Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_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: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 35
Found at i:8834501 original size:23 final size:23
Alignment explanation
Indices: 8834460--8834503 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8834450 TATAATAAAT
*
8834460 AATTATTTATATTTTTTTCAAAA
1 AATTATTTATATATTTTTCAAAA
8834483 AATTATTT-TGATATTTTTCAA
1 AATTATTTAT-ATATTTTTCAA
8834504 TATCGAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (23 bp):
AATTATTTATATATTTTTCAAAA
Found at i:8838538 original size:15 final size:15
Alignment explanation
Indices: 8838508--8838552 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 15
8838498 TTTGGGATCA
*
8838508 ATACCTTTTCGCATAC
1 ATACATTTT-GCATAC
8838524 ATACATTTTGCATAC
1 ATACATTTTGCATAC
8838539 ATACATTTTGCATA
1 ATACATTTTGCATA
8838553 TATTTATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (15 bp):
ATACATTTTGCATAC
Found at i:8838608 original size:11 final size:11
Alignment explanation
Indices: 8838592--8838616 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8838582 ATGAATATTT
8838592 TTTTTATTTTA
1 TTTTTATTTTA
8838603 TTTTTATTTTA
1 TTTTTATTTTA
8838614 TTT
1 TTT
8838617 ATTAAGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:8845922 original size:9 final size:9
Alignment explanation
Indices: 8845908--8845966 Score: 68
Period size: 9 Copynumber: 6.6 Consensus size: 9
8845898 GCTTGAAGAA
8845908 AAAAAAAAG
1 AAAAAAAAG
8845917 AAAAAAAAG
1 AAAAAAAAG
*
8845926 AGAGAAAAAG
1 A-AAAAAAAG
8845936 --AAAAAAG
1 AAAAAAAAG
*
8845943 AAAAAAGAG
1 AAAAAAAAG
8845952 AAAAAAGAAG
1 AAAAAA-AAG
8845962 AAAAA
1 AAAAA
8845967 GGGGGGGTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
7 6 0.14
9 22 0.52
10 14 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:8845946 original size:26 final size:23
Alignment explanation
Indices: 8845904--8845965 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 23
8845894 TTATGCTTGA
8845904 AGAAAAAA-AAAAGAA-AAAAAAG
1 AGAAAAAAGAAAA-AAGAAAAAAG
8845926 AGAGAAAAAGAAAAAAGAAAAAAG
1 AGA-AAAAAGAAAAAAGAAAAAAG
8845950 AGAAAAAAGAAGAAAA
1 AGAAAAAAGAA-AAAA
8845966 AGGGGGGGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
22 3 0.08
23 15 0.42
24 18 0.50
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (23 bp):
AGAAAAAAGAAAAAAGAAAAAAG
Found at i:8845956 original size:33 final size:31
Alignment explanation
Indices: 8845906--8845967 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 31
8845896 ATGCTTGAAG
8845906 AAAAAAAAAAGAAAAAAAAGAGAGAAAAAGAA
1 AAAAAAAAAAGAAAAAAAAGA-AGAAAAAGAA
*
8845938 AAAAGAAAAAAGAGAAAAAAGAAGAAAAAG
1 AAAA-AAAAAAGAAAAAAAAGAAGAAAAAG
8845968 GGGGGGTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (31 bp):
AAAAAAAAAAGAAAAAAAAGAAGAAAAAGAA
Found at i:8845966 original size:26 final size:26
Alignment explanation
Indices: 8845906--8845966 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
8845896 ATGCTTGAAG
*
8845906 AAAA-AAAAAAGAAAAAAAAGAGAGA
1 AAAAGAAAAAAGAAAAAAAAGAGAAA
*
8845931 AAAAGAAAAAAGAAAAAAGAGA-AAA
1 AAAAGAAAAAAGAAAAAAAAGAGAAA
8845956 AAGAAGAAAAA
1 AA-AAGAAAAA
8845967 GGGGGGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 8 0.25
26 24 0.75
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (26 bp):
AAAAGAAAAAAGAAAAAAAAGAGAAA
Found at i:8847287 original size:83 final size:83
Alignment explanation
Indices: 8847091--8847736 Score: 1076
Period size: 83 Copynumber: 7.7 Consensus size: 83
8847081 GAACAAATGT
*
8847091 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
* *
8847156 TTATTGAATTTGGAAGAGG
65 TTATTGAATTTGAAAGATG
8847175 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
8847240 TATTGAATTTGAAAGATG
66 TATTGAATTTGAAAGATG
*
8847258 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
*
8847323 TCATTGAATTTGAAAGATG
65 TTATTGAATTTGAAAGATG
8847342 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
8847407 TATTGAATTTGAAAGATG
66 TATTGAATTTGAAAGATG
8847425 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
*
8847490 TATTGAATTTGAAAGAGG
66 TATTGAATTTGAAAGATG
*
8847508 AATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
*
8847573 CATTGAATTTGAAAGATG
66 TATTGAATTTGAAAGATG
* *
8847591 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T-----A-
* *
8847656 AGAACCAGTTATTGAATTTGGAAGAGG
58 A-AACCAGTTATTGAATTTGAAAGATG
*
8847683 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
8847737 ATATAAAACC
Statistics
Matches: 532, Mismatches: 20, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
83 319 0.60
84 137 0.26
85 1 0.00
90 1 0.00
91 1 0.00
92 73 0.14
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGT
TATTGAATTTGAAAGATG
Found at i:8847367 original size:167 final size:167
Alignment explanation
Indices: 8847091--8847736 Score: 1114
Period size: 167 Copynumber: 3.8 Consensus size: 167
8847081 GAACAAATGT
8847091 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
*
8847156 TTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
8847221 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGATG
131 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGATG
8847258 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
* *
8847323 TCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
8847388 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGATG
131 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGATG
*
8847425 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
*
8847489 TTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGAT
66 TTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
*
8847554 CTGGTTTGGTAAAACCAGTCATTGAATTTGAAAGATG
131 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGATG
* *
8847591 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T--A--A-
* *
8847656 AGAACCAGTTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
59 A-AACCAATTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
*
8847721 TATCTGATTTGGTTTG
123 TATCTGATCTGGTTTG
8847737 ATATAAAACC
Statistics
Matches: 457, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
166 158 0.35
167 220 0.48
168 1 0.00
173 1 0.00
174 1 0.00
175 76 0.17
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (167 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
TTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGATG
Found at i:8847536 original size:250 final size:250
Alignment explanation
Indices: 8847091--8847736 Score: 1123
Period size: 250 Copynumber: 2.6 Consensus size: 250
8847081 GAACAAATGT
*
8847091 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAG
8847156 TTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
* *
8847221 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTG
131 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTAGAAGTG
8847286 TTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAATCATTGAATTTGAAAGATG
196 TTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAATCATTGAATTTGAAAGATG
8847342 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT-AAAACCAG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAG
* *
8847406 TTATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
8847471 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTAGAAGTG
131 CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTAGAAGTG
*
8847536 TTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGTCATTGAATTTGAAAGATG
196 TTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAATTTGAAAGATG
* *
8847591 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T--A--A-
8847656 AGAACCAGTTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
59 A-AACCAGTTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
*
8847721 TATCTGATTTGGTTTG
123 TATCTGATCTGGTTTG
8847737 ATATAAAACC
Statistics
Matches: 375, Mismatches: 11, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
249 79 0.21
250 161 0.43
251 57 0.15
256 1 0.00
257 1 0.00
258 76 0.20
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (250 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAACCAG
TTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
CTGGTTTGGTAAAACCAGTTATTGAATTTGAAAGAGGAATGTGCTCATAGCATCTTCTAGAAGTG
TTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGAATTTGAAAGATG
Found at i:8847751 original size:92 final size:92
Alignment explanation
Indices: 8847566--8847766 Score: 287
Period size: 92 Copynumber: 2.2 Consensus size: 92
8847556 GGTTTGGTAA
* *
8847566 AACCAGTCATTGAATTTGAAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
1 AACCAGTCATTGAATTTGAAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
* *
8847631 TCTGATCTGGTTTGGTATGAACCACAG
66 TCTGATCTGGTTTGATATAAACCACAG
* * *
8847658 AACCAGTTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
1 AACCAGTCATTGAATTTGAAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
*
8847723 TCTGATTTGGTTTGATATAAAACC-CAG
66 TCTGATCTGGTTTGATAT-AAACCACAG
* *
8847750 AAACAATCATTGGAATT
1 AACCAGTCATT-GAATT
8847767 AAAAGATGAA
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
92 87 0.91
93 9 0.09
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.35
Consensus pattern (92 bp):
AACCAGTCATTGAATTTGAAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
TCTGATCTGGTTTGATATAAACCACAG
Found at i:8848675 original size:113 final size:113
Alignment explanation
Indices: 8848499--8850601 Score: 3677
Period size: 113 Copynumber: 18.7 Consensus size: 113
8848489 TTCCAGAGAA
*
8848499 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * ****
8848564 AACCTTTTGC-CTGAATTCATCACTTGATGGATCAGCTTTTCCAGAGAA
66 AACCTTTTGCTC-AAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
*
8848612 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
8848677 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
*
8848725 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
8848790 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
8848838 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
8848903 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
*
8848951 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
8849016 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
8849064 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
8849129 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
*
8849177 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTTTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
8849242 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
*
8849290 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
8849355 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
*
8849403 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
8849468 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
8849516 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
8849581 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
*
8849629 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
8849694 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
8849742 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
8849807 AACCTTTTGCTCAAATCCATCACTTGATGGATTATATTTTCCATTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
8849855 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * **
8849920 AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAG-AAG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
** * * **
8849967 AAAATCATAATAAGAAGAACTCATCTGAAGAAGGAACAAGAAGTTCATAATGAGAAGAGCTTGTT
1 -AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* *
8850032 CAACCTTTTGCTCAAATCAATCACTTGATGGATTATCTTTTCCAGTTCA
65 CAACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
8850081 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
8850146 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
*
8850194 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTTTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
8850259 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
*
8850307 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTTTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* **
8850372 AACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAG-AAG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
* *
8850419 AAGTTCATAATGAGAAGAACTCATTTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 -AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * * *
8850484 CAGCTTTTTGCTCAAATCCATCACTTGATGGGTCAGT-TTTTCCAG--AG
65 CAACCTTTTGCTCAAATCCATCACTTGATGGATTA-TCTTTTCCAGTTCG
* ** *
8850531 AAGTTCATAATGAGAAGAACTCATC---AGGA-GAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 -AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
8850592 CAACCTTTTG
65 CAACCTTTTG
8850602 AATGACTCTA
Statistics
Matches: 1915, Mismatches: 70, Indels: 15
0.96 0.04 0.01
Matches are distributed among these distances:
108 37 0.02
109 3 0.00
112 28 0.01
113 1846 0.96
114 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTCAAATCCATCACTTGATGGATTATCTTTTCCAGTTCG
Found at i:8848779 original size:24 final size:23
Alignment explanation
Indices: 8848736--8848780 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
8848726 GTTCATAATG
*
8848736 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
8848759 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
8848781 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:8849457 original size:24 final size:23
Alignment explanation
Indices: 8849414--8849458 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
8849404 GTTCATAATG
*
8849414 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
8849437 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
8849459 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:8850475 original size:20 final size:20
Alignment explanation
Indices: 8850414--8850477 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
8850404 TAGCTTTTCC
8850414 AGAAGAAGTTCATAATGAGA
1 AGAAGAAGTTCATAATGAGA
** *
8850434 AGAACTCA-TT--TAAAGAAGGA
1 AGAA-GAAGTTCATAATG-A-GA
8850454 AGAAGAAGTTCATAATGAGA
1 AGAAGAAGTTCATAATGAGA
8850474 AGAA
1 AGAA
8850478 TTTGTTCAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
18 4 0.12
19 2 0.06
20 20 0.62
21 2 0.06
22 4 0.12
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (20 bp):
AGAAGAAGTTCATAATGAGA
Found at i:8850584 original size:17 final size:17
Alignment explanation
Indices: 8850529--8850584 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
8850519 GTTTTTCCAG
8850529 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATGAGA
*
8850546 AGAA-CTCATCAGGA-GAAGA
1 AGAAGTTCAT-A--ATG-AGA
8850565 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATGAGA
8850582 AGA
1 AGA
8850585 GCTTATTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
16 4 0.13
17 12 0.39
18 2 0.06
19 9 0.29
20 4 0.13
ACGTcount: A:0.48, C:0.09, G:0.25, T:0.18
Consensus pattern (17 bp):
AGAAGTTCATAATGAGA
Found at i:8850845 original size:3 final size:3
Alignment explanation
Indices: 8850837--8850907 Score: 79
Period size: 3 Copynumber: 23.3 Consensus size: 3
8850827 TTTATATTTA
* * * * *
8850837 TAT TAT TAT TAT AAT TAT TAT TAT TAT AAT TAT AAT AAT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
8850885 TAT TAT TAT TAA TAT ATAT TAT T
1 TAT TAT TAT TAT TAT -TAT TAT T
8850908 TAATATTACA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:8850853 original size:9 final size:9
Alignment explanation
Indices: 8850834--8850915 Score: 62
Period size: 9 Copynumber: 9.3 Consensus size: 9
8850824 TTATTTATAT
8850834 TTAT-ATTA
1 TTATAATTA
* *
8850842 TTATTATAA
1 TTATAATTA
*
8850851 TTATTATTA
1 TTATAATTA
8850860 TTATAATTA
1 TTATAATTA
* *
8850869 TAATAATAA
1 TTATAATTA
*
8850878 TTATTATTA
1 TTATAATTA
*
8850887 TTATTATTA
1 TTATAATTA
*
8850896 ATATATATTA
1 TTATA-ATTA
8850906 TT-TAA-TA
1 TTATAATTA
8850913 TTA
1 TTA
8850916 CAAGCCCAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
7 4 0.07
8 5 0.08
9 46 0.77
10 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTATAATTA
Found at i:8852313 original size:26 final size:23
Alignment explanation
Indices: 8852284--8852336 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
8852274 AAATATATAT
*
8852284 AATAAATAATAATTTATATTTTTTTC
1 AATAAAT--TAATTTA-ATATTTTTC
*
8852310 AATAAATTATTTTAATATTTTTC
1 AATAAATTAATTTAATATTTTTC
8852333 AATA
1 AATA
8852337 TCGAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.48
24 6 0.24
26 7 0.28
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
AATAAATTAATTTAATATTTTTC
Found at i:8858842 original size:2 final size:2
Alignment explanation
Indices: 8858835--8858860 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8858825 GCCAAAAAGG
8858835 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
8858861 ACTCAATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8863648 original size:16 final size:16
Alignment explanation
Indices: 8863619--8863668 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
8863609 TTTAATTTAT
8863619 TTACT-TAAATTTTAAA
1 TTACTCTAAA-TTTAAA
*
8863635 TTACTCTTAATTT-AA
1 TTACTCTAAATTTAAA
*
8863650 TCACTCTAAATTTCAAA
1 TTACTCTAAATTT-AAA
8863667 TT
1 TT
8863669 CAAATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
15 13 0.48
16 8 0.30
17 6 0.22
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (16 bp):
TTACTCTAAATTTAAA
Found at i:8869405 original size:9 final size:9
Alignment explanation
Indices: 8869391--8869421 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8869381 TTCATTTGGC
8869391 TATTTTTTA
1 TATTTTTTA
*
8869400 TATTTTTTT
1 TATTTTTTA
8869409 TATTTTTTA
1 TATTTTTTA
8869418 TATT
1 TATT
8869422 CTATCGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TATTTTTTA
Found at i:8869498 original size:16 final size:15
Alignment explanation
Indices: 8869461--8869534 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 15
8869451 ATTCTTTTTC
*
8869461 ATATATCATTATTATTT
1 ATATAT-ATTTTTA-TT
8869478 ATATATATTTTTATT
1 ATATATATTTTTATT
* *
8869493 ACTATA-ATTATATGTT
1 A-TATATATT-TTTATT
8869509 ATATATATTTATTATT
1 ATATATATTT-TTATT
*
8869525 TTATATATTT
1 ATATATATTT
8869535 CATTTTATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
15 11 0.23
16 30 0.64
17 6 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (15 bp):
ATATATATTTTTATT
Found at i:8869557 original size:15 final size:15
Alignment explanation
Indices: 8869537--8869570 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
8869527 ATATATTTCA
8869537 TTTTATCTTTTATTT
1 TTTTATCTTTTATTT
8869552 TTTTATCTTTTATTT
1 TTTTATCTTTTATTT
8869567 TTTT
1 TTTT
8869571 TTGTATTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATCTTTTATTT
Found at i:8872988 original size:21 final size:21
Alignment explanation
Indices: 8872949--8872988 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8872939 TTGGGCTAGA
* *
8872949 GGAATCGGTACCCATTCAAGG
1 GGAATCGATACCCACTCAAGG
*
8872970 GGAATCGATACCCCCTCAA
1 GGAATCGATACCCACTCAA
8872989 CGAATATGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.17
Consensus pattern (21 bp):
GGAATCGATACCCACTCAAGG
Found at i:8873728 original size:23 final size:23
Alignment explanation
Indices: 8873684--8873728 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8873674 ATTATTATAT
*
8873684 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
8873707 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
8873729 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:8886079 original size:110 final size:110
Alignment explanation
Indices: 8885879--8886085 Score: 317
Period size: 110 Copynumber: 1.9 Consensus size: 110
8885869 GCTTCCCAGT
* *
8885879 TTCAGATCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGATCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
* *
8885944 CAACGAAGGGGCGACTGATTGTCAACAAACAACTTCTCAGTTTCA
66 CAACGAAGGGGCGACTGACTATCAACAAACAACTTCTCAGTTTCA
* * *
8885989 TTCAGAGT-CAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACATAAGCTCAATTTC
1 TTCAGA-TCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTC
* *
8886053 ACAGCGAAGGGGCGGCTGACTATCAACAAACAA
65 ACAACGAAGGGGCGACTGACTATCAACAAACAA
8886086 TTTCCAGAGC
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
110 86 0.99
111 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (110 bp):
TTCAGATCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
CAACGAAGGGGCGACTGACTATCAACAAACAACTTCTCAGTTTCA
Found at i:8887524 original size:2 final size:2
Alignment explanation
Indices: 8887517--8887555 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
8887507 TATTTATAAT
*
8887517 TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8887556 CTTTTAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8887638 original size:14 final size:14
Alignment explanation
Indices: 8887566--8887676 Score: 59
Period size: 15 Copynumber: 7.5 Consensus size: 14
8887556 CTTTTAATTC
8887566 TTTTTCATATATCATTA
1 TTTTT-ATATAT--TTA
8887583 TTATTTATATATTT-
1 TT-TTTATATATTTA
*
8887597 TTATTACTATAATTATA
1 TTTTTA-TAT-ATT-TA
*
8887614 TGTTATATATATTTA
1 T-TTTTATATATTTA
8887629 TTTTTATATATTTCA
1 TTTTTATATATTT-A
*
8887644 --TTT-TATCTTTA
1 TTTTTATATATTTA
* *
8887655 TTTTTTTAATTTTTA
1 TTTTTAT-ATATTTA
8887670 TTTTTAT
1 TTTTTAT
8887677 TTTGAATTGT
Statistics
Matches: 76, Mismatches: 7, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
11 1 0.01
12 6 0.08
13 9 0.12
14 17 0.22
15 21 0.28
16 4 0.05
17 12 0.16
18 6 0.08
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.67
Consensus pattern (14 bp):
TTTTTATATATTTA
Found at i:8887684 original size:19 final size:19
Alignment explanation
Indices: 8887657--8887696 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8887647 TATCTTTATT
* * *
8887657 TTTTTAATTTTTATTTTTA
1 TTTTGAATTGTTATTGTTA
8887676 TTTTGAATTGTTATTGTTA
1 TTTTGAATTGTTATTGTTA
8887695 TT
1 TT
8887697 ATCTTCTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTGAATTGTTATTGTTA
Found at i:8898304 original size:21 final size:21
Alignment explanation
Indices: 8898278--8898317 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8898268 TTCTACGTGG
*
8898278 TCCTTTGGGACATATATGTAA
1 TCCTTTGGAACATATATGTAA
8898299 TCCTTTGGAACATATATGT
1 TCCTTTGGAACATATATGT
8898318 TGTACTTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TCCTTTGGAACATATATGTAA
Found at i:8901654 original size:19 final size:17
Alignment explanation
Indices: 8901617--8901662 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 17
8901607 ATAAATAAAC
8901617 ATCGAATGCAATGAGTGT
1 ATCG-ATGCAATGAGTGT
8901635 ATCGATGCATATGTAGTGT
1 ATCGATGCA-ATG-AGTGT
8901654 ATCGATGCA
1 ATCGATGCA
8901663 CCCCCTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.19
18 7 0.27
19 14 0.54
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (17 bp):
ATCGATGCAATGAGTGT
Found at i:8902239 original size:116 final size:116
