Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 86 of 120
Found at i:11194104 original size:25 final size:22
Alignment explanation
Indices: 11194050--11194118 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
11194040 ATCAAAAATT
*
11194050 TTAATT-TTATTTTTCATTATTTA
1 TTAATTATTATTTTT-ATT-GTTA
*
11194073 TT-ATTATTATTTAT-TTGTTTA
1 TTAATTATTATTTTTATTG-TTA
*
11194094 TTAATTCTTATTTTTATTGTTA
1 TTAATTATTATTTTTATTGTTA
11194116 TTA
1 TTA
11194119 TTTAAAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
21 7 0.18
22 19 0.50
23 12 0.32
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (22 bp):
TTAATTATTATTTTTATTGTTA
Found at i:11194119 original size:25 final size:23
Alignment explanation
Indices: 11194046--11194120 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 23
11194036 AATTATCAAA
*
11194046 AATTTTAATTTTATTTTTCATTATT
1 AATTTTATTTTTA-TTTT-ATTATT
*
11194071 TATTATTATTATTTATTTGT-TTATT
1 AATT-TTATT-TTTATTT-TATTATT
11194096 AATTCTTATTTTTATTGTTATTATT
1 AATT-TTATTTTTATT-TTATTATT
11194121 TAAAAAACAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
24 7 0.17
25 22 0.54
26 7 0.17
27 5 0.12
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (23 bp):
AATTTTATTTTTATTTTATTATT
Found at i:11194970 original size:21 final size:21
Alignment explanation
Indices: 11194932--11194973 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11194922 TGTGGGTTTC
*
11194932 TTTTTTGAAGAGTTTTTTTTG
1 TTTTTTGAAGAGTATTTTTTG
* *
11194953 TTTTTTGATGGGTATTTTTTG
1 TTTTTTGAAGAGTATTTTTTG
11194974 GCAAGGCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.21, T:0.67
Consensus pattern (21 bp):
TTTTTTGAAGAGTATTTTTTG
Found at i:11195246 original size:3 final size:3
Alignment explanation
Indices: 11195238--11195288 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
11195228 TCATAAAAAT
11195238 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11195286 TTA
1 TTA
11195289 CTTGTTTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11195541 original size:3 final size:3
Alignment explanation
Indices: 11195520--11195574 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
11195510 GATATCATTT
* * *
11195520 TTA TTT TTA TTA TTG TTA TTA TTA TTA TCTA GTTA TTT TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA
11195566 TTA TT- TTA T
1 TTA TTA TTA T
11195575 AAGGTTTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.10
3 33 0.79
4 4 0.10
5 1 0.02
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:11195753 original size:20 final size:21
Alignment explanation
Indices: 11195723--11195768 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
11195713 TAAACATGTA
11195723 TAAATAATAATAATAAAAAAC
1 TAAATAATAATAATAAAAAAC
* *
11195744 TAAA-AATAATATTAAAAAAT
1 TAAATAATAATAATAAAAAAC
11195764 TAAAT
1 TAAAT
11195769 CAAAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAATAATAATAATAAAAAAC
Found at i:11196761 original size:7 final size:7
Alignment explanation
Indices: 11196749--11196785 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
11196739 TGTTATTATT
11196749 ATATTTA
1 ATATTTA
11196756 ATATTTA
1 ATATTTA
11196763 ATATTTA
1 ATATTTA
11196770 AT-TATTA
1 ATAT-TTA
11196777 AT-TTTA
1 ATATTTA
11196783 ATA
1 ATA
11196786 AAATTAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATTTA
Found at i:11203012 original size:3 final size:3
Alignment explanation
Indices: 11203004--11203036 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
11202994 TCCATTTCAA
11203004 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11203037 TGGAACACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11206285 original size:3 final size:3
Alignment explanation
Indices: 11206258--11206302 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
11206248 TCAAAAACGA
* * *
11206258 AAT ACAT AAT AGT AAT AAC AAT AAT AAT AAT AAT GAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11206303 CCCACGCGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11209069 original size:16 final size:16
Alignment explanation
Indices: 11209022--11209069 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
11209012 GAGTATATCA
11209022 AAATTAATTACTTAAC
1 AAATTAATTACTTAAC
*
11209038 AAA-T--TTA--TATC
1 AAATTAATTACTTAAC
11209049 AAATTAATTACTTAAC
1 AAATTAATTACTTAAC
11209065 AAATT
1 AAATT
11209070 TTATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
11 6 0.24
12 1 0.04
13 3 0.12
14 3 0.12
15 1 0.04
16 11 0.44
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTAATTACTTAAC
Found at i:11209073 original size:28 final size:28
Alignment explanation
Indices: 11209015--11209070 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
11209005 ACTTATTGAG
11209015 TATATCAAAATTAATTACTTAACAAATT
1 TATATCAAAATTAATTACTTAACAAATT
11209043 TATATC-AAATTAATTACTTAACAAATT
1 TATATCAAAATTAATTACTTAACAAATT
11209070 T
1 T
11209071 TATTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (28 bp):
TATATCAAAATTAATTACTTAACAAATT
Found at i:11210945 original size:6 final size:6
Alignment explanation
Indices: 11210934--11210960 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11210924 AGAGTAAAAA
11210934 TTGATT TTGATT TTGATT TTGATT TTG
1 TTGATT TTGATT TTGATT TTGATT TTG
11210961 TCTTTTTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.19, T:0.67
Consensus pattern (6 bp):
TTGATT
Found at i:11212911 original size:12 final size:12
Alignment explanation
Indices: 11212894--11212918 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11212884 TTTTATTAGC
11212894 ATTGTTCAGTAA
1 ATTGTTCAGTAA
11212906 ATTGTTCAGTAA
1 ATTGTTCAGTAA
11212918 A
1 A
11212919 AATGCAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTGTTCAGTAA
Found at i:11219365 original size:22 final size:22
Alignment explanation
Indices: 11219340--11219405 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
11219330 TTAAATCTTC
11219340 CTTAATTCTAAGGATACAAATA
1 CTTAATTCTAAGGATACAAATA
11219362 CTTAATTCTAAGGATACAAATA
1 CTTAATTCTAAGGATACAAATA
11219384 CTTAATTCT-AGAGATACAAATA
1 CTTAATTCTAAG-GATACAAATA
11219406 TAAATATACA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 2 0.05
22 41 0.95
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAAGGATACAAATA
Found at i:11221250 original size:22 final size:22
Alignment explanation
Indices: 11221222--11221265 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
11221212 CTAAATCTTC
*
11221222 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
11221244 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
11221266 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:11222324 original size:3 final size:3
Alignment explanation
Indices: 11222318--11222343 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11222308 TTAACAGTGG
11222318 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
11222344 CTACTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11222501 original size:28 final size:29
Alignment explanation
Indices: 11222446--11222502 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
11222436 TAGTTCACGT
*
11222446 AATCTTGAAGATTCAGTTGTTTGTTTTAA
1 AATCTTGAAGATTCAGTTGTTTATTTTAA
*
11222475 AATCTTGAAGATT-GGTTGTTTATTTTAA
1 AATCTTGAAGATTCAGTTGTTTATTTTAA
11222503 TAGTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (29 bp):
AATCTTGAAGATTCAGTTGTTTATTTTAA
Found at i:11227167 original size:29 final size:29
Alignment explanation
Indices: 11227125--11227180 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
11227115 GAAAACGCTA
*
11227125 GATTGGCTTGAAGATAAGTAACTAAAGGG
1 GATTGGCTTGAAGATAAGTAACAAAAGGG
11227154 GATTGGCTTGAAGATAAGTAACAAAAG
1 GATTGGCTTGAAGATAAGTAACAAAAG
11227181 AGGTAGCCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.29, T:0.23
Consensus pattern (29 bp):
GATTGGCTTGAAGATAAGTAACAAAAGGG
Found at i:11227978 original size:2 final size:2
Alignment explanation
Indices: 11227971--11228001 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11227961 GATATACGCA
*
11227971 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11228002 CGAATATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11229891 original size:11 final size:10
Alignment explanation
Indices: 11229875--11229913 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
11229865 TACAATAGGA
11229875 AAAAAAAGAAG
1 AAAAAAA-AAG
*
11229886 AAAAAAAAAT
1 AAAAAAAAAG
11229896 AAAAAAAATAG
1 AAAAAAAA-AG
11229907 AAAAAAA
1 AAAAAAA
11229914 GAGGAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.87, C:0.00, G:0.08, T:0.05
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:11231207 original size:21 final size:19
Alignment explanation
Indices: 11231179--11231219 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
11231169 TTTGAAAAAT
11231179 TATTTTAAATAAAAAACTAA
1 TATTTTAAATAAAAAA-TAA
*
11231199 TATTCTTAAGTAAAAAATAA
1 TATT-TTAAATAAAAAATAA
11231219 T
1 T
11231220 TTTGAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (19 bp):
TATTTTAAATAAAAAATAA
Found at i:11236347 original size:18 final size:18
Alignment explanation
Indices: 11236324--11236358 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11236314 ACTAAGATTG
11236324 CAAAAG-CAAAAGTAAAAA
1 CAAAAGCCAAAAG-AAAAA
11236342 CAAAAGCCAAAAGAAAA
1 CAAAAGCCAAAAGAAAA
11236359 GATAACTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.71, C:0.14, G:0.11, T:0.03
Consensus pattern (18 bp):
CAAAAGCCAAAAGAAAAA
Found at i:11241461 original size:17 final size:17
Alignment explanation
Indices: 11241431--11241463 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11241421 GAAACCGTAT
11241431 TGCATGCCATCAAAGAC
1 TGCATGCCATCAAAGAC
11241448 TGCAT-CCATGCAAAGA
1 TGCATGCCAT-CAAAGA
11241464 AGGTATGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.18
Consensus pattern (17 bp):
TGCATGCCATCAAAGAC
Found at i:11246963 original size:2 final size:2
Alignment explanation
Indices: 11246958--11246992 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11246948 TTTTAGTGTG
11246958 TA TA 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 TA TA T
11246993 TTAATTAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11250983 original size:59 final size:58
Alignment explanation
Indices: 11250919--11251221 Score: 294
Period size: 59 Copynumber: 5.1 Consensus size: 58
11250909 ACTTTTATAC
* **
11250919 AAGAAAAATTGATACTTTCAACTTTTCTTTAAAAATATTTTTTTTCAAATTTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCTTCAAAAATA-TTTTTTAAAAATTTTATTTTT
* * * * *
11250978 AAGAAAAATTGGTAC-TTCTAATTTTTCCTCAAGAAATGCTTTTTTAAAAATTTTATTTTC
1 AAGAAAAATTGATACTTTC-AACTTTTCTTCAA-AAAT-ATTTTTTAAAAATTTTATTTTT
* *
11251038 AAGAAAAATTGATATTTTCAACTTTTCCTT-TAAAATATTTTTTAAAAATTTT-TATTTT
1 AAGAAAAATTGATACTTTCAACTTTT-CTTCAAAAATATTTTTTAAAAATTTTAT-TTTT
* *
11251096 AA-AAGGAAATTGATACTTTCAAC-TTTCTCTCAAAAGTATTTTTTGAAAATTTTTATTTTT
1 AAGAA--AAATTGATACTTTCAACTTTTCT-TCAAAAATATTTTTT-AAAAATTTTATTTTT
* * ** *
11251156 AAGAGAAATTGATACATTT-AACTTTCCTTCAAAAATATTTTTTTTCAAATTTTCATTTTA
1 AAGAAAAATTGATAC-TTTCAACTTTTCTTCAAAAATA-TTTTTTAAAAATTTT-ATTTTT
11251216 AAGAAA
1 AAGAAA
11251222 TCATTAAAAA
Statistics
Matches: 200, Mismatches: 27, Indels: 33
0.77 0.10 0.13
Matches are distributed among these distances:
57 5 0.03
58 27 0.14
59 82 0.41
60 79 0.40
61 7 0.04
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.48
Consensus pattern (58 bp):
AAGAAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTAAAAATTTTATTTTT
Found at i:11251091 original size:119 final size:119
Alignment explanation
Indices: 11250918--11251221 Score: 331
Period size: 119 Copynumber: 2.6 Consensus size: 119
11250908 CACTTTTATA
*
11250918 CAAGAAAAATTGATACTTTCAACTTTT-CTTTAAAAATATTTTTTTTCAAA-TTTTATTTTTAAG
1 CAAGAAAAATTGATAATTTCAACTTTTCCTTT-AAAATATTTTTTTTCAAATTTTTATTTTTAAG
* * *
11250981 AAAAATTGGTAC-TTCTAA-TTTTTCCTCAAGAAATGCTTTTTT-AAAAATTTTATTTT
65 AAAAATTGATACTTTC-AACTTTCT-CTCAA-AAAT-ATTTTTTGAAAAATTTTATTTT
* **
11251037 CAAGAAAAATTGATATTTTCAACTTTTCCTTTAAAATA-TTTTTTAAAAATTTTTA-TTTTAA-A
1 CAAGAAAAATTGATAATTTCAACTTTTCCTTTAAAATATTTTTTTTCAAATTTTTATTTTTAAGA
* *
11251099 AGGAAATTGATACTTTCAACTTTCTCTCAAAAGTATTTTTTGAAAATTTTTATTTT
66 A--AAATTGATACTTTCAACTTTCTCTCAAAAATATTTTTTGAAAAATTTTATTTT
* * * * *
11251155 TAAGAGAAATTGATACATTT-AAC-TTTCCTTCAAAAATATTTTTTTTCAAATTTTCATTTTAAA
1 CAAGAAAAATTGATA-ATTTCAACTTTTCCTT-TAAAATATTTTTTTTCAAATTTTTATTTTTAA
11251218 GAAA
64 GAAA
11251222 TCATTAAAAA
Statistics
Matches: 157, Mismatches: 16, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
117 15 0.10
118 53 0.34
119 71 0.45
120 16 0.10
121 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (119 bp):
CAAGAAAAATTGATAATTTCAACTTTTCCTTTAAAATATTTTTTTTCAAATTTTTATTTTTAAGA
AAAATTGATACTTTCAACTTTCTCTCAAAAATATTTTTTGAAAAATTTTATTTT
Found at i:11251322 original size:24 final size:24
Alignment explanation
Indices: 11251277--11251344 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 24
11251267 TAATTTAGTC
11251277 AATAAATAAATAAGAAAAAATAAT
1 AATAAATAAATAAGAAAAAATAAT
* * * *
11251301 AATAATTAATTAATAAATAATAA-
1 AATAAATAAATAAGAAAAAATAAT
*
11251324 AACTAAATGGAA-AAGAAAAAA
1 AA-TAAAT-AAATAAGAAAAAA
11251345 AAAACCTTTG
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
23 2 0.06
24 30 0.91
25 1 0.03
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.22
Consensus pattern (24 bp):
AATAAATAAATAAGAAAAAATAAT
Found at i:11252901 original size:12 final size:12
Alignment explanation
Indices: 11252886--11252910 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11252876 TTTTCTCCCA
11252886 TATTTTCTATTC
1 TATTTTCTATTC
11252898 TATTTTCTATTC
1 TATTTTCTATTC
11252910 T
1 T
11252911 CCTCATGTCA
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:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTTCTATTC
Found at i:11253375 original size:3 final size:3
Alignment explanation
Indices: 11253369--11253404 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
11253359 TCATCATCAA
11253369 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11253405 ATAAAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11254728 original size:3 final size:3
Alignment explanation
Indices: 11254720--11254850 Score: 109
Period size: 3 Copynumber: 46.3 Consensus size: 3
11254710 GGATCGATTT
* * *
11254720 TTA TTA TTA GTA TTA TTT TTA -TA TTA -TA TT- TTA TTA -TA GTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
11254763 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA CTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
11254811 TATA ATA TT- GTA TTA -TA TT- TTA -TA TTA CTA TTA TTA TTA T
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11254851 ATGGTATTGT
Statistics
Matches: 103, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
2 17 0.17
3 85 0.83
4 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:11254837 original size:39 final size:39
Alignment explanation
Indices: 11254779--11254876 Score: 97
Period size: 39 Copynumber: 2.4 Consensus size: 39
11254769 TTATTATTAT
*
11254779 TATTATTATTATTATTATTATTAGTACTATAATATAATATTG
1 TATTA-TATT-TTA-TATTACTAGTACTATAATATAATATTG
* * * **
11254821 TATTATATTTTATATTACTATTATTATTATATGGTATTG
1 TATTATATTTTATATTACTAGTACTATAATATAATATTG
*
11254860 TATTATATATTTTTATT
1 TATTATAT-TTTATATT
11254877 TTTATTTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 29 0.60
40 10 0.21
41 4 0.08
42 5 0.10
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (39 bp):
TATTATATTTTATATTACTAGTACTATAATATAATATTG
Found at i:11254878 original size:6 final size:6
Alignment explanation
Indices: 11254867--11254891 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11254857 TTGTATTATA
11254867 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
11254892 CTTCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:11255294 original size:20 final size:19
Alignment explanation
Indices: 11255269--11255320 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
11255259 AGGTTTGATT
11255269 TTAAGTTTTTGGGTTAGGA
1 TTAAGTTTTTGGGTTAGGA
* * *
11255288 TTCAAGTTTCTAGGTTTGGGA
1 TT-AAGTTT-TTGGGTTAGGA
11255309 TTAAGTTTTTGG
1 TTAAGTTTTTGG
11255321 AAAAATTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 10 0.37
ACGTcount: A:0.19, C:0.04, G:0.29, T:0.48
Consensus pattern (19 bp):
TTAAGTTTTTGGGTTAGGA
Found at i:11255719 original size:19 final size:19
Alignment explanation
Indices: 11255692--11255782 Score: 85
Period size: 19 Copynumber: 4.6 Consensus size: 19
11255682 AATTGCAAGT
* *
11255692 TTTTCTTTTTTCATTTTTA
1 TTTTATTTTTTAATTTTTA
*
11255711 TTTTATTTTTTAATTTTAA
1 TTTTATTTTTTAATTTTTA
*
11255730 TTTCATTATTTTAAGTTTTTA
1 TTTTATT-TTTTAA-TTTTTA
**
11255751 TTTTATTTTATTGGTTTTTA
1 TTTTATTTT-TTAATTTTTA
11255771 -TTTATTTATTTA
1 TTTTATTT-TTTA
11255783 TTTGCATTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
19 31 0.53
20 15 0.25
21 13 0.22
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTATTTTTTAATTTTTA
Found at i:11257044 original size:18 final size:17
Alignment explanation
Indices: 11257023--11257056 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11257013 GCTGACAACT
11257023 TTTTCTCTTTTTTTTTTG
1 TTTT-TCTTTTTTTTTTG
*
11257041 TTTTTGTTTTTTTTTT
1 TTTTTCTTTTTTTTTT
11257057 ATCCCAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTG
Found at i:11264279 original size:51 final size:51
Alignment explanation
Indices: 11264219--11264360 Score: 196
Period size: 51 Copynumber: 2.8 Consensus size: 51
11264209 AAATAAAATC
*
11264219 TTACATACTTGCTAACACAAAAATATGAGATGACATCTAATCATTCAAAGA
1 TTACATACTTGCTAACACAAAAATATGTGATGACATCTAATCATTCAAAGA
* * * *
11264270 TTACATACTTACTATCACAGAAATATGTGATGACATCTAGTCATTCAAAGA
1 TTACATACTTGCTAACACAAAAATATGTGATGACATCTAATCATTCAAAGA
* * *
11264321 TTACACACTTAG-TACCACAAAAATATGTGATCACATCTAA
1 TTACATACTT-GCTAACACAAAAATATGTGATGACATCTAA
11264361 AATGCTATAG
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 79 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (51 bp):
TTACATACTTGCTAACACAAAAATATGTGATGACATCTAATCATTCAAAGA
Found at i:11265618 original size:19 final size:19
Alignment explanation
Indices: 11265580--11265668 Score: 94
Period size: 19 Copynumber: 4.7 Consensus size: 19
11265570 AAAAATCACC
* *
11265580 AAATAAAGT-AAATAATAA
1 AAATAAAATCAAAAAATAA
*
11265598 AAATGAAAT-AAAAACATAA
1 AAATAAAATCAAAAA-ATAA
* *
11265617 AATATAAAATGAAAAAATCA
1 AA-ATAAAATCAAAAAATAA
11265637 AAATAAAATCAAAAAATAA
1 AAATAAAATCAAAAAATAA
11265656 AAATAAAAT-AAAA
1 AAATAAAATCAAAA
11265669 TAAAACCTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
18 15 0.25
19 30 0.49
20 11 0.18
21 5 0.08
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (19 bp):
AAATAAAATCAAAAAATAA
Found at i:11265646 original size:11 final size:11
Alignment explanation
Indices: 11265630--11265673 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 11
11265620 ATAAAATGAA
11265630 AAAATCAAAAT
1 AAAATCAAAAT
11265641 AAAATC--AA-
1 AAAATCAAAAT
*
11265649 AAAATAAAAAT
1 AAAATCAAAAT
11265660 AAAAT-AAAAT
1 AAAATCAAAAT
11265670 AAAA
1 AAAA
11265674 CCTGTAATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
8 5 0.17
9 2 0.07
10 11 0.38
11 11 0.38
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATCAAAAT
Found at i:11266509 original size:5 final size:5
Alignment explanation
Indices: 11266501--11266567 Score: 75
Period size: 5 Copynumber: 13.0 Consensus size: 5
11266491 AAATAAAGTA
*
11266501 ATAAT ATAAT ATAAT ATAAT ATAAT AT-A- ATAAT ATAAT ATAAT ACTAACA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-TAA-T
11266551 ATAAT AATAAT AATAAT
1 ATAAT -ATAAT -ATAAT
11266568 GATACTAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 33 0.60
6 17 0.31
7 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:11266534 original size:3 final size:3
Alignment explanation
Indices: 11266499--11266608 Score: 99
Period size: 3 Copynumber: 39.0 Consensus size: 3
11266489 GGAAATAAAG
11266499 TAA TAA T-A TAA T-A TAA T-A TAA T-A TAA T-A TAA TAA T-A TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
11266540 TAA TAC TAA CAA TAA TAA TAA TAA TAA TGA TAC TAA TAA CAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
11266588 TAA TAG TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
11266609 AAAATTGACT
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
2 14 0.16
3 71 0.84
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11267496 original size:35 final size:35
Alignment explanation
Indices: 11267450--11267516 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
11267440 GTATTCCTAA
11267450 TGCATATAAAAGTCTCATTTCAATTTCCAAATTCT
1 TGCATATAAAAGTCTCATTTCAATTTCCAAATTCT
*
11267485 TGCATATAAAAGTTTCATTTCAATTTCCAAAT
1 TGCATATAAAAGTCTCATTTCAATTTCCAAAT
11267517 CCTATCATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (35 bp):
TGCATATAAAAGTCTCATTTCAATTTCCAAATTCT
Found at i:11267550 original size:15 final size:15
Alignment explanation
Indices: 11267524--11267565 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
11267514 AATCCTATCA
*
11267524 TTTTAACTTTTTGTT-
1 TTTTAA-TTTTTTTTC
11267539 TTTTAATTTTTTTTC
1 TTTTAATTTTTTTTC
*
11267554 TTTTTATTTTTT
1 TTTTAATTTTTT
11267566 AGTCAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (15 bp):
TTTTAATTTTTTTTC
Found at i:11276800 original size:27 final size:28
Alignment explanation
Indices: 11276754--11276852 Score: 105
Period size: 27 Copynumber: 3.5 Consensus size: 28
11276744 AAGAAAAATT
*
11276754 AAAATTAAAAAATTTTAAAATTTT-A-A
1 AAAATTAAAAAATTTAAAAATTTTCAGA
*
11276780 AAAATCTAAAAAATCTAAAAATTTTCAGA
1 AAAAT-TAAAAAATTTAAAAATTTTCAGA
* **
11276809 AAAA-TAAAAAATTTCAAAATTTTTTTGA
1 AAAATTAAAAAATTT-AAAAATTTTCAGA
11276837 AAAATATAAAAAATTT
1 AAAAT-TAAAAAATTT
11276853 GGAAAAGTAC
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.08
27 26 0.43
28 15 0.25
29 5 0.08
30 10 0.16
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAATTAAAAAATTTAAAAATTTTCAGA
Found at i:11276801 original size:8 final size:9
Alignment explanation
Indices: 11276754--11276800 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
11276744 AAGAAAAATT
11276754 AAAAT-TAA
1 AAAATCTAA
* *
11276762 AAAATTTTA
1 AAAATCTAA
* *
11276771 AAATTTTAA
1 AAAATCTAA
11276780 AAAATCTAA
1 AAAATCTAA
11276789 AAAATCTAA
1 AAAATCTAA
11276798 AAA
1 AAA
11276801 TTTTCAGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
8 5 0.15
9 28 0.85
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAATCTAA
Found at i:11276949 original size:19 final size:19
Alignment explanation
Indices: 11276899--11276960 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
11276889 AAGAATTAAA
* * *
11276899 AAAATTCCCAAAAATCTTA
1 AAAATTTCCAAAAATTTTT
**
11276918 AAAATTTTGAAAAATTTTT
1 AAAATTTCCAAAAATTTTT
*
11276937 AAAATTTCCAAAAAATTTT
1 AAAATTTCCAAAAATTTTT
11276956 AAAAT
1 AAAAT
11276961 ATGAAAAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTTCCAAAAATTTTT
Found at i:11276959 original size:9 final size:9
Alignment explanation
Indices: 11276908--11276959 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
11276898 AAAAATTCCC
*
11276908 AAAAATCTT
1 AAAAATTTT
11276917 AAAAATTTT
1 AAAAATTTT
11276926 GAAAAATTTT
1 -AAAAATTTT
* *
11276936 TAAAATTTCCA
1 AAAAATTT--T
11276947 AAAAATTTT
1 AAAAATTTT
11276956 AAAA
1 AAAA
11276960 TATGAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 19 0.54
10 9 0.26
11 7 0.20
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (9 bp):
AAAAATTTT
Found at i:11276968 original size:19 final size:19
Alignment explanation
Indices: 11276927--11276969 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
11276917 AAAAATTTTG
* * *
11276927 AAAAATTTTTAAAATTTCC
1 AAAAAATTTTAAAATATCA
*
11276946 AAAAAATTTTAAAATATGA
1 AAAAAATTTTAAAATATCA
11276965 AAAAA
1 AAAAA
11276970 TATGAAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAAATTTTAAAATATCA
Found at i:11277034 original size:47 final size:46
Alignment explanation
Indices: 11276928--11277034 Score: 108
Period size: 47 Copynumber: 2.3 Consensus size: 46
11276918 AAAATTTTGA
* * *
11276928 AAAATTTTTAAAATTTCCAAAAAATTTTAAAATATGAAAAAATATG
1 AAAATTTTTAAAAATTCAAAAAAATTTTAAAAAATGAAAAAATATG
**** *
11276974 AAAATCCAAAAAAATTCAAAAACAAATTTTAAAAAAT-AAAAAATATT
1 AAAATTTTTAAAAATTC-AAAA-AAATTTTAAAAAATGAAAAAATATG
*
11277021 AAGATTTTTAAAAA
1 AAAATTTTTAAAAA
11277035 AAATTCAAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
46 12 0.26
47 21 0.46
48 13 0.28
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.30
Consensus pattern (46 bp):
AAAATTTTTAAAAATTCAAAAAAATTTTAAAAAATGAAAAAATATG
Found at i:11277659 original size:22 final size:22
Alignment explanation
Indices: 11277626--11277667 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
11277616 CCTATTTGGA
11277626 TTTTCAAAATTTAAAAATTTTTG
1 TTTTCAAAATTT-AAAATTTTTG
*
11277649 TTTT-AAAATTTTAAATTTT
1 TTTTCAAAATTTAAAATTTT
11277668 AAAATTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTCAAAATTTAAAATTTTTG
Found at i:11277747 original size:21 final size:20
Alignment explanation
Indices: 11277705--11277751 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
11277695 AAAATTTTTC
* **
11277705 ATTTTCTTGAATTTTTGGTA
1 ATTTTTTTGAATTTTTACTA
11277725 ATTTTTTTGAATTTGTTACTA
1 ATTTTTTTGAATTT-TTACTA
11277746 ATTTTT
1 ATTTTT
11277752 AATTACTCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.21, C:0.04, G:0.11, T:0.64
Consensus pattern (20 bp):
ATTTTTTTGAATTTTTACTA
Found at i:11277792 original size:13 final size:13
Alignment explanation
Indices: 11277776--11277800 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11277766 TATGAATTTG
11277776 TTTTTTATTTTTA
1 TTTTTTATTTTTA
11277789 TTTTTTATTTTT
1 TTTTTTATTTTT
11277801 TGAATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:11287004 original size:12 final size:12
Alignment explanation
Indices: 11286989--11287024 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
11286979 TCAATGGATA
*
11286989 TTTCAATTTCAT
1 TTTCATTTTCAT
11287001 TTTCATTTTCAT
1 TTTCATTTTCAT
*
11287013 TTCCATTTTCAT
1 TTTCATTTTCAT
11287025 AGGTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTCATTTTCAT
Found at i:11287010 original size:18 final size:18
Alignment explanation
Indices: 11286989--11287024 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
11286979 TCAATGGATA
11286989 TTTCAATTT-CATTTTCAT
1 TTTC-ATTTCCATTTTCAT
11287007 TTTCATTTCCATTTTCAT
1 TTTCATTTCCATTTTCAT
11287025 AGGTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTCATTTCCATTTTCAT
Found at i:11294487 original size:12 final size:12
Alignment explanation
Indices: 11294470--11294508 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
11294460 TGTAAATTTG
11294470 AATTTAATTTAA
1 AATTTAATTTAA
11294482 AATTTAAAATTTAA
1 AATTT--AATTTAA
*
11294496 AAATTAATTTAA
1 AATTTAATTTAA
11294508 A
1 A
11294509 TTCAATCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AATTTAATTTAA
Found at i:11296710 original size:5 final size:5
Alignment explanation
Indices: 11296700--11296737 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
11296690 AAGTACGTTA
11296700 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
11296738 TAATTGTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:11296758 original size:11 final size:12
Alignment explanation
Indices: 11296736--11296773 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
11296726 AAATAAAATA
11296736 AATAATTGTGAT
1 AATAATTGTGAT
11296748 AATAA-TGTGAT
1 AATAATTGTGAT
*
11296759 AA-AATTATGAT
1 AATAATTGTGAT
11296770 AATA
1 AATA
11296774 CTGCATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 2 0.09
11 15 0.65
12 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (12 bp):
AATAATTGTGAT
Found at i:11299419 original size:2 final size:2
Alignment explanation
Indices: 11299412--11299449 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
11299402 TTTCGTTATC
*
11299412 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11299450 CTTTTTACAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:11319327 original size:3 final size:3
Alignment explanation
Indices: 11319321--11319370 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
11319311 TCAAACAAAC
11319321 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11319369 AT
1 AT
11319371 TATCATAACG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11319964 original size:16 final size:18
Alignment explanation
Indices: 11319935--11319973 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
11319925 CACAAATTTA
*
11319935 TTTTATTTGAAAAAG-AT
1 TTTTTTTTGAAAAAGAAT
11319952 TTTTTTTTG-AAAAGAAT
1 TTTTTTTTGAAAAAGAAT
11319969 TTTTT
1 TTTTT
11319974 GAGAACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
TTTTTTTTGAAAAAGAAT
Found at i:11320165 original size:16 final size:16
Alignment explanation
Indices: 11320106--11320164 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
11320096 AGCAAAATAA
*
11320106 AAAAATGAAAATAAAAT
1 AAAAAT-AAAAGAAAAT
**
11320123 ACAAAATTTAAGAAAAT
1 A-AAAATAAAAGAAAAT
11320140 AAAAATAAAAGAAAAT
1 AAAAATAAAAGAAAAT
11320156 -AAAATAAAA
1 AAAAATAAAA
11320165 ATGGAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 9 0.25
16 13 0.36
17 9 0.25
18 5 0.14
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (16 bp):
AAAAATAAAAGAAAAT
Found at i:11320565 original size:21 final size:22
Alignment explanation
Indices: 11320520--11320574 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
11320510 CAAAAAAAAT
*
11320520 CTAGATTT-TC-CAAACTTTTC
1 CTAGATTTCTCTCAAACTTTAC
11320540 C-AGATTTCTCTCAAA-TTTAC
1 CTAGATTTCTCTCAAACTTTAC
11320560 CTAGATTTCT-TCAAA
1 CTAGATTTCTCTCAAA
11320575 AACTCTCCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 6 0.19
20 13 0.42
21 12 0.39
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.42
Consensus pattern (22 bp):
CTAGATTTCTCTCAAACTTTAC
Found at i:11320613 original size:20 final size:21
Alignment explanation
Indices: 11320585--11320627 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11320575 AACTCTCCTG
*
11320585 AAACTTAAAT-TAAACCCCTA
1 AAACCTAAATCTAAACCCCTA
*
11320605 AAACCTAAATCTAAACCCGTA
1 AAACCTAAATCTAAACCCCTA
11320626 AA
1 AA
11320628 CTTCAAATCA
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:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (21 bp):
AAACCTAAATCTAAACCCCTA
Found at i:11320635 original size:21 final size:21
Alignment explanation
Indices: 11320585--11320636 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
11320575 AACTCTCCTG
11320585 AAACTTAAAT-TAAACCCCTA
1 AAACTTAAATCTAAACCCCTA
* *
11320605 AAACCTAAATCTAAACCCGT-
1 AAACTTAAATCTAAACCCCTA
11320625 AAACTTCAAATC
1 AAACTT-AAATC
11320637 AAATTTCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (21 bp):
AAACTTAAATCTAAACCCCTA
Found at i:11320991 original size:3 final size:3
Alignment explanation
Indices: 11320985--11321109 Score: 51
Period size: 3 Copynumber: 42.0 Consensus size: 3
11320975 AAAAAATATA
* * * * * * * *
11320985 AAT AAT AAT AAT AAT AAT AAT GAT GAT GAT GAT GAT GAT GAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
11321033 AAT AAC AAT AAT AAT AA- AAT -GT AAT -AT AAT ACCAT ATAT TAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT A-AT AAT AAT
* * * *
11321078 AAT AAC AAT AAT AGT AAA AAT AGT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11321110 CATATGATAT
Statistics
Matches: 97, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
2 7 0.07
3 85 0.88
4 2 0.02
5 3 0.03
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11321160 original size:21 final size:21
Alignment explanation
Indices: 11321136--11321178 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11321126 AATAATAAAA
* *
11321136 ATGGTCCAATTGACCTCGGAC
1 ATGGCCCAATCGACCTCGGAC
*
11321157 ATGGCCCGATCGACCTCGGAC
1 ATGGCCCAATCGACCTCGGAC
11321178 A
1 A
11321179 CAAACGAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.19
Consensus pattern (21 bp):
ATGGCCCAATCGACCTCGGAC
Found at i:11321729 original size:119 final size:119
Alignment explanation
Indices: 11321369--11321705 Score: 410
Period size: 118 Copynumber: 2.8 Consensus size: 119
11321359 TGGCCGAAAT
* * *
11321369 CATGAGTCAAAATGAAATGACCAAGACTGAGTCAAGGTCGAAAGTAAATGATTGGGATGAAACCA
1 CATGAGTCAAAATGAAATGACCAAGACAGAGTCAAGGTCGAAAATAAATGAATGGGATGAAACCA
* * * *
11321434 TAAATCATATGAAATGATTTGTACTGAGCCAAAATCAAGTGACTGAGACAAAAC
66 TAAATCATAAGAAATGATATGGACTGAGCCAAGATCAAGTGACTGAGACAAAAC
** * * * *
11321488 CATGAGT-AAAACAAAATGACCAAGACAGAGTCAAGGTTGAAGATAAA-CAATCGGGATGAAATC
1 CATGAGTCAAAATGAAATGACCAAGACAGAGTCAAGGTCGAAAATAAATGAAT-GGGATGAAACC
* * * **
11321551 ATAAATCA-AATGAAATGATCTAGACTGAGCCAAGATCAAATGACCAAGACAAAAC
65 ATAAATCATAA-GAAATGATATGGACTGAGCCAAGATCAAGTGACTGAGACAAAAC
* * * *
11321606 CATGAGTCAAAATGAAATGACCAAGACCGAGTCGAGGTCGAAAATAAATGACTGGGATAAAACCA
1 CATGAGTCAAAATGAAATGACCAAGACAGAGTCAAGGTCGAAAATAAATGAATGGGATGAAACCA
* * *
11321671 TGAGTCATAAGAAATGATATGGACTGAGCTAAGAT
66 TAAATCATAAGAAATGATATGGACTGAGCCAAGAT
11321706 TGGGTGATTG
Statistics
Matches: 181, Mismatches: 32, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
117 3 0.02
118 96 0.53
119 78 0.43
120 4 0.02
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (119 bp):
CATGAGTCAAAATGAAATGACCAAGACAGAGTCAAGGTCGAAAATAAATGAATGGGATGAAACCA
TAAATCATAAGAAATGATATGGACTGAGCCAAGATCAAGTGACTGAGACAAAAC
Found at i:11322031 original size:86 final size:85
Alignment explanation
Indices: 11321920--11322174 Score: 285
Period size: 86 Copynumber: 3.0 Consensus size: 85
11321910 TCACAAAGAC
* * * * * **
11321920 TTTCAGATTCGTAAGATAGAAAGATTCAAAAGATTTCAAGTTTCATAAAGGTGCTAGGCTCGCAA
1 TTTCAAATTCGTAAGAAAGAAAGATTCGAAAGACTTCAAGTTTCACAAAGGT-CTAGATTCGCAA
*
11321985 AGATGTAAGATTTGTAAGGAT
65 AGATGTAAGATTCGTAAGGAT
* * * * * *
11322006 TTTCAAATTCATAAGAAAGAAAGATTTGTAAGACGTCAAGTTTCGCAAAGGTTCTAGATTCACAA
1 TTTCAAATTCGTAAGAAAