTTT
1 GAGTCCTATACTCCCTGAAAGAATAGGGAGCAGACCCATTTTTCGAAGATTGTTT
* * * ** ** *
1109443 GAGTCCTATACTCCTTGAAAGAAAAGGGAGCGGACCCGGTTACCGAAGATTGCTT
1 GAGTCCTATACTCCCTGAAAGAATAGGGAGCAGACCCATTTTTCGAAGATTGTTT
* * * * *
1109498 GAGTCCTGTACCCCCTGAAAGAATAGGGAGCATACCCATTTTTTGAATATTGTTT
1 GAGTCCTATACTCCCTGAAAGAATAGGGAGCAGACCCATTTTTCGAAGATTGTTT
* *
1109553 GAGTCCTATACTCCTTGAAAGAAAAGGGAG
1 GAGTCCTATACTCCCTGAAAGAATAGGGAG
1109583 TGGACCCGTC
Statistics
Matches: 112, Mismatches: 28, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 112 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (55 bp):
GAGTCCTATACTCCCTGAAAGAATAGGGAGCAGACCCATTTTTCGAAGATTGTTT
Found at i:1109603 original size:110 final size:110
Alignment explanation
Indices: 1109388--1109590 Score: 325
Period size: 110 Copynumber: 1.8 Consensus size: 110
1109378 GACACAAATC
* *
1109388 GAGTCCTATACTCCCTGAAAGAATAGAGAGCAGACCTATTTTTCGAAGATAGTTTGAGTCCTATA
1 GAGTCCTATACCCCCTGAAAGAATAGAGAGCAGACCCATTTTTCGAAGATAGTTTGAGTCCTATA
1109453 CTCCTTGAAAGAAAAGGGAGCGGACCCGGTTACCGAAGATTGCTT
66 CTCCTTGAAAGAAAAGGGAGCGGACCCGGTTACCGAAGATTGCTT
* * * * * *
1109498 GAGTCCTGTACCCCCTGAAAGAATAGGGAGCATACCCATTTTTTGAATATTGTTTGAGTCCTATA
1 GAGTCCTATACCCCCTGAAAGAATAGAGAGCAGACCCATTTTTCGAAGATAGTTTGAGTCCTATA
*
1109563 CTCCTTGAAAGAAAAGGGAGTGGACCCG
66 CTCCTTGAAAGAAAAGGGAGCGGACCCG
1109591 TCCTTCGAAG
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 84 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (110 bp):
GAGTCCTATACCCCCTGAAAGAATAGAGAGCAGACCCATTTTTCGAAGATAGTTTGAGTCCTATA
CTCCTTGAAAGAAAAGGGAGCGGACCCGGTTACCGAAGATTGCTT
Found at i:1109880 original size:2 final size:2
Alignment explanation
Indices: 1109875--1109905 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1109865 ATTATATAAC
1109875 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1109906 TTAACGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1111888 original size:23 final size:23
Alignment explanation
Indices: 1111862--1111905 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1111852 TACGTCCCCG
1111862 TATATTACAT-ATATATATATATA
1 TATATTACATCAT-TATATATATA
*
1111885 TATATTATATCATTATATATA
1 TATATTACATCATTATATATA
1111906 CACATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (23 bp):
TATATTACATCATTATATATATA
Found at i:1111893 original size:17 final size:17
Alignment explanation
Indices: 1111865--1111905 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
1111855 GTCCCCGTAT
*
1111865 ATTACATATA-TATAT-
1 ATTATATATATTATATC
1111880 A-TATATATATTATATC
1 ATTATATATATTATATC
1111896 ATTATATATA
1 ATTATATATA
1111906 CACATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 7 0.32
15 6 0.27
16 1 0.05
17 8 0.36
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATATATATTATATC
Found at i:1111894 original size:21 final size:21
Alignment explanation
Indices: 1111877--1111925 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1111867 TACATATATA
* *
1111877 TATATATATATATTATATCAT
1 TATATATACACATTATATCAT
*
1111898 TATATATACACATTATATTAT
1 TATATATACACATTATATCAT
*
1111919 TACATAT
1 TATATAT
1111926 TACTATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATATACACATTATATCAT
Found at i:1111933 original size:21 final size:21
Alignment explanation
Indices: 1111880--1111935 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
1111870 ATATATATAT
* *
1111880 ATATATATATTATATCATTAT
1 ATATACATATTATATCATTAC
* *
1111901 ATATACACATTATATTATTAC
1 ATATACATATTATATCATTAC
1111922 ATATTAC-TATTATA
1 ATA-TACATATTATA
1111936 ATTGGTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATACATATTATATCATTAC
Found at i:1115034 original size:26 final size:26
Alignment explanation
Indices: 1115005--1115108 Score: 76
Period size: 26 Copynumber: 4.1 Consensus size: 26
1114995 ATTATATGAC
* *
1115005 TATATATTTATTTATAGTGTATAGTA
1 TATATATATATATATAGTGTATAGTA
* * *
1115031 TATATATATATATATTGTTTATATTA
1 TATATATATATATATAGTGTATAGTA
*
1115057 TATA-ATATATACATA-T-TAT-GT-
1 TATATATATATATATAGTGTATAGTA
*
1115078 TATATGCTATAATTATATAGTGTATA-TA
1 TATAT-ATAT-A-TATATAGTGTATAGTA
1115106 TAT
1 TAT
1115109 TATGTTTTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
21 4 0.07
22 1 0.02
23 6 0.10
24 2 0.03
25 14 0.23
26 26 0.43
27 4 0.07
28 3 0.05
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (26 bp):
TATATATATATATATAGTGTATAGTA
Found at i:1115078 original size:29 final size:30
Alignment explanation
Indices: 1115030--1115096 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 30
1115020 AGTGTATAGT
* *
1115030 ATATATATATATATATTGTTTATATTATATA
1 ATATATACATATATATTG-TTATATGATATA
*
1115061 ATATATACATAT-TA-TGTTATATGCTATA
1 ATATATACATATATATTGTTATATGATATA
1115089 ATTATATA
1 A-TATATA
1115097 GTGTATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 11 0.34
29 8 0.25
30 2 0.06
31 11 0.34
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (30 bp):
ATATATACATATATATTGTTATATGATATA
Found at i:1115171 original size:21 final size:21
Alignment explanation
Indices: 1115145--1115202 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
1115135 ATAGCATATA
1115145 TATATATATATATTATATCAT
1 TATATATATATATTATATCAT
* * *
1115166 TATATATACACATTATATTAT
1 TATATATATATATTATATCAT
*
1115187 TACATAT-TATTATTAT
1 TATATATATA-TATTAT
1115203 TATAATTGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (21 bp):
TATATATATATATTATATCAT
Found at i:1115563 original size:24 final size:23
Alignment explanation
Indices: 1115520--1115564 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
1115510 AAACCCGTAT
*
1115520 TTTCGAAAATAGAAAGAAAAAGA
1 TTTCGAAAATAGAAAAAAAAAGA
1115543 TTTCGGAAAAT-GTAAAAAAAAA
1 TTTC-GAAAATAG-AAAAAAAAA
1115565 ATTACCACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.60, C:0.04, G:0.16, T:0.20
Consensus pattern (23 bp):
TTTCGAAAATAGAAAAAAAAAGA
Found at i:1116345 original size:2 final size:2
Alignment explanation
Indices: 1116338--1116369 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1116328 TTAATTCCTC
1116338 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1116370 TACTTAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1118823 original size:14 final size:14
Alignment explanation
Indices: 1118793--1118833 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
1118783 AATATTTAAA
*
1118793 ATTTAAATTACAAT
1 ATTTAAATTAAAAT
1118807 ATTATAAA-TAAAAT
1 ATT-TAAATTAAAAT
1118821 ATTTAAATTAAAA
1 ATTTAAATTAAAA
1118834 ATAAAAATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 4 0.17
14 16 0.67
15 4 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTTAAATTAAAAT
Found at i:1119704 original size:43 final size:43
Alignment explanation
Indices: 1119657--1119788 Score: 128
Period size: 43 Copynumber: 3.1 Consensus size: 43
1119647 AATGTCGTGA
1119657 TATATAGCGATGTTTTTTCTGCAAACACCGCAACAAATTTGGT
1 TATATAGCGATGTTTTTTCTGCAAACACCGCAACAAATTTGGT
* ** * * * * *
1119700 TATATA-CTGGTGTTTTAGGC-ACAAACACTGC--TAAATGTCGTGA
1 TATATAGC-GATGTTTT-TTCTGCAAACACCGCAACAAAT-TTG-GT
1119743 TATATAGCGATGTTTTTTCTGCAAACACCGCAACAAATTTGGT
1 TATATAGCGATGTTTTTTCTGCAAACACCGCAACAAATTTGGT
1119786 TAT
1 TAT
1119789 TTACTGGTGT
Statistics
Matches: 65, Mismatches: 16, Indels: 16
0.67 0.16 0.16
Matches are distributed among these distances:
41 4 0.06
42 4 0.06
43 49 0.75
44 4 0.06
45 4 0.06
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (43 bp):
TATATAGCGATGTTTTTTCTGCAAACACCGCAACAAATTTGGT
Found at i:1119742 original size:86 final size:86
Alignment explanation
Indices: 1119647--1119886 Score: 374
Period size: 86 Copynumber: 2.8 Consensus size: 86
1119637 AACGTCGCTT
1119647 AATGTCGTGATATATAGCGATGTTTTTTCTGCAAACACCGCAACAAATTTGGTTATATACTGGTG
1 AATGTCGTGATATATAGCGATGTTTTTTCTGCAAACACCGCAACAAATTTGGTTATATACTGGTG
1119712 TTTTAGGCACAAACACTGCTA
66 TTTTAGGCACAAACACTGCTA
*
1119733 AATGTCGTGATATATAGCGATGTTTTTTCTGCAAACACCGCAACAAATTTGGTTATTTACTGGTG
1 AATGTCGTGATATATAGCGATGTTTTTTCTGCAAACACCGCAACAAATTTGGTTATATACTGGTG
1119798 TTTTAGGCACAAACACTGCTA
66 TTTTAGGCACAAACACTGCTA
* * * * * * * * * *
1119819 AATGACGTGATATATAGCAACG-TTTTTCTACAAACGCAGCAACAAGTTTGGTTGTATAGTGGTA
1 AATGTCGTGATATATAGCGATGTTTTTTCTGCAAACACCGCAACAAATTTGGTTATATACTGGTG
1119883 TTTT
66 TTTT
1119887 TTCTGCTAAC
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
85 38 0.27
86 104 0.73
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (86 bp):
AATGTCGTGATATATAGCGATGTTTTTTCTGCAAACACCGCAACAAATTTGGTTATATACTGGTG
TTTTAGGCACAAACACTGCTA
Found at i:1119811 original size:43 final size:43
Alignment explanation
Indices: 1119678--1119813 Score: 127
Period size: 43 Copynumber: 3.2 Consensus size: 43
1119668 GTTTTTTCTG
1119678 CAAACACCGCAACAAATTTGGTTATATACTGGTGTTTTAGGCA
1 CAAACACCGCAACAAATTTGGTTATATACTGGTGTTTTAGGCA
* * * * * ** *
1119721 CAAACACTGC--TAAATGTCGTGATATATAGC-GATGTTTT-TTCTG
1 CAAACACCGCAACAAAT-TTG-GTTATATA-CTGGTGTTTTAGGC-A
*
1119764 CAAACACCGCAACAAATTTGGTTATTTACTGGTGTTTTAGGCA
1 CAAACACCGCAACAAATTTGGTTATATACTGGTGTTTTAGGCA
1119807 CAAACAC
1 CAAACAC
1119814 TGCTAAATGA
Statistics
Matches: 68, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
41 4 0.06
42 4 0.06
43 52 0.76
44 4 0.06
45 4 0.06
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (43 bp):
CAAACACCGCAACAAATTTGGTTATATACTGGTGTTTTAGGCA
Found at i:1124465 original size:22 final size:22
Alignment explanation
Indices: 1124417--1124465 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1124407 TTTTGACTTT
*
1124417 TCGGTCAAAATCAACAGTCTGA
1 TCGGTCAAAATCAACAGTATGA
* * *
1124439 CCGGTCAAATTCAACGGTATGA
1 TCGGTCAAAATCAACAGTATGA
1124461 TCGGT
1 TCGGT
1124466 TAACGTTTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (22 bp):
TCGGTCAAAATCAACAGTATGA
Found at i:1129760 original size:13 final size:13
Alignment explanation
Indices: 1129742--1129777 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1129732 AGGTAAGTCA
1129742 ACGGGTCGGGCAG
1 ACGGGTCGGGCAG
* *
1129755 ACGGGTCAGTCAG
1 ACGGGTCGGGCAG
1129768 ACGGGTCGGG
1 ACGGGTCGGG
1129778 TAACCAGTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.17, C:0.22, G:0.50, T:0.11
Consensus pattern (13 bp):
ACGGGTCGGGCAG
Found at i:1131913 original size:22 final size:23
Alignment explanation
Indices: 1131870--1131914 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
1131860 AAAAATAGTC
*
1131870 AAAGAAGATGAAAGAGGCAAAAG
1 AAAGAAGATGAAAGAGGAAAAAG
1131893 AAAGAA-ATG-AAGAGAGAAAAAG
1 AAAGAAGATGAAAGAG-GAAAAAG
1131915 CTTTTCTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 9 0.45
23 6 0.30
ACGTcount: A:0.64, C:0.02, G:0.29, T:0.04
Consensus pattern (23 bp):
AAAGAAGATGAAAGAGGAAAAAG
Found at i:1136498 original size:3 final size:3
Alignment explanation
Indices: 1136490--1136542 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
1136480 GACTATATAC
* *
1136490 TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT TAT TA- TAT ATATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T
1136535 TAT TAT TA
1 TAT TAT TA
1136543 CAAATAATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 4 0.10
3 33 0.79
4 4 0.10
5 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1137250 original size:12 final size:12
Alignment explanation
Indices: 1137232--1137264 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1137222 TGACCGGCGG
1137232 TGAATAGTGAC-
1 TGAATAGTGACA
1137243 TGGAATAGTGACA
1 T-GAATAGTGACA
1137256 TGAATAGTG
1 TGAATAGTG
1137265 TTCGGCGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 18 0.90
13 1 0.05
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.27
Consensus pattern (12 bp):
TGAATAGTGACA
Found at i:1138640 original size:9 final size:9
Alignment explanation
Indices: 1138626--1138658 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1138616 TATCTTATGC
1138626 TAATTAATT
1 TAATTAATT
1138635 TAATTAATT
1 TAATTAATT
*
1138644 TTA-TAATT
1 TAATTAATT
1138652 TAATTAA
1 TAATTAA
1138659 AGAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TAATTAATT
Found at i:1144929 original size:7 final size:7
Alignment explanation
Indices: 1144917--1144957 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
1144907 CATCAGAAAA
1144917 AAAAGAG
1 AAAAGAG
1144924 AAAAGAG
1 AAAAGAG
1144931 AAAAGAG
1 AAAAGAG
*
1144938 AAAAGAA
1 AAAAGAG
1144945 AAGAAGAAG
1 AA-AAG-AG
1144954 AAAA
1 AAAA
1144958 TTGAATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