Alignment explanation
Indices: 8902104--8902586 Score: 505
Period size: 118 Copynumber: 4.1 Consensus size: 116
8902094 TACCAAATGA
*
8902104 CACTAAGTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATGGAGCACTAAG
1 CACTAAGTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAGAGCACTAAG
* *
8902169 TGTGCTAAATGATTAGGAAATCATATTGAGTGTATGGATTTCCAGATGAA-G
66 TGTGCTAAATGATAAGGAAATCATATTGAGTATATGGATTTCCAGAT-AAGG
*
8902220 CACTAAGTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAAATAGAGCACTAAG
1 CACTAAGTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAGAGCACTAAG
8902285 TGTGCTAAATGATAAGGAAATCATATTGAGTATATGGATTTCCAGATAAGG
66 TGTGCTAAATGATAAGGAAATCATATTGAGTATATGGATTTCCAGATAAGG
* * * *
8902336 CACTTTA-TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCACTA
1 CAC-TAAGTGTGCT-AAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAGAGCACTA
* * * *** ** * * *
8902400 AGGGTGCTACAATGATAAGAAAATTATACCAAGGGTATGGATTTTCACATAGGG
64 AGTGTGCTA-AATGATAAGGAAATCATATTGAGTATATGGATTTCCAGATAAGG
* * * * *
8902454 CACTTCA-TGTGCTAAAAT-AGTAAAGAAATCATACT-AATGGTATGGATTTTC-GAATAGGGCA
1 CAC-TAAGTGTGCT-AAATGA-TAAGGAAATCATACTGAGT-GTATGGATTTCCAG-ATAGAGCA
** * * * * *
8902515 CTTCGTGTGCTAAAATGAGAGGGAAATCATACTAAGTGTAT-GATATTCCAGAT-AGAG
61 CTAAGTGTGCT-AAATGATAAGGAAATCATATTGAGTATATGGAT-TTCCAGATAAG-G
* *
8902572 CACTGAGAGTGCTAA
1 CACTAAGTGTGCTAA
8902587 TATTAAAAAA
Statistics
Matches: 314, Mismatches: 42, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
115 2 0.01
116 118 0.38
117 67 0.21
118 126 0.40
119 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (116 bp):
CACTAAGTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAGAGCACTAAG
TGTGCTAAATGATAAGGAAATCATATTGAGTATATGGATTTCCAGATAAGG
Found at i:8902380 original size:59 final size:58
Alignment explanation
Indices: 8902104--8902586 Score: 491
Period size: 58 Copynumber: 8.3 Consensus size: 58
8902094 TACCAAATGA
*
8902104 CACTAAGTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGAT-GGAG
1 CACTAAGTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAG-G
* *
8902162 CACTAAGTGTGCTAAATGATTAGGAAATCATATTGAGTGTATGGATTTCCAGATGAA-G
1 CACTAAGTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGAT-AAGG
*
8902220 CACTAAGTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAAAT-AGAG
1 CACTAAGTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAG-G
* *
8902278 CACTAAGTGTGCTAAATGATAAGGAAATCATATTGAGTATATGGATTTCCAGATAAGG
1 CACTAAGTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAGG
* * * *
8902336 CACTTTA-TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAG
1 CAC-TAAGTGTGCT-AAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAGG
* * * ** * * * *
8902395 CACTAAGGGTGCTACAATGATAAGAAAATTATACCAAGGGTATGGATTTTCACATAGGG
1 CACTAAGTGTGCTA-AATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAGG
* * * * *
8902454 CACTTCA-TGTGCTAAAAT-AGTAAAGAAATCATACT-AATGGTATGGATTTTC-GAATAGGG
1 CAC-TAAGTGTGCT-AAATGA-TAAGGAAATCATACTGAGT-GTATGGATTTCCAG-ATAAGG
** * * *
8902513 CACTTCGTGTGCTAAAATGAGAGGGAAATCATACTAAGTGTAT-GATATTCCAGAT-AGAG
1 CACTAAGTGTGCT-AAATGATAAGGAAATCATACTGAGTGTATGGAT-TTCCAGATAAG-G
* *
8902572 CACTGAGAGTGCTAA
1 CACTAAGTGTGCTAA
8902587 TATTAAAAAA
Statistics
Matches: 357, Mismatches: 48, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
56 1 0.00
58 178 0.50
59 171 0.48
60 7 0.02
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (58 bp):
CACTAAGTGTGCTAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAGG
Found at i:8907347 original size:23 final size:23
Alignment explanation
Indices: 8907319--8907366 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
8907309 CATGTCACTT
*
8907319 TTTTAACCATTATTGCTGCCAAC
1 TTTTAACCATTATTACTGCCAAC
8907342 TTTTAACCATTATTACTGCCAAC
1 TTTTAACCATTATTACTGCCAAC
8907365 TT
1 TT
8907367 ATTTCACCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (23 bp):
TTTTAACCATTATTACTGCCAAC
Found at i:8911984 original size:23 final size:23
Alignment explanation
Indices: 8911954--8911997 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
8911944 TCATTTTTTC
*
8911954 AACCATTATTGCTGCTAACTTTA
1 AACCATTATTGCTGCCAACTTTA
8911977 AACCATTATTGCTGCCAACTT
1 AACCATTATTGCTGCCAACTT
8911998 ATTTCACCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (23 bp):
AACCATTATTGCTGCCAACTTTA
Found at i:8913224 original size:21 final size:21
Alignment explanation
Indices: 8913184--8913224 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8913174 AATATTATAT
**
8913184 ATATTTATTAATTATAATTTA
1 ATATTTATTAAGAATAATTTA
*
8913205 ATATTTATTAAGAATTATTT
1 ATATTTATTAAGAATAATTT
8913225 TTATATTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATATTTATTAAGAATAATTTA
Found at i:8914803 original size:137 final size:138
Alignment explanation
Indices: 8914461--8915118 Score: 580
Period size: 137 Copynumber: 4.7 Consensus size: 138
8914451 TTCATCATTA
* * * * * ** * *
8914461 AGAGTTGGAAGGGG-GACAAAGTTCATGCCGAGCGCTTCTAGTGGGGAGTAGGCCGGATGAACAG
1 AGAGTAGGCAGGGGAGACAGAGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCAAGATGACCTG
* * * * * * * * *
8914525 ATCTTACGTCGGGCGCTCTAATGTGTGGAGTAGGCAGGGTATTCTTATTTTACGTCGAGCGCTTC
66 ATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCAGGGTACTCTAATATCACGCCGAGCACTTC
* *
8914590 ACCGTT-A
131 AACGTTGT
* * * *
8914597 AGAGTTGGAAGGGG-GACAGAGTTCATGTCGAGCGCTTCCA-ATGGGGAGTAGGCAAGATGACTT
1 AGAGTAGGCAGGGGAGACAGAGTTCATGCCGAGCGCTTCCAGA-GGGGAGTAGGCAAGATGACCT
* * * *
8914660 GATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGAG-AGGGTGCTATAATATCATGCCTAGCACT
65 GATCTTACGCCGAGCGCTCTAACGTGTGGAGTAG-GCAGGGTACTCTAATATCACGCCGAGCACT
8914724 TCAACGTTGT
129 TCAACGTTGT
* * *
8914734 -GAGTAGGCAGGGGAGACAGAGTACATGTCGAGCGCTTCCAGAGGGGAGTAGGCAGGATGACCTG
1 AGAGTAGGCAGGGGAGACAGAGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCAAGATGACCTG
* * * ** * * *
8914798 GTCTTATGCTGAGTACTCTAACGTGTGGAGTAGGCCGGGTGAAATAAGATGTGCTTTAATATCAT
66 ATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGG-CAGG-G---T---A----CTCTAATATCAC
*
8914863 GCCGAGCGCTTCAACGTT-T
119 GCCGAGCACTTCAACGTTGT
* *
8914882 AGAGTAGGCAGGGGAGACAGAGTGCATGCCGAGCGCTTCCAGAGGGGAGTAGGCAAGATGACCTT
1 AGAGTAGGCAGGGGAGACAGAGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCAAGATGACCTG
* * * * * *
8914947 ATCTTACGTCAACCGCTCTAACGTGTGGAGTAGGCAGGCTATTCCAGAT-TCACGCCGAGCA-TC
66 ATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCAGGGTACTCTA-ATATCACGCCGAGCACT-
8915010 TCAACG-TGT
129 TCAACGTTGT
* * * ** * *
8915019 AGGGTAGGCAGGGTAGACAGAGTTCATACTAAGCGCTTCCAGAGGGGAGTTGGCACGATGACCTG
1 AGAGTAGGCAGGGGAGACAGAGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCAAGATGACCTG
* * *
8915084 ATCTTACACCGAGAGCCCTAACGTGTGGAGTAGGC
66 ATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGC
8915119 CGAGTGAAAT
Statistics
Matches: 427, Mismatches: 73, Indels: 43
0.79 0.13 0.08
Matches are distributed among these distances:
136 123 0.29
137 178 0.42
138 5 0.01
139 1 0.00
141 1 0.00
142 1 0.00
144 1 0.00
148 4 0.01
149 113 0.26
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.23
Consensus pattern (138 bp):
AGAGTAGGCAGGGGAGACAGAGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCAAGATGACCTG
ATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCAGGGTACTCTAATATCACGCCGAGCACTTC
AACGTTGT
Found at i:8914969 original size:149 final size:148
Alignment explanation
Indices: 8914699--8915179 Score: 508
Period size: 149 Copynumber: 3.3 Consensus size: 148
8914689 AGTAGAGAGG
* * * * *
8914699 GTGCTATAATATCATGCCTAGCACTTCAACGTTGT-GAGTAGGCAGGGGAGACAGAGTACATGTC
1 GTGCTTTAATATCACGCCGAGCGCTTCAACG-TGTAGAGTAGGCAGGGGAGACAGAGTACATGCC
* * *
8914763 GAGCGCTTCCAGAGGGGAGTAGGCAGGATGACCTGGTCTTATGCTGAGTA-CTCTAACGTGTGGA
65 GAGCGCTTCCAGAGGGGAGTAGGCAAGATGACCTGATCTTACGC-GAG-AGCTCTAACGTGTGGA
*
8914827 GTAGGCCGGGTGAAATAAGAT
128 GTAGGCCGAGTGAAATAAGAT
* * *
8914848 GTGCTTTAATATCATGCCGAGCGCTTCAACGTTTAGAGTAGGCAGGGGAGACAGAGTGCATGCCG
1 GTGCTTTAATATCACGCCGAGCGCTTCAACGTGTAGAGTAGGCAGGGGAGACAGAGTACATGCCG
* * **
8914913 AGCGCTTCCAGAGGGGAGTAGGCAAGATGACCTTATCTTACGTCAACCGCTCTAACGTGTGGAGT
66 AGCGCTTCCAGAGGGGAGTAGGCAAGATGACCTGATCTTACG-CGAGAGCTCTAACGTGTGGAGT
*
8914978 AGG-C-AG-G--CT---AT
130 AGGCCGAGTGAAATAAGAT
* * * * * *
8914989 -T-C--CAGAT-TCACGCCGAGC-ATCTCAACGTGTAGGGTAGGCAGGGTAGACAGAGTTCATAC
1 GTGCTTTA-ATATCACGCCGAGCGCT-TCAACGTGTAGAGTAGGCAGGGGAGACAGAGTACATGC
** * * * *
8915048 TAAGCGCTTCCAGAGGGGAGTTGGCACGATGACCTGATCTTACACCGAGAGCCCTAACGTGTGGA
64 CGAGCGCTTCCAGAGGGGAGTAGGCAAGATGACCTGATCTTAC-GCGAGAGCTCTAACGTGTGGA
8915113 GTAGGCCGAGTGAAATAAGAT
128 GTAGGCCGAGTGAAATAAGAT
* *
8915134 GTTCTTTAATATCACGCCGAGCGCTTCAACGTGTAGGGTAGGCAGG
1 GTGCTTTAATATCACGCCGAGCGCTTCAACGTGTAGAGTAGGCAGG
8915180 ATGACCTGAT
Statistics
Matches: 276, Mismatches: 36, Indels: 40
0.78 0.10 0.11
Matches are distributed among these distances:
136 1 0.00
137 103 0.37
138 3 0.01
139 3 0.01
140 2 0.01
141 2 0.01
142 1 0.00
144 1 0.00
145 2 0.01
146 2 0.01
147 2 0.01
148 5 0.02
149 147 0.53
150 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (148 bp):
GTGCTTTAATATCACGCCGAGCGCTTCAACGTGTAGAGTAGGCAGGGGAGACAGAGTACATGCCG
AGCGCTTCCAGAGGGGAGTAGGCAAGATGACCTGATCTTACGCGAGAGCTCTAACGTGTGGAGTA
GGCCGAGTGAAATAAGAT
Found at i:8915128 original size:286 final size:285
Alignment explanation
Indices: 8914580--8915179 Score: 766
Period size: 286 Copynumber: 2.1 Consensus size: 285
8914570 TATTTTACGT
* * * * * *
8914580 CGAGCGCTTCACCGTTAAGAGTTGGAAGGGGGACAGAGTTCATGTCGAGCGCTTCCAATGGGGAG
1 CGAGCGCTTCAACGTTTAGAGTAGGCAGGGGGACAGAGTGCATGCCGAGCGCTTCCAATGGGGAG
* * * * *
8914645 TAGGCAAGATGACTTGATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGAGAGGGTGCTATAATA
66 TAGGCAAGATGACTTGATCTTACGCCAACCGCTCTAACGTGTGGAGTAGAGAGGCTACTACAATA
* * * *
8914710 TCATGCCTAGCACTTCAACGTTGTGAGTAGGCAGGGGAGACAGAGTACATGTCGAGCGCTTCCAG
131 TCACGCCGAGCACTTCAACGTTGTGAGTAGGCAGGGGAGACAGAGTACATCTCAAGCGCTTCCAG
* * ** * * *
8914775 AGGGGAGTAGGCAGGATGACCTGGTCTTATGCTGAGTACTCTAACGTGTGGAGTAGGCCGGGTGA
196 AGGGGAGTAGGCACGATGACCTGATCTTACACCGAGTACCCTAACGTGTGGAGTAGGCCGAGTGA
*
8914840 AATAAGATGTGCTTTAATATCATGC
261 AATAAGATGTGCTTTAATATCACGC
8914865 CGAGCGCTTCAACGTTTAGAGTAGGCAGGGGAGACAGAGTGCATGCCGAGCGCTTCCAGA-GGGG
1 CGAGCGCTTCAACGTTTAGAGTAGGCAGGGG-GACAGAGTGCATGCCGAGCGCTTCCA-ATGGGG
* * *
8914929 AGTAGGCAAGATGACCTT-ATCTTACGTCAACCGCTCTAACGTGTGGAGTAG-GCAGGCTATTCC
64 AGTAGGCAAGATGA-CTTGATCTTACGCCAACCGCTCTAACGTGTGGAGTAGAG-AGGCTACTAC
* * *
8914992 AGAT-TCACGCCGAGCA-TCTCAACG-TGTAGGGTAGGCAGGGTAGACAGAGTTCATACT-AAGC
127 A-ATATCACGCCGAGCACT-TCAACGTTGT-GAGTAGGCAGGGGAGACAGAGTACAT-CTCAAGC
*
8915053 GCTTCCAGAGGGGAGTTGGCACGATGACCTGATCTTACACCGAG-AGCCCTAACGTGTGGAGTAG
188 GCTTCCAGAGGGGAGTAGGCACGATGACCTGATCTTACACCGAGTA-CCCTAACGTGTGGAGTAG
*
8915117 GCCGAGTGAAATAAGATGTTCTTTAATATCACGC
252 GCCGAGTGAAATAAGATGTGCTTTAATATCACGC
* *
8915151 CGAGCGCTTCAACGTGTAGGGTAGGCAGG
1 CGAGCGCTTCAACGTTTAGAGTAGGCAGG
8915180 ATGACCTGAT
Statistics
Matches: 273, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
285 33 0.12
286 233 0.85
287 7 0.03
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (285 bp):
CGAGCGCTTCAACGTTTAGAGTAGGCAGGGGGACAGAGTGCATGCCGAGCGCTTCCAATGGGGAG
TAGGCAAGATGACTTGATCTTACGCCAACCGCTCTAACGTGTGGAGTAGAGAGGCTACTACAATA
TCACGCCGAGCACTTCAACGTTGTGAGTAGGCAGGGGAGACAGAGTACATCTCAAGCGCTTCCAG
AGGGGAGTAGGCACGATGACCTGATCTTACACCGAGTACCCTAACGTGTGGAGTAGGCCGAGTGA
AATAAGATGTGCTTTAATATCACGC
Found at i:8917899 original size:2 final size:2
Alignment explanation
Indices: 8917892--8917918 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8917882 TAACAGAATA
8917892 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
8917919 AAGTAGTTAA
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:8918977 original size:2 final size:2
Alignment explanation
Indices: 8918966--8919009 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
8918956 TTAACTACTT
8918966 TA TA -A 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 TA
8919007 TA T
1 TA T
8919010 TATGTTGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8921371 original size:61 final size:61
Alignment explanation
Indices: 8921296--8921417 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
8921286 AATATAAAGG
*
8921296 TAAGTATGTTGTTACTCATTTTAATCATATTATAACCTACTTTTTCTCTTTTGTGCAGGTT
1 TAAGTATGTTGTTACTCATTTTAATCATATTATAACCTACTTTTTCTATTTTGTGCAGGTT
* *
8921357 TAAGTATGTTGTTACTCATTTTAATGATATTCTAACCTACTTTTTCTATTTTGTGCAGGTT
1 TAAGTATGTTGTTACTCATTTTAATCATATTATAACCTACTTTTTCTATTTTGTGCAGGTT
8921418 AAGGCACTTG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.51
Consensus pattern (61 bp):
TAAGTATGTTGTTACTCATTTTAATCATATTATAACCTACTTTTTCTATTTTGTGCAGGTT
Found at i:8922511 original size:51 final size:51
Alignment explanation
Indices: 8922446--8922560 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 51
8922436 ATGATTATAT
* *
8922446 TTATTATTTTATTAGGAATTAAGATAGAGTTAAAACATTATCTTTAATTTA
1 TTATTATTTTATTAGGAATTAAGATAGAATCAAAACATTATCTTTAATTTA
*
8922497 TTATTATTTTATTAGGAATTAGGATAGAATCAAAACATTATCTTTAATTTA
1 TTATTATTTTATTAGGAATTAAGATAGAATCAAAACATTATCTTTAATTTA
8922548 TTACTT-TTTTATT
1 TTA-TTATTTTATT
8922561 TAGTAGTTAC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 58 0.97
52 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.50
Consensus pattern (51 bp):
TTATTATTTTATTAGGAATTAAGATAGAATCAAAACATTATCTTTAATTTA
Found at i:8924167 original size:21 final size:21
Alignment explanation
Indices: 8924140--8924186 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
8924130 TTGATATGTT
8924140 TCTTCTCTCGCTAC-TCTCTC
1 TCTTCTCTCGCTACTTCTCTC
* *
8924160 TGCTTCTCTCTCTGCTTCTCTC
1 T-CTTCTCTCGCTACTTCTCTC
8924182 TCTTC
1 TCTTC
8924187 AGCTTTGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 15 0.65
22 7 0.30
ACGTcount: A:0.02, C:0.43, G:0.06, T:0.49
Consensus pattern (21 bp):
TCTTCTCTCGCTACTTCTCTC
Found at i:8924170 original size:12 final size:12
Alignment explanation
Indices: 8924143--8924184 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
8924133 ATATGTTTCT
*
8924143 TCTCTC-GCTAC
1 TCTCTCTGCTTC
8924154 TCTCTCTGCTTC
1 TCTCTCTGCTTC
8924166 TCTCTCTGCTTC
1 TCTCTCTGCTTC
8924178 TCTCTCT
1 TCTCTCT
8924185 TCAGCTTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 6 0.21
12 23 0.79
ACGTcount: A:0.02, C:0.43, G:0.07, T:0.48
Consensus pattern (12 bp):
TCTCTCTGCTTC
Found at i:8925758 original size:24 final size:24
Alignment explanation
Indices: 8925702--8925787 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 24
8925692 TATATAAAAA
* * *
8925702 ATCAAAACATAATTCA-GTTAAGAT
1 ATCAGAACAGAATTCAGGTCAAG-T
*
8925726 ATCATAACAGAATTCAGGTCAAGT
1 ATCAGAACAGAATTCAGGTCAAGT
* * * *
8925750 ATTAGAACATAATCCAGGTCAGGT
1 ATCAGAACAGAATTCAGGTCAAGT
*
8925774 ATCATAACAGAATT
1 ATCAGAACAGAATT
8925788 TAAATCAGAA
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 44 0.90
25 5 0.10
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGGTCAAGT
Found at i:8926566 original size:31 final size:31
Alignment explanation
Indices: 8926530--8926589 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
8926520 TCAAGTCCAA
* *
8926530 TAAGGCCATGAGCACAAAGCTGAGGAGCCAG
1 TAAGGCCATAAGCACAAAGCCGAGGAGCCAG
*
8926561 TAAGGCCCTAAGCACAAAGCCGAGGAGCC
1 TAAGGCCATAAGCACAAAGCCGAGGAGCC
8926590 TCCAGGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.30, T:0.08
Consensus pattern (31 bp):
TAAGGCCATAAGCACAAAGCCGAGGAGCCAG
Found at i:8926685 original size:24 final size:24
Alignment explanation
Indices: 8926658--8926745 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 24
8926648 TATATAAAAA
* * *
8926658 ATCAAAACATAATTCAGTTCAGAT
1 ATCATAACAGAATTCAGGTCAGAT
8926682 ATCATAACAGAATTCAGGTCA-AGT
1 ATCATAACAGAATTCAGGTCAGA-T
* * * * *
8926706 ATTAGAACATAATCCAGGTCAGGT
1 ATCATAACAGAATTCAGGTCAGAT
8926730 ATCATAACAGAATTCA
1 ATCATAACAGAATTCA
8926746 AATCGGAAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 1 0.02
24 49 0.98
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (24 bp):
ATCATAACAGAATTCAGGTCAGAT
Found at i:8932020 original size:13 final size:13
Alignment explanation
Indices: 8932002--8932049 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
8931992 TGCGTCATAA
8932002 ATTTATGACTCGC
1 ATTTATGACTCGC
* *
8932015 ATTTATGACACAC
1 ATTTATGACTCGC
8932028 ATTTATGA-TGCGC
1 ATTTATGACT-CGC
8932041 ATTTATGAC
1 ATTTATGAC
8932050 ATTCATTGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (13 bp):
ATTTATGACTCGC
Found at i:8932134 original size:77 final size:77
Alignment explanation
Indices: 8932038--8932182 Score: 179
Period size: 77 Copynumber: 1.9 Consensus size: 77
8932028 ATTTATGATG
* * * * *
8932038 CGCATTTATGACATTCATTG-AGCGTCATTGAAGCCCCCGTCA-TAAATTAAGATGACACACATT
1 CGCATGTATGACATTCATTGCA-CGTCATTGAAGCACACGCCATTAAA-AAAGATGACACACATT
*
8932101 TGTGTGCCATAACA
64 CGTGTGCCATAACA
*
8932115 CGCATGTATGAC-TTACATTGCATGTCATTGAAGCACACGCCATTAAAAAAGATGACACACATTC
1 CGCATGTATGACATT-CATTGCACGTCATTGAAGCACACGCCATTAAAAAAGATGACACACATTC
8932179 GTGT
65 GTGT
8932183 CTCGTGATTA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
76 2 0.03
77 51 0.88
78 5 0.09
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (77 bp):
CGCATGTATGACATTCATTGCACGTCATTGAAGCACACGCCATTAAAAAAGATGACACACATTCG
TGTGCCATAACA
Found at i:8935992 original size:13 final size:13
Alignment explanation
Indices: 8935974--8935998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8935964 TGCAACTATA
8935974 AAAATTATAATTC
1 AAAATTATAATTC
8935987 AAAATTATAATT
1 AAAATTATAATT
8935999 TATTATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTATAATTC
Found at i:8938253 original size:16 final size:16
Alignment explanation
Indices: 8938232--8938274 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
8938222 ACTATTCATA
8938232 TGAATAGTGAATTTCG
1 TGAATAGTGAATTTCG
*
8938248 TGAATAGTGAATTTTG
1 TGAATAGTGAATTTCG
8938264 TGAATAGTGAA
1 TGAATAGTGAA
8938275 ATTTGGTCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (16 bp):
TGAATAGTGAATTTCG
Found at i:8938279 original size:16 final size:16
Alignment explanation
Indices: 8938232--8938279 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
8938222 ACTATTCATA
8938232 TGAATAGTG-AATTTCG
1 TGAATAGTGAAATTT-G
*
8938248 TGAATAGTGAATTTTG
1 TGAATAGTGAAATTTG
8938264 TGAATAGTGAAATTTG
1 TGAATAGTGAAATTTG
8938280 GTCGGCGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.25, T:0.40
Consensus pattern (16 bp):
TGAATAGTGAAATTTG
Found at i:8942540 original size:29 final size:29
Alignment explanation
Indices: 8942496--8942575 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
8942486 AAACTAAATT
*
8942496 GATGTCATTGCATACATCAATTAGGTGAA
1 GATGTCATTGCTTACATCAATTAGGTGAA
8942525 GATGTCATTGCTTACATCAATTAGGTGAA
1 GATGTCATTGCTTACATCAATTAGGTGAA
*
8942554 GATGTTATTGCTTACATCAATT
1 GATGTCATTGCTTACATCAATT
8942576 TAGTTAAGTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (29 bp):
GATGTCATTGCTTACATCAATTAGGTGAA
Found at i:8955766 original size:19 final size:21
Alignment explanation
Indices: 8955729--8955771 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
8955719 TAACTTTTTC
*
8955729 TTTTCTCTTTCTTTATTAA-T
1 TTTTCTCTTTCATTATTAACT
8955749 TTTTCTCTTTCATT-TTAACT
1 TTTTCTCTTTCATTATTAACT
8955769 TTT
1 TTT
8955772 ACTTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTCTTTCATTATTAACT
Found at i:8958833 original size:25 final size:25
Alignment explanation
Indices: 8958769--8958836 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
8958759 ATAAAGCTCC
* *
8958769 AAGGAG-TGGCGAGCCAGGAGCCGA
1 AAGGAGCTAGCGAGCTAGGAGCCGA
8958793 AAGGAGCTAGCGAGCTAGGAGCCGA
1 AAGGAGCTAGCGAGCTAGGAGCCGA
8958818 AAGGAGCTAGCGAGCTAGG
1 AAGGAGCTAGCGAGCTAGG
8958837 TAGTTCACGA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 6 0.15
25 35 0.85
ACGTcount: A:0.31, C:0.19, G:0.43, T:0.07
Consensus pattern (25 bp):
AAGGAGCTAGCGAGCTAGGAGCCGA
Found at i:8959038 original size:24 final size:24
Alignment explanation
Indices: 8959011--8959061 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
8959001 TGGTGGTTGA
*
8959011 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
8959035 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
8959059 TTT
1 TTT
8959062 GTTCTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.61
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:8960669 original size:65 final size:65
Alignment explanation
Indices: 8960565--8960697 Score: 198
Period size: 65 Copynumber: 2.0 Consensus size: 65
8960555 CTACTATCTC
* *
8960565 TTTTATTATGTTGTTAATACTTGATACTCTTGTGTGGTA-TTTTATTTTTGAACATCATGTGTTG
1 TTTTATTATGTTGTTAATACTTGATACTCTTGTGTGGTATTTTTA-ATATGAACATCATGTGTTG
8960629 A
65 A
* *
8960630 TTTTATTATGTTGTTGAA-ATTTGATACTCTTGTGTGGTATTTTTAATATGAACATCTTGTGTTG
1 TTTTATTATGTTGTT-AATACTTGATACTCTTGTGTGGTATTTTTAATATGAACATCATGTGTTG
8960694 A
65 A
8960695 TTT
1 TTT
8960698 GAGACTTGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
65 55 0.89
66 7 0.11
ACGTcount: A:0.22, C:0.07, G:0.17, T:0.54
Consensus pattern (65 bp):
TTTTATTATGTTGTTAATACTTGATACTCTTGTGTGGTATTTTTAATATGAACATCATGTGTTGA
Found at i:8962621 original size:86 final size:87
Alignment explanation
Indices: 8962471--8962651 Score: 249
Period size: 86 Copynumber: 2.1 Consensus size: 87
8962461 CAAAAAAAAA
* **
8962471 GACTA-TTAGTTAAAGAATAAGTGCATTATGCCCTAAAATAAAATGTTGGAGGTTAAAATGCT-A
1 GACTATTTAGTTAAACAATAAGTGCATTATGCCCTAAAATAAAATGTTGGAGGCCAAAATGCTAA
*
8962534 AAAAAATAATATGGATCAAAGT
66 AAAAAATAATATGGATCAAAGC
* * * * * *
8962556 GATTATTTAGTTAAACATTAGGTGCCTTATGCCCTAAATTAAAATGTTTGAGGCCAAAATGCTAA
1 GACTATTTAGTTAAACAATAAGTGCATTATGCCCTAAAATAAAATGTTGGAGGCCAAAATGCTAA
*
8962621 AAAAAATACTATGGATCAAAGC
66 AAAAAATAATATGGATCAAAGC
8962643 GACTATTTA
1 GACTATTTA
8962652 CTCGAGCATT
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
85 4 0.05
86 49 0.60
87 29 0.35
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (87 bp):
GACTATTTAGTTAAACAATAAGTGCATTATGCCCTAAAATAAAATGTTGGAGGCCAAAATGCTAA
AAAAAATAATATGGATCAAAGC
Found at i:8962669 original size:86 final size:86
Alignment explanation
Indices: 8962491--8962669 Score: 234
Period size: 86 Copynumber: 2.1 Consensus size: 86
8962481 TAAAGAATAA
* ** *
8962491 GTGCATTATGCCCTAAAATAAAATGTTGGAGGTTAAAATGCTAAAAAAATAATATGGATCAAAGT
1 GTGCCTTATGCCCTAAAATAAAATGTTGGAGGCCAAAATGCTAAAAAAATAATATGGATCAAAGC
* * *
8962556 GATTATTTAGTTAAACATTAG
66 GACTATTTACTCAAACATTAG
* * *
8962577 GTGCCTTATGCCCTAAATTAAAATGTTTGAGGCCAAAATGCTAAAAAAAATACTATGGATCAAAG
1 GTGCCTTATGCCCTAAAATAAAATGTTGGAGGCCAAAATGCT-AAAAAAATAATATGGATCAAAG
* *
8962642 CGACTATTTACTCGAGCATTAG
65 CGACTATTTACTCAAACATTAG
8962664 G-GCCTT
1 GTGCCTT
8962670 GTGTGAAATG
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 42 0.52
87 38 0.47
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (86 bp):
GTGCCTTATGCCCTAAAATAAAATGTTGGAGGCCAAAATGCTAAAAAAATAATATGGATCAAAGC
GACTATTTACTCAAACATTAG
Found at i:8970185 original size:87 final size:86
Alignment explanation
Indices: 8970044--8970293 Score: 333
Period size: 87 Copynumber: 2.9 Consensus size: 86
8970034 TGAAAAAATG
* * * * *
8970044 GTAAGGTCTTACCCTTGCACATAGCAAAAG-AGCT-GGGAAACTATAAGATCTTACCCTTGCACA
1 GTAAGG-CTTACCCTTGCACATAACAAAGGAACCTGGGGAAACTGTAAG-GCTTACCCTTGCACA
8970107 CAGCAAAGGAACCTAGGGAAACT
64 CAGCAAAGGAACCTAGGGAAACT
* *
8970130 GTAAGGCTCACCCTTGCACATATCAAAGGAACCTAGGGGAAACTGTAAGGCTTACCCTTGCACAC
1 GTAAGGCTTACCCTTGCACATAACAAAGGAACCT-GGGGAAACTGTAAGGCTTACCCTTGCACAC
* * *
8970195 AACAAAGGAACATGGGGAAACT
65 AGCAAAGGAACCTAGGGAAACT
* * *
8970217 GTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTCACCCTTACACACA
1 GTAAGGCTTACCCTTGCACATAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACA
*
8970282 GTAAAGGAACCT
66 GCAAAGGAACCT
8970294 GCGGTAACGG
Statistics
Matches: 144, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
85 20 0.14
86 47 0.33
87 65 0.45
88 12 0.08
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.18
Consensus pattern (86 bp):
GTAAGGCTTACCCTTGCACATAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACA
GCAAAGGAACCTAGGGAAACT
Found at i:8970244 original size:130 final size:130
Alignment explanation
Indices: 8970044--8970293 Score: 362
Period size: 130 Copynumber: 1.9 Consensus size: 130
8970034 TGAAAAAATG
* * * *
8970044 GTAAGGTCTTACCCTTGCACATAGCAAAAGAGCTGGGAAACTATAAGATCTTACCCTTGCACACA
1 GTAAGGTCTTACCCTTGCACACAACAAAAGAACTGGGAAACTATAAGAGCTTACCCTTGCACACA
* * *
8970109 GCAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTTGCACATA-TCAAAGGAACCTAGGGGAAAC
66 ACAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTTACACACAGT-AAAGGAACCTAGGGGAAAC
8970173 T
130 T
* *
8970174 GTAAGG-CTTACCCTTGCACACAACAAAGGAACATGGGGAAACTGTAAG-GCTTACCCTTGCACA
1 GTAAGGTCTTACCCTTGCACACAACAAAAGAAC-T-GGGAAACTATAAGAGCTTACCCTTGCACA
*
8970237 CAACAAAGGAACCTGGGGAAACTGTAAGGCTCACCCTTACACACAGTAAAGGAACCT
64 CAACAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTTACACACAGTAAAGGAACCT
8970294 GCGGTAACGG
Statistics
Matches: 107, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
129 22 0.21
130 72 0.67
131 13 0.12
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.18
Consensus pattern (130 bp):
GTAAGGTCTTACCCTTGCACACAACAAAAGAACTGGGAAACTATAAGAGCTTACCCTTGCACACA
ACAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTTACACACAGTAAAGGAACCTAGGGGAAACT
Found at i:8970294 original size:43 final size:43
Alignment explanation
Indices: 8970044--8970294 Score: 317
Period size: 43 Copynumber: 5.8 Consensus size: 43
8970034 TGAAAAAATG
* * * *
8970044 GTAAGGTCTTACCCTTGCACATAGCAAAAG-AGCT-GGGAAACT
1 GTAAGG-CTTACCCTTGCACACAACAAAGGAACCTGGGGAAACT
* * * *
8970086 ATAAGATCTTACCCTTGCACACAGCAAAGGAACCTAGGGAAACT
1 GTAAG-GCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACT
* * *
8970130 GTAAGGCTCACCCTTGCACATATCAAAGGAACCTAGGGGAAACT
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCT-GGGGAAACT
*
8970174 GTAAGGCTTACCCTTGCACACAACAAAGGAACATGGGGAAACT
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACT
8970217 GTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACT
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACT
* * **
8970260 GTAAGGCTCACCCTTACACACAGTAAAGGAACCTG
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCTG
8970295 CGGTAACGGT
Statistics
Matches: 185, Mismatches: 20, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
42 25 0.14
43 110 0.59
44 50 0.27
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (43 bp):
GTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACT
Found at i:8977015 original size:19 final size:20
Alignment explanation
Indices: 8976991--8977029 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
8976981 TTTTAGTGCA
8976991 GAGGGAATCGA-TCCCCCTT
1 GAGGGAATCGATTCCCCCTT
8977010 GAGGGAATCGATTCCCCCTT
1 GAGGGAATCGATTCCCCCTT
8977030 TGAAGGGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.23
Consensus pattern (20 bp):
GAGGGAATCGATTCCCCCTT
Found at i:8988383 original size:22 final size:22
Alignment explanation
Indices: 8988356--8988403 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
8988346 TTGAAAATTG
8988356 TGTTGAAAATGGTACCAAAGCT
1 TGTTGAAAATGGTACCAAAGCT
8988378 TGTTGAAAATGGTACCAAAGCT
1 TGTTGAAAATGGTACCAAAGCT
8988400 TGTT
1 TGTT
8988404 TTGTGCAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (22 bp):
TGTTGAAAATGGTACCAAAGCT
Found at i:8990934 original size:4 final size:4
Alignment explanation
Indices: 8990925--8991120 Score: 89
Period size: 4 Copynumber: 47.2 Consensus size: 4
8990915 ATATCCCTTC
* **
8990925 AAAT AAAT AAAT AAATTT GAAAT -AA- AAAT AAAC AAAT AAAT AAAT ATGTGT
1 AAAT AAAT AAAT AAA--T -AAAT AAAT AAAT AAAT AAAT AAAT AAAT A--AAT
* ** * * *
8990976 GGAAT AAAT AAAT AAAT CTA- AAAT AAAT AAAT AAAT -TAG AAAT AAAC
1 -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
8991023 GAAT ACAT AAATTT GAAAT AAAT AAAT AAAC AAATTT GAAAT AAAT AAAT
1 AAAT AAAT AAA--T -AAAT AAAT AAAT AAAT AAA--T -AAAT AAAT AAAT
* ** *
8991073 AAAT AAAT AAAT AAAT CAGAT -AAT AAAT TTA- AAAT TAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
8991120 A
1 A
8991121 CATGAGATAG
Statistics
Matches: 141, Mismatches: 32, Indels: 38
0.67 0.15 0.18
Matches are distributed among these distances:
3 9 0.06
4 113 0.80
5 7 0.05
6 3 0.02
7 9 0.06
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:8990949 original size:19 final size:19
Alignment explanation
Indices: 8990925--8991088 Score: 119
Period size: 19 Copynumber: 8.6 Consensus size: 19
8990915 ATATCCCTTC
8990925 AAATAAATAAATAAATTTG
1 AAATAAATAAATAAATTTG
*
8990944 AAAT-AA-AAATAAA---C
1 AAATAAATAAATAAATTTG
** *
8990958 AAATAAATAAATATGTGTG
1 AAATAAATAAATAAATTTG
* * *
8990977 GAATAAATAAATAAATCTA
1 AAATAAATAAATAAATTTG
*
8990996 AAATAAATAAATAAATTAG
1 AAATAAATAAATAAATTTG
*
8991015 AAATAAACGAATACATAAATTTG
1 AAAT--A--AATAAATAAATTTG
8991038 AAATAAATAAATAAACAAATTTG
1 AAATAAATAAAT----AAATTTG
8991061 AAATAAATAAATAAA--T-
1 AAATAAATAAATAAATTTG
8991077 AAATAAATAAAT
1 AAATAAATAAAT
8991089 CAGATAATAA
Statistics
Matches: 116, Mismatches: 16, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
14 4 0.03
15 2 0.02
16 17 0.15
17 8 0.07
18 2 0.02
19 46 0.40
21 2 0.02
23 35 0.30
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.26
Consensus pattern (19 bp):
AAATAAATAAATAAATTTG
Found at i:8991004 original size:23 final size:22
Alignment explanation
Indices: 8990978--8991120 Score: 127
Period size: 23 Copynumber: 6.5 Consensus size: 22
8990968 ATATGTGTGG
*
8990978 AATAAATAAATAAATCT--A-A
1 AATAAATAAATAAATTTAAATA
*
8990997 AATAAATAAATAAATTAGAAATA
1 AATAAATAAATAAATT-TAAATA
** *
8991020 AACGAATACATAAATTTGAAATA
1 AATAAATAAATAAATTT-AAATA
*
8991043 AATAAATAAACAAATTTGAAATA
1 AATAAATAAATAAATTT-AAATA
8991066 AATAAATAAATAAA--TAAATA
1 AATAAATAAATAAATTTAAATA
* *
8991086 AATCAGAT-AATAAATTTAAAATT
1 AAT-AAATAAATAAATTT-AAATA
8991109 AATAAATAAATA
1 AATAAATAAATA
8991121 CATGAGATAG
Statistics
Matches: 100, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
19 15 0.15
20 14 0.14
21 4 0.04
22 5 0.05
23 62 0.62
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (22 bp):
AATAAATAAATAAATTTAAATA
Found at i:8991113 original size:35 final size:34
Alignment explanation
Indices: 8990999--8991129 Score: 110
Period size: 35 Copynumber: 3.8 Consensus size: 34
8990989 AAATCTAAAA
8990999 TAAATAAATAAATTAGAAATAAA-C-GAATACATAAATT
1 TAAATAAATAAA-T--AAATAAATCAG-ATA-ATAAATT
* **
8991036 TGAAATAAATAAATAAACAAATTTGA-AATAAA--
1 T-AAATAAATAAATAAATAAATCAGATAATAAATT
8991068 TAAATAAATAAATAAATAAATCAGATAATAAATT
1 TAAATAAATAAATAAATAAATCAGATAATAAATT
* * *
8991102 TAAAATTAATAAATAAATACATGAGATA
1 T-AAATAAATAAATAAATAAATCAGATA
8991130 GAAGAATAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
31 21 0.27
32 7 0.09
34 6 0.08
35 30 0.38
36 1 0.01
37 3 0.04
38 11 0.14
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.27
Consensus pattern (34 bp):
TAAATAAATAAATAAATAAATCAGATAATAAATT
Found at i:9000065 original size:182 final size:182
Alignment explanation
Indices: 8999751--9000903 Score: 1547
Period size: 182 Copynumber: 6.4 Consensus size: 182
8999741 TAGTAGGTCT
* * * *
8999751 AAAAGTGTTGACACTTTATGAAAATGTATCGATCTATAACAATATAATAGCTAAAAATATGACAA
1 AAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAA
*
8999816 AATCGGTCTCAAAATGACAAAACAGGTAAATAACTACCAGATATGTTGAAAGTGTCGATACTTTA
66 AATCGGTCTCAAAATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTA
* *
8999881 ATATAAATATTGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
131 ATATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
* ** * * *
8999933 TAAAGTGTCGACACTTTAAAAAAATGTATTGATCCATAATAATATTACAGATAAAAATATGACAA
1 AAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAA
* * * * *
8999998 AACCGGTCTCAAAATGACAAAACCGGTAAA-ACGCTACCGGATATGCTGAAAGTGTCGATAATTT
66 AATCGGTCTCAAAATGACAAAACAGGTAAATA-ACTACCGGATATGTTGAAAGTGTCGATACTTT
9000062 AATATAAGTATCGACACTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTA
130 AATATAAGTATCGACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
* * *
9000115 AAAAGTATCGACACTTTATGAAAATGTATCGATCTATAACAATATAACA-ACTAAAAATATGATA
1 AAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGA-TAAAAATATGACA
*
9000179 AAATCGGTCTCAAAATGACAAAACAGGTAAATAATTACCGGATATGTTGAAAGTGTCGATACTTT
65 AAATCGGTCTCAAAATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTT
9000244 AATATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
130 AATATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
* * * ** *
9000297 TAAAGTGTCGATACTTAAAAAAAATGTATCGATCCATAACAATATAACATATAAAAATATGACAA
1 AAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAA
* * *
9000362 AATCGGTCTCAAAATGACAAAACCGATAAA-ACGCTACCGGATATGTTGAAA--GT-G----TTT
66 AATCGGTCTCAAAATGACAAAACAGGTAAATA-ACTACCGGATATGTTGAAAGTGTCGATACTTT
9000419 AATATAAGTATCGACACTTTCT-GAATTTTAAAA-AGAAGAAGTTATAGCGCCTA
130 AATATAAGTATCGACACTTT-TGGAA-TTTAAAAGAGAAGAAGTTATAGCGCCTA
* * * *
9000472 AAAAGTTTCGACACTTTATGAAAATGTATCGATCCATAATAATATAATAGCTAAAAATATGACAA
1 AAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAA
* * *
9000537 AACCGGTCTCAAAATGACAAAACAAGTAAATAACTATCGGATATGTTGAAAGTGTCGATACTTTA
66 AATCGGTCTCAAAATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTA
* * *
9000602 ATAGAAGTATCGATACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCCTA
131 ATATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
* ** * *
9000654 TAAA--GT-G--ACTTTAAAAAAATGTATTGATCCATAACAATATAACAGGTAAAAATATGACAA
1 AAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAA
** * * *
9000714 AATCGGTCTCAAAATGACAAAACCCGTAAA-AAGATACCGAATATGTTGAAAGTGCCGATGA-TT
66 AATCGGTCTCAAAATGACAAAACAGGTAAATAA-CTACCGGATATGTTGAAAGTGTCGAT-ACTT
*
9000777 TAATATAAGTATCGACA-TTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
129 TAATATAAGTATCGACACTTTT-GGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
** * * * *
9000831 AAAAGTGTCGACACTTTATGAAAATGTATTAATCGATAACAATATAATAGCTAAAAATATGAGAA
1 AAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAA
*
9000896 AATAGGTC
66 AATCGGTC
9000904 AACATAAAGT
Statistics
Matches: 852, Mismatches: 92, Indels: 54
0.85 0.09 0.05
Matches are distributed among these distances:
175 144 0.17
176 15 0.02
177 148 0.17
178 2 0.00
179 4 0.00
180 4 0.00
181 12 0.01
182 520 0.61
183 3 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (182 bp):
AAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAA
AATCGGTCTCAAAATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTA
ATATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
Found at i:9000614 original size:357 final size:357
Alignment explanation
Indices: 8999751--9000903 Score: 1791
Period size: 364 Copynumber: 3.2 Consensus size: 357
8999741 TAGTAGGTCT
8999751 AAAAGTGTT-GACACTTTATGAAAATGTATCGATCTATAACAATATAATAGCTAAAAATATGACA
1 AAAAGT-TTCGACACTTTATGAAAATGTATCGATCTATAACAATATAATAGCTAAAAATATGACA
*
8999815 AAATCGGTCTCAAAATGACAAAACAGGTAAATAACTACCAGATATGTTGAAAGTGTCGATACTTT
65 AAATCGGTCTCAAAATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTT
* *
8999880 AATATAAATATTGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGAC
130 AATATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGA-
* * *
8999945 ACTTTAAAAAAATGTATTGATCCATAATAATATTACAGATAAAAATATGACAAAACCGGTCTCAA
194 ACTTTAAAAAAATGTATTGATCCATAACAATATAACAGATAAAAATATGACAAAATCGGTCTCAA
*
9000010 AATGACAAAACCGGTAAAACGCTACCGGATATGCTGAAAGTGTCGATAATTTAATATAAGTATCG
259 AATGACAAAACC-GTAAAACGCTACCGGATATGTTGAAAG-GT-G---ATTTAATATAAGTATCG
9000075 ACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
318 ACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
* * * *
9000115 AAAAGTATCGACACTTTATGAAAATGTATCGATCTATAACAATATAACAACTAAAAATATGATAA
1 AAAAGTTTCGACACTTTATGAAAATGTATCGATCTATAACAATATAATAGCTAAAAATATGACAA
*
9000180 AATCGGTCTCAAAATGACAAAACAGGTAAATAATTACCGGATATGTTGAAAGTGTCGATACTTTA
66 AATCGGTCTCAAAATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTA
9000245 ATATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATA
131 ATATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGA-A
* * *
9000310 CTTAAAAAAAATGTATCGATCCATAACAATATAACATATAAAAATATGACAAAATCGGTCTCAAA
195 CTTTAAAAAAATGTATTGATCCATAACAATATAACAGATAAAAATATGACAAAATCGGTCTCAAA
9000375 ATGACAAAACCGATAAAACGCTACCGGATATGTTGAAA-GTG-TTTAATATAAGTATCGACACTT
260 ATGACAAAACCG-TAAAACGCTACCGGATATGTTGAAAGGTGATTTAATATAAGTATCGACACTT
9000438 TCTGAATTTTAAAA-AGAAGAAGTTATAGCGCCTA
324 TCTGAA-TTTAAAAGAGAAGAAGTTATAGCGCCTA
* *
9000472 AAAAGTTTCGACACTTTATGAAAATGTATCGATCCATAATAATATAATAGCTAAAAATATGACAA
1 AAAAGTTTCGACACTTTATGAAAATGTATCGATCTATAACAATATAATAGCTAAAAATATGACAA
* * *
9000537 AACCGGTCTCAAAATGACAAAACAAGTAAATAACTATCGGATATGTTGAAAGTGTCGATACTTTA
66 AATCGGTCTCAAAATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTA
* * *
9000602 ATAGAAGTATCGATACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCCTATAAA--GT-G-AC
131 ATATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGAAC
*
9000663 TTTAAAAAAATGTATTGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCAAAA
196 TTTAAAAAAATGTATTGATCCATAACAATATAACAGATAAAAATATGACAAAATCGGTCTCAAAA
* * *
9000728 TGACAAAACCCGTAAAAAGATACCGAATATGTTGAAAGTGCCGATGATTTAATATAAGTATCGAC
261 TGACAAAA-CCGTAAAACGCTACCGGATATGTTGAAA--G--G-TGATTTAATATAAGTATCGAC
*
9000793 ATTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
320 ACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
* ** * *
9000831 AAAAGTGTCGACACTTTATGAAAATGTATTAATCGATAACAATATAATAGCTAAAAATATGAGAA
1 AAAAGTTTCGACACTTTATGAAAATGTATCGATCTATAACAATATAATAGCTAAAAATATGACAA
*
9000896 AATAGGTC
66 AATCGGTC
9000904 AACATAAAGT
Statistics
Matches: 732, Mismatches: 45, Indels: 29
0.91 0.06 0.04
Matches are distributed among these distances:
352 93 0.13
353 3 0.00
354 1 0.00
355 2 0.00
357 222 0.30
358 16 0.02
359 112 0.15
361 1 0.00
362 2 0.00
363 2 0.00
364 278 0.38
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (357 bp):
AAAAGTTTCGACACTTTATGAAAATGTATCGATCTATAACAATATAATAGCTAAAAATATGACAA
AATCGGTCTCAAAATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTA
ATATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGAAC
TTTAAAAAAATGTATTGATCCATAACAATATAACAGATAAAAATATGACAAAATCGGTCTCAAAA
TGACAAAACCGTAAAACGCTACCGGATATGTTGAAAGGTGATTTAATATAAGTATCGACACTTTC
TGAATTTAAAAGAGAAGAAGTTATAGCGCCTA
Found at i:9001656 original size:3 final size:3
Alignment explanation
Indices: 9001648--9001718 Score: 79
Period size: 3 Copynumber: 22.7 Consensus size: 3
9001638 CAGCAACAAT
* * *
9001648 TTC TTC TTC TTC TTC TTC ATTC TTTA TTCC CTC TTT TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC -TTC -TTC TT-C TTC TTC TTC TTC TTC TTC
*
9001696 TTC TCC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TT
9001719 TCCTTCTGAC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
3 51 0.89
4 6 0.11
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:9005641 original size:19 final size:19
Alignment explanation
Indices: 9005619--9005663 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
9005609 TAAAAACGTT
9005619 GATTTGAAGCAAAAATGGA
1 GATTTGAAGCAAAAATGGA
9005638 GATTTGAAGCAAAAATGGA
1 GATTTGAAGCAAAAATGGA
9005657 GATTTGA
1 GATTTGA
9005664 GTGCTTAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.44, C:0.04, G:0.27, T:0.24
Consensus pattern (19 bp):
GATTTGAAGCAAAAATGGA
Found at i:9012249 original size:3 final size:3
Alignment explanation
Indices: 9012231--9012329 Score: 72
Period size: 3 Copynumber: 29.3 Consensus size: 3
9012221 CAGGGTCGTG
9012231 AGA AGA AGGA AGGA AGA AGGA ATGA AGGA AGA AGGA AGA AGGA ATGA AGGA
1 AGA AGA A-GA A-GA AGA A-GA A-GA A-GA AGA A-GA AGA A-GA A-GA A-GA
* * *
9012282 AGA AGGA AGA AGA AGG AGA AGA AGA AAA ACA AGGA AGA AGA AGA AGA
1 AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA AGA AGA AGA
9012329 A
1 A
9012330 AAAACGGTTG
Statistics
Matches: 81, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
3 48 0.59
4 33 0.41
ACGTcount: A:0.60, C:0.01, G:0.37, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:9012259 original size:15 final size:14
Alignment explanation
Indices: 9012239--9012327 Score: 94
Period size: 15 Copynumber: 6.3 Consensus size: 14
9012229 TGAGAAGAAG
9012239 GAAGGAAGAAGGAA
1 GAAGGAAGAAGGAA
9012253 TGAAGGAAGAAGGAA
1 -GAAGGAAGAAGGAA
9012268 GAAGGAATGAAGGAA
1 GAAGGAA-GAAGGAA
9012283 GAAGGAAGAA-GAA
1 GAAGGAAGAAGGAA
* *
9012296 GGA-GAAGAAGAAAAA
1 GAAGGAAGAAG--GAA
*
9012311 CAAGGAAGAA-GAA
1 GAAGGAAGAAGGAA
9012324 GAAG
1 GAAG
9012328 AAAAAACGGT
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
12 6 0.10
13 10 0.16
14 10 0.16
15 31 0.49
16 6 0.10
ACGTcount: A:0.58, C:0.01, G:0.38, T:0.02
Consensus pattern (14 bp):
GAAGGAAGAAGGAA
Found at i:9012264 original size:22 final size:22
Alignment explanation
Indices: 9012239--9012293 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
9012229 TGAGAAGAAG
9012239 GAAGGAAGAAGGAATGAAGGAA
1 GAAGGAAGAAGGAATGAAGGAA
9012261 GAAGGAAGAAGGAATGAAGGAA
1 GAAGGAAGAAGGAATGAAGGAA
9012283 GAAGGAAGAAG
1 GAAGGAAGAAG
9012294 AAGGAGAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.04
Consensus pattern (22 bp):
GAAGGAAGAAGGAATGAAGGAA
Found at i:9012305 original size:22 final size:23
Alignment explanation
Indices: 9012230--9012329 Score: 100
Period size: 22 Copynumber: 4.5 Consensus size: 23
9012220 ACAGGGTCGT
*
9012230 GAGAAGAAGGAAGGAAGAAGGAAT
1 GAGAAGAA-GAAGGAAGAAGGAAG
* *
9012254 GA-AGGAAGAAGGAAGAAGGAAT
1 GAGAAGAAGAAGGAAGAAGGAAG
*
9012276 GA-AGGAAGAAGGAAGAA-GAAG
1 GAGAAGAAGAAGGAAGAAGGAAG
* *
9012297 GAGAAGAAGAA-AAACAAGGAAG
1 GAGAAGAAGAAGGAAGAAGGAAG
*
9012319 AAGAAGAAGAA
1 GAGAAGAAGAA
9012330 AAAACGGTTG
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.13
22 53 0.78
23 4 0.06
24 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.38, T:0.02
Consensus pattern (23 bp):
GAGAAGAAGAAGGAAGAAGGAAG
Found at i:9014388 original size:17 final size:17
Alignment explanation
Indices: 9014368--9014407 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
9014358 AATACATAAT
9014368 TTAGTAGAGCACATGCA
1 TTAGTAGAGCACATGCA
9014385 TTAGTAGAGCACATGCA
1 TTAGTAGAGCACATGCA
9014402 TTAGTA
1 TTAGTA
9014408 AGGGTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (17 bp):
TTAGTAGAGCACATGCA
Found at i:9016702 original size:54 final size:54
Alignment explanation
Indices: 9016617--9016910 Score: 378
Period size: 54 Copynumber: 5.4 Consensus size: 54
9016607 CTATGTGTAC
*
9016617 TATCGACACTAAGTGTGCAACCCATAGAATTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* *
9016671 TATCGGCACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
*
9016725 TATC-AGCACTAAGTGT-TAACCCACAGAATTCATAATAAGTTTATGAACGACCG
1 TATCGA-CACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* *
9016778 TATCGACTCTAAGTGTGCAACCCAC-GAAATTCATAATAAGTTTATGAACGACCA
1 TATCGACACTAAGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAACGACCG
* * * * * * * *
9016832 TATCAACGCTATGTGTACAACGCACATAATTCATAATAAGGTTTACGAATGACCG
1 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAA-GTTTATGAACGACCG
** * *
9016887 TATCGGTACTATGTGTGCACCCCA
1 TATCGACACTAAGTGTGCAACCCA
9016911 TGAAACTTAT
Statistics
Matches: 209, Mismatches: 25, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
53 49 0.23
54 131 0.63
55 29 0.14
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (54 bp):
TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
Found at i:9016821 original size:107 final size:108
Alignment explanation
Indices: 9016617--9016910 Score: 394
Period size: 107 Copynumber: 2.7 Consensus size: 108
9016607 CTATGTGTAC
* * * *
9016617 TATCGACACTAAGTGTGCAACCCATAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
1 TATCAACACTAAGTGTACAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACTA
*
9016682 AGTGTGCAACCCACATAATTCATAATAAGTTTATGAACGACCG
66 AGTGTGCAACCCACATAATTCATAATAAGTTTATGAACGACCA
* * *
9016725 TATCAGCACTAAGTGT-TAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACTCTA
1 TATCAACACTAAGTGTACAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACTA
9016789 AGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCA
66 AGTGTGCAACCCAC-ATAATTCATAATAAGTTTATGAACGACCA
* * * * * * **
9016832 TATCAACGCTATGTGTACAACGCACATAATTCATAATAAGGTTTACGAATGACCGTATCGGTACT
1 TATCAACACTAAGTGTACAACCCACAGAATTCATAATAA-GTTTATGAACGACCGTATCGACACT
* *
9016897 ATGTGTGCACCCCA
65 AAGTGTGCAACCCA
9016911 TGAAACTTAT
Statistics
Matches: 163, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
107 97 0.60
108 34 0.21
109 32 0.20
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (108 bp):
TATCAACACTAAGTGTACAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACTA
AGTGTGCAACCCACATAATTCATAATAAGTTTATGAACGACCA
Found at i:9022490 original size:19 final size:19
Alignment explanation
Indices: 9022466--9022503 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9022456 TCATAATAAA
9022466 AGGTAAGATTTCTTCAAGT
1 AGGTAAGATTTCTTCAAGT
9022485 AGGTAAGATTTCTTCAAGT
1 AGGTAAGATTTCTTCAAGT
9022504 TGGGGTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (19 bp):
AGGTAAGATTTCTTCAAGT
Found at i:9023108 original size:22 final size:20
Alignment explanation
Indices: 9023080--9023135 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
9023070 TACTGAAGGG
9023080 AGTATCGATACTATAGTATAGA
1 AGTATCGATACTATAG--TAGA
* *
9023102 AGTATCGATACCATAGTAGG
1 AGTATCGATACTATAGTAGA
*
9023122 AGTACCGATACTAT
1 AGTATCGATACTAT
9023136 TGAGCCTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 15 0.50
22 15 0.50
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (20 bp):
AGTATCGATACTATAGTAGA
Found at i:9023542 original size:54 final size:54
Alignment explanation
Indices: 9023456--9023637 Score: 256
Period size: 54 Copynumber: 3.4 Consensus size: 54
9023446 CTATGTTTAC
* *
9023456 TATCGACACTAAGTGTGCAACCCACGTTATTCATAATAAGTTTATGAATGACCA
1 TATCGACACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAATGACCA
* * **
9023510 TATCGGCACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAACGACTG
1 TATCGACACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAATGACCA
* * * * *
9023564 TATCAACACTAGGTGTGCAACCCACATAATTTATAATAAGGTTTACGAATGGCCA
1 TATCGACACTAAGTGTGCAACCCACATAATTCATAATAA-GTTTATGAATGACCA
9023619 TATCGACACTAAGTGTGCA
1 TATCGACACTAAGTGTGCA
9023638 CCCTATGAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
54 83 0.75
55 27 0.25
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (54 bp):
TATCGACACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAATGACCA
Found at i:9024438 original size:54 final size:54
Alignment explanation
Indices: 9024356--9024460 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
9024346 AAATGCATAT
* *
9024356 TATCTTTGATTTATTTTATATACAATCAGGAGGTGACACATGTCACCATTTATA
1 TATCTTTGATTTATTTTATATACAATCAGGAGATGACACACGTCACCATTTATA
* * *
9024410 TATCTTTGATTTATTTTCTATCCAATCAGGAGATGCCACACGTCACCATTT
1 TATCTTTGATTTATTTTATATACAATCAGGAGATGACACACGTCACCATTT
9024461 GATTGGATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (54 bp):
TATCTTTGATTTATTTTATATACAATCAGGAGATGACACACGTCACCATTTATA
Found at i:9033214 original size:20 final size:20
Alignment explanation
Indices: 9033168--9033219 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
9033158 GCAGCCTTGG
*
9033168 TGCATGGATGCACAACAGGA
1 TGCATCGATGCACAACAGGA
**
9033188 T-CATCGATGCACAGTAGGA
1 TGCATCGATGCACAACAGGA
9033207 TGCATCGATGCAC
1 TGCATCGATGCAC
9033220 TAAGTGCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAACAGGA
Found at i:9033292 original size:23 final size:20
Alignment explanation
Indices: 9033239--9033296 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
9033229 TCGAAATGGA
9033239 GTGCATGGATGCACTACATG
1 GTGCATGGATGCACTACATG
*
9033259 GTGCATCGATGCACTAGTGGCA-G
1 GTGCATGGATGCACTA----CATG
9033282 GTGCATGGATGCACT
1 GTGCATGGATGCACT
9033297 TTGACACCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 15 0.47
23 15 0.47
24 2 0.06
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (20 bp):
GTGCATGGATGCACTACATG
Found at i:9033410 original size:30 final size:31
Alignment explanation
Indices: 9033376--9033435 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
9033366 AAACTTTGAA
9033376 TAAATTCAATT-AAGTCCAAAAACCATTTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTTT
9033406 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTT
9033436 GCCTTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 11 0.38
31 18 0.62
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTT
Found at i:9036292 original size:34 final size:32
Alignment explanation
Indices: 9036230--9036299 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
9036220 ACCTTACAAC
* *
9036230 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
* *
9036262 TCCCTAGCTTTTACACGGGATAAGCTAGAACTTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
9036296 TCCC
1 TCCC
9036300 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:9036695 original size:20 final size:20
Alignment explanation
Indices: 9036672--9036757 Score: 73
Period size: 20 Copynumber: 4.3 Consensus size: 20
9036662 TGGTGCATGG
*
9036672 ATGCACAACATAATGCATCA
1 ATGCACAACAGAATGCATCA
* *
9036692 ATGCACAACAGGATGCATCG
1 ATGCACAACAGAATGCATCA
** * *
9036712 ATGCACAGTAGGATGCATCG
1 ATGCACAACAGAATGCATCA
** * *
9036732 ATGCACAGTAGGATGCATCG
1 ATGCACAACAGAATGCATCA
9036752 ATGCAC
1 ATGCAC
9036758 TAAGTGCATT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (20 bp):
ATGCACAACAGAATGCATCA
Found at i:9036802 original size:20 final size:20
Alignment explanation
Indices: 9036777--9036834 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
9036767 TCGAAATAGA
9036777 GTGCATGGATGCACTA-CATG
1 GTGCATGGATGCACTAGCA-G
*
9036797 GTGCATCGATGCACTAGTGGCAG
1 GTGCATGGATGCACTA---GCAG
9036820 GTGCATGGATGCACT
1 GTGCATGGATGCACT
9036835 GTAGGGGTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 15 0.47
23 15 0.47
24 2 0.06
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (20 bp):
GTGCATGGATGCACTAGCAG
Found at i:9037192 original size:23 final size:22
Alignment explanation
Indices: 9037162--9037255 Score: 104
Period size: 23 Copynumber: 4.2 Consensus size: 22
9037152 CTTTCGGGAC
9037162 AATTATGTGGCACTTCGGTGCA
1 AATTATGTGGCACTTCGGTGCA
* *
9037184 AACCTATGTGGTACTTCGGTGCA
1 AA-TTATGTGGCACTTCGGTGCA
*
9037207 AATTTATGTGGTC-TTTCGG-G-A
1 AA-TTATGTGG-CACTTCGGTGCA
9037228 CAATTATGTGGCACTTCGGTGCA
1 -AATTATGTGGCACTTCGGTGCA
9037251 AATTA
1 AATTA
9037256 CGAGCTGTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.02
21 14 0.24
22 11 0.19
23 33 0.56
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (22 bp):
AATTATGTGGCACTTCGGTGCA
Found at i:9053725 original size:42 final size:41
Alignment explanation
Indices: 9053698--9053960 Score: 393
Period size: 42 Copynumber: 6.3 Consensus size: 41
9053688 TCCAAGTTCG
9053698 CGTTGCGATAGTCGAAGTTCGCGTTGCGATT-TTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
9053738 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
* * * *
9053780 CGTTGCGATAGTCCAAGTTTGTGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
* *
9053822 CGTTGCGATAGTTGAAGTTCACGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
* *
9053864 CGTTGCGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
*
9053906 CGTTGCGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
9053948 CGTTGCGATAGTC
1 CGTTGCGATAGTC
9053961 CAAAATCGCA
Statistics
Matches: 206, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 29 0.14
41 2 0.01
42 175 0.85
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (41 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
Found at i:9053821 original size:23 final size:22
Alignment explanation
Indices: 9053719--9053956 Score: 118
Period size: 21 Copynumber: 11.4 Consensus size: 22
9053709 TCGAAGTTCG
*
9053719 CGTTGCGA-TT-TTCCAA-ATT
1 CGTTGCGATTTATTCCAAGTTT
* * *
9053738 CGTTGCGA--TAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAAGTT-T
*
9053759 CGTTGCGATTTATTCCAA-ATT
1 CGTTGCGATTTATTCCAAGTTT
*
9053780 CGTTGCGA--TAGTCCAAGTTT
1 CGTTGCGATTTATTCCAAGTTT
*
9053800 GTGTTGCGATTTATTCCAAG-TT
1 -CGTTGCGATTTATTCCAAGTTT
* *
9053822 CGTTGCGA--TAGTT-GAAGTTCA
1 CGTTGCGATTTA-TTCCAAGTT-T
*
9053843 CGTTGCGATTTATTCCAA-ATT
1 CGTTGCGATTTATTCCAAGTTT
* * *
9053864 CGTTGCGA--TAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAAGTT-T
*
9053885 CGTTGTGATTTATTCCAAG-TT
1 CGTTGCGATTTATTCCAAGTTT
* * *
9053906 CGTTGCGA--TAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAAGTT-T
* *
9053927 CGTTGTGATTTATTCCAA-ATT
1 CGTTGCGATTTATTCCAAGTTT
9053948 CGTTGCGAT
1 CGTTGCGAT
9053957 AGTCCAAAAT
Statistics
Matches: 160, Mismatches: 36, Indels: 44
0.67 0.15 0.18
Matches are distributed among these distances:
18 1 0.01
19 37 0.23
20 8 0.05
21 75 0.47
22 8 0.05
23 31 0.19
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.38
Consensus pattern (22 bp):
CGTTGCGATTTATTCCAAGTTT
Found at i:9053840 original size:84 final size:84
Alignment explanation
Indices: 9053698--9053963 Score: 437
Period size: 84 Copynumber: 3.2 Consensus size: 84
9053688 TCCAAGTTCG
* *
9053698 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCG
9053761 TTGCGATTTATTCCAAATT
66 TTGCGATTTATTCCAAATT
* * * *
9053780 CGTTGCGATAGTCCAAGTTTGTGTTGCGATTTATTCCAAGTTCGTTGCGATAGTTGAAGTTCACG
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCG
9053845 TTGCGATTTATTCCAAATT
66 TTGCGATTTATTCCAAATT
* *
9053864 CGTTGCGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCG
*
9053929 TTGTGATTTATTCCAAATT
66 TTGCGATTTATTCCAAATT
9053948 CGTTGCGATAGTCCAA
1 CGTTGCGATAGTCCAA
9053964 AATCGCAACG
Statistics
Matches: 168, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
82 26 0.15
83 2 0.01
84 140 0.83
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (84 bp):
CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCG
TTGCGATTTATTCCAAATT
Found at i:9054621 original size:6 final size:6
Alignment explanation
Indices: 9054583--9054617 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
9054573 GTCGAGCCGT
*
9054583 GGTCGG GGTCGG GGTCGG GGTCGG GGTCGT GGTCG
1 GGTCGG GGTCGG GGTCGG GGTCGG GGTCGG GGTCG
9054618 TGGTAATACG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.17, G:0.63, T:0.20
Consensus pattern (6 bp):
GGTCGG
Found at i:9054718 original size:6 final size:6
Alignment explanation
Indices: 9054702--9055240 Score: 398
Period size: 6 Copynumber: 90.5 Consensus size: 6
9054692 TCTCGTCTCG
*
9054702 GGTCG- GGTCGT GGTCGT GGTCGT GGCCAG- GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTC-GT GGTCGT GGTCGT GGTCGT
* * * * * * *
9054749 GGCCGG GGTCGT GTTCGT GGCCGT GGTCGT GGCCGG GGCCGT GGTC--
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
* * * * * * *
9054795 GGTCGT GGCCG- GGGC-C GATCGT GGCCGG GGTCAT GGTC-- GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
* * * * * *
9054839 GGCCGG GGCCGT GGTCGT GGTCGT GGTCGT GG-CTGA GGTCGT GGCCGG
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC-GT GGTCGT GGTCGT
* * * * * * * *
9054887 GGTCTT GGCCGG GGTCGT GGTTGT GGCCGT GG-CTGG GGTCGT GGCCGG
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC-GT GGTCGT GGTCGT
* * * * *
9054935 GGTCAT GGCCGG GGTCGT GGTCGT GGCCGG GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
* * * * *
9054983 GGCCGG GGTCGT GGCCGG GGTCGT GGTCGG GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
* * * * * *
9055031 GGTCGT GGCCGT GGCCGG GGTCGT GGTCGT GGCCGT GGCCGT GGCCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
* * * * *
9055079 GGTCGT GGCCGT GGCCGT GGCCGTCGT GGTCGT GGCCGG GGTCGT GGCCGT
1 GGTCGT GGTCGT GGTCGT -G--GTCGT GGTCGT GGTCGT GGTCGT GGTCGT
* * * * *
9055130 GGTCGT GGTCGT GGTCGT GGCCGG GGCCGT GGTCGT GGCCGT GGCCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
* * * * *
9055178 GGCCGT GG-CTGT GGTCGG GGTCGG GGTCGG GGTCGG GGTCGT GGTCGT
1 GGTCGT GGTC-GT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
9055226 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
9055241 AATACGTGTC
Statistics
Matches: 425, Mismatches: 91, Indels: 35
0.77 0.17 0.06
Matches are distributed among these distances:
4 8 0.02
5 14 0.03
6 393 0.92
7 5 0.01
8 1 0.00
9 4 0.01
ACGTcount: A:0.01, C:0.23, G:0.53, T:0.23
Consensus pattern (6 bp):
GGTCGT
Found at i:9054824 original size:38 final size:38
Alignment explanation
Indices: 9054775--9054849 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
9054765 GTGGCCGTGG
*
9054775 TCGTGGCCGGGGCCGTGGTCGGTCGTGGCCGGGGCCGA
1 TCGTGGCCGGGGCCATGGTCGGTCGTGGCCGGGGCCGA
*
9054813 TCGTGGCCGGGGTCATGGTCGGTCGTGGCCGGGGCCG
1 TCGTGGCCGGGGCCATGGTCGGTCGTGGCCGGGGCCG
9054850 TGGTCGTGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.03, C:0.28, G:0.52, T:0.17
Consensus pattern (38 bp):
TCGTGGCCGGGGCCATGGTCGGTCGTGGCCGGGGCCGA
Found at i:9057459 original size:26 final size:26
Alignment explanation
Indices: 9057430--9057533 Score: 190
Period size: 26 Copynumber: 4.0 Consensus size: 26
9057420 TTTGTAAACC
9057430 TTTAAGGACAAGGTGTAATCTTACAA
1 TTTAAGGACAAGGTGTAATCTTACAA
*
9057456 TTTAAGGGCAAGGTGTAATCTTACAA
1 TTTAAGGACAAGGTGTAATCTTACAA
*
9057482 TTTAAGGGCAAGGTGTAATCTTACAA
1 TTTAAGGACAAGGTGTAATCTTACAA
9057508 TTTAAGGACAAGGTGTAATCTTACAA
1 TTTAAGGACAAGGTGTAATCTTACAA
9057534 GCACTTCAAG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (26 bp):
TTTAAGGACAAGGTGTAATCTTACAA
Found at i:9057869 original size:18 final size:19
Alignment explanation
Indices: 9057832--9057869 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
9057822 TAGTCGTTTG
*
9057832 GAGCCGTTGGGGATTGATTA
1 GAGCCGTT-GGGATTCATTA
9057852 GAGCCGTT-GGATTCATTA
1 GAGCCGTTGGGATTCATTA
9057870 ATTTTGAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.21, C:0.13, G:0.34, T:0.32
Consensus pattern (19 bp):
GAGCCGTTGGGATTCATTA
Found at i:9058710 original size:2 final size:2
Alignment explanation
Indices: 9058703--9058744 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
9058693 CAAATACATG
*
9058703 AT AT AT AT AT AA 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
9058745 CAATTTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9063033 original size:4 final size:4
Alignment explanation
Indices: 9063024--9063050 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9063014 AAGATGGAAC
9063024 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
9063051 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:9067079 original size:19 final size:19
Alignment explanation
Indices: 9067042--9067089 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
9067032 TTTAAATCAT
9067042 TTTTCAAAATTTCATTTTTA
1 TTTTCAAAA-TTCATTTTTA
*
9067062 TTTTCAAAA-TCAATTTTTG
1 TTTTCAAAATTC-ATTTTTA
*
9067081 CTTTCAAAA
1 TTTTCAAAA
9067090 CCAAATCGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 14 0.56
20 9 0.36
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTCAAAATTCATTTTTA
Found at i:9070785 original size:2 final size:2
Alignment explanation
Indices: 9070780--9070808 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9070770 TTTTAATGAT
9070780 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 T
9070809 GAAATCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9070972 original size:14 final size:13
Alignment explanation
Indices: 9070937--9070977 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
9070927 AATTTTAGTT
9070937 TAATATTAA-ATA
1 TAATATTAATATA
9070949 TAAT-TTAATATA
1 TAATATTAATATA
*
9070961 TAATCATTAATAAA
1 TAAT-ATTAATATA
9070975 TAA
1 TAA
9070978 ATATAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 4 0.16
12 11 0.44
14 10 0.40
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATATTAATATA
Found at i:9072982 original size:39 final size:39
Alignment explanation
Indices: 9072925--9073040 Score: 214
Period size: 39 Copynumber: 3.0 Consensus size: 39
9072915 GCTCGTTTTA
9072925 AGTATCCTCCTCATTGGGTTCCTCTGAAACTTCTTTGTC
1 AGTATCCTCCTCATTGGGTTCCTCTGAAACTTCTTTGTC
* *
9072964 AGTATCCTCCTCAGTGGGTTCCTCTGAAACTTCGTTGTC
1 AGTATCCTCCTCATTGGGTTCCTCTGAAACTTCTTTGTC
9073003 AGTATCCTCCTCATTGGGTTCCTCTGAAACTTCTTTGT
1 AGTATCCTCCTCATTGGGTTCCTCTGAAACTTCTTTGT
9073041 GGTGTGGCTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.16, C:0.28, G:0.17, T:0.40
Consensus pattern (39 bp):
AGTATCCTCCTCATTGGGTTCCTCTGAAACTTCTTTGTC
Found at i:9074969 original size:35 final size:35
Alignment explanation
Indices: 9074923--9075002 Score: 135
Period size: 35 Copynumber: 2.3 Consensus size: 35
9074913 AACATAGTCA
9074923 TCAATTACATTCTAAACC-CTAAATTCCAAAATACT
1 TCAATTACATTCTAAACCAC-AAATTCCAAAATACT
9074958 TCAATTACATTCTAAACCACAAATTCCAAAATACT
1 TCAATTACATTCTAAACCACAAATTCCAAAATACT
*
9074993 ACAATTACAT
1 TCAATTACAT
9075003 GCCCAATCCC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
35 42 0.98
36 1 0.02
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (35 bp):
TCAATTACATTCTAAACCACAAATTCCAAAATACT
Found at i:9075016 original size:35 final size:35
Alignment explanation
Indices: 9074924--9075018 Score: 104
Period size: 35 Copynumber: 2.7 Consensus size: 35
9074914 ACATAGTCAT
* * *
9074924 CAATTACATTCTAAACC-CTAAATTCCAAAATACTT
1 CAATTACATCCCAAACCAC-AAATTCCAAAATACTA
* *
9074959 CAATTACATTCTAAACCACAAATTCCAAAATACTA
1 CAATTACATCCCAAACCACAAATTCCAAAATACTA
*
9074994 CAATTACATGCCCAATCC-CAAATTC
1 CAATTACAT-CCCAAACCACAAATTC
9075019 ATAATCTAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
35 48 0.89
36 6 0.11
ACGTcount: A:0.43, C:0.28, G:0.01, T:0.27
Consensus pattern (35 bp):
CAATTACATCCCAAACCACAAATTCCAAAATACTA
Found at i:9075685 original size:147 final size:148
Alignment explanation
Indices: 9075501--9075790 Score: 420
Period size: 147 Copynumber: 2.0 Consensus size: 148
9075491 AAACTATTTA
* * * * * *
9075501 AATTAGAATCAAATAATATTACAGTATTATAAATATTTATAATTAAATTTAAACAGAAACTCGGA
1 AATTACAATAAAAAAATATTACAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
** * ** *
9075566 AATTCAATTCAATTCGACTTGATTTAAATTTTTTAAAATTAAATC-AAAAATTTTTGAGTCAACT
66 AATTCAATTCAATTCGACTTGATTTAAATTTAATAAAATCAAATCAAAAAAAATTCGAGTCAACT
9075630 ATTTTATAAACTAAACTG
131 ATTTTATAAACTAAACTG
* *
9075648 AATTACAATAAAAAAATATTATAATATGATAAATATTTATAATTAAATTTAAACATAAACTCGAA
1 AATTACAATAAAAAAATATTACAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
* *
9075713 AATTCAATTCAATTTGACTTGATTTAAATTTAATAAACTCAAATCGAAAAAAAATTCGAGTCAAC
66 AATTCAATTCAATTCGACTTGATTTAAATTTAATAAAATCAAATC-AAAAAAAATTCGAGTCAAC
9075778 TATTTTATAAACT
130 TATTTTATAAACT
9075791 TAATTGAGTA
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
147 97 0.78
149 28 0.22
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.37
Consensus pattern (148 bp):
AATTACAATAAAAAAATATTACAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
AATTCAATTCAATTCGACTTGATTTAAATTTAATAAAATCAAATCAAAAAAAATTCGAGTCAACT
ATTTTATAAACTAAACTG
Found at i:9076012 original size:35 final size:35
Alignment explanation
Indices: 9075973--9076047 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
9075963 GTTGAGCATG
* *
9075973 TAATTAAAGTATTTTGGAATTTGAGGTTTAGAATT
1 TAATTAAAGCATTTTGGAATTTGAGGTTTAGAATA
*
9076008 TAATTAAAGCATTTTGGAATTTGGGGTTTAGAATA
1 TAATTAAAGCATTTTGGAATTTGAGGTTTAGAATA
9076043 TAATT
1 TAATT
9076048 GATGACTGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (35 bp):
TAATTAAAGCATTTTGGAATTTGAGGTTTAGAATA
Found at i:9080586 original size:10 final size:10
Alignment explanation
Indices: 9080560--9080593 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9080550 TCTTGGTATG
*
9080560 GAGATAAGCA
1 GAGATAGGCA
9080570 GAGATAGGCA
1 GAGATAGGCA
*
9080580 GAGATAGACA
1 GAGATAGGCA
9080590 GAGA
1 GAGA
9080594 GGGAAGCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.35, T:0.09
Consensus pattern (10 bp):
GAGATAGGCA
Found at i:9083070 original size:27 final size:27
Alignment explanation
Indices: 9083032--9083096 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
9083022 TTCTCACCTT
9083032 TGAATGATTCAACACAGAAA-TACATTC
1 TGAATGATTCAACACA-AAAGTACATTC
*
9083059 TGAATGATTCAACACAAAAGTATATTC
1 TGAATGATTCAACACAAAAGTACATTC
*
9083086 TGAATAATTCA
1 TGAATGATTCA
9083097 GAGCCATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (27 bp):
TGAATGATTCAACACAAAAGTACATTC
Found at i:9083187 original size:15 final size:16
Alignment explanation
Indices: 9083149--9083189 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
9083139 ACATAGGCTC
*
9083149 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
9083165 TGAATCATTCAGCGCT
1 TGAATCATTCAGCACT
9083181 T-AATCATTC
1 TGAATCATTC
9083190 TGATGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:9091995 original size:22 final size:22
Alignment explanation
Indices: 9091967--9092076 Score: 94
Period size: 22 Copynumber: 5.0 Consensus size: 22
9091957 CAAATAAATA
9091967 AATACTAAAGTGCCTTAGCACT
1 AATACTAAAGTGCCTTAGCACT
* *
9091989 AATACTAAAGTGCCTCAACACT
1 AATACTAAAGTGCCTTAGCACT
* * * *
9092011 AATGCTAAAGTGCCTCAACATT
1 AATACTAAAGTGCCTTAGCACT
** * *
9092033 GTTACTAAAGTGCATTCGCACT
1 AATACTAAAGTGCCTTAGCACT
* * * *
9092055 GATACAAAAGTTCCATAGCACT
1 AATACTAAAGTGCCTTAGCACT
9092077 GGAAAGAGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 70 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (22 bp):
AATACTAAAGTGCCTTAGCACT
Found at i:9101173 original size:2 final size:2
Alignment explanation
Indices: 9101094--9101154 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
9101084 AACCCTAAAT
9101094 TA 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 TA
9101136 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
9101155 GACATTTTTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9103168 original size:21 final size:21
Alignment explanation
Indices: 9103124--9103169 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
9103114 AATCCTTTCT
* * *
9103124 TTTCCTTTGACCTTAATTGCA
1 TTTCCATTGACCGTAATTGAA
*
9103145 TTTCCATTGACCGTAATTTAA
1 TTTCCATTGACCGTAATTGAA
9103166 TTTC
1 TTTC
9103170 ACAACCAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.48
Consensus pattern (21 bp):
TTTCCATTGACCGTAATTGAA
Found at i:9113743 original size:18 final size:20
Alignment explanation
Indices: 9113720--9113769 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
9113710 ACAAATTTTG
9113720 GTATCGATACTC-A-GGTGA
1 GTATCGATACTCAAGGGTGA
*
9113738 GTATCGATACCCAAGGGGTGA
1 GTATCGATACTCAA-GGGTGA
9113759 GTATCGATACT
1 GTATCGATACT
9113770 GATTCTGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 11 0.41
19 1 0.04
21 15 0.56
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (20 bp):
GTATCGATACTCAAGGGTGA
Found at i:9119765 original size:62 final size:62
Alignment explanation
Indices: 9119698--9119816 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
9119688 ATACTAAGGC
* * ** *
9119698 ATTTTTAAAAACATCGAAGCTGATTTTAGTATTGATACTCATGG-GAGTATCGATACCTAAGT
1 ATTTTTAAAAACATCAAAACAAATTTTAGTATCGATACTCA-GGTGAGTATCGATACCTAAGT
* * *
9119760 ATTTTTCAAAACATCAAAACAAATTTTGGTATCGATACTCAGGTGAGTATTGATACC
1 ATTTTTAAAAACATCAAAACAAATTTTAGTATCGATACTCAGGTGAGTATCGATACC
9119817 CAAGGGGTGA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 2 0.04
62 46 0.96
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (62 bp):
ATTTTTAAAAACATCAAAACAAATTTTAGTATCGATACTCAGGTGAGTATCGATACCTAAGT
Found at i:9121599 original size:33 final size:32
Alignment explanation
Indices: 9121562--9121623 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
9121552 GAAATATCAG
*
9121562 GATATGAGGTTTTAGAA-AATAGTCAATGCCTAT
1 GATATGAGGTCTTA-AAGAA-AGTCAATGCCTAT
*
9121595 GATATGTGGTCTTAAAGAAAGTCAATGCC
1 GATATGAGGTCTTAAAGAAAGTCAATGCC
9121624 CGATCAACGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (32 bp):
GATATGAGGTCTTAAAGAAAGTCAATGCCTAT
Found at i:9129390 original size:91 final size:90
Alignment explanation
Indices: 9129236--9129411 Score: 298
Period size: 91 Copynumber: 1.9 Consensus size: 90
9129226 TAACACACTC
*
9129236 TTTTATAGCCAAGTTACCCTAATCATATTAGGATTTTATTATTTCAAAATAATTAAATCTATATT
1 TTTTATAGCCAAGTTACCCTAATCATATTAGGATTGTATTATTTCAAAATAATTAAATCTATATT
* *
9129301 TAATTAATTGGAATTTAATAATCCT
66 TAATTAATTGAAATTAAATAATCCT
* *
9129326 TTTTATATCCAAGTTACCCTAATCATATTAGGGATTGTATTATTTCAAATTAATTAAATCTATAT
1 TTTTATAGCCAAGTTACCCTAATCATATTA-GGATTGTATTATTTCAAAATAATTAAATCTATAT
9129391 TTAATTAATTGAAATTAAATA
65 TTAATTAATTGAAATTAAATA
9129412 TTCAGGATTA
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 29 0.36
91 51 0.64
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (90 bp):
TTTTATAGCCAAGTTACCCTAATCATATTAGGATTGTATTATTTCAAAATAATTAAATCTATATT
TAATTAATTGAAATTAAATAATCCT
Done.