Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 117 of 127
Found at i:22256089 original size:13 final size:14
Alignment explanation
Indices: 22256063--22256091 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22256053 CACACTTATA
22256063 TAATTATAATATTT
1 TAATTATAATATTT
22256077 TAATTAT-ATATTT
1 TAATTATAATATTT
22256090 TA
1 TA
22256092 TTTTAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:22256118 original size:26 final size:26
Alignment explanation
Indices: 22256089--22256140 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
22256079 ATTATATATT
* *
22256089 TTATTTTAATT-ATGCTCAAATTTTAA
1 TTATTTT-ATTCAAGCTCAAAATTTAA
22256115 TTATTTTATTCAAGCTCAAAATTTAA
1 TTATTTTATTCAAGCTCAAAATTTAA
22256141 ATGAATCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.50
Consensus pattern (26 bp):
TTATTTTATTCAAGCTCAAAATTTAA
Found at i:22263249 original size:33 final size:33
Alignment explanation
Indices: 22263190--22263252 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
22263180 ATGATCATAC
* *
22263190 AACCCTGGCTAACGGGTAATAGTAGTTAGCGTA
1 AACCCTGGCTAACAGGTAATAATAGTTAGCGTA
* *
22263223 AACCTTGGCTAACAGGTTATAATAGTTAGC
1 AACCCTGGCTAACAGGTAATAATAGTTAGC
22263253 AATGATCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (33 bp):
AACCCTGGCTAACAGGTAATAATAGTTAGCGTA
Found at i:22269916 original size:33 final size:33
Alignment explanation
Indices: 22269869--22269931 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
22269859 ATGATCATAC
*
22269869 AACCCTGGCTAACGGGTAATAGTAGTTAGCGTA
1 AACCCTGGCTAACGGGTAATAATAGTTAGCGTA
* *
22269902 AACCTTGGCTAACGGGTTATAATAGTTAGC
1 AACCCTGGCTAACGGGTAATAATAGTTAGC
22269932 AATGATCATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (33 bp):
AACCCTGGCTAACGGGTAATAATAGTTAGCGTA
Found at i:22278013 original size:2 final size:2
Alignment explanation
Indices: 22278006--22278067 Score: 79
Period size: 2 Copynumber: 31.0 Consensus size: 2
22277996 GTGTTTTATC
* * * * *
22278006 AT AT AT AT AT AT GT AT AT AT GT AT AC AT AT AT AC AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22278048 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
22278068 GTGTGTGTGT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:22278194 original size:2 final size:2
Alignment explanation
Indices: 22278187--22278260 Score: 103
Period size: 2 Copynumber: 37.0 Consensus size: 2
22278177 GTGTTTTATC
* * *
22278187 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT GT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
22278229 AC AT AT AT AC 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
22278261 GTGTGTGTGT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:22278206 original size:181 final size:182
Alignment explanation
Indices: 22277903--22278250 Score: 635
Period size: 181 Copynumber: 1.9 Consensus size: 182
22277893 ATATTAGGTA
*
22277903 ATTTACAACAATCCTTCAATCATGGTTCATTGAAGTTTACTTGTTTTTGCTTGTTTTGGATCTTC
1 ATTTACAACAATCCTTCAATCATAGTTCATTGAAGTTTACTTGTTTTTGCTTGTTTTGGATCTTC
*
22277968 CCCTGTTTACATGCTTGCAAATTGCAATGTGTTTTATC-ATATATATATATGTATATATGTATAC
66 CCCTGTTTACATGCTTGCAAATTGCAATGTGTTTTATCAATATATATATATATATATATGTATAC
*
22278032 ATATATACATATATACATATATATATATATATATATGTGTGTGTGTGTGTGT
131 ATATATACATATATACATATATACATATATATATATGTGTGTGTGTGTGTGT
22278084 ATTTACAACAATCCTTCAATCATAGTTCATTGAAGTTTACTTGTTTTTGCTTGTTTTGGATCTTC
1 ATTTACAACAATCCTTCAATCATAGTTCATTGAAGTTTACTTGTTTTTGCTTGTTTTGGATCTTC
22278149 CCCTGTTTACATGCTTGCAAATTGCAATGTGTTTTATCATATATATATATATATATATATGTATA
66 CCCTGTTTACATGCTTGCAAATTGCAATGTGTTTTATCA-ATATATATATATATATATATGTATA
* *
22278214 TATGTATACATATATACATATATACATATATATATAT
130 CATATATACATATATACATATATACATATATATATAT
22278251 ATATATATAT
Statistics
Matches: 160, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
181 102 0.64
183 58 0.36
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.46
Consensus pattern (182 bp):
ATTTACAACAATCCTTCAATCATAGTTCATTGAAGTTTACTTGTTTTTGCTTGTTTTGGATCTTC
CCCTGTTTACATGCTTGCAAATTGCAATGTGTTTTATCAATATATATATATATATATATGTATAC
ATATATACATATATACATATATACATATATATATATGTGTGTGTGTGTGTGT
Found at i:22284458 original size:2 final size:2
Alignment explanation
Indices: 22284451--22284481 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22284441 TGGTGTCTTT
22284451 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22284482 TTAAAACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22285550 original size:3 final size:3
Alignment explanation
Indices: 22285544--22285568 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22285534 TCTGATATTG
22285544 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
22285569 CATAATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:22294801 original size:20 final size:21
Alignment explanation
Indices: 22294778--22294818 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22294768 CTATCTTTGA
22294778 TTTT-TTTTAGTT-GATTTATC
1 TTTTCTTTTA-TTGGATTTATC
22294798 TTTTCTTTTATTGGATTTATC
1 TTTTCTTTTATTGGATTTATC
22294819 ATTAGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.15, C:0.07, G:0.10, T:0.68
Consensus pattern (21 bp):
TTTTCTTTTATTGGATTTATC
Found at i:22295161 original size:12 final size:13
Alignment explanation
Indices: 22295140--22295172 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
22295130 AAAGAGAAGA
22295140 AAAATTTTTTT-G
1 AAAATTTTTTTGG
22295152 -AAATTTTTTTGG
1 AAAATTTTTTTGG
22295164 AAAATTTTT
1 AAAATTTTT
22295173 AAATTTCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.53
12 1 0.05
13 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (13 bp):
AAAATTTTTTTGG
Found at i:22295390 original size:16 final size:16
Alignment explanation
Indices: 22295369--22295405 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
22295359 AGAGAGAAGG
22295369 AGAGAAAAGAAGAGGA
1 AGAGAAAAGAAGAGGA
22295385 AGAG-AAAGAAGAGGA
1 AGAGAAAAGAAGAGGA
22295400 ATGAGA
1 A-GAGA
22295406 GATCTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (16 bp):
AGAGAAAAGAAGAGGA
Found at i:22295893 original size:56 final size:57
Alignment explanation
Indices: 22295760--22295983 Score: 244
Period size: 57 Copynumber: 3.9 Consensus size: 57
22295750 AAAAAAATAT
* * *
22295760 AAAATAAAATTTTTAAAAAGCAT-TTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTG-
1 AAAATAAAATTTCTAAAAA--ATATTTTAAGAAAAAGTTGAAAGTATCAATTTTT-TTGA
*
22295818 AAAATAAAATTT-TAAAAAAATATTTTAAGAAAAAGTTTAAAGTATCAATTTTTTTGA
1 AAAATAAAATTTCT-AAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTGA
*
22295875 AAAATAAAATTTCTAAAAAATATTTT-TGAAAAAAGTTGAAAGTATCAATTTTCTTT-A
1 AAAATAAAATTTCTAAAAAATATTTTAAG-AAAAAGTTGAAAGTATCAATTTT-TTTGA
*** * ** *
22295932 AAAATAAAAAACCT-CAAAATGCTTTAAGAAAAAGTTAAAAGTATCAATTTTT
1 AAAATAAAATTTCTAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTT
22295984 CTTATCTAAA
Statistics
Matches: 146, Mismatches: 13, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
55 1 0.01
56 36 0.25
57 88 0.60
58 21 0.14
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.36
Consensus pattern (57 bp):
AAAATAAAATTTCTAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTGA
Found at i:22299914 original size:18 final size:17
Alignment explanation
Indices: 22299892--22299931 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
22299882 AAAATGGATG
22299892 AAAAAAAA-AAGAGAAAA
1 AAAAAAAATAAG-GAAAA
22299909 ATAAAAAAATAAGGAAAA
1 A-AAAAAAATAAGGAAAA
22299927 AAAAA
1 AAAAA
22299932 CTTAAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.24
18 13 0.62
19 3 0.14
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAAAAATAAGGAAAA
Found at i:22299914 original size:19 final size:17
Alignment explanation
Indices: 22299892--22299931 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
22299882 AAAATGGATG
