Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 92 of 109
Found at i:18466912 original size:21 final size:21
Alignment explanation
Indices: 18466888--18466927 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18466878 ATGATTTGTG
18466888 TATTGTTCATGAACATGTTCA
1 TATTGTTCATGAACATGTTCA
*
18466909 TATTGTTTATGAACATGTT
1 TATTGTTCATGAACATGTT
18466928 TATTTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (21 bp):
TATTGTTCATGAACATGTTCA
Found at i:18466958 original size:26 final size:25
Alignment explanation
Indices: 18466914--18466963 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
18466904 GTTCATATTG
* *
18466914 TTTATGAACATGTTTATTTATATATA
1 TTTATGAACATATTCATTTA-ATATA
*
18466940 TTTATGAATATATTCATTTAATAT
1 TTTATGAACATATTCATTTAATAT
18466964 TTATAAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (25 bp):
TTTATGAACATATTCATTTAATATA
Found at i:18466967 original size:23 final size:23
Alignment explanation
Indices: 18466937--18466984 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
18466927 TTATTTATAT
*
18466937 ATATTTATGAAT-ATATTCATTTA
1 ATATTTATAAATGA-ATTCATTTA
*
18466960 ATATTTATAAATGAATTCGTTTA
1 ATATTTATAAATGAATTCATTTA
18466983 AT
1 AT
18466985 TTAATCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (23 bp):
ATATTTATAAATGAATTCATTTA
Found at i:18473905 original size:10 final size:8
Alignment explanation
Indices: 18473883--18473918 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
18473873 AAAAAAAACA
18473883 TTATAAAT
1 TTATAAAT
18473891 TTATAATACT
1 TTATAA-A-T
18473901 TTATAAAT
1 TTATAAAT
18473909 TTATAAAT
1 TTATAAAT
18473917 TT
1 TT
18473919 TTCTTCTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 17 0.65
9 2 0.08
10 7 0.27
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (8 bp):
TTATAAAT
Found at i:18475902 original size:14 final size:14
Alignment explanation
Indices: 18475883--18475925 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
18475873 TATATAATAA
18475883 ATCATGCAAAAAAT
1 ATCATGCAAAAAAT
*
18475897 ATCATG-TAAAAAT
1 ATCATGCAAAAAAT
*
18475910 ATCATGCAATAAAT
1 ATCATGCAAAAAAT
18475924 AT
1 AT
18475926 AAAATCATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (14 bp):
ATCATGCAAAAAAT
Found at i:18475909 original size:13 final size:13
Alignment explanation
Indices: 18475883--18475925 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
18475873 TATATAATAA
18475883 ATCATGCAAAAAAT
1 ATCATGC-AAAAAT
*
18475897 ATCATGTAAAAAT
1 ATCATGCAAAAAT
18475910 ATCATGCAATAAAT
1 ATCATGCAA-AAAT
18475924 AT
1 AT
18475926 AAAATCATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (13 bp):
ATCATGCAAAAAT
Found at i:18475940 original size:58 final size:58
Alignment explanation
Indices: 18475772--18475958 Score: 182
Period size: 58 Copynumber: 3.2 Consensus size: 58
18475762 AAAATTTTAT
* * * *
18475772 AAAATATCATGCAAAGATATCGTGCAATGAATATAAAAAGCTTCATGCAATAAATCATGCCA
1 AAAATATCATGTAAAAATATCATGCAATAAATAT-AAAA---TCATGCAATAAATCATGCCA
* *** * ** *
18475834 AAAATATTATGTAAAAATATCCATGCAATTAGGCA-AATAT-ATATAATAAATCATGCAA
1 AAAATATCATGTAAAAATAT-CATGCAA-TAAATATAAAATCATGCAATAAATCATGCCA
*
18475892 AAAATATCATGTAAAAATATCATGCAATAAATATAAAATCATGCAAT-AATCATACCA
1 AAAATATCATGTAAAAATATCATGCAATAAATATAAAATCATGCAATAAATCATGCCA
18475949 AAAATATCAT
1 AAAATATCAT
18475959 AATAAATCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 13
0.75 0.16 0.10
Matches are distributed among these distances:
56 3 0.03
57 29 0.29
58 39 0.39
59 1 0.01
62 20 0.20
63 6 0.06
64 2 0.02
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (58 bp):
AAAATATCATGTAAAAATATCATGCAATAAATATAAAATCATGCAATAAATCATGCCA
Found at i:18476014 original size:16 final size:16
Alignment explanation
Indices: 18475990--18476024 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
18475980 GCAAGAATAT
*
18475990 ATAATAAATCATGCAA
1 ATAACAAATCATGCAA
18476006 ATAACAAATCATGCAA
1 ATAACAAATCATGCAA
18476022 ATA
1 ATA
18476025 TATTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.23
Consensus pattern (16 bp):
ATAACAAATCATGCAA
Found at i:18476048 original size:40 final size:39
Alignment explanation
Indices: 18476004--18476124 Score: 125
Period size: 40 Copynumber: 3.0 Consensus size: 39
18475994 TAAATCATGC
*
18476004 AAATAACAAATCATGCAAATATATTAATAATCATGCAAAT
1 AAATAACAAATCATGCAAGTA-ATTAATAATCATGCAAAT
* * * * *
18476044 AAATAATCTAATCGTGCAAGCAAATAATACTCATGCAAAT
1 AAATAA-CAAATCATGCAAGTAATTAATAATCATGCAAAT
* *
18476084 AAATAATATAATCATGCAAGTAAATAATATAATCATGCAAA
1 AAATAACA-AATCATGCAAGT-AATTA-ATAATCATGCAAA
18476125 GTTTTTTTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
40 38 0.59
41 14 0.22
42 12 0.19
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.26
Consensus pattern (39 bp):
AAATAACAAATCATGCAAGTAATTAATAATCATGCAAAT
Found at i:18476050 original size:16 final size:16
Alignment explanation
Indices: 18475996--18476051 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 16
18475986 ATATATAATA
18475996 AATCATGCAAATAACA-
1 AATCATGCAAATAA-AT
18476012 AATCATGCAAATATATTAAT
1 AATCATGC-AA-ATA--AAT
18476032 AATCATGCAAATAAAT
1 AATCATGCAAATAAAT
18476048 AATC
1 AATC
18476052 TAATCGTGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
16 15 0.43
17 2 0.06
18 6 0.17
19 3 0.09
20 9 0.26
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (16 bp):
AATCATGCAAATAAAT
Found at i:18476055 original size:24 final size:20
Alignment explanation
Indices: 18475971--18476124 Score: 79
Period size: 21 Copynumber: 7.7 Consensus size: 20
18475961 TAAATCAAAA
*
18475971 AATAAACATGCAAGA-ATATAT
1 AATAATCATGCAA-ATATAT-T
18475992 AATAAATCATGCAAATA-A--
1 AAT-AATCATGCAAATATATT
*
18476010 CA-AATCATGCAAATATATT
1 AATAATCATGCAAATATATT
*
18476029 AATAATCATGCAAATA-AAT
1 AATAATCATGCAAATATATT
* ** *
18476048 AATCTAATCGTGCAAGCA-AAT
1 AA--TAATCATGCAAATATATT
* * *
18476069 AATACTCATGCAAATAAATA
1 AATAATCATGCAAATATATT
* * *
18476089 ATATAATCATGCAAGTAAATA
1 A-ATAATCATGCAAATATATT
18476110 ATATAATCATGCAAA
1 A-ATAATCATGCAAA
18476125 GTTTTTTTTT
Statistics
Matches: 107, Mismatches: 16, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
16 13 0.12
17 1 0.01
18 1 0.01
19 15 0.14
20 15 0.14
21 52 0.49
22 10 0.09
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (20 bp):
AATAATCATGCAAATATATT
Found at i:18476061 original size:21 final size:21
Alignment explanation
Indices: 18476004--18476124 Score: 133
Period size: 21 Copynumber: 6.0 Consensus size: 21
18475994 TAAATCATGC
*
18476004 AAATAACA-AATCATGCAAAT
1 AAATAATATAATCATGCAAAT
* *
18476024 ATATTA-ATAATCATGCAAAT
1 AAATAATATAATCATGCAAAT
* * **
18476044 AAATAATCTAATCGTGCAAGC
1 AAATAATATAATCATGCAAAT
*
18476065 AAAT-A-ATACTCATGCAAAT
1 AAATAATATAATCATGCAAAT
*
18476084 AAATAATATAATCATGCAAGT
1 AAATAATATAATCATGCAAAT
18476105 AAATAATATAATCATGCAAA
1 AAATAATATAATCATGCAAA
18476125 GTTTTTTTTT
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
19 14 0.17
20 22 0.27
21 45 0.56
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.26
Consensus pattern (21 bp):
AAATAATATAATCATGCAAAT
Found at i:18476196 original size:17 final size:15
Alignment explanation
Indices: 18476172--18476209 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
18476162 AATCATAATT
18476172 AAATAAAATAATATAA
1 AAATAAAAT-ATATAA
18476188 AATATAAAATATATAA
1 AA-ATAAAATATATAA
18476204 AAATAA
1 AAATAA
18476210 TGAAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 10 0.48
17 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAAATATATAA
Found at i:18476684 original size:26 final size:24
Alignment explanation
Indices: 18476646--18476713 Score: 57
Period size: 27 Copynumber: 2.7 Consensus size: 24
18476636 ATATATTTAC
*
18476646 TAAATAAATTTTTTATTAAATA-ATA
1 TAAATATA-TTTTTATTAAATAGA-A
* *
18476671 TAAATTATTATTTTAGATTAATTAGAA
1 TAAA-TA-TATTTT-TATTAAATAGAA
18476698 TAAATATATTTTTATT
1 TAAATATATTTTTATT
18476714 GAAAAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
24 3 0.09
25 10 0.29
26 8 0.23
27 13 0.37
28 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (24 bp):
TAAATATATTTTTATTAAATAGAA
Found at i:18479001 original size:44 final size:44
Alignment explanation
Indices: 18478953--18479036 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
18478943 TCATGCCCAA
*
18478953 AGGTCTTATAAATCATA-CTCGAAGGTCTTGAAGATTATGCTTGG
1 AGGTCCTATAAATCATATC-CGAAGGTCTTGAAGATTATGCTTGG
* * * *
18478997 AGGTCCTATGAATCATATCCGGAGGTTTTGGAGATTATGC
1 AGGTCCTATAAATCATATCCGAAGGTCTTGAAGATTATGC
18479037 CCTATAAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 33 0.97
45 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (44 bp):
AGGTCCTATAAATCATATCCGAAGGTCTTGAAGATTATGCTTGG
Found at i:18480903 original size:8 final size:8
Alignment explanation
Indices: 18480865--18480894 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
18480855 TTCTTTTTCA
18480865 TTTTTTAT
1 TTTTTTAT
18480873 TTTTTTAT
1 TTTTTTAT
18480881 TTTTTTAT
1 TTTTTTAT
18480889 TTTTTT
1 TTTTTT
18480895 TTCATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTAT
Found at i:18484279 original size:20 final size:20
Alignment explanation
Indices: 18484250--18484321 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
18484240 AAACAAACAA
*
18484250 AAATATATAATAAATCATGC
1 AAATAAATAATAAATCATGC
*
18484270 AAATAAATAATAAATAATGC
1 AAATAAATAATAAATCATGC
*
18484290 AAATATATTAAT-AATCATGC
1 AAATA-AATAATAAATCATGC
18484310 AAATAAATAATA
1 AAATAAATAATA
18484322 TAATAGTGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
19 5 0.11
20 35 0.78
21 5 0.11
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (20 bp):
AAATAAATAATAAATCATGC
Found at i:18484295 original size:40 final size:41
Alignment explanation
Indices: 18484250--18484331 Score: 132
Period size: 40 Copynumber: 2.0 Consensus size: 41
18484240 AAACAAACAA
18484250 AAATATA-TAATAAATCATGCAAATAAATAATA-AATAATGC
1 AAATATATTAAT-AATCATGCAAATAAATAATATAATAATGC
*
18484290 AAATATATTAATAATCATGCAAATAAATAATATAATAGTGC
1 AAATATATTAATAATCATGCAAATAAATAATATAATAATGC
18484331 A
1 A
18484332 TAGTTTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
40 27 0.69
41 12 0.31
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.29
Consensus pattern (41 bp):
AAATATATTAATAATCATGCAAATAAATAATATAATAATGC
Found at i:18484302 original size:24 final size:20
Alignment explanation
Indices: 18484250--18484331 Score: 94
Period size: 20 Copynumber: 4.0 Consensus size: 20
18484240 AAACAAACAA
* *
18484250 AAATATATAATAAATCATGC
1 AAATAAATAATAAATAATGC
18484270 AAATAAATAATAAATAATGC
1 AAATAAATAATAAATAATGC
* *
18484290 AAATATATTAAT-AATCATGC
1 AAATA-AATAATAAATAATGC
*
18484310 AAATAAATAATATAATAGTGC
1 AAATAAATAATA-AATAATGC
18484331 A
1 A
18484332 TAGTTTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.10
20 35 0.67
21 12 0.23
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.29
Consensus pattern (20 bp):
AAATAAATAATAAATAATGC
Found at i:18490212 original size:25 final size:26
Alignment explanation
Indices: 18490153--18490217 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 26
18490143 CTCAAATATG
18490153 AAAGAAATTAGAATATTTATGTAAAAA
1 AAAGAAATTAGAATATTTA-GTAAAAA
* *
18490180 AAAAAAATTAGAATATTTA-TATAAA
1 AAAGAAATTAGAATATTTAGTAAAAA
18490205 AAAGAAATTAGAA
1 AAAGAAATTAGAA
18490218 GATAATTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 17 0.49
27 18 0.51
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (26 bp):
AAAGAAATTAGAATATTTAGTAAAAA
Found at i:18491600 original size:13 final size:13
Alignment explanation
Indices: 18491582--18491606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18491572 ACCAACAGAC
18491582 AGCAGCAGCAGCA
1 AGCAGCAGCAGCA
18491595 AGCAGCAGCAGC
1 AGCAGCAGCAGC
18491607 TTGCTTCTAT
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:0.32, G:0.32, T:0.00
Consensus pattern (13 bp):
AGCAGCAGCAGCA
Found at i:18494305 original size:14 final size:14
Alignment explanation
Indices: 18494286--18494328 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
18494276 ATATATAATA
18494286 ATCATGCAAAAAAT
1 ATCATGCAAAAAAT
*
18494300 ATCATG-TAAAAAT
1 ATCATGCAAAAAAT
*
18494313 ATCATGCAATAAAT
1 ATCATGCAAAAAAT
18494327 AT
1 AT
18494329 AAAATCATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (14 bp):
ATCATGCAAAAAAT
Found at i:18494312 original size:13 final size:13
Alignment explanation
Indices: 18494286--18494328 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
18494276 ATATATAATA
18494286 ATCATGCAAAAAAT
1 ATCATGC-AAAAAT
*
18494300 ATCATGTAAAAAT
1 ATCATGCAAAAAT
18494313 ATCATGCAATAAAT
1 ATCATGCAA-AAAT
18494327 AT
1 AT
18494329 AAAATCATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (13 bp):
ATCATGCAAAAAT
Found at i:18494331 original size:22 final size:22
Alignment explanation
Indices: 18494306--18494414 Score: 72
Period size: 23 Copynumber: 5.0 Consensus size: 22
18494296 AAATATCATG
18494306 TAAAAATATCATGCAATAAATA
1 TAAAAATATCATGCAATAAATA
18494328 T--AAA-ATCATGCAAT-AATCA
1 TAAAAATATCATGCAATAAAT-A
18494347 TACCAAAATATCAT--AATAAATCA
1 TA--AAAATATCATGCAATAAAT-A
* *
18494370 -AAAAATAAACATGCAAGAATATA
1 TAAAAAT-ATCATGCAATAA-ATA
*
18494393 TAATAA-ATCATGCAAATAAATA
1 TAAAAATATCATGC-AATAAATA
18494415 ATCTAATCGT
Statistics
Matches: 69, Mismatches: 5, Indels: 26
0.69 0.05 0.26
Matches are distributed among these distances:
18 3 0.04
19 12 0.17
20 8 0.12
21 4 0.06
22 14 0.20
23 17 0.25
24 11 0.16
ACGTcount: A:0.59, C:0.12, G:0.05, T:0.25
Consensus pattern (22 bp):
TAAAAATATCATGCAATAAATA
Found at i:18494354 original size:58 final size:57
Alignment explanation
Indices: 18494175--18494354 Score: 148
Period size: 58 Copynumber: 3.0 Consensus size: 57
18494165 AAAATTTTAT
* * * *
18494175 AAAATATCATGCAAAGATATCGTGCAATGAATATAAAAAGCTTCATGCAATAAATCATGCC-A
1 AAAATATCATGTAAAAATATCATGCAATAAATAT-AAAA---TCATGCAAT-AATCAT-CCAA
* ** *** ** *
18494237 AAAATATTATGTAAAAATATCCATGCAATTTAGGCAAATAT-ATATAATAATCATGCAA
1 AAAATATCATGTAAAAATAT-CATGCAATAAATATAAA-ATCATGCAATAATCATCCAA
18494295 AAAATATCATGTAAAAATATCATGCAATAAATATAAAATCATGCAATAATCATACCAA
1 AAAATATCATGTAAAAATATCATGCAATAAATATAAAATCATGCAATAATCAT-CCAA
18494353 AA
1 AA
18494355 TATCATAATA
Statistics
Matches: 92, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
56 2 0.02
57 24 0.26
58 31 0.34
59 5 0.05
60 1 0.01
62 20 0.22
63 9 0.10
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (57 bp):
AAAATATCATGTAAAAATATCATGCAATAAATATAAAATCATGCAATAATCATCCAA
Found at i:18494369 original size:34 final size:33
Alignment explanation
Indices: 18494330--18494412 Score: 87
Period size: 34 Copynumber: 2.5 Consensus size: 33
18494320 AATAAATATA
*
18494330 AAATCATGCAATAATCATACCAA-AATATCATAAT
1 AAATCATGCAATAAACAT-CCAAGAATAT-ATAAT
*** *
18494364 AAATCAAAAAATAAACATGCAAGAATATATAAT
1 AAATCATGCAATAAACATCCAAGAATATATAAT
18494397 AAATCATGCAAATAAA
1 AAATCATGC-AATAAA
18494413 TAATCTAATC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
33 14 0.36
34 25 0.64
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (33 bp):
AAATCATGCAATAAACATCCAAGAATATATAAT
Found at i:18494427 original size:21 final size:21
Alignment explanation
Indices: 18494387--18494490 Score: 124
Period size: 21 Copynumber: 5.1 Consensus size: 21
18494377 AACATGCAAG
*
18494387 AATATATAATA-AATCATGCA
1 AATAAATAATATAATCATGCA
* *
18494407 AATAAATAATCTAATCGTGCA
1 AATAAATAATATAATCATGCA
** *
18494428 AGCAAAT-A-ATACTCATGCA
1 AATAAATAATATAATCATGCA
18494447 AATAAATAATATAATCATGCA
1 AATAAATAATATAATCATGCA
*
18494468 AGTAAATAATATAATCATGCA
1 AATAAATAATATAATCATGCA
18494489 AA
1 AA
18494491 GTTTTTTTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
19 13 0.19
20 11 0.16
21 44 0.65
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (21 bp):
AATAAATAATATAATCATGCA
Found at i:18494450 original size:40 final size:40
Alignment explanation
Indices: 18494400--18494478 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
18494390 ATATAATAAA
* *
18494400 TCATGCAAATAAATAATCTAATCGTGCAAGCAAATAATAC
1 TCATGCAAATAAATAATATAATCATGCAAGCAAATAATAC
*
18494440 TCATGCAAATAAATAATATAATCATGCAAGTAAATAATA
1 TCATGCAAATAAATAATATAATCATGCAAGCAAATAATA
18494479 TAATCATGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.27
Consensus pattern (40 bp):
TCATGCAAATAAATAATATAATCATGCAAGCAAATAATAC
Found at i:18494562 original size:17 final size:15
Alignment explanation
Indices: 18494538--18494575 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
18494528 AATCATAATT
18494538 AAATAAAATAATATAA
1 AAATAAAAT-ATATAA
18494554 AATATAAAATATATAA
1 AA-ATAAAATATATAA
18494570 AAATAA
1 AAATAA
18494576 TGAAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 10 0.48
17 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAAATATATAA
Found at i:18502618 original size:23 final size:24
Alignment explanation
Indices: 18502559--18502619 Score: 61
Period size: 27 Copynumber: 2.5 Consensus size: 24
18502549 ATAATCATGC
*
18502559 AAATATATAATAAATCATACCAAA
1 AAATATAAAATAAATCATACCAAA
* *
18502583 AATATCATGAAAATATATCATA-CAAT
1 AA-AT-AT-AAAATAAATCATACCAAA
18502609 AAATATAAAAT
1 AAATATAAAAT
18502620 CATGCAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 5 0.16
24 4 0.13
25 4 0.13
26 7 0.23
27 11 0.35
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.28
Consensus pattern (24 bp):
AAATATAAAATAAATCATACCAAA
Found at i:18502622 original size:32 final size:30
Alignment explanation
Indices: 18502586--18502644 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
18502576 TACCAAAAAT
18502586 ATCATGAAAATATATCATAC-AATAAATATAAA
1 ATCATG-AAATA-ATCATACGAA-AAATATAAA
*
18502618 ATCATGCAATAATCATACGAAAAATAT
1 ATCATGAAATAATCATACGAAAAATAT
18502645 CATAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 13 0.52
31 6 0.24
32 6 0.24
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (30 bp):
ATCATGAAATAATCATACGAAAAATATAAA
Found at i:18502689 original size:57 final size:57
Alignment explanation
Indices: 18502559--18502690 Score: 135
Period size: 57 Copynumber: 2.3 Consensus size: 57
18502549 ATAATCATGC
* * ** * *
18502559 AAATATATAATAAATCATACCAAAAATATCATGAAAATATATCATACAATAAATATA
1 AAATATATAATAAATCATACCAAAAATATCATAAAAATAAAAAATACAACAAACATA
** *
18502616 AAATCATGCAAT-AATCATACGAAAAATATCATAATAAATCAAAAAATA-AACAAACA-A
1 AAAT-ATATAATAAATCATACCAAAAATATCATAA-AAAT-AAAAAATACAACAAACATA
18502673 AAATATATAATAAATCAT
1 AAATATATAATAAATCAT
18502691 GCAAATAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
56 5 0.08
57 35 0.58
58 15 0.25
59 5 0.08
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.25
Consensus pattern (57 bp):
AAATATATAATAAATCATACCAAAAATATCATAAAAATAAAAAATACAACAAACATA
Found at i:18502702 original size:20 final size:20
Alignment explanation
Indices: 18502673--18502744 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
18502663 AAACAAACAA
*
18502673 AAATATATAATAAATCATGC
1 AAATAAATAATAAATCATGC
*
18502693 AAATAAATAATAAATAATGC
1 AAATAAATAATAAATCATGC
*
18502713 AAATATATTAAT-AATCATGC
1 AAATA-AATAATAAATCATGC
18502733 AAATAAATAATA
1 AAATAAATAATA
18502745 TAATAGTGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
19 5 0.11
20 35 0.78
21 5 0.11
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (20 bp):
AAATAAATAATAAATCATGC
Found at i:18502718 original size:40 final size:41
Alignment explanation
Indices: 18502673--18502754 Score: 132
Period size: 40 Copynumber: 2.0 Consensus size: 41
18502663 AAACAAACAA
18502673 AAATATA-TAATAAATCATGCAAATAAATAATA-AATAATGC
1 AAATATATTAAT-AATCATGCAAATAAATAATATAATAATGC
*
18502713 AAATATATTAATAATCATGCAAATAAATAATATAATAGTGC
1 AAATATATTAATAATCATGCAAATAAATAATATAATAATGC
18502754 A
1 A
18502755 TAGTTTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
40 27 0.69
41 12 0.31
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.29
Consensus pattern (41 bp):
AAATATATTAATAATCATGCAAATAAATAATATAATAATGC
Found at i:18502725 original size:24 final size:20
Alignment explanation
Indices: 18502673--18502754 Score: 94
Period size: 20 Copynumber: 4.0 Consensus size: 20
18502663 AAACAAACAA
* *
18502673 AAATATATAATAAATCATGC
1 AAATAAATAATAAATAATGC
18502693 AAATAAATAATAAATAATGC
1 AAATAAATAATAAATAATGC
* *
18502713 AAATATATTAAT-AATCATGC
1 AAATA-AATAATAAATAATGC
*
18502733 AAATAAATAATATAATAGTGC
1 AAATAAATAATA-AATAATGC
18502754 A
1 A
18502755 TAGTTTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.10
20 35 0.67
21 12 0.23
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.29
Consensus pattern (20 bp):
AAATAAATAATAAATAATGC
Found at i:18508632 original size:26 final size:26
Alignment explanation
Indices: 18508574--18508637 Score: 112
Period size: 25 Copynumber: 2.5 Consensus size: 26
18508564 CTCAAATATG
*
18508574 AAAGAAATTAGAATATTTATGTAAAA
1 AAAGAAATTAGAATATTTATATAAAA
18508600 AAA-AAATTAGAATATTTATATAAAA
1 AAAGAAATTAGAATATTTATATAAAA
18508625 AAAGAAATTAGAA
1 AAAGAAATTAGAA
18508638 GATAATTACT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 24 0.67
26 12 0.33
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.28
Consensus pattern (26 bp):
AAAGAAATTAGAATATTTATATAAAA
Found at i:18519972 original size:23 final size:25
Alignment explanation
Indices: 18519946--18519995 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 25
18519936 TATTTTTATG
18519946 TAAGACCCTTCTATTG-TAAAA-AT
1 TAAGACCCTTCTATTGATAAAATAT
** *
18519969 TAAGTGCTTTCTATTGATAAAATAT
1 TAAGACCCTTCTATTGATAAAATAT
18519994 TA
1 TA
18519996 TTCTAGTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 13 0.59
24 5 0.23
25 4 0.18
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (25 bp):
TAAGACCCTTCTATTGATAAAATAT
Found at i:18531500 original size:26 final size:26
Alignment explanation
Indices: 18531471--18531520 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
18531461 CTTTCCATCA
*
18531471 ACTGCCATCCCTCTCTCTCTTCGTTG
1 ACTGCCATCCCTCTCACTCTTCGTTG
*
18531497 ACTGCCATCCTTCTCACTCTTCGT
1 ACTGCCATCCCTCTCACTCTTCGT
18531521 CGCGCCATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.10, C:0.42, G:0.10, T:0.38
Consensus pattern (26 bp):
ACTGCCATCCCTCTCACTCTTCGTTG
Found at i:18539186 original size:28 final size:29
Alignment explanation
Indices: 18539127--18539186 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
18539117 TTTTTAATAC
* *
18539127 TATATATAATGTTTATTTGATGTGATCAA
1 TATATATAATGTTTATATAATGTGATCAA
* *
18539156 TATATGTAATGTTT-TATAATGTGGTCAA
1 TATATATAATGTTTATATAATGTGATCAA
18539184 TAT
1 TAT
18539187 GTGGTTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.48
Consensus pattern (29 bp):
TATATATAATGTTTATATAATGTGATCAA
Found at i:18539243 original size:18 final size:20
Alignment explanation
Indices: 18539212--18539248 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
18539202 TATAATTATA
*
18539212 ATATTTTATATGCTTATTTT
1 ATATTTTATATGCTCATTTT
18539232 ATATTTT-T-TGCTCATTT
1 ATATTTTATATGCTCATTT
18539249 CATCTAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (20 bp):
ATATTTTATATGCTCATTTT
Found at i:18547452 original size:18 final size:20
Alignment explanation
Indices: 18547421--18547457 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
18547411 TATAATTATA
*
18547421 ATATTTTATATGCTTATTTT
1 ATATTTTATATGCTCATTTT
18547441 ATATTTT-T-TGCTCATTT
1 ATATTTTATATGCTCATTT
18547458 CATCTAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (20 bp):
ATATTTTATATGCTCATTTT
Found at i:18551861 original size:2 final size:2
Alignment explanation
Indices: 18551854--18551885 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18551844 TACTTGATGA
18551854 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18551886 TGGGATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18562362 original size:14 final size:14
Alignment explanation
Indices: 18562323--18562363 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
18562313 AGACACCCAG
*
18562323 AACCCCTCAACTCC
1 AACCACTCAACTCC
18562337 -ACCACT-AGACTCC
1 AACCACTCA-ACTCC
18562350 AACCACTCAACTCC
1 AACCACTCAACTCC
18562364 TCTTGAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 11 0.48
15 1 0.04
ACGTcount: A:0.32, C:0.51, G:0.02, T:0.15
Consensus pattern (14 bp):
AACCACTCAACTCC
Found at i:18563449 original size:24 final size:25
Alignment explanation
Indices: 18563398--18563449 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
18563388 ACTAAAATGC
* * *
18563398 TAAAAGAATAATAATAATAACAATA
1 TAAAAAAATAATAATAAGAACAAAA
*
18563423 TAAAAAAAT-ATAATAAGAATAAAA
1 TAAAAAAATAATAATAAGAACAAAA
18563447 TAA
1 TAA
18563450 TTTTTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (25 bp):
TAAAAAAATAATAATAAGAACAAAA
Found at i:18563805 original size:28 final size:29
Alignment explanation
Indices: 18563768--18563880 Score: 115
Period size: 28 Copynumber: 4.0 Consensus size: 29
18563758 ATCCAAAATT
* *
18563768 TCAAAA-CCCAAAAATTGAAACCCTAAAA
1 TCAAAACCCCAAAACTTCAAACCCTAAAA
** *
18563796 TC-AAACCCCAAACACCCCAAACCTTAAAA
1 TCAAAACCCCAAA-ACTTCAAACCCTAAAA
* *
18563825 TCAAAACTCCAAACCTTCAAACCCTAAAA
1 TCAAAACCCCAAAACTTCAAACCCTAAAA
* *
18563854 -CTAAACCCCAAACCTTCAAACCCTAAA
1 TCAAAACCCCAAAACTTCAAACCCTAAA
18563881 TCCTCTAAAC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
27 3 0.04
28 33 0.47
29 25 0.36
30 9 0.13
ACGTcount: A:0.50, C:0.35, G:0.01, T:0.14
Consensus pattern (29 bp):
TCAAAACCCCAAAACTTCAAACCCTAAAA
Found at i:18563876 original size:15 final size:15
Alignment explanation
Indices: 18563828--18563876 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
18563818 CTTAAAATCA
*
18563828 AAACTCCAAACCTTC
1 AAACCCCAAACCTTC
* *
18563843 AAACCCTAAAAC-T-
1 AAACCCCAAACCTTC
18563856 AAACCCCAAACCTTC
1 AAACCCCAAACCTTC
18563871 AAACCC
1 AAACCC
18563877 TAAATCCTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.37
14 2 0.07
15 15 0.56
ACGTcount: A:0.45, C:0.41, G:0.00, T:0.14
Consensus pattern (15 bp):
AAACCCCAAACCTTC
Found at i:18563922 original size:28 final size:28
Alignment explanation
Indices: 18563871--18563968 Score: 126
Period size: 28 Copynumber: 3.4 Consensus size: 28
18563861 CCAAACCTTC
*
18563871 AAACCCTAAATCCTCTAAACCCTAAAACCA
1 AAACCCTAAA-CCTC-AAACCCTAAAATCA
*
18563901 AAA-CTTCAAACCTCAAACCCTAAAATCA
1 AAACCCT-AAACCTCAAACCCTAAAATCA
*
18563929 AAACCCTAAATCTCAAACCCTAAAATCA
1 AAACCCTAAACCTCAAACCCTAAAATCA
*
18563957 AAAACCTAAACC
1 AAACCCTAAACC
18563969 CCATAATCTG
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
28 46 0.77
29 8 0.13
30 6 0.10
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (28 bp):
AAACCCTAAACCTCAAACCCTAAAATCA
Found at i:18563955 original size:73 final size:72
Alignment explanation
Indices: 18563771--18563955 Score: 198
Period size: 73 Copynumber: 2.6 Consensus size: 72
18563761 CAAAATTTCA
* ** * * * *
18563771 AAACCCAAAAATTGAAACCCTAAAATCAAACCCCAAACA-CCCCAAACCTTAAAATCAAAACTCC
1 AAACCCTAAAATCAAAACCCTAAACTCAAACCCTAAA-ATCCCCAAACCCTAAAACCAAAACTCC
18563835 AAACCTTC
65 AAACCTTC
* * *
18563843 AAACCCTAAAA-CTAAACCCCAAACCTTCAAACCCT-AAATCCTCTAAACCCTAAAACCAAAACT
1 AAACCCTAAAATCAAAACCCTAAA-C-TCAAACCCTAAAATCC-CCAAACCCTAAAACCAAAACT
*
18563906 TCAAACC-TC
63 CCAAACCTTC
18563915 AAACCCTAAAATCAAAACCCTAAATCTCAAACCCTAAAATC
1 AAACCCTAAAATCAAAACCCTAAA-CTCAAACCCTAAAATC
18563956 AAAAACCTAA
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
71 10 0.11
72 36 0.38
73 48 0.51
ACGTcount: A:0.49, C:0.35, G:0.01, T:0.16
Consensus pattern (72 bp):
AAACCCTAAAATCAAAACCCTAAACTCAAACCCTAAAATCCCCAAACCCTAAAACCAAAACTCCA
AACCTTC
Found at i:18563961 original size:15 final size:14
Alignment explanation
Indices: 18563768--18563966 Score: 72
Period size: 14 Copynumber: 13.9 Consensus size: 14
18563758 ATCCAAAATT
*
18563768 TCAAAACCCAAAAA
1 TCAAAACCCTAAAA
**
18563782 TTGAAACCCTAAAA
1 TCAAAACCCTAAAA
*
18563796 TC-AAACCCCAAACA
1 TCAAAACCCTAAA-A
* * *
18563810 CCCCAAACCTTAAAA
1 -TCAAAACCCTAAAA
*
18563825 TCAAAACTCC-AAACCT
1 TCAAAAC-CCTAAA--A
18563841 TC-AAACCCTAAAA
1 TCAAAACCCTAAAA
* * *
18563854 -CTAAACCCCAAACCT
1 TCAAAACCCTAAA--A
*
18563869 TC-AAACCCTAAATCC
1 TCAAAACCCTAAA--A
*
18563884 TCTAAACCCTAAAA
1 TCAAAACCCTAAAA
* * *
18563898 CCAAAA-CTTCAAACC
1 TCAAAACCCT-AAA-A
18563913 TC-AAACCCTAAAA
1 TCAAAACCCTAAAA
18563926 TCAAAACCCT-AAA
1 TCAAAACCCTAAAA
*
18563939 TCTCAAACCCTAAAA
1 TC-AAAACCCTAAAA
*
18563954 TCAAAAACCTAAA
1 TCAAAACCCTAAA
18563967 CCCCATAATC
Statistics
Matches: 138, Mismatches: 29, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
12 1 0.01
13 27 0.20
14 59 0.43
15 30 0.22
16 21 0.15
ACGTcount: A:0.50, C:0.34, G:0.01, T:0.16
Consensus pattern (14 bp):
TCAAAACCCTAAAA
Found at i:18564035 original size:14 final size:15
Alignment explanation
Indices: 18564006--18564046 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
18563996 CCTAAAATCC
*
18564006 AAAATCTCAAACCCT-
1 AAAATC-CAAAACCTA
18564021 AAAATCCAAAACCTA
1 AAAATCCAAAACCTA
18564036 AAAATCCAAAA
1 AAAATCCAAAA
18564047 GTCTAAAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAATCCAAAACCTA
Found at i:18564046 original size:22 final size:22
Alignment explanation
Indices: 18563995--18564038 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18563985 GAAACCCTAC
* *
18563995 CCCTAAAATCCAAAATCTCAAA
1 CCCTAAAATCCAAAACCTAAAA
18564017 CCCTAAAATCCAAAACCTAAAA
1 CCCTAAAATCCAAAACCTAAAA
18564039 ATCCAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (22 bp):
CCCTAAAATCCAAAACCTAAAA
Found at i:18567754 original size:24 final size:24
Alignment explanation
Indices: 18567722--18567771 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
18567712 AAATTTAAGA
*
18567722 ATAACTCTTTGGTATGTGGTTCAC
1 ATAACTCTTTGGTATGTAGTTCAC
18567746 ATAACTCTTTGGTATGTAGTTCAC
1 ATAACTCTTTGGTATGTAGTTCAC
18567770 AT
1 AT
18567772 TTTTGCTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (24 bp):
ATAACTCTTTGGTATGTAGTTCAC
Found at i:18570596 original size:45 final size:46
Alignment explanation
Indices: 18570480--18570601 Score: 142
Period size: 45 Copynumber: 2.7 Consensus size: 46
18570470 TTATATAATT
* **
18570480 ATTTATGATTTTTCATGTGCACTAACCTATTTTGTTTATTTTGTAGC
1 ATTT-TGATTTTTCATGTGTACTAATTTATTTTGTTTATTTTGTAGC
* * *
18570527 A-TATGATTTTTTATGCGTACTAATTTA-TTTGTTTTATTTTGTAG-
1 ATTTTGATTTTTCATGTGTACTAATTTATTTTG-TTTATTTTGTAGC
*
18570571 ATTTTGATTTTTCATGTGTATTAATTTATTT
1 ATTTTGATTTTTCATGTGTACTAATTTATTT
18570602 AATTATTTGG
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
44 5 0.08
45 53 0.85
46 3 0.05
47 1 0.02
ACGTcount: A:0.22, C:0.07, G:0.12, T:0.58
Consensus pattern (46 bp):
ATTTTGATTTTTCATGTGTACTAATTTATTTTGTTTATTTTGTAGC
Found at i:18573782 original size:50 final size:50
Alignment explanation
Indices: 18573658--18573786 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 50
18573648 CAAAATTACT
* *
18573658 TTGTTTGGATCATGCATTTGCATCATTTAAGGAATTTATAAATGACAAAA
1 TTGTTTGAATCATGCATTTGCATCATTTGAGGAATTTATAAATGACAAAA
* * * * * *
18573708 TTGTTT-AGATCTTACAATTACATCATTTGAGGAATTTATATATTG-CATAA
1 TTGTTTGA-ATCATGCATTTGCATCATTTGAGGAATTTATA-AATGACAAAA
*
18573758 TTGTTTGAACCATGCATTTGCATCATTTG
1 TTGTTTGAATCATGCATTTGCATCATTTG
18573787 GTGAGAATTT
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
50 59 0.94
51 4 0.06
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.42
Consensus pattern (50 bp):
TTGTTTGAATCATGCATTTGCATCATTTGAGGAATTTATAAATGACAAAA
Found at i:18573831 original size:26 final size:25
Alignment explanation
Indices: 18573802--18573855 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
18573792 AATTTAAATC
18573802 ATTGTTTTGAAT-ATTGCATTTGCATT
1 ATTG-TTTGAATCA-TGCATTTGCATT
*
18573828 ATTGTTTGGATCATGCATTTGCATT
1 ATTGTTTGAATCATGCATTTGCATT
18573853 ATT
1 ATT
18573856 TGGTGAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.22, C:0.09, G:0.17, T:0.52
Consensus pattern (25 bp):
ATTGTTTGAATCATGCATTTGCATT
Found at i:18573857 original size:71 final size:69
Alignment explanation
Indices: 18573750--18573925 Score: 235
Period size: 71 Copynumber: 2.5 Consensus size: 69
18573740 AATTTATATA
* *
18573750 TTGCATAATTGTTTGAACCATGCATTTGCATCATTTGGTGAGAATTTAAATCATTGTTTTGAATA
1 TTGCATTATTGTTTGAACCATGCATTTGCATCATTTGGTGAGAATCTAAA-CATTG-TTTGAATA
18573815 TTGCAT
64 TTGCAT
* * * *
18573821 TTGCATTATTGTTTGGATCATGCATTTGCATTATTTGGTGAGTATCTAAACATTGTTTGAATATT
1 TTGCATTATTGTTTGAACCATGCATTTGCATCATTTGGTGAGAATCTAAACATTGTTTGAATATT
18573886 GCAT
66 GCAT
* *** *
18573890 ATGCATTACAATTAGAACCATGCATTTGCATCATTT
1 TTGCATTATTGTTTGAACCATGCATTTGCATCATTT
18573926 AGGGAAAATT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
69 42 0.46
70 5 0.05
71 44 0.48
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.43
Consensus pattern (69 bp):
TTGCATTATTGTTTGAACCATGCATTTGCATCATTTGGTGAGAATCTAAACATTGTTTGAATATT
GCAT
Found at i:18573912 original size:69 final size:71
Alignment explanation
Indices: 18573764--18573925 Score: 220
Period size: 69 Copynumber: 2.3 Consensus size: 71
18573754 ATAATTGTTT
* *
18573764 GAACCATGCATTTGCATCATTTGGTGAGAATTTAAATCATTGTTTTGAATATTGCATTTGCATTA
1 GAACCATGCATTTGCATCATTTGGTGAGAATCTAAATCATTGTTTTGAATATTGCATATGCATTA
*** *
18573829 TTGTTT
66 CAATTA
* * * *
18573835 GGATCATGCATTTGCATTATTTGGTGAGTATCTAAA-CATTG-TTTGAATATTGCATATGCATTA
1 GAACCATGCATTTGCATCATTTGGTGAGAATCTAAATCATTGTTTTGAATATTGCATATGCATTA
18573898 CAATTA
66 CAATTA
18573904 GAACCATGCATTTGCATCATTT
1 GAACCATGCATTTGCATCATTT
18573926 AGGGAAAATT
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
69 42 0.54
70 5 0.06
71 31 0.40
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (71 bp):
GAACCATGCATTTGCATCATTTGGTGAGAATCTAAATCATTGTTTTGAATATTGCATATGCATTA
CAATTA
Found at i:18574790 original size:43 final size:42
Alignment explanation
Indices: 18574693--18574845 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 42
18574683 TGGTTGCGAA
* * *
18574693 TTTTTAAAGTTTCAAAA-CTTCTATTAG-AGGAACCTTTGAAT
1 TTTTTAAAATTTCAAAACCTT-TATTAGAAGGAGCCTTTTAAT
* *
18574734 TTTCTAAAGTTTCAAAACCTTTATTAAGAAGGAGCCTTTTAAT
1 TTTTTAAAATTTCAAAACCTTTATT-AGAAGGAGCCTTTTAAT
* * * *
18574777 TTTTTAAAATTTCAAAGCCTTTGTT-GAAGGGAGCCTTATAAA
1 TTTTTAAAATTTCAAAACCTTTATTAGAA-GGAGCCTTTTAAT
* *
18574819 TTTTCAAAAGTTTCAAAGCCTTTATTA
1 TTTTTAAAA-TTTCAAAACCTTTATTA
18574846 ACATGACTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 9
0.83 0.10 0.08
Matches are distributed among these distances:
41 23 0.24
42 24 0.25
43 48 0.51
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (42 bp):
TTTTTAAAATTTCAAAACCTTTATTAGAAGGAGCCTTTTAAT
Found at i:18574898 original size:86 final size:86
Alignment explanation
Indices: 18574731--18574951 Score: 193
Period size: 86 Copynumber: 2.6 Consensus size: 86
18574721 GGAACCTTTG
* * **
18574731 AATTTTCTAAAGTTTCAAAACCTTTATTAAGAAGGAGCCTTTTAATTTTTTAAAATTTCAAAGCC
1 AATTTTCAAAAGTTTCAAAGCCTTTATTAAGAAGGAGCCTTTTAATTTTCAAAAATTTCAAAGCC
* * * ***
18574796 TTTGTTGAAGGGAGCCTTAT-A
66 TCTATTAAAAAAAGCCTT-TCA
* * *
18574817 AATTTTCAAAAGTTTCAAAGCCTTTATTAA-CATGA-CTTTTTTAAATTTTCAAAAATTTCAAAG
1 AATTTTCAAAAGTTTCAAAGCCTTTATTAAGAAGGAGC-CTTTT-AATTTTCAAAAATTTCAAAG
*
18574880 CCTCTATTAAAAAAAGCCTTTCC
64 CCTCTATTAAAAAAAGCCTTTCA
* * *
18574903 GATTTTCAAAA-TGTCAAAGCCTTTGTTGAAGATA--AGCCTTTTTAATTTT
1 AATTTTCAAAAGTTTCAAAGCCTTTATT-AAGA-AGGAGCC-TTTTAATTTT
18574952 TCTTTAATAA
Statistics
Matches: 108, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
84 1 0.01
85 22 0.20
86 79 0.73
87 5 0.05
88 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (86 bp):
AATTTTCAAAAGTTTCAAAGCCTTTATTAAGAAGGAGCCTTTTAATTTTCAAAAATTTCAAAGCC
TCTATTAAAAAAAGCCTTTCA
Found at i:18574951 original size:43 final size:42
Alignment explanation
Indices: 18574731--18574951 Score: 162
Period size: 43 Copynumber: 5.1 Consensus size: 42
18574721 GGAACCTTTG
* *
18574731 AATTTTCTAAAGTTTCAAAACCTTTATTAAGA-AGGAGCC-TTTT
1 AATTTTC-AAAATTTCAAAGCCTTTATTAAGATA--AGCCTTTTT
* * ** * *
18574774 AATTTTTTAAAATTTCAAAGCCTTTGTTGAAG-GGAGCCTTATA
1 AA-TTTTCAAAATTTCAAAGCCTTTATT-AAGATAAGCCTTTTT
* * *
18574817 AATTTTCAAAAGTTTCAAAGCCTTTATTAACATGA-CTTTTTT
1 AATTTTCAAAA-TTTCAAAGCCTTTATTAAGATAAGCCTTTTT
* * * **
18574859 AAATTTTCAAAAATTTCAAAGCCTCTATTAAAAAAAGCCTTTCC
1 -AATTTTC-AAAATTTCAAAGCCTTTATTAAGATAAGCCTTTTT
* * *
18574903 GATTTTCAAAATGTCAAAGCCTTTGTTGAAGATAAGCCTTTTT
1 AATTTTCAAAATTTCAAAGCCTTTATT-AAGATAAGCCTTTTT
18574946 AATTTT
1 AATTTT
18574952 TCTTTAATAA
Statistics
Matches: 138, Mismatches: 30, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
42 35 0.25
43 88 0.64
44 15 0.11
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (42 bp):
AATTTTCAAAATTTCAAAGCCTTTATTAAGATAAGCCTTTTT
Found at i:18575805 original size:4 final size:4
Alignment explanation
Indices: 18575796--18575841 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
18575786 TTTTTACTTG
* * *
18575796 TTTA TTTA TTTC TATA TTTA TTTA TTCA -TTA TTTA -TTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
18575842 GGTTTTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
3 5 0.15
4 29 0.85
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:18575829 original size:11 final size:11
Alignment explanation
Indices: 18575797--18575841 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
18575787 TTTTACTTGT
*
18575797 TTATTTATTTC
1 TTATTTATTTA
18575808 TATATTTATTTA
1 T-TATTTATTTA
18575820 TTCA-TTATTTA
1 TT-ATTTATTTA
18575831 TTATTTATTTA
1 TTATTTATTTA
18575842 GGTTTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 1 0.03
11 18 0.60
12 11 0.37
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:18577719 original size:14 final size:15
Alignment explanation
Indices: 18577694--18577722 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18577684 ATCAATTAAC
18577694 ATATTATTAAAATTA
1 ATATTATTAAAATTA
18577709 ATATT-TTAAAATTA
1 ATATTATTAAAATTA
18577723 TTGATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTATTAAAATTA
Found at i:18578150 original size:18 final size:18
Alignment explanation
Indices: 18578127--18578161 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18578117 CGACGACTAT
* *
18578127 ATAATATGAGAGTCTCTA
1 ATAATATAAGAATCTCTA
18578145 ATAATATAAGAATCTCT
1 ATAATATAAGAATCTCT
18578162 TATATTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (18 bp):
ATAATATAAGAATCTCTA
Found at i:18581209 original size:24 final size:24
Alignment explanation
Indices: 18581177--18581226 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
18581167 AAATTTAAGA
*
18581177 ATAACTCTTTGGTATGTGGTTCAC
1 ATAACTCTTTGGTATGTAGTTCAC
18581201 ATAACTCTTTGGTATGTAGTTCAC
1 ATAACTCTTTGGTATGTAGTTCAC
18581225 AT
1 AT
18581227 TTTTGGCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (24 bp):
ATAACTCTTTGGTATGTAGTTCAC
Found at i:18583241 original size:15 final size:15
Alignment explanation
Indices: 18583221--18583275 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
18583211 TTTGTTTCTA
*
18583221 TATTTATTTATTTAT
1 TATTTATTTACTTAT
*
18583236 TATTTATTTAGGTT-T
1 TATTTATTTA-CTTAT
*
18583251 TATTT-TTTGCTTAT
1 TATTTATTTACTTAT
18583265 TAATTTATTTA
1 T-ATTTATTTA
18583276 ATTGATGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 2 0.06
14 5 0.16
15 20 0.62
16 5 0.16
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (15 bp):
TATTTATTTACTTAT
Found at i:18584005 original size:44 final size:45
Alignment explanation
Indices: 18583956--18584060 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 45
18583946 TGTAATTATT
*
18583956 TATGATTTTTCATGTGCACTAACCTATTTG-TTTATTTTGTAGCC
1 TATGATTTTTCATGTGCACTAACCTATTTGTTTTATTTTGTAGAC
* * * ** *
18584000 TATGATTTTTTATGCGTACTAATTTATTTGTTTTATTTTGTAGAT
1 TATGATTTTTCATGTGCACTAACCTATTTGTTTTATTTTGTAGAC
*
18584045 TTTGATTTTTCATGTG
1 TATGATTTTTCATGTG
18584061 TGTTAATTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 25 0.50
45 25 0.50
ACGTcount: A:0.20, C:0.10, G:0.14, T:0.56
Consensus pattern (45 bp):
TATGATTTTTCATGTGCACTAACCTATTTGTTTTATTTTGTAGAC
Found at i:18584068 original size:45 final size:44
Alignment explanation
Indices: 18583953--18584073 Score: 134
Period size: 45 Copynumber: 2.7 Consensus size: 44
18583943 TTATGTAATT
* **
18583953 ATTTATGATTTTTCATGTGCACTAACCTATTTGTTTATTTTGTAG
1 ATTT-TGATTTTTCATGTGTACTAATTTATTTGTTTATTTTGTAG
** * * *
18583998 CCTATGATTTTTTATGCGTACTAATTTATTTGTTTTATTTTGTAG
1 ATTTTGATTTTTCATGTGTACTAATTTATTTG-TTTATTTTGTAG
**
18584043 ATTTTGATTTTTCATGTGTGTTAATTTATTT
1 ATTTTGATTTTTCATGTGTACTAATTTATTT
18584074 AATTATTTGG
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 23 0.38
45 37 0.62
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (44 bp):
ATTTTGATTTTTCATGTGTACTAATTTATTTGTTTATTTTGTAG
Found at i:18587274 original size:50 final size:50
Alignment explanation
Indices: 18587146--18587285 Score: 156
Period size: 50 Copynumber: 2.8 Consensus size: 50
18587136 CAAAATTGCT
* **
18587146 TTGTTTGGATCATGCATTTGCATCATTTAAGGAATTTATAAATGGCAAAA
1 TTGTTTGAATCATGCATTTGCATCATTTGGGGAATTTATAAATGGCAAAA
* * * * * *
18587196 TTGTTT-AGATCTTGCAATTACATCATTTGGGGAATTTATAAGTTGCATAA
1 TTGTTTGA-ATCATGCATTTGCATCATTTGGGGAATTTATAAATGGCAAAA
*
18587246 TTGTTTGAACCATGCATTTGCATCATTTGGTGAGAATTTA
1 TTGTTTGAATCATGCATTTGCATCATTTGG-G-GAATTTA
18587286 AATCATTGTT
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
50 64 0.88
51 2 0.03
52 7 0.10
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (50 bp):
TTGTTTGAATCATGCATTTGCATCATTTGGGGAATTTATAAATGGCAAAA
Found at i:18587323 original size:25 final size:25
Alignment explanation
Indices: 18587295--18587343 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
18587285 AAATCATTGT
18587295 TTTGAAT-ATTGCATTTGCATTATTA
1 TTTGAATCA-TGCATTTGCATTATTA
*
18587320 TTTGGATCATGCATTTGCATTATT
1 TTTGAATCATGCATTTGCATTATT
18587344 TGGTGAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.51
Consensus pattern (25 bp):
TTTGAATCATGCATTTGCATTATTA
Found at i:18587332 original size:71 final size:70
Alignment explanation
Indices: 18587238--18587414 Score: 237
Period size: 71 Copynumber: 2.5 Consensus size: 70
18587228 AATTTATAAG
* * *
18587238 TTGCATAATTGTTTGAACCATGCATTTGCATCATTTGGTGAGAATTTAAATCATTGTTTTGAATA
1 TTGCATTATTATTTGAACCATGCATTTGCATCATTTGGTGAGAATCTAAATCATTG-TTTGAATA
18587303 TTGCAT
65 TTGCAT
* * * *
18587309 TTGCATTATTATTTGGATCATGCATTTGCATTATTTGGTGAGTATCTAAATCATTGTTTGAATAT
1 TTGCATTATTATTTGAACCATGCATTTGCATCATTTGGTGAGAATCTAAATCATTGTTTGAATAT
18587374 TGCAT
66 TGCAT
* * ** *
18587379 ATGTATTACAATTAGAACCATGCATTTGCATCATTT
1 TTGCATTATTATTTGAACCATGCATTTGCATCATTT
18587415 AGGAAAAATT
Statistics
Matches: 91, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
70 42 0.46
71 49 0.54
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (70 bp):
TTGCATTATTATTTGAACCATGCATTTGCATCATTTGGTGAGAATCTAAATCATTGTTTGAATAT
TGCAT
Found at i:18587408 original size:70 final size:71
Alignment explanation
Indices: 18587252--18587414 Score: 229
Period size: 70 Copynumber: 2.3 Consensus size: 71
18587242 ATAATTGTTT
* *
18587252 GAACCATGCATTTGCATCATTTGGTGAGAATTTAAATCATTGTTTTGAATATTGCATTTGCATTA
1 GAACCATGCATTTGCATCATTTGGTGAGAATCTAAATCATTGTTTTGAATATTGCATATGCATTA
** *
18587317 TTATTT
66 CAATTA
* * * * *
18587323 GGATCATGCATTTGCATTATTTGGTGAGTATCTAAATCATTG-TTTGAATATTGCATATGTATTA
1 GAACCATGCATTTGCATCATTTGGTGAGAATCTAAATCATTGTTTTGAATATTGCATATGCATTA
18587387 CAATTA
66 CAATTA
18587393 GAACCATGCATTTGCATCATTT
1 GAACCATGCATTTGCATCATTT
18587415 AGGAAAAATT
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
70 42 0.53
71 37 0.47
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (71 bp):
GAACCATGCATTTGCATCATTTGGTGAGAATCTAAATCATTGTTTTGAATATTGCATATGCATTA
CAATTA
Found at i:18587763 original size:32 final size:30
Alignment explanation
Indices: 18587685--18587765 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 30
18587675 GAGATTTGAT
*
18587685 TTAAGCCAAGATTAGCTGGCACATGATGAAA
1 TTAAGCC-AGATTAGCTGACACATGATGAAA
* * *
18587716 TTGAAGTCCACATTAGCTGACACATGATGGGAC
1 TT-AAG-CCAGATTAGCTGACACATGAT-GAAA
18587749 TTAAGCCTAGATTAGCT
1 TTAAGCC-AGATTAGCT
18587766 AGCATTAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
31 4 0.10
32 31 0.76
33 6 0.15
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (30 bp):
TTAAGCCAGATTAGCTGACACATGATGAAA
Found at i:18588115 original size:42 final size:42
Alignment explanation
Indices: 18588069--18588283 Score: 122
Period size: 43 Copynumber: 5.0 Consensus size: 42
18588059 ATTTTATAGC
*
18588069 CTCTAGTTAGAAAAGCTCTTTCAATTTTTAAAATTTCAAAAT
1 CTCTAGTTAGAAAAGCTCTTTGAATTTTTAAAATTTCAAAAT
* *
18588111 CTCTAGTTA-AAAGAGCTTTTTGTGAA-TTTTAAAATTT-TAAAT
1 CTCTAGTTAGAAA-AGC-TCTT-TGAATTTTTAAAATTTCAAAAT
* * *
18588153 ACTCTAGTTA-AAGGAGCTTTTTGGTTGTGAATTTTTAAAGTTTCAAAAT
1 -CTCTAGTTAGAA-AAGC----T-CTT-TGAATTTTTAAAATTTCAAAAT
* * * * *
18588202 TTTTA-TTAGATAAGC-CTTTGAATTTTTTAAAGTTTCAAAAC
1 CTCTAGTTAGAAAAGCTCTTTGAA-TTTTTAAAATTTCAAAAT
* *
18588243 CTCTA-TTAAGAAGGAGC-CTTTTAATTTTTCAAAATTTCAAA
1 CTCTAGTT-AGAA-AAGCTCTTTGAATTTTT-AAAATTTCAAA
18588284 GCCTTTATTG
Statistics
Matches: 138, Mismatches: 19, Indels: 31
0.73 0.10 0.16
Matches are distributed among these distances:
40 4 0.03
41 27 0.20
42 24 0.17
43 47 0.34
44 3 0.02
46 2 0.01
47 13 0.09
48 14 0.10
49 4 0.03
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (42 bp):
CTCTAGTTAGAAAAGCTCTTTGAATTTTTAAAATTTCAAAAT
Found at i:18588146 original size:43 final size:42
Alignment explanation
Indices: 18588045--18588175 Score: 133
Period size: 43 Copynumber: 3.1 Consensus size: 42
18588035 AGCTTTTTAG
* ** *
18588045 TTGTGAATTTTAAAATTTTATAGCCTCTAGTTAGAAA-AGC-TC
1 TTGTGAATTTTAAAA-TTTAAAATCTCTAGTTA-AAAGAGCTTT
*
18588087 TT-TCAATTTTTAAAATTTCAAAATCTCTAGTTAAAAGAGCTTT
1 TTGTGAA-TTTTAAAATTT-AAAATCTCTAGTTAAAAGAGCTTT
* *
18588130 TTGTGAATTTTAAAATTTTAAATACTCTAGTTAAAGGAGCTTT
1 TTGTGAATTTTAAAATTTAAAAT-CTCTAGTTAAAAGAGCTTT
18588173 TTG
1 TTG
18588176 GTTGTGAATT
Statistics
Matches: 75, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
41 9 0.12
42 28 0.37
43 35 0.47
44 3 0.04
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (42 bp):
TTGTGAATTTTAAAATTTAAAATCTCTAGTTAAAAGAGCTTT
Found at i:18588250 original size:41 final size:42
Alignment explanation
Indices: 18588180--18588391 Score: 144
Period size: 43 Copynumber: 5.0 Consensus size: 42
18588170 TTTTTGGTTG
**
18588180 TGAA-TTTTTAAAGTTTCAAAATTTTTATT-AGATA-AGCCTT
1 TGAATTTTTTAAAGTTTCAAAACCTTTATTAAGA-AGAGCCTT
*
18588220 TGAATTTTTTAAAGTTTCAAAACCTCTATTAAGAAGGAGCCTT
1 TGAATTTTTTAAAGTTTCAAAACCTTTATTAAGAA-GAGCCTT
* * * * * *
18588263 TTAATTTTTCAAAATTTCAAAGCCTTTATTGAAG-GGAGCTTT
1 TGAATTTTTTAAAGTTTCAAAACCTTTATT-AAGAAGAGCCTT
* ** * * * *
18588305 CTAAATTTTCAAAAGTTTCAAAGCCTTTATTAACATGAGCTTTT
1 -TGAATTTTTTAAAGTTTCAAAACCTTTATTAAGAAGAGC-CTT
* ** * * * *
18588349 TAAATTTTCAAAAATTTCAAAGCCTCTATTAAAAAGAGCCTT
1 TGAATTTTTTAAAGTTTCAAAACCTTTATTAAGAAGAGCCTT
18588391 T
1 T
18588392 TAGATTTCCA
Statistics
Matches: 143, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
40 4 0.03
41 23 0.16
42 14 0.10
43 96 0.67
44 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (42 bp):
TGAATTTTTTAAAGTTTCAAAACCTTTATTAAGAAGAGCCTT
Found at i:18588281 original size:43 final size:43
Alignment explanation
Indices: 18588214--18588443 Score: 197
Period size: 43 Copynumber: 5.4 Consensus size: 43
18588204 TTATTAGATA
* * * *
18588214 AGCCTTTGAATTTTTTAAAGTTTCAAAACCTCTATTAAGAAGG
1 AGCCTTTTAATTTTTCAAAATTTCAAAGCCTCTATTAAGAAGG
*
18588257 AGCCTTTTAATTTTTCAAAATTTCAAAGCCTTTATT--GAAGGG
1 AGCCTTTTAATTTTTCAAAATTTCAAAGCCTCTATTAAGAA-GG
* * * *
18588299 AG-CTTTCTAAATTTTCAAAAGTTTCAAAGCCTTTATTAA-CATG
1 AGCCTTT-TAATTTTTCAAAA-TTTCAAAGCCTCTATTAAGAAGG
* * *
18588342 AGCTTTTTAAATTTTCAAAAATTTCAAAGCCTCTATTAA-AAAG
1 AGCCTTTTAATTTTTC-AAAATTTCAAAGCCTCTATTAAGAAGG
* * * *
18588385 AGCCTTTTAGA-TTTCCAAAATGTCAAAACCTCTGTTGAAGATA--
1 AGCCTTTTA-ATTTTTCAAAATTTCAAAGCCTCTATT-AAGA-AGG
18588428 AGCCTTTTAATTTTTC
1 AGCCTTTTAATTTTTC
18588444 TTTAATAATT
Statistics
Matches: 157, Mismatches: 18, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
41 7 0.04
42 34 0.22
43 105 0.67
44 10 0.06
45 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (43 bp):
AGCCTTTTAATTTTTCAAAATTTCAAAGCCTCTATTAAGAAGG
Found at i:18588322 original size:86 final size:86
Alignment explanation
Indices: 18588230--18588443 Score: 238
Period size: 86 Copynumber: 2.5 Consensus size: 86
18588220 TGAATTTTTT
* *
18588230 AAAGTTTCAAAACCTCTATTAAGAAGGAGCCTTTTAATTTTTC-AAAATTTCAAAGCCTTTATTG
1 AAAGTTTCAAAACCTCTATTAAGAA-GAGCCTTTTAATTTTTCAAAAATTTCAAAGCCTCTATTA
** *
18588294 AAGGGAG-CTTTCTAAATTTTCA
65 AAAAGAGCCTTT-TAAATTTCCA
* * * * * *
18588316 AAAGTTTCAAAGCCTTTATTAACATGAGCTTTTTAAATTTTCAAAAATTTCAAAGCCTCTATTAA
1 AAAGTTTCAAAACCTCTATTAAGAAGAGCCTTTTAATTTTTCAAAAATTTCAAAGCCTCTATTAA
*
18588381 AAAGAGCCTTTTAGATTTCCA
66 AAAGAGCCTTTTAAATTTCCA
* *
18588402 AAA-TGTCAAAACCTCTGTTGAAGATA-AGCCTTTTAATTTTTC
1 AAAGTTTCAAAACCTCTATT-AAGA-AGAGCCTTTTAATTTTTC
18588444 TTTAATAATT
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
85 27 0.26
86 73 0.70
87 4 0.04
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (86 bp):
AAAGTTTCAAAACCTCTATTAAGAAGAGCCTTTTAATTTTTCAAAAATTTCAAAGCCTCTATTAA
AAAGAGCCTTTTAAATTTCCA
Found at i:18591109 original size:18 final size:18
Alignment explanation
Indices: 18591086--18591120 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18591076 CGACGACTAT
* *
18591086 ATAATATGAGAGTCTCTA
1 ATAATATAAGAATCTCTA
18591104 ATAATATAAGAATCTCT
1 ATAATATAAGAATCTCT
18591121 TATATTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (18 bp):
ATAATATAAGAATCTCTA
Found at i:18594142 original size:7 final size:7
Alignment explanation
Indices: 18594130--18594156 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
18594120 TGAATAATTT
18594130 TTAAACC
1 TTAAACC
18594137 TTAAACC
1 TTAAACC
18594144 TTAAACC
1 TTAAACC
18594151 TTAAAC
1 TTAAAC
18594157 TCATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (7 bp):
TTAAACC
Found at i:18594399 original size:64 final size:60
Alignment explanation
Indices: 18594234--18594403 Score: 155
Period size: 64 Copynumber: 2.7 Consensus size: 60
18594224 AAATTTGAAT
* * * *
18594234 GGGATTATTCAAAGTGTTTTTGGCCAAAAACGCTTTGAATAATCATCTCTAATTTTTTATT
1 GGGATTATTTAAAGTGTTTTTGGACAAAAATGC-TTGAATAATCATCTCTAATTTTTTATA
* * * * *
18594295 GAGGATTATTTAATGCGTTTTTTGACATAATTGCCTTGAATAACTTTCAT-TC-AATTTTTTTAT
1 G-GGATTATTTAAAGTGTTTTTGGACAAAAATG-CTTGAATAA---TCATCTCTAA-TTTTTTAT
18594358 AA
60 -A
*
18594360 GGGATTATTTAAAGTATTTTTGGACAAAAATGCTATGAATAATC
1 GGGATTATTTAAAGTGTTTTTGGACAAAAATGCT-TGAATAATC
18594404 CTTTATAAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 16
0.74 0.13 0.14
Matches are distributed among these distances:
61 3 0.03
62 31 0.36
63 5 0.06
64 42 0.49
65 5 0.06
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.43
Consensus pattern (60 bp):
GGGATTATTTAAAGTGTTTTTGGACAAAAATGCTTGAATAATCATCTCTAATTTTTTATA
Found at i:18604249 original size:33 final size:33
Alignment explanation
Indices: 18604211--18604326 Score: 110
Period size: 33 Copynumber: 3.5 Consensus size: 33
18604201 AGCCGTCATC
* *
18604211 GAAAATAAAAT-ATCTTGGTCTTAGCTAAAGTTA
1 GAAAATAAAATGA-CTTGGTCTTAACCAAAGTTA
** *
18604244 GAAAATAGTATGACTTGGACTTAACCAAAGTTA
1 GAAAATAAAATGACTTGGTCTTAACCAAAGTTA
* * *
18604277 GAAAATAAAATGACTTGGT-TCTAGCCGAAGTCA
1 GAAAATAAAATGACTTGGTCT-TAACCAAAGTTA
* *
18604310 AAAAATAAAATGGCTTG
1 GAAAATAAAATGACTTG
18604327 ATTTAGACTA
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
32 1 0.01
33 66 0.97
34 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (33 bp):
GAAAATAAAATGACTTGGTCTTAACCAAAGTTA
Found at i:18604498 original size:32 final size:30
Alignment explanation
Indices: 18604444--18604533 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 30
18604434 TGAACCGTGG
*
18604444 TTGAAAA-CAAAAGTGATCGGATT-AAGCTAATT
1 TTGAAAATGAAAA-TGATCGGATTGAA-CT-A-T
*
18604476 TTGAAAATGAAAATGATTGGATTGAACTAT
1 TTGAAAATGAAAATGATCGGATTGAACTAT
* *
18604506 GTGAAAAATGAAAATGATCAGATTGAAC
1 TTG-AAAATGAAAATGATCGGATTGAAC
18604534 CAAGGTAGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
30 3 0.06
31 23 0.46
32 18 0.36
33 6 0.12
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (30 bp):
TTGAAAATGAAAATGATCGGATTGAACTAT
Found at i:18604552 original size:32 final size:32
Alignment explanation
Indices: 18604510--18604571 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
18604500 AACTATGTGA
* *
18604510 AAAATGAAAATGATCAGATTGAACCAAGGTAG
1 AAAATAAAAATGACCAGATTGAACCAAGGTAG
18604542 AAAATAAAAATGACCAGATTGAACCAAGGT
1 AAAATAAAAATGACCAGATTGAACCAAGGT
18604572 CGATGAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.18
Consensus pattern (32 bp):
AAAATAAAAATGACCAGATTGAACCAAGGTAG
Found at i:18604644 original size:64 final size:65
Alignment explanation
Indices: 18604533--18604744 Score: 207
Period size: 65 Copynumber: 3.3 Consensus size: 65
18604523 TCAGATTGAA
* * * * *
18604533 CCAAGGT-AGAAAATAAAAATGACCAGATTGAACCAAGGTCGATGAATGAAAGTAATC-AGATTA
1 CCAAGGTCA-AAAATGAAAATAACCAGATTGAACCAAGGTCGAAGAATGAAAGTAACCTA-ACTA
18604596 AG
64 AG
** * *
18604598 TTAAGGTCAAAAATG-AAATAACCAGACTGAACCAAGGTCGAAGAATGAAAGTGACCTAACTAAG
1 CCAAGGTCAAAAATGAAAATAACCAGATTGAACCAAGGTCGAAGAATGAAAGTAACCTAACTAAG
* * * * * * * *
18604662 CCAATGTCAAAAATGAAAATAACTAGATTGAACTAGGGTCAAAGAATGAAAGTGA-CTGGATTAA
1 CCAAGGTCAAAAATGAAAATAACCAGATTGAACCAAGGTCGAAGAATGAAAGTAACCT-AACTAA
18604726 G
65 G
*
18604727 CCAAGGTTAAAAATGAAA
1 CCAAGGTCAAAAATGAAA
18604745 GTGATCGGAC
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
64 55 0.45
65 66 0.54
66 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.19
Consensus pattern (65 bp):
CCAAGGTCAAAAATGAAAATAACCAGATTGAACCAAGGTCGAAGAATGAAAGTAACCTAACTAAG
Found at i:18604645 original size:32 final size:32
Alignment explanation
Indices: 18604524--18604712 Score: 120
Period size: 32 Copynumber: 5.9 Consensus size: 32
18604514 TGAAAATGAT
* * *
18604524 CAGATTGAACCAAGGTAGAA-AATAAAAATGAC
1 CAGATTGAACCAAGGTCGAAGAAT-GAAATAAC
* *
18604556 CAGATTGAACCAAGGTCGATGAATGAAAGTAAT
1 CAGATTGAACCAAGGTCGAAGAATGAAA-TAAC
** *
18604589 CAGATT-AAGTTAAGGTC-AAAAATGAAATAAC
1 CAGATTGAA-CCAAGGTCGAAGAATGAAATAAC
* *
18604620 CAGACTGAACCAAGGTCGAAGAATGAAAGTGAC
1 CAGATTGAACCAAGGTCGAAGAATGAAA-TAAC
* * *
18604653 CTA-ACT-AAGCCAATGTC-AAAAATGAAAATAAC
1 C-AGATTGAA-CCAAGGTCGAAGAATG-AAATAAC
* * * *
18604685 TAGATTGAACTAGGGTCAAAGAATGAAA
1 CAGATTGAACCAAGGTCGAAGAATGAAA
18604713 GTGACTGGAT
Statistics
Matches: 121, Mismatches: 24, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
31 15 0.12
32 63 0.52
33 42 0.35
34 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (32 bp):
CAGATTGAACCAAGGTCGAAGAATGAAATAAC
Found at i:18604765 original size:32 final size:32
Alignment explanation
Indices: 18604599--18604774 Score: 106
Period size: 32 Copynumber: 5.5 Consensus size: 32
18604589 CAGATTAAGT
* ** *
18604599 TAAGGTCAAAAATGAAA-TAACCAGACTGAAC
1 TAAGGTCAAAAATGAAAGTGACTGGACTAAAC
* * * *
18604630 CAAGGTCGAAGAATGAAAGTGACCT-AACTAAGC
1 TAAGGTC-AAAAATGAAAGTGA-CTGGACTAAAC
* * * * * * *
18604663 CAATGTCAAAAATGAAAATAACTAGATTGAAC
1 TAAGGTCAAAAATGAAAGTGACTGGACTAAAC
* * *
18604695 TAGGGTCAAAGAATGAAAGTGACTGGATTAAGC
1 TAAGGTCAAA-AATGAAAGTGACTGGACTAAAC
* *
18604728 CAAGGTTAAAAATGAAAGTGA-TCGGACTAAAC
1 TAAGGTCAAAAATGAAAGTGACT-GGACTAAAC
*
18604760 TAAGGTCGAAAATGA
1 TAAGGTCAAAAATGA
18604775 CTAAGTCTGA
Statistics
Matches: 108, Mismatches: 31, Indels: 11
0.72 0.21 0.07
Matches are distributed among these distances:
31 9 0.08
32 61 0.56
33 37 0.34
34 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.22, T:0.19
Consensus pattern (32 bp):
TAAGGTCAAAAATGAAAGTGACTGGACTAAAC
Found at i:18604774 original size:129 final size:129
Alignment explanation
Indices: 18604542--18604774 Score: 281
Period size: 129 Copynumber: 1.8 Consensus size: 129
18604532 ACCAAGGTAG
* * * **
18604542 AAAATAAAAATGACCAGATTGAACCAAGGTCGATGAATGAAAGTAATCAGATTAAGTTAAGGTCA
1 AAAATAAAAATAACCAGATTGAACCAAGGTCAAAGAATGAAAGTAATCAGATTAAGCCAAGGTCA
*
18604607 AAAATGAAATAACCAGACTGAACCAAGGTCGAAGAATGAAAGTGACCTAACTAAGCCAATGTCA
66 AAAATGAAATAACCAGACTAAACCAAGGTCGAAGAATGAAAGTGACCTAACTAAGCCAATGTCA
* * * * * * *
18604671 AAAATGAAAATAACTAGATTGAACTAGGGTCAAAGAATGAAAGTGA-CTGGATTAAGCCAAGGTT
1 AAAATAAAAATAACCAGATTGAACCAAGGTCAAAGAATGAAAGTAATC-AGATTAAGCCAAGGTC
* * * *
18604735 AAAAATGAAAGTGATCGGACTAAACTAAGGTCGAA-AATGA
65 AAAAATGAAA-TAACCAGACTAAACCAAGGTCGAAGAATGA
18604775 CTAAGTCTGA
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
128 1 0.01
129 65 0.76
130 19 0.22
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.19
Consensus pattern (129 bp):
AAAATAAAAATAACCAGATTGAACCAAGGTCAAAGAATGAAAGTAATCAGATTAAGCCAAGGTCA
AAAATGAAATAACCAGACTAAACCAAGGTCGAAGAATGAAAGTGACCTAACTAAGCCAATGTCA
Found at i:18612413 original size:27 final size:27
Alignment explanation
Indices: 18612383--18612436 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18612373 ATAAGTAAAA
* *
18612383 TTTGAAAACTTTTTATATAATTTTGAT
1 TTTGAAAACTTTTGATAAAATTTTGAT
**
18612410 TTTGGTAACTTTTGATAAAATTTTGAT
1 TTTGAAAACTTTTGATAAAATTTTGAT
18612437 AATCTTCGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.54
Consensus pattern (27 bp):
TTTGAAAACTTTTGATAAAATTTTGAT
Found at i:18612434 original size:21 final size:21
Alignment explanation
Indices: 18612408--18612464 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
18612398 TATAATTTTG
*
18612408 ATTTTGGTAACTTTTGATAAA
1 ATTTTGGTAACTTTCGATAAA
* *
18612429 ATTTTGATAA-TCTTCGATATA
1 ATTTTGGTAACT-TTCGATAAA
*
18612450 ATTTTAGTAACTTTC
1 ATTTTGGTAACTTTC
18612465 AGTATTACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.49
Consensus pattern (21 bp):
ATTTTGGTAACTTTCGATAAA
Found at i:18612848 original size:22 final size:21
Alignment explanation
Indices: 18612765--18612878 Score: 70
Period size: 22 Copynumber: 5.2 Consensus size: 21
18612755 AAGTTGTCAT
* * *
18612765 TGATTTATTCTTATATTATCAG
1 TGATTTA-TATTAAATTATCAA
* *
18612787 TGATTTATGACTAAACTATCAA
1 TGATTTAT-ATTAAATTATCAA
18612809 TGA--TATATTGCAAATTATCAA
1 TGATTTATATT--AAATTATCAA
*
18612830 TGATTTACTATTAAATTATGAA
1 TGATTTA-TATTAAATTATCAA
* * * *
18612852 TTATTTATTACTAAATCATTAA
1 TGATTTA-TATTAAATTATCAA
18612874 TGATT
1 TGATT
18612879 ATTACTAAGT
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
19 2 0.03
20 3 0.04
21 13 0.18
22 48 0.67
23 2 0.03
24 4 0.06
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.46
Consensus pattern (21 bp):
TGATTTATATTAAATTATCAA
Found at i:18612899 original size:21 final size:21
Alignment explanation
Indices: 18612856--18612899 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
18612846 TATGAATTAT
* *
18612856 TTATTACTAAATCATTAATGA
1 TTATTACTAAATCACTAAGGA
* *
18612877 TTATTACTAAGTTACTAAGGA
1 TTATTACTAAATCACTAAGGA
18612898 TT
1 TT
18612900 TGTTATAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (21 bp):
TTATTACTAAATCACTAAGGA
Found at i:18612997 original size:22 final size:22
Alignment explanation
Indices: 18612972--18613066 Score: 104
Period size: 22 Copynumber: 4.3 Consensus size: 22
18612962 TATTAACCAG
* *
18612972 TTTACTACTAAATTATCACTAA
1 TTTACTACTAAATTATTAATAA
* *
18612994 TTTA-TAACTAAATTATTAGTGA
1 TTTACT-ACTAAATTATTAATAA
18613016 TTTACTACTAAATTATTAATAA
1 TTTACTACTAAATTATTAATAA
* *
18613038 TTTAC-ACATAACTTATTAATGA
1 TTTACTAC-TAAATTATTAATAA
18613060 TTTACTA
1 TTTACTA
18613067 TTATGTTATT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.05
22 57 0.92
23 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (22 bp):
TTTACTACTAAATTATTAATAA
Found at i:18613027 original size:44 final size:44
Alignment explanation
Indices: 18612972--18613066 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 44
18612962 TATTAACCAG
* *
18612972 TTTACTACTAAATTATCACTAATTTATAAC-TAAATTATTAGTGA
1 TTTACTACTAAATTATCAATAATTTA-AACATAAATTATTAATGA
* * *
18613016 TTTACTACTAAATTATTAATAATTTACACATAACTTATTAATGA
1 TTTACTACTAAATTATCAATAATTTAAACATAAATTATTAATGA
18613060 TTTACTA
1 TTTACTA
18613067 TTATGTTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 2 0.04
44 43 0.96
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (44 bp):
TTTACTACTAAATTATCAATAATTTAAACATAAATTATTAATGA
Found at i:18613084 original size:22 final size:22
Alignment explanation
Indices: 18613005--18613112 Score: 87
Period size: 22 Copynumber: 4.9 Consensus size: 22
18612995 TTATAACTAA
* * *
18613005 ATTATTAGTGATTTACTACTAA
1 ATTATTAATGATTTACTATTAT
* *
18613027 ATTATTAATAATTTAC-A-CAT
1 ATTATTAATGATTTACTATTAT
18613047 AACTTATTAATGATTTACTATTAT
1 -A-TTATTAATGATTTACTATTAT
*
18613071 GTTATT-ATGCATTTACTATTAT
1 ATTATTAATG-ATTTACTATTAT
* * *
18613093 ATTATCATTGATTTGCTATT
1 ATTATTAATGATTTACTATT
18613113 TAATTTTCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
20 1 0.01
21 5 0.07
22 58 0.84
23 3 0.04
24 2 0.03
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.50
Consensus pattern (22 bp):
ATTATTAATGATTTACTATTAT
Found at i:18613225 original size:22 final size:22
Alignment explanation
Indices: 18613174--18613227 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
18613164 TTGTGATTCA
* * *
18613174 TAAATTATCACTGATTTACAAT
1 TAAATTATTAGTGATTTACAAC
*
18613196 TAAATTATTAGTGATTTACTAC
1 TAAATTATTAGTGATTTACAAC
*
18613218 TAAGTTATTA
1 TAAATTATTA
18613228 ATAATTTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
TAAATTATTAGTGATTTACAAC
Found at i:18613242 original size:22 final size:22
Alignment explanation
Indices: 18613200--18613247 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
18613190 TACAATTAAA
* * *
18613200 TTATTAGTGATTTACTACTAAG
1 TTATTAATAATTTACTACTAAC
18613222 TTATTAATAATTTA-TATCTAAC
1 TTATTAATAATTTACTA-CTAAC
18613244 TTAT
1 TTAT
18613248 CAATTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (22 bp):
TTATTAATAATTTACTACTAAC
Found at i:18613394 original size:21 final size:22
Alignment explanation
Indices: 18613370--18613419 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
18613360 ATTCATTATC
18613370 AAATTAT-CATTAACTTA-TATT
1 AAATTATCCA-TAACTTACTATT
*
18613391 AAATTATCCATAATTTACTATT
1 AAATTATCCATAACTTACTATT
18613413 AAATTAT
1 AAATTAT
18613420 TTAACTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATTATCCATAACTTACTATT
Found at i:18613394 original size:194 final size:193
Alignment explanation
Indices: 18612980--18613420 Score: 568
Period size: 194 Copynumber: 2.3 Consensus size: 193
18612970 AGTTTACTAC
*
18612980 TAAATTATCACTAATTTATAACTAAATTATTAGTGATTTACTACTAAATTATTAATAATTTACAC
1 TAAATTATCACTAATTTAT-ATTAAATTATTAGTGATTTACTACTAAATTATTAATAATTTACAC
* * *
18613045 ATAACTTATTAATGATTTACTATTATGTTATTATGCATTTACTATTATATTATCATTGATTTGCT
65 ATAACTTATCAATGATTTACTATTATGTTATTATACATTTACTATTATATTATCATTGATTTACT
* * * **
18613110 ATTTAATTTTCAAATATTTACTAAAAAATCATCATAGATTTATTACTAAATTAATTGTGATTCA
130 ATTTAATTTTCAAATATTTACTAAAAAATCATAACAAATTTATTACTAAATTAATCATGATTCA
* * * *
18613174 TAAATTATCACTGATTTACAATTAAATTATTAGTGATTTACTACTAAGTTATTAATAATTTATAT
1 TAAATTATCACTAATTTA-TATTAAATTATTAGTGATTTACTACTAAATTATTAATAATTTACA-
* * *
18613239 C-TAACTTATCAAT-TTTTATTATTATGTT-TTATACATTTACTATTATGTTATCATTGATTTAC
64 CATAACTTATCAATGATTTACTATTATGTTATTATACATTTACTATTATATTATCATTGATTTAC
* *
18613301 TATTTAATTTTC-AATGTTTACTGAAAAATCATAACAAATTTATTACTAAATTAATCATGATTCA
129 TATTTAATTTTCAAATATTTACTAAAAAATCATAACAAATTTATTACTAAATTAATCATGATTC-
18613365 TTA
193 --A
* * * * *
18613368 TCAAATTATCATTAACTTATATTAAATTATCCA-TAATTTACTATTAAATTATT
1 T-AAATTATCACTAATTTATATTAAATTAT-TAGTGATTTACTACTAAATTATT
18613421 TAACTATTAA
Statistics
Matches: 214, Mismatches: 26, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
191 44 0.21
192 43 0.20
193 13 0.06
194 98 0.46
195 16 0.07
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (193 bp):
TAAATTATCACTAATTTATATTAAATTATTAGTGATTTACTACTAAATTATTAATAATTTACACA
TAACTTATCAATGATTTACTATTATGTTATTATACATTTACTATTATATTATCATTGATTTACTA
TTTAATTTTCAAATATTTACTAAAAAATCATAACAAATTTATTACTAAATTAATCATGATTCA
Found at i:18613487 original size:46 final size:44
Alignment explanation
Indices: 18613437--18613542 Score: 151
Period size: 44 Copynumber: 2.4 Consensus size: 44
18613427 TTAAGTTACT
18613437 AATAATTAACTACTAGTTAATTAT-ATTGATTTACTTTTAAGCTTTC
1 AATAATTAACTACTA---AATTATCATTGATTTACTTTTAAGCTTTC
* *
18613483 AATAATTAACTACTAAATTATCATTGATTTACTTTTAAGTTTTT
1 AATAATTAACTACTAAATTATCATTGATTTACTTTTAAGCTTTC
*
18613527 TATAATTAACTACTAA
1 AATAATTAACTACTAA
18613543 TAATTAAATT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
43 6 0.11
44 35 0.62
46 15 0.27
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (44 bp):
AATAATTAACTACTAAATTATCATTGATTTACTTTTAAGCTTTC
Found at i:18613593 original size:22 final size:22
Alignment explanation
Indices: 18613551--18613598 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
18613541 AATAATTAAA
* * *
18613551 TTATTAGTGATTTACTACTAAG
1 TTATTAATAATTTACTACTAAC
18613573 TTATTAATAATTTA-TATCTAAC
1 TTATTAATAATTTACTA-CTAAC
18613595 TTAT
1 TTAT
18613599 CAATTGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (22 bp):
TTATTAATAATTTACTACTAAC
Found at i:18613681 original size:351 final size:351
Alignment explanation
Indices: 18613193--18613880 Score: 1252
Period size: 351 Copynumber: 2.0 Consensus size: 351
18613183 ACTGATTTAC
18613193 AATTAAATTATTAGTGATTTACTACTAAGTTATTAATAATTTATATCTAACTTATCAATTTTTAT
1 AATTAAATTATTAGTGATTTACTACTAAGTTATTAATAATTTATATCTAACTTATCAATTTTTAT
*
18613258 TATTATGTTTTATACATTTACTATTATGTTATCATTGATTTACTATTTAATTTTCAATGTTTACT
66 TATTATGTTTTATACATTTACTATTATGTTATCATTGATTTACTACTTAATTTTCAATGTTTACT
18613323 GAAAAATCATAACAAATTTATTACTAAATTAATCATGATTCATTATCAAATTATCATTAACTTAT
131 GAAAAATCATAACAAATTTATTACTAAATTAATCATGATTCATTATCAAATTATCATTAACTTAT
*
18613388 ATTAAATTATCCATAATTTACTATTAAATTATTTAACTATTAAGTTACTAATAATTAACTACTAG
196 ATTAAATTATCCATAATTTACTATTAAATTATTTAACTATTAAGTTACCAATAATTAACTACTAG
* *
18613453 TTAATTATATTGATTTACTTTTAAGCTTTCAATAATTAACTACTAAATTATCATTGATTTACTTT
261 TTAATTATATTGATTTACTTTTAAGCTTTCAATAATTAACTACTAAATTATCATTAATTTACTAT
*
18613518 TAAGTTTTTTATAATTAACTACTAAT
326 TAAGTTATTTATAATTAACTACTAAT
18613544 AATTAAATTATTAGTGATTTACTACTAAGTTATTAATAATTTATATCTAACTTATCAATTGTTTA
1 AATTAAATTATTAGTGATTTACTACTAAGTTATTAATAATTTATATCTAACTTATCAATT-TTTA
**
18613609 TTATTATGTTTTATACATTTACTATTATGTTATCATTGATTTACTACTTAATTTTTTATGTTTAC
65 TTATTATGTTTTATACATTTACTATTATGTTATCATTGATTTACTACTTAATTTTCAATGTTTAC
*
18613674 T-AAAAATCATAACAAATTTATTACTAAATTAATCATGATTCATTATCAAGTTATCATTAACTTA
130 TGAAAAATCATAACAAATTTATTACTAAATTAATCATGATTCATTATCAAATTATCATTAACTTA
*
18613738 TATTAAATTATCCATAATTTACTATTAAATTATTTAACTATTAAGTTACCGATAATTAACTACTA
195 TATTAAATTATCCATAATTTACTATTAAATTATTTAACTATTAAGTTACCAATAATTAACTACTA
* **
18613803 GTTAATTATATTGATTTACTTTTAAGTTTTTTATAATTAACTACTAAATTATCATTAATTTACTA
260 GTTAATTATATTGATTTACTTTTAAGCTTTCAATAATTAACTACTAAATTATCATTAATTTACTA
18613868 TTAAGTTATTTAT
325 TTAAGTTATTTAT
18613881 GATTTTCTAC
Statistics
Matches: 324, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
351 257 0.79
352 67 0.21
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (351 bp):
AATTAAATTATTAGTGATTTACTACTAAGTTATTAATAATTTATATCTAACTTATCAATTTTTAT
TATTATGTTTTATACATTTACTATTATGTTATCATTGATTTACTACTTAATTTTCAATGTTTACT
GAAAAATCATAACAAATTTATTACTAAATTAATCATGATTCATTATCAAATTATCATTAACTTAT
ATTAAATTATCCATAATTTACTATTAAATTATTTAACTATTAAGTTACCAATAATTAACTACTAG
TTAATTATATTGATTTACTTTTAAGCTTTCAATAATTAACTACTAAATTATCATTAATTTACTAT
TAAGTTATTTATAATTAACTACTAAT
Found at i:18613829 original size:46 final size:42
Alignment explanation
Indices: 18613761--18613875 Score: 113
Period size: 46 Copynumber: 2.6 Consensus size: 42
18613751 ATAATTTACT
*
18613761 ATTAAATTATTTAACTATTAAGTTACCGATAATTAACTACTAGTTA
1 ATTATATTATTT-ACTATTAAGTTACCGATAATTAACTACTA---A
* ****
18613807 ATTATATTGATTTACTTTTAAGTTTTTTATAATTAACTACTAA
1 ATTATATT-ATTTACTATTAAGTTACCGATAATTAACTACTAA
18613850 ATTATCATTAATTTACTATTAAGTTA
1 ATTAT-ATT-ATTTACTATTAAGTTA
18613876 TTTATGATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
43 6 0.10
44 17 0.29
46 31 0.53
47 4 0.07
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (42 bp):
ATTATATTATTTACTATTAAGTTACCGATAATTAACTACTAA
Found at i:18613885 original size:22 final size:22
Alignment explanation
Indices: 18613798--18613885 Score: 58
Period size: 22 Copynumber: 4.0 Consensus size: 22
18613788 GATAATTAAC
*
18613798 TACTAGTTAA-TTATAT-TGATT
1 TACTA-TTAAGTTATTTATGATT
* * *
18613819 TACTTTTAAGTTTTTTATAATT
1 TACTATTAAGTTATTTATGATT
* * *
18613841 AACTACTAAATTATCATTA--ATT
1 TACTATTAAGTTAT--TTATGATT
18613863 TACTATTAAGTTATTTATGATT
1 TACTATTAAGTTATTTATGATT
18613885 T
1 T
18613886 TCTACCAAGT
Statistics
Matches: 49, Mismatches: 12, Indels: 11
0.68 0.17 0.15
Matches are distributed among these distances:
20 7 0.14
21 8 0.16
22 31 0.63
24 3 0.06
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.53
Consensus pattern (22 bp):
TACTATTAAGTTATTTATGATT
Found at i:18613962 original size:22 final size:22
Alignment explanation
Indices: 18613936--18614002 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
18613926 GATATTATAC
*
18613936 TAATTCACTATTAAGTTATCAT
1 TAATTAACTATTAAGTTATCAT
* * * *
18613958 TAATTTATTATTACGTTATCAA
1 TAATTAACTATTAAGTTATCAT
* * *
18613980 TGATTAACTACTAATTTATCAT
1 TAATTAACTATTAAGTTATCAT
18614002 T
1 T
18614003 TGTTTTTTAT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (22 bp):
TAATTAACTATTAAGTTATCAT
Found at i:18614386 original size:22 final size:22
Alignment explanation
Indices: 18614305--18614490 Score: 97
Period size: 22 Copynumber: 8.5 Consensus size: 22
18614295 TTATTAGTTT
* * *
18614305 TTTACTACTAAGTTATTAATGA
1 TTTACTATTAAATTATAAATGA
* * *
18614327 GTTACTACTAAATTATTAATGA
1 TTTACTATTAAATTATAAATGA
* **
18614349 TTTACTTTTAGTTTATAAATGA
1 TTTACTATTAAATTATAAATGA
* *
18614371 TTTACCATTAAATTATAAATAA
1 TTTACTATTAAATTATAAATGA
* * * * *
18614393 TTCATTATTAAGTTATGAATTA
1 TTTACTATTAAATTATAAATGA
* * *** *
18614415 TTT-TTATTAAATTGTTGGTTA
1 TTTACTATTAAATTATAAATGA
* * *
18614436 TTTA-TCACTAAATTATTAATTA
1 TTTACT-ATTAAATTATAAATGA
* * *
18614458 TTTATTATAAAATTATAATTGA
1 TTTACTATTAAATTATAAATGA
18614480 TTTACTATTAA
1 TTTACTATTAA
18614491 TTTACCGATG
Statistics
Matches: 125, Mismatches: 36, Indels: 6
0.75 0.22 0.04
Matches are distributed among these distances:
21 17 0.14
22 107 0.86
23 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (22 bp):
TTTACTATTAAATTATAAATGA
Found at i:18614550 original size:22 final size:22
Alignment explanation
Indices: 18614511--18614898 Score: 73
Period size: 22 Copynumber: 17.9 Consensus size: 22
18614501 AATCATTAAA
* * * *
18614511 AAATTATCAATAACTTACTACT
1 AAATTATTAATTATTTACTATT
* *
18614533 AAATTATTAATTATTTACAACT
1 AAATTATTAATTATTTACTATT
* * * * *
18614555 AAGTTAGTAGTAATTAACTATT
1 AAATTATTAATTATTTACTATT
** * * *
18614577 ACTTTATTAGTAATTTACTGTT
1 AAATTATTAATTATTTACTATT
* *
18614599 AAGTTATT-A--ATTTACTACT
1 AAATTATTAATTATTTACTATT
* * *
18614618 AAATTATCAATGATTTATTATT
1 AAATTATTAATTATTTACTATT
* *
18614640 ATATT-TTTATATATTTACTATT
1 AAATTATTAAT-TATTTACTATT
** *
18614662 ATGTTA-TCATTCATTTACTACTT
1 AAATTATTAATT-ATTTACTA-TT
* * *
18614685 -AATTTTTTATTATGTACTA-T
1 AAATTATTAATTATTTACTATT
* * * *
18614705 AGAATTATCACTAATTTA-TCACT
1 A-AATTATTAATTATTTACT-ATT
* * * * *
18614728 AAATTATTTATGATTCATTA-A
1 AAATTATTAATTATTTACTATT
* *
18614749 AAAGTTATTACTGATTTA-TATT
1 AAA-TTATTAATTATTTACTATT
* *
18614771 AAATTATGT-ATGATTTATTATT
1 AAATTAT-TAATTATTTACTATT
* *** *
18614793 AAGTTATTACCAATTAACTATT
1 AAATTATTAATTATTTACTATT
* * * * *
18614815 ATATTATTTATAATTTAGTACT
1 AAATTATTAATTATTTACTATT
* *
18614837 AAGTT-TT-ATTAATTTACTTTT
1 AAATTATTAATT-ATTTACTATT
* * * * *
18614858 AAGTTTTTAATGATTAATTATT
1 AAATTATTAATTATTTACTATT
*
18614880 AAATTATCAATTATTTACT
1 AAATTATTAATTATTTACT
18614899 GCTAATTTAT
Statistics
Matches: 261, Mismatches: 84, Indels: 42
0.67 0.22 0.11
Matches are distributed among these distances:
19 14 0.05
20 4 0.02
21 36 0.14
22 196 0.75
23 11 0.04
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (22 bp):
AAATTATTAATTATTTACTATT
Found at i:18614624 original size:19 final size:19
Alignment explanation
Indices: 18614582--18614624 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
18614572 CTATTACTTT
* **
18614582 ATTAGTAATTTACTGTTAA
1 ATTATTAATTTACTACTAA
*
18614601 GTTATTAATTTACTACTAA
1 ATTATTAATTTACTACTAA
18614620 ATTAT
1 ATTAT
18614625 CAATGATTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (19 bp):
ATTATTAATTTACTACTAA
Found at i:18614669 original size:44 final size:44
Alignment explanation
Indices: 18614621--18614704 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
18614611 TACTACTAAA
* * *
18614621 TTATCAATGATTTATTA-TT-ATATTTTTATATATTTACTATTATG
1 TTATCAATCATTTACTACTTAAT-TTTTTAT-TATGTACTATTATG
*
18614665 TTATCATTCATTTACTACTTAATTTTTTATTATGTACTAT
1 TTATCAATCATTTACTACTTAATTTTTTATTATGTACTAT
18614705 AGAATTATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
44 23 0.68
45 9 0.26
46 2 0.06
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (44 bp):
TTATCAATCATTTACTACTTAATTTTTTATTATGTACTATTATG
Found at i:18614783 original size:43 final size:44
Alignment explanation
Indices: 18614709--18614807 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 44
18614699 TACTATAGAA
* *
18614709 TTATCACTAATTTATCACTAAATTATTTATGATTCATTAAAAAG
1 TTATTACTAATTTATCACTAAATTATGTATGATTCATTAAAAAG
* * * **
18614753 TTATTACTGATTTAT-ATTAAATTATGTATGATTTATTATTAAG
1 TTATTACTAATTTATCACTAAATTATGTATGATTCATTAAAAAG
*
18614796 TTATTACCAATT
1 TTATTACTAATT
18614808 AACTATTATA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 33 0.72
44 13 0.28
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.48
Consensus pattern (44 bp):
TTATTACTAATTTATCACTAAATTATGTATGATTCATTAAAAAG
Found at i:18614831 original size:44 final size:43
Alignment explanation
Indices: 18614727--18614841 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 43
18614717 AATTTATCAC
* * ** *
18614727 TAAATTATTTATGATTCATTAAAAAGTTATTACTGATTTATAT
1 TAAATTATTTATGATTTATTAATAAGTTATTACCAATTAATAT
* *
18614770 TAAATTATGTATGATTTATTATTAAGTTATTACCAATTAACTAT
1 TAAATTATTTATGATTTATTAATAAGTTATTACCAATTAA-TAT
* * * *
18614814 TATATTATTTATAATTTAGTACTAAGTT
1 TAAATTATTTATGATTTATTAATAAGTT
18614842 TTATTAATTT
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
43 33 0.56
44 26 0.44
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (43 bp):
TAAATTATTTATGATTTATTAATAAGTTATTACCAATTAATAT
Found at i:18615018 original size:22 final size:22
Alignment explanation
Indices: 18614973--18615040 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
18614963 ACTAAAATTG
* * *
18614973 ATTTACTATTAAATTTTTACTA
1 ATTTACTATTAAATTATCAATA
*
18614995 ATTTACTATTAAATTATCATTA
1 ATTTACTATTAAATTATCAATA
* * *
18615017 ATTTATTACTAAGTTATCAATA
1 ATTTACTATTAAATTATCAATA
18615039 AT
1 AT
18615041 GAACTACCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAATTATCAATA
Found at i:18615229 original size:22 final size:22
Alignment explanation
Indices: 18615203--18615250 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
18615193 TTCTACTAAA
* *
18615203 TTATCATTCATTTACTA-TTAAG
1 TTATCACTAATTTACTACTT-AG
18615225 TTATCACTAATTTACTACTTAG
1 TTATCACTAATTTACTACTTAG
18615247 TTAT
1 TTAT
18615251 TGATAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (22 bp):
TTATCACTAATTTACTACTTAG
Found at i:18617664 original size:17 final size:16
Alignment explanation
Indices: 18617625--18617664 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
18617615 TTTTGCAATT
18617625 AAAAAATTTTATTATA
1 AAAAAATTTTATTATA
* *
18617641 TATAAATTTTCATTATA
1 AAAAAATTTT-ATTATA
18617658 AAAAAAT
1 AAAAAAT
18617665 ATTAAAATAC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAAAATTTTATTATA
Found at i:18622317 original size:12 final size:12
Alignment explanation
Indices: 18622300--18622324 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18622290 AAAAATCATC
18622300 ATTTCTTGATAA
1 ATTTCTTGATAA
18622312 ATTTCTTGATAA
1 ATTTCTTGATAA
18622324 A
1 A
18622325 AATAGTGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (12 bp):
ATTTCTTGATAA
Found at i:18629818 original size:31 final size:31
Alignment explanation
Indices: 18629783--18629847 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
18629773 ATGTTTTCGG
* * *
18629783 TGATAGTTGTAAATGAGAATGGGCCATTGGT
1 TGATAGGTGTAAAAGAGAATGGGCCATTAGT
*
18629814 TGATAGGTGTAAAAGAGAATGGGCTATTAGT
1 TGATAGGTGTAAAAGAGAATGGGCCATTAGT
18629845 TGA
1 TGA
18629848 AAGATGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.31
Consensus pattern (31 bp):
TGATAGGTGTAAAAGAGAATGGGCCATTAGT
Found at i:18637091 original size:3 final size:3
Alignment explanation
Indices: 18637083--18637118 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
18637073 CTGGTTTTAA
18637083 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18637119 TTATAATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18644060 original size:357 final size:357
Alignment explanation
Indices: 18643236--18644785 Score: 1966
Period size: 356 Copynumber: 4.3 Consensus size: 357
18643226 AAAAATTTTG
** ** * * *
18643236 AAAAATTATTGAAGGTGTTGTTATCTATAACCGTTTTTAGTAATTATATACAAACTGTGAT-AGA
1 AAAAATTATTGAAGGCATTGTTATCTATAACCGCCTTCAATAATTATCTACAAACTGTGATAAG-
* * * *
18643300 AATTATTAAAGGCGTCTTTCTTGGATATACGCCTTCAATAACAATGTTAAAATTTATGTGATGGT
65 AATTATTAAAGGCATCTTTCTTGGATATACGCCTTCAATAACAGTGTTAAAATTTGTGTGACGGT
* * * ** * **
18643365 ATATAGAAGGTATTTTACAATAGAAA-ACACCTTTAATAATTCCCAAAATATTTAGTGGGAAAAT
130 ATATAAAAGGTATTTTACAGTA-AAAGACGCCTTTAATAATTCTTAAAATATTTAATGAAAAAAT
18643429 TTTGAAGGCGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGA
194 TTTGAAGGCGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGA
* * * *
18643494 AGGTGCTTTTTTTAATAAACGCCTTTCATTACCAT-GTGATATATTGAAGGCGTGTCATAATAAA
259 AGGTACCTTTTTTAATAAACGCCTTTCATTACCATCATGGTATATTGAAGGCGTGTCATAATAAA
*
18643558 AGACACATTTAATAATCCGAAAAAATTTTTTTAA
324 AGACGCATTTAATAATCCGAAAAAATTTTTTTAA
* * * * *
18643592 AAAAATTATTGAAGGTATTGTTATTTACAACCGCCTT-AAGTAATTATCTACAAACTGTTATAGG
1 AAAAATTATTGAAGGCATTGTTATCTATAACCGCCTTCAA-TAATTATCTACAAACTGTGATAAG
** * * *
18643656 AATTATTAAAGGTTTCTTTCTTGGATATACACCTTCAATAACAGTGTTAGAATTTGTGTGACAGT
65 AATTATTAAAGGCATCTTTCTTGGATATACGCCTTCAATAACAGTGTTAAAATTTGTGTGACGGT
*
18643721 ATATAAAAGGTATTTTACAGTAAAAGATGCCTTTAATAATTCTTAAAATATTTAATGAAAAAATT
130 ATATAAAAGGTATTTTACAGTAAAAGACGCCTTTAATAATTCTTAAAATATTTAATGAAAAAATT
* * *
18643786 TTGAAGGCGTTTGTTATTAACAAATGCCTTCAATAATGGATTACTAAGTTTAAAGGTATATTGAA
195 TTGAAGGCGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA
* * * * * * *
18643851 TGTGCTTTTTTTAATAAACGCCTTCCATTACTATCGTGGTATATTGAAGGCGTCTCATAATAAAA
260 GGTACCTTTTTTAATAAACGCCTTTCATTACCATCATGGTATATTGAAGGCGTGTCATAATAAAA
* * * *
18643916 GACTCATTTAATAATCTGAGAAAATTTTTTTAG
325 GACGCATTTAATAATCCGAAAAAATTTTTTTAA
* * *
18643949 AAAAATTATTAAAGGCATTGTTATCTACAATCGCCTTCAATAATTATCTACAAACTGTGATAAGA
1 AAAAATTATTGAAGGCATTGTTATCTATAACCGCCTTCAATAATTATCTACAAACTGTGATAAGA
* * * * * **
18644014 ATTATTAAAGGCATCTTTCTTGGATATACACCTTTAATAACAGTGTTAGAATTTTTATGGTGGTA
66 ATTATTAAAGGCATCTTTCTTGGATATACGCCTTCAATAACAGTGTTAAAATTTGTGTGACGGTA
* * *
18644079 TATAGAAGGTA-TTTACAGTAGAAGACGCCTTTAATAATTCTTAAAATTTTTAAT-AGAAAAATT
131 TATAAAAGGTATTTTACAGTAAAAGACGCCTTTAATAATTCTTAAAATATTTAATGA-AAAAATT
* * *
18644142 TTGAAGACATCTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA
195 TTGAAGGCGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA
* * *
18644207 GGTACCTTTTTTAATAAACGCCTTTCATTACCATCATGGTATATTAAAGGCGTATTATAATAAAA
260 GGTACCTTTTTTAATAAACGCCTTTCATTACCATCATGGTATATTGAAGGCGTGTCATAATAAAA
*
18644272 GACGCTTTTAATAATCCGAGAAAAA-TTTTTTAA
325 GACGCATTTAATAATCCGA-AAAAATTTTTTTAA
* * * * * * * * *
18644305 AAAAATTATTAAAGGAATTATTATTTGTAACTGCTTTCAATAATTATCTACAAACTATGATAGGA
1 AAAAATTATTGAAGGCATTGTTATCTATAACCGCCTTCAATAATTATCTACAAACTGTGATAAGA
* * * *
18644370 ATTATTAAAGGCATCTTTCTTGGATATATGCATTCAATAACAGTGTTAAAATTTTTATGACGGTA
66 ATTATTAAAGGCATCTTTCTTGGATATACGCCTTCAATAACAGTGTTAAAATTTGTGTGACGGTA
* * * * * **
18644435 TATAAAAGATATTTTACAGTAGAAGATGCCTTTAATAATT-TCTAAAATTTTTAGTGGGAAAATT
131 TATAAAAGGTATTTTACAGTAAAAGACGCCTTTAATAATTCT-TAAAATATTTAATGAAAAAATT
* *
18644499 TTGAAAGCGTTTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA
195 TTGAAGGCGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA
* ** ** * *
18644564 GGCACCTTTTCGAATAAACGTTTTTCATAACCATCATGGTATATTGAAGGCGTGTTATAATAAAA
260 GGTACCTTTTTTAATAAACGCCTTTCATTACCATCATGGTATATTGAAGGCGTGTCATAATAAAA
* * **
18644629 GACGCTTTTACTAATATGAAAAAATTTTTTTAA
325 GACGCATTTAATAATCCGAAAAAATTTTTTTAA
* * * * * * *
18644662 AAGAATTATTGAAGGCGTTGTTTTCTATAACCGCCTTCACTAATTATATACAAACTATGATATGA
1 AAAAATTATTGAAGGCATTGTTATCTATAACCGCCTTCAATAATTATCTACAAACTGTGATAAGA
* * *
18644727 ATTACTAAAGGAATCTTTCTTGGATATACGCATTCAATAACCA-TGTTAAAATTTGTGTG
66 ATTATTAAAGGCATCTTTCTTGGATATACGCCTTCAATAA-CAGTGTTAAAATTTGTGTG
18644786 GCGATATGTT
Statistics
Matches: 1051, Mismatches: 131, Indels: 23
0.87 0.11 0.02
Matches are distributed among these distances:
355 5 0.00
356 568 0.54
357 474 0.45
358 4 0.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (357 bp):
AAAAATTATTGAAGGCATTGTTATCTATAACCGCCTTCAATAATTATCTACAAACTGTGATAAGA
ATTATTAAAGGCATCTTTCTTGGATATACGCCTTCAATAACAGTGTTAAAATTTGTGTGACGGTA
TATAAAAGGTATTTTACAGTAAAAGACGCCTTTAATAATTCTTAAAATATTTAATGAAAAAATTT
TGAAGGCGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAG
GTACCTTTTTTAATAAACGCCTTTCATTACCATCATGGTATATTGAAGGCGTGTCATAATAAAAG
ACGCATTTAATAATCCGAAAAAATTTTTTTAA
Found at i:18644374 original size:713 final size:713
Alignment explanation
Indices: 18643179--18644780 Score: 2165
Period size: 713 Copynumber: 2.2 Consensus size: 713
18643169 TATAACACAT
* * * * * * ***
18643179 TATTGAAGGCATTTTATAATAAAAGATGCCTTTAATAATTTGAAAAAAAAAATTTT-GAAAAATT
1 TATTGAAGGCGTCTCATAATAAAAGACGCATTTAATAATATG-AAAAAATTTTTTTAGAAAAATT
* ** * *
18643243 ATTGAAGGTGTTGTTATCTATAACCGTTTTTAGTAATTATATACAAACTGTGAT-AGAAATTATT
65 ATTGAAGGCGTTGTTATCTATAACCGCCTTCAATAATTATATACAAACTGTGATAAG-AATTATT
* * *
18643307 AAAGGCGTCTTTCTTGGATATACGCCTTCAATAACAATGTTAAAATTTATGTGATGGTATATAGA
129 AAAGGCATCTTTCTTGGATATACACCTTCAATAACAATGTTAAAATTTATATGATGGTATATAGA
* * * *
18643372 AGGTATTTTACAATAGAAAACACCTTTAATAATTCCCAAAATATTTAGTGGGAAAATTTTGAAGG
194 AGGTATTTTACAATAGAAAACACCTTTAATAATTCCCAAAATATTTAATAGAAAAATTTTGAAGA
* * *
18643437 CGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCTT
259 CATCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTACCT
* * *
18643502 TTTTTAATAAACGCCTTTCATTACCATGTGATATATTGAAGGCGTGTCATAATAAAAGACACATT
324 TTTTTAATAAACGCCTTTCATTACCATATGATATATTAAAGGCGTATCATAATAAAAGACACATT
* * *
18643567 TAATAATCCGAAAAAATTTTTTTAAAAAAATTATTGAAGGTATTGTTATTTACAACCGCCTTAAG
389 TAATAATCCGAAAAAATTTTTTTAAAAAAATTATTAAAGGAATTATTATTTACAACCGCCTTAAG
* * ** *
18643632 TAATTATCTACAAACTGTTATAGGAATTATTAAAGGTTTCTTTCTTGGATATACACCTTCAATAA
454 TAATTATCTACAAACTATGATAGGAATTATTAAAGGCATCTTTCTTGGATATACACATTCAATAA
* * *
18643697 CAGTGTTAGAATTTGTGTGACAGTATATAAAAGGTATTTTACAGTAAAAGATGCCTTTAATAA-T
519 CAGTGTTAAAATTTGTATGACAGTATATAAAAGATATTTTACAGTAAAAGATGCCTTTAATAATT
* *
18643761 TCTTAAAATATTTAATGAAAAAATTTTGAAGGCGTTTGTTATTAACAAATGCCTTCAATAATGGA
584 TC-TAAAATATTTAATGAAAAAATTTTGAAAGCGTTTGTTATTAACAAACGCCTTCAATAATGGA
* ** * ** * * *
18643826 TTACTAAGTTTAAAGGTATATTGAATGTGCTTTTTTTAATAAACGCCTTCCATTACTATCGTGGT
648 TTACTAAGTTTAAAGGTATATTGAAGGCACCTTTTCGAATAAACGCCTTCCATAACCATCATGGT
18643891 A
713 A
* * *
18643892 TATTGAAGGCGTCTCATAATAAAAGACTCATTTAATAATCTGAGAAAATTTTTTTAGAAAAATTA
1 TATTGAAGGCGTCTCATAATAAAAGACGCATTTAATAATATGAAAAAATTTTTTTAGAAAAATTA
* * * * *
18643957 TTAAAGGCATTGTTATCTACAATCGCCTTCAATAATTATCTACAAACTGTGATAAGAATTATTAA
66 TTGAAGGCGTTGTTATCTATAACCGCCTTCAATAATTATATACAAACTGTGATAAGAATTATTAA
* * * * *
18644022 AGGCATCTTTCTTGGATATACACCTTTAATAACAGTGTTAGAATTTTTATGGTGGTATATAGAAG
131 AGGCATCTTTCTTGGATATACACCTTCAATAACAATGTTAAAATTTATATGATGGTATATAGAAG
* * * ** *
18644087 GTA-TTTACAGTAGAAGACGCCTTTAATAATTCTTAAAATTTTTAATAGAAAAATTTTGAAGACA
196 GTATTTTACAATAGAAAACACCTTTAATAATTCCCAAAATATTTAATAGAAAAATTTTGAAGACA
*
18644151 TCTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTACCTTT
261 TCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTACCTTT
* * * *
18644216 TTTAATAAACGCCTTTCATTACCATCATGGTATATTAAAGGCGTATTATAATAAAAGACGCTTTT
326 TTTAATAAACGCCTTTCATTACCAT-ATGATATATTAAAGGCGTATCATAATAAAAGACACATTT
** * *
18644281 AATAATCCGAGAAAAA-TTTTTTAAAAAAATTATTAAAGGAATTATTATTTGTAACTGCTTTCAA
390 AATAATCCGA-AAAAATTTTTTTAAAAAAATTATTAAAGGAATTATTATTTACAACCGCCTT-AA
**
18644345 -TAATTATCTACAAACTATGATAGGAATTATTAAAGGCATCTTTCTTGGATATATGCATTCAATA
453 GTAATTATCTACAAACTATGATAGGAATTATTAAAGGCATCTTTCTTGGATATACACATTCAATA
* * *
18644409 ACAGTGTTAAAATTTTTATGACGGTATATAAAAGATATTTTACAGTAGAAGATGCCTTTAATAAT
518 ACAGTGTTAAAATTTGTATGACAGTATATAAAAGATATTTTACAGTAAAAGATGCCTTTAATAAT
* * ** *
18644474 TTCTAAAATTTTTAGTGGGAAAATTTTGAAAGCGTTTGTTATTAACAAACGCCTTCAGTAATGGA
583 TTCTAAAATATTTAATGAAAAAATTTTGAAAGCGTTTGTTATTAACAAACGCCTTCAATAATGGA
** *
18644539 TTACTAAGTTTAAAGGTATATTGAAGGCACCTTTTCGAATAAACGTTTTTCATAACCATCATGGT
648 TTACTAAGTTTAAAGGTATATTGAAGGCACCTTTTCGAATAAACGCCTTCCATAACCATCATGGT
18644604 A
713 A
* * * *
18644605 TATTGAAGGCGTGTTATAATAAAAGACGCTTTTACTAATATGAAAAAATTTTTTTA-AAAGAATT
1 TATTGAAGGCGTCTCATAATAAAAGACGCATTTAATAATATGAAAAAATTTTTTTAGAAA-AATT
* * * * *
18644669 ATTGAAGGCGTTGTTTTCTATAACCGCCTTCACTAATTATATACAAACTATGATATGAATTACTA
65 ATTGAAGGCGTTGTTATCTATAACCGCCTTCAATAATTATATACAAACTGTGATAAGAATTATTA
* * * *
18644734 AAGGAATCTTTCTTGGATATACGCATTCAATAACCATGTTAAAATTT
130 AAGGCATCTTTCTTGGATATACACCTTCAATAACAATGTTAAAATTT
18644781 GTGTGGCGAT
Statistics
Matches: 769, Mismatches: 113, Indels: 14
0.86 0.13 0.02
Matches are distributed among these distances:
712 149 0.19
713 608 0.79
714 12 0.02
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (713 bp):
TATTGAAGGCGTCTCATAATAAAAGACGCATTTAATAATATGAAAAAATTTTTTTAGAAAAATTA
TTGAAGGCGTTGTTATCTATAACCGCCTTCAATAATTATATACAAACTGTGATAAGAATTATTAA
AGGCATCTTTCTTGGATATACACCTTCAATAACAATGTTAAAATTTATATGATGGTATATAGAAG
GTATTTTACAATAGAAAACACCTTTAATAATTCCCAAAATATTTAATAGAAAAATTTTGAAGACA
TCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTACCTTT
TTTAATAAACGCCTTTCATTACCATATGATATATTAAAGGCGTATCATAATAAAAGACACATTTA
ATAATCCGAAAAAATTTTTTTAAAAAAATTATTAAAGGAATTATTATTTACAACCGCCTTAAGTA
ATTATCTACAAACTATGATAGGAATTATTAAAGGCATCTTTCTTGGATATACACATTCAATAACA
GTGTTAAAATTTGTATGACAGTATATAAAAGATATTTTACAGTAAAAGATGCCTTTAATAATTTC
TAAAATATTTAATGAAAAAATTTTGAAAGCGTTTGTTATTAACAAACGCCTTCAATAATGGATTA
CTAAGTTTAAAGGTATATTGAAGGCACCTTTTCGAATAAACGCCTTCCATAACCATCATGGTA
Found at i:18651030 original size:22 final size:22
Alignment explanation
Indices: 18651005--18651047 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18650995 TATATATTTA
* *
18651005 TATTTGTGTCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
18651027 TATTTGTATCCCTAGAATTAA
1 TATTTGTATCCCTAGAATTAA
18651048 AGAAGATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Done.