Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 70 of 121
Found at i:12013116 original size:26 final size:25
Alignment explanation
Indices: 12013062--12013116 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
12013052 TTCACCTAAG
*
12013062 AATTTTATAAAAATTTATCATTTGA
1 AATTTTATAAAAATTTATCATTGGA
*
12013087 AATTTT-TATAAATTTCATCATTGGA
1 AATTTTATAAAAATTT-ATCATTGGA
12013112 TAATT
1 -AATT
12013117 AATATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 8 0.31
25 14 0.54
26 4 0.15
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (25 bp):
AATTTTATAAAAATTTATCATTGGA
Found at i:12013151 original size:182 final size:179
Alignment explanation
Indices: 12012802--12013152 Score: 414
Period size: 182 Copynumber: 1.9 Consensus size: 179
12012792 TTCGGAAAAG
12012802 AATATAATTACTTTTATTGAAATTTCATCTAAATTATTCCACCATTTTGGATAAATTTAAAGAAA
1 AATATAATTACTTTTATTGAAATTTCATCTAAATTATTCCACCATTTTGGATAAATTTAAAGAAA
* *
12012867 TTTCTCACCTAGAGATTTCTTAGAAATTTCAAACCATTTAAAATTTCTAAGAATCTCATCTTTGG
66 TTTCTCACCTAGAGATTTCTTAAAAATTT--AACCATTTAAAATTTCTAAGAATCTCATCATTGG
* * *
12012932 GTAATTAATATTTTTTCAAAATTTTAATATTTTTTTCTTTTTTTGAAAATA
129 ATAATTAATATTTTTCCAAAATTTTAATATATTTTTCTTTTTTTGAAAATA
12012983 AATATTAATTA-TTGTTATTGAAACTTT-ATCTAAA-TATTCCACCATTTAT-GATAAATTTAGA
1 AATA-TAATTACTT-TTATTGAAA-TTTCATCTAAATTATTCCACCATTT-TGGATAAATTTA-A
* * * * *
12013044 TA-AAATTTTTCACCTA-AGAATTT-TATAAAAATTT-ATCATTTGAAATTTTTATA-AATTTCA
61 -AGAAATTTCTCACCTAGAG-ATTTCT-TAAAAATTTAACCATTTAAAATTTCTA-AGAATCTCA
*
12013104 TCATTGGATAATTAATATTTATTCCAAAATTTTATTTTATATTTTTCTT
122 TCATTGGATAATTAATATTT-TTCCAAAATTTTA--ATATATTTTTCTT
12013153 AAACTTAATC
Statistics
Matches: 147, Mismatches: 11, Indels: 23
0.81 0.06 0.13
Matches are distributed among these distances:
179 38 0.26
180 13 0.09
181 32 0.22
182 60 0.41
183 4 0.03
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (179 bp):
AATATAATTACTTTTATTGAAATTTCATCTAAATTATTCCACCATTTTGGATAAATTTAAAGAAA
TTTCTCACCTAGAGATTTCTTAAAAATTTAACCATTTAAAATTTCTAAGAATCTCATCATTGGAT
AATTAATATTTTTCCAAAATTTTAATATATTTTTCTTTTTTTGAAAATA
Found at i:12013201 original size:16 final size:17
Alignment explanation
Indices: 12013179--12013228 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
12013169 AAATACCCTA
* *
12013179 AAAATAAACAAACACAT
1 AAAATAAAAAAACAAAT
12013196 -AAATAAAAAAACAAAT
1 AAAATAAAAAAACAAAT
*
12013212 AAAATAAATAAA-AAAT
1 AAAATAAAAAAACAAAT
12013228 A
1 A
12013229 CCAAAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAATAAAAAAACAAAT
Found at i:12014077 original size:18 final size:18
Alignment explanation
Indices: 12014051--12014098 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
12014041 CGGAAACAAT
*
12014051 AAAACAGATAAATAATCC
1 AAAAAAGATAAATAATCC
12014069 AAAAAAGAT-AA-AATCC
1 AAAAAAGATAAATAATCC
*
12014085 AAATAA-ATAAATAA
1 AAAAAAGATAAATAA
12014099 AATAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 12 0.46
17 4 0.15
18 8 0.31
ACGTcount: A:0.69, C:0.10, G:0.04, T:0.17
Consensus pattern (18 bp):
AAAAAAGATAAATAATCC
Found at i:12014254 original size:19 final size:19
Alignment explanation
Indices: 12014232--12014293 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
12014222 AATTTTTTAT
12014232 ATGATTTTATATTTGTTGC
1 ATGATTTTATATTTGTTGC
**
12014251 ATGA-TTTACTACATGTT--
1 ATGATTTTA-TATTTGTTGC
*
12014268 ATGATTTTATATTTATTGC
1 ATGATTTTATATTTGTTGC
*
12014287 GTGATTT
1 ATGATTT
12014294 ATTGATATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 9 0.27
18 8 0.24
19 16 0.48
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (19 bp):
ATGATTTTATATTTGTTGC
Found at i:12014526 original size:103 final size:101
Alignment explanation
Indices: 12014384--12014577 Score: 241
Period size: 103 Copynumber: 1.9 Consensus size: 101
12014374 ATATGTTCCT
* * **
12014384 AATCCTACCAACATATTAGAGGATAATTTTTTATGAAAAATCTTATCAATAGATTGGAAGATATT
1 AATCCTACCAACATATTAGAGGATAATCTTTAACAAAAAATCTTA-CAAT--ATTGGAAGATATT
12014449 TCTGAAAATAAATTATTTTCA-AAA-AAAATAAAATTTCA
63 TCTGAAAA-AAATTATTTTCACAAATAAAATAAAATTTCA
* * *
12014487 AATCCTACCAACATATTCA-AGGATAATCTTTAACAAAAAATCTTACCATTTTGGAAGATATTTT
1 AATCCTACCAACATATT-AGAGGATAATCTTTAACAAAAAATCTTACAATATTGGAAGATATTTC
* *
12014551 TGAGAAAAATTGTTTTCACAAATAAAA
65 TGAAAAAAATTATTTTCACAAATAAAA
12014578 GTATTTTTAC
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
99 11 0.14
100 21 0.27
101 4 0.05
102 3 0.04
103 39 0.49
104 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (101 bp):
AATCCTACCAACATATTAGAGGATAATCTTTAACAAAAAATCTTACAATATTGGAAGATATTTCT
GAAAAAAATTATTTTCACAAATAAAATAAAATTTCA
Found at i:12015213 original size:21 final size:21
Alignment explanation
Indices: 12015196--12015258 Score: 108
Period size: 21 Copynumber: 3.0 Consensus size: 21
12015186 AATAAGAACA
12015196 ATCCAAGATTTGTCAAGAATC
1 ATCCAAGATTTGTCAAGAATC
12015217 ATCCAAGATTTGTCAAGAATC
1 ATCCAAGATTTGTCAAGAATC
* *
12015238 ATCAAAGATTTGTTAAGAATC
1 ATCCAAGATTTGTCAAGAATC
12015259 GCCAAAAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (21 bp):
ATCCAAGATTTGTCAAGAATC
Found at i:12017479 original size:38 final size:38
Alignment explanation
Indices: 12017405--12017479 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 38
12017395 CGCGAAATGA
* * * * *
12017405 AATGCATGTATTATTTTATTAAAATGTGCTTTAGATGG
1 AATGCATGCACTATGTTATTAAAATGTGCATGAGATGG
* *
12017443 AATGCATGCACTATGTTATTAAGATGTGGATGAGATG
1 AATGCATGCACTATGTTATTAAAATGTGCATGAGATG
12017480 TAGGGTGTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (38 bp):
AATGCATGCACTATGTTATTAAAATGTGCATGAGATGG
Found at i:12019012 original size:19 final size:19
Alignment explanation
Indices: 12018980--12019033 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
12018970 GGATCAAGTG
* *
12018980 TTGGTTTTAGGGTTTGGGGA
1 TTGG-TTTAAGGTTTAGGGA
*
12019000 TTGGTTTAAGGTTTAGGGT
1 TTGGTTTAAGGTTTAGGGA
12019019 TTGGTTTAAGGTTTA
1 TTGGTTTAAGGTTTA
12019034 TGGTTTATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 27 0.87
20 4 0.13
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (19 bp):
TTGGTTTAAGGTTTAGGGA
Found at i:12019068 original size:8 final size:7
Alignment explanation
Indices: 12018985--12019244 Score: 161
Period size: 7 Copynumber: 38.6 Consensus size: 7
12018975 AAGTGTTGGT
12018985 TTTAGGG
1 TTTAGGG
*
12018992 TTTGGGG
1 TTTAGGG
*
12018999 ATT--GG
1 TTTAGGG
*
12019004 TTTAAGG
1 TTTAGGG
12019011 TTTAGGG
1 TTTAGGG
12019018 TTT--GG
1 TTTAGGG
*
12019023 TTTAAGG
1 TTTAGGG
*
12019030 TTTATGG
1 TTTAGGG
**
12019037 TTTATAG
1 TTTAGGG
*
12019044 TTTAGAG
1 TTTAGGG
*
12019051 TTTAGAGT
1 TTTAG-GG
12019059 TTTAGGG
1 TTTAGGG
*
12019066 TTTAAGG
1 TTTAGGG
12019073 TTTAGGG
1 TTTAGGG
12019080 TTTA--G
1 TTTAGGG
*
12019085 TTTGGGG
1 TTTAGGG
*
12019092 TTTGGGG
1 TTTAGGG
12019099 TTTTAGGG
1 -TTTAGGG
12019107 TTTA--G
1 TTTAGGG
*
12019112 ATTAGGG
1 TTTAGGG
12019119 -TTAGGG
1 TTTAGGG
*
12019125 TTTA-GT
1 TTTAGGG
*
12019131 TTTAAGG
1 TTTAGGG
12019138 TTTAGGG
1 TTTAGGG
*
12019145 -TTAGAG
1 TTTAGGG
12019151 TTTA-GG
1 TTTAGGG
*
12019157 TTTAGGA
1 TTTAGGG
**
12019164 TTTAGAA
1 TTTAGGG
*
12019171 TTTAGGA
1 TTTAGGG
* *
12019178 TTTAAGA
1 TTTAGGG
12019185 TTTAGGG
1 TTTAGGG
*
12019192 TTTAAGG
1 TTTAGGG
* *
12019199 ATTAGGT
1 TTTAGGG
12019206 TTTAGGG
1 TTTAGGG
12019213 TTTA-GG
1 TTTAGGG
12019219 TTTAAGGG
1 TTT-AGGG
12019227 TTTA-GG
1 TTTAGGG
12019233 TTTAAGGG
1 TTT-AGGG
12019241 TTTA
1 TTTA
12019245 CATGCATGTA
Statistics
Matches: 203, Mismatches: 32, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
5 17 0.08
6 31 0.15
7 134 0.66
8 21 0.10
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:12019068 original size:29 final size:29
Alignment explanation
Indices: 12019002--12019244 Score: 110
Period size: 26 Copynumber: 8.7 Consensus size: 29
12018992 TTTGGGGATT
* *
12019002 GGTTTAAGGTTTAGGGTTT-G-GTTTA-A
1 GGTTTAGGGTTTAAGGTTTAGAGTTTAGA
*
12019028 GGTTTATGGTTTATA-GTTTAGAGTTTAGA
1 GGTTTAGGGTTTA-AGGTTTAGAGTTTAGA
* * *
12019057 GTTTTAGGGTTTAAGGTTTAGGGTTTAGTTTGG
1 GGTTTAGGGTTTAAGGTTTAGAGTTTA----GA
* *
12019090 GGTTTGGGGTTTTAGGGTTTAGA--TTAG-
1 GGTTTAGGG-TTTAAGGTTTAGAGTTTAGA
*
12019117 GG-TTAGGGTTT-AGTTTTA-AGGTTTAG-
1 GGTTTAGGGTTTAAGGTTTAGA-GTTTAGA
*
12019143 GG-TTAGAGTTT-AGGTTTAG-GATTTAGA
1 GGTTTAGGGTTTAAGGTTTAGAG-TTTAGA
* * * *
12019170 -ATTTAGGATTTAAGATTTAGGGTTTA-A
1 GGTTTAGGGTTTAAGGTTTAGAGTTTAGA
* * *
12019197 GGATTAGGTTTTAGGGTTTAG-GTTTA-A
1 GGTTTAGGGTTTAAGGTTTAGAGTTTAGA
12019224 GGGTTTA-GGTTTAAGGGTTTA
1 -GGTTTAGGGTTTAA-GGTTTA
12019245 CATGCATGTA
Statistics
Matches: 168, Mismatches: 27, Indels: 42
0.71 0.11 0.18
Matches are distributed among these distances:
23 1 0.01
24 5 0.03
25 4 0.02
26 46 0.27
27 22 0.13
28 44 0.26
29 24 0.14
32 3 0.02
33 8 0.05
34 11 0.07
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (29 bp):
GGTTTAGGGTTTAAGGTTTAGAGTTTAGA
Found at i:12019102 original size:41 final size:43
Alignment explanation
Indices: 12019021--12019110 Score: 121
Period size: 41 Copynumber: 2.1 Consensus size: 43
12019011 TTTAGGGTTT
*
12019021 GGTTTAAGGTTTATGGTTTATAGTTTAGAGTTTAGAGTTTTAG
1 GGTTTAAGGTTTATGGGTTATAGTTTAGAGTTTAGAGTTTTAG
* * * *
12019064 GGTTTAAGGTTTA-GGGTT-TAGTTTGGGGTTTGGGGTTTTAG
1 GGTTTAAGGTTTATGGGTTATAGTTTAGAGTTTAGAGTTTTAG
12019105 GGTTTA
1 GGTTTA
12019111 GATTAGGGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 25 0.60
42 4 0.10
43 13 0.31
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.48
Consensus pattern (43 bp):
GGTTTAAGGTTTATGGGTTATAGTTTAGAGTTTAGAGTTTTAG
Found at i:12019231 original size:127 final size:126
Alignment explanation
Indices: 12019004--12019236 Score: 289
Period size: 127 Copynumber: 1.8 Consensus size: 126
12018994 TGGGGATTGG
* * * *
12019004 TTTAAGGTTTAGGGTTTGGTTTAAGGTTTATGGTTTATAGTTTAGAGTTTAGAGTTTTAGGGTTT
1 TTTAAGGTTTAGGGTTAGGTTTAAGGTTTATGGTTTAGAATTTAGAGTTTAGAGATTTAGGGTTT
* * *
12019069 AAGGTTTAGGGTTTAGTTTGGGGTTTGGGGTTTTAGGGTTTAGATTAGGGTTAGGGTTTAGT
66 AAGGATTAGGGTTTAGTTTGAGGTTTAGGGTTTTA-GGTTTAGATTAGGGTTAGGGTTTAGT
12019131 TTTAAGGTTTAGGGTTAGAGTTT-AGGTTTA-GGATTTAGAATTTAG-GATTTA-AGATTTAGGG
1 TTTAAGGTTTAGGGTTAG-GTTTAAGGTTTATGG-TTTAGAATTTAGAG-TTTAGAGATTTAGGG
*
12019192 TTTAAGGATTAGGTTTTAGGGTTT-AGGTTTAAGGG-TTTAGGTTTA
63 TTTAAGGATTAGGGTTTA--GTTTGAGGTTT-AGGGTTTTAGGTTTA
12019237 AGGGTTTACA
Statistics
Matches: 92, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
126 34 0.37
127 47 0.51
128 11 0.12
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (126 bp):
TTTAAGGTTTAGGGTTAGGTTTAAGGTTTATGGTTTAGAATTTAGAGTTTAGAGATTTAGGGTTT
AAGGATTAGGGTTTAGTTTGAGGTTTAGGGTTTTAGGTTTAGATTAGGGTTAGGGTTTAGT
Found at i:12027630 original size:55 final size:54
Alignment explanation
Indices: 12027563--12027722 Score: 176
Period size: 55 Copynumber: 2.9 Consensus size: 54
12027553 CATTGATTTG
* ** *
12027563 TTAGATTGTTTTAATTTAATATGCACCTTATTTTTTATATGTTTGCATTAATCCA
1 TTAGATTATTTTAATTTAATATG-AGTTTATTTTTTATTTGTTTGCATTAATCCA
* * * * ** **
12027618 TTATATTATTTTAATTTAATATGTTGTTTGTTTTTTATTTGTTTACATTGGTTTA
1 TTAGATTATTTTAATTTAATATG-AGTTTATTTTTTATTTGTTTGCATTAATCCA
12027673 TTAGATTATTTTAATTTAATATGATGTTTATGTTTTTATTTGTTTGCATT
1 TTAGATTATTTTAATTTAATATGA-GTTTAT-TTTTTATTTGTTTGCATT
12027723 GATTTATTAC
Statistics
Matches: 86, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
55 69 0.80
56 17 0.20
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.60
Consensus pattern (54 bp):
TTAGATTATTTTAATTTAATATGAGTTTATTTTTTATTTGTTTGCATTAATCCA
Found at i:12027765 original size:56 final size:55
Alignment explanation
Indices: 12027539--12027769 Score: 130
Period size: 55 Copynumber: 4.2 Consensus size: 55
12027529 TTATTTTATT
** * * * * **
12027539 TTTTTATTAATTTACATTGATTTGTTAGATTGTTTTAATTTAATATGCACCT-TAT-
1 TTTTTATTTGTTTACATTGATTTATTACATTATTTT-ATTTAAAATG-ATATATATA
* * * ** * * * * * *
12027594 TTTTTATATGTTTGCATTAATCCATTATATTATTTTAATTTAATATGTTGTTTGT-
1 TTTTTATTTGTTTACATTGATTTATTACATTATTTT-ATTTAAAATGATATATATA
* * * * * *
12027649 TTTTTATTTGTTTACATTGGTTTATTAGATTATTTTAATTTAATATGATGTTTATG
1 TTTTTATTTGTTTACATTGATTTATTACATTATTTT-ATTTAAAATGATATATATA
*
12027705 TTTTTATTTGTTTGCATTGATTTATTACATTACGTTTT-TTTATAAATGATATATA-A
1 TTTTTATTTGTTTACATTGATTTATTACATTA--TTTTATTTA-AAATGATATATATA
12027761 TTTTTATTT
1 TTTTTATTT
12027770 TATTATACTT
Statistics
Matches: 141, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
54 1 0.01
55 85 0.60
56 42 0.30
57 9 0.06
58 4 0.03
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.60
Consensus pattern (55 bp):
TTTTTATTTGTTTACATTGATTTATTACATTATTTTATTTAAAATGATATATATA
Found at i:12028880 original size:32 final size:32
Alignment explanation
Indices: 12028844--12028906 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
12028834 TTTTTTTTTA
* *
12028844 ATCTAGTTCATGTTAAAGATATTTTAGCATTT
1 ATCTAGTTCATGATAAAGATACTTTAGCATTT
12028876 ATCTAGTTCATGATAAAGATACTTTAGCATT
1 ATCTAGTTCATGATAAAGATACTTTAGCATT
12028907 GACTTTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (32 bp):
ATCTAGTTCATGATAAAGATACTTTAGCATTT
Found at i:12031826 original size:49 final size:48
Alignment explanation
Indices: 12031771--12031875 Score: 174
Period size: 49 Copynumber: 2.2 Consensus size: 48
12031761 ATAAATCTCT
*
12031771 ATATAAATCTTTATTTTGATTAGATAATTATAACATTGTAATAAAAAAA
1 ATATAAATCTTTATTTTGATTAGATAATTATAACAGTGTAAT-AAAAAA
*
12031820 ATATAAATCTTTATTTTGATTAGATAATTATAATAGTGTAATAAAAAA
1 ATATAAATCTTTATTTTGATTAGATAATTATAACAGTGTAATAAAAAA
*
12031868 TTATAAAT
1 ATATAAAT
12031876 AATATGCTCC
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
48 13 0.25
49 40 0.75
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.42
Consensus pattern (48 bp):
ATATAAATCTTTATTTTGATTAGATAATTATAACAGTGTAATAAAAAA
Found at i:12032021 original size:22 final size:22
Alignment explanation
Indices: 12031996--12032061 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
12031986 ATTATGTCAA
12031996 TATATATCACTTTCATTTAAAT
1 TATATATCACTTTCATTTAAAT
* * *
12032018 TATATATTAC-GTCA---ATA-
1 TATATATCACTTTCATTTAAAT
12032035 TATATATCACTTTCATTTAAAT
1 TATATATCACTTTCATTTAAAT
12032057 TATAT
1 TATAT
12032062 TATATAATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 9 0.27
18 5 0.15
21 5 0.15
22 14 0.42
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (22 bp):
TATATATCACTTTCATTTAAAT
Found at i:12032032 original size:37 final size:39
Alignment explanation
Indices: 12031983--12032061 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
12031973 ATAAAATAAT
*
12031983 TATATTATGTC-A-ATATATATCACTTTCATTTAAATTA
1 TATATTACGTCAATATATATATCACTTTCATTTAAATTA
12032020 TATATTACGTCAATATATATATCACTTTCATTTAAATTA
1 TATATTACGTCAATATATATATCACTTTCATTTAAATTA
12032059 TAT
1 TAT
12032062 TATATAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 10 0.26
38 1 0.03
39 28 0.72
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.48
Consensus pattern (39 bp):
TATATTACGTCAATATATATATCACTTTCATTTAAATTA
Found at i:12033600 original size:29 final size:30
Alignment explanation
Indices: 12033568--12033645 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 30
12033558 TATTTTAAGT
12033568 TTTTTATTAGTTATTTTTAT-CATAATTTA
1 TTTTTATTAGTTATTTTTATACATAATTTA
* * * * *
12033597 TTTTTTTTATTTATCTTTATAGATTATTTA
1 TTTTTATTAGTTATTTTTATACATAATTTA
* *
12033627 TCTTCATTAGTT-TTTTTAT
1 TTTTTATTAGTTATTTTTAT
12033646 TTAATGATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 23 0.61
30 15 0.39
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.68
Consensus pattern (30 bp):
TTTTTATTAGTTATTTTTATACATAATTTA
Found at i:12033700 original size:11 final size:11
Alignment explanation
Indices: 12033686--12033714 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12033676 TATTTTTCAA
12033686 TTATATTTATT
1 TTATATTTATT
12033697 TTATATTTATT
1 TTATATTTATT
12033708 TT-TATTT
1 TTATATTT
12033715 TTTAATTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATATTTATT
Found at i:12033702 original size:34 final size:34
Alignment explanation
Indices: 12033655--12033721 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
12033645 TTTAATGATT
*
12033655 TATTTCTTATATATCTT-TATTTATTTTTCAATTA
1 TATTTATTATATAT-TTATATTTATTTTTCAATTA
* * *
12033689 TATTTATTTTATATTTATTTTTATTTTTTAATT
1 TATTTATTATATATTTATATTTATTTTTCAATT
12033722 CTTTTAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 2 0.07
34 26 0.93
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.70
Consensus pattern (34 bp):
TATTTATTATATATTTATATTTATTTTTCAATTA
Found at i:12033726 original size:17 final size:17
Alignment explanation
Indices: 12033674--12033726 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
12033664 TATATCTTTA
* *
12033674 TTTATTTTTCAATTATA
1 TTTATTTTTTAATTATT
* *
12033691 TTTATTTTATATTTATT
1 TTTATTTTTTAATTATT
*
12033708 TTTATTTTTTAATTCTT
1 TTTATTTTTTAATTATT
12033725 TT
1 TT
12033727 AAAAACAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTTTTTAATTATT
Found at i:12034753 original size:19 final size:21
Alignment explanation
Indices: 12034729--12034767 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
12034719 TAGTTATTTA
*
12034729 TTTTAA-AATAAA-AATTTTC
1 TTTTAAGAAAAAATAATTTTC
12034748 TTTTAAGAAAAAATAATTTT
1 TTTTAAGAAAAAATAATTTT
12034768 TTTAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (21 bp):
TTTTAAGAAAAAATAATTTTC
Found at i:12034767 original size:21 final size:19
Alignment explanation
Indices: 12034729--12034775 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
12034719 TAGTTATTTA
*
12034729 TTTTAAAATAAAAATTTTC
1 TTTTAAAAAAAAAATTTTC
12034748 TTTTAAGAAAAAATAA-TTT-
1 TTTTAA-AAAAAA-AATTTTC
12034767 TTTTAAAAA
1 TTTTAAAAA
12034776 GACAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 12 0.48
20 8 0.32
21 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTTAAAAAAAAAATTTTC
Found at i:12035051 original size:51 final size:53
Alignment explanation
Indices: 12034962--12035064 Score: 149
Period size: 51 Copynumber: 2.0 Consensus size: 53
12034952 AAAAAAATAA
* * *
12034962 TTTTAGAAATAAAACCTTATCAGCATATTGAAAAGTTTTGTAATTTT-AAAAT
1 TTTTAAAAATAAAACCATATCAACATATTGAAAAGTTTTGTAATTTTGAAAAT
12035014 TTTTAAAAATAAAACCATA-CAACATATT-AAAAGGTTTTGTAATTTTGAAAA
1 TTTTAAAAATAAAACCATATCAACATATTGAAAA-GTTTTGTAATTTTGAAAA
12035065 AAATTTGACA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
50 4 0.09
51 21 0.46
52 21 0.46
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.38
Consensus pattern (53 bp):
TTTTAAAAATAAAACCATATCAACATATTGAAAAGTTTTGTAATTTTGAAAAT
Found at i:12035081 original size:17 final size:18
Alignment explanation
Indices: 12035059--12035102 Score: 72
Period size: 17 Copynumber: 2.4 Consensus size: 18
12035049 TTTGTAATTT
12035059 TGAAAAAAA-TTTGACAA
1 TGAAAAAAATTTTGACAA
12035076 TGAAAAAAATTTTGACAA
1 TGAAAAAAATTTTGACAA
12035094 TAGAAAAAA
1 T-GAAAAAA
12035103 CTTTACCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 9 0.36
18 9 0.36
19 7 0.28
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (18 bp):
TGAAAAAAATTTTGACAA
Found at i:12035084 original size:18 final size:19
Alignment explanation
Indices: 12035061--12035102 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
12035051 TGTAATTTTG
12035061 AAAAAAATTTGACAAT-GA
1 AAAAAAATTTGACAATAGA
*
12035079 AAAAAATTTTGACAATAGA
1 AAAAAAATTTGACAATAGA
12035098 AAAAA
1 AAAAA
12035103 CTTTACCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (19 bp):
AAAAAAATTTGACAATAGA
Found at i:12035366 original size:21 final size:21
Alignment explanation
Indices: 12035342--12035399 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
12035332 TTTAGCGACC
* *
12035342 TTTTTTTTCACTTTAGTGGCG
1 TTTTTTTTCACTTTAATGGCA
*
12035363 TTTTTTTCCACTTTAATGGCA
1 TTTTTTTTCACTTTAATGGCA
12035384 TTTTTTTTCACTTTAA
1 TTTTTTTTCACTTTAA
12035400 CGGTGTTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.59
Consensus pattern (21 bp):
TTTTTTTTCACTTTAATGGCA
Found at i:12037461 original size:2 final size:2
Alignment explanation
Indices: 12037454--12037483 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12037444 AACAAATGAA
12037454 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
12037484 TAGAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12040650 original size:8 final size:8
Alignment explanation
Indices: 12040637--12040681 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
12040627 AATAATTTTT
12040637 TATTTATA
1 TATTTATA
12040645 TATTTATA
1 TATTTATA
*
12040653 TAATTATA
1 TATTTATA
*
12040661 TATTTAAA
1 TATTTATA
12040669 TATTTATA
1 TATTTATA
12040677 T-TTTA
1 TATTTA
12040682 AAAATAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
7 4 0.12
8 29 0.88
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTTATA
Found at i:12040655 original size:24 final size:24
Alignment explanation
Indices: 12040628--12040677 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
12040618 AATTTTTAAA
* * *
12040628 ATAATTTTTTATTTATATATTTAT
1 ATAATTATATATTTAAATATTTAT
12040652 ATAATTATATATTTAAATATTTAT
1 ATAATTATATATTTAAATATTTAT
12040676 AT
1 AT
12040678 TTTAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
ATAATTATATATTTAAATATTTAT
Found at i:12040661 original size:16 final size:15
Alignment explanation
Indices: 12040640--12040698 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 15
12040630 AATTTTTTAT
12040640 TTATATATTTATATAA
1 TTATAT-TTTATATAA
* *
12040656 TTATATATTTAAATAT
1 TTATAT-TTTATATAA
*
12040672 TTATATTTTA-AAAA
1 TTATATTTTATATAA
*
12040686 TAATATTTTATAT
1 TTATATTTTATAT
12040699 TTAAAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.31
15 5 0.14
16 20 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATATTTTATATAA
Found at i:12040697 original size:21 final size:21
Alignment explanation
Indices: 12040667--12040717 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
12040657 TATATATTTA
*
12040667 AATA-TTTATATTTTAAAAAT
1 AATATTTTATATTTAAAAAAT
12040687 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
12040708 AATATTTTAT
1 AATATTTTAT
12040718 TAATTTCAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:12041946 original size:60 final size:60
Alignment explanation
Indices: 12041821--12041996 Score: 146
Period size: 60 Copynumber: 3.0 Consensus size: 60
12041811 ATTCAATGTG
* * * * * **
12041821 TTTTTTGGCAAAAAACACCTTAAATAATCCC-ACAAAATTGAAA-AAGGATTA-TTAAAGGC
1 TTTTTTGGCTAAAAATACCTTGAATAATCCCAAAAAAAATGAAAGAA-GATTATTTAAA-AT
* * *
12041880 TATTTT-G-TAGAAAATGCCTTGAATAATCTCTAAAAAAAATGAAAGAAGATTATTTAAAAT
1 TTTTTTGGCTA-AAAATACCTTGAATAATC-CCAAAAAAAATGAAAGAAGATTATTTAAAAT
* ** * *
12041940 TTTTTTGGCTAAAAATATCTTGAATAATCCCCCAAAAAATGTAAGGAGATTATTTAA
1 TTTTTTGGCTAAAAATACCTTGAATAATCCCAAAAAAAATGAAAGAAGATTATTTAA
12041997 GGTGTTTTTG
Statistics
Matches: 92, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
57 1 0.01
58 16 0.17
59 6 0.07
60 43 0.47
61 24 0.26
62 2 0.02
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (60 bp):
TTTTTTGGCTAAAAATACCTTGAATAATCCCAAAAAAAATGAAAGAAGATTATTTAAAAT
Found at i:12042037 original size:60 final size:60
Alignment explanation
Indices: 12041897--12042038 Score: 144
Period size: 60 Copynumber: 2.4 Consensus size: 60
12041887 TAGAAAATGC
* *
12041897 CTTGAATAATCTCTAAAAAAAATGAAAGAAGATTATTTAAAATTTTTTTGGCTAAAAATAT
1 CTTGAATAATCT-TCAAAAAAATGAAAGAAGATTATTTAAAATGTTTTTGGCTAAAAATAT
** * * * ** **
12041958 CTTGAATAATCCCCCAAAAAATGTAAGGAGATTATTTAAGGTGTTTTTGGTCATAAACGT-T
1 CTTGAATAATCTTCAAAAAAATGAAAGAAGATTATTTAAAATGTTTTTGG-C-TAAAAATAT
12042019 -TTGAATAATCTTCAAAAAAA
1 CTTGAATAATCTTCAAAAAAA
12042039 ATTATAGGGG
Statistics
Matches: 65, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
60 47 0.72
61 13 0.20
62 5 0.08
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.35
Consensus pattern (60 bp):
CTTGAATAATCTTCAAAAAAATGAAAGAAGATTATTTAAAATGTTTTTGGCTAAAAATAT
Found at i:12042145 original size:60 final size:59
Alignment explanation
Indices: 12041973--12042147 Score: 174
Period size: 60 Copynumber: 2.9 Consensus size: 59
12041963 ATAATCCCCC
* * * * **
12041973 AAAAAATGTAAGGAGATTATTTAAGGTGTTTTTGGTCATAAACGTTTTGAATAATCTTCAA
1 AAAAAATGTAAGG-GATTATTGAAGGCGTTTTTGGCCAAAAACGCCTTGAATAA-CTTCAA
* * ** *
12042034 AAAAAAT-TATAGGGGATTATTGAAGGCATTTTTAGCCAAAAATACCATGAATAA-TTCAAA
1 AAAAAATGTA-A-GGGATTATTGAAGGCGTTTTTGGCCAAAAACGCCTTGAATAACTTC-AA
*
12042094 AAAAAATGGAAGGGCATTATTGAAGGCGTTTTTGGCCAAAAACGCCTTGAATAA
1 AAAAAATGTAAGGG-ATTATTGAAGGCGTTTTTGGCCAAAAACGCCTTGAATAA
12042148 ACCCATTCAA
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
59 6 0.07
60 46 0.50
61 38 0.41
62 2 0.02
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (59 bp):
AAAAAATGTAAGGGATTATTGAAGGCGTTTTTGGCCAAAAACGCCTTGAATAACTTCAA
Found at i:12043441 original size:15 final size:14
Alignment explanation
Indices: 12043411--12043440 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12043401 ATAATCAATA
12043411 TTAAAAAATAAATT
1 TTAAAAAATAAATT
12043425 TTAAAAAATAAATT
1 TTAAAAAATAAATT
12043439 TT
1 TT
12043441 TTAATTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAAAAAATAAATT
Found at i:12056627 original size:73 final size:76
Alignment explanation
Indices: 12056541--12056701 Score: 181
Period size: 73 Copynumber: 2.2 Consensus size: 76
12056531 GAAATTTTTT
* * * *
12056541 TTTTTTCAAAATTCAACAAAAAT-GACATTTTTAAGATAATAATATG-G-TTTTTGTT-GAAATT
1 TTTTTTCAAAATTCAAC-AAAATCAACATTTTTAAGATAA-AAAATGTGATTTTTGTTAAAAAAT
* *
12056602 ATAAAAAAAATTA
64 ACAAAAAAAAATA
* * *
12056615 TTTTTT-AGAATTCAACAAATTCAATATTTTTAAGATAAAAAATGTGATTTTTGTTAAAAAATAC
1 TTTTTTCAAAATTCAACAAAATCAACATTTTTAAGATAAAAAATGTGATTTTTGTTAAAAAATAC
12056679 AAAAAAAAATA
66 AAAAAAAAATA
12056690 -TTTTTCAAAATT
1 TTTTTTCAAAATT
12056702 TTAAAATTTC
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
72 9 0.12
73 24 0.33
74 19 0.26
75 20 0.28
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (76 bp):
TTTTTTCAAAATTCAACAAAATCAACATTTTTAAGATAAAAAATGTGATTTTTGTTAAAAAATAC
AAAAAAAAATA
Found at i:12056787 original size:19 final size:18
Alignment explanation
Indices: 12056780--12056819 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
12056770 TTATATTATG
12056780 ATAAAAATTTATTATTAC
1 ATAAAAATTTATTATTAC
12056798 ATAAAAAATTTATTATTAC
1 AT-AAAAATTTATTATTAC
12056817 ATA
1 ATA
12056820 TATTATATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAAAATTTATTATTAC
Found at i:12057106 original size:15 final size:16
Alignment explanation
Indices: 12057074--12057116 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
12057064 ATAAATTATA
12057074 TATTTTTCTTTAATAT
1 TATTTTTCTTTAATAT
12057090 TATTTTT-TTTCAA-AT
1 TATTTTTCTTT-AATAT
12057105 TACTTTTTCTTT
1 TA-TTTTTCTTT
12057117 TAAAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.29
16 14 0.58
17 3 0.12
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTTTCTTTAATAT
Found at i:12057586 original size:18 final size:19
Alignment explanation
Indices: 12057541--12057588 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
12057531 TGATAATTAA
* *
12057541 AAATATGATATAATAATAT
1 AAATATAATATAAAAATAT
12057560 -AATATTAATA-AAAAATAT
1 AAATA-TAATATAAAAATAT
12057578 AAATATAATAT
1 AAATATAATAT
12057589 GATTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAATATAATATAAAAATAT
Found at i:12057702 original size:30 final size:28
Alignment explanation
Indices: 12057633--12057703 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
12057623 AATTGTATTT
*
12057633 TATATTTTTATATAAATCTAAATTATAA
1 TATATTTTTATATAAATATAAATTATAA
12057661 TATATTTTTATATAAA-ATATAA-TATAAA
1 TATATTTTTATATAAATATA-AATTAT-AA
12057689 TATAATATTTTATAT
1 TAT-AT-TTTTATAT
12057704 GATATAATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
27 5 0.13
28 23 0.61
29 2 0.05
30 8 0.21
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
TATATTTTTATATAAATATAAATTATAA
Found at i:12059985 original size:18 final size:18
Alignment explanation
Indices: 12059964--12059998 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12059954 GATAGAGAGC
* *
12059964 GAGACAGAGAACGAGATA
1 GAGAAAGAGAAAGAGATA
12059982 GAGAAAGAGAAAGAGAT
1 GAGAAAGAGAAAGAGAT
12059999 CGCTTGAGTA
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:0.54, C:0.06, G:0.34, T:0.06
Consensus pattern (18 bp):
GAGAAAGAGAAAGAGATA
Found at i:12059986 original size:12 final size:12
Alignment explanation
Indices: 12059951--12059997 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
12059941 AGAACGTGAG
*
12059951 CGAGATAGAGAG
1 CGAGATAGAGAA
*
12059963 CGAGACAGAGAA
1 CGAGATAGAGAA
12059975 CGAGATAGAGAA
1 CGAGATAGAGAA
* *
12059987 AGAGAAAGAGA
1 CGAGATAGAGA
12059998 TCGCTTGAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.51, C:0.09, G:0.36, T:0.04
Consensus pattern (12 bp):
CGAGATAGAGAA
Found at i:12059991 original size:24 final size:24
Alignment explanation
Indices: 12059936--12059997 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
12059926 AAGGGAACGG
* * *
12059936 GAAAGAGAACGTGAGCGAGATAGA
1 GAAAGAGAAAGAGAACGAGATAGA
** *
12059960 GAGCGAGACAGAGAACGAGATAGA
1 GAAAGAGAAAGAGAACGAGATAGA
12059984 GAAAGAGAAAGAGA
1 GAAAGAGAAAGAGA
12059998 TCGCTTGAGT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.50, C:0.08, G:0.37, T:0.05
Consensus pattern (24 bp):
GAAAGAGAAAGAGAACGAGATAGA
Found at i:12060233 original size:15 final size:15
Alignment explanation
Indices: 12060215--12060255 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
12060205 TCACCATCAT
12060215 CATCAACAGCAGCAA
1 CATCAACAGCAGCAA
* *
12060230 CATCAGCATCAGCAA
1 CATCAACAGCAGCAA
*
12060245 CATCTACAGCA
1 CATCAACAGCA
12060256 TCATCAACAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.34, G:0.12, T:0.12
Consensus pattern (15 bp):
CATCAACAGCAGCAA
Found at i:12067874 original size:20 final size:20
Alignment explanation
Indices: 12067830--12067874 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
12067820 CAATTATTAT
12067830 TAAA-AATAATATACAAAAG
1 TAAATAATAATATACAAAAG
12067849 -ATAATAATAA-ATACAAAATG
1 TA-AATAATAATATACAAAA-G
12067869 TAAATA
1 TAAATA
12067875 TATATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
18 1 0.05
19 10 0.45
20 10 0.45
21 1 0.05
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (20 bp):
TAAATAATAATATACAAAAG
Found at i:12068581 original size:32 final size:34
Alignment explanation
Indices: 12068522--12068587 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 34
12068512 AATTAAATAT
*
12068522 AATTTATTTATTAATAATTTAAATATTTAATAAACA
1 AATTTATTTAATAATAATTT--ATATTTAATAAACA
*
12068558 AATTTATTTAAT-ATAATTT-TATTTTATAAA
1 AATTTATTTAATAATAATTTATATTTAATAAA
12068588 TTATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 10 0.36
35 7 0.25
36 11 0.39
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (34 bp):
AATTTATTTAATAATAATTTATATTTAATAAACA
Found at i:12070125 original size:21 final size:21
Alignment explanation
Indices: 12070101--12070140 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12070091 ATATCAATTT
* *
12070101 TATTTTTATATTATATTATTA
1 TATTTATATATTAAATTATTA
*
12070122 TATTTATATTTTAAATTAT
1 TATTTATATATTAAATTAT
12070141 CAAATTTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTATATATTAAATTATTA
Found at i:12078468 original size:10 final size:11
Alignment explanation
Indices: 12078436--12078463 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
12078426 TTTTTCTCTC
12078436 TTTTTTCATTT
1 TTTTTTCATTT
12078447 TTTTTTCATTT
1 TTTTTTCATTT
12078458 TTTTTT
1 TTTTTT
12078464 GTTTTGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTCATTT
Found at i:12078749 original size:22 final size:22
Alignment explanation
Indices: 12078721--12078767 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
12078711 ATGCTCGAAA
*
12078721 GACTTATGAATCTTTCTTGGAG
1 GACTTATGAATCTTGCTTGGAG
12078743 GACTTATGAATCTTGCTTGGAG
1 GACTTATGAATCTTGCTTGGAG
12078765 GAC
1 GAC
12078768 GTAGAGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (22 bp):
GACTTATGAATCTTGCTTGGAG
Found at i:12080912 original size:21 final size:19
Alignment explanation
Indices: 12080888--12080943 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
12080878 ATCTTTGCTA
12080888 CTTTATTGTTTCTTTTTTTCT
1 CTTTATT-TTTCTTTTTTT-T
* * *
12080909 CTTTTTTTTTCCTTCTTTT
1 CTTTATTTTTCTTTTTTTT
*
12080928 CTTTATTTTTATTTTT
1 CTTTATTTTTCTTTTT
12080944 CTTTTCTTCT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 13 0.46
20 9 0.32
21 6 0.21
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (19 bp):
CTTTATTTTTCTTTTTTTT
Found at i:12080924 original size:24 final size:25
Alignment explanation
Indices: 12080897--12080969 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 25
12080887 ACTTTATTGT
*
12080897 TTCTTTT-TTTCTCTTTT-TTTTTCC
1 TTCTTTTCTTTAT-TTTTATTTTTCC
12080921 TTCTTTTCTTTATTTTTATTTTT-C
1 TTCTTTTCTTTATTTTTATTTTTCC
*
12080945 TT-TTCTTCTTTCTTCTTTCATTTTT
1 TTCTT-TTCTTTATT-TTT-ATTTTT
12080970 ATTTTTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 2 0.05
24 22 0.52
25 12 0.29
26 6 0.14
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (25 bp):
TTCTTTTCTTTATTTTTATTTTTCC
Found at i:12080928 original size:29 final size:29
Alignment explanation
Indices: 12080896--12080981 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 29
12080886 TACTTTATTG
*
12080896 TTTCTTT-TTTTCTCTTTTT-TTTTCCTTCT
1 TTTCTTTATTTT-TATTTTTCTTTT-CTTCT
12080925 TTTCTTTATTTTTATTTTTCTTTTCTTCTT
1 TTTCTTTATTTTTATTTTTCTTTTCTTC-T
*
12080955 TCTTCTTTCATTTTTATTTTTATTTTC
1 T-TTCTTT-ATTTTTATTTTTCTTTTC
12080982 GTTTCCCTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
29 17 0.34
30 10 0.20
31 6 0.12
32 17 0.34
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (29 bp):
TTTCTTTATTTTTATTTTTCTTTTCTTCT
Found at i:12080945 original size:21 final size:22
Alignment explanation
Indices: 12080889--12080953 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
12080879 TCTTTGCTAC
* *
12080889 TTTATTGTTTCTTTTTTTCTCTT
1 TTTATT-TTTCTTTTCTTCTATT
*
12080912 TTTTTTTCCTTCTTTTCTT-TATT
1 TTTATTT--TTCTTTTCTTCTATT
12080935 TTTATTTTTCTTTTCTTCT
1 TTTATTTTTCTTTTCTTCT
12080954 TTCTTCTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
21 10 0.29
22 2 0.06
23 14 0.40
24 9 0.26
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTATTTTTCTTTTCTTCTATT
Found at i:12080995 original size:38 final size:38
Alignment explanation
Indices: 12080929--12081001 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
12080919 CCTTCTTTTC
*
12080929 TTTATTTTTATTTTTCTTTTCTTCTTTCTTCTTTCATT
1 TTTATTTTTATTTTTCTTTCCTTCTTTCTTCTTTCATT
*
12080967 TTTATTTTTA-TTTTCGTTTCCCTT-TTTCTTTTTTC
1 TTTATTTTTATTTTTC-TTT-CCTTCTTTCTTCTTTC
12081002 TTTGAATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 5 0.16
38 23 0.74
39 3 0.10
ACGTcount: A:0.07, C:0.16, G:0.01, T:0.75
Consensus pattern (38 bp):
TTTATTTTTATTTTTCTTTCCTTCTTTCTTCTTTCATT
Found at i:12085287 original size:10 final size:11
Alignment explanation
Indices: 12085262--12085291 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12085252 TGCAAGTGAT
12085262 TTTTTTATGGA
1 TTTTTTATGGA
*
12085273 TTTTTTGTGGA
1 TTTTTTATGGA
12085284 TTTTTTAT
1 TTTTTTAT
12085292 TTTTGATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.17, T:0.70
Consensus pattern (11 bp):
TTTTTTATGGA
Found at i:12091148 original size:15 final size:15
Alignment explanation
Indices: 12091100--12091152 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
12091090 TAATCTCAAA
*
12091100 TTAAAATTTAAATTAT
1 TTAAAATTTCAATT-T
*
12091116 TTTAAA-TTCTAATCTT
1 TTAAAATTTC-AAT-TT
12091132 TTAAAATTTCAATTT
1 TTAAAATTTCAATTT
12091147 TTAAAA
1 TTAAAA
12091153 ATCTTGTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 10 0.32
16 17 0.55
17 4 0.13
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAAAATTTCAATTT
Found at i:12091373 original size:11 final size:11
Alignment explanation
Indices: 12091346--12091421 Score: 52
Period size: 11 Copynumber: 6.7 Consensus size: 11
12091336 ATATATATTT
*
12091346 TAATTTTTGTA
1 TAATTTTTATA
12091357 -ATATTTTTATA
1 TA-ATTTTTATA
12091368 TAATTTTTAT-
1 TAATTTTTATA
12091378 TAAATTTTAAATTATA
1 T-AA-TTT---TTATA
12091394 TAA-TTTT-TA
1 TAATTTTTATA
12091403 TAATTTTTATA
1 TAATTTTTATA
*
12091414 TTATTTTT
1 TAATTTTT
12091422 TCTGTCATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 20
0.71 0.03 0.27
Matches are distributed among these distances:
9 5 0.09
10 8 0.15
11 27 0.51
12 4 0.08
13 2 0.04
15 6 0.11
16 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:12091398 original size:26 final size:25
Alignment explanation
Indices: 12091363--12091417 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
12091353 TGTAATATTT
12091363 TTATATAATTTTTATTAAATTTTAAA
1 TTATATAATTTTTA-TAAATTTTAAA
* *
12091389 TTATATAATTTTTATAATTTTTATA
1 TTATATAATTTTTATAAATTTTAAA
12091414 TTAT
1 TTAT
12091418 TTTTTCTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTATATAATTTTTATAAATTTTAAA
Found at i:12091406 original size:9 final size:9
Alignment explanation
Indices: 12091361--12091413 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
12091351 TTTGTAATAT
12091361 TTTTATATAA
1 TTTT-TATAA
12091371 TTTTTATTAA
1 TTTTTA-TAA
*
12091381 ATTTTA-AA
1 TTTTTATAA
*
12091389 -TTATATAA
1 TTTTTATAA
12091397 TTTTTATAA
1 TTTTTATAA
12091406 TTTTTATA
1 TTTTTATA
12091414 TTATTTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
7 4 0.11
8 4 0.11
9 17 0.46
10 12 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:12091939 original size:12 final size:12
Alignment explanation
Indices: 12091912--12091974 Score: 53
Period size: 11 Copynumber: 5.4 Consensus size: 12
12091902 TAAATATTAT
*
12091912 ATTATTAAAT-A
1 ATTAATAAATAA
12091923 ATTAATAAATAA
1 ATTAATAAATAA
12091935 ATTAA-AAATAA
1 ATTAATAAATAA
*
12091946 TATT-TTAAATAA
1 -ATTAATAAATAA
*
12091958 ATCTAACAAA-AA
1 AT-TAATAAATAA
12091970 ATTAA
1 ATTAA
12091975 ATTAAATTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 20 0.47
12 20 0.47
13 3 0.07
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (12 bp):
ATTAATAAATAA
Found at i:12092469 original size:33 final size:32
Alignment explanation
Indices: 12092423--12092486 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
12092413 AATCAAAAGT
* * *
12092423 AAATTTAATAATTTGTATATTTATATTATATA
1 AAATTTAAAAATTTATATATTTATATCATATA
12092455 AAATATTAAAAATTTATATATTTATATCATAT
1 AAAT-TTAAAAATTTATATATTTATATCATAT
12092487 TTTATATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (32 bp):
AAATTTAAAAATTTATATATTTATATCATATA
Found at i:12092504 original size:30 final size:30
Alignment explanation
Indices: 12092463--12092532 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
12092453 TAAAATATTA
12092463 AAAATTTATATATT-T-ATATCATATTTTATAT
1 AAAA-TTATATATTATAATAT-ATA-TTTATAT
*
12092494 AAAATTATATATTATAATTTATATTTATAT
1 AAAATTATATATTATAATATATATTTATAT
*
12092524 AAAAATATA
1 AAAATTATA
12092533 AAATATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 24 0.69
31 8 0.23
32 3 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (30 bp):
AAAATTATATATTATAATATATATTTATAT
Found at i:12092518 original size:12 final size:12
Alignment explanation
Indices: 12092468--12092518 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
12092458 TATTAAAAAT
12092468 TTATATATTTATA
1 TTATA-ATTTATA
* *
12092481 TCATATTTTATA
1 TTATAATTTATA
*
12092493 -TAAAATTATATA
1 TTATAATT-TATA
12092505 TTATAATTTATA
1 TTATAATTTATA
12092517 TT
1 TT
12092519 TATATAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
11 4 0.13
12 16 0.53
13 10 0.33
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
TTATAATTTATA
Found at i:12092628 original size:18 final size:17
Alignment explanation
Indices: 12092599--12092643 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
12092589 TATCTTATTT
12092599 TTATAT-TTATATCATA
1 TTATATATTATATCATA
*
12092615 TTATATCATTATATTATA
1 TTATAT-ATTATATCATA
*
12092633 TTTTATATTAT
1 TTATATATTAT
12092644 TAAATCTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.24
17 5 0.20
18 14 0.56
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATATATTATATCATA
Found at i:12094738 original size:162 final size:163
Alignment explanation
Indices: 12094454--12094787 Score: 616
Period size: 162 Copynumber: 2.0 Consensus size: 163
12094444 TAATATTATT
*
12094454 TTTTTATTTATTGGATAGAGGATAACATATTAGAACTATAAGATTCAAACTTTCACTTTATATTT
1 TTTTTA-TTATTGGATAGAGGATAACATATGAGAACTATAAGATTCAAACTTTCACTTTATATTT
*
12094519 TTTCTTAAACCTTCTTAATTATTAAATAAAAAATTAAGTGTAAATTTTAATAAATAATAAATATC
65 TTTCTTAAACCTTCTTAATCATTAAATAAAAAATTAAGTGTAAATTTTAATAAATAATAAATATC
12094584 AAGCAAAAATGCTAGTTGCTTAGCATCATTTTTA
130 AAGCAAAAATGCTAGTTGCTTAGCATCATTTTTA
*
12094618 TTTTTATTATTGGATAGAGGATAACATATGAGAACTATAAGATTCGAACTTTCACTTTATA-TTT
1 TTTTTATTATTGGATAGAGGATAACATATGAGAACTATAAGATTCAAACTTTCACTTTATATTTT
*
12094682 TTCTTAAACCTTCTTAATCATTAAATAATAAATTAAGTGTAAATTTTAATAAATAATAAATATCA
66 TTCTTAAACCTTCTTAATCATTAAATAAAAAATTAAGTGTAAATTTTAATAAATAATAAATATCA
12094747 AGCAAAAATGCTAGTTGCTTAGCATCATTTTTA
131 AGCAAAAATGCTAGTTGCTTAGCATCATTTTTA
12094780 TTTTTATT
1 TTTTTATT
12094788 TACTACCGAT
Statistics
Matches: 166, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
162 107 0.64
163 53 0.32
164 6 0.04
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (163 bp):
TTTTTATTATTGGATAGAGGATAACATATGAGAACTATAAGATTCAAACTTTCACTTTATATTTT
TTCTTAAACCTTCTTAATCATTAAATAAAAAATTAAGTGTAAATTTTAATAAATAATAAATATCA
AGCAAAAATGCTAGTTGCTTAGCATCATTTTTA
Found at i:12096041 original size:48 final size:48
Alignment explanation
Indices: 12095989--12096080 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
12095979 TGATGGTATG
* * *
12095989 TCATCTTTGTTGAGATAACCCTTATTGGCTAGCCTTTTTGATGACATT
1 TCATCTTTGTTGAGATAACCCTTATTGACGAGCCTTGTTGATGACATT
* * *
12096037 TCATCTTTGTTGAGATGACCTTTCTTGACGAGCCTTGTTGATGA
1 TCATCTTTGTTGAGATAACCCTTATTGACGAGCCTTGTTGATGA
12096081 TATGTTGTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (48 bp):
TCATCTTTGTTGAGATAACCCTTATTGACGAGCCTTGTTGATGACATT
Found at i:12105766 original size:21 final size:20
Alignment explanation
Indices: 12105718--12105767 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
12105708 AGCAAGGAAT
12105718 TAAGGGTTGAAAAGAAGAGC
1 TAAGGGTTGAAAAGAAGAGC
* *
12105738 TAAAGGTTGAAAAAGAAGAGT
1 TAAGGGTTG-AAAAGAAGAGC
*
12105759 TATGGGTTG
1 TAAGGGTTG
12105768 CCATGTGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.42, C:0.02, G:0.34, T:0.22
Consensus pattern (20 bp):
TAAGGGTTGAAAAGAAGAGC
Found at i:12106123 original size:23 final size:23
Alignment explanation
Indices: 12106097--12106156 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
12106087 CAAATTATTG
* *
12106097 TTTTAATGATTTTTATTTCTTTA
1 TTTTAGTGATTTTTATTCCTTTA
12106120 TTTTAGT-ATTTTTTATTCCTTTA
1 TTTTAGTGA-TTTTTATTCCTTTA
* *
12106143 ATTTGGTGATTTTT
1 TTTTAGTGATTTTT
12106157 TTGTTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 29 0.94
24 1 0.03
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.68
Consensus pattern (23 bp):
TTTTAGTGATTTTTATTCCTTTA
Found at i:12115900 original size:25 final size:23
Alignment explanation
Indices: 12115840--12115900 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
12115830 TAGAGAGTTC
*
12115840 AAAGAACAAAAAAAGAGAAAAAG
1 AAAGAAAAAAAAAAGAGAAAAAG
12115863 --AGAAAAATGAAAAATGTAGAAAAAG
1 AAAGAAAAA--AAAAA-G-AGAAAAAG
12115888 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
12115901 GAAGGATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
21 6 0.19
23 5 0.16
24 1 0.03
25 12 0.39
27 7 0.23
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (23 bp):
AAAGAAAAAAAAAAGAGAAAAAG
Found at i:12117180 original size:23 final size:23
Alignment explanation
Indices: 12117133--12117180 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
12117123 CCTTTAAATG
**
12117133 AAAACCAAATAAAAATAAACCAA
1 AAAACCAAATAAAAATAAAAAAA
*
12117156 AAAACCAAATAAAATTAAAAAAA
1 AAAACCAAATAAAAATAAAAAAA
12117179 AA
1 AA
12117181 TATAAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.10
Consensus pattern (23 bp):
AAAACCAAATAAAAATAAAAAAA
Found at i:12117287 original size:14 final size:16
Alignment explanation
Indices: 12117255--12117289 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12117245 AATTAAAAAT
12117255 TAAAAAATATATATAA
1 TAAAAAATATATATAA
*
12117271 TAAATAATATAATATAA
1 TAAAAAATAT-ATATAA
12117288 TA
1 TA
12117290 TATAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAAAATATATATAA
Found at i:12117287 original size:17 final size:16
Alignment explanation
Indices: 12117255--12117294 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
12117245 AATTAAAAAT
*
12117255 TAAAAAATATATATAA
1 TAAATAATATATATAA
12117271 TAAATAATATAATATAA
1 TAAATAATAT-ATATAA
*
12117288 TATATAA
1 TAAATAA
12117295 AAAGAAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAATAATATATATAA
Found at i:12118537 original size:3 final size:3
Alignment explanation
Indices: 12118531--12118614 Score: 134
Period size: 3 Copynumber: 28.3 Consensus size: 3
12118521 AAAACGCAAT
* * *
12118531 ATA ATA ATA ATA ATA ATA ATA ATA ATT TTA ATA AT- TTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12118578 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
12118615 AATTATTAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
2 1 0.01
3 73 0.99
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:12118972 original size:27 final size:26
Alignment explanation
Indices: 12118941--12119043 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 26
12118931 TAAACTTTTA
12118941 AAAACTCTAAAATTAAAACCCTAAAGC
1 AAAAC-CTAAAATTAAAACCCTAAAGC
* *
12118968 GAAACCCTAAAATTAAAACCCTAAATC
1 -AAAACCTAAAATTAAAACCCTAAAGC
**
12118995 AAAACC-ATAAA-TAAAACCCTAAAATT
1 AAAACCTA-AAATTAAAACCCT-AAAGC
12119021 AAAATCCT-AAATTAAAA-CCTAAA
1 AAAA-CCTAAAATTAAAACCCTAAA
12119044 CCCTAAATCC
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
25 13 0.20
26 22 0.33
27 27 0.41
28 4 0.06
ACGTcount: A:0.57, C:0.21, G:0.02, T:0.19
Consensus pattern (26 bp):
AAAACCTAAAATTAAAACCCTAAAGC
Found at i:12118993 original size:13 final size:13
Alignment explanation
Indices: 12118950--12119043 Score: 102
Period size: 13 Copynumber: 7.2 Consensus size: 13
12118940 AAAAACTCTA
12118950 AAATTAAAACCCT
1 AAATTAAAACCCT
***
12118963 AAAGCGAAACCCT
1 AAATTAAAACCCT
12118976 AAAATTAAAACCCT
1 -AAATTAAAACCCT
* *
12118990 AAATCAAAACCAT
1 AAATTAAAACCCT
12119003 AAA-TAAAACCCT
1 AAATTAAAACCCT
*
12119015 AAAATTAAAATCCT
1 -AAATTAAAACCCT
12119029 AAATTAAAA-CCT
1 AAATTAAAACCCT
12119041 AAA
1 AAA
12119044 CCCTAAATCC
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
12 13 0.19
13 36 0.54
14 18 0.27
ACGTcount: A:0.57, C:0.21, G:0.02, T:0.19
Consensus pattern (13 bp):
AAATTAAAACCCT
Found at i:12119017 original size:39 final size:38
Alignment explanation
Indices: 12118969--12119043 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 38
12118959 CCCTAAAGCG
12118969 AAACCCTAAAATTAAAACCCTAAATCAAAACCATAAATA
1 AAACCCTAAAATTAAAACCCTAAATCAAAACC-TAAATA
* *
12119008 AAACCCTAAAATTAAAATCCTAAATTAAAACCTAAA
1 AAACCCTAAAATTAAAACCCTAAATCAAAACCTAAA
12119044 CCCTAAATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 4 0.12
39 30 0.88
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.20
Consensus pattern (38 bp):
AAACCCTAAAATTAAAACCCTAAATCAAAACCTAAATA
Found at i:12119174 original size:7 final size:7
Alignment explanation
Indices: 12119162--12119190 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
12119152 AAATTAAGTC
12119162 AAGAATA
1 AAGAATA
12119169 AAGAATA
1 AAGAATA
12119176 AAGAATA
1 AAGAATA
12119183 AAGAATA
1 AAGAATA
12119190 A
1 A
12119191 TAAAATGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAGAATA
Found at i:12122983 original size:3 final size:3
Alignment explanation
Indices: 12122975--12123009 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
12122965 ATAAAAGAAA
12122975 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12123010 CAACAACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12123716 original size:26 final size:26
Alignment explanation
Indices: 12123633--12123719 Score: 149
Period size: 26 Copynumber: 3.4 Consensus size: 26
12123623 GTCTCAAGAT
*
12123633 GAAAAA-TAAGTATGATCTGTTAGAA
1 GAAAAACTAAGTATGATTTGTTAGAA
*
12123658 GAAAAAATAAGTATGATTTGTTAGAA
1 GAAAAACTAAGTATGATTTGTTAGAA
12123684 GAAAAACTAAGTATGATTTGTTAGAA
1 GAAAAACTAAGTATGATTTGTTAGAA
12123710 GAAAAACTAA
1 GAAAAACTAA
12123720 ATGCCATGGA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
25 6 0.10
26 53 0.90
ACGTcount: A:0.51, C:0.03, G:0.18, T:0.28
Consensus pattern (26 bp):
GAAAAACTAAGTATGATTTGTTAGAA
Found at i:12127228 original size:17 final size:17
Alignment explanation
Indices: 12127206--12127241 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
12127196 AAGAAGAATA
12127206 AGAAAGAAGTCAAGATC
1 AGAAAGAAGTCAAGATC
12127223 AGAAAGAAGTCAAGATC
1 AGAAAGAAGTCAAGATC
12127240 AG
1 AG
12127242 TTTTTCACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.25, T:0.11
Consensus pattern (17 bp):
AGAAAGAAGTCAAGATC
Found at i:12131137 original size:12 final size:12
Alignment explanation
Indices: 12131120--12131145 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12131110 AAGAGAAAAG
12131120 AAAAAAAAGAAA
1 AAAAAAAAGAAA
12131132 AAAAAAAAGAAA
1 AAAAAAAAGAAA
12131144 AA
1 AA
12131146 GATGAGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:12132924 original size:24 final size:24
Alignment explanation
Indices: 12132897--12132953 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
12132887 GAGATGAAAG
*
12132897 AAAGTTTAAAG-ATGCAAGAAGCAA
1 AAAGTCTAAAGCAT-CAAGAAGCAA
* *
12132921 AAAGTCTAAAGCCTCAGGAAGCAA
1 AAAGTCTAAAGCATCAAGAAGCAA
*
12132945 AAAGACTAA
1 AAAGTCTAA
12132954 TGGAAAGCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.53, C:0.14, G:0.19, T:0.14
Consensus pattern (24 bp):
AAAGTCTAAAGCATCAAGAAGCAA
Found at i:12136371 original size:119 final size:119
Alignment explanation
Indices: 12136152--12136373 Score: 309
Period size: 119 Copynumber: 1.9 Consensus size: 119
12136142 GCATTGAATG
* * * *
12136152 ATCATTTGTTGGGCTAAAATATGCTTGTGATGGAATAATGGAATCACGCTATGTTATTTTAGAGA
1 ATCATATGTTGGGCTAAAACATGCTTATGATGGAATAATGAAATCACGCTATGTTATTTTAGAGA
* * *
12136217 TAAATGTATAGGAGATATTAATAATAGATGAAAAAAATTTTAAAAAAATGAAAA
66 TAAATATATAAGAGATATCAATAATAGATGAAAAAAATTTTAAAAAAATGAAAA
** * * *
12136271 ATCATATGTTGGGCTAAGGCATGCTTATGATGGAATAATGAAATCATGCTATATTTGTTTTAGAG
1 ATCATATGTTGGGCTAAAACATGCTTATGATGGAATAATGAAATCACGCTAT-GTTATTTTAGAG
* *
12136336 ATAAATATGTAAGAGATATCAATATTAGATGAAAAAAA
65 ATAAATATATAAGAGATATCAATAATAGATGAAAAAAA
12136374 AGAGGAAAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
119 45 0.51
120 43 0.49
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (119 bp):
ATCATATGTTGGGCTAAAACATGCTTATGATGGAATAATGAAATCACGCTATGTTATTTTAGAGA
TAAATATATAAGAGATATCAATAATAGATGAAAAAAATTTTAAAAAAATGAAAA
Found at i:12136407 original size:26 final size:27
Alignment explanation
Indices: 12136364--12136433 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 27
12136354 TCAATATTAG
* *
12136364 ATGAAAAAAAAGAGGAAAAAAT-AAAAA
1 ATGAAGAAAAA-ATGAAAAAATGAAAAA
12136391 ATGAAGAAAAAATG-AAAAATGAAAAA
1 ATGAAGAAAAAATGAAAAAATGAAAAA
*
12136417 A-AAGAGAAAAAATGAAA
1 ATGA-AGAAAAAATGAAA
12136434 TATGAGAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 7 0.19
26 18 0.49
27 12 0.32
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.09
Consensus pattern (27 bp):
ATGAAGAAAAAATGAAAAAATGAAAAA
Found at i:12136410 original size:18 final size:18
Alignment explanation
Indices: 12136368--12136432 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
12136358 TATTAGATGA
* *
12136368 AAAAAAAGAGGAAAAAAT
1 AAAAAATGAAGAAAAAAT
12136386 AAAAAATGAAGAAAAAAT
1 AAAAAATGAAGAAAAAAT
* * *
12136404 GAAAAATGAAAAAAAAGAG
1 AAAAAATGAAGAAAAA-AT
12136423 AAAAAATGAA
1 AAAAAATGAA
12136433 ATATGAGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
18 30 0.75
19 10 0.25
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (18 bp):
AAAAAATGAAGAAAAAAT
Found at i:12136419 original size:19 final size:19
Alignment explanation
Indices: 12136379--12136433 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
12136369 AAAAAAGAGG
* *
12136379 AAAAAATAAAAAATG-AAG
1 AAAAAATGAAAAATGAAAA
12136397 AAAAAATGAAAAATGAAAA
1 AAAAAATGAAAAATGAAAA
*
12136416 AAAAGA-GAAAAAATGAAA
1 AAAAAATG-AAAAATGAAA
12136434 TATGAGAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (19 bp):
AAAAAATGAAAAATGAAAA
Found at i:12136438 original size:26 final size:27
Alignment explanation
Indices: 12136386--12136438 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
12136376 AGGAAAAAAT
*
12136386 AAAAAATGAAGAAAAAATGAAAAATGA
1 AAAAAAAGAAGAAAAAATGAAAAATGA
*
12136413 AAAAAAAG-AGAAAAAATGAAATATGA
1 AAAAAAAGAAGAAAAAATGAAAAATGA
12136439 GAGAAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (27 bp):
AAAAAAAGAAGAAAAAATGAAAAATGA
Found at i:12137862 original size:43 final size:44
Alignment explanation
Indices: 12137773--12137926 Score: 186
Period size: 43 Copynumber: 3.5 Consensus size: 44
12137763 GATTGTCGAA
* * * * *
12137773 GAGCTTTATTTCTTTTTCTAAAGTTGTTGAACCTCTACTTAGAG
1 GAGCCTTATTTATTTTTCAAAAGTTGTTGAGCCTCTGCTTAGAG
* * * *
12137817 GAGCCTTATTTATTTTTC-AAAGTCGTTGAGCCCCCGCTTATAG
1 GAGCCTTATTTATTTTTCAAAAGTTGTTGAGCCTCTGCTTAGAG
* * *
12137860 GAGCTTTATTTA-TTTTCAAAAGTTATTGAGCCTCTGTTTAGAG
1 GAGCCTTATTTATTTTTCAAAAGTTGTTGAGCCTCTGCTTAGAG
12137903 GAGCCTTATTTATTTTTCAAAAGT
1 GAGCCTTATTTATTTTTCAAAAGT
12137927 CATTTTTTTT
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 5 0.05
43 60 0.65
44 27 0.29
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (44 bp):
GAGCCTTATTTATTTTTCAAAAGTTGTTGAGCCTCTGCTTAGAG
Found at i:12137940 original size:16 final size:18
Alignment explanation
Indices: 12137910--12137942 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
12137900 GAGGAGCCTT
12137910 ATTTATTTTTCAAAAGTC
1 ATTTATTTTTCAAAAGTC
12137928 ATTT-TTTTT-AAAAGT
1 ATTTATTTTTCAAAAGT
12137943 TGTTTAGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (18 bp):
ATTTATTTTTCAAAAGTC
Found at i:12137941 original size:60 final size:61
Alignment explanation
Indices: 12137867--12137983 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 61
12137857 TAGGAGCTTT
** *
12137867 ATTTATTTTCAAAAGTTATTGAGCCTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAAGTC
1 ATTTATTTTCAAAAGTTATTGAGCCTCTACTTAGAGGAGCCTTATTTACTTTTCAAAAGTC
* * * *
12137928 ATTT-TTTTTAAAAGTTGTTTAGCCTCTACTTAGAGGAGCTTTATTTACTTTTCAAA
1 ATTTATTTTCAAAAGTTATTGAGCCTCTACTTAGAGGAGCCTTATTTACTTTTCAAA
12137984 GTTATTGAGC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 45 0.92
61 4 0.08
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (61 bp):
ATTTATTTTCAAAAGTTATTGAGCCTCTACTTAGAGGAGCCTTATTTACTTTTCAAAAGTC
Found at i:12137986 original size:43 final size:43
Alignment explanation
Indices: 12137963--12138044 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
12137953 CTACTTAGAG
12137963 GAGCTTTATTTACTTTTCAAAGTTATTGAGCCTCTTATTAAAA
1 GAGCTTTATTTACTTTTCAAAGTTATTGAGCCTCTTATTAAAA
* *
12138006 GAGCTTTATTTACTTTTCAAAAGTCATAGAGCCT-TTATT
1 GAGCTTTATTTACTTTTC-AAAGTTATTGAGCCTCTTATT
12138045 TATAGGAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 23 0.64
44 13 0.36
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (43 bp):
GAGCTTTATTTACTTTTCAAAGTTATTGAGCCTCTTATTAAAA
Found at i:12156165 original size:98 final size:97
Alignment explanation
Indices: 12155925--12156234 Score: 234
Period size: 98 Copynumber: 3.1 Consensus size: 97
12155915 ATTTCAAGAA
* * * * ** * *
12155925 AAGATTAAATTTTTAAAGTTGTTA-AGCCTCTACTTAGA-GAAACTTTTTTAGGATGAAATTTTT
1 AAGATGAAAATTTTAAAGTTG-TAGAACCTCTACTTAGATG-AGCTTTTCCAAGA-GAAAATTTT
* ** * *
12155988 AAAATCATTGAGCCTCTACTTAGAATAACTTTTTC
63 AAAGTTGTTGAGCCTCTACTTAGAAGAACTTTTCC
* ** **
12156023 AAGATGAAATTTTTAAAGTTGTTTAGTCTCTACTTAGATGAGCTTTTCCAAG-GAAAGATTTTTA
1 AAGATGAAAATTTTAAAGTTGTAGAACCTCTACTTAGATGAGCTTTTCCAAGAGAAA-A-TTTTA
*
12156087 AAGTTGTTGAGCCTCTACTTA-AAGGAGCTTTTCC
64 AAGTTGTTGAGCCTCTACTTAGAA-GAACTTTTCC
* * *
12156121 AAGATGAAAATTTTAAAGTTGTAGAACCTCTTCTTGGAAT-AGCTTTTTCAAGATGAAAATTTTA
1 AAGATGAAAATTTTAAAGTTGTAGAACCTCTACTTAG-ATGAGCTTTTCCAAGA-GAAAATTTTA
* * ** * *
12156185 AAGTTGTTTAACCTCTACCCAGAGGAACCTTTTTC
64 AAGTTGTTGAGCCTCTACTTAGAAGAA-CTTTTCC
*
12156220 AAGATAAAAGATTTT
1 AAGATGAAA-ATTTT
12156235 TTTTAAGTGG
Statistics
Matches: 171, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
96 4 0.02
97 3 0.02
98 136 0.80
99 19 0.11
100 9 0.05
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (97 bp):
AAGATGAAAATTTTAAAGTTGTAGAACCTCTACTTAGATGAGCTTTTCCAAGAGAAAATTTTAAA
GTTGTTGAGCCTCTACTTAGAAGAACTTTTCC
Found at i:12156187 original size:49 final size:49
Alignment explanation
Indices: 12155925--12156202 Score: 244
Period size: 49 Copynumber: 5.7 Consensus size: 49
12155915 ATTTCAAGAA
* * * **
12155925 AAGATTAAATTTTTAAAGTTGTT-AAGCCTCTACTTAGAGA-AACTTTTTT
1 AAGATGAAAATTTTAAAGTTGTTGAA-CCTCTACTTAGA-ATAGCTTTTCC
* * * ** * * *
12155974 AGGATGAAATTTTTAAAATCATTGAGCCTCTACTTAGAATAACTTTTTC
1 AAGATGAAAATTTTAAAGTTGTTGAACCTCTACTTAGAATAGCTTTTCC
* * **
12156023 AAGATGAAATTTTTAAAGTTGTTTAGTCTCTACTTAG-ATGAGCTTTTCC
1 AAGATGAAAATTTTAAAGTTGTTGAACCTCTACTTAGAAT-AGCTTTTCC
* *
12156072 AAG--GAAAGATTTTTAAAGTTGTTGAGCCTCTACTTA-AAGGAGCTTTTCC
1 AAGATGAAA-A-TTTTAAAGTTGTTGAACCTCTACTTAGAA-TAGCTTTTCC
* * * *
12156121 AAGATGAAAATTTTAAAGTTGTAGAACCTCTTCTTGGAATAGCTTTTTC
1 AAGATGAAAATTTTAAAGTTGTTGAACCTCTACTTAGAATAGCTTTTCC
*
12156170 AAGATGAAAATTTTAAAGTTGTTTAACCTCTAC
1 AAGATGAAAATTTTAAAGTTGTTGAACCTCTAC
12156203 CCAGAGGAAC
Statistics
Matches: 191, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
47 4 0.02
48 3 0.02
49 176 0.92
50 4 0.02
51 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (49 bp):
AAGATGAAAATTTTAAAGTTGTTGAACCTCTACTTAGAATAGCTTTTCC
Found at i:12156201 original size:147 final size:147
Alignment explanation
Indices: 12155933--12156202 Score: 369
Period size: 147 Copynumber: 1.8 Consensus size: 147
12155923 AAAAGATTAA
* ** * * *
12155933 ATTTTTAAAGTTGTTAAGCCTCTACTTAGAGAAACTTTTTTAGGATGAAATTTTTAAAATCATTG
1 ATTTTTAAAGTTGTTAAGCCTCTACTTAAAGAAACTTTTCCAAGATGAAAATTTTAAAATCATAG
* * **
12155998 AGCCTCTACTTAGAATAACTTTTTCAAGATGAAATTTTTAAAGTTGTTTAGTCTCTACTTAGATG
66 AACCTCTACTTAGAATAACTTTTTCAAGATGAAAATTTTAAAGTTGTTTAACCTCTACTTAGATG
12156063 AGCTTTTCCAAGGAAAG
131 AGCTTTTCCAAGGAAAG
* * * * **
12156080 ATTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTAG
1 ATTTTTAAAGTTGTTAAGCCTCTACTTAAAGAAACTTTTCCAAGATGAAAATTTTAAAATCATAG
* * *
12156145 AACCTCTTCTTGGAATAGCTTTTTCAAGATGAAAATTTTAAAGTTGTTTAACCTCTAC
66 AACCTCTACTTAGAATAACTTTTTCAAGATGAAAATTTTAAAGTTGTTTAACCTCTAC
12156203 CCAGAGGAAC
Statistics
Matches: 104, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
147 104 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (147 bp):
ATTTTTAAAGTTGTTAAGCCTCTACTTAAAGAAACTTTTCCAAGATGAAAATTTTAAAATCATAG
AACCTCTACTTAGAATAACTTTTTCAAGATGAAAATTTTAAAGTTGTTTAACCTCTACTTAGATG
AGCTTTTCCAAGGAAAG
Found at i:12156492 original size:49 final size:49
Alignment explanation
Indices: 12156361--12156493 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 49
12156351 TGAGCCTTTG
* * * *
12156361 CTTAGAGAAGCCATTTTCAAGATTAGATTTTTAAAGTCATTAAGCATTTT
1 CTTAGAGAAG-CATTTTCAAGATGAAATTTTTAAAGTCACTAAGCATTTA
* * * ** *
12156411 CTTAGAGAAGCTTTTTC-TGA-GAAATTTTTAAAGTCGCTGGGCCTTTA
1 CTTAGAGAAGCATTTTCAAGATGAAATTTTTAAAGTCACTAAGCATTTA
12156458 CTTCA-AGAAGCATTTTCAAGATGAAATTTTTAAAGT
1 CTT-AGAGAAGCATTTTCAAGATGAAATTTTTAAAGT
12156494 TAAAGTCATT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
47 33 0.49
48 5 0.07
49 20 0.29
50 10 0.15
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (49 bp):
CTTAGAGAAGCATTTTCAAGATGAAATTTTTAAAGTCACTAAGCATTTA
Found at i:12157933 original size:19 final size:18
Alignment explanation
Indices: 12157905--12157940 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
12157895 GTATTTGAGT
*
12157905 ATTTATAAAAAGTTTTCA
1 ATTTATAAAAAATTTTCA
12157923 ATTTAATAAAAAATTTTC
1 ATTT-ATAAAAAATTTTC
12157941 TTTTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (18 bp):
ATTTATAAAAAATTTTCA
Found at i:12161283 original size:27 final size:27
Alignment explanation
Indices: 12161253--12161314 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
12161243 GGTTGGGTAG
12161253 GTTGAGAATCTGATTTT-AAATGGGCTA
1 GTTGAGAATCTGATTTTGAAA-GGGCTA
* * * * *
12161280 GTTGGGAATTTGGTTTTGAAAGGGTTG
1 GTTGAGAATCTGATTTTGAAAGGGCTA
12161307 GTTGAGAA
1 GTTGAGAA
12161315 ATTGACAAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.26, C:0.03, G:0.34, T:0.37
Consensus pattern (27 bp):
GTTGAGAATCTGATTTTGAAAGGGCTA
Found at i:12167015 original size:201 final size:201
Alignment explanation
Indices: 12166657--12167061 Score: 711
Period size: 201 Copynumber: 2.0 Consensus size: 201
12166647 TTTACTTCTT
*
12166657 ATTAAGACTAGCTTATTAATGTCTTCTATAATGGATTGAATTAATTTTAGATTGACTATAGAGAT
1 ATTAAGACTAGCTTATTAATGTCTTCTATAATGGATTGAATTAACTTTAGATTGACTATAGAGAT
12166722 AATAGGTACTTAGCCTAGATTTTTTAATAATCCTTTTGGGAATGATATCTTAACTTAGTTCGCTA
66 AATAGGTACTTAGCCTAGATTTTTTAATAATCCTTTTGGGAATGATATCTTAACTTAGTTCGCTA
* *
12166787 TTATTACTTAAACAATTTGTGTGCTTGCCTAGTTGGTAGAAACGATTAAAAGTCATAATGAAATA
131 TTATTACTTAAACAATCTGTATGCTTGCCTAGTTGGTAGAAACGATTAAAAGTCATAATGAAATA
12166852 AAGTTC
196 AAGTTC
* * *
12166858 ATTAAGACTAGCTTATTAATGTCTTCTCTAATGGATTGAATTAACTTTAGATTGACTGTGGAGAT
1 ATTAAGACTAGCTTATTAATGTCTTCTATAATGGATTGAATTAACTTTAGATTGACTATAGAGAT
* *
12166923 AATAGGTACTTAGCCTAGATTTTTTAATAATCCTTTTGGGAATGATATCTTAACTTAGTTTGTTA
66 AATAGGTACTTAGCCTAGATTTTTTAATAATCCTTTTGGGAATGATATCTTAACTTAGTTCGCTA
* * *
12166988 TTATTACTTAAACGATCTGTATGCTTGCCTAGTTGGTAGAAATGATTAAAAGTCATAATGAAATC
131 TTATTACTTAAACAATCTGTATGCTTGCCTAGTTGGTAGAAACGATTAAAAGTCATAATGAAATA
12167053 AAGTTC
196 AAGTTC
12167059 ATT
1 ATT
12167062 TCTCTTCAAG
Statistics
Matches: 193, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
201 193 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (201 bp):
ATTAAGACTAGCTTATTAATGTCTTCTATAATGGATTGAATTAACTTTAGATTGACTATAGAGAT
AATAGGTACTTAGCCTAGATTTTTTAATAATCCTTTTGGGAATGATATCTTAACTTAGTTCGCTA
TTATTACTTAAACAATCTGTATGCTTGCCTAGTTGGTAGAAACGATTAAAAGTCATAATGAAATA
AAGTTC
Found at i:12169077 original size:21 final size:21
Alignment explanation
Indices: 12169036--12169077 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
12169026 AGAGACTAAT
* *
12169036 TAAAACAATAAGTAATGATTG
1 TAAAACAAGAAATAATGATTG
12169057 TAAAACAAGAAATCAAT-ATTG
1 TAAAACAAGAAAT-AATGATTG
12169078 GCAAATTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (21 bp):
TAAAACAAGAAATAATGATTG
Found at i:12170757 original size:21 final size:21
Alignment explanation
Indices: 12170721--12170766 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
12170711 CAAAAGGTTG
*
12170721 TTGATTTTGATTTAATTTTAGTT
1 TTGATTTT-ATTTAATCTT-GTT
12170744 TTGATTTT-TTTAATCTTGTT
1 TTGATTTTATTTAATCTTGTT
12170764 TTG
1 TTG
12170767 GTCAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 8 0.36
23 8 0.36
ACGTcount: A:0.17, C:0.02, G:0.13, T:0.67
Consensus pattern (21 bp):
TTGATTTTATTTAATCTTGTT
Found at i:12171877 original size:17 final size:17
Alignment explanation
Indices: 12171855--12171892 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12171845 TTGCATGATT
*
12171855 ATTAATATACTTGTATG
1 ATTAATATACTTGCATG
*
12171872 ATTAATATATTTGCATG
1 ATTAATATACTTGCATG
12171889 ATTA
1 ATTA
12171893 TTTTTGCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (17 bp):
ATTAATATACTTGCATG
Found at i:12171900 original size:14 final size:14
Alignment explanation
Indices: 12171881--12171910 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12171871 GATTAATATA
12171881 TTTGCATGATTATT
1 TTTGCATGATTATT
12171895 TTTGCATGATTATT
1 TTTGCATGATTATT
12171909 TT
1 TT
12171911 ATTTGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (14 bp):
TTTGCATGATTATT
Found at i:12171914 original size:31 final size:31
Alignment explanation
Indices: 12171869--12172039 Score: 90
Period size: 31 Copynumber: 5.5 Consensus size: 31
12171859 ATATACTTGT
* *
12171869 ATGATTAATATATTTGCATGATTATTTTTGC
1 ATGATTATTTTATTTGCATGATTATTTTTGC
*
12171900 ATGATTATTTTATTTG--TGTTTGATTTTTTGC
1 ATGATTATTTTATTTGCATGATT-A-TTTTTGC
*
12171931 ATGA-TATTTATATTATTACATGA-TATATTTTGC
1 ATGATTATTT-TA-T-TTGCATGATTAT-TTTTGC
* * *
12171964 ATGATT-TATTACATT-CATGTTTGATTTTTGC
1 ATGATTATTTTA-TTTGCATGATT-ATTTTTGC
* * *
12171995 AAGA-TA-ATTA-TTGCATGATATATTTTTAC
1 ATGATTATTTTATTTGCATGAT-TATTTTTGC
*
12172024 ATGATTGATTATATTT
1 ATGATT-ATTTTATTT
12172040 TGTTTGATTT
Statistics
Matches: 107, Mismatches: 15, Indels: 34
0.69 0.10 0.22
Matches are distributed among these distances:
28 2 0.02
29 19 0.18
30 17 0.16
31 40 0.37
32 8 0.07
33 17 0.16
34 2 0.02
35 2 0.02
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (31 bp):
ATGATTATTTTATTTGCATGATTATTTTTGC
Found at i:12171965 original size:64 final size:61
Alignment explanation
Indices: 12171885--12172059 Score: 180
Period size: 59 Copynumber: 2.8 Consensus size: 61
12171875 AATATATTTG
*
12171885 CATGAT-TATTTTTGCATGATTATTTTATTTGTGTTTGATTTTTTGCATGATATTTATATTATTA
1 CATGATATATTTTTGCATGATTATTATATTT-TGTTTGATTTTTTGCATGATA--TA-ATTATTA
* * * *
12171949 CATGATATA-TTTTGCATGATTTATTACATTCATGTTTGA-TTTTTGCA--AGATAATTATTG
1 CATGATATATTTTTGCATGA-TTATTATATT-TTGTTTGATTTTTTGCATGATATAATTATTA
* **
12172008 CATGATATATTTTTACATGATTGATTATATTTTGTTTGATTTTAGGCATGAT
1 CATGATATATTTTTGCATGATT-ATTATATTTTGTTTGATTTTTTGCATGAT
12172060 TTATTGCATG
Statistics
Matches: 92, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
59 24 0.26
60 24 0.26
62 3 0.03
64 24 0.26
65 17 0.18
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (61 bp):
CATGATATATTTTTGCATGATTATTATATTTTGTTTGATTTTTTGCATGATATAATTATTA
Found at i:12171968 original size:14 final size:15
Alignment explanation
Indices: 12171939--12172028 Score: 62
Period size: 14 Copynumber: 6.1 Consensus size: 15
12171929 GCATGATATT
*
12171939 TATATTATTACATGA
1 TATATTATTGCATGA
12171954 TATATT-TTGCATGA
1 TATATTATTGCATGA
*
12171968 TTTATTACATT-CATG-
1 TATATT--ATTGCATGA
* * *
12171983 TTTGATTTTTGCAAGA
1 TAT-ATTATTGCATGA
12171999 TA-ATTATTGCATGA
1 TATATTATTGCATGA
* *
12172013 TATATTTTTACATGA
1 TATATTATTGCATGA
12172028 T
1 T
12172029 TGATTATATT
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
14 26 0.44
15 23 0.39
16 8 0.14
17 2 0.03
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (15 bp):
TATATTATTGCATGA
Found at i:12190251 original size:11 final size:12
Alignment explanation
Indices: 12190228--12190260 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
12190218 CTAATTTGTT
*
12190228 AAAATAAATTGA
1 AAAATAAAATGA
12190240 AAAA-AAAATGA
1 AAAATAAAATGA
12190251 AAAATAAAAT
1 AAAATAAAAT
12190261 TTTATCCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (12 bp):
AAAATAAAATGA
Found at i:12193535 original size:27 final size:27
Alignment explanation
Indices: 12193505--12193566 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
12193495 GGTTGGGTAG
12193505 GTTGAGAATCTGATTTT-AAATGGGCTA
1 GTTGAGAATCTGATTTTGAAA-GGGCTA
* * * * *
12193532 GTTGGGAATTTGGTTTTGAAAGGGTTG
1 GTTGAGAATCTGATTTTGAAAGGGCTA
12193559 GTTGAGAA
1 GTTGAGAA
12193567 ATTGACAAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.26, C:0.03, G:0.34, T:0.37
Consensus pattern (27 bp):
GTTGAGAATCTGATTTTGAAAGGGCTA
Found at i:12201279 original size:21 final size:21
Alignment explanation
Indices: 12201238--12201279 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
12201228 AAAGACTAAT
* *
12201238 TAAAACAATAAGTAATGATTG
1 TAAAACAAGAAATAATGATTG
12201259 TAAAACAAGAAATCAAT-ATTG
1 TAAAACAAGAAAT-AATGATTG
12201280 GCAAATTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (21 bp):
TAAAACAAGAAATAATGATTG
Found at i:12202978 original size:21 final size:21
Alignment explanation
Indices: 12202942--12202987 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
12202932 CAAAAGGTTG
*
12202942 TTGATTTTGATTTAATTTTAGTT
1 TTGATTTT-ATTTAATCTT-GTT
12202965 TTGATTTT-TTTAATCTTGTT
1 TTGATTTTATTTAATCTTGTT
12202985 TTG
1 TTG
12202988 GTCAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 8 0.36
23 8 0.36
ACGTcount: A:0.17, C:0.02, G:0.13, T:0.67
Consensus pattern (21 bp):
TTGATTTTATTTAATCTTGTT
Found at i:12204111 original size:17 final size:17
Alignment explanation
Indices: 12204089--12204126 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12204079 TTGTATGATT
*
12204089 ATTAATATACTTGTATG
1 ATTAATATACTTGCATG
*
12204106 ATTAATATATTTGCATG
1 ATTAATATACTTGCATG
12204123 ATTA
1 ATTA
12204127 TTTTTGCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (17 bp):
ATTAATATACTTGCATG
Found at i:12204161 original size:31 final size:31
Alignment explanation
Indices: 12204126--12204300 Score: 117
Period size: 31 Copynumber: 5.6 Consensus size: 31
12204116 TTGCATGATT
**
12204126 ATTTTTGCATGATTTATTTTATTTGTGTTTG
1 ATTTTTGCATGATTTATTTTATTCATGTTTG
* *
12204157 ATTTTTGCATGATATTTATATTATTACATGATAT-
1 ATTTTTGCATG--ATTTATTTTATT-CATG-TTTG
**
12204191 ATTTTTGCATGATTTATTACATTCATGTTTG
1 ATTTTTGCATGATTTATTTTATTCATGTTTG
* * *
12204222 ATTTTTGCAAGA--TA-ATTATTGCATGATAT-
1 ATTTTTGCATGATTTATTTTATT-CATG-TTTG
* * * **
12204251 ATTTTTACATGATTGATTATATTTTTGTTTG
1 ATTTTTGCATGATTTATTTTATTCATGTTTG
*
12204282 ATTTTAGGCATGATTTATT
1 ATTTT-TGCATGATTTATT
12204301 GCATGATGAC
Statistics
Matches: 108, Mismatches: 24, Indels: 23
0.70 0.15 0.15
Matches are distributed among these distances:
28 3 0.03
29 16 0.15
30 6 0.06
31 34 0.31
32 23 0.21
33 11 0.10
34 13 0.12
35 2 0.02
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (31 bp):
ATTTTTGCATGATTTATTTTATTCATGTTTG
Found at i:12204249 original size:60 final size:60
Alignment explanation
Indices: 12204116--12204307 Score: 210
Period size: 60 Copynumber: 3.1 Consensus size: 60
12204106 ATTAATATAT
* * *
12204116 TTGCATGAT-TATTTTTGCATGATTTATTTTATTTGTGTTTGATTTTTGCATGATATTTATATTA
1 TTGCATGATATATTTTTGCATGATTTATTATATTTATGTTTGATTTTTGCA--AGA--TA-ATTA
* * *
12204180 TTACATGATATATTTTTGCATGATTTATTACATTCATGTTTGATTTTTGCAAGATAATTA
1 TTGCATGATATATTTTTGCATGATTTATTATATTTATGTTTGATTTTTGCAAGATAATTA
* * * * *
12204240 TTGCATGATATATTTTTACATGATTGATTATATTTTTGTTTGATTTTAGGCATGAT--TTA
1 TTGCATGATATATTTTTGCATGATTTATTATATTTATGTTTGATTTT-TGCAAGATAATTA
12204299 TTGCATGAT
1 TTGCATGAT
12204308 GACTTTTTAT
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
59 12 0.11
60 45 0.40
61 8 0.07
63 2 0.02
64 8 0.07
65 37 0.33
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (60 bp):
TTGCATGATATATTTTTGCATGATTTATTATATTTATGTTTGATTTTTGCAAGATAATTA
Found at i:12215415 original size:26 final size:27
Alignment explanation
Indices: 12215368--12215424 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
12215358 ATATTTTGAA
* * *
12215368 AAAAAAATTAGTCTTGAACAAAATTTT
1 AAAAAAATTAGACTCGAACAAAATATT
* *
12215395 AAAAAAA-TAGACTCGAGCAAAGTATT
1 AAAAAAATTAGACTCGAACAAAATATT
12215421 AAAA
1 AAAA
12215425 TTTCGTTACA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.25
Consensus pattern (27 bp):
AAAAAAATTAGACTCGAACAAAATATT
Found at i:12219495 original size:3 final size:3
Alignment explanation
Indices: 12219487--12219518 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12219477 CACACAAAAC
12219487 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
12219519 GGTCACGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:12222526 original size:26 final size:29
Alignment explanation
Indices: 12222479--12222540 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 29
12222469 TGTTTAAATA
12222479 TATTATAAATTATTAATTTTTAAATAAT-TT
1 TATT-TAAATTATTAA-TTTTAAATAATATT
12222509 TATTTAAA-TATTAA-TTTAAATAATATT
1 TATTTAAATTATTAATTTTAAATAATATT
12222536 T-TTTA
1 TATTTA
12222541 TTTAAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 14 0.45
27 3 0.10
28 6 0.19
29 4 0.13
30 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TATTTAAATTATTAATTTTAAATAATATT
Found at i:12225291 original size:17 final size:18
Alignment explanation
Indices: 12225257--12225292 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12225247 TTTATTTTAT
12225257 AATTAAAAAAGAATAAAA
1 AATTAAAAAAGAATAAAA
12225275 AATTAAAAAGAGAA-AAAA
1 AATTAAAAA-AGAATAAAA
12225293 GGGGAGAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (18 bp):
AATTAAAAAAGAATAAAA
Found at i:12225557 original size:22 final size:21
Alignment explanation
Indices: 12225532--12225584 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
12225522 TTCTTTCTTT
*
12225532 ATTTTTTATTTTTTTAATTTTA
1 ATTTTTTAATTTTTT-ATTTTA
*
12225554 ATTTTTAAAATTTTTTATTTTA
1 ATTTTT-TAATTTTTTATTTTA
12225576 ATTTTTTAA
1 ATTTTTTAA
12225585 AATTAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 18 0.67
23 7 0.26
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTTTTAATTTTTTATTTTA
Done.