22299892 AAAAAAAAAAGAGAAAAA
1 AAAAAAAAAAG-GAAAAA
*
22299910 TAAAAAAATAAGGAAAAA
1 -AAAAAAAAAAGGAAAAA
22299928 AAAA
1 AAAA
22299932 CTTAAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 6 0.30
19 10 0.50
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAAAAAAAGGAAAAA
Found at i:22300989 original size:22 final size:23
Alignment explanation
Indices: 22300935--22300990 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
22300925 ATTACATGTA
22300935 AAATTTTGAATCTTTTGAAAAAG
1 AAATTTTGAATCTTTTGAAAAAG
* *
22300958 AAATTGTGAATCTTTTG-ATAAG
1 AAATTTTGAATCTTTTGAAAAAG
*
22300980 AATTTTTGAAT
1 AAATTTTGAAT
22300991 TCTCAAATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (23 bp):
AAATTTTGAATCTTTTGAAAAAG
Found at i:22301077 original size:25 final size:24
Alignment explanation
Indices: 22301044--22301266 Score: 143
Period size: 25 Copynumber: 9.6 Consensus size: 24
22301034 TTTGAGTCTT
22301044 AAATGAAAATCTTTAAGACATTTTC
1 AAATGAAAATCTTTAAGA-ATTTTC
* *
22301069 AAATGAAAATTTTTTAG--TTTT-
1 AAATGAAAATCTTTAAGAATTTTC
* *
22301090 GAATGAGAATCTTTAAG-ATGTTTCC
1 AAATGAAAATCTTTAAGAAT-TTT-C
* **
22301115 AAATGAGAATCTTTAAGACGTTTC
1 AAATGAAAATCTTTAAGAATTTTC
* *
22301139 TAAATGAAAATCTTT--GAGTCTT-
1 -AAATGAAAATCTTTAAGAATTTTC
*
22301161 AAAT-AAGAATCTTTAAGATATTTTT
1 AAATGAA-AATCTTTAAGA-ATTTTC
*
22301186 AAATGAAAATCTTT--G-AGTTTC
1 AAATGAAAATCTTTAAGAATTTTC
* *
22301207 AAATGAGAATCTTTAAG--TCTT-
1 AAATGAAAATCTTTAAGAATTTTC
*
22301228 AAAT-AAGAATCTTTAAGACATTTTT
1 AAATGAA-AATCTTTAAGA-ATTTTC
22301253 AAATGAAAATCTTT
1 AAATGAAAATCTTT
22301267 GAGATGTAAA
Statistics
Matches: 156, Mismatches: 22, Indels: 40
0.72 0.10 0.18
Matches are distributed among these distances:
20 3 0.02
21 55 0.35
22 7 0.04
23 11 0.07
24 7 0.04
25 69 0.44
26 4 0.03
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (24 bp):
AAATGAAAATCTTTAAGAATTTTC
Found at i:22301129 original size:71 final size:71
Alignment explanation
Indices: 22301044--22301266 Score: 267
Period size: 71 Copynumber: 3.2 Consensus size: 71
22301034 TTTGAGTCTT
* * * * * *
22301044 AAATGAAAATCTTTAAGACATTTTCAAATGAAAATTTTTTAGTTTTGAATGAGAATCTTTAAGAT
1 AAATGAAAATCTTTAAGACAGTTTCAAATGAAAATCTTTAAGTCTTAAATAAGAATCTTTAAGAT
*
22301109 GTTTCC
66 ATTTCC
* *
22301115 AAATGAGAATCTTTAAGAC-GTTTCTAAATGAAAATCTTTGAGTCTTAAATAAGAATCTTTAAGA
1 AAATGAAAATCTTTAAGACAGTTTC-AAATGAAAATCTTTAAGTCTTAAATAAGAATCTTTAAGA
**
22301179 TATTTTT
65 TATTTCC
* *
22301186 AAATGAAAATCTTT--G--AGTTTCAAATGAGAATCTTTAAGTCTTAAATAAGAATCTTTAAGAC
1 AAATGAAAATCTTTAAGACAGTTTCAAATGAAAATCTTTAAGTCTTAAATAAGAATCTTTAAGAT
**
22301247 ATTTTT
66 ATTTCC
22301253 AAATGAAAATCTTT
1 AAATGAAAATCTTT
22301267 GAGATGTAAA
Statistics
Matches: 136, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
67 57 0.42
68 5 0.04
69 1 0.01
70 4 0.03
71 69 0.51
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (71 bp):
AAATGAAAATCTTTAAGACAGTTTCAAATGAAAATCTTTAAGTCTTAAATAAGAATCTTTAAGAT
ATTTCC
Found at i:22301156 original size:117 final size:113
Alignment explanation
Indices: 22301034--22301269 Score: 330
Period size: 117 Copynumber: 2.1 Consensus size: 113
22301024 ATCTTTGAAT
* * **
22301034 TTTGAGTCTTAAATGAA-AATCTTTAAGACATTTTCAAATGAAAATTTTTTAGTTTTGAATGAGA
1 TTTGAGTCTTAAAT-AAGAATCTTTAAGACATTTTCAAATGAAAATCTTTGAGTTTCAAATGAGA
* * *
22301098 ATCTTTAAGATGTTTCCAAATGAGAATCTTTAAGACGTTTCTAAATGAAAATC
65 ATCTTTAAG-T-CTT--AAATAAGAATCTTTAAGACATTTCTAAATGAAAATC
* *
22301151 TTTGAGTCTTAAATAAGAATCTTTAAGATATTTTTAAATGAAAATCTTTGAGTTTCAAATGAGAA
1 TTTGAGTCTTAAATAAGAATCTTTAAGACATTTTCAAATGAAAATCTTTGAGTTTCAAATGAGAA
*
22301216 TCTTTAAGTCTTAAATAAGAATCTTTAAGACATTTTTAAATGAAAATC
66 TCTTTAAGTCTTAAATAAGAATCTTTAAGACATTTCTAAATGAAAATC
22301264 TTTGAG
1 TTTGAG
22301270 ATGTAAAACC
Statistics
Matches: 108, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
113 39 0.36
115 2 0.02
116 3 0.03
117 64 0.59
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (113 bp):
TTTGAGTCTTAAATAAGAATCTTTAAGACATTTTCAAATGAAAATCTTTGAGTTTCAAATGAGAA
TCTTTAAGTCTTAAATAAGAATCTTTAAGACATTTCTAAATGAAAATC
Found at i:22301242 original size:21 final size:21
Alignment explanation
Indices: 22301139--22301244 Score: 92
Period size: 21 Copynumber: 4.9 Consensus size: 21
22301129 AAGACGTTTC
*
22301139 TAAATGAA-AATCTTTGAGTCT
1 TAAAT-AAGAATCTTTAAGTCT
*
22301160 TAAATAAGAATCTTTAAGATATTTT
1 TAAATAAGAATCTTTAAG----TCT
*
22301185 TAAATGAA-AATCTTTGAGT-T
1 TAAAT-AAGAATCTTTAAGTCT
*
22301205 TCAAATGAGAATCTTTAAGTCT
1 T-AAATAAGAATCTTTAAGTCT
22301227 TAAATAAGAATCTTTAAG
1 TAAATAAGAATCTTTAAG
22301245 ACATTTTTAA
Statistics
Matches: 70, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
20 5 0.07
21 45 0.64
22 2 0.03
25 16 0.23
26 2 0.03
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.39
Consensus pattern (21 bp):
TAAATAAGAATCTTTAAGTCT
Found at i:22301257 original size:46 final size:45
Alignment explanation
Indices: 22301042--22301266 Score: 169
Period size: 46 Copynumber: 4.9 Consensus size: 45
22301032 ATTTTGAGTC
* * *
22301042 TTAAATGAAAATCTTTAAGACATTTTCAAATGAAAATTTTTTAGTT
1 TTAAATGAAAATCTTTAAGA-ATTTTCAAATGAGAATCTTTAAGTT
* *
22301088 TTGAATGAGAATCTTTAAG-ATGTTTCCAAATGAGAATCTTTAAGACGTT
1 TTAAATGAAAATCTTTAAGAAT-TTT-CAAATGAGAATCTTT-A-A-GTT
* * *
22301137 TCTAAATGAAAATCTTT--GAGTCTT-AAATAAGAATCTTTAAGATATTT
1 T-TAAATGAAAATCTTTAAGAATTTTCAAATGAGAATCTTTAAG----TT
* *
22301184 TTAAATGAAAATCTTT--G-AGTTTCAAATGAGAATCTTTAAGTC
1 TTAAATGAAAATCTTTAAGAATTTTCAAATGAGAATCTTTAAGTT
* *
22301226 TTAAAT-AAGAATCTTTAAGACATTTTTAAATGAAAATCTTT
1 TTAAATGAA-AATCTTTAAGA-ATTTTCAAATGAGAATCTTT
22301267 GAGATGTAAA
Statistics
Matches: 144, Mismatches: 18, Indels: 34
0.73 0.09 0.17
Matches are distributed among these distances:
41 2 0.01
42 14 0.10
43 1 0.01
44 4 0.03
45 6 0.04
46 92 0.64
47 3 0.02
48 4 0.03
49 5 0.03
50 13 0.09
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (45 bp):
TTAAATGAAAATCTTTAAGAATTTTCAAATGAGAATCTTTAAGTT
Found at i:22302096 original size:5 final size:5
Alignment explanation
Indices: 22302082--22302132 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
22302072 CAATTGACCT
22302082 TTTTA TTTTTA TTTTTA TTTTA TTTTA TTTTA --TTA TTTTA TTATT-
1 TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA
22302127 TTTTA T
1 TTTTA T
22302133 CTATCTTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
3 3 0.07
4 2 0.05
5 23 0.56
6 13 0.32
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:22302114 original size:21 final size:22
Alignment explanation
Indices: 22302082--22302128 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
22302072 CAATTGACCT
*
22302082 TTTTATTTTTATT-TTTATTTTA
1 TTTTATTTTTATTATTT-TATTA
22302104 TTTTA-TTTTATTATTTTATTA
1 TTTTATTTTTATTATTTTATTA
22302125 TTTT
1 TTTT
22302129 TTATCTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTATTTTTATTATTTTATTA
Found at i:22302117 original size:18 final size:17
Alignment explanation
Indices: 22302082--22302172 Score: 87
Period size: 18 Copynumber: 4.9 Consensus size: 17
22302072 CAATTGACCT
22302082 TTTTATTTTTATTT-TTA
1 TTTTATTTTT-TTTATTA
22302099 TTTTATTTTATTTTATTA
1 TTTTATTTT-TTTTATTA
22302117 TTTTATTATTTTTTATCTA
1 TTTTATT-TTTTTTAT-TA
22302136 TCTTTGATTTTTTTTAGTTGA
1 T-TTT-ATTTTTTTTA-TT-A
22302157 -TTTATCTTTTTTTATT
1 TTTTAT-TTTTTTTATT
22302173 GGATTTATCA
Statistics
Matches: 65, Mismatches: 0, Indels: 17
0.79 0.00 0.21
Matches are distributed among these distances:
17 12 0.18
18 21 0.32
19 16 0.25
20 11 0.17
21 5 0.08
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTTTTATTA
Found at i:22302166 original size:19 final size:19
Alignment explanation
Indices: 22302144--22302181 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
22302134 TATCTTTGAT
22302144 TTTTTTTAGTT-GATTTATC
1 TTTTTTTA-TTGGATTTATC