7 22 0.73
8 5 0.17
9 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:1144946 original size:12 final size:12
Alignment explanation
Indices: 1144911--1144957 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
1144901 CTCATCCATC
1144911 AGAAAA-AAAAG
1 AGAAAAGAAAAG
1144922 AGAAAAGAGAAAAG
1 AG-AAA-AGAAAAG
1144936 AGAAAAGAAAAG
1 AGAAAAGAAAAG
*
1144948 A-AGAAGAAAA
1 AGAAAAGAAAA
1144958 TTGAATTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 10 0.31
12 11 0.34
13 4 0.12
14 7 0.22
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AGAAAAGAAAAG
Found at i:1147702 original size:20 final size:20
Alignment explanation
Indices: 1147670--1147724 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
1147660 TATAGAAAAT
* *
1147670 TAAAACCTTCGGGTAATTTG
1 TAAAACCTCCGGGTAATCTG
* *
1147690 TAAATCCTCCGGGTCATCTG
1 TAAAACCTCCGGGTAATCTG
*
1147710 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
1147725 GGATGTTTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATCTG
Found at i:1147725 original size:119 final size:119
Alignment explanation
Indices: 1147565--1148516 Score: 1733
Period size: 119 Copynumber: 8.0 Consensus size: 119
1147555 ATTTCCCACA
* * *
1147565 AATTTGTTAATCCTCCGGGTCATCTGTAAAACCTCACGGTAGGATATTTTCGCATGAAAATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
** ** * * *
1147630 AAGCAATTATTAAAGCTTCTCATTTAATGTTATAGAAAATTAAAACCTTCGGGT
66 AAGTGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
1147684 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1147749 AAGTGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
66 AAGTGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
*
1147803 AATTTGTAAATCCTCCGGGTCATCTATAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
*
1147868 AAATGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
66 AAGTGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
1147922 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
*
1147987 AAGTGATTACCAAAGTTTCTTATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
66 AAGTGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
*
1148041 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATAAAAATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
*
1148106 AAATGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
66 AAGTGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
1148160 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
*
1148225 AAGCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
66 AAGTGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
* *
1148279 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGTATAAAAATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1148344 AAGTGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
66 AAGTGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
1148398 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
*
1148463 AAGCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
66 AAGTGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
1148517 CATCTATAAA
Statistics
Matches: 806, Mismatches: 27, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 806 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (119 bp):
AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
AAGTGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
Found at i:1147832 original size:20 final size:20
Alignment explanation
Indices: 1147789--1147843 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
1147779 TCTAGAAAAT
* *
1147789 TAAAACCTCCGGGTAATTTG
1 TAAAACCTCCGGGTAATCTA
* *
1147809 TAAATCCTCCGGGTCATCTA
1 TAAAACCTCCGGGTAATCTA
*
1147829 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
1147844 GGATGTTTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATCTA
Found at i:1147936 original size:20 final size:20
Alignment explanation
Indices: 1147908--1147962 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1147898 TCTAGAAAAT
*
1147908 TAAAACCTCCGGGTAATTTG
1 TAAAACCTCCGGGTAATCTG
* *
1147928 TAAATCCTCCGGGTCATCTG
1 TAAAACCTCCGGGTAATCTG
*
