Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001153.1 Hibiscus syriacus cultivar Beakdansim tig00002299_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: 101875
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:11185 original size:116 final size:117
Alignment explanation
Indices: 11064--11278 Score: 254
Period size: 116 Copynumber: 1.8 Consensus size: 117
11054 TTATCTTTTT
* *** * **** *
11064 GATAATTCGGATCGAATAT-TTTAAAAAATTTATAATAATCAAATCAGCTGCAAATCGGATAAAT
1 GATAATTCGAATCGAATATCAGAAAAAAATTCA-AATAATCAAATCAAAAACAAATCAGATAAAT
* * *
11128 TTTAATTTTGAATTATTCTAAAATCTAGA-AAAAATTGACTTTTAGATTTATG
65 TTCAATTTTGAATTATCCTAAAATCCAGAGAAAAATTGACTTTTAGATTTATG
* * * *
11180 GATAATTCGAATTGGATATCAGAAAAAAATTCAGATAATCAGATCAAAAACAAATCAGATAAATT
1 GATAATTCGAATCGAATATCAGAAAAAAATTCAAATAATCAAATCAAAAACAAATCAGATAAATT
11245 TCAATTTTGAATTATCCTAAAATCCAGAGAAAAA
66 TCAATTTTGAATTATCCTAAAATCCAGAGAAAAA
11279 AAATCATAAA
Statistics
Matches: 80, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
116 66 0.82
117 14 0.17
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (117 bp):
GATAATTCGAATCGAATATCAGAAAAAAATTCAAATAATCAAATCAAAAACAAATCAGATAAATT
TCAATTTTGAATTATCCTAAAATCCAGAGAAAAATTGACTTTTAGATTTATG
Found at i:11800 original size:7 final size:7
Alignment explanation
Indices: 11788--11933 Score: 202
Period size: 7 Copynumber: 20.9 Consensus size: 7
11778 TGTCTCCTCT
11788 TATCGCC
1 TATCGCC
11795 TATCGCC
1 TATCGCC
11802 TATCGCC
1 TATCGCC
11809 TATCGCC
1 TATCGCC
11816 TATCGCC
1 TATCGCC
*
11823 AATCGCC
1 TATCGCC
11830 TATCGCC
1 TATCGCC
11837 TATCGCC
1 TATCGCC
11844 TATCGCC
1 TATCGCC
11851 TATCGCC
1 TATCGCC
11858 TATCGCC
1 TATCGCC
11865 TATCGCC
1 TATCGCC
*
11872 TCTCGCC
1 TATCGCC
*
11879 TCTCGCC
1 TATCGCC
*
11886 TCTCGCC
1 TATCGCC
*
11893 TCTCGCC
1 TATCGCC
*
11900 TCTCGCC
1 TATCGCC
*
11907 TCTCGCC
1 TATCGCC
*
11914 TCTCGCC
1 TATCGCC
*
11921 TCTCGCC
1 TATCGCC
*
11928 TCTCGC
1 TATCGC
11934 TATGTATCTT
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 136 1.00
ACGTcount: A:0.09, C:0.49, G:0.14, T:0.28
Consensus pattern (7 bp):
TATCGCC
Found at i:12187 original size:12 final size:12
Alignment explanation
Indices: 12172--12196 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12162 GGTTTTCTTT
12172 TTGGTTCTTTCA
1 TTGGTTCTTTCA
12184 TTGGTTCTTTCA
1 TTGGTTCTTTCA
12196 T
1 T
12197 ACCTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (12 bp):
TTGGTTCTTTCA
Found at i:13591 original size:3 final size:3
Alignment explanation
Indices: 13583--13640 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
13573 TTTTATTTAT
* * *
13583 TTA TTA TTA TTA TTA TTA -TA ATA ATA TTA TTA TAA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
13628 TATA TTA TTA TTA
1 T-TA TTA TTA TTA
13641 AAAAAATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.82
4 7 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:13598 original size:20 final size:20
Alignment explanation
Indices: 13575--13640 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 20
13565 TTTACCCATT
*
13575 TTATTTATTTATTATTATTA
1 TTATTTATATATTATTATTA
*
13595 TTATTATAATAATATTATTATAA
1 TTATT-T-AT-ATATTATTATTA
13618 TTA-TTATATATATATTATTA
1 TTATTTATATAT-TATTATTA
13638 TTA
1 TTA
13641 AAAAAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.10
20 17 0.44
21 2 0.05
22 3 0.08
23 13 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTATTTATATATTATTATTA
Found at i:13610 original size:23 final size:23
Alignment explanation
Indices: 13575--13640 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
13565 TTTACCCATT
* *
13575 TTATTTATTTATTATTATTATTA
1 TTATATATATATTATTATTATTA
*
13598 TTATA-ATAATATTATTATAATTA
1 TTATATAT-ATATTATTATTATTA
13621 TTATATATATATTATTATTA
1 TTATATATATATTATTATTA
13641 AAAAAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.05
23 33 0.89
24 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATATATATATTATTATTATTA
Found at i:14830 original size:3 final size:3
Alignment explanation
Indices: 14822--14916 Score: 74
Period size: 3 Copynumber: 32.0 Consensus size: 3
14812 TTTATTTTTG
* *
14822 ATT ATT ATT ATT ATT -TAT ATT -TT AAT ATT A-T ATT TTT AATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT -ATT ATT
* * *
14866 ATT -TGC AAT ATT ATT -TT ATT ATT ATT ATT AATT TTT ATT ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
14911 ATT ATT
1 ATT ATT
14917 TATATAAATA
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
2 8 0.11
3 59 0.81
4 6 0.08
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14919 original size:13 final size:13
Alignment explanation
Indices: 14823--14916 Score: 64
Period size: 11 Copynumber: 7.8 Consensus size: 13
14813 TTATTTTTGA
14823 TTATTATTATTAT
1 TTATTATTATTAT
14836 TTA-TATT-TTA-
1 TTATTATTATTAT
*
14846 ATATTA-TATT-T
1 TTATTATTATTAT
14857 TTA--ATTATTAT
1 TTATTATTATTAT
*
14868 TTGCAATATTA-T-T
1 TT--ATTATTATTAT
14881 TTATTATTATTAT
1 TTATTATTATTAT
* *
14894 TAATTTTTATTA-
1 TTATTATTATTAT
14906 TTATTATTATT
1 TTATTATTATT
14917 TATATAAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 23
0.68 0.08 0.25
Matches are distributed among these distances:
9 1 0.02
10 7 0.11
11 18 0.29
12 14 0.22
13 18 0.29
14 1 0.02
15 4 0.06
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:14940 original size:18 final size:16
Alignment explanation
Indices: 14917--14949 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14907 TATTATTATT
14917 TATATA-AATAAATATA
1 TATATATAATAAA-ATA
14933 TATATATAATAAAATA
1 TATATATAATAAAATA
14949 T
1 T
14950 TTGTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TATATATAATAAAATA
Found at i:15146 original size:119 final size:120
Alignment explanation
Indices: 15013--15242 Score: 286
Period size: 120 Copynumber: 1.9 Consensus size: 120
15003 TTTTAATATA
* * * ** *
15013 TATTTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAAAATAACTGGATGTCCATTTTCTG
1 TATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAAAAGTCC-TTTTCTG
* *
15076 ATATTTTTAAATAAATAAATATCTTATTTTATAAAT-TATATATTAATTGCTTTAAT
65 ATATTTCTAAATAAATAAATATCTTA-TTTATAAATATATAAATTAATTGCTTTAAT
* * ** * *
15132 TATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAAAAGTCCTTTTCTTA
1 TATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAAAAGTCCTTTTCTGA
*
15197 TATTTCTAAATAAATAAATATTTTATTTATAAATATATAAATTAAT
66 TATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAAT
15243 ATATATTTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
119 29 0.31
120 43 0.46
121 21 0.23
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (120 bp):
TATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAAAAGTCCTTTTCTGA
TATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAATTGCTTTAAT
Found at i:17376 original size:14 final size:14
Alignment explanation
Indices: 17338--17391 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
17328 ATTTTAAATA
*
17338 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
17352 TTTTACATTTGCAT
1 ATTTACATTTGCAT
17366 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
17381 CTTTGCATTTG
1 ATTTACATTTG
17392 TATTTTTATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:20913 original size:4 final size:4
Alignment explanation
Indices: 20904--20978 Score: 64
Period size: 4 Copynumber: 18.2 Consensus size: 4
20894 ATACTCATCC
*
20904 AGAA AGAA AGAA A-AA AGAA A-AA TCCAGCAA AGAA AGAA AAAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA ---AG-AA AGAA AGAA AGAA AGAA
* * *
20950 AGAA AAAA AGAA AGAA AAAA AGAA GGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
20979 AAGAAAAAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
3 5 0.09
4 47 0.82
5 2 0.04
6 1 0.02
8 2 0.04
ACGTcount: A:0.76, C:0.04, G:0.19, T:0.01
Consensus pattern (4 bp):
AGAA
Found at i:20937 original size:26 final size:26
Alignment explanation
Indices: 20900--20973 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 26
20890 TCATATACTC
20900 ATCCAGAAAGAAAG-AAAAAAGAAAA
1 ATCCAGAAAGAAAGAAAAAAAGAAAA
20925 ATCCAGCAAAGAAAGAAAAAAAGAAAGA
1 ATCCAG-AAAGAAAGAAAAAAAGAAA-A
*
20953 A---AAAAAGAAAGAAAAAAAGAA
1 ATCCAGAAAGAAAGAAAAAAAGAA
20974 GGAAAAAGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
24 18 0.40
25 7 0.16
26 8 0.18
27 10 0.22
28 2 0.04
ACGTcount: A:0.74, C:0.07, G:0.16, T:0.03
Consensus pattern (26 bp):
ATCCAGAAAGAAAGAAAAAAAGAAAA
Found at i:20949 original size:12 final size:12
Alignment explanation
Indices: 20932--20980 Score: 89
Period size: 12 Copynumber: 4.1 Consensus size: 12
20922 AAAATCCAGC
20932 AAAGAAAGAAAA
1 AAAGAAAGAAAA
20944 AAAGAAAGAAAA
1 AAAGAAAGAAAA
20956 AAAGAAAGAAAA
1 AAAGAAAGAAAA
*
20968 AAAGAAGGAAAA
1 AAAGAAAGAAAA
20980 A
1 A
20981 GAAAAAGGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:24455 original size:34 final size:34
Alignment explanation
Indices: 24417--24531 Score: 79
Period size: 34 Copynumber: 3.1 Consensus size: 34
24407 TTAAAGTATT
24417 CTGAATATTTATATCAGTAAAATGTTAGGGCATG
1 CTGAATATTTATATCAGTAAAATGTTAGGGCATG
* * ** * *
24451 CTGAAAACCCCTTTCA-ATCAGAATCAAGAATATTAAAGTATT
1 CTGAATA----TTT-ATATCAG--T-AA-AATGTTAGGGCATG
*
24493 CTGAATATTTATATCAGCAAAATGTTAGGGCATG
1 CTGAATATTTATATCAGTAAAATGTTAGGGCATG
24527 CTGAA
1 CTGAA
24532 AGCCCCTTTC
Statistics
Matches: 58, Mismatches: 13, Indels: 20
0.64 0.14 0.22
Matches are distributed among these distances:
34 20 0.34
35 2 0.03
37 1 0.02
38 16 0.28
39 1 0.02
40 1 0.02
41 2 0.03
42 15 0.26
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (34 bp):
CTGAATATTTATATCAGTAAAATGTTAGGGCATG
Found at i:24471 original size:38 final size:38
Alignment explanation
Indices: 24429--24547 Score: 86
Period size: 38 Copynumber: 3.1 Consensus size: 38
24419 GAATATTTAT
24429 ATCAGTAAAATGTTAGGGCATGCTGAAAACCCCTTTCA
1 ATCAGTAAAATGTTAGGGCATGCTGAAAACCCCTTTCA
* ** * * *
24467 ATCAGAATCAAGAATATTAAAGTATTCTGAATA----TTT-A
1 ATCAG--T-AA-AATGTTAGGGCATGCTGAAAACCCCTTTCA
* *
24504 TATCAGCAAAATGTTAGGGCATGCTGAAAGCCCCTTTCA
1 -ATCAGTAAAATGTTAGGGCATGCTGAAAACCCCTTTCA
24543 ATCAG
1 ATCAG
24548 AATCAGGACT
Statistics
Matches: 57, Mismatches: 14, Indels: 20
0.63 0.15 0.22
Matches are distributed among these distances:
34 14 0.25
35 2 0.04
37 1 0.02
38 21 0.37
39 1 0.02
40 1 0.02
41 2 0.04
42 15 0.26
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (38 bp):
ATCAGTAAAATGTTAGGGCATGCTGAAAACCCCTTTCA