22302163 TTTTTTTATTGGATTTATC
1 TTTTTTTATTGGATTTATC
22302182 ATTAGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (19 bp):
TTTTTTTATTGGATTTATC
Found at i:22302217 original size:4 final size:4
Alignment explanation
Indices: 22302208--22302232 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22302198 TTTAATAATA
22302208 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
22302233 TCTTTGACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:22303995 original size:2 final size:2
Alignment explanation
Indices: 22303988--22304017 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22303978 AGTTAACGCA
22303988 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
22304018 GTGTGTGTGT
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:22304022 original size:2 final size:2
Alignment explanation
Indices: 22304017--22304045 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22304007 TATATATATA
22304017 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
22304046 AAGAATACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:22307872 original size:28 final size:28
Alignment explanation
Indices: 22307829--22307884 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
22307819 GCAATCAGGG
22307829 TTTGTCATAAAGCGACATCTTGTGGAAA
1 TTTGTCATAAAGCGACATCTTGTGGAAA
*
22307857 TTTGTCATAAATCGACATCTTGTGGAAA
1 TTTGTCATAAAGCGACATCTTGTGGAAA
22307885 ATAGCACCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (28 bp):
TTTGTCATAAAGCGACATCTTGTGGAAA
Found at i:22314787 original size:16 final size:18
Alignment explanation
Indices: 22314761--22314796 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
22314751 GTAAGTCAAT
22314761 AAAAATCAAATAAA-AAA
1 AAAAATCAAATAAATAAA
22314778 AAAAAT-AAATAAATAAA
1 AAAAATCAAATAAATAAA
22314795 AA
1 AA
22314797 TGAGAGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAATCAAATAAATAAA
Found at i:22316515 original size:2 final size:2
Alignment explanation
Indices: 22316508--22316539 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22316498 TTAGGATGAT
22316508 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22316540 ATTTTGCGGA
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):
TA
Found at i:22317395 original size:19 final size:19
Alignment explanation
Indices: 22317368--22317404 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22317358 ATAAATATAA
22317368 AGATAAAAATTTCAAAAAT
1 AGATAAAAATTTCAAAAAT
* *
22317387 AGATTAAAATTTTAAAAA
1 AGATAAAAATTTCAAAAA
22317405 ATACCCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (19 bp):
AGATAAAAATTTCAAAAAT
Found at i:22318917 original size:12 final size:12
Alignment explanation
Indices: 22318902--22318926 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22318892 TAATATATAT
22318902 TTTAAAAAATAA
1 TTTAAAAAATAA
22318914 TTTAAAAAATAA
1 TTTAAAAAATAA
22318926 T
1 T
22318927 ATATGTGTTA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TTTAAAAAATAA
Found at i:22323213 original size:12 final size:14
Alignment explanation
Indices: 22323185--22323216 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
22323175 TTTATTTTCT
22323185 TAATAACAAACAAA
1 TAATAACAAACAAA
22323199 TAATAA-AAA-AAA
1 TAATAACAAACAAA
22323211 TAATAA
1 TAATAA
22323217 TTGTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 3 0.17
14 6 0.33
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (14 bp):
TAATAACAAACAAA
Found at i:22325000 original size:8 final size:8
Alignment explanation
Indices: 22324989--22325041 Score: 70
Period size: 8 Copynumber: 6.1 Consensus size: 8
22324979 AATTTTTTAT
22324989 TAAAAAAA
1 TAAAAAAA
22324997 TAAAAAAAA
1 T-AAAAAAA
22325006 TAAATTAAAAA
1 T-AA--AAAAA
22325017 TAAAAAAA
1 TAAAAAAA
22325025 TAAAAAAA
1 TAAAAAAA
22325033 TAAAAAAA
1 TAAAAAAA
22325041 T
1 T
22325042 TAATTAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
8 23 0.55
9 11 0.26
10 2 0.05
11 6 0.14
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
TAAAAAAA
Found at i:22325016 original size:14 final size:14
Alignment explanation
Indices: 22324993--22325037 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
22324983 TTTTATTAAA
22324993 AAAATAAAAAAAAT
1 AAAATAAAAAAAAT
*
22325007 AAATTAAAAATAAA-
1 AAAATAAAAA-AAAT
22325021 AAAAT-AAAAAAAT
1 AAAATAAAAAAAAT
22325034 AAAA
1 AAAA
22325038 AAATTAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 3 0.11
13 8 0.30
14 13 0.48
15 3 0.11
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:22326494 original size:28 final size:28
Alignment explanation
Indices: 22326457--22326514 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
22326447 AATTAATAAA
*
22326457 TTTATAATTTAAAT-TTATATTAAAATAT
1 TTTAAAATTTAAATATTATATT-AAATAT
22326485 TTTAAAATTTAAATATTATATTAAATAT
1 TTTAAAATTTAAATATTATATTAAATAT
22326513 TT
1 TT
22326515 CATCGGCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTAAAATTTAAATATTATATTAAATAT
Found at i:22329992 original size:7 final size:7
Alignment explanation
Indices: 22329956--22329996 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
22329946 AAAATTTTTT
22329956 ATTAAAA
1 ATTAAAA
*
22329963 ATAAATAA
1 ATTAA-AA
22329971 ATT-AAA
1 ATTAAAA
22329977 ATT-AAA
1 ATTAAAA
22329983 ATTAAAA
1 ATTAAAA
22329990 ATTAAAA
1 ATTAAAA
22329997 TATTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 11 0.37
7 15 0.50
8 4 0.13
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATTAAAA
Found at i:22336227 original size:30 final size:30
Alignment explanation
Indices: 22336143--22336231 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
22336133 TTATTTCAAT
* *
22336143 AAATTAAAT-CTTAAAATTTCTATTTCATATC
1 AAATTAAATCCTT-AAATATCTATTT-TTATC
* * * *
22336174 -AATTAAACCCTTATACATTTATTTTTATC
1 AAATTAAATCCTTAAATATCTATTTTTATC
22336203 AAATTAAATCCTTAAATATCTATTTTTAT
1 AAATTAAATCCTTAAATATCTATTTTTAT
22336232 TTTGATTAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
29 4 0.09
30 39 0.85
31 3 0.07
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (30 bp):
AAATTAAATCCTTAAATATCTATTTTTATC
Found at i:22348263 original size:18 final size:19
Alignment explanation
Indices: 22348235--22348271 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
22348225 GTTAAATTCT
22348235 TTTTTATATATATTTTTAA
1 TTTTTATATATATTTTTAA
22348254 TTTTTA-ATATATTTTTAA
1 TTTTTATATATATTTTTAA
22348272 ATCTTCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTATATATATTTTTAA
Found at i:22349126 original size:10 final size:10
Alignment explanation
Indices: 22349086--22349128 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
22349076 TAATATAATT
22349086 TAAAATTTTAA
1 TAAAA-TTTAA
*
22349097 TAAAAATTATA
1 TAAAATTTA-A
22349108 TATAAATTTAA
1 TA-AAATTTAA
22349119 TAAAATTTAA
1 TAAAATTTAA
22349129 AAATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 11 0.39
11 11 0.39
12 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TAAAATTTAA
Found at i:22349217 original size:36 final size:36
Alignment explanation
Indices: 22349150--22349219 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
22349140 TATATCGATA
*
22349150 TAAATTATAATAAATTATTTTATTTAAAAAATAATT
1 TAAATTATAATAAATTATTATATTTAAAAAATAATT
*
22349186 TAAA-TAT-ATAAATTATTAATATTTTATAAAATAA
1 TAAATTATAATAAATTATT-ATA-TTTAAAAAATAA
22349220 AATATATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 10 0.33
35 5 0.17
36 15 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (36 bp):
TAAATTATAATAAATTATTATATTTAAAAAATAATT
Found at i:22349939 original size:30 final size:30
Alignment explanation
Indices: 22349900--22349956 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
22349890 GGTTTATTTA
*
22349900 GATATAAATTAAAAAATAAAAATTTATATG
1 GATACAAATTAAAAAATAAAAATTTATATG
***
22349930 GATACAAATTAAATTTTAAAAATTTAT
1 GATACAAATTAAAAAATAAAAATTTAT
22349957 TTGAATGTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (30 bp):
GATACAAATTAAAAAATAAAAATTTATATG
Found at i:22350322 original size:2 final size:2
Alignment explanation
Indices: 22350315--22350349 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
22350305 CAAATATCTC
*
22350315 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22350350 GTCCCTAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:22353142 original size:2 final size:2
Alignment explanation
Indices: 22353135--22353164 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22353125 CCTTTCTCAG
22353135 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22353165 GTGTATGAAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:22361507 original size:27 final size:29
Alignment explanation
Indices: 22361472--22361525 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
22361462 ATTATTTATT
*
22361472 AATAAATAAATATT-A-ATTTTTAAAATA
1 AATAAATAAAAATTAATATTTTTAAAATA
*
22361499 AATATATAAAAATTAATATTTTTAAAA
1 AATAAATAAAAATTAATATTTTTAAAA
22361526 AATTAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 1 0.04
29 10 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AATAAATAAAAATTAATATTTTTAAAATA
Found at i:22361630 original size:16 final size:16
Alignment explanation
Indices: 22361589--22361641 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
22361579 AAATACATAT
*
22361589 ATTAATAATTTATTAA
1 ATTAATATTTTATTAA
*
22361605 ATATAA-ATTTTTTTAA
1 AT-TAATATTTTATTAA
*
22361621 ATTAATATTTGATTAA
1 ATTAATATTTTATTAA
22361637 ATTAA
1 ATTAA
22361642 AAATTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 3 0.10
16 25 0.81
17 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTAATATTTTATTAA
Found at i:22363406 original size:17 final size:16
Alignment explanation
Indices: 22363384--22363417 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22363374 AAAAAAAATT
22363384 TAATTAATATCAATAAA
1 TAATTAAT-TCAATAAA
*
22363401 TAATTAATTTAATAAA
1 TAATTAATTCAATAAA
22363417 T
1 T
22363418 TAAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATTAATTCAATAAA
Found at i:22363484 original size:13 final size:14
Alignment explanation
Indices: 22363457--22363486 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
22363447 AAATTTAAAT
22363457 TTTATTAATAATTA
1 TTTATTAATAATTA
22363471 TTTATTAA-AATTA
1 TTTATTAATAATTA
22363484 TTT
1 TTT
22363487 TAAATATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTATTAATAATTA
Found at i:22363488 original size:14 final size:15
Alignment explanation
Indices: 22363455--22363488 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
22363445 TTAAATTTAA
22363455 ATTTTATTAATAATT
1 ATTTTATTAATAATT
22363470 A-TTTATTAA-AATT
1 ATTTTATTAATAATT
22363483 ATTTTA
1 ATTTTA
22363489 AATATACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.28
14 12 0.67
15 1 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTATTAATAATT
Found at i:22364111 original size:42 final size:42
Alignment explanation
Indices: 22364058--22364141 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
22364048 ACTATAATGA
22364058 ACCAATGGGAGAAAGACTTAAAGTAGCATTCTATTTTGAACC
1 ACCAATGGGAGAAAGACTTAAAGTAGCATTCTATTTTGAACC
22364100 ACCAATGGGAGAAAGACTTAAAGTAGCATTCTATTTTGAACC
1 ACCAATGGGAGAAAGACTTAAAGTAGCATTCTATTTTGAACC
22364142 TCAATTACTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (42 bp):
ACCAATGGGAGAAAGACTTAAAGTAGCATTCTATTTTGAACC
Found at i:22367171 original size:18 final size:19
Alignment explanation
Indices: 22367138--22367173 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22367128 GGCCGAAAGA
*
22367138 AACAAGTTTGATAAGATTC
1 AACAAGTTTGAAAAGATTC
22367157 AACAA-TTTGAAAAGATT
1 AACAAGTTTGAAAAGATT
22367174 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (19 bp):
AACAAGTTTGAAAAGATTC
Found at i:22373057 original size:58 final size:58
Alignment explanation
Indices: 22372991--22373107 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
22372981 ATTTTAAGTC
*
22372991 TTAATTTATGCATATCATATATCTGTTTAATGTGGTAACATTGAATTTCGAAAAATAA
1 TTAATTTATGCATATCATATATCTGTTTAATGTGGTAACATTGAATCTCGAAAAATAA
*
22373049 TTAATTTATGCATATCATATATCTGTTTAATGTGGTAACATTGAATCTCGAGAAATAA
1 TTAATTTATGCATATCATATATCTGTTTAATGTGGTAACATTGAATCTCGAAAAATAA
22373107 T
1 T
22373108 ACCATATCAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (58 bp):
TTAATTTATGCATATCATATATCTGTTTAATGTGGTAACATTGAATCTCGAAAAATAA
Found at i:22375459 original size:17 final size:16
Alignment explanation
Indices: 22375428--22375462 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
22375418 TATCTCAAAT
22375428 GAAAAAAAAAAAAAAA
1 GAAAAAAAAAAAAAAA
*
22375444 GAAAAGAAAGAAAAAAA
1 GAAAA-AAAAAAAAAAA
22375461 GA
1 GA
22375463 GGGACAGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAAAAAAA
Found at i:22382797 original size:17 final size:17
Alignment explanation
Indices: 22382773--22382807 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
22382763 AAATAAATTA
22382773 AAAAAAAACTAAAAAAGAT
1 AAAAAAAA--AAAAAAGAT
22382792 AAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAGA
22382808 ATTGATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.86, C:0.03, G:0.06, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAAAAAAGAT
Found at i:22389630 original size:18 final size:17
Alignment explanation
Indices: 22389599--22389632 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22389589 GCCTACAGTT
*
22389599 AATAATGCTTTTAATCA
1 AATAATGCTCTTAATCA
22389616 AATATATGCTCTTAATC
1 AATA-ATGCTCTTAATC
22389633 TTACCGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (17 bp):
AATAATGCTCTTAATCA
Found at i:22398154 original size:14 final size:13
Alignment explanation
Indices: 22398125--22398151 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22398115 ATTTAACACT
22398125 ATTTTTTTATAAA
1 ATTTTTTTATAAA
22398138 ATTTTTTTATAAA
1 ATTTTTTTATAAA
22398151 A
1 A
22398152 ATTAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTTTTATAAA
Found at i:22399864 original size:14 final size:14
Alignment explanation
Indices: 22399847--22399876 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22399837 AAAAATATAT
*
22399847 AATATTTTATATTA
1 AATATTTTATAATA
22399861 AATATTTTATAATA
1 AATATTTTATAATA
22399875 AA
1 AA
22399877 AAAGCTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTTTATAATA
Found at i:22400211 original size:20 final size:21
Alignment explanation
Indices: 22400183--22400225 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
22400173 ATAACAAGAT
22400183 ATTTCAATTT-ATTAATTTTA
1 ATTTCAATTTAATTAATTTTA
* *
22400203 ATTTTAATTTAATTATTTTTA
1 ATTTCAATTTAATTAATTTTA
22400224 AT
1 AT
22400226 AAAAAGCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTCAATTTAATTAATTTTA
Found at i:22404285 original size:42 final size:42
Alignment explanation
Indices: 22404208--22404309 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
22404198 ACACGTGTAG
22404208 ATCGTTAAATTCGTTAT-AGCTATGATTAATATAAAATATAT
1 ATCGTTAAATTCGTTATAAGCTATGATTAATATAAAATATAT
* **
22404249 A-CAGTTAAATTTGTTATAATTTATGATT-ATCATAAAATATAT
1 ATC-GTTAAATTCGTTATAAGCTATGATTAAT-ATAAAATATAT
22404291 ATCGTTAAATTCGTTATAA
1 ATCGTTAAATTCGTTATAA
22404310 CCGTTAAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
40 1 0.02
41 16 0.30
42 35 0.66
43 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (42 bp):
ATCGTTAAATTCGTTATAAGCTATGATTAATATAAAATATAT
Found at i:22404566 original size:98 final size:100
Alignment explanation
Indices: 22404315--22404595 Score: 307
Period size: 100 Copynumber: 2.8 Consensus size: 100
22404305 TATAACCGTT
* * * * * * *
22404315 AAATTAATTTAATAATATATAATAAAACACGTGTAAGTAAATAAACTCGTTACAACTTATAGTAA
1 AAATTAATTCAAT-A-ATATAATGAAACACGTGTAAATCAATAAACTCATTACAACTTACAATAA
