Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold53
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: 4419549
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 41486 characters in sequence are not A, C, G, or T
File 20 of 28
Found at i:3018992 original size:66 final size:66
Alignment explanation
Indices: 3018901--3019181 Score: 472
Period size: 66 Copynumber: 4.2 Consensus size: 66
3018891 TAGATTTTTT
3018901 AACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTTTTTTAAAGCCCA
1 AACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTTTTTTAAAGCCCA
3018966 C
66 C
3018967 AACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTTTTTTAAAGCCCA
1 AACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTTTTTTAAAGCCCA
3019032 C
66 C
3019033 AACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTTTTTTAAAGCCCA
1 AACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTTTTTTAAAGCCCA
3019098 C
66 C
* * * * * *
3019099 AACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCAAAACTCCGTGGCACTTTTTTCTTTTAAAG
1 AACTCCGTGGCAC-CTTCTT--CTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT-TTTTAAAG
3019164 CCCAC
62 CCCAC
3019169 AACTCCGTGGCAC
1 AACTCCGTGGCAC
3019182 TCTTTTTCCC
Statistics
Matches: 204, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
66 144 0.71
67 5 0.02
69 30 0.15
70 25 0.12
ACGTcount: A:0.22, C:0.37, G:0.12, T:0.30
Consensus pattern (66 bp):
AACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTTTTTTAAAGCCCA
C
Found at i:3019261 original size:32 final size:31
Alignment explanation
Indices: 3019224--3019321 Score: 160
Period size: 32 Copynumber: 3.1 Consensus size: 31
3019214 CATCTTTTTT
3019224 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
*
3019255 CTCTTCCTAAAGCCCACACAAGTCGGTGGCAA
1 C-CTTCCCAAAGCCCACACAAGTCGGTGGCAA
3019287 CCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTC--CCAAAGCCCACACAAGTCGGTGGCAA
3019320 CC
1 CC
3019322 CTTCTAAGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 5 0.08
32 30 0.48
33 27 0.44
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.16
Consensus pattern (31 bp):
CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
Found at i:3019305 original size:33 final size:33
Alignment explanation
Indices: 3019229--3019326 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
3019219 TTTTTCCTTC
3019229 CCAAAGCCCACACAAGTCGGTGGCAA-C-TCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTTCTT
3019260 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACCTTCTT
3019294 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 CCAAAGCCCACACAAGTCGGTGGCAA-CCTTCT
3019327 AAGCCCAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
31 2 0.03
32 24 0.38
33 25 0.40
34 12 0.19
ACGTcount: A:0.28, C:0.37, G:0.18, T:0.17
Consensus pattern (33 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTTCTT
Found at i:3019496 original size:49 final size:49
Alignment explanation
Indices: 3019326--3019843 Score: 664
Period size: 49 Copynumber: 10.6 Consensus size: 49
3019316 GCAACCCTTC
* *
3019326 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
*
3019378 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* *
3019430 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3019479 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3019528 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3019577 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3019626 GAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3019669 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
3019718 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3019761 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTT
*
3019813 TAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCA
3019844 CGTTGACATC
Statistics
Matches: 413, Mismatches: 38, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
43 77 0.19
45 2 0.00
47 1 0.00
49 211 0.51
50 3 0.01
52 119 0.29
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:3019565 original size:98 final size:98
Alignment explanation
Indices: 3019326--3019910 Score: 789
Period size: 98 Copynumber: 5.9 Consensus size: 98
3019316 GCAACCCTTC
* * * *
3019326 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATC
*
3019391 GCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
63 GCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTT
*
3019430 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
3019495 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
*
3019528 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
3019593 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
3019626 GAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
3019685 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
*
3019718 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
*
3019777 GGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
66 GGCCTTGAATCAGCATATTGG--CATCTT-CATCTT
* * * *
3019813 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC----T-TCATCTTTAAGTCCAAT
* * *
3019878 ATCGTTGGCCGTGAATCAACATATTGGCATCTT
60 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
3019911 TATCACTTTT
Statistics
Matches: 446, Mismatches: 20, Indels: 29
0.90 0.04 0.06
Matches are distributed among these distances:
92 129 0.29
94 6 0.01
95 42 0.09
98 142 0.32
99 3 0.01
101 44 0.10
102 2 0.00
104 37 0.08
105 6 0.01
107 35 0.08
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (98 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
GGCCTTGAATCAGCATATTGGCATCTTCATCTT
Found at i:3019688 original size:43 final size:44
Alignment explanation
Indices: 3019622--3019800 Score: 236
Period size: 43 Copynumber: 4.0 Consensus size: 44
3019612 GGCATCTTCA
* * * *
3019622 TCTTGAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
*
3019666 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
* *
3019713 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
3019758 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
3019801 ATTTTCCATC
Statistics
Matches: 119, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
43 78 0.66
45 1 0.01
47 1 0.01
49 39 0.33
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:3019694 original size:92 final size:92
Alignment explanation
Indices: 3019574--3019844 Score: 470
Period size: 92 Copynumber: 2.9 Consensus size: 92
3019564 GCACCTTCAT
*
3019574 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
3019639 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
3019666 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
3019731 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
3019758 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
3019823 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
3019845 GTTGACATCC
Statistics
Matches: 171, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
92 129 0.75
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:3019887 original size:55 final size:52
Alignment explanation
Indices: 3019758--3019895 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
3019748 ACATTGGCAC
* *
3019758 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
3019810 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
3019865 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
3019896 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:3020080 original size:43 final size:43
Alignment explanation
Indices: 3020032--3020125 Score: 188
Period size: 43 Copynumber: 2.2 Consensus size: 43
3020022 CCTTTTTCAT
3020032 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGG
1 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGG
3020075 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGG
1 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGG
3020118 CATCTTTA
1 CATCTTTA
3020126 TCACTTTTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (43 bp):
CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGG
Found at i:3020130 original size:213 final size:212
Alignment explanation
Indices: 3019862--3020286 Score: 807
Period size: 213 Copynumber: 2.0 Consensus size: 212
3019852 TCCTTTTTCT
3019862 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATC
1 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATC
*
3019927 TTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCA
66 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCA
3019992 ATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCATCATCTTT-AAGCCCAATATCGTTGG
131 ATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTC-TCATCTTTGAA-CCCAATATCGTTGG
3020056 CCGTGAATCAACATATTGG
194 CCGTGAATCAACATATTGG
3020075 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATC
1 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATC
3020140 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCA
66 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCA
3020205 ATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCC
131 ATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCC
*
3020270 GTGAATCAACGTATTGG
196 GTGAATCAACATATTGG
3020287 TCCTTTTATC
Statistics
Matches: 209, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
212 40 0.19
213 169 0.81
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (212 bp):
CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATC
TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCA
ATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCC
GTGAATCAACATATTGG
Found at i:3020963 original size:33 final size:33
Alignment explanation
Indices: 3020926--3020995 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
3020916 TTCAACGATT
3020926 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
3020959 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
3020992 TGTA
1 TGTA
3020996 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:3020964 original size:13 final size:13
Alignment explanation
Indices: 3020946--3020970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3020936 CATAAAATGT
3020946 TGTATCGATACAA
1 TGTATCGATACAA
3020959 TGTATCGATACA
1 TGTATCGATACA
3020971 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3021053 original size:13 final size:13
Alignment explanation
Indices: 3021035--3021059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3021025 ATTACTCACA
3021035 TGTATCGATACAT
1 TGTATCGATACAT
3021048 TGTATCGATACA
1 TGTATCGATACA
3021060 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3021124 original size:52 final size:52
Alignment explanation
Indices: 3021068--3021196 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
3021058 CACTGATCTT
*
3021068 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
3021120 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
3021172 TGTATCGATACATGCAAATAAATTT
1 TGTATCGATACATGCAGACAAATTT
3021197 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3024444 original size:21 final size:21
Alignment explanation
Indices: 3024419--3024461 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3024409 CATGTCAGGA
3024419 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
3024440 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
3024461 G
1 G
3024462 TCATTTTGAT
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:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:3028092 original size:1 final size:1
Alignment explanation
Indices: 3028088--3028158 Score: 61
Period size: 1 Copynumber: 71.0 Consensus size: 1
3028078 AAGGTGATGG
* * * * * * * * *
3028088 AAAAAAAAAAACAAACAAACAAACAAAAAAAACACACAAAAAAAAAACAAAACAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3028153 AAAAAA
1 AAAAAA
3028159 GAAAGTGCAA
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3028115 original size:17 final size:15
Alignment explanation
Indices: 3028092--3028158 Score: 75
Period size: 16 Copynumber: 4.3 Consensus size: 15
3028082 TGATGGAAAA
3028092 AAAAAAACAAACAAAC
1 AAAAAAA-AAACAAAC
*
3028108 AAACAAAAAAAACACAC
1 -AA-AAAAAAAACAAAC
3028125 AAAAAAAAAACAAAAC
1 AAAAAAAAAAC-AAAC
3028141 AAAAAAAAAA-AAA-
1 AAAAAAAAAACAAAC
3028154 AAAAA
1 AAAAA
3028159 GAAAGTGCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
13 5 0.11
14 3 0.07
15 9 0.20
16 15 0.33
17 9 0.20
18 5 0.11
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAC
Found at i:3028430 original size:16 final size:16
Alignment explanation
Indices: 3028399--3028430 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3028389 TGTTCTTTTC
*
3028399 CAAAAAAGAAACAAAA
1 CAAAAAAGAAAAAAAA
3028415 CAAAAAAGAAAAAAAA
1 CAAAAAAGAAAAAAAA
3028431 GAGAGGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.00
Consensus pattern (16 bp):
CAAAAAAGAAAAAAAA
Found at i:3029428 original size:32 final size:31
Alignment explanation
Indices: 3029349--3029535 Score: 146
Period size: 31 Copynumber: 5.9 Consensus size: 31
3029339 ATTCTTCAAA
* * *
3029349 TCTCTTCTCAAAGTCCATGACTCAGTGGCAATC
1 TCTCTT-T-AAAGTCCACGACTCAGTGGCATTT
* * *
3029382 TCTGC-TCAAAGTCCACGACGCAGTGGCATCCT
1 TCT-CTTTAAAGTCCACGACTCAGTGGCAT-TT
3029414 TCTCTTTAAAGTCCACGACTCAGTGGCATTT
1 TCTCTTTAAAGTCCACGACTCAGTGGCATTT
* * *
3029445 TGTC-TCAAAGTCCACGACTCAGTGACATTT
1 TCTCTTTAAAGTCCACGACTCAGTGGCATTT
* * * *
3029475 TTTCTTTAAAGCCCACAACTCCGTGGCACCTTGT
1 TCTCTTTAAAGTCCACGACTCAGTGGCA--TT-T
* * *
3029509 TC-CTTTTAAGTCCACAACTCCGTGGCA
1 TCTCTTTAAAGTCCACGACTCAGTGGCA
3029536 CTCTTTAAAG
Statistics
Matches: 126, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
30 27 0.21
31 42 0.33
32 25 0.20
33 29 0.23
34 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (31 bp):
TCTCTTTAAAGTCCACGACTCAGTGGCATTT
Found at i:3029468 original size:62 final size:61
Alignment explanation
Indices: 3029349--3029502 Score: 175
Period size: 61 Copynumber: 2.5 Consensus size: 61
3029339 ATTCTTCAAA
* *
3029349 TCTCTTCTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACGCAGTGGCATCCT
1 TCTCTT-T-AAAGTCCACGACTCAGTGGC-ATCTCTGCTCAAAGTCCACGACGCAGTGACAT-CT
* * *
3029414 TCTCTTTAAAGTCCACGACTCAGTGGCAT-TTTGTCTCAAAGTCCACGACTCAGTGACATTT
1 TCTCTTTAAAGTCCACGACTCAGTGGCATCTCTG-CTCAAAGTCCACGACGCAGTGACATCT
* * * *
3029475 TTTCTTTAAAGCCCACAACTCCGTGGCA
1 TCTCTTTAAAGTCCACGACTCAGTGGCA
3029503 CCTTGTTCCT
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
61 28 0.35
62 25 0.32
63 19 0.24
64 1 0.01
65 6 0.08
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (61 bp):
TCTCTTTAAAGTCCACGACTCAGTGGCATCTCTGCTCAAAGTCCACGACGCAGTGACATCT
Found at i:3029580 original size:34 final size:32
Alignment explanation
Indices: 3029473--3030006 Score: 627
Period size: 34 Copynumber: 16.2 Consensus size: 32
3029463 TCAGTGACAT
3029473 TTTTTCTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTTAAAGCCCACAACTCCGTGGCACC
* * *
3029505 TTGTTCCTTTTAAGTCCACAACTCCGTGGCA-C
1 TT-TTTCTTTAAAGCCCACAACTCCGTGGCACC
3029537 ----TCTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTTAAAGCCCACAACTCCGTGGCACC
3029565 TTTTTCTTTCCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTT--AAAGCCCACAACTCCGTGGCACC
3029599 TTCTTT-TTTAAAGCCCACAACTCCGTGGCACC
1 TT-TTTCTTTAAAGCCCACAACTCCGTGGCACC
*
3029631 TTCTTCTTTCCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTT--AAAGCCCACAACTCCGTGGCACC
* *
3029665 TTCTTCTTTCCAAAGCCCATAACTCCGTGGCACC
1 TTTTTCTTT--AAAGCCCACAACTCCGTGGCACC
*
3029699 TTCTTCTTTCCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTT--AAAGCCCACAACTCCGTGGCACC
3029733 TTCTTT-TTTAAAGCCCACAACTCCGTGGCACC
1 TT-TTTCTTTAAAGCCCACAACTCCGTGGCACC
*
3029765 TTCTTCTTTCCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTT--AAAGCCCACAACTCCGTGGCACC
3029799 TTCTTT-TTTAAAGCCCACAACTCCGTGGCACC
1 TT-TTTCTTTAAAGCCCACAACTCCGTGGCACC
*
3029831 TTCTTCTTTCCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTT--AAAGCCCACAACTCCGTGGCACC
*
3029865 TTCTTT-TTTAAAGCCCACAACTCCATGGCACTC
1 TT-TTTCTTTAAAGCCCACAACTCCGTGGCAC-C
* *
3029898 TTTTTCCCTTTTCAAAGCCCAAAACTCCGTGGCACT
1 TTTTT--C-TTT-AAAGCCCACAACTCCGTGGCACC
3029934 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-C
* * * *
3029968 TTTTTCCCTTTTAAGTCCACAACTCCGTGACATC
1 TTTTT--CTTTAAAGCCCACAACTCCGTGGCACC
3030002 TTTTT
1 TTTTT
3030007 TCCTTCCCAA
Statistics
Matches: 448, Mismatches: 24, Indels: 58
0.85 0.05 0.11
Matches are distributed among these distances:
27 23 0.05
28 1 0.00
31 6 0.01
32 116 0.26
33 49 0.11
34 194 0.43
35 30 0.07
36 9 0.02
37 20 0.04
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.31
Consensus pattern (32 bp):
TTTTTCTTTAAAGCCCACAACTCCGTGGCACC
Found at i:3029621 original size:66 final size:66
Alignment explanation
Indices: 3029479--3029965 Score: 754
Period size: 66 Copynumber: 7.4 Consensus size: 66
3029469 ACATTTTTTC
* * *
3029479 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTT--TAAGTCCACAACTCCGTGGCA-C-TC-
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTT-CTTTCCAAAGCCCACAACTCCGTGGCACCTTCT
3029539 --
65 TT
*
3029539 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT
3029604 T
66 T
3029605 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT
3029670 CT
66 -T
* *
3029672 TTCCAAAGCCCATAACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCT
1 TT-TAAAGCCCACAACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCT
3029737 TT
65 TT
3029739 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT
3029804 T
66 T
3029805 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT
3029870 T
66 T
* * * * *
3029871 TTTAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCAAAACTCCGTGGCACTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTCCAAAGCCCACAACTCCGTGGCACCTT
*
3029936 TTTCT
63 CTT-T
3029941 TTTAAAGCCCACAACTCCGTGGCAC
1 TTTAAAGCCCACAACTCCGTGGCAC
3029966 TCTTTTTCCC
Statistics
Matches: 399, Mismatches: 15, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
59 4 0.01
60 30 0.08
61 19 0.05
62 1 0.00
63 2 0.01
66 216 0.54
67 11 0.03
68 61 0.15
69 30 0.08
70 25 0.06
ACGTcount: A:0.22, C:0.37, G:0.12, T:0.29
Consensus pattern (66 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT
T
Found at i:3029666 original size:100 final size:100
Alignment explanation
Indices: 3029473--3029973 Score: 690
Period size: 100 Copynumber: 5.1 Consensus size: 100
3029463 TCAGTGACAT
* *
3029473 TTTTTCTTT--AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCCGTGGC
1 TTTTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT-CTTTTAAAGCCCACAACTCCGTGGC
3029535 A----C-TCTTT-AAAGCCCACAACTCCGTGGCACC
65 ACCTTCTTCTTTCAAAGCCCACAACTCCGTGGCACC
3029565 TTTTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT-TTTTAAAGCCCACAACTCCGTGGCA
1 TTTTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCA
3029629 CCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACC
66 CCTTCTTCTTT-CAAAGCCCACAACTCCGTGGCACC
* * *
3029665 TTCTTCTTTCCAAAGCCCATAACTCCGTGGCACCTTCTTCTTTCCAAAGCCCACAACTCCGTGGC
1 TTTTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT-TAAAGCCCACAACTCCGTGGC
*
3029730 ACCTTCTT-TTTTAAAGCCCACAACTCCGTGGCACC
65 ACCTTCTTCTTTCAAAGCCCACAACTCCGTGGCACC
*
3029765 TTCTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT-TTTTAAAGCCCACAACTCCGTGGCA
1 TTTTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCA
3029829 CCTTCTTCTTTCCAAAGCCCACAACTCCGTGGCACC
66 CCTTCTTCTTT-CAAAGCCCACAACTCCGTGGCACC
* * *
3029865 TTCTTT-TTT--AAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCAAAACTCCG
1 TT-TTTCTTTCCAAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTT-AAAGCCCACAACTCCG
* * *
3029927 TGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC
61 TGGCACCTTCTTCTTTCAAAGCCCACAACTCCGTGGCAC-C
3029968 TTTTTC
1 TTTTTC
3029974 CCTTTTAAGT
Statistics
Matches: 371, Mismatches: 16, Indels: 33
0.88 0.04 0.08
Matches are distributed among these distances:
92 13 0.04
93 19 0.05
94 27 0.07
97 1 0.00
98 54 0.15
99 11 0.03
100 149 0.40
101 8 0.02
102 57 0.15
103 32 0.09
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.31
Consensus pattern (100 bp):
TTTTTCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCA
CCTTCTTCTTTCAAAGCCCACAACTCCGTGGCACC
Found at i:3030045 original size:32 final size:31
Alignment explanation
Indices: 3030008--3030105 Score: 160
Period size: 32 Copynumber: 3.1 Consensus size: 31
3029998 CATCTTTTTT
3030008 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
*
3030039 CTCTTCCTAAAGCCCACACAAGTCGGTGGCAA
1 C-CTTCCCAAAGCCCACACAAGTCGGTGGCAA
3030071 CCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTC--CCAAAGCCCACACAAGTCGGTGGCAA
3030104 CC
1 CC
3030106 CTTCTAAGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 5 0.08
32 30 0.48
33 27 0.44
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.16
Consensus pattern (31 bp):
CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
Found at i:3030089 original size:33 final size:33
Alignment explanation
Indices: 3030013--3030110 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
3030003 TTTTTCCTTC
3030013 CCAAAGCCCACACAAGTCGGTGGCAA-C-TCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTTCTT
3030044 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACCTTCTT
3030078 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 CCAAAGCCCACACAAGTCGGTGGCAA-CCTTCT
3030111 AAGCCCAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
31 2 0.03
32 24 0.38
33 25 0.40
34 12 0.19
ACGTcount: A:0.28, C:0.37, G:0.18, T:0.17
Consensus pattern (33 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTTCTT
Found at i:3030280 original size:49 final size:49
Alignment explanation
Indices: 3030110--3030627 Score: 664
Period size: 49 Copynumber: 10.6 Consensus size: 49
3030100 GCAACCCTTC
* *
3030110 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
*
3030162 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* *
3030214 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3030263 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3030312 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3030361 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3030410 GAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3030453 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
3030502 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3030545 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTT
*
3030597 TAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCA
3030628 CGTTGACATC
Statistics
Matches: 413, Mismatches: 38, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
43 77 0.19
45 2 0.00
47 1 0.00
49 211 0.51
50 3 0.01
52 119 0.29
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:3030349 original size:98 final size:98
Alignment explanation
Indices: 3030110--3030694 Score: 789
Period size: 98 Copynumber: 5.9 Consensus size: 98
3030100 GCAACCCTTC
* * * *
3030110 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATC
*
3030175 GCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
63 GCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTT
*
3030214 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
3030279 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
*
3030312 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
3030377 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
3030410 GAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
3030469 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
*
3030502 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
*
3030561 GGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
66 GGCCTTGAATCAGCATATTGG--CATCTT-CATCTT
* * * *
3030597 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC----T-TCATCTTTAAGTCCAAT
* * *
3030662 ATCGTTGGCCGTGAATCAACATATTGGCATCTT
60 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
3030695 TATCACTTTT
Statistics
Matches: 446, Mismatches: 20, Indels: 29
0.90 0.04 0.06
Matches are distributed among these distances:
92 129 0.29
94 6 0.01
95 42 0.09
98 142 0.32
99 3 0.01
101 44 0.10
102 2 0.00
104 37 0.08
105 6 0.01
107 35 0.08
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (98 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
GGCCTTGAATCAGCATATTGGCATCTTCATCTT
Found at i:3030472 original size:43 final size:44
Alignment explanation
Indices: 3030406--3030584 Score: 236
Period size: 43 Copynumber: 4.0 Consensus size: 44
3030396 GGCATCTTCA
* * * *
3030406 TCTTGAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
*
3030450 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
* *
3030497 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
3030542 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
3030585 ATTTTCCATC
Statistics
Matches: 119, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
43 78 0.66
45 1 0.01
47 1 0.01
49 39 0.33
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:3030478 original size:92 final size:92
Alignment explanation
Indices: 3030358--3030628 Score: 470
Period size: 92 Copynumber: 2.9 Consensus size: 92
3030348 GCACCTTCAT
*
3030358 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
3030423 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
3030450 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
3030515 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
3030542 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
3030607 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
3030629 GTTGACATCC
Statistics
Matches: 171, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
92 129 0.75
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:3030671 original size:55 final size:52
Alignment explanation
Indices: 3030542--3030679 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
3030532 ACATTGGCAC
* *
3030542 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
3030594 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
3030649 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
3030680 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:3030864 original size:43 final size:43
Alignment explanation
Indices: 3030816--3030909 Score: 188
Period size: 43 Copynumber: 2.2 Consensus size: 43
3030806 CCTTTTTCAT
3030816 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGG
1 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGG
3030859 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGG
1 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGG
3030902 CATCTTTA
1 CATCTTTA
3030910 TCACTTTTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (43 bp):
CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGG
Found at i:3030914 original size:213 final size:212
Alignment explanation
Indices: 3030646--3031070 Score: 807
Period size: 213 Copynumber: 2.0 Consensus size: 212
3030636 TCCTTTTTCT
3030646 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATC
1 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATC
*
3030711 TTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCA
66 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCA
3030776 ATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCATCATCTTT-AAGCCCAATATCGTTGG
131 ATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTC-TCATCTTTGAA-CCCAATATCGTTGG
3030840 CCGTGAATCAACATATTGG
194 CCGTGAATCAACATATTGG
3030859 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATC
1 CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATC
3030924 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCA
66 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCA
3030989 ATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCC
131 ATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCC
*
3031054 GTGAATCAACGTATTGG
196 GTGAATCAACATATTGG
3031071 TCCTTTTATC
Statistics
Matches: 209, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
212 40 0.19
213 169 0.81
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (212 bp):
CATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATC
TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCA
ATATCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCC
GTGAATCAACATATTGG
Found at i:3031747 original size:33 final size:33
Alignment explanation
Indices: 3031710--3031779 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
3031700 TTCAACGATT
3031710 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
3031743 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
3031776 TGTA
1 TGTA
3031780 AGCTACTACC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:3031748 original size:13 final size:13
Alignment explanation
Indices: 3031730--3031754 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3031720 CATAAAATGT
3031730 TGTATCGATACAA
1 TGTATCGATACAA
3031743 TGTATCGATACA
1 TGTATCGATACA
3031755 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3031837 original size:13 final size:13
Alignment explanation
Indices: 3031819--3031843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3031809 ATTACTCACA
3031819 TGTATCGATACAT
1 TGTATCGATACAT
3031832 TGTATCGATACA
1 TGTATCGATACA
3031844 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3031908 original size:52 final size:52
Alignment explanation
Indices: 3031852--3031980 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
3031842 CACTGATCTT
*
3031852 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
3031904 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
3031956 TGTATCGATACATGCAAATAAATTT
1 TGTATCGATACATGCAGACAAATTT
3031981 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3035896 original size:19 final size:19
Alignment explanation
Indices: 3035874--3035936 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
3035864 TAGCCAAACT
3035874 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
3035893 TGTATCGAT--A-C-A--A
1 TGTATCGATACACCAAGTA
3035906 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
3035925 TGTATCGATACA
1 TGTATCGATACA
3035937 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 2 0.05
17 2 0.05
19 22 0.58
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACCAAGTA
Found at i:3035910 original size:13 final size:13
Alignment explanation
Indices: 3035892--3035949 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
3035882 TACACCAAGT
3035892 ATGTATCGATACA
1 ATGTATCGATACA
3035905 ATGTATCGATACACCAA
1 ATGTATCGAT--A-C-A
3035922 GTATGTATCGATACA
1 --ATGTATCGATACA
3035937 ATGTATCGATACA
1 ATGTATCGATACA
3035950 CAAAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
15 2 0.05
16 2 0.05
17 2 0.05
19 10 0.26
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3035915 original size:32 final size:32
Alignment explanation
Indices: 3035874--3035969 Score: 156
Period size: 32 Copynumber: 3.0 Consensus size: 32
3035864 TAGCCAAACT
3035874 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
3035906 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
* **
3035938 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACCAAGTA-TGTATCGATACA
3035970 TTGGCTTGTA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 48 0.80
33 12 0.20
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAGTATGTATCGATACAA
Found at i:3038203 original size:21 final size:21
Alignment explanation
Indices: 3038170--3038219 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
3038160 TTGCAAGTTG
*
3038170 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3038192 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
3038213 AAATAAA
1 AAATAAA
3038220 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:3042144 original size:13 final size:13
Alignment explanation
Indices: 3042126--3042163 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3042116 CATTTTTCTT
*
3042126 TGTATCGATGCAA
1 TGTATCGATACAA
*
3042139 TGTATCGATACAC
1 TGTATCGATACAA
3042152 TGTATCGATACA
1 TGTATCGATACA
3042164 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3042318 original size:20 final size:20
Alignment explanation
Indices: 3042275--3042320 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3042265 AAATCTTTTG
3042275 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
3042296 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
3042316 CAAAA
1 CAAAA
3042321 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:3044717 original size:13 final size:13
Alignment explanation
Indices: 3044699--3044724 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3044689 TACACCAAGT
3044699 ATGTATCGATACA
1 ATGTATCGATACA
3044712 ATGTATCGATACA
1 ATGTATCGATACA
3044725 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3044722 original size:32 final size:33
Alignment explanation
Indices: 3044681--3044744 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3044671 TAGCCAAACT
* **
3044681 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
3044713 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
3044745 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:3045613 original size:34 final size:34
Alignment explanation
Indices: 3045570--3045635 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
3045560 AAGGGGGAGA
3045570 GAAAGGAGAAAATATGTGCAAATAAATTTTTTTT
1 GAAAGGAGAAAATATGTGCAAATAAATTTTTTTT
3045604 GAAAGGAGAAAATATGTGCAAATAAATTTTTT
1 GAAAGGAGAAAATATGTGCAAATAAATTTTTT
3045636 GATTAAGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (34 bp):
GAAAGGAGAAAATATGTGCAAATAAATTTTTTTT
Found at i:3046263 original size:20 final size:19
Alignment explanation
Indices: 3046240--3046294 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
3046230 ATACACATTT
**
3046240 AAATGTATCGATACATGACC
1 AAATGTATCGATACAT-AAA
3046260 AAATGTATCGATACATAAA
1 AAATGTATCGATACATAAA
3046279 AAGATGTATCGATACA
1 AA-ATGTATCGATACA
3046295 GGTCATTGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (19 bp):
AAATGTATCGATACATAAA
Found at i:3047456 original size:22 final size:19
Alignment explanation
Indices: 3047421--3047470 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
3047411 TTTTGATGAA
3047421 GATTTTG-ATGAAAAACAGAT
1 GATTTTGAATG-AAAA-AGAT
3047441 GATTTTGACATGAAAAAGAT
1 GATTTTGA-ATGAAAAAGAT
3047461 GAATTTTGAA
1 G-ATTTTGAA
3047471 AAGGAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 13 0.48
21 11 0.41
22 3 0.11
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.32
Consensus pattern (19 bp):
GATTTTGAATGAAAAAGAT
Found at i:3050647 original size:19 final size:21
Alignment explanation
Indices: 3050604--3050653 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
3050594 TTCAATAATT
3050604 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
*
3050625 TGTATCGATACATA-AGT-AA
1 TGTATCGATACAAACAGTAAA
3050644 TGTATCGATA
1 TGTATCGATA
3050654 TAGTGTATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:3050726 original size:13 final size:13
Alignment explanation
Indices: 3050708--3050733 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3050698 ATTTGTAGAA
3050708 TGTATCGATACAT
1 TGTATCGATACAT
3050721 TGTATCGATACAT
1 TGTATCGATACAT
3050734 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3050783 original size:51 final size:49
Alignment explanation
Indices: 3050721--3050855 Score: 171
Period size: 51 Copynumber: 2.6 Consensus size: 49
3050711 ATCGATACAT
**
3050721 TGTATCGATACATCGATCTTTGTATTGATACATCTAGGAAGTTTACCCAGA
1 TGTATCGATACATC-A-CAATGTATTGATACATCTAGGAAGTTTACCCAGA
*
3050772 TGTATCGATACATTTCACAATGTATTGATACATCTAGGAAGTTTACCTAGA
1 TGTATCGATACA--TCACAATGTATTGATACATCTAGGAAGTTTACCCAGA
* *
3050823 TGAATCGATACATTTCACAATGTATCGATACAT
1 TGTATCGATACA--TCACAATGTATTGATACAT
3050856 TCAGGCATTT
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
51 74 0.96
52 1 0.01
53 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (49 bp):
TGTATCGATACATCACAATGTATTGATACATCTAGGAAGTTTACCCAGA
Found at i:3053197 original size:51 final size:51
Alignment explanation
Indices: 3053141--3053380 Score: 238
Period size: 51 Copynumber: 4.7 Consensus size: 51
3053131 TTAAGTTTCT
*
3053141 CAATTTTTCATAATCGAGGG-TACTCCAACCCCGGTTTTA-TTTCTAAAACAC
1 CAATTTTTCACAATCG-GGGATACTCCAACCCCGGTTTTATTTTC-AAAACAC
* * * * * *
3053192 TAATTTTCCACAATCGGGGATACTCAAACTCCGATTTTATTTTCGAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
* * *
3053243 CAATTTTTCACAATCGGGGATACTCTAACCCTGGTTTTATTTTCGAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
** * * * *
3053294 CAA-TTTTCTATTATCGAGGATACTCCAA-CTCGGATATTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGG-TTTTATTTTC-AAAACAC
* *
3053346 TAATTTTTCACAATCGGGGATACTTCAA-CCCGGTT
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTT
3053381 ACTCATCGAG
Statistics
Matches: 154, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
50 11 0.07
51 107 0.69
52 31 0.20
53 5 0.03
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
Found at i:3053317 original size:102 final size:103
Alignment explanation
Indices: 3053141--3053380 Score: 290
Period size: 102 Copynumber: 2.3 Consensus size: 103
3053131 TTAAGTTTCT
* *
3053141 CAATTTTTCATAATCGAGGG-TACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAA
1 CAATTTTTCACAATCG-GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAA
* * * *
3053205 TCGGGGATACTCAAACTCCGATTTTATTTTC-GAAACAC
65 TCGAGGATACTCAAACTCCGATATTATTTCCAAAAACAC
* * * * **
3053243 CAATTTTTCACAATCGGGGATACTCTAACCCTGGTTTTATTT-TCGAAACACCAATTTTCTATTA
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTCCACAA
* *
3053307 TCGAGGATACTCCAACTCGGATATTATTTCCAAAAACAC
65 TCGAGGATACTCAAACTCCGATATTATTTCCAAAAACAC
* *
3053346 TAATTTTTCACAATCGGGGATACTTCAA-CCCGGTT
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTT
3053381 ACTCATCGAG
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
101 4 0.03
102 82 0.70
103 31 0.26
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (103 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAAT
CGAGGATACTCAAACTCCGATATTATTTCCAAAAACAC
Found at i:3053473 original size:79 final size:79
Alignment explanation
Indices: 3053385--3053640 Score: 440
Period size: 79 Copynumber: 3.2 Consensus size: 79
3053375 CCGGTTACTC
*
3053385 ATCGAGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
*
3053450 ATTGATTTCTCATA
66 ATTGATTTCTCACA
3053464 ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
3053529 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* * * * * *
3053543 ATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
3053608 ATTGATTTCTCACA
66 ATTGATTTCTCACA
3053622 ATCGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
3053641 CGGCTTTATT
Statistics
Matches: 168, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 168 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
ATTGATTTCTCACA
Found at i:3053650 original size:51 final size:51
Alignment explanation
Indices: 3053574--3053693 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
3053564 TTATTTTCGA
* * *
3053574 GGGGATACTCCAACCCCAGTTTTATTTCTAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATC
*
3053625 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATC
* *
3053676 TGGGATACTCCGACCCCG
1 GGGGATACTCCAACCCCG
3053694 TTATTTCCTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATC
Found at i:3053653 original size:130 final size:130
Alignment explanation
Indices: 3053495--3053772 Score: 441
Period size: 130 Copynumber: 2.1 Consensus size: 130
3053485 TTATTTCCGA
3053495 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATC-GGGAATACTCCAA
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCTGGG-ATACTCCAA
* * * *
3053559 CCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAATATTGATTTCTCACAAT
65 CCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTCCTAAAATATTGATTTCTCACAAC
3053624 C
130 C
* *
3053625 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCTGGGATACTCCGAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCTGGGATACTCCAAC
* ** *
3053690 CCCGTTATTTCCTAGGGGATACTCCAACCCTGGCTTTATTCCTAAAATATTGATTTCTCATAACC
66 CCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTCCTAAAATATTGATTTCTCACAACC
*
3053755 AGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
3053773 TTATTTCCGA
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
130 133 0.98
131 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (130 bp):
GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCTGGGATACTCCAAC
CCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTCCTAAAATATTGATTTCTCACAACC
Found at i:3053655 original size:209 final size:209
Alignment explanation
Indices: 3053416--3053799 Score: 680
Period size: 209 Copynumber: 1.8 Consensus size: 209
3053406 TTATTTCCGA
3053416 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
* *
3053481 CCTGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATC
66 CCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAACC
*
3053546 -GGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAATAT
131 AGGG-ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAATAT
3053610 TGATTTCTCACAATC
195 TGATTTCTCACAATC
* *
3053625 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCTGGGATACTCCGAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
* * *
3053690 CCCGTTATTTCCTAGGGGATACTCCAACCCTGGCTTTATTCCTAAAATATTGATTTCTCATAACC
66 CCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAACC
3053755 AGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC
131 AGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC
3053800 GGCATTATTA
Statistics
Matches: 166, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
209 163 0.98
210 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (209 bp):
GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAACC
AGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAATATT
GATTTCTCACAATC
Found at i:3053708 original size:79 final size:79
Alignment explanation
Indices: 3053625--3053808 Score: 314
Period size: 79 Copynumber: 2.3 Consensus size: 79
3053615 TCTCACAATC
* * *
3053625 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCTGGGATACTCCGAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAACCAGGGATACTCCAAC
*
3053690 CCCGTTATTTCCTA
66 CCCGTTATTTCCGA
*
3053704 GGGGATACTCCAACCCTGGCTTTATTCCTAAAATATTGATTTCTCATAACCAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAACCAGGGATACTCCAAC
3053769 CCCGTTATTTCCGA
66 CCCGTTATTTCCGA
*
3053783 GGGGATACTCCAACCCCGGCATTATT
1 GGGGATACTCCAACCCCGGCTTTATT
3053809 ATCTCCAAAA
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 98 1.00
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.30
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAACCAGGGATACTCCAAC
CCCGTTATTTCCGA
Found at i:3055500 original size:13 final size:13
Alignment explanation
Indices: 3055482--3055520 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
3055472 ACTATTTATG
3055482 ATGTATCGATACA
1 ATGTATCGATACA
3055495 ATGTATCGATACA
1 ATGTATCGATACA
3055508 ATGTATCGATACA
1 ATGTATCGATACA
3055521 TGAATAGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3055612 original size:22 final size:22
Alignment explanation
Indices: 3055557--3055612 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
3055547 ACAGTGACTT
3055557 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
3055579 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
3055600 ATGAACAGTGATG
1 ATGAACAGTGATG
3055613 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:3055619 original size:10 final size:10
Alignment explanation
Indices: 3055600--3055630 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3055590 GTATCGATAC
3055600 ATGAACAGTG
1 ATGAACAGTG
*
3055610 ATGAATAGTG
1 ATGAACAGTG
3055620 ATGAACAGTG
1 ATGAACAGTG
3055630 A
1 A
3055631 AAAATGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:3055722 original size:53 final size:53
Alignment explanation
Indices: 3055655--3055791 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
3055645 CTACTGCCAA
*
3055655 TGTATCGATGCATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
3055708 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
3055761 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
3055792 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:3055824 original size:20 final size:20
Alignment explanation
Indices: 3055761--3055831 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
3055751 GCCAATGTCC
**
3055761 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
3055781 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
3055801 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
3055821 TGTATCGATAC
1 TGTATCGATAC
3055832 TTTTCAGAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:3055898 original size:21 final size:21
Alignment explanation
Indices: 3055872--3055912 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3055862 TCAACCTTTG
3055872 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
3055893 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
3055913 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:3059628 original size:19 final size:20
Alignment explanation
Indices: 3059597--3059640 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
3059587 TCGTGTATTG
3059597 ATACAATTGAGCATATATCA
1 ATACAATTGAGCATATATCA
* *
3059617 ATACAA-TGAGCATGTATCG
1 ATACAATTGAGCATATATCA
3059636 ATACA
1 ATACA
3059641 TCTGGATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (20 bp):
ATACAATTGAGCATATATCA
Found at i:3059789 original size:13 final size:13
Alignment explanation
Indices: 3059771--3059798 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3059761 ACAATTATTC
3059771 ATGTATCGATACA
1 ATGTATCGATACA
3059784 ATGTATCGATACA
1 ATGTATCGATACA
3059797 AT
1 AT
3059799 ATCTCATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3059792 original size:33 final size:33
Alignment explanation
Indices: 3059750--3059816 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
3059740 CGTTAGGCAT
3059750 AATGTATCGATACAATTAT-TCATGTATCGATAC
1 AATGTATCGATACAA-TATCTCATGTATCGATAC
3059783 AATGTATCGATACAATATCTCATGTATCGATAC
1 AATGTATCGATACAATATCTCATGTATCGATAC
3059816 A
1 A
3059817 TTTCACTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (33 bp):
AATGTATCGATACAATATCTCATGTATCGATAC
Found at i:3059809 original size:20 final size:19
Alignment explanation
Indices: 3059751--3059816 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
3059741 GTTAGGCATA
3059751 ATGTATCGATACAATTATTC
1 ATGTATCGATACAA-TATTC
3059771 ATGTATCGATAC---A---
1 ATGTATCGATACAATATTC
3059784 ATGTATCGATACAATATCTC
1 ATGTATCGATACAATAT-TC
3059804 ATGTATCGATACA
1 ATGTATCGATACA
3059817 TTTCACTTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.31
16 2 0.05
20 25 0.64
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (19 bp):
ATGTATCGATACAATATTC
Found at i:3059895 original size:237 final size:235
Alignment explanation
Indices: 3059463--3059896 Score: 504
Period size: 237 Copynumber: 1.8 Consensus size: 235
3059453 CAATTCAGAC
* * * *
3059463 TGTATTGATACATGCATTTGAAATTAAAGCCGTTTATAGTCGTTGGGCATAATGTATCGATACAA
1 TGTATCGATACATGCATTTGAAATTAAAGCCATTTATAGCCGTTAGGCATAATGTATCGATACAA
* * * ** * *
3059528 TTCTTCATGTATCAATACAATGTATCGATACAATTCACTTAGGGTAGCTACTACTAGTTTCGTGT
66 TTATTCATGTATCAATACAATGTATCGATACAATTCACTTACGATAGCTACTACTAGGGTAGTCT
* * ** *
3059593 ATTGATACAATTGAGCATATATCAATACAATGAGCATGTATCGATACATCTGGATATGCATCGAT
131 ACTGA-ACAATT-AGCATATATCAATACAATGAGCATGTATCAATACAAATGGACATGCATCGAT
3059658 ACTTTCTAGGGTTTTGACCGTTGTAGCTTAATTCAATCTTAA
194 ACTTTCTAGGGTTTTGACCGTTGTAGCTTAATTCAATCTTAA
*
3059700 TGTATCGATACATGCATTTGAAATTAAAGCTATTTATAGCCGTTAGGCATAATGTATCGATACAA
1 TGTATCGATACATGCATTTGAAATTAAAGCCATTTATAGCCGTTAGGCATAATGTATCGATACAA
* * *
3059765 TTATTCATGTATCGATACAATGTATCGATACAATATCTCATGTATCGATA-C-ATTTCACTTAGG
66 TTATTCATGTATCAATACAATGTATCGATACAAT-TCAC-T-TA-CGATAGCTA-CT-AC-TAGG
* * *
3059828 GTAG-CTACTG-CCAATT-TCATATATCGATACAATTGAGCATGTATCAATA-AAAT-GAGCATG
124 GTAGTCTACTGAACAATTAGCATATATCAATACAA-TGAGCATGTATCAATACAAATGGA-CATG
*
3059888 TATCGATAC
187 CATCGATAC
3059897 ATCTGGATAT
Statistics
Matches: 164, Mismatches: 24, Indels: 18
0.80 0.12 0.09
Matches are distributed among these distances:
236 2 0.01
237 119 0.73
238 18 0.11
239 7 0.04
240 4 0.02
241 9 0.05
242 5 0.03
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (235 bp):
TGTATCGATACATGCATTTGAAATTAAAGCCATTTATAGCCGTTAGGCATAATGTATCGATACAA
TTATTCATGTATCAATACAATGTATCGATACAATTCACTTACGATAGCTACTACTAGGGTAGTCT
ACTGAACAATTAGCATATATCAATACAATGAGCATGTATCAATACAAATGGACATGCATCGATAC
TTTCTAGGGTTTTGACCGTTGTAGCTTAATTCAATCTTAA
Found at i:3062210 original size:24 final size:26
Alignment explanation
Indices: 3062181--3062233 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
3062171 AATAAAAAGA
*
3062181 TAATATAATATATTTAA-ATATAT-T
1 TAATATAACATATTTAATATATATAT
*
3062205 TAATATGACATATTTAATATATATAT
1 TAATATAACATATTTAATATATATAT
3062231 TAA
1 TAA
3062234 ATTTATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.60
25 6 0.24
26 4 0.16
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
TAATATAACATATTTAATATATATAT
Found at i:3062760 original size:21 final size:21
Alignment explanation
Indices: 3062736--3062775 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3062726 ACTATCTTTG
3062736 TTTCTATTCAT-TTCCTATATT
1 TTTCTATTCATATT-CTATATT
3062757 TTTCTATTCATATTCTATA
1 TTTCTATTCATATTCTATA
3062776 AAGTTAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTCTATTCATATTCTATATT
Found at i:3064067 original size:18 final size:18
Alignment explanation
Indices: 3064044--3064079 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3064034 AAACTTGATA
3064044 ATAATTAAAAATATTTTT
1 ATAATTAAAAATATTTTT
3064062 ATAATTAAAAATATTTTT
1 ATAATTAAAAATATTTTT
3064080 TAAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAATTAAAAATATTTTT
Found at i:3064207 original size:25 final size:25
Alignment explanation
Indices: 3064154--3064204 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
3064144 TTAAAAAATT
*
3064154 AATATATTTTATAATAAATTTTAAA
1 AATATATATTATAATAAATTTTAAA
*
3064179 AATATATATTAT-TTAAATTTTAAA
1 AATATATATTATAATAAATTTTAAA
3064203 AA
1 AA
3064205 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATATATATTATAATAAATTTTAAA
Found at i:3064216 original size:24 final size:25
Alignment explanation
Indices: 3064168--3064225 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
3064158 TATTTTATAA
* *
3064168 TAAATTTT-AAAAATATATATTATT
1 TAAATTTTAAAAAATAAATATAATT
3064192 TAAATTTTAAAAAATAAATA-AATT
1 TAAATTTTAAAAAATAAATATAATT
*
3064216 T-ATTTTTAAA
1 TAAATTTTAAA
3064226 TTCAAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.27
24 12 0.40
25 10 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAATTTTAAAAAATAAATATAATT
Found at i:3066907 original size:3 final size:3
Alignment explanation
Indices: 3066901--3066927 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3066891 TTTTAGACTG
3066901 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
3066928 ATGTATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3068754 original size:21 final size:21
Alignment explanation
Indices: 3068705--3068748 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
3068695 GGTCCAACCC
3068705 AAAATAATATATTTTTATATT
1 AAAATAATATATTTTTATATT
3068726 AAAATAATATATTTTTAT-TT
1 AAAATAATATATTTTTATATT
3068746 AAA
1 AAA
3068749 TTTAATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATAATATATTTTTATATT
Found at i:3070091 original size:2 final size:2
Alignment explanation
Indices: 3070086--3070110 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3070076 AATTAGAATC
3070086 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 T
3070111 GTTATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3070324 original size:11 final size:11
Alignment explanation
Indices: 3070310--3070344 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
3070300 TATATTAAGT
3070310 TTATTTTTTTA
1 TTATTTTTTTA
* *
3070321 TTATGTTTTAA
1 TTATTTTTTTA
3070332 TTATTTTTTTA
1 TTATTTTTTTA
3070343 TT
1 TT
3070345 CTTATTATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (11 bp):
TTATTTTTTTA
Found at i:3071236 original size:14 final size:14
Alignment explanation
Indices: 3071217--3071248 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
3071207 TTCGAATAGA
3071217 CAACAAAATTGAAG
1 CAACAAAATTGAAG
3071231 CAACAAAATTGAAG
1 CAACAAAATTGAAG
3071245 CAAC
1 CAAC
3071249 GCGAAGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.56, C:0.19, G:0.12, T:0.12
Consensus pattern (14 bp):
CAACAAAATTGAAG
Found at i:3072715 original size:27 final size:26
Alignment explanation
Indices: 3072685--3072747 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 26
3072675 ATTATATTTC
*
3072685 TATTAAAAAATAAAATTATTAAAATTA
1 TATTAAAAAAT-AAATTATTAAAATAA
3072712 TATTATAAAAATAAATTATTAAAATAA
1 TATTA-AAAAATAAATTATTAAAATAA
*
3072739 AATTAAAAA
1 TATTAAAAA
3072748 TACTGAAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 4 0.12
27 23 0.70
28 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
TATTAAAAAATAAATTATTAAAATAA
Found at i:3072720 original size:13 final size:14
Alignment explanation
Indices: 3072691--3072743 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
3072681 TTTCTATTAA
*
3072691 AAAATAAAATTATT
1 AAAATTAAATTATT
*
3072705 AAAATTATATTA-T
1 AAAATTAAATTATT
*
3072718 AAAAATAAATTATT
1 AAAATTAAATTATT
*
3072732 AAAATAAAATTA
1 AAAATTAAATTA
3072744 AAAATACTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 11 0.34
14 21 0.66
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATTAAATTATT
Found at i:3073093 original size:21 final size:20
Alignment explanation
Indices: 3073069--3073127 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
3073059 AAATTAATTT
3073069 TAATAAGATTAATTATTATAA
1 TAATAAGATTAA-TATTATAA
*
3073090 TAATAAAATTGAATATTATAA
1 TAATAAGATT-AATATTATAA
** *
3073111 TGTTAAGATTAAAATTA
1 TAATAAGATTAATATTA
3073128 ATGGTGAGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 24 0.75
22 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
TAATAAGATTAATATTATAA
Found at i:3073518 original size:16 final size:16
Alignment explanation
Indices: 3073493--3073529 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
3073483 AAATGGAATA
*
3073493 AAAATGAATTAAAAAG
1 AAAATAAATTAAAAAG
3073509 AAAATAAATTAAAAAG
1 AAAATAAATTAAAAAG
*
3073525 GAAAT
1 AAAAT
3073530 GAAGAAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (16 bp):
AAAATAAATTAAAAAG
Found at i:3080331 original size:156 final size:155
Alignment explanation
Indices: 3079949--3080344 Score: 469
Period size: 155 Copynumber: 2.5 Consensus size: 155
3079939 AATCACAAGC
* * * *
3079949 GACTTGGTTTTAATGTAAAATTATTAAAATACTCTTGA-GGTATACCTTCGACATGAAAGTATCA
1 GACTTGGTTCTAATG-AAAATTATCAAAATAC-CTTTAGGGTATACTTTCGACATGAAAGTATC-
* * * * *
3080013 TGGTAACCCTAAAAGACTTGAAAATGAACATAAAAAGGTGATCCTATCCTAAATGCACACTTTTG
63 TTGTAACCCTAAAAGACTTGAAAATCAACATAAAAAGATGAACCTATCCTAAATGCACACCTTTG
* * * * *
3080078 GTATAAAATCATGCCGGTAACTATATTA
128 GCATAAAAGCATGCCAGTAACTACATCA
* * *
3080106 GACTCGGTTCTAA-GAAAATTATCATAATGCCTTTAGGGTATACTTTCGACATGAAAGTATCTTG
1 GACTTGGTTCTAATGAAAATTATCAAAATACCTTTAGGGTATACTTTCGACATGAAAGTATCTTG
*
3080170 ATAACCTTAAAAGACTCT-AAAA-CAACCATAAAAAGATGAACCTATCCTAAATGCACACCTTTG
66 -TAACCCTAAAAGACT-TGAAAATCAA-CATAAAAAGATGAACCTATCCTAAATGCACACCTTTG
* * * *
3080233 GCATGAAAGCGT-CTAGTGACTACATCA
128 GCATAAAAGCATGCCAGTAACTACATCA
* *
3080260 GACTTGGTTCTAATGCAAAATTACCAAAATACCTTTAGGGTATACTTTCAACATGAAAGTATCTT
1 GACTTGGTTCTAATG-AAAATTATCAAAATACCTTTAGGGTATACTTTCGACATGAAAGTATCTT
3080325 AGTAACCCTAAAAGACTTGA
65 -GTAACCCTAAAAGACTTGA
3080345 TATGATATTA
Statistics
Matches: 203, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
154 30 0.15
155 99 0.49
156 62 0.31
157 12 0.06
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (155 bp):
GACTTGGTTCTAATGAAAATTATCAAAATACCTTTAGGGTATACTTTCGACATGAAAGTATCTTG
TAACCCTAAAAGACTTGAAAATCAACATAAAAAGATGAACCTATCCTAAATGCACACCTTTGGCA
TAAAAGCATGCCAGTAACTACATCA
Found at i:3089553 original size:13 final size:13
Alignment explanation
Indices: 3089535--3089559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3089525 TACAAAGGTC
3089535 AATGTATCGATAT
1 AATGTATCGATAT
3089548 AATGTATCGATA
1 AATGTATCGATA
3089560 CATTTGAGTA
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:3090544 original size:102 final size:100
Alignment explanation
Indices: 3090401--3090899 Score: 355
Period size: 101 Copynumber: 4.8 Consensus size: 100
3090391 ATGCGCTGAT
* ** *
3090401 TCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGCCAGCG
1 TCAAGGCCAGCGACATT-GGACTTAAAGATGA--AAGGCGCCAATATGCTGATTCAAGGCCAACG
** *
3090466 ATACT-GATCTTTAAAGATG-AAGGTGCCAATGTGCTAAA
63 ATACTGGA-C-TTAAAGATGAAAGGCACCAATATGCTAAA
3090504 TCAAGGCCAGCGACATTGGACTTAAAGATGATTAAGGCGCCAATATGCTGATTCAAGGCCAACGA
1 TCAAGGCCAGCGACATTGGACTTAAAGATGA--AAGGCGCCAATATGCTGATTCAAGGCCAACGA
* * *
3090569 TATTGGACTTAAAGATGATAAAGGCACCAATATGCTGAT
64 TACTGGACTTAAAGATG--AAAGGCACCAATATGCTAAA
* * * * *
3090608 TTAATGG-CAGCGATATTGGACTTAAAGATG-AAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
1 TCAA-GGCCAGCGACATTGGACTTAAAGATGAAAGGCGCCAATATGCTGATTCAAGGCCAACGAT
* * * * *
3090671 ATTGGTCTTAAAGAGGATGAGAAAAGTGATAAAGGTGCCAATATGCTGAT
65 ACTGGACTT-AA-A-GAT--G-AAAG-G---CA----CCAATATGCTAAA
* * * * * * * *
3090721 TCAGGGCCAGTGATATTGGGCTTAAAGATGAAA-GTGCCAATGTGCTGATTCAAGGCCAATGACA
1 TCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGCGCCAATATGCTGATTCAAGGCCAACGATA
* * * * *
3090785 TTGGACTTAAAGATGAAGATG--CCAATGTGCTGAT
66 CTGGACTTAAAGATGAA-AGGCACCAATATGCTAAA
* * * *
3090819 TCAAGGCCAGCGACATTGGTCTTAAAGATGAAGAAGGCGCCAACATGCTGATTCAAGGCTAGCGA
1 TCAAGGCCAGCGACATTGGACTTAAAGATG-A-AAGGCGCCAATATGCTGATTCAAGGCCAACGA
*
3090884 TATTGGACTTAGAAGA
64 TACTGGACTTA-AAGA
3090900 AGATGCCACC
Statistics
Matches: 332, Mismatches: 39, Indels: 51
0.79 0.09 0.12
Matches are distributed among these distances:
98 38 0.11
99 1 0.00
100 2 0.01
101 80 0.24
102 53 0.16
103 19 0.06
104 42 0.13
105 6 0.02
106 2 0.01
107 3 0.01
108 2 0.01
109 1 0.00
110 3 0.01
111 1 0.00
112 4 0.01
113 73 0.22
114 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.24
Consensus pattern (100 bp):
TCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGCGCCAATATGCTGATTCAAGGCCAACGATA
CTGGACTTAAAGATGAAAGGCACCAATATGCTAAA
Found at i:3090562 original size:52 final size:50
Alignment explanation
Indices: 3090395--3090684 Score: 291
Period size: 52 Copynumber: 5.7 Consensus size: 50
3090385 ATGCTAATGC
* ** *
3090395 GCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATAT
1 GCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGA--AAGGTGCCAATAT
* * *
3090448 GCTGATTCAAGGCCAGCGATACT-GATCTTTAAAGATG-AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCGACATTGGA-C-TTAAAGATGAAAGGTGCCAATAT
* * *
3090498 GCTAAATCAAGGCCAGCGACATTGGACTTAAAGATGATTAAGGCGCCAATAT
1 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA--AAGGTGCCAATAT
* * **
3090550 GCTGATTCAAGGCCAACGATATTGGACTTAAAGATGATAAAGGCACCAATAT
1 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGCCAATAT
* * *
3090602 GCTGATTTAATGG-CAGCGATATTGGACTTAAAGATG-AAGGTGCCAATGT
1 GCTGATTCAA-GGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATAT
* *
3090651 GCTGATTCAAGGCCAACGACATTGGTCTTAAAGA
1 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
3090685 GGATGAGAAA
Statistics
Matches: 200, Mismatches: 27, Indels: 24
0.80 0.11 0.10
Matches are distributed among these distances:
48 2 0.01
49 46 0.23
50 31 0.16
51 3 0.01
52 86 0.43
53 31 0.16
54 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (50 bp):
GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATAT
Found at i:3090778 original size:49 final size:49
Alignment explanation
Indices: 3090705--3090899 Score: 221
Period size: 49 Copynumber: 3.9 Consensus size: 49
3090695 AGTGATAAAG
* * * *
3090705 GTGCCAATATGCTGATTCAGGGCCAGTGATATTGGGCTTAAAGATGAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAA
* **
3090754 GTGCCAATGTGCTGATTCAAGGCCAATGACATTGGACTTAAAGATG-AA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAA
* *
3090802 GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGAA
1 G-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-A-AA
* * * *
3090854 GGCGCCAACATGCTGATTCAAGGCTAGCGATATTGGACTTAGAAGA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
3090900 AGATGCCACC
Statistics
Matches: 126, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
48 3 0.02
49 83 0.66
52 35 0.28
53 5 0.04
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAA
Found at i:3090785 original size:113 final size:114
Alignment explanation
Indices: 3090579--3090797 Score: 334
Period size: 113 Copynumber: 1.9 Consensus size: 114
3090569 TATTGGACTT
* *
3090579 AAAGATGATAAAGGCACCAATATGCTGATTTAATGGCAGCGATATTGGACTTAAAGATGAAGGTG
1 AAAGATGATAAAGGCACCAATATGCTGATTTAAGGGCAGCGATATTGGACTTAAAGATGAAAGTG
*
3090644 CCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGAGGATGAGA
66 CCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAGGATGAGA
** * * *
3090693 AAAG-TGATAAAGGTGCCAATATGCTGA-TTCAGGGCCAGTGATATTGGGCTTAAAGATGAAAGT
1 AAAGATGATAAAGGCACCAATATGCTGATTTAAGGG-CAGCGATATTGGACTTAAAGATGAAAGT
*
3090756 GCCAATGTGCTGATTCAAGGCCAATGACATTGGACTTAAAGA
65 GCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGA
3090798 TGAAGATGCC
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
112 5 0.05
113 86 0.91
114 4 0.04
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.24
Consensus pattern (114 bp):
AAAGATGATAAAGGCACCAATATGCTGATTTAAGGGCAGCGATATTGGACTTAAAGATGAAAGTG
CCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAGGATGAGA
Found at i:3090812 original size:162 final size:164
Alignment explanation
Indices: 3090527--3090846 Score: 459
Period size: 162 Copynumber: 2.0 Consensus size: 164
3090517 CATTGGACTT
*
3090527 AAAGATGATTAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGATAAAG
1 AAAGATGATAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGA-AAAG
* * * *
3090592 GCACCAATATGCTGATTTAATGGCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
65 G-ACCAATATGCTGATTCAATGGCAACGACATTGGACTTAAAGATGAAGATGCCAATGTGCTGAT
3090657 TCAAGGCCAACGACATTGGTCTTAAAGAGGATGAGA
129 TCAAGGCCAACGACATTGGTCTTAAAGAGGATGAGA
* * ** *
3090693 AAAG-TGATAAAGGTGCCAATATGCTGATTCAGGGCCAGTGATATTGGGCTTAAAGATG-AAAGT
1 AAAGATGATAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAAAG-
* *
3090756 G-CCAATGTGCTGATTCAA-GGCCAATGACATTGGACTTAAAGATGAAGATGCCAATGTGCTGAT
65 GACCAATATGCTGATTCAATGG-CAACGACATTGGACTTAAAGATGAAGATGCCAATGTGCTGAT
*
3090819 TCAAGGCCAGCGACATTGGTCTTAAAGA
129 TCAAGGCCAACGACATTGGTCTTAAAGA
3090847 TGAAGAAGGC
Statistics
Matches: 139, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
161 2 0.01
162 80 0.58
163 4 0.03
164 1 0.01
165 48 0.35
166 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (164 bp):
AAAGATGATAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAAAGG
ACCAATATGCTGATTCAATGGCAACGACATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTC
AAGGCCAACGACATTGGTCTTAAAGAGGATGAGA
Found at i:3091003 original size:28 final size:28
Alignment explanation
Indices: 3090916--3091011 Score: 149
Period size: 28 Copynumber: 3.4 Consensus size: 28
3090906 CACCAACTTG
3090916 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
3090944 TGTGGGCTTTGGAAAAGAG-TGCCACTGACT
1 TGTGGGCTTTTG--AAG-GTTGCCACTGACT
3090974 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
3091002 TGTGGGCTTT
1 TGTGGGCTTT
3091012 GGAAAAAGGT
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
27 1 0.02
28 35 0.56
30 25 0.40
31 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.33, T:0.34
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:3092469 original size:4 final size:4
Alignment explanation
Indices: 3092456--3092578 Score: 110
Period size: 4 Copynumber: 30.2 Consensus size: 4
3092446 CCGGACCCTT
* *
3092456 TTTG -TTG TTTG TTTG TTTG TTTG TTTG TTTTT TTTG TTT- TTT- CTTG
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG -TTTG TTTG TTTG TTTG TTTG
* *
3092502 TTTT TTTG TTT- TTTG TTTT TTTG TTTAG TTTTG TTTTG TTTTG TTTTG
1 TTTG TTTG TTTG TTTG TTTG TTTG TTT-G -TTTG -TTTG -TTTG -TTTG
* *
3092550 TTTG TTTG TTTG TTTG TTTT TTTT TTTG T
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG T
3092579 GGAGGATGCC
Statistics
Matches: 103, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
3 11 0.11
4 69 0.67
5 20 0.19
6 3 0.03
ACGTcount: A:0.01, C:0.01, G:0.18, T:0.80
Consensus pattern (4 bp):
TTTG
Found at i:3092502 original size:10 final size:9
Alignment explanation
Indices: 3092454--3092576 Score: 96
Period size: 10 Copynumber: 13.3 Consensus size: 9
3092444 ATCCGGACCC
3092454 TTTTTGTTGT
1 TTTTTGTT-T
3092464 TTGTTTGTTTGT
1 TT-TTTG-TT-T
3092476 TTGTTTGTTT
1 TT-TTTGTTT
3092486 TTTTTGTTT
1 TTTTTGTTT
3092495 TTTCTTG-TT
1 TTT-TTGTTT
3092504 TTTTTG--T
1 TTTTTGTTT
3092511 TTTTTG-TT
1 TTTTTGTTT
3092519 TTTTTGTTT
1 TTTTTGTTT
*
3092528 AGTTTTGTTT
1 -TTTTTGTTT
3092538 TGTTTTGTTT
1 T-TTTTGTTT
*
3092548 TGTTTG-TT
1 TTTTTGTTT
*
3092556 TGTTTGTTT
1 TTTTTGTTT
3092565 GTTTTT-TTT
1 -TTTTTGTTT
3092574 TTT
1 TTT
3092577 GTGGAGGATG
Statistics
Matches: 100, Mismatches: 4, Indels: 20
0.81 0.03 0.16
Matches are distributed among these distances:
7 7 0.07
8 21 0.21
9 26 0.26
10 29 0.29
11 6 0.06
12 11 0.11
ACGTcount: A:0.01, C:0.01, G:0.17, T:0.81
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:3097017 original size:13 final size:13
Alignment explanation
Indices: 3096999--3097024 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3096989 CAATTTTTTG
3096999 TGTATCGATACAT
1 TGTATCGATACAT
3097012 TGTATCGATACAT
1 TGTATCGATACAT
3097025 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3097036 original size:32 final size:33
Alignment explanation
Indices: 3096979--3097042 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3096969 TACAGGCCAA
**
3096979 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
3097012 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
3097043 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:3097119 original size:20 final size:20
Alignment explanation
Indices: 3097094--3097146 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
3097084 ACATCTTTTT
3097094 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
3097114 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
3097134 CATGTATCGATAC
1 CATGTATCGATAC
3097147 TTTGAATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:3102271 original size:105 final size:105
Alignment explanation
Indices: 3102089--3102300 Score: 424
Period size: 105 Copynumber: 2.0 Consensus size: 105
3102079 TTCGATTGGG
3102089 ATTTGTAGTGTCCCAAAATTGGGTGATGGTAATGCATCGTTGATGCGGCGGAGTTTCCATTCTTC
1 ATTTGTAGTGTCCCAAAATTGGGTGATGGTAATGCATCGTTGATGCGGCGGAGTTTCCATTCTTC
3102154 ATATCCCGGAGTAGTGGGGCTTCCTCTCCAGTACCTTTCC
66 ATATCCCGGAGTAGTGGGGCTTCCTCTCCAGTACCTTTCC
3102194 ATTTGTAGTGTCCCAAAATTGGGTGATGGTAATGCATCGTTGATGCGGCGGAGTTTCCATTCTTC
1 ATTTGTAGTGTCCCAAAATTGGGTGATGGTAATGCATCGTTGATGCGGCGGAGTTTCCATTCTTC
3102259 ATATCCCGGAGTAGTGGGGCTTCCTCTCCAGTACCTTTCC
66 ATATCCCGGAGTAGTGGGGCTTCCTCTCCAGTACCTTTCC
3102299 AT
1 AT
3102301 GTAATGGACC
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 107 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.33
Consensus pattern (105 bp):
ATTTGTAGTGTCCCAAAATTGGGTGATGGTAATGCATCGTTGATGCGGCGGAGTTTCCATTCTTC
ATATCCCGGAGTAGTGGGGCTTCCTCTCCAGTACCTTTCC
Found at i:3105269 original size:13 final size:13
Alignment explanation
Indices: 3105251--3105339 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
3105241 CATAAAGTAT
3105251 TGTATCGATACAA
1 TGTATCGATACAA
3105264 TGTATCGATACATAA
1 TGTATCGATAC--AA
3105279 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
3105296 TGTATCGATACATAA
1 TGTATCGATAC--AA
3105311 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
3105328 TGTATCGATACA
1 TGTATCGATACA
3105340 TAAGTTTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3105291 original size:32 final size:32
Alignment explanation
Indices: 3105231--3105356 Score: 225
Period size: 32 Copynumber: 3.9 Consensus size: 32
3105221 TTCAACGATT
*
3105231 TGTATCGATACATAAAGTATTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
3105264 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
3105296 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
3105328 TGTATCGATACATAAGTTTTGTATCGATA
1 TGTATCGATACATAAGTGTTGTATCGATA
3105357 TAATTTAAGC
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
32 78 0.86
33 13 0.14
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:3105419 original size:13 final size:13
Alignment explanation
Indices: 3105401--3105425 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3105391 ATTACTCAAA
3105401 TGTATCGATACAT
1 TGTATCGATACAT
3105414 TGTATCGATACA
1 TGTATCGATACA
3105426 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3105479 original size:52 final size:52
Alignment explanation
Indices: 3105414--3105562 Score: 246
Period size: 52 Copynumber: 2.9 Consensus size: 52
3105404 ATCGATACAT
3105414 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
*
3105466 TGTATAGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
***
3105518 TGTATCGATACACT-ATAAAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTGAT-CTTTGTATCGATACATGCAGGCAAATTT
3105563 TCATATTTTG
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 2 0.02
52 89 0.98
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:3119428 original size:14 final size:14
Alignment explanation
Indices: 3119406--3119441 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
3119396 GGCGTCCTCC
3119406 ACAAAAAAAAAACAA
1 ACAAAAAAAAAAC-A
3119421 ACAAAAAAAAAACA
1 ACAAAAAAAAAACA
3119435 ACAAAAA
1 ACAAAAA
3119442 GGGTCCGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (14 bp):
ACAAAAAAAAAACA
Found at i:3120983 original size:34 final size:33
Alignment explanation
Indices: 3120883--3121114 Score: 234
Period size: 34 Copynumber: 6.8 Consensus size: 33
3120873 TTACCTTCTA
* *
3120883 AAGTCCACAACTCAGTGGCACCTTTTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACC---TTTTTCCTTTT
* * *
3120919 AAAGCCCACAACTCTGTGGCA-CTCTTTTCCTTCT
1 -AAGTCCACAACTCCGTGGCACCT-TTTTCCTTTT
3120953 AAGTCCACAACTCCGTGGCACCTTTCTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTT-TTCCTTTT
* * *
3120987 AAGCCCACAACTCTGTGGCA-CTCTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCACCT-TTTTCCTTTT
3121020 AAGTCCACAACTCCGTGGCACCTTTCTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTT-TTCCTTTT
* * * *
3121054 AAGCCCACAACTCCATGTCATTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
** *
3121088 AAGTCCACAACTCTATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT
3121115 AAGCCCACAA
Statistics
Matches: 166, Mismatches: 22, Indels: 18
0.81 0.11 0.09
Matches are distributed among these distances:
33 55 0.33
34 88 0.53
35 4 0.02
36 1 0.01
37 18 0.11
ACGTcount: A:0.20, C:0.33, G:0.11, T:0.36
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:3121010 original size:67 final size:67
Alignment explanation
Indices: 3120871--3121109 Score: 334
Period size: 67 Copynumber: 3.5 Consensus size: 67
3120861 TTAGATATTC
* * * *
3120871 CTTTACCTTCTAAAGTCCACAACTCAGTGGCACCTTTTTTTTCTTTTTAAAGCCCACAACTCTGT
1 CTTTTCCTTCT-AAGTCCACAACTCCGTGGCACC--TTTCTTCCTTTT-AAGCCCACAACTCTGT
3120936 GGCACT
62 GGCACT
3120942 CTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTCTTCCTTTTAAGCCCACAACTCTGTGGCA
1 CTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTCTTCCTTTTAAGCCCACAACTCTGTGGCA
3121007 CT
66 CT
** *
3121009 CTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTCTTCCTTTTAAGCCCACAACTCCATGTCA
1 CTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTCTTCCTTTTAAGCCCACAACTCTGTGGCA
*
3121074 TT
66 CT
* **
3121076 CTTTTTCCTTTTAAGTCCACAACTCTATGGCACC
1 C-TTTTCCTTCTAAGTCCACAACTCCGTGGCACC
3121110 CTTTTAAGCC
Statistics
Matches: 156, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
67 86 0.55
68 39 0.25
70 21 0.13
71 10 0.06
ACGTcount: A:0.20, C:0.33, G:0.10, T:0.36
Consensus pattern (67 bp):
CTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTCTTCCTTTTAAGCCCACAACTCTGTGGCA
CT
Found at i:3121051 original size:101 final size:100
Alignment explanation
Indices: 3120924--3121114 Score: 260
Period size: 101 Copynumber: 1.9 Consensus size: 100
3120914 TTTTTAAAGC
* * *
3120924 CCACAACTCTGTGGCACTCTTTTCCTTCTAAGTCCACAACTCCGTGGCA-CCTTTCTTCCTTTTA
1 CCACAACTCCGTGGCACTCTTTTCCTTCTAAGCCCACAACTCCATGGCATCCTTT-TTCCTTTTA
* *
3120988 AGCCCACAACTCTGTGGCACTCTTTTCCTTCTAAGT
65 AGCCCACAACTCTATGGCACCCTTTTCCTTCTAAGT
* * *
3121024 CCACAACTCCGTGGCAC-CTTTCTTCCTTTTAAGCCCACAACTCCATGTCATTCTTTTTCCTTTT
1 CCACAACTCCGTGGCACTC-TT-TTCCTTCTAAGCCCACAACTCCATGGCATCCTTTTTCCTTTT
*
3121088 AAGTCCACAACTCTATGGCACCCTTTT
64 AAGCCCACAACTCTATGGCACCCTTTT
3121115 AAGCCCACAA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
99 1 0.01
100 18 0.23
101 56 0.71
102 4 0.05
ACGTcount: A:0.19, C:0.35, G:0.10, T:0.36
Consensus pattern (100 bp):
CCACAACTCCGTGGCACTCTTTTCCTTCTAAGCCCACAACTCCATGGCATCCTTTTTCCTTTTAA
GCCCACAACTCTATGGCACCCTTTTCCTTCTAAGT
Found at i:3121161 original size:29 final size:28
Alignment explanation
Indices: 3121082--3121180 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 28
3121072 CATTCTTTTT
* *
3121082 CCTTTT-AAGTCCACAACTCTA-TGGCAC
1 CCTTTTAAAGCCCACAAGTC-AGTGGCAC
**
3121109 CCTTTT-AAGCCCACAAGTTGGTGGCAC
1 CCTTTTAAAGCCCACAAGTCAGTGGCAC
*
3121136 CCATTTTAAAGCCCACAAGTCAGTGGCAA
1 CC-TTTTAAAGCCCACAAGTCAGTGGCAC
**
3121165 CCTTCAAAAGCCCACA
1 CCTTTTAAAGCCCACA
3121181 CAAGTTGATG
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 24 0.40
28 16 0.27
29 20 0.33
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.23
Consensus pattern (28 bp):
CCTTTTAAAGCCCACAAGTCAGTGGCAC
Found at i:3121372 original size:49 final size:49
Alignment explanation
Indices: 3121202--3121433 Score: 208
Period size: 49 Copynumber: 4.8 Consensus size: 49
3121192 CGTCTTCTTC
* * * * ** * *
3121202 TAAGTCCAATATCGTTGGCCTTGAACCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTCAACTT
** * * *
3121251 TAAAACTCAATATCGCTGGCCTTGAATCAGCATATT-G-A----CACCTT
1 TAAGTC-CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTCAACTT
* * *
3121295 GAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCCTCAACTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTCAACTT
* * * *
3121344 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTCAACTT
*
3121393 TAAGTCCAATAG-CGCTGGCCTTGAATCAGCATATTGGCACC
1 TAAGTCCAAT-GTCGCTGGCCTTGAATCAGCACATTGGCACC
3121434 TTTTCCGTCT
Statistics
Matches: 153, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
43 26 0.17
44 9 0.06
45 1 0.01
48 1 0.01
49 88 0.58
50 28 0.18
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (49 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTCAACTT
Found at i:3121613 original size:52 final size:52
Alignment explanation
Indices: 3121546--3121945 Score: 266
Period size: 52 Copynumber: 7.8 Consensus size: 52
3121536 TTCTCATCTT
* ** *
3121546 TAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCC
1 TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGACATCTTTAACATCCC
**
3121598 TAAGCCCAATGTCGTTGGCCTTGTCTCAGCACATTGACAT-TCTT--C-T-CC
1 TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGACATCT-TTAACATCCC
* * * * * * * ** **
3121646 -AAGTCTAATGCCGCTGACCGTGAATCAGCACATTAACATCCTTTTTCTCATCTT
1 TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGACAT-C--TTTAACATCCC
* ** *
3121700 TAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCC
1 TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGACATCTTTAACATCCC
**
3121752 TAAGCCCAATGTCGTTGGCCTTGTCTCAGCACATTGACAT-TCTT--C-T-CC
1 TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGACATCT-TTAACATCCC
* * * * * * * ** **
3121800 -AAGTCTAATGCCGCTGACCGTGAATCAGCACATTAACATCCTTTTTCTCATCTT
1 TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGACAT-C--TTTAACATCCC
* * ** *
3121854 TAAGCCCAATATCGTTGGCCTTGAATCAACGTATTGGCATCTTTAACATCCC
1 TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGACATCTTTAACATCCC
** *
3121906 TAAGCCCAATGTCGTTGGCCTTGTCTTAGCACATTGACAT
1 TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGACAT
3121946 TCTTCTCCAA
Statistics
Matches: 255, Mismatches: 73, Indels: 40
0.69 0.20 0.11
Matches are distributed among these distances:
47 60 0.24
48 4 0.02
49 2 0.01
50 6 0.02
51 4 0.02
52 120 0.47
53 2 0.01
54 2 0.01
55 55 0.22
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (52 bp):
TAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGACATCTTTAACATCCC
Found at i:3121635 original size:154 final size:154
Alignment explanation
Indices: 3121390--3122051 Score: 1128
Period size: 154 Copynumber: 4.3 Consensus size: 154
3121380 GCATCTTCAC
* * * * * ** * * *
3121390 CTTTAAGTCCAATAGCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCGT-CTTGAGCCCAAT
1 CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCCTAAGCCCAAT
* *
3121454 GTCGTTGGCCTTGTCTCAGCACATTGACATTCTTCTCCAAGTCTAATGCCGCTGATCGTGAACCA
66 GTCGTTGGCCTTGTCTCAGCACATTGACATTCTTCTCCAAGTCTAATGCCGCTGACCGTGAATCA
* *
3121519 ACACATTAGCATCCTTTTTCTCAT
131 GCACATTAACATCCTTTTTCTCAT
3121543 CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCCTAAGCCCAAT
1 CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCCTAAGCCCAAT
3121608 GTCGTTGGCCTTGTCTCAGCACATTGACATTCTTCTCCAAGTCTAATGCCGCTGACCGTGAATCA
66 GTCGTTGGCCTTGTCTCAGCACATTGACATTCTTCTCCAAGTCTAATGCCGCTGACCGTGAATCA
3121673 GCACATTAACATCCTTTTTCTCAT
131 GCACATTAACATCCTTTTTCTCAT
3121697 CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCCTAAGCCCAAT
1 CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCCTAAGCCCAAT
3121762 GTCGTTGGCCTTGTCTCAGCACATTGACATTCTTCTCCAAGTCTAATGCCGCTGACCGTGAATCA
66 GTCGTTGGCCTTGTCTCAGCACATTGACATTCTTCTCCAAGTCTAATGCCGCTGACCGTGAATCA
3121827 GCACATTAACATCCTTTTTCTCAT
131 GCACATTAACATCCTTTTTCTCAT
*
3121851 CTTTAAGCCCAATATCGTTGGCCTTGAATCAACGTATTGGCATCTTTAACATCCCTAAGCCCAAT
1 CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCCTAAGCCCAAT
*
3121916 GTCGTTGGCCTTGTCTTAGCACATTGACATTCTTCTCCAAGTCTAATGCCGCTGACCGTGAATCA
66 GTCGTTGGCCTTGTCTCAGCACATTGACATTCTTCTCCAAGTCTAATGCCGCTGACCGTGAATCA
**
3121981 GCACATTGCCATCCTTTTTCTCAT
131 GCACATTAACATCCTTTTTCTCAT
* * *
3122005 CTTTAAGCCCAATATCGTTGGCCGTGAATCAGCATATTGGTATCTTT
1 CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTT
3122052 CTCACTTTTC
Statistics
Matches: 486, Mismatches: 22, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
153 44 0.09
154 442 0.91
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (154 bp):
CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATCCCTAAGCCCAAT
GTCGTTGGCCTTGTCTCAGCACATTGACATTCTTCTCCAAGTCTAATGCCGCTGACCGTGAATCA
GCACATTAACATCCTTTTTCTCAT
Found at i:3122704 original size:13 final size:13
Alignment explanation
Indices: 3122686--3122742 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
3122676 CATAAAGTAT
3122686 TGTATCGATACAA
1 TGTATCGATACAA
3122699 TGTATCGATACATAA
1 TGTATCGATAC--AA
3122714 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
3122731 TGTATCGATACA
1 TGTATCGATACA
3122743 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3122723 original size:19 final size:18
Alignment explanation
Indices: 3122664--3122761 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
3122654 AATTCAACGA
3122664 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
3122683 TATTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
3122699 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3122715 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
3122731 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3122747 TTTTGTATCGATACA
1 -TTTGTATCGATACA
3122762 ATTTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:3122726 original size:32 final size:32
Alignment explanation
Indices: 3122666--3122763 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
3122656 TTCAACGATT
3122666 TGTATCGATACATAAAGTATTGTATCGATACAA
1 TGTATCGATACAT-AAGTATTGTATCGATACAA
*
3122699 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
3122731 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3122763 T
1 T
3122764 TTAAGCTACT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 50 0.79
33 13 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3122822 original size:13 final size:13
Alignment explanation
Indices: 3122804--3122828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3122794 ATTACTCAAA
3122804 TGTATCGATACAT
1 TGTATCGATACAT
3122817 TGTATCGATACA
1 TGTATCGATACA
3122829 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3122881 original size:52 final size:52
Alignment explanation
Indices: 3122837--3122965 Score: 258
Period size: 52 Copynumber: 2.5 Consensus size: 52
3122827 CACTGATCTT
3122837 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3122889 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3122941 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3122966 TCATATTTTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 77 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3125109 original size:24 final size:26
Alignment explanation
Indices: 3125082--3125132 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
3125072 TATCAAAATT
3125082 TATTCAT-C-GGGGACACTCCAACCC
1 TATTCATCCAGGGGACACTCCAACCC
*
3125106 TATTCCTCCGAGGGGACACTCCAACCC
1 TATTCATCC-AGGGGACACTCCAACCC
3125133 CTTTTTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 1 0.04
27 16 0.70
ACGTcount: A:0.24, C:0.39, G:0.18, T:0.20
Consensus pattern (26 bp):
TATTCATCCAGGGGACACTCCAACCC
Found at i:3129024 original size:13 final size:13
Alignment explanation
Indices: 3129006--3129057 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
3128996 AGCTTCGTAG
3129006 CGATACATTGTAT
1 CGATACATTGTAT
3129019 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
3129038 CGATACATTGTAT
1 CGATACATTGTAT
3129051 CGATACA
1 CGATACA
3129058 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:3129047 original size:32 final size:32
Alignment explanation
Indices: 3129006--3129076 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
3128996 AGCTTCGTAG
3129006 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
3129038 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
3129070 CGATACA
1 CGATACA
3129077 GTTACAGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:3129091 original size:21 final size:18
Alignment explanation
Indices: 3129013--3129098 Score: 74
Period size: 19 Copynumber: 4.8 Consensus size: 18
3129003 TAGCGATACA
*
3129013 TTGTATCGATACAAAACT
1 TTGTATCGATACAACACT
3129031 TATGTATCGAT---ACA--
1 T-TGTATCGATACAACACT
3129045 TTGTATCGATACAACACT
1 TTGTATCGATACAACACT
*
3129063 TATGTATCGATACAGTTACAGT
1 T-TGTATCGATACA---ACACT
3129085 TTGTATCGATACAA
1 TTGTATCGATACAA
3129099 ATTGTTGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 20
0.72 0.03 0.26
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
16 5 0.09
18 3 0.05
19 21 0.38
21 12 0.21
22 5 0.09
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (18 bp):
TTGTATCGATACAACACT
Found at i:3141695 original size:40 final size:41
Alignment explanation
Indices: 3141651--3141740 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
3141641 CTGCTGGAGA
* * *
3141651 TGTTGGTTTCGGGTATTCGTG-GGCTGGAAGCTACTGCCGG
1 TGTTGGTTTCGGATACTCCTGCGGCTGGAAGCTACTGCCGG
* *
3141691 TGTTGGTTTCGGATGCTCCTGCTGCTGGAAGCTACTGCCGG
1 TGTTGGTTTCGGATACTCCTGCGGCTGGAAGCTACTGCCGG
3141732 TGTTGGTTT
1 TGTTGGTTT
3141741 TGTTTCATGG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 17 0.39
41 27 0.61
ACGTcount: A:0.09, C:0.19, G:0.37, T:0.36
Consensus pattern (41 bp):
TGTTGGTTTCGGATACTCCTGCGGCTGGAAGCTACTGCCGG
Found at i:3141797 original size:37 final size:35
Alignment explanation
Indices: 3141733--3141816 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 35
3141723 TACTGCCGGT
* *
3141733 GTTGGTTTTGTTTCATGGACTGCAGGCTGCTGGAA
1 GTTGGTTTTTTTTCATGGACTGCAGGCTACTGGAA
* *
3141768 GTTGGTTTTTTTGATCATGGATTGGAGGCTACTGGAA
1 GTTGGTTTTTTT--TCATGGACTGCAGGCTACTGGAA
*
3141805 GCTGGTTTTTTT
1 GTTGGTTTTTTT
3141817 CTTTGAGTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 11 0.26
37 31 0.74
ACGTcount: A:0.14, C:0.11, G:0.32, T:0.43
Consensus pattern (35 bp):
GTTGGTTTTTTTTCATGGACTGCAGGCTACTGGAA
Found at i:3142185 original size:44 final size:44
Alignment explanation
Indices: 3142131--3142218 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
3142121 CACGTGCTGT
*
3142131 TGGTGCTCATCCATCATTGCTGCCATTTGTTAATTTGCTGCAGC
1 TGGTGCTCATCCATCATTGCTGCCAATTGTTAATTTGCTGCAGC
*
3142175 TGGTGCTCATCCATCATTGTTGCCAATTGTTAATTTGCTGCAGC
1 TGGTGCTCATCCATCATTGCTGCCAATTGTTAATTTGCTGCAGC
3142219 ATCTCTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (44 bp):
TGGTGCTCATCCATCATTGCTGCCAATTGTTAATTTGCTGCAGC
Done.