1147948 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
1147963 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATCTG
Found at i:1148055 original size:20 final size:20
Alignment explanation
Indices: 1148027--1148081 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1148017 TCTAGAAAAT
*
1148027 TAAAACCTCCGGGTAATTTG
1 TAAAACCTCCGGGTAATCTG
* *
1148047 TAAATCCTCCGGGTCATCTG
1 TAAAACCTCCGGGTAATCTG
*
1148067 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
1148082 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATCTG
Found at i:1148174 original size:20 final size:20
Alignment explanation
Indices: 1148146--1148200 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1148136 TCTAGAAAAT
*
1148146 TAAAACCTCCGGGTAATTTG
1 TAAAACCTCCGGGTAATCTG
* *
1148166 TAAATCCTCCGGGTCATCTG
1 TAAAACCTCCGGGTAATCTG
*
1148186 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
1148201 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATCTG
Found at i:1148293 original size:20 final size:20
Alignment explanation
Indices: 1148265--1148319 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1148255 TCTAGAAAAT
*
1148265 TAAAACCTCCGGGTAATTTG
1 TAAAACCTCCGGGTAATCTG
* *
1148285 TAAATCCTCCGGGTCATCTG
1 TAAAACCTCCGGGTAATCTG
*
1148305 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
1148320 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATCTG
Found at i:1148412 original size:20 final size:20
Alignment explanation
Indices: 1148384--1148438 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1148374 TCTAGAAAAT
*
1148384 TAAAACCTCCGGGTAATTTG
1 TAAAACCTCCGGGTAATCTG
* *
1148404 TAAATCCTCCGGGTCATCTG
1 TAAAACCTCCGGGTAATCTG
*
1148424 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
1148439 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATCTG
Found at i:1148691 original size:3 final size:3
Alignment explanation
Indices: 1148683--1148746 Score: 76
Period size: 3 Copynumber: 20.7 Consensus size: 3
1148673 GACTATATAC
* *
1148683 TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1148730 ATAT ATATT TAT TAT TA
1 -TAT -TA-T TAT TAT TA
1148747 CAAATAATAC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
2 2 0.04
3 43 0.80
4 8 0.15
5 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1149464 original size:12 final size:12
Alignment explanation
Indices: 1149446--1149478 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1149436 TGACCCACGA
1149446 TGAATAGTGAC-
1 TGAATAGTGACG
1149457 TGGAATAGTGACG
1 T-GAATAGTGACG
1149470 TGAATAGTG
1 TGAATAGTG
1149479 TTCGGCGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 18 0.90
13 1 0.05
ACGTcount: A:0.33, C:0.06, G:0.33, T:0.27
Consensus pattern (12 bp):
TGAATAGTGACG
Found at i:1150829 original size:9 final size:9
Alignment explanation
Indices: 1150815--1150847 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1150805 TATCTTATGC
1150815 TAATTAATT
1 TAATTAATT
1150824 TAATTAATT
1 TAATTAATT
*
1150833 TTA-TAATT
1 TAATTAATT
1150841 TAATTAA
1 TAATTAA
1150848 AGAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TAATTAATT
Found at i:1154720 original size:87 final size:88
Alignment explanation
Indices: 1154566--1154725 Score: 250
Period size: 87 Copynumber: 1.8 Consensus size: 88
1154556 TCGATGAATT
* **
1154566 CATCAAGTCCGTCTCATTAGGACCACCCATAAACTTGGGCTATGAATTCATTAAGAGTATAAAAC
1 CATCAAGTCCGTATCACCAGGACCACCCATAAACTTGGGCTATGAATTCATTAAGAGTATAAAAC
1154631 TCAACCTCACAAACCGGTGTATC
66 TCAACCTCACAAACCGGTGTATC
* * * *
1154654 CATCAAGTCCGTATCACCAGGACCACCCA-AATCTTTGGTTATGGATTCATTAAGAGTATAAAAC
1 CATCAAGTCCGTATCACCAGGACCACCCATAAACTTGGGCTATGAATTCATTAAGAGTATAAAAC
1154718 TCAACCTC
66 TCAACCTC
1154726 TCAAGTGTAC
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 39 0.60
88 26 0.40
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (88 bp):
CATCAAGTCCGTATCACCAGGACCACCCATAAACTTGGGCTATGAATTCATTAAGAGTATAAAAC
TCAACCTCACAAACCGGTGTATC
Found at i:1159181 original size:6 final size:6
Alignment explanation
Indices: 1159170--1159240 Score: 72
Period size: 6 Copynumber: 11.3 Consensus size: 6
1159160 TATATAACTA
* *
1159170 TTATTT TTATTTT TTATTT TTATTT TTATTAT TATATTT CTATTT TT-TTA
1 TTATTT TTA-TTT TTATTT TTATTT TTATT-T T-TATTT TTATTT TTATTT
*
1159220 TTATTT ATTATTA TTATTT TT
1 TTATTT -TTATTT TTATTT TT
1159241 GCAAATTTAC
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
5 4 0.07
6 32 0.59
7 14 0.26
8 4 0.07
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:1159203 original size:3 final size:3
Alignment explanation
Indices: 1159168--1159237 Score: 51
Period size: 3 Copynumber: 24.3 Consensus size: 3
1159158 ATTATATAAC
* * *
1159168 TAT TAT TTT TAT T-T T-T TAT TTT TAT TTT TAT TAT TA- TAT T-T CTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
1159213 T-T TTT TAT TATT TAT TAT TAT TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT T
1159238 TTTGCAAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
2 9 0.17
3 41 0.76
4 4 0.07
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.76
Consensus pattern (3 bp):
TAT
Found at i:1159844 original size:19 final size:19
Alignment explanation
Indices: 1159820--1159858 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1159810 TTTTAAATAC
1159820 TCCCTCTCTTTCTCTTAGA
1 TCCCTCTCTTTCTCTTAGA
1159839 TCCCTCTCTTTCTCTTAGA
1 TCCCTCTCTTTCTCTTAGA
1159858 T
1 T
1159859 TAAAAGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.36, G:0.05, T:0.49
Consensus pattern (19 bp):
TCCCTCTCTTTCTCTTAGA
Found at i:1164956 original size:44 final size:47
Alignment explanation
Indices: 1164872--1164973 Score: 124
Period size: 45 Copynumber: 2.3 Consensus size: 47
1164862 CATTGAAGTG
*
1164872 GTCT-CATGCGCATTATCACGGTCGGCCATTGCTCCAAAAAG-CAT-
1 GTCTCCATGCGCATTATCACGATCGGCCATTGCTCCAAAAAGTCATA
* * *
1164916 GTCTCCATGCGCATTGTCATGATCGGCCATTTCT-CAAAAAGTCATA
1 GTCTCCATGCGCATTATCACGATCGGCCATTGCTCCAAAAAGTCATA
*
1164962 G-CCCCATGCGCA
1 GTCTCCATGCGCA
1164974 ACATTATGGT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
44 11 0.22
45 38 0.76
46 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (47 bp):
GTCTCCATGCGCATTATCACGATCGGCCATTGCTCCAAAAAGTCATA
Found at i:1165026 original size:30 final size:30
Alignment explanation
Indices: 1164992--1165091 Score: 155
Period size: 30 Copynumber: 3.3 Consensus size: 30
1164982 GTCCAGTGGT
* *
1164992 GCATTATTAAAAGGTATGGCTCCATCATGC
1 GCATTATTAAAAGATATGGCCCCATCATGC
* *
1165022 GCATTAATAAAAGATATGACCCCATCATGC
1 GCATTATTAAAAGATATGGCCCCATCATGC
*
1165052 GCATTATTAAAAGATATGGCCCCATAATGC
1 GCATTATTAAAAGATATGGCCCCATCATGC
1165082 GCATTATTAA
1 GCATTATTAA
1165092 TAACATTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (30 bp):
GCATTATTAAAAGATATGGCCCCATCATGC
Found at i:1165549 original size:30 final size:30
Alignment explanation
Indices: 1165513--1165612 Score: 155
Period size: 30 Copynumber: 3.3 Consensus size: 30
1165503 TAGACAAAGC
* *
1165513 TGGTGGAACACACATTGATGGAGCAGATGT
1 TGGTGGAGCACACGTTGATGGAGCAGATGT
*
1165543 TGGTGGAGCACACGTTGATGGAGCAGATGC
1 TGGTGGAGCACACGTTGATGGAGCAGATGT
* *
1165573 TGGTGGAGCACACGTTGATGGGGCATATGT
1 TGGTGGAGCACACGTTGATGGAGCAGATGT
1165603 TGGTGGAGCA
1 TGGTGGAGCA
1165613 TGTGTTGTCT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.24, C:0.14, G:0.39, T:0.23
Consensus pattern (30 bp):
TGGTGGAGCACACGTTGATGGAGCAGATGT
Found at i:1165613 original size:15 final size:15
Alignment explanation
Indices: 1165531--1165612 Score: 83
Period size: 15 Copynumber: 5.5 Consensus size: 15
1165521 CACACATTGA
*
1165531 TGGAGCAGATGTTGG
1 TGGAGCACATGTTGG
* *
1165546 TGGAGCACACGTTGA
1 TGGAGCACATGTTGG
* *
1165561 TGGAGCAGATGCTGG
1 TGGAGCACATGTTGG
* *
1165576 TGGAGCACACGTTGA
1 TGGAGCACATGTTGG
* *
1165591 TGGGGCATATGTTGG
1 TGGAGCACATGTTGG
1165606 TGGAGCA
1 TGGAGCA
1165613 TGTGTTGTCT
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 51 1.00
ACGTcount: A:0.22, C:0.13, G:0.41, T:0.23
Consensus pattern (15 bp):
TGGAGCACATGTTGG
Found at i:1167477 original size:18 final size:18
Alignment explanation
Indices: 1167456--1167490 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1167446 TACAAGATAA
1167456 CAAACTATTCTAGAACTT
1 CAAACTATTCTAGAACTT
1167474 CAAACTATTCTAGAACT
1 CAAACTATTCTAGAACT
1167491 CACAACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (18 bp):
CAAACTATTCTAGAACTT
Found at i:1169163 original size:31 final size:31
Alignment explanation
Indices: 1169128--1169186 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1169118 CTGCATATTT
*
1169128 TATTTGTATTGT-ATAAATAATATTTAAAATA
1 TATTTATATTGTAATAAA-AATATTTAAAATA
*
1169159 TATTTATATTTTAATAAAAATATTTAAA
1 TATTTATATTGTAATAAAAATATTTAAA
1169187 TGTATGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (31 bp):
TATTTATATTGTAATAAAAATATTTAAAATA
Found at i:1171009 original size:11 final size:11
Alignment explanation
Indices: 1170993--1171019 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1170983 ATCCTCTAAG
1170993 TTTTTATTTTA
1 TTTTTATTTTA
1171004 TTTTTATTTTA
1 TTTTTATTTTA
1171015 TTTTT
1 TTTTT
1171020 TAATGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:1171105 original size:3 final size:3
Alignment explanation
Indices: 1171097--1171123 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1171087 CAATTTTCTA
1171097 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1171124 TTGTGTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1171156 original size:4 final size:4
Alignment explanation
Indices: 1171149--1171318 Score: 95
Period size: 4 Copynumber: 40.8 Consensus size: 4
1171139 TTTTTTTATT
* *
1171149 TTTA TTTA TTCTA TTT- TTTA TTTTA TTCT- TTTCT TTTGA CTTTT TTTAA
1 TTTA TTTA TT-TA TTTA TTTA -TTTA TT-TA TTT-A TTT-A -TTTA TTT-A
* *
1171198 TTTA TTTA TTT- TTTA TTT- TTTAA TTTA TTT- TCTT- TTCCTC TTGA
1 TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA T-TTA TT--TA TTTA
* *
1171242 CTTA -TTA TTTA TTTA -TTA TTTTA TATA TTTA TTTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA TTTA TTTA
1171290 TTTTA TTTA TTTTA TTTA TTTA TTTA TTT
1 -TTTA TTTA -TTTA TTTA TTTA TTTA TTT
1171319 CTTTTTTGTC
Statistics
Matches: 135, Mismatches: 10, Indels: 42
0.72 0.05 0.22
Matches are distributed among these distances:
3 18 0.13
4 78 0.58
5 34 0.25
6 5 0.04
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:1171296 original size:26 final size:27
Alignment explanation
Indices: 1171246--1171318 Score: 112
Period size: 26 Copynumber: 2.7 Consensus size: 27
1171236 TCTTGACTTA
*
1171246 TTATTTATTTATTATTTTATATATTTATT
1 TTATTTATTTATT-TATT-TATATTTATT
1171275 TTATTTATTTATTTATTT-TATTTATT
1 TTATTTATTTATTTATTTATATTTATT
1171301 TTATTTATTTATTTATTT
1 TTATTTATTTATTTATTT
1171319 CTTTTTTGTC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
26 26 0.60
27 1 0.02
28 3 0.07
29 13 0.30
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (27 bp):
TTATTTATTTATTTATTTATATTTATT
Found at i:1174064 original size:95 final size:95
Alignment explanation
Indices: 1173949--1174211 Score: 402
Period size: 95 Copynumber: 2.7 Consensus size: 95
1173939 AGATTATAAT
*
1173949 ATTATATATATACAATAAAGCTTGAGCTATCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTA
1 ATTATA-ATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
1174014 TGGATAATATTCAGCTAGCCTGATAAAGGTG
65 TGGATAATATTCAGCTAGCCTGATAAAGGTG
* * *
1174045 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGATTTAT
1 ATTATAATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
1174110 GGATAATATTCAGCTAGCCTGATAAAGGTG
66 GGATAATATTCAGCTAGCCTGATAAAGGTG
** * *
1174140 ATTATAATAT-CTATATAATGATATTAAGCTATCCCTCTAGAGAAATTGGTTAAACGCCCCGGCT
1 ATTATAATATAC-A-ATAA--AGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCT
1174204 TTATGGAT
62 TTATGGAT
1174212 TCAGCTAGCC
Statistics
Matches: 152, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
94 1 0.01
95 96 0.63
96 10 0.07
98 45 0.30
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
GGATAATATTCAGCTAGCCTGATAAAGGTG
Found at i:1176377 original size:84 final size:84
Alignment explanation
Indices: 1175342--1176387 Score: 1283
Period size: 84 Copynumber: 12.5 Consensus size: 84
1175332 GAAACTATTG
*
1175342 GCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
1175407 ACTCAAAGGAACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * ** *
1175426 GCACCATAGCTCAAGGC---AAGGGCTATTTGCCAAGGAAAGACCTTCGAGTTCGACTACGGTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
1175488 GCTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * * * *
1175507 ACAGCATAACTCAAGGCTAAAAGGGCTATCTGCCACCAAACGACATTCGAATTTGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
**
1175572 GCTCTCAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
1175591 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
1175656 GGTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * *
1175675 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCACCAAAAGGCGTTTGAGTTTGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
**
1175740 GCTCCCAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * *
1175759 GCAGCATCACTCAAGGCTAGAAGAGTTATCTTCTAACAAAAGACCTTCGAGTTCGACTACTCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
1175824 GCTCAAAGGTATATCATTT
66 GCTCAAAGGCACATCATTT
* ** * * * * * * * *
1175843 ACAATATAGCTCAAGGCTAAAAGGGCTATCTTCCACCAAAATACCTTCGAGTTAGACTACGCTTA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
1175908 GCTCAAAGGCACATTATTT
66 GCTCAAAGGCACATCATTT
* * * * *
1175927 GCAACATAGA-TCAAGGCAAGAAGCGTTATTTTCCAACAAAAGACCTTCGAGTTCGACTACGCTC
1 GCAGCATA-ACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTC
* *
1175991 AGCTCAAAGGAATATCATTT
65 AGCTCAAAGGCACATCATTT
* * *
1176011 GCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
1176076 GCTCCAAGGTACATCATTT
66 GCTCAAAGGCACATCATTT
* * * *
1176095 GCAGCATAACTCAAGGATAGAAGGGCTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
1176160 GCTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * * *
1176179 GCAGCATAAATCAAGGCTAGAAGGGTTATTTACCAACCAATGACCTTTGAGTTCGACAACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
1176244 GCTCAAAGGCATATCATTT
66 GCTCAAAGGCACATCATTT
* *
1176263 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTGT-GAGTTCGATTACACTC
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCT-TCGAGTTCGACTACGCTC
1176327 AGCTCAAAGGCACATCATTT
65 AGCTCAAAGGCACATCATTT
* * * * ** *
1176347 ACAACATAGCTCAAGGCGAGAAGGACTATCTGTCAACAAAA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAA
1176388 TTGTCGAGTT
Statistics
Matches: 817, Mismatches: 139, Indels: 12
0.84 0.14 0.01
Matches are distributed among these distances:
81 69 0.08
83 1 0.00
84 746 0.91
85 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (84 bp):
GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
GCTCAAAGGCACATCATTT
Found at i:1178027 original size:17 final size:16
Alignment explanation
Indices: 1178005--1178171 Score: 89
Period size: 15 Copynumber: 10.3 Consensus size: 16
1177995 GTGTTCTTTG
1178005 ATTTATTTGATTTATTT
1 ATTTATTT-ATTTATTT
1178022 ATTTATTTTATTTATTT
1 ATTTA-TTTATTTATTT
1178039 ATTTATTT-TTTATTTT
1 ATTTATTTATTTA-TTT
* *
1178055 ATTTTTTTCTTTTGACTTT
1 ATTTATTT-ATTT-A-TTT
* *
1178074 TTTTCAATTTATTTAATT
1 ATTT--ATTTATTTATTT
*
1178092 -TTTATTT-GTTATTTT
1 ATTTATTTATTTA-TTT
* **
1178107 ATTT-TCT-TTTCCTT
1 ATTTATTTATTTATTT
* *
1178121 -TTGACTTA-TTATTT
1 ATTTATTTATTTATTT
*
1178135 ATTTATTTTATATATTT
1 ATTTA-TTTATTTATTT
1178152 ATTT-TTTATTTATTT
1 ATTTATTTATTTATTT
1178167 ATTTA
1 ATTTA
1178172 ACATTTATTT
Statistics
Matches: 114, Mismatches: 21, Indels: 31
0.69 0.13 0.19
Matches are distributed among these distances:
13 2 0.02
14 10 0.09
15 31 0.27
16 19 0.17
17 30 0.26
18 8 0.07
19 8 0.07
20 3 0.03
21 3 0.03
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (16 bp):
ATTTATTTATTTATTT
Found at i:1178060 original size:13 final size:13
Alignment explanation
Indices: 1178015--1178087 Score: 69
Period size: 13 Copynumber: 5.5 Consensus size: 13
1178005 ATTTATTTGA
*
1178015 TTTATTTATTTAT
1 TTTATTTTTTTAT
*
1178028 TTTATTTATTTA-
1 TTTATTTTTTTAT
1178040 TTTA-TTTTTTAT
1 TTTATTTTTTTAT
*
1178052 TTTATTTTTTTCT
1 TTTATTTTTTTAT
*
1178065 TTTGACTTTTTTTCAA
1 TTT-A-TTTTTTT-AT
1178081 TTTATTT
1 TTTATTT
1178088 AATTTTTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
11 6 0.12
12 8 0.16
13 22 0.43
14 4 0.08
15 8 0.16
16 3 0.06
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (13 bp):
TTTATTTTTTTAT
Done.