* *
22404380 CATAAATATGTATATTGATAAATCCAAAAAAAATGAC
64 CATAAATATGTATATTGACAAATACAAAAAAAATGAC
* * * ** * *
22404417 AAATTAATTCAATAATATAATGAGACACATATGAGTTC-ATAAGCTCCTTACAACTTACAATAAC
1 AAATTAATTCAATAATATAATGAAACACGTGT-AAATCAATAAACTCATTACAACTTACAATAAC
* * *
22404481 ATAAACATGGATATTGACAAATAC-AAAAAAA-GGC
65 ATAAATATGTATATTGACAAATACAAAAAAAATGAC
* * *
22404515 AAATTAATTCAATAATATAATGAAACACGTGTAAATCAATAAATTTATTACAACTTACAAGAATC
1 AAATTAATTCAATAATATAATGAAACACGTGTAAATCAATAAACTCATTACAACTTACAATAA-C
22404580 ATAAATATGTATATTG
65 ATAAATATGTATATTG
22404596 GCATATGAAT
Statistics
Matches: 147, Mismatches: 29, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
97 3 0.02
98 51 0.35
99 22 0.15
100 56 0.38
101 3 0.02
102 12 0.08
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.30
Consensus pattern (100 bp):
AAATTAATTCAATAATATAATGAAACACGTGTAAATCAATAAACTCATTACAACTTACAATAACA
TAAATATGTATATTGACAAATACAAAAAAAATGAC
Found at i:22406224 original size:2 final size:2
Alignment explanation
Indices: 22406212--22406243 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
22406202 CTGTCTAAAC
*
22406212 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22406244 ACAAGAGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:22415387 original size:44 final size:45
Alignment explanation
Indices: 22415336--22415429 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 45
22415326 TTATTTTTTA
* *
22415336 TTTTTATTTTTAAATTTTTCA-TCGTTTGGGTCAATTTA-AAATTT
1 TTTTTATTTCTAAATTTTTCACT-ATTTGGGTCAATTTATAAATTT
* *
22415380 TTTTTATTTCTAAATTTTTCACTATTTTGGTCTATTTATAAATTT
1 TTTTTATTTCTAAATTTTTCACTATTTGGGTCAATTTATAAATTT
22415425 TTTTT
1 TTTTT
22415430 TGTTTTTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
44 32 0.73
45 12 0.27
ACGTcount: A:0.23, C:0.07, G:0.06, T:0.63
Consensus pattern (45 bp):
TTTTTATTTCTAAATTTTTCACTATTTGGGTCAATTTATAAATTT
Found at i:22415632 original size:16 final size:17
Alignment explanation
Indices: 22415611--22415652 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
22415601 TCAACCAAAA
22415611 TTTTATTAAATT-TTAT
1 TTTTATTAAATTATTAT
22415627 TTTTATT--ATTATTAT
1 TTTTATTAAATTATTAT
22415642 TTTTAATTAAA
1 TTTT-ATTAAA
22415653 AATAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.14
15 8 0.36
16 10 0.45
18 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATTAAATTATTAT
Found at i:22415750 original size:26 final size:23
Alignment explanation
Indices: 22415719--22415777 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 23
22415709 CAAATTTAGA
22415719 AAAAATTTCTCACTTAAAAATTTT
1 AAAAATTTCT-ACTTAAAAATTTT
* *
22415743 ATAGAAATTTACTATTTGAAAATTTT
1 A-A-AAATTT-CTACTTAAAAATTTT
22415769 AAAAATTTC
1 AAAAATTTC
22415778 ATCATTAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
23 1 0.03
24 7 0.23
25 2 0.07
26 18 0.60
27 2 0.07
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (23 bp):
AAAAATTTCTACTTAAAAATTTT
Found at i:22416717 original size:20 final size:20
Alignment explanation
Indices: 22416687--22416745 Score: 57
Period size: 25 Copynumber: 2.8 Consensus size: 20
22416677 CATCTAATTT
*
22416687 GATAATACAAAAAAATCAAA
1 GATAAAACAAAAAAATCAAA
22416707 GATAAATCAAACAAAAAAAATCAAA
1 GAT--A--AAAC-AAAAAAATCAAA
22416732 GAT-AAACAAAAAAA
1 GATAAAACAAAAAAA
22416746 AACAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
19 7 0.21
20 7 0.21
22 1 0.03
24 3 0.09
25 15 0.45
ACGTcount: A:0.73, C:0.10, G:0.05, T:0.12
Consensus pattern (20 bp):
GATAAAACAAAAAAATCAAA
Found at i:22416752 original size:25 final size:25
Alignment explanation
Indices: 22416695--22416752 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
22416685 TTGATAATAC
*
22416695 AAAAAAATCAAAGATAAATCAAACA
1 AAAAAAATCAAAGATAAATCAAAAA
22416720 AAAAAAATCAAAGATAAA-CAAAAA
1 AAAAAAATCAAAGATAAATCAAAAA
22416744 AAAACAAAT
1 AAAA-AAAT
22416753 AAATGAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 9 0.29
25 22 0.71
ACGTcount: A:0.76, C:0.10, G:0.03, T:0.10
Consensus pattern (25 bp):
AAAAAAATCAAAGATAAATCAAAAA
Found at i:22422592 original size:5 final size:5
Alignment explanation
Indices: 22422578--22422611 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
22422568 TCTCTCTGTC
22422578 TTTCT TTT-T TTT-T TTTCT TTTCT TTTCT TTTCT T
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
22422612 ACTTTCAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.29
5 20 0.71
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTCT
Found at i:22426338 original size:16 final size:16
Alignment explanation
Indices: 22426319--22426366 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
22426309 ATCAAATAGA
22426319 TTTAAAATTAAAATTT
1 TTTAAAATTAAAATTT
**
22426335 TTTATTATTAAAA-TT
1 TTTAAAATTAAAATTT
* *
22426350 ATTAAAATTTAAATTT
1 TTTAAAATTAAAATTT
22426366 T
1 T
22426367 AATCACTGCA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAAAATTAAAATTT
Found at i:22428734 original size:2 final size:2
Alignment explanation
Indices: 22428727--22428769 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
22428717 CTAAAACCAC
*
22428727 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22428769 A
1 A
22428770 GCAATAGATC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:22429814 original size:19 final size:19
Alignment explanation
Indices: 22429767--22429819 Score: 92
Period size: 18 Copynumber: 2.9 Consensus size: 19
22429757 AAAAATTAAT
22429767 AAATATTA-TTTTAATATA
1 AAATATTATTTTTAATATA
22429785 AAATA-TATTTTTAATATA
1 AAATATTATTTTTAATATA
22429803 AAATATTATTTTTAATA
1 AAATATTATTTTTAATA
22429820 CAAATATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
17 2 0.06
18 20 0.61
19 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTATTTTTAATATA
Found at i:22429824 original size:18 final size:18
Alignment explanation
Indices: 22429767--22429826 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
22429757 AAAAATTAAT
22429767 AAATATTA-TTTTAATATA
1 AAATATTATTTTTAATA-A
22429785 AAATA-TATTTTTAATATA
1 AAATATTATTTTTAATA-A
*
22429803 AAATATTATTTTTAATAC
1 AAATATTATTTTTAATAA
22429821 AAATAT
1 AAATAT
22429827 AATATTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 2 0.05
18 26 0.67
19 11 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
AAATATTATTTTTAATAA
Found at i:22429837 original size:18 final size:18
Alignment explanation
Indices: 22429767--22429834 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
22429757 AAAAATTAAT
*
22429767 AAATATTATTTTAATATA
1 AAATATAATTTTAATATA
*
22429785 AAATATATTTTTAATATA
1 AAATATAATTTTAATATA
* *
22429803 AAATATTATTTTTAATA-C
1 AAATA-TAATTTTAATATA
*
22429821 AAATATAATATTAA
1 AAATATAATTTTAA
22429835 ATAGATAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
17 7 0.16
18 26 0.59
19 11 0.25
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATATAATTTTAATATA
Found at i:22437606 original size:23 final size:22
Alignment explanation
Indices: 22437572--22437617 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
22437562 AAACTAAATA
*
22437572 ATTTTGAAAAATACATTTTTAT
1 ATTTTGAAAAATACAATTTTAT
*
22437594 ATTTTTAATAAATACAATTTTAT
1 ATTTTGAA-AAATACAATTTTAT
22437617 A
1 A
22437618 ATTCTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTTTGAAAAATACAATTTTAT
Found at i:22437625 original size:23 final size:23
Alignment explanation
Indices: 22437580--22437625 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22437570 TAATTTTGAA
* * *
22437580 AAATACATTTTTATATTTTTAAT
1 AAATACAATTTTATAATTCTAAT
22437603 AAATACAATTTTATAATTCTAAT
1 AAATACAATTTTATAATTCTAAT
22437626 TATTATCCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATACAATTTTATAATTCTAAT
Found at i:22440502 original size:2 final size:2
Alignment explanation