Found at i:24487 original size:76 final size:76
Alignment explanation
Indices: 24361--24552 Score: 323
Period size: 76 Copynumber: 2.5 Consensus size: 76
24351 ACAATAAGCG
* * *
24361 AATGTT-GTGGCATGTTGAAAACCCTTTTCAATCAGAATCAGGAATATTAAAGTATTCTGAATAT
1 AATGTTAG-GGCATGCTGAAAACCCCTTTCAATCAGAATCAAGAATATTAAAGTATTCTGAATAT
*
24425 TTATATCAGTAA
65 TTATATCAGCAA
24437 AATGTTAGGGCATGCTGAAAACCCCTTTCAATCAGAATCAAGAATATTAAAGTATTCTGAATATT
1 AATGTTAGGGCATGCTGAAAACCCCTTTCAATCAGAATCAAGAATATTAAAGTATTCTGAATATT
24502 TATATCAGCAA
66 TATATCAGCAA
*
24513 AATGTTAGGGCATGCTGAAAGCCCCTTTCAATCAGAATCA
1 AATGTTAGGGCATGCTGAAAACCCCTTTCAATCAGAATCA
24553 GGACTGTTGA
Statistics
Matches: 110, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 109 0.99
77 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (76 bp):
AATGTTAGGGCATGCTGAAAACCCCTTTCAATCAGAATCAAGAATATTAAAGTATTCTGAATATT
TATATCAGCAA
Found at i:25977 original size:22 final size:22
Alignment explanation
Indices: 25946--26000 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
25936 ATCTACACTC
*
25946 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
25968 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
25990 TTCAAAGATGA
1 TTCAAAGATGA
26001 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:26600 original size:113 final size:113
Alignment explanation
Indices: 26402--26609 Score: 346
Period size: 113 Copynumber: 1.8 Consensus size: 113
26392 AGCAAAGATT
* *
26402 CAAATCCATCACTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAATAACTCATCTGAA
1 CAAATCCATCACTTGATGAATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
26467 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGA
66 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGA
** *
26515 CAAATCCATCACTTGATGAATCGGCTTTTCCA-AAGAAAGTTCATAATGAGAAGAACTTATCTGA
1 CAAATCCATCACTTGATGAATCAACTTTTCCAGAA-AAAGTTCATAATGAGAAGAACTCATCTGA
*
26579 AGAAGGAAGAAGAAGTTCATAATGAGAAGAA
65 AGAAGGAAGAAGAAATTCATAATGAGAAGAA
26610 GTTCATAATG
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
112 2 0.02
113 86 0.98
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25
Consensus pattern (113 bp):
CAAATCCATCACTTGATGAATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGA
Found at i:26634 original size:20 final size:17
Alignment explanation
Indices: 26586--26626 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
26576 TGAAGAAGGA
26586 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
26603 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
26620 AGAAGAA
1 AGAAGAA
26627 TTTGTTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.51, C:0.05, G:0.24, T:0.20
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:26707 original size:130 final size:130
Alignment explanation
Indices: 26473--26739 Score: 367
Period size: 130 Copynumber: 2.1 Consensus size: 130
26463 TGAAGAAGGA
*
26473 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGACAAATCCATCACTTGATGAATCG
1 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGACAAATCCATCACTTGATGAATCA
* * * * * *
26538 GCTTTTCCAAAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 ACATTGCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
* * * * * *
26603 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GTCTGAATTCATCATTTGATGGATC
1 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGAC-AAATCCATCACTTGATGAATC
* *
26667 AACATTGCC-AGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAA
65 AACATTGCCAAAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAA
26731 TG
129 TG
26733 AGAAGAA
1 AGAAGAA
26740 CTTATCTGAA
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
129 4 0.03
130 116 0.97
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (130 bp):
AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGGACAAATCCATCACTTGATGAATCA
ACATTGCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
Found at i:26737 original size:40 final size:42
Alignment explanation
Indices: 26682--26780 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
26672 TGCCAGGTAG
*
26682 AGTTCATAATGAGAAGAACTCATCTG-AAGA-AAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
* *
26722 AGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
26764 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
26781 GCTTGTTCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 24 0.45
41 3 0.06
42 26 0.49
ACGTcount: A:0.51, C:0.09, G:0.22, T:0.18
Consensus pattern (42 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
Found at i:26776 original size:155 final size:155
Alignment explanation
Indices: 26603--26894 Score: 503
Period size: 155 Copynumber: 1.9 Consensus size: 155
26593 GTTCATAATG
*
26603 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
* * *
26668 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAACAAAGAAGAAGAAATTCACAATA
26733 AGAAGAACTTATCTGAAAAAGAAGA
131 AGAAGAACTTATCTGAAAAAGAAGA
* *
26758 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
* * *
26823 GCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAACAAGGAAGAAGAAATTCATAATA
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAACAAAGAAGAAGAAATTCACAATA
26888 AGAAGAA
131 AGAAGAA
26895 TTTGTTCAAC
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
155 128 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.26
Consensus pattern (155 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAACAAAGAAGAAGAAATTCACAATA
AGAAGAACTTATCTGAAAAAGAAGA
Found at i:26923 original size:113 final size:112
Alignment explanation
Indices: 26722--27120 Score: 557
Period size: 113 Copynumber: 3.5 Consensus size: 112
26712 AAGAAGAAGA
* * * **
26722 AGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAG--GAAGAAGAAGTTCACAATGAGAAGAATTTGT
*
26787 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
64 TCAACCTTTTG-TCGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
* * * *
26837 AGTTCATAATGAGAAGAACTCATCTGAACAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCACAATGAGAAGAATTTGTTC
* * * * * * *
26902 AACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTTCCAGAG-AA
66 AACCTTTTG-TCGAATTCATCATTTGATGGATCAGCATTGCCAG-GTAG
* *
26950 AGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCACAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCACAATGAGAAGAATTTGTTC
27015 AACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
66 AACCTTTTGTC-GAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
*
27063 AGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAGAAGAAGTTCACAATGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCACAATGAGAAGAA
27121 CTTATCTGAA
Statistics
Matches: 250, Mismatches: 31, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
112 3 0.01
113 217 0.87
114 1 0.00
115 29 0.12
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCACAATGAGAAGAATTTGTTC
AACCTTTTGTCGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
Found at i:27118 original size:40 final size:42
Alignment explanation
Indices: 27063--27161 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
27053 TGCCAGGTAG
27063 AGTTCATAATGAGAAGAACTCATCTG-AAAA-AAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
* * *
27103 AGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAATA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
27145 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
27162 GCTTGTTCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 24 0.45
41 4 0.08
42 25 0.47
ACGTcount: A:0.52, C:0.09, G:0.20, T:0.19
Consensus pattern (42 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
Found at i:27153 original size:268 final size:266
Alignment explanation
Indices: 26837--27388 Score: 743
Period size: 268 Copynumber: 2.1 Consensus size: 266
26827 TGCCAGGTAG
* *
26837 AGTTCATAATGAGAAGAACTCATCTGAACAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAACAAAGAAGAAGAAATTCATAATAAGAAGAACTTGTTC
* * *
26902 AACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAG
66 AACCTTTTGCTCAAATCCATCACTTGATGAATCAGCATTGCCAG-GTAAAGTTCATAACGAGAAG
* * * * *
26966 AACTTATCTGAAGAAGGAAGAAGAAGTTCACAATGAGAAGAATTTGTTCAACCTTTT-GTCTGAA
130 AACTCATCTGAAGAAGGAAGAAGAAATTCACAATAAGAAGAATTTGTTCAACCTTTTACTC-AAA
* * * *
27030 TTCATCATTTGATGGATCAGCATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAAAA
194 TCCATCACTTGATGAATCAGCATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAAAA
27094 AGAAGAAGA
258 AGAAGAAGA
* * * *
27103 AGTTCACAATGAGAAGAACTTATCTGAA-AAAGAAGAAGAATAAGTTCATAATGAGAAGAGCTTG
1 AGTTCATAATGAGAAGAACTCATCTGAACAAAGAAGAAG-A-AA-TTCATAATAAGAAGAACTTG
* ** * * * *
27167 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAACGAGA
63 TTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAGCATTGCCAGGTAAAGTTCATAACGAGA
*
27232 AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTACTCAA
128 AGAACTCATCTGAAGAAGGAAGAAGAAATTCACAATAAGAAGAATTTGTTCAACCTTTTACTCAA
* * * *
27297 ATCCATCACTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAA
193 ATCCATCACTTGATGAATCAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAA
*
27362 GGAAGAAGA
258 AGAAGAAGA
27371 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
27389 TTTGTTCAAC
Statistics
Matches: 248, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
265 9 0.04
266 27 0.11
267 3 0.01
268 206 0.83
269 3 0.01
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (266 bp):
AGTTCATAATGAGAAGAACTCATCTGAACAAAGAAGAAGAAATTCATAATAAGAAGAACTTGTTC
AACCTTTTGCTCAAATCCATCACTTGATGAATCAGCATTGCCAGGTAAAGTTCATAACGAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAATTCACAATAAGAAGAATTTGTTCAACCTTTTACTCAAATC
CATCACTTGATGAATCAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAAGA
AGAAGA
Found at i:27193 original size:381 final size:381
Alignment explanation
Indices: 26603--28034 Score: 2546
Period size: 381 Copynumber: 3.8 Consensus size: 381
26593 GTTCATAATG
26603 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
*
26668 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATG
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAGAAGAAGTTCACAATG
26733 AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
131 AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
26798 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
196 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
*
26863 AACAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTG
261 AAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTG
26928 ATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
326 ATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
*
26984 AGAAGAAGTTCACAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
*
27049 GCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAGAAGAAGTTCACAATG
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAGAAGAAGTTCACAATG
*
27114 AGAAGAACTTATCTGAAAAAGAAGAAGAATAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
131 AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
*
27179 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAACGAGAAGAACTCATCTG
196 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
*
27244 AAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTACTCAAATCCATCACTTG
261 AAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTG
27309 ATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
326 ATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
* *
27365 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
** *
27430 GTATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG-AAGAAGAAGAAGAAGTTCACAATG
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAGAAGAAGTTCACAATG
27494 AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
131 AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
* * *
27559 CTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTG
196 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
*
27624 AAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTG
261 AAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTG
* * * *
27689 ATTAATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
326 ATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
* *
27745 AGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
* *
27810 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCACAATG
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAGAAGAAGTTCACAATG
* * **
27875 AGAAGAACTTATCTGAAGAAG--GAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTG
131 AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
*
27938 TCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
196 TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
* * * *
28003 AAGAAAGAAGAAGAAGTTCACAATGAGAAGAA
261 AAGAAGGAAGAAGAAATTCATAATAAGAAGAA
28035 CTTATCTGAA
Statistics
Matches: 1008, Mismatches: 42, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
379 128 0.13
380 364 0.36
381 516 0.51
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (381 bp):
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCA
ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAGAAGAAGTTCACAATG
AGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
TTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTG
ATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
Found at i:27232 original size:155 final size:153
Alignment explanation
Indices: 26949--27275 Score: 528
Period size: 155 Copynumber: 2.1 Consensus size: 153
26939 TTTCCAGAGA
* *
26949 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCACAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTTATCTGAAAAAGGAAGAAGAAGTTCACAATGAGAAGAACTTGTT
*
27014 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAACGAGAAG
27079 AACTCATCTGAAAAAAGAAGAAG
131 AACTCATCTGAAAAAAGAAGAAG
* * * *
27102 AAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAATAAGTTCATAATGAGAAGAGCTTG
1 AAGTTCATAATGAGAAGAACTTATCTGAAAAAG--GAAGAAGAAGTTCACAATGAGAAGAACTTG
*
27167 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAACGAGA
64 TTCAACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAACGAGA
* *
27232 AGAACTCATCTGAAGAAGGAAGAAG
129 AGAACTCATCTGAAAAAAGAAGAAG
* *
27257 AAATTCATAATAAGAAGAA
1 AAGTTCATAATGAGAAGAA
27276 TTTGTTCAAC
Statistics
Matches: 159, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
153 31 0.19
155 128 0.81
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (153 bp):
AAGTTCATAATGAGAAGAACTTATCTGAAAAAGGAAGAAGAAGTTCACAATGAGAAGAACTTGTT
CAACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAACGAGAAG
AACTCATCTGAAAAAAGAAGAAG
Found at i:27304 original size:113 final size:113
Alignment explanation
Indices: 27103--27500 Score: 532
Period size: 113 Copynumber: 3.5 Consensus size: 113
27093 AAGAAGAAGA
* * * **
27103 AGTTCACAATGAGAAGAACTTATCTGAA-AAAGAAGAAGAATAAGTTCATAATGAGAAGAGCTTG
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-A-AA-TTCATAATGAGAAGAATTTG
27167 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
63 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
* *
27218 AGTTCATAACGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
** ** * * * * * *
27283 AACCTTTTACTCAAATCCATCACTTGATGAATCAGCTTTTCCAGAG-AA
66 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAG-GTAG
* *
27331 AGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* *
27396 AACTTTTTGTTTGAATTCATCATTTGATGGATCAGTATTGCCAGGTAG
66 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
* *
27444 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCACAATGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
27501 CTTATCTGAA
Statistics
Matches: 245, Mismatches: 35, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
112 26 0.11
113 181 0.74
114 3 0.01
115 26 0.11
116 9 0.04
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
Found at i:27498 original size:39 final size:40
Alignment explanation
Indices: 27444--27541 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 40
27434 TGCCAGGTAG
27444 AGTTCATAATGAGAAGAACTCATCTG-AAGAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAGAAGA
* *
27483 AGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTG--AAAGAAGAAGAAGA
27525 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
27542 GCTTGTTCAA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 24 0.45
42 29 0.55
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.18
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAGAAGA
Found at i:27548 original size:154 final size:153
Alignment explanation
Indices: 27330--27655 Score: 528
Period size: 154 Copynumber: 2.1 Consensus size: 153
27320 TTTCCAGAGA
* *
27330 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTTATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * ** *
27395 CAACTTTTTGTTTGAATTCATCATTTGATGGATCAGTATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAG
27460 AACTCATCTGAAGAA-GAAGAAG
131 AACTCATCTGAAGAAGGAAGAAG
* *
27482 AAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AAGTTCATAATGAGAAGAACTTATCTGAAAAAG--GAAGAAGAAGTTCATAATGAGAAGAACTTG
27547 TTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGA
64 TTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGA
27612 AGAACTCATCTGAAGAAGGAAGAAG
129 AGAACTCATCTGAAGAAGGAAGAAG
* *
27637 AAATTCATAATAAGAAGAA
1 AAGTTCATAATGAGAAGAA
27656 TTTGTTCAAC
Statistics
Matches: 159, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
152 31 0.19
154 105 0.66
155 23 0.14
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (153 bp):
AAGTTCATAATGAGAAGAACTTATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAG
AACTCATCTGAAGAAGGAAGAAG
Found at i:27661 original size:113 final size:113
Alignment explanation
Indices: 27482--27881 Score: 568
Period size: 113 Copynumber: 3.5 Consensus size: 113
27472 GAAGAAGAAG
* * * **
27482 AAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAG--GAAGAAGAAGTTCATAATGAGAAGAATTTG
27547 TTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
64 TTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
* *
27597 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* ** * * ** * * *
27662 CAACTTTTTGCTCAAATCCATCACTTGATTAATCAACTTTTCCAAAG-A
66 CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCC-AGGTA
*
27710 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
*
27775 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
66 CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
* * *
27823 GAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCACAATGAGAAGAA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
27882 CTTATCTGAA
Statistics
Matches: 248, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
112 2 0.01
113 214 0.86
114 2 0.01
115 30 0.12
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
Found at i:27879 original size:40 final size:40
Alignment explanation
Indices: 27824--27918 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
27814 TGCCAGGTAG
*
27824 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
27864 AGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
27904 AGTTCATAATGAGAA
1 AGTTCATAATGAGAA
27919 TAATTTGTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.20
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
Found at i:27892 original size:153 final size:153
Alignment explanation
Indices: 27710--28189 Score: 800
Period size: 153 Copynumber: 3.1 Consensus size: 153
27700 TTTCCAAAGA
* *
27710 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
*
27775 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAG
*
27840 AACTCATCTGAAGAATGAAGAAG
131 AACTCATCTGAAGAAAGAAGAAG
27863 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
*
27928 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAG
27993 AACTCATCTGAAGAAAGAAGAAG
131 AACTCATCTGAAGAAAGAAGAAG
* **
28016 AAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAG-ATGAGCTT
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAG--GAAGAAGAAGTTCATAATGAGAAT-AATTT
* *
28080 GTTCAACCTTTTATTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATTATGAG
63 GTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAG
*
28145 AAGAACTCATCTGAAGAAGGAAGAAG
128 AAGAACTCATCTGAAGAAAGAAGAAG
* * *
28171 AAATTCATAATAAGAAGAA
1 AAGTTCACAATGAGAAGAA
28190 TTTGTTCAAC
Statistics
Matches: 309, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
153 180 0.58
154 2 0.01
155 127 0.41
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (153 bp):
AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
CAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAG
AACTCATCTGAAGAAAGAAGAAG
Found at i:28032 original size:40 final size:42
Alignment explanation
Indices: 27977--28072 Score: 151
Period size: 40 Copynumber: 2.3 Consensus size: 42
27967 TGCCAGGTAG
*
27977 AGTTCATAATGAGAAGAACTCATCTG-AAGA-AAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
* *
28017 AGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
28059 AGTTCATAATGAGA
1 AGTTCATAATGAGA
28073 TGAGCTTGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 24 0.48
41 3 0.06
42 23 0.46
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (42 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGA
Found at i:28218 original size:113 final size:113
Alignment explanation
Indices: 28017--28414 Score: 485
Period size: 113 Copynumber: 3.5 Consensus size: 113
28007 AAGAAGAAGA
* * * **
28017 AGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGATGAGCTTGT
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAG--GAAGAAGAAGTTCATAATGAGAAGAATTTGT
*
28082 TCAACCTTTTATTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
64 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
* * * *
28132 AGTTCATTATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* ** * * * * * * *
28197 AACCTTTTGCTCAAATCCATCACTTGATGAATCGGCTTTTCCAGAG-AA
66 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAG-GTAG
* * *
28245 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
*
28310 AACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAG
66 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
* * * * **
28358 AGTTCATAATGAGAAGAA-TTATCTAAAAAAAGAAGAAGAATTTCACGATGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAA
28415 CTTATCTGAA
Statistics
Matches: 236, Mismatches: 45, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
112 32 0.14
113 175 0.74
114 1 0.00
115 28 0.12
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAG
Found at i:28238 original size:534 final size:532
Alignment explanation
Indices: 27330--28619 Score: 2243
Period size: 534 Copynumber: 2.4 Consensus size: 532
27320 TTTCCAGAGA
*
27330 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* *
27395 CAACTTTTTGTTTGAATTCATCATTTGATGGATCAGTATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTG-TTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAG
27460 AACTCATCTGAAG-AAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
130 AACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
*
27524 AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATT
195 AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTACTTGAATTCATCATTTGATGGATCAACATT
27589 GCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAG
260 GCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAG
* *
27654 AATTTGTTCAACTTTTTGCTCAAATCCATCACTTGATTAATCAACTTTTCCAAAGAAAGTTCATA
325 AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAACTTTTCCAAAGAAAGTTCATA
*
27719 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTT
390 ATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTT
27784 GTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCT
455 GTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAA-TCATCT
* * *
27849 GAAGAATGAAGAAG
519 AAAAAAAGAAGAAG
*
27863 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
27928 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGT-TGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAG
27993 AACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
130 AACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
* * *
28058 AAGTTCATAATGAGATGAGCTTGTTCAACCTTTTATTTGAATTCATCATTTGATGGATCAGCATT
195 AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTACTTGAATTCATCATTTGATGGATCAACATT
* *
28123 GCCAGGTAGAGTTCATTATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAG
260 GCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAG
** *
28188 AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCGGCTTTTCCAGAGAAAGTTCATA
325 AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAACTTTTCCAAAGAAAGTTCATA
28253 ATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTT
390 ATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTT
*
28318 GTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAATTATCTA
455 GTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAATCATCTA
28383 AAAAAAGAAGAAG
520 AAAAAAGAAGAAG
* * * **
28396 AATTTCACGATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAG--GAAGAAGAAGTTCATAATGAGAAGAATTTG
28461 TTCAACCTTTTGTTAGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGA
64 TTCAACCTTTTGTT-GAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGA
28526 AGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCT------GAAGAAGA
128 AGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGA
*
28585 AGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTT
193 AGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
28620 GCTAGATTAC
Statistics
Matches: 724, Mismatches: 28, Indels: 14
0.95 0.04 0.02
Matches are distributed among these distances:
529 41 0.06
532 1 0.00
533 183 0.25
534 358 0.49
535 141 0.19
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (532 bp):
AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTTTGTTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGA
ACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGA
AGTTCATAATGAGAAGAGCTTGTTCAACCTTTTACTTGAATTCATCATTTGATGGATCAACATTG
CCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGA
ATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCAACTTTTCCAAAGAAAGTTCATAA
TAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTG
TTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAATCATCTAA
AAAAAGAAGAAG
Found at i:28447 original size:154 final size:155
Alignment explanation
Indices: 28244--28619 Score: 545
Period size: 154 Copynumber: 2.5 Consensus size: 155
28234 TTTCCAGAGA
* * * * *
28244 AAGTTCATAATAAGAAGAACTCATCTGAAGAAG--GAAGAAGAAGTTCATAATGAGAATAATTTG
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
*
28307 TTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
66 TTCAACCTTTTGTTAGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
*
28372 AGAA-TTATCTAAAAAAAGAAGAAG
131 AGAACTCATCTAAAAAAAGAAGAAG
* * * *
28396 AATTTCACGATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
*
28461 TTCAACCTTTTGTTAGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGA
66 TTCAACCTTTTGTTAGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
* *
28526 AGAACTCATCTGAAGAAAGAAGAAG
131 AGAACTCATCTAAAAAAAGAAGAAG
* *
28551 AAGTTCACAATGAGAAGAACTTATCT------GAAGAAGAAGAAGTTCACAATGAGAAGAGCTTG
1 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
28610 TTCAACCTTT
66 TTCAACCTTT
28620 GCTAGATTAC
Statistics
Matches: 204, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
149 42 0.21
152 27 0.13
154 94 0.46
155 41 0.20
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (155 bp):
AAGTTCACAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAACCTTTTGTTAGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGA
AGAACTCATCTAAAAAAAGAAGAAG
Found at i:28451 original size:42 final size:39
Alignment explanation
Indices: 28358--28455 Score: 142
Period size: 42 Copynumber: 2.4 Consensus size: 39
28348 TGCCAGGTAG
28358 AGTTCATAATGAGAAGAATTATCTAAAAAAAGAAGAAGA
1 AGTTCATAATGAGAAGAATTATCTAAAAAAAGAAGAAGA
* **
28397 ATTTCACGATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGA
1 AGTTCATAATGAGAAGAA-TTATCT-AAAAA-AAGAAGAAGA
28439 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
28456 GCTTGTTCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
39 15 0.30
40 6 0.12
41 5 0.10
42 24 0.48
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.20
Consensus pattern (39 bp):
AGTTCATAATGAGAAGAATTATCTAAAAAAAGAAGAAGA
Found at i:28568 original size:17 final size:17
Alignment explanation
Indices: 28546--28604 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
28536 TGAAGAAAGA
28546 AGAAGAAGTTCACAATG
1 AGAAGAAGTTCACAATG
*
28563 AGAAGAACTT-ATCTGAA-G
1 AGAAGAAGTTCA-C--AATG
28581 AAGAAGAAGTTCACAATG
1 -AGAAGAAGTTCACAATG
28599 AGAAGA
1 AGAAGA
28605 GCTTGTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 1 0.03
17 18 0.53
18 2 0.06
19 12 0.35
20 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.24, T:0.17
Consensus pattern (17 bp):
AGAAGAAGTTCACAATG
Found at i:28569 original size:380 final size:381
Alignment explanation
Indices: 27863--28569 Score: 1245
Period size: 380 Copynumber: 1.9 Consensus size: 381
27853 AATGAAGAAG
* *
27863 AAGTTCACAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
1 AAGTTCACAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
*
27928 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
* *
27993 AACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
131 AACTCATCTAAAAAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
* *
28058 AAGTTCATAATGAGATGAGCTTGTTCAACCTTTTATTTGAATTCATCATTTGATGGATCAGCATT
196 AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTATTAGAATTCATCATTTGATGGATCAGCATT
* * *
28123 GCCAGGTAGAGTTCATTATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAG
261 GCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCACAATAAGAAG
28188 AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCGGCTTTTCCAGAGA
326 AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCGGCTTTTCCAGAGA
*
28244 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
1 AAGTTCACAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
*
28309 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
* * *
28374 AA-TTATCTAAAAAAAGAAGAAGAATTTCACGATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
131 AACTCATCTAAAAAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
*
28438 AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTAGAATTCATCATTTGATGGATCAGCATT
196 AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTATTAGAATTCATCATTTGATGGATCAGCATT
* *
28503 GCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCACAATGAGAAG
261 GCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCACAATAAGAAG
28568 AA
326 AA
28570 CTTATCTGAA
Statistics
Matches: 308, Mismatches: 18, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
380 181 0.59
381 127 0.41
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (381 bp):
AAGTTCACAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
CAACCTTTTGTCTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAG
AACTCATCTAAAAAAAGAAGAAGAAGTTCACAATGAGAAGAACTTATCTGAAAAAGAAGAAGAAG
AAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTATTAGAATTCATCATTTGATGGATCAGCATT
GCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCACAATAAGAAG
AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGAATCGGCTTTTCCAGAGA
Found at i:28589 original size:36 final size:38
Alignment explanation
Indices: 28512--28604 Score: 136
Period size: 36 Copynumber: 2.4 Consensus size: 38
28502 TGCCAGGTAG
*
28512 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
1 AGTTCACAATGAGAAGAACTCATCT--AGAAAGAAGAAGA
*
28552 AGTTCACAATGAGAAGAACTTATCT-G-AAGAAGAAGA
1 AGTTCACAATGAGAAGAACTCATCTAGAAAGAAGAAGA
28588 AGTTCACAATGAGAAGA
1 AGTTCACAATGAGAAGA
28605 GCTTGTTCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 27 0.53
37 1 0.02
40 23 0.45
ACGTcount: A:0.48, C:0.11, G:0.23, T:0.18
Consensus pattern (38 bp):
AGTTCACAATGAGAAGAACTCATCTAGAAAGAAGAAGA
Found at i:28671 original size:155 final size:150
Alignment explanation
Indices: 28244--28686 Score: 394
Period size: 154 Copynumber: 2.9 Consensus size: 150
28234 TTTCCAGAGA
* * * * * **
28244 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTT
1 AAGTTCACAATGAGAAGAACTTATCT--AGAA-GAAGAAGAAGTTCACAATGAGAAGAGCTTGTT
* * ** * ** * *
28309 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAA-CATTGCCAGGTAGAGTTCATAATGAGAA
63 CAACCTTTTGCTAGAATTCATCATCAGAGGGAT-AAGCATCCCCAGGAAAAGTTCATAATGAGAA
*
28373 GAA-TTATCTAAAAAAAGAAGAAG
127 GAACTCATCTAAAAAAAGAAGAAG
* * *
28396 AATTTCACGATGAGAAGAACTTATCTGAAAAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AAGTTCACAATGAGAAGAACTTATCT-----AGAAGAAGAAGAAGTTCACAATGAGAAGAGCTTG
* ** * * ** * *
28461 TTCAACCTTTTGTTAGAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGA
61 TTCAACCTTTTGCTAGAATTCATCATCAGAGGGATAAGCATCCCCAGGAAAAGTTCATAATGAGA
* *
28526 AGAACTCATCTGAAGAAAGAAGAAG
126 AGAACTCATCTAAAAAAAGAAGAAG
28551 AAGTTCACAATGAGAAGAACTTATCT-GAAGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAA
1 AAGTTCACAATGAGAAGAACTTATCTAGAAGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAA
28615 CC-TTTGCTAG-ATTACATCA-CAGAAGGAGATAAATTGTCATCCCCAGTGGAAAAGTTCATAAT
66 CCTTTTGCTAGAATT-CATCATCAG-AGG-GAT-AA--G-CATCCCCA--GGAAAAGTTCATAAT
*
28677 TAGAAGAACT
122 GAGAAGAACT
28687 AATCCCAAAG
Statistics
Matches: 250, Mismatches: 27, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
147 4 0.02
148 14 0.06
149 42 0.17
150 1 0.00
152 22 0.09
153 7 0.03
154 92 0.37
155 68 0.27
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (150 bp):
AAGTTCACAATGAGAAGAACTTATCTAGAAGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAA
CCTTTTGCTAGAATTCATCATCAGAGGGATAAGCATCCCCAGGAAAAGTTCATAATGAGAAGAAC
TCATCTAAAAAAAGAAGAAG
Found at i:28855 original size:3 final size:3
Alignment explanation
Indices: 28847--28930 Score: 134
Period size: 3 Copynumber: 28.0 Consensus size: 3
28837 CCCATTTTAT
*
28847 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
28895 TTA TTA TAA TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
28931 AAAAAATAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.03
3 70 0.93
4 3 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:32817 original size:15 final size:15
Alignment explanation
Indices: 32797--32830 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
32787 TCAATCGCAA
32797 CCATTCGATACGAAC
1 CCATTCGATACGAAC
32812 CCATTCGATACGAAC
1 CCATTCGATACGAAC
32827 CCAT
1 CCAT
32831 AGATATATGA
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:0.32, C:0.35, G:0.12, T:0.21
Consensus pattern (15 bp):
CCATTCGATACGAAC
Found at i:34636 original size:60 final size:60
Alignment explanation
Indices: 34543--34656 Score: 201
Period size: 60 Copynumber: 1.9 Consensus size: 60
34533 TAGGGGAATT
*
34543 GGTACCCCAAATACATTTTGGAAAATTTAGCTTAAAATCGTGGTTACTGTTCATGATATC
1 GGTACCCCAAATACATTCTGGAAAATTTAGCTTAAAATCGTGGTTACTGTTCATGATATC
* *
34603 GGTACCCCAAATGCATTCTGGAAAATTTTGCTTAAAATCGTGGTTACTGTTCAT
1 GGTACCCCAAATACATTCTGGAAAATTTAGCTTAAAATCGTGGTTACTGTTCAT
34657 ACTATAGCAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (60 bp):
GGTACCCCAAATACATTCTGGAAAATTTAGCTTAAAATCGTGGTTACTGTTCATGATATC
Found at i:34764 original size:13 final size:13
Alignment explanation
Indices: 34748--34777 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
34738 AAATTTATTC
34748 AACAAATAAATTG
1 AACAAATAAATTG
34761 AACAAATAAATTG
1 AACAAATAAATTG
34774 AACA
1 AACA
34778 TTTTCAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (13 bp):
AACAAATAAATTG
Found at i:35322 original size:59 final size:59
Alignment explanation
Indices: 35230--35358 Score: 159
Period size: 59 Copynumber: 2.2 Consensus size: 59
35220 CGTAATGCAA
* * * **
35230 TCCCGAGTATGACACATAAGGTCATGTCCACCATCTGTACTAAGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAAGTATCCTTAAGTACAG
* * * ** *
35289 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAAGTATCCTTAAGTACAG
35348 TCCCGAATATG
1 TCCCGAATATG
35359 CAGCCTGCTG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAAGTATCCTTAAGTACAG
Found at i:39240 original size:81 final size:81
Alignment explanation
Indices: 39129--39606 Score: 670
Period size: 81 Copynumber: 5.9 Consensus size: 81
39119 TCCTTTAGTA
* * * *
39129 TTTTACTCAATGGTATTTGACCGTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCAC
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* *
39194 AACTAGGTCATTTATC
66 AGCTAGGCCATTTATC
* * *
39210 TTTTATTCAACGATATTTAATCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCAC
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
39275 AGCT-GGTCATTTATC
66 AGCTAGGCCATTTATC
* * * *
39290 TTTTACTCAACGATATTTAACCGTTCATCTAATTGGAATAATTAACACCTTTCTACCAAATGCAC
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
39355 AGCTAGGCCATTTATC
66 AGCTAGGCCATTTATC
* * * *
39371 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTTTTCCAAATGCAT
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
39436 AGCTAGGCCATTTATC
66 AGCTAGGCCATTTATC
* * * **
39452 TTTTACTCACCGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTTTTTCAAATGCAC
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
39517 AACTAGGCCATTTATC
66 AGCTAGGCCATTTATC
* * * * * * *
39533 TTTTTCTTAACGTTATTTAACCATTCATCTAACTGGTAGAATTGACACCTTTCTGCCAAATGCAG
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
39598 AGCTAGGCC
66 AGCTAGGCC
39607 TCAAAGGCAC
Statistics
Matches: 357, Mismatches: 39, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
80 73 0.20
81 284 0.80
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (81 bp):
TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
AGCTAGGCCATTTATC
Found at i:40101 original size:55 final size:55
Alignment explanation
Indices: 40019--40254 Score: 323
Period size: 55 Copynumber: 4.3 Consensus size: 55
40009 TATCAAGATA
* * *
40019 CACACGTAGAGCCTATACGG-TAGTTCATCAACTCATGATGAATTCCATGGTTTTG
1 CACACTTAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCATGGTTTTG
*
40074 CACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTATGGTTTTG
1 CACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGTTTTG
* * * ***
40129 CACACTTAGTGCATGTACGATTATTCATCAAATCATGATGAATTTTGTGGTTTTG
1 CACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGTTTTG
* * * *
40184 CACACTTAGTGCCTATACGGTTTTTCATC-ACTTATTATGAATTCCATGGTTTTG
1 CACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGTTTTG
40238 CACACTTAGTGCCTGTA
1 CACACTTAGTGCCTGTA
40255 GTAGACGTAG
Statistics
Matches: 160, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
54 35 0.22
55 123 0.77
56 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (55 bp):
CACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCATGGTTTTG
Found at i:40696 original size:20 final size:20
Alignment explanation
Indices: 40657--40710 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
40647 TCTATGATCA
*
40657 ATGGTATCGATACCATCCTC
1 ATGGTATCGATACCACCCTC
40677 ATGGTATCGATACTC-CCCTC
1 ATGGTATCGATAC-CACCCTC
* *
40697 TTGGTATTGATACC
1 ATGGTATCGATACC
40711 TCTTGAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (20 bp):
ATGGTATCGATACCACCCTC
Found at i:44983 original size:81 final size:81
Alignment explanation
Indices: 44803--45359 Score: 705
Period size: 81 Copynumber: 6.9 Consensus size: 81
44793 TTATAATTCC
* * * * * *
44803 TTTAGTCTTTTACCCAGCGATATTTAAACGTTCATCTAACTAGCATAATTGACACCTTTGTG-C-
1 TTTA-TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCA
44866 ----CACAGCTAGGCCA
65 AATGCACAGCTAGGCCA
* * *
44879 TTTATCTTTTACTCAACGATATTTATCCGTTCATCTAATTGGCATAATTGACACCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
44944 ATGTACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * * * **
44960 TTTATATTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAATTAACACATTTCTAACAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
* *
45025 ATGCATAGCTAGGCAA
66 ATGCACAGCTAGGCCA
* * * * * *
45041 TTTATCTTTTACTCAACAGTATTTAACC-TTTAGTCTAACCGGAAAAATTGACACCTTTCTGCCC
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCA-TCTAACTGGCATAATTGACACCTTTCTGCCA
*
45105 AATGCATAGCTAGGCCA
65 AATGCACAGCTAGGCCA
* * * *
45122 TTTATCTTTTACTCAACGATATTTAACCGTTCATCTAACTGTCATAATTGACACATTTCTTCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
45187 ATGCACAACTAGGCCA
66 ATGCACAGCTAGGCCA
* * * * *
45203 TTTATCTTTTACTCAACGGTATTTAATCGTTCATCGAACTAGCATAATTGACACCTTTTTTCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
45268 ATGCACATCTAGGCCA
66 ATGCACAGCTAGGCCA
* *
45284 TTTATCTTTTACTCAACGGTATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
45349 ATGCACAGCTA
66 ATGCACAGCTA
45360 AGCCTCAAAG
Statistics
Matches: 413, Mismatches: 60, Indels: 11
0.85 0.12 0.02
Matches are distributed among these distances:
75 50 0.12
76 5 0.01
80 3 0.01
81 352 0.85
82 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (81 bp):
TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
ATGCACAGCTAGGCCA
Found at i:45842 original size:55 final size:54
Alignment explanation
Indices: 45775--45954 Score: 254
Period size: 55 Copynumber: 3.3 Consensus size: 54
45765 TTTATTAAGA
* * * *
45775 TGCACACGTAGTGTCTATACGG-TAGTTCATCAACTCATGATGTATTTCGTGGTTT
1 TGCACACTTAGTG-CTGTACGGTTA-TTCATCAACTCATGATGAATTTCATGGTTT
* *
45830 TGCACACTTAGTGAATGTACGGTTATTCATCAACTCATGATGAATTCCATGGTTT
1 TGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTTCATGGTTT
*
45885 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATTTTATGGTTT
1 TGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTCATGGTTT
45940 TGCACACTTAGTGCT
1 TGCACACTTAGTGCT
45955 TGTAGTAGAC
Statistics
Matches: 113, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
54 1 0.01
55 110 0.97
56 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.38
Consensus pattern (54 bp):
TGCACACTTAGTGCTGTACGGTTATTCATCAACTCATGATGAATTTCATGGTTT
Found at i:45874 original size:29 final size:29
Alignment explanation
Indices: 45841--45929 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
45831 GCACACTTAG
45841 TGAATGTACGGTTATTCATCAACTCATGA
1 TGAATGTACGGTTATTCATCAACTCATGA
* *
45870 TGAAT-TCCATGGTT-TTGCA-C-ACTTA-G-
1 TGAATGT--ACGGTTATT-CATCAACTCATGA
*
45896 TGCATGTACGGTTATTCATCAACTCATGA
1 TGAATGTACGGTTATTCATCAACTCATGA
45925 TGAAT
1 TGAAT
45930 TTTATGGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
25 7 0.16
26 7 0.16
27 6 0.13
28 6 0.13
29 12 0.27
30 7 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (29 bp):
TGAATGTACGGTTATTCATCAACTCATGA
Found at i:48453 original size:23 final size:21
Alignment explanation
Indices: 48407--48447 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
48397 ATAAAAGATG
*
48407 TATATATATTTTAAAGATTAT
1 TATATATATTTTAAAAATTAT
48428 TATATATATTTTAATAAATT
1 TATATATATTTTAA-AAATT
48448 TGTTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TATATATATTTTAAAAATTAT
Found at i:49350 original size:23 final size:22
Alignment explanation
Indices: 49320--49363 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
49310 ATGTGATGTG
* *
49320 TACAATAATAAGTCAAATGAATC
1 TACAATAAAAAGT-AAAAGAATC
49343 TACAATAAAAAGTAAAAGAAT
1 TACAATAAAAAGTAAAAGAAT
49364 AAAAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.23
Consensus pattern (22 bp):
TACAATAAAAAGTAAAAGAATC
Found at i:50749 original size:50 final size:51
Alignment explanation
Indices: 50674--50812 Score: 153
Period size: 50 Copynumber: 2.8 Consensus size: 51
50664 TGAACTTAAT
*
50674 AGAAATCAGGAT-GGAGATAATGCCTTCCCAAAAAGGAT-CTAGTCAGAAAC
1 AGAAATCAGGATGGGAGATAATGCCTT-CCAAAAAGGATCCCAGTCAGAAAC
* * * *
50724 AGAAATCAAGATGGGA-ATAATGCCTTCCAAAAAGGTTCCCAGTTAGAAAT
1 AGAAATCAGGATGGGAGATAATGCCTTCCAAAAAGGATCCCAGTCAGAAAC
* * *
50774 AGAAATCAGGATAGG-GAT-ATAGCCCTCCAAAGAGGATCC
1 AGAAATCAGGATGGGAGATAAT-GCCTTCCAAAAAGGATCC
50813 TAAATAGAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
49 12 0.16
50 60 0.80
51 3 0.04
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (51 bp):
AGAAATCAGGATGGGAGATAATGCCTTCCAAAAAGGATCCCAGTCAGAAAC
Found at i:51484 original size:13 final size:14
Alignment explanation
Indices: 51456--51493 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
51446 ACGGTTAGTG
*
51456 ATCAAAGTCTAACA
1 ATCAAAGTCAAACA
51470 ATCAAAGT-AAACA
1 ATCAAAGTCAAACA
51483 ATCAAAGTCAA
1 ATCAAAGTCAA
51494 TGGTAAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.55, C:0.18, G:0.08, T:0.18
Consensus pattern (14 bp):
ATCAAAGTCAAACA
Found at i:53374 original size:19 final size:20
Alignment explanation
Indices: 53331--53376 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
53321 TTCTAGGTTA
*
53331 GAAATTAATGTTAGAGTGTT
1 GAAATTAATGTTAGAATGTT
*
53351 GAAATTGATGTTAGAATG-T
1 GAAATTAATGTTAGAATGTT
53370 GAAATTA
1 GAAATTA
53377 GGAACTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (20 bp):
GAAATTAATGTTAGAATGTT
Found at i:57286 original size:20 final size:20
Alignment explanation
Indices: 57261--57385 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
57251 TCATTTATGT
57261 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
57281 CATCCTTTCATGCATTTTACTTATGG
1 CATCCTTTCATGC--CTTA---AT-G
57307 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
57327 CATCCTTTCATGCGTTTTAGTTATGG
1 CATCCTTTCATGC--CTTA---AT-G
* *
57353 TATCCTTTCATGCCTCAATG
1 CATCCTTTCATGCCTTAATG
*
57373 CATTCTTTCATGC
1 CATCCTTTCATGC
57386 ATTTTAGTTA
Statistics
Matches: 85, Mismatches: 8, Indels: 24
0.73 0.07 0.21
Matches are distributed among these distances:
20 39 0.46
21 4 0.05
22 6 0.07
24 5 0.06
25 4 0.05
26 27 0.32
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.43
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:57303 original size:26 final size:26
Alignment explanation
Indices: 57280--57424 Score: 125
Period size: 26 Copynumber: 6.0 Consensus size: 26
57270 ATGCCTTAAT
57280 GCATCCTTTCATGCATTTTACTTATG
1 GCATCCTTTCATGCATTTTACTTATG
*
57306 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTACTTATG
* *
57326 GCATCCTTTCATGCGTTTTAGTTATG
1 GCATCCTTTCATGCATTTTACTTATG
* * *
57352 GTATCCTTTCATGC---CT-C-AAT-
1 GCATCCTTTCATGCATTTTACTTATG
* *
57372 GCATTCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTACTTATG
*
57398 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTACTTATG
57424 G
1 G
57425 ATTCATTTTA
Statistics
Matches: 95, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
20 26 0.27
21 4 0.04
22 3 0.03
23 2 0.02
24 3 0.03
25 4 0.04
26 53 0.56
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTACTTATG
Found at i:57322 original size:46 final size:46
Alignment explanation
Indices: 57255--57411 Score: 260
Period size: 46 Copynumber: 3.4 Consensus size: 46
57245 TTAATTTCAT
* *
57255 TTATGTCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAC
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
*
57301 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCGTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* * *
57347 TTATGGTATCCTTTCATGCCTCAATGCATTCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
57393 TTATGGCATCCTTTCATGC
1 TTATGGCATCCTTTCATGC
57412 ATTTTAGTTA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 103 1.00
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (46 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
Found at i:63284 original size:57 final size:57
Alignment explanation
Indices: 63223--63516 Score: 453
Period size: 57 Copynumber: 5.1 Consensus size: 57
63213 GTGCAAAATA
* *
63223 TAAGAAATCATACTAAGGGTATGAATTTCATATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
63280 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * * * * *
63337 TAAGAAATCATACTGAGTGTATAAATTTCATATAGGGTGTTTTGTATGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
63394 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * * * * *
63451 TAAAAAATCCTACTACGTGTAAGAATTTCAAATAGGGCGTTTCGTACGCTAAAATGA
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
63508 TAAGGAAAT
1 TAA-GAAAT
63517 GGATCTTTTA
Statistics
Matches: 215, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
57 211 0.98
58 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
Found at i:64180 original size:45 final size:45
Alignment explanation
Indices: 64085--64188 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
64075 TGAAATAATG
* * * * *
64085 ACATAAATGAAATGTATAATATTGTATCAAAGGCATGAAAGGATG
1 ACATAAATGAAATGTATAATAATGAATAAAAGACATGAAAGGATA
* *
64130 TCATAAATGAAATGTATAATAATGAATAAAAGACATGTGAA-GATA
1 ACATAAATGAAATGTATAATAATGAATAAAAGACATG-AAAGGATA
*
64175 ACATAATTGAAATG
1 ACATAAATGAAATG
64189 CATATAGGTG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 47 0.96
46 2 0.04
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (45 bp):
ACATAAATGAAATGTATAATAATGAATAAAAGACATGAAAGGATA
Found at i:66957 original size:20 final size:20
Alignment explanation
Indices: 66928--67099 Score: 101
Period size: 20 Copynumber: 7.7 Consensus size: 20
66918 TTCATTTATG
*
66928 GCATCATTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
66948 GCATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
* *
66973 GGTATCCTTTCATGTCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
66994 GTATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
67019 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
67040 GCATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
*
67065 GGCATCCTTTCATACCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
67086 GCATCATTTCATGC
1 GCATCCTTTCATGC
67100 ATTTTAGTTA
Statistics
Matches: 120, Mismatches: 14, Indels: 36
0.71 0.08 0.21
Matches are distributed among these distances:
20 52 0.43
21 6 0.05
22 9 0.08
24 9 0.08
25 6 0.05
26 38 0.32
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:66980 original size:26 final size:26
Alignment explanation
Indices: 66948--67077 Score: 140
Period size: 26 Copynumber: 5.5 Consensus size: 26
66938 ATGCCTTAAT
66948 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
* *
66974 GTATCCTTTCATG--TCTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
*
66994 GTATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
67020 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
67040 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
67066 GCATCCTTTCAT
1 GCATCCTTTCAT
67078 ACCTTAATGC
Statistics
Matches: 86, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
20 27 0.31
21 4 0.05
22 7 0.08
24 7 0.08
25 4 0.05
26 37 0.43
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTAGTTATG
Found at i:66992 original size:46 final size:46
Alignment explanation
Indices: 66923--67110 Score: 322
Period size: 46 Copynumber: 4.1 Consensus size: 46
66913 TTAATTTCAT
*
66923 TTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* * *
66969 TTATGGTATCCTTTCATGTCTTAATGTATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
67015 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* *
67061 TTATGGCATCCTTTCATACCTTAATGCATCATTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
67107 TTAT
1 TTAT
67111 AGATTTGTTT
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (46 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
Found at i:67732 original size:96 final size:96
Alignment explanation
Indices: 67531--67710 Score: 231
Period size: 96 Copynumber: 1.9 Consensus size: 96
67521 TACTACCCTG
* * * *
67531 GTATTGATACTTCTATAATATGGTACCGATGCCCCCTTTTAGTATCAATACCATTTCTATATTAT
1 GTATCGATACTACTATAATATGGTACCGATACCCCCTTTTAGTATCAATACCATTTCTACATTAT
* *
67596 GTGTTGGCATGATATCGATACCTTTCTCTTA
66 GTGATGCCATGATATCGATACCTTTCTCTTA
* * * *
67627 GTATCGATACTACTATACTATGGTATCGATACCCCCTTTTAGTATCGATACCATTT-TGACATTT
1 GTATCGATACTACTATAATATGGTACCGATACCCCCTTTTAGTATCAATACCATTTCT-ACATTA
*
67691 TG-GAT-CCATGGTATCGATAC
65 TGTGATGCCATGATATCGATAC
67711 TTCCCTTTGT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
94 13 0.18
95 3 0.04
96 56 0.78
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (96 bp):
GTATCGATACTACTATAATATGGTACCGATACCCCCTTTTAGTATCAATACCATTTCTACATTAT
GTGATGCCATGATATCGATACCTTTCTCTTA
Found at i:73396 original size:26 final size:26
Alignment explanation
Indices: 73344--73396 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
73334 TTATTACATT
** *
73344 AACATTTTATAACATTTTTTGAAAGA
1 AACATTTTATAACATTTCATCAAAGA
*
73370 AACATTTTATAACATTTCATCATAGA
1 AACATTTTATAACATTTCATCAAAGA
73396 A
1 A
73397 CACGGCTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (26 bp):
AACATTTTATAACATTTCATCAAAGA
Found at i:76398 original size:90 final size:89
Alignment explanation
Indices: 76253--76418 Score: 296
Period size: 90 Copynumber: 1.9 Consensus size: 89
76243 CTTTTATAGC
76253 CAAGTTACCCTAAACATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
1 CAAGTTACCCTAAACATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
*
76318 GAAATTTAATAATCCTCTTATATT
66 GAAATTAAATAATCCTCTTATATT
* *
76342 CAAGTTACCTTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTTAATTAAT
1 CAAGTTACCCTAAACATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTTAATTAAT
76407 TGAAATTAAATA
65 TGAAATTAAATA
76419 TTCAGGATTA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 22 0.30
90 51 0.70
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.45
Consensus pattern (89 bp):
CAAGTTACCCTAAACATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
GAAATTAAATAATCCTCTTATATT
Found at i:86892 original size:20 final size:19
Alignment explanation
Indices: 86867--86932 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
86857 TTTTTGTCCG
86867 AATTATAAATATTATATTAA
1 AATTAT-AATATTATATTAA
* *
86887 AATTATATTATTATTATTAT
1 AATTATAATATTA-TATTAA
*
86907 TATTATAATATATATATTAA
1 AATTATAATAT-TATATTAA
*
86927 TATTAT
1 AATTAT
86933 TATTAATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 6 0.15
20 31 0.79
21 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTATAATATTATATTAA
Found at i:86893 original size:11 final size:12
Alignment explanation
Indices: 86872--86938 Score: 57
Period size: 12 Copynumber: 5.2 Consensus size: 12
86862 GTCCGAATTA
86872 TAAATATTATAT
1 TAAATATTATAT
86884 TAAA-ATTATAT
1 TAAATATTATAT
*
86895 TATTATTATTATTAT
1 TA--AATATTA-TAT
86910 TATAATATATATAT
1 TA-AATAT-TATAT
86924 T-AATATTATTAT
1 TAAATATTA-TAT
86936 TAA
1 TAA
86939 TTTTACATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
11 11 0.24
12 13 0.28
13 2 0.04
14 13 0.28
15 7 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TAAATATTATAT
Found at i:86900 original size:3 final size:3
Alignment explanation
Indices: 86888--86937 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
86878 TTATATTAAA
* *
86888 ATT A-T ATT ATT ATT ATT ATT ATT ATA ATAT ATAT ATT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT
86934 ATT A
1 ATT A
86938 ATTTTACATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:86924 original size:26 final size:26
Alignment explanation
Indices: 86868--86938 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
86858 TTTTGTCCGA
*
86868 ATTATAAATATTA-TATTAAAATTAT
1 ATTATTAATATTATTATTAAAATTAT
* *
86893 ATTATTATTATTATTATTATAA-TAT
1 ATTATTAATATTATTATTAAAATTAT
86918 ATATATTAATATTATTATTAA
1 AT-TATTAATATTATTATTAA
86939 TTTTACATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
25 16 0.41
26 23 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTATTAATATTATTATTAAAATTAT
Found at i:86938 original size:12 final size:12
Alignment explanation
Indices: 86891--86939 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
86881 TATTAAAATT
86891 ATATTATTATTA
1 ATATTATTATTA
*
86903 TTATTATTA-TA
1 ATATTATTATTA
86914 ATA-TATATATTA
1 ATATTAT-TATTA
86926 ATATTATTATTA
1 ATATTATTATTA
86938 AT
1 AT
86940 TTTACATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 3 0.09
11 6 0.19
12 20 0.62
13 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATATTATTATTA
Found at i:89429 original size:34 final size:32
Alignment explanation
Indices: 89376--89445 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
89366 ACCTTACAAC
* *
89376 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACATT
*
89408 TCCCTAGCTTTTACACGGGCTAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACATT
89442 TCCC
1 TCCC
89446 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACATT
Found at i:89754 original size:21 final size:21
Alignment explanation
Indices: 89728--89769 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
89718 CCAGAATGGG
*
89728 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
89749 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
89770 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:89831 original size:21 final size:21
Alignment explanation
Indices: 89805--89847 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
89795 CTGTTGAACA
89805 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
89826 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
89847 G
1 G
89848 ACATTCTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.44, T:0.14
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:89905 original size:21 final size:21
Alignment explanation
Indices: 89880--89958 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
89870 AAAACCTGCA
89880 GGGGGAATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
89901 GGGGGTATCTGTA--CCC---
1 GGGGGAATCTGTACCCCCTGG
*
89917 -GGGGTATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
89937 GGGGGAATCTATACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
89958 G
1 G
89959 CAATCTTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
19 3 0.06
21 31 0.63
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.22
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:89922 original size:15 final size:15
Alignment explanation
Indices: 89902--89931 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
89892 ACCCCCTGGG
89902 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
89917 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
89932 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:89933 original size:36 final size:36
Alignment explanation
Indices: 89881--89952 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
89871 AAACCTGCAG
* *
89881 GGGGAATCTGTACCCCCTGGGGGGGTATCTGTACCC
1 GGGGAATCTGTACCCCCTGGGGGGGAATCTATACCC
*
89917 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
1 GGGGAATCTGTACCCCCTGGGGGGGAATCTATACCC
89953 CCTGGGCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.15, C:0.28, G:0.35, T:0.22
Consensus pattern (36 bp):
GGGGAATCTGTACCCCCTGGGGGGGAATCTATACCC
Found at i:90080 original size:29 final size:31
Alignment explanation
Indices: 90048--90107 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
90038 AAACTTTGAA
90048 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
90077 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
90108 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:90297 original size:22 final size:22
Alignment explanation
Indices: 90266--90334 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
90256 AAGCTCCCCC
*
90266 TTTTTCATTAAGAAATTGAATT
1 TTTTTTATTAAGAAATTGAATT
90288 TTTTTTATTAAGAAATTGAATT
1 TTTTTTATTAAGAAATTGAATT
90310 TTTTTTATTAAGAAATTGAATT
1 TTTTTTATTAAGAAATTGAATT
90332 TTT
1 TTT
90335 CAAACCAAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (22 bp):
TTTTTTATTAAGAAATTGAATT
Found at i:91455 original size:19 final size:20
Alignment explanation
Indices: 91412--91459 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
91402 TCTAAATCCT
*
91412 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
91432 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
91451 TTTTCAAAA
1 TTTTCAAAA
91460 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:92372 original size:34 final size:32
Alignment explanation
Indices: 92319--92389 Score: 106
Period size: 34 Copynumber: 2.2 Consensus size: 32
92309 ACCTTACAAC
*
92319 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
92351 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
92385 TCCCT
1 TCCCT
92390 TTACAAAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 7 0.20
33 5 0.14
34 23 0.66
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.32
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:92695 original size:21 final size:21
Alignment explanation
Indices: 92669--92710 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
92659 CCAGAATGGG
*
92669 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
92690 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
92711 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:92843 original size:15 final size:15
Alignment explanation
Indices: 92823--92852 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92813 ACCCCCTGGG
*
92823 GGGGTATCTGTACCC
1 GGGGTATCTGAACCC
92838 GGGGTATCTGAACCC
1 GGGGTATCTGAACCC
92853 CCTGGGCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.27, G:0.33, T:0.23
Consensus pattern (15 bp):
GGGGTATCTGAACCC
Found at i:92980 original size:29 final size:31
Alignment explanation
Indices: 92948--93007 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
92938 AAACTTTGAA
92948 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
92977 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
93008 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:95517 original size:55 final size:54
Alignment explanation
Indices: 95451--95592 Score: 194
Period size: 55 Copynumber: 2.6 Consensus size: 54
95441 ACATTCAAAT
* * *
95451 GATTCATGAAGAAGGACGTCCGATGAATGAAGAAATTTGAACCTGATTGAAGAAC
1 GATTCATGAAGAA-GACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGAAC
* *
95506 GATTCATGAAGATAGACATCTGATGAATGAAGAAATCTGAAACTGATTGAAGACC
1 GATTCATGAAGA-AGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGAAC
* *
95561 GGTCCATGAAGAAAGACATCCGATGAATGAAG
1 GATTCATGAAG-AAGACATCCGATGAATGAAG
95593 TTTGAAGTTG
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
55 75 0.97
56 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (54 bp):
GATTCATGAAGAAGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGAAC
Found at i:101085 original size:36 final size:36
Alignment explanation
Indices: 101044--101308 Score: 270
Period size: 36 Copynumber: 7.4 Consensus size: 36
101034 GGGCAAGTCA
* *
101044 ATCTTAAGCCTTTACTAGAGAGTAGTGAAGCAATCC
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
*** *
101080 ATCTTAAGCCTTCACCACA-AGTAGTGAAGCAACTCA
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAA-TCC
* * *
101116 ATTTTAAGCC-TAACTGGAGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
* * *
101151 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATCA
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
* * *
101187 ATTTTAAGCATTCACCT-GAG-GTAGTGAAACAATCC
1 ATCTTAAGCCTTCA-CTGGAGAGTAGTGAAGCAATCC
*
101222 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAAAT-C
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGC-AATCC
* * * * * *
101258 ATTTTAAGCCTTCAATGGAGAGTAGTAAATCAAACA
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
101294 ATCTTAAGCCTTCAC
1 ATCTTAAGCCTTCAC
101309 CGAAGAAATA
Statistics
Matches: 185, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
34 1 0.01
35 57 0.31
36 123 0.66
37 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (36 bp):
ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
Found at i:101144 original size:71 final size:72
Alignment explanation
Indices: 101036--101324 Score: 333
Period size: 71 Copynumber: 4.0 Consensus size: 72
101026 TGAGATTGGG
* * * *
101036 GCAAGTCAATCTTAAGCCTT-TACTAGAGAGTAGTGAAGCAATCCATCTTAAGCCTTCACCACA-
1 GCAA-TCAATTTTAAGCCTTCAACTGGAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACCA-AG
101099 AGTAGTGAA
64 AGTAGTGAA
101108 GCAACTCAATTTTAAGCC-T-AACTGGAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACCGAAG
1 GCAA-TCAATTTTAAGCCTTCAACTGGAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACC-AAG
101171 AGTAGTGAA
64 AGTAGTGAA
* * * * *
101180 GCAATCAATTTTAAGCATTCACCT-GAG-GTAGTGAAACAATCCATCTTAAGCCTTCACCGGAGA
1 GCAATCAATTTTAAGCCTTCAACTGGAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACC-AAGA
101243 GTAGTGAA
65 GTAGTGAA
* * *
101251 GCAAATC-ATTTTAAGCCTTCAA-TGGAGAGTAGTAAATCAAACAATCTTAAGCCTTCACCGAAG
1 GC-AATCAATTTTAAGCCTTCAACTGGAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACC-AAG
*
101314 AAATAGTGAA
64 -AGTAGTGAA
101324 G
1 G
101325 AAGAAGATAT
Statistics
Matches: 191, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
70 1 0.01
71 110 0.58
72 68 0.36
73 12 0.06
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (72 bp):
GCAATCAATTTTAAGCCTTCAACTGGAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACCAAGAG
TAGTGAA
Found at i:101242 original size:107 final size:106
Alignment explanation
Indices: 101044--101309 Score: 309
Period size: 107 Copynumber: 2.5 Consensus size: 106
101034 GGGCAAGTCA
* * * *
101044 ATCTTAAGCCTTTACTAGAGAGTAGTGAAGCAATCCATCTTAAGCCTTCACCACAAGTAGTGAAG
1 ATCTTAAGCCTTCACGA-AGAGTAGTGAAGCAATCAATCTTAAGCCTTCACCACAAGTAGTGAAA
* *
101109 CAACTCAATTTTAAGCCTAACTGGAGAGTAGTGAAGCAAACC
65 CAACTCAATCTTAAGCCTAACCGGAGAGTAGTGAAGCAAACC
* * ** *
101151 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATCAATTTTAAGCATTCACCTGAGGTAGTGAAA
1 ATCTTAAGCCTTCA-CGAAGAGTAGTGAAGCAATCAATCTTAAGCCTTCACCACAAGTAGTGAAA
* * *
101216 CAA-TCCATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAAATC
65 CAACTCAATCTTAAGCC-TAACCGGAGAGTAGTGAAGCAAACC
* * * * * *
101258 ATTTTAAGCCTTCAATGGAGAGTAGTAAATCAAACAATCTTAAGCCTTCACC
1 ATCTTAAGCCTTC-ACGAAGAGTAGTGAAGCAATCAATCTTAAGCCTTCACC
101310 GAAGAAATAG
Statistics
Matches: 134, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
106 11 0.08
107 120 0.90
108 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (106 bp):
ATCTTAAGCCTTCACGAAGAGTAGTGAAGCAATCAATCTTAAGCCTTCACCACAAGTAGTGAAAC
AACTCAATCTTAAGCCTAACCGGAGAGTAGTGAAGCAAACC
Found at i:101469 original size:56 final size:56
Alignment explanation
Indices: 101326--101637 Score: 319
Period size: 56 Copynumber: 5.8 Consensus size: 56
101316 ATAGTGAAGA
* * * *
101326 AGAAGA-TATTCGAGTTCCATACTCCCT-AAAGAAAGA--GAGCA-AACCC-TTAAGA
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAG-AGAACCCGTT-TGC
* * * *
101378 AGAAGA-TATTCGAGTTCCATAC-TCCAGAAAAAAAGAGGGAGAGAACTCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGAGAACCCGTTTGC
* * ** *
101432 AGAAGATTATTCAAGTTCTATATTTCCTGAAAGAAAGA-GG-GTTAACCCGTTTAC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGAGAACCCGTTTGC
*
101486 AGAAGATTATTCGAGTTCTATACTTCCTGAAAG-AA-A-GGAAACG-ACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGA-GAACCCGTTTGC
* * *
101539 AGAAGATTATTCGAGTTTTATACTTCTTGAAAGAAAGAGGGAGCGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGAGAACCCGTTTGC
* * *
101595 AGAAAATTATTTGAATTCTATACTTCCTGAAAGAAAGAGGGAG
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAG
101638 TGAGCCCAAT
Statistics
Matches: 217, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
51 2 0.01
52 33 0.15
53 43 0.20
54 57 0.26
55 19 0.09
56 63 0.29
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (56 bp):
AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGAGAACCCGTTTGC
Found at i:101552 original size:53 final size:53
Alignment explanation
Indices: 101326--101631 Score: 255
Period size: 54 Copynumber: 5.7 Consensus size: 53
101316 ATAGTGAAGA
* * * * * * *
101326 AGAAGA-TATTCGAGTTCCATACTCCCT-AAAGAAAGAGAGCAAACCC-TTAAGA
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGGGAAC-GACCCGTT-TGC
* * * *
101378 AGAAGA-TATTCGAGTTCCATAC-TCCAGAAAAAAAGAGGGAGA-GAACTCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTG-AAAGAA-AGGGA-ACG-ACCCGTTTGC
* * **** *
101432 AGAAGATTATTCAAGTTCTATATTTCCTGAAAGAAAGAGGGTTAACCCGTTTAC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAG-GGAACGACCCGTTTGC
*
101486 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGGAAACGACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGGGAACGACCCGTTTGC
* * *
101539 AGAAGATTATTCGAGTTTTATACTTCTTGAAAGAAAGAGGGAGCGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAG-AA-AGGGAACG-ACCCGTTTGC
* * *
101595 AGAAAATTATTTGAATTCTATACTTCCTGAAAGAAAG
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAG
101632 AGGGAGTGAG
Statistics
Matches: 205, Mismatches: 36, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
51 2 0.01
52 22 0.11
53 46 0.22
54 63 0.31
55 30 0.15
56 42 0.20
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.26
Consensus pattern (53 bp):
AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGGGAACGACCCGTTTGC
Found at i:101604 original size:109 final size:107
Alignment explanation
Indices: 101425--101631 Score: 306
Period size: 109 Copynumber: 1.9 Consensus size: 107
101415 GGAGAGAACT
* **
101425 CGTTTGCAGAAGATTATTCAAGTTCTATATTTCCTGAAAGAAAGAGGGTTAACCCGTTTACAGAA
1 CGTTTGCAGAAGATTATTCAAGTTCTATACTTCCTGAAAGAAAGAGGGCGAACCCGTTTACAGAA
* *
101490 GATTATTCGAGTTCTATACTTCCTGAAAGAAAGGAAACGACC
66 AATTATTCGAATTCTATACTTCCTGAAAGAAAGGAAACGACC
* * * *
101532 CGTTTGCAGAAGATTATTCGAGTTTTATACTTCTTGAAAGAAAGAGGGAGCGAACCCGTTTGCAG
1 CGTTTGCAGAAGATTATTCAAGTTCTATACTTCCTGAAAGAAAGA-GG-GCGAACCCGTTTACAG
*
101597 AAAATTATTTGAATTCTATACTTCCTGAAAGAAAG
64 AAAATTATTCGAATTCTATACTTCCTGAAAGAAAG
101632 AGGGAGTGAG
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 41 0.47
108 2 0.02
109 45 0.51
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (107 bp):
CGTTTGCAGAAGATTATTCAAGTTCTATACTTCCTGAAAGAAAGAGGGCGAACCCGTTTACAGAA
AATTATTCGAATTCTATACTTCCTGAAAGAAAGGAAACGACC
Found at i:101673 original size:56 final size:55
Alignment explanation
Indices: 101540--101780 Score: 167
Period size: 53 Copynumber: 4.4 Consensus size: 55
101530 CCCGTTTGCA
* * * * * * * **
101540 GAAGATTATTCGAGTTTTATACTTCTTGAAAGAAAGAGGGAGCGAACCCGTTTGCA
1 GAAGATTGTTCGAGTCTTATACTTCCT-AAAGAAAGAGGGAGTGAGCACGATTGTT
* * * * * *
101596 GAAAATTATTTGAAT-TCTATACTTCCTGAAAGAAAGAGGGAGTGAGCCCAATTGTT
1 GAAGATTGTTCGAGTCT-TATACTTCCT-AAAGAAAGAGGGAGTGAGCACGATTGTT
* *
101652 GAAGATTGTTCGAGTCTTATAC-TCTCTAAA-CAA-AGGGAGCAT-A-CACGATTTTT
1 GAAGATTGTTCGAGTCTTATACTTC-CTAAAGAAAGAGGGAG--TGAGCACGATTGTT
* * * *
101705 GAAGATTGTTCGAGTCTTATAC-T-CTAAAGAAATAGGAAG-CAGACACGATCGTT
1 GAAGATTGTTCGAGTCTTATACTTCCTAAAGAAAGAGGGAGTGAG-CACGATTGTT
101758 GAAGATTGTTCGAGTCTTATACT
1 GAAGATTGTTCGAGTCTTATACT
101781 CTCTGAATGA
Statistics
Matches: 152, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
51 6 0.04
52 2 0.01
53 71 0.47
54 3 0.02
55 7 0.05
56 62 0.41
57 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTTCCTAAAGAAAGAGGGAGTGAGCACGATTGTT
Found at i:101691 original size:109 final size:109
Alignment explanation
Indices: 101428--101674 Score: 275
Period size: 109 Copynumber: 2.3 Consensus size: 109
101418 GAGAACTCGT
* * * **
101428 TTGCAGAAGATTATTCAAGT-TCTATATTTCCTGAAAGAAAGA-GG-GTTAACCCGTTTACAGAA
1 TTGCAGAAGATTATTCGAGTCT-TATACTTCTTGAAAGAAAGAGGGAGCGAACCCGTTTACAGAA
* * **
101490 GATTATTCGAGTTCTATACTTCCTGAAAGAAAGGAAACGACCCGT
65 AATTATTCGAATTCTATACTTCCTGAAAGAAAGGAAACGACCCAA
* *
101535 TTGCAGAAGATTATTCGAGTTTTATACTTCTTGAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAA
1 TTGCAGAAGATTATTCGAGTCTTATACTTCTTGAAAGAAAGAGGGAGCGAACCCGTTTACAGAAA
* * **
101600 ATTATTTGAATTCTATACTTCCTGAAAGAAAGAGGGAGTGAGCCCAA
66 ATTATTCGAATTCTATACTTCCTGAAAG-AA-AGGAAACGA-CCCAA
** *
101647 TTGTTGAAGATTGTTCGAGTCTTATACT
1 TTGCAGAAGATTATTCGAGTCTTATACT
101675 CTCTAAACAA
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
107 37 0.32
108 3 0.03
109 41 0.35
110 2 0.02
111 6 0.05
112 27 0.23
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (109 bp):
TTGCAGAAGATTATTCGAGTCTTATACTTCTTGAAAGAAAGAGGGAGCGAACCCGTTTACAGAAA
ATTATTCGAATTCTATACTTCCTGAAAGAAAGGAAACGACCCAA
Found at i:101707 original size:53 final size:55
Alignment explanation
Indices: 101649--101784 Score: 199
Period size: 53 Copynumber: 2.5 Consensus size: 55
101639 GAGCCCAATT
* * * *
101649 GTTGAAGATTGTTCGAGTCTTATACTCTCTAAA-CAA-AGGGAGCATACACGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTAAAGAAATAGGAAGCAGACACGATC
*
101702 TTTGAAGATTGTTCGAGTCTTATA--CTCTAAAGAAATAGGAAGCAGACACGATC
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTAAAGAAATAGGAAGCAGACACGATC
101755 GTTGAAGATTGTTCGAGTCTTATACTCTCT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCT
101785 GAATGATAGG
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
51 7 0.10
52 2 0.03
53 60 0.82
55 4 0.05
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (55 bp):
GTTGAAGATTGTTCGAGTCTTATACTCTCTAAAGAAATAGGAAGCAGACACGATC
Done.