Indices: 22440495--22440525 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22440485 ATAATAAGGT
22440495 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22440526 GACTCTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22450687 original size:28 final size:28
Alignment explanation
Indices: 22450631--22450708 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
22450621 AGTAATGAGT
* *
22450631 AAAATAATAATTAAAGATGAAAATAATA
1 AAAATAATAAGTAAAAATGAAAATAATA
* *
22450659 ATAATAATAAGTAAAAATATAAAAT-ATA
1 AAAATAATAAGTAAAAAT-GAAAATAATA
*
22450687 AAAATAA-AA-TGAAAAT-AAAATA
1 AAAATAATAAGTAAAAATGAAAATA
22450709 GAAAAAGTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.12
26 6 0.14
27 2 0.05
28 24 0.57
29 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (28 bp):
AAAATAATAAGTAAAAATGAAAATAATA
Found at i:22450713 original size:24 final size:24
Alignment explanation
Indices: 22450677--22450731 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
22450667 AAGTAAAAAT
*
22450677 ATAAAATATAAAAA-TAAAATGAAA
1 ATAAAATAGAAAAAGTAAAAT-AAA
*
22450701 ATAAAATAGAAAAAGTGAAATAAA
1 ATAAAATAGAAAAAGTAAAATAAA
22450725 ATAAAAT
1 ATAAAAT
22450732 CAAAACAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (24 bp):
ATAAAATAGAAAAAGTAAAATAAA
Found at i:22451374 original size:51 final size:51
Alignment explanation
Indices: 22451314--22451422 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
22451304 TTATTTGATT
* * *
22451314 TAATCTTAATATGAACTGATTCTGGAATTAAATCTTAAAAATCTCTTAACA
1 TAATTTTAATATGAACTGATTCTAGAATTAAATCCTAAAAATCTCTTAACA
* * * *
22451365 TCATTTTAATGTGAATTGATTCTAGAATTAAATCCTAAATATCTCTTAACA
1 TAATTTTAATATGAACTGATTCTAGAATTAAATCCTAAAAATCTCTTAACA
22451416 TAATTTT
1 TAATTTT
22451423 CACCAAATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (51 bp):
TAATTTTAATATGAACTGATTCTAGAATTAAATCCTAAAAATCTCTTAACA
Found at i:22452463 original size:19 final size:19
Alignment explanation
Indices: 22452432--22452491 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 19
22452422 AGGTTTCAGG
* *
22452432 TTCACAAGAAATTCAAAGA
1 TTCACAAGCAATTCAAAAA
*
22452451 TTTACAAGCAATTCAAAAA
1 TTCACAAGCAATTCAAAAA
* *
22452470 TTCGCAAGCAATTCAAATA
1 TTCACAAGCAATTCAAAAA
22452489 TTC
1 TTC
22452492 GTAAAAGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (19 bp):
TTCACAAGCAATTCAAAAA
Found at i:22452520 original size:17 final size:17
Alignment explanation
Indices: 22452500--22452535 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
22452490 TCGTAAAAGT
22452500 TTTA-GTTTCGCAAGAAA
1 TTTAGGTTT-GCAAGAAA
22452517 TTTAGGTTTGCAAGAAA
1 TTTAGGTTTGCAAGAAA
22452534 TT
1 TT
22452536 CAAGTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (17 bp):
TTTAGGTTTGCAAGAAA
Found at i:22453995 original size:21 final size:20
Alignment explanation
Indices: 22453950--22453997 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
22453940 TACCCCATCA
22453950 ATTTTTCCTTTATTTTTTTT
1 ATTTTTCCTTTATTTTTTTT
* *
22453970 CTTTTTTCTTT-TTTTTTCATT
1 ATTTTTCCTTTATTTTTT--TT
22453991 ATTTTTC
1 ATTTTTC
22453998 AAGAAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.79
Consensus pattern (20 bp):
ATTTTTCCTTTATTTTTTTT
Found at i:22458239 original size:15 final size:15
Alignment explanation
Indices: 22458216--22458245 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22458206 TCTCAGAATC
*
22458216 AAAAGCCAACAAAAA
1 AAAAACCAACAAAAA
22458231 AAAAACCAACAAAAA
1 AAAAACCAACAAAAA
22458246 TCTCAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.20, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAACCAACAAAAA
Found at i:22460935 original size:22 final size:22
Alignment explanation
Indices: 22460892--22460950 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
22460882 AGTTATGTTT
* *
22460892 TAATCTATTAATTATTTAATAA
1 TAATATATTAATTATATAATAA
*
22460914 TAATATATTAA-T-TATGAT-A
1 TAATATATTAATTATATAATAA
22460933 TAATA-ATTAATTATATAA
1 TAATATATTAATTATATAA
22460951 ATATAACATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 5 0.16
19 7 0.23
20 8 0.26
21 1 0.03
22 10 0.32
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TAATATATTAATTATATAATAA
Found at i:22460956 original size:18 final size:19
Alignment explanation
Indices: 22460915--22460956 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
22460905 ATTTAATAAT
22460915 AATAT-ATTAATTATGATA
1 AATATAATTAATTATGATA
*
22460933 TA-ATAATTAATTAT-ATA
1 AATATAATTAATTATGATA
22460950 AATATAA
1 AATATAA
22460957 CATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATAATTAATTATGATA
Found at i:22460968 original size:6 final size:6
Alignment explanation
Indices: 22460959--22460987 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22460949 AAATATAACA
22460959 TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
22460988 AAAAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTAAT
Found at i:22461229 original size:14 final size:15
Alignment explanation
Indices: 22461210--22461247 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
22461200 CTTTCTTTAT
22461210 ATATAAAATT-AAAA
1 ATATAAAATTCAAAA
*
22461224 ATATAAATTTCAAAA
1 ATATAAAATTCAAAA
22461239 ATATTAAAA
1 ATA-TAAAA
22461248 GCAATTGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 9 0.45
15 7 0.35
16 4 0.20
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
ATATAAAATTCAAAA
Found at i:22463283 original size:11 final size:11
Alignment explanation
Indices: 22463269--22463298 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
22463259 ATTTAATCAA
22463269 ATTATTTATTT
1 ATTATTTATTT
22463280 ATTATTTATTT
1 ATTATTTATTT
*
22463291 TTTATTTA
1 ATTATTTA
22463299 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTATTTATTT
Found at i:22463304 original size:18 final size:17
Alignment explanation
Indices: 22463273--22463326 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
22463263 AATCAAATTA
**
22463273 TTTATTTATTATTTATTT
1 TTTATTTAAAATTT-TTT
22463291 TTTATTTAAAATTTTTT
1 TTTATTTAAAATTTTTT
* *
22463308 TATATTTGATAATTTTTT
1 TTTATTT-AAAATTTTTT
22463326 T
1 T
22463327 AAAATTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 9 0.29
18 22 0.71
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTATTTAAAATTTTTT
Found at i:22463313 original size:17 final size:18
Alignment explanation
Indices: 22463288--22463327 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
22463278 TTATTATTTA
22463288 TTTTT-TATTT-AAAATT
1 TTTTTATATTTGAAAATT
*
22463304 TTTTTATATTTGATAATT
1 TTTTTATATTTGAAAATT
22463322 TTTTTA
1 TTTTTA
22463328 AAATTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 5 0.24
18 11 0.52
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTTATATTTGAAAATT
Found at i:22469388 original size:2 final size:2
Alignment explanation
Indices: 22469381--22469405 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22469371 GTCATGTTCC
22469381 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
22469406 ATCAGCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22470916 original size:12 final size:11
Alignment explanation
Indices: 22470899--22470942 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
22470889 TACGAAAATA
22470899 TAAATTTTTTAT
1 TAAA-TTTTTAT
22470911 TAAATTTTT-T
1 TAAATTTTTAT
22470921 TATAATTTTTAT
1 TA-AATTTTTAT
*
22470933 TAAAATTTTA
1 TAAATTTTTA
22470943 AGTAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 3 0.10
11 19 0.66
12 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TAAATTTTTAT
Found at i:22470948 original size:22 final size:22
Alignment explanation
Indices: 22470904--22470948 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
22470894 AAATATAAAT
* *
22470904 TTTTTATTAAATTTTTTTATAA
1 TTTTTATTAAATATTTTAATAA
22470926 TTTTTATTAAA-ATTTTAAGTAA
1 TTTTTATTAAATATTTTAA-TAA
22470948 T
1 T
22470949 ATTATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTTATTAAATATTTTAATAA
Found at i:22470963 original size:22 final size:22
Alignment explanation
Indices: 22470938--22470982 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
22470928 TTTATTAAAA
*
22470938 TTTTAAGTAATATTATTTTTAT
1 TTTTAAGTAATATTAATTTTAT
* * *
22470960 TTTTTATTTATATTAATTTTAT
1 TTTTAAGTAATATTAATTTTAT
22470982 T
1 T
22470983 GTATTATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTAAGTAATATTAATTTTAT
Found at i:22470992 original size:22 final size:22
Alignment explanation
Indices: 22470947--22470994 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22470937 ATTTTAAGTA
* *
22470947 ATATTATTTTTATTTTTTATTT
1 ATATTAATTTTATTTATTATTT
22470969 ATATTAATTTTATTGTATTA-TT
1 ATATTAATTTTATT-TATTATTT
22470991 ATAT
1 ATAT
22470995 CATATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
ATATTAATTTTATTTATTATTT
Found at i:22475841 original size:25 final size:24
Alignment explanation
Indices: 22475808--22475856 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
22475798 AACAGTTACA
* * *
22475808 TAAATTAATTATTTTTAAATTATT
1 TAAATTAATAATTTATAAAATATT
22475832 TAAATATAATAATTTATAAAATATT
1 TAAAT-TAATAATTTATAAAATATT
22475857 AGTAATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAAATTAATAATTTATAAAATATT
Found at i:22477927 original size:19 final size:20
Alignment explanation
Indices: 22477903--22477946 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
22477893 ATTTTTGTTT
*
22477903 TATAAAAATTTA-AAAAATA
1 TATAAAAATTAAGAAAAATA
22477922 TATAAAAATTAAGAAAAATA
1 TATAAAAATTAAGAAAAATA
22477942 TATAA
1 TATAA
22477947 TTTGAACCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
TATAAAAATTAAGAAAAATA
Found at i:22479343 original size:22 final size:22
Alignment explanation
Indices: 22479287--22479344 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
22479277 GAGTTTTGGA
*
22479287 TTTTAAGGTTTTGGATTTTAGGG
1 TTTTGAGG-TTTGGATTTTAGGG
* *
22479310 -TGTGAGATTTTGGATTTTAGGG
1 TTTTGAG-GTTTGGATTTTAGGG
22479332 TTTTGAGGTTTGG
1 TTTTGAGGTTTGG
22479345 GGTTTTAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (22 bp):
TTTTGAGGTTTGGATTTTAGGG
Found at i:22479363 original size:14 final size:15
Alignment explanation
Indices: 22479324--22479363 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
22479314 AGATTTTGGA
22479324 TTTTAGGGTTTTGAG
1 TTTTAGGGTTTTGAG
* *
22479339 GTTTGGGGTTTT-AG
1 TTTTAGGGTTTTGAG
22479353 TTTTAGGGTTT
1 TTTTAGGGTTT
22479364 GGGGTTTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.10, C:0.00, G:0.35, T:0.55
Consensus pattern (15 bp):
TTTTAGGGTTTTGAG
Found at i:22479371 original size:14 final size:14
Alignment explanation
Indices: 22479325--22479395 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
22479315 GATTTTGGAT
22479325 TTTAGGGTTTTGAGG
1 TTTAGGG-TTTGAGG
* * *
22479340 TTTGGGGTTTTAGT
1 TTTAGGGTTTGAGG
*
22479354 TTTAGGGTTTGGGG
1 TTTAGGGTTTGAGG
* *
22479368 TTTAGAAGCTTGAGG
1 TTTAG-GGTTTGAGG
*
22479383 TTTTAAGGTTTGA
1 -TTTAGGGTTTGA
22479396 AGGATTTTAA
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
14 20 0.49
15 17 0.41
16 4 0.10
ACGTcount: A:0.15, C:0.01, G:0.37, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTGAGG
Found at i:22479405 original size:17 final size:17
Alignment explanation
Indices: 22479379--22479436 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
22479369 TTAGAAGCTT
22479379 GAGG-TTTTAAGGTTTG
1 GAGGATTTTAAGGTTTG
* *
22479395 AAGGATTTTAAGATTTG
1 GAGGATTTTAAGGTTTG
22479412 GAGGATTTT-AGCGTTTG
1 GAGGATTTTAAG-GTTTG
22479429 GAGGATTT
1 GAGGATTT
22479437 AGTGTTTCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
16 5 0.14
17 31 0.86
ACGTcount: A:0.24, C:0.02, G:0.33, T:0.41
Consensus pattern (17 bp):
GAGGATTTTAAGGTTTG
Found at i:22479827 original size:14 final size:14
Alignment explanation
Indices: 22479803--22479836 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22479793 TATAATTATT
22479803 TTATATATTTATTTA
1 TTAT-TATTTATTTA
*
22479818 TTATTATTTATTTT
1 TTATTATTTATTTA
22479832 TTATT
1 TTATT
22479837 TAATACTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTATTTATTTA
Found at i:22480045 original size:10 final size:11
Alignment explanation
Indices: 22480011--22480048 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
22480001 TAATAAAGTT
22480011 AAAAATGATATA
1 AAAAAT-ATATA
*
22480023 AATAATATATA
1 AAAAATATATA
22480034 AAAAAT-TATA
1 AAAAATATATA
22480044 AAAAA
1 AAAAA
22480049 ATAAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 10 0.42
12 5 0.21
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AAAAATATATA
Found at i:22481420 original size:38 final size:37
Alignment explanation
Indices: 22481265--22481422 Score: 117
Period size: 38 Copynumber: 4.2 Consensus size: 37
22481255 AAGTCAAGTG
* * * ** *
22481265 ATAAAGAAAATGACCGGGACAACATTGCGAGTCAAAAA
1 ATAAAGAAAATGA-CTGGACAACAATGCAAGTTGAGAA
**
22481303 ATAAAG--AATGACTAAAACAAC-ATCGCAAGTTGAGAA
1 ATAAAGAAAATGACT-GGACAACAAT-GCAAGTTGAGAA
* * * **
22481339 ATAAAAAAAATGATTGGAATAACACCGCAAGTTGA-ATA
1 ATAAAGAAAATGACTGG-ACAACAATGCAAGTTGAGA-A
22481377 ATAAAGAAAATGACTGTGACAACAATGCAAGTTGAGAA
1 ATAAAGAAAATGACTG-GACAACAATGCAAGTTGAGAA
22481415 ATAAAGAA
1 ATAAAGAA
22481423 TCGATTAAGA
Statistics
Matches: 91, Mismatches: 20, Indels: 18
0.71 0.16 0.14
Matches are distributed among these distances:
35 2 0.02
36 23 0.25
37 1 0.01
38 63 0.69
39 2 0.02
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.17
Consensus pattern (37 bp):
ATAAAGAAAATGACTGGACAACAATGCAAGTTGAGAA
Found at i:22481453 original size:112 final size:111
Alignment explanation
Indices: 22481265--22481476 Score: 255
Period size: 112 Copynumber: 1.9 Consensus size: 111
22481255 AAGTCAAGTG
* *
22481265 ATAAAGAAAATGACCGGGACAACATTGCGAGTCAAAAAATAAAGAATGACTAAAACAACATCGCA
1 ATAAAGAAAATGACCGGGACAACAATGCAAGTCAAAAAATAAAGAATGACTAAAACAACATCGCA
* *
22481330 AGTTGAGAAATAAAAAAAATGATTGGAATAACACCGCAAGTTGAATA
66 AGTCGAGAAAT-AAAAAAACGATTGGAATAACACCGCAAGTTGAATA
* * ** * * * * *
22481377 ATAAAGAAAATGACTGTGACAACAATGCAAGTTGAGAAATAAAGAATCGATTAAGATAACATTGC
1 ATAAAGAAAATGACCGGGACAACAATGCAAGTCAAAAAATAAAGAAT-GACTAAAACAACATCGC
* * *
22481442 TAGTCGA-AAATAAGAAAACGATTGGGATAACACCG
65 AAGTCGAGAAATAAAAAAACGATTGGAATAACACCG
22481477 TAAATCAAGA
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
111 21 0.25
112 44 0.53
113 18 0.22
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.18
Consensus pattern (111 bp):
ATAAAGAAAATGACCGGGACAACAATGCAAGTCAAAAAATAAAGAATGACTAAAACAACATCGCA
AGTCGAGAAATAAAAAAACGATTGGAATAACACCGCAAGTTGAATA
Found at i:22481603 original size:23 final size:23
Alignment explanation
Indices: 22481522--22481615 Score: 93
Period size: 22 Copynumber: 4.2 Consensus size: 23
22481512 TACAAGTTGA
* *
22481522 AATTATGCTCAGAGATCTTAAA-
1 AATTATGCCCAGAGGTCTTAAAG
* *
22481544 AATTATACCCAAAGGTCTTAAAG
1 AATTATGCCCAGAGGTCTTAAAG
* **
22481567 -ATTGTGCCTGGAGGTCTTAAAG
1 AATTATGCCCAGAGGTCTTAAAG
* *
22481589 AATTATGCCCAGAGGTTTTAATG
1 AATTATGCCCAGAGGTCTTAAAG
22481612 AATT
1 AATT
22481616 GACCTGGACA
Statistics
Matches: 56, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
22 35 0.62
23 21 0.38
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (23 bp):
AATTATGCCCAGAGGTCTTAAAG
Found at i:22481622 original size:45 final size:44
Alignment explanation
Indices: 22481537--22481623 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 44
22481527 TGCTCAGAGA
*
22481537 TCTTAAAAATTATACCCAAAGGTCTTAAAGATTGTGCCTGGAGG
1 TCTTAAAAATTATACCCAAAGGTCTTAAAGATTGTACCTGGAGG
* * * *
22481581 TCTTAAAGAATTATGCCCAGAGGTTTTAATGAATTG-ACCTGGA
1 TCTTAAA-AATTATACCCAAAGGTCTTAAAG-ATTGTACCTGGA
22481624 CAATAAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 7 0.19
45 25 0.69
46 4 0.11
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (44 bp):
TCTTAAAAATTATACCCAAAGGTCTTAAAGATTGTACCTGGAGG
Found at i:22481751 original size:22 final size:22
Alignment explanation
Indices: 22481715--22481763 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
22481705 GAAAGTCAAA
22481715 ATTATACCCGAAGGTCTTAGAG
1 ATTATACCCGAAGGTCTTAGAG
* *
22481737 ATTATATCCGGAGGTCTTAGAG
1 ATTATACCCGAAGGTCTTAGAG
22481759 ATTAT
1 ATTAT
22481764 GTCTGTGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (22 bp):
ATTATACCCGAAGGTCTTAGAG
Found at i:22481938 original size:22 final size:22
Alignment explanation
Indices: 22481910--22481951 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
22481900 CCGCCAGTCA
22481910 AAATTATG-CTCGAAGGTTTTGG
1 AAATTATGCCT-GAAGGTTTTGG
*
22481932 AAATTATTCCTGAAGGTTTT
1 AAATTATGCCTGAAGGTTTT
22481952 AATAGATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (22 bp):
AAATTATGCCTGAAGGTTTTGG
Found at i:22482347 original size:97 final size:95
Alignment explanation
Indices: 22482188--22482423 Score: 251
Period size: 97 Copynumber: 2.4 Consensus size: 95
22482178 AAGATTTTCG
* *****
22482188 AATGCTCCTCTCAATGAGAGGCAATGAAACTTTAAAATATTTTGGTTGGAGGCCTTAGAAATTAT
1 AATGCTCCTCT-AATCAGAGGC-ATGAAACTTTAAAATATTTTACCCAGAGGCCTTAGAAATTAT
*** * *
22482253 GCTTGAAGATCTTAAAGATTGCAAAATCTTTG
64 GCCCAAAGATCTTAAAGATTACAAAATCTTTA
** *
22482285 AATGCTTTTACTAATCAGAGGCAGTGAAACTTTAAAATATTTTACCCAGAGTCCTT-GAAAATTA
1 AATGCTCCT-CTAATCAGAGGCA-TGAAACTTTAAAATATTTTACCCAGAGGCCTTAG-AAATTA
* *
22482349 TGCCCAAAGATTTTAAAGATTATAAAATCTTTA
63 TGCCCAAAGATCTTAAAGATTACAAAATCTTTA
*
22482382 AATGCTCCTCTAATCAAAGGCCATGAAACTTTAAAA-ATTTTA
1 AATGCTCCTCTAATCAGAGG-CATGAAACTTTAAAATATTTTA
22482424 AAATATTTTT
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
95 6 0.05
96 25 0.22
97 83 0.72
98 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (95 bp):
AATGCTCCTCTAATCAGAGGCATGAAACTTTAAAATATTTTACCCAGAGGCCTTAGAAATTATGC
CCAAAGATCTTAAAGATTACAAAATCTTTA
Found at i:22482820 original size:40 final size:41
Alignment explanation
Indices: 22482773--22482868 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
22482763 TTTCTTATGG
22482773 TGCAAATGCAAATGTC-TT-ATAT-AAATGCAAATACAAGTGA
1 TGCAAATGCAAATGTCTTTCATATGAAAT--AAATACAAGTGA
* * * *
22482813 TGCAAATGCGAATGTCTTTCTTATGATATAGATACAAGTGA
1 TGCAAATGCAAATGTCTTTCATATGAAATAAATACAAGTGA
22482854 TGCAAATGCAAATGT
1 TGCAAATGCAAATGT
22482869 ACCTTTAATG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
40 15 0.31
41 27 0.56
42 3 0.06
43 3 0.06
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (41 bp):
TGCAAATGCAAATGTCTTTCATATGAAATAAATACAAGTGA
Found at i:22482880 original size:41 final size:41
Alignment explanation
Indices: 22482803--22482880 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
22482793 ATAAATGCAA
* * *
22482803 ATACAAGTGATGCAAATGCGAATGTCTTTCTTATGATATAG
1 ATACAAGTGATGCAAATGCAAATGTCCTTCTAATGATATAG
22482844 ATACAAGTGATGCAAATGCAAATGTACCTT-TAATGAT
1 ATACAAGTGATGCAAATGCAAATGT-CCTTCTAATGAT
22482881 GCACAGACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 30 0.91
42 3 0.09
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (41 bp):
ATACAAGTGATGCAAATGCAAATGTCCTTCTAATGATATAG
Found at i:22482891 original size:41 final size:41
Alignment explanation
Indices: 22482805--22482910 Score: 97
Period size: 41 Copynumber: 2.6 Consensus size: 41
22482795 AAATGCAAAT
* * * * * *
22482805 ACAAGTGATGCAAATGCGAATGTCTTTCTTATGATATAGAT
1 ACAAGTGATGCAAATGCAAATGTCCTTCTAATGATACACAG
*
22482846 ACAAGTGATGCAAATGCAAATGTACCTT-TAATGATGCACAG
1 ACAAGTGATGCAAATGCAAATGT-CCTTCTAATGATACACAG
* * * *
22482887 ACAAGTTATGTAACTACAAATGTC
1 ACAAGTGATGCAAATGCAAATGTC
22482911 TCTTTTTTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
40 1 0.02
41 49 0.92
42 3 0.06
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (41 bp):
ACAAGTGATGCAAATGCAAATGTCCTTCTAATGATACACAG
Found at i:22484381 original size:8 final size:8
Alignment explanation
Indices: 22484368--22484418 Score: 57
Period size: 8 Copynumber: 5.9 Consensus size: 8
22484358 AAAAAAGATC
22484368 TTTTTATT
1 TTTTTATT
22484376 TTTTTATTAT
1 TTTTTA-T-T
22484386 TTTTTATCTT
1 TTTTTA--TT
22484396 TTTTTATT
1 TTTTTATT
*
22484404 TTTTAATT
1 TTTTTATT
22484412 TTTTTAT
1 TTTTTAT
22484419 GATGTCCCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 21 0.57
9 1 0.03
10 14 0.38
11 1 0.03
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:22484390 original size:10 final size:9
Alignment explanation
Indices: 22484368--22484416 Score: 57
Period size: 10 Copynumber: 5.4 Consensus size: 9
22484358 AAAAAAGATC
22484368 TTTTTA-TT
1 TTTTTATTT
22484376 TTTTTATTAT
1 TTTTTATT-T
22484386 TTTTTATCTT
1 TTTTTAT-TT
22484396 TTTTTA-TT
1 TTTTTATTT
*
22484404 TTTTAATTT
1 TTTTTATTT
22484413 TTTT
1 TTTT
22484417 ATGATGTCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
8 13 0.36
9 7 0.19
10 15 0.42
11 1 0.03
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTATTT
Found at i:22484414 original size:17 final size:17
Alignment explanation
Indices: 22484368--22484416 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
22484358 AAAAAAGATC
*
22484368 TTTTTATTTTTTTATTAT
1 TTTTTAATTTTTT-TTAT
22484386 TTTTT-ATCTTTTTTTAT
1 TTTTTAAT-TTTTTTTAT
22484403 TTTTTAATTTTTTT
1 TTTTTAATTTTTTT
22484417 ATGATGTCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTAATTTTTTTTAT
Found at i:22489402 original size:21 final size:20
Alignment explanation
Indices: 22489376--22489418 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
22489366 GAACTACATG
22489376 TTAAGAGAAAAT-TTATTT-TT
1 TTAA-AGAAAATATT-TTTCTT
22489396 TTAAAGAAAATATTTTTCTT
1 TTAAAGAAAATATTTTTCTT
22489416 TTA
1 TTA
22489419 TTATCCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (20 bp):
TTAAAGAAAATATTTTTCTT
Found at i:22491272 original size:22 final size:22
Alignment explanation
Indices: 22491239--22491337 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 22
22491229 AAGCTTGAGG
*
22491239 TTTTAGGGTTTGGAGGATTTATGA
1 TTTTAGAGTTTGGAGG-TTT-TGA
*
22491263 TTTT-GA-TTTGAAGGTTTTGA
1 TTTTAGAGTTTGGAGGTTTTGA
* *
22491283 TTTTAGAGTTTGGA-GTTTAGGG
1 TTTTAGAGTTTGGAGGTTT-TGA
22491305 TTTTAG-GTTT-GAGGTTTTGA
1 TTTTAGAGTTTGGAGGTTTTGA
22491325 TTTTA-AGGTTTGG
1 TTTTAGA-GTTTGG
22491338 GATTTAGGGC
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
20 15 0.25
21 21 0.34
22 20 0.33
23 1 0.02
24 4 0.07
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (22 bp):
TTTTAGAGTTTGGAGGTTTTGA
Found at i:22491282 original size:14 final size:13
Alignment explanation
Indices: 22491263--22491335 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 13
22491253 GGATTTATGA
22491263 TTTTGATTTGAAGG
1 TTTTGATTT-AAGG
*
22491277 TTTTGATTTTAGAG
1 TTTTGATTTAAG-G
* *
22491291 TTTGGAGTTTAGGG
1 TTTTGA-TTTAAGG
* *
22491305 TTTTAGGTTTGAGG
1 TTTT-GATTTAAGG
22491319 TTTTGATTTTAAGG
1 TTTTGA-TTTAAGG
22491333 TTT
1 TTT
22491336 GGGATTTAGG
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
13 3 0.07
14 37 0.82
15 5 0.11
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (13 bp):
TTTTGATTTAAGG
Found at i:22491329 original size:42 final size:43
Alignment explanation
Indices: 22491269--22491352 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 43
22491259 ATGATTTTGA
*
22491269 TTTGAAGGTTTTGATTTT-AGAGTTT-GGAGTTTAGGGTTTTAGG
1 TTTGAAGGTTTTGATTTTAAG-GTTTGGGA-TTTAGGGCTTTAGG
22491312 TTTG-AGGTTTTGATTTTAAGGTTTGGGATTTAGGGCTTTAG
1 TTTGAAGGTTTTGATTTTAAGGTTTGGGATTTAGGGCTTTAG
22491353 TTTTAGGGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
42 29 0.76
43 9 0.24
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.49
Consensus pattern (43 bp):
TTTGAAGGTTTTGATTTTAAGGTTTGGGATTTAGGGCTTTAGG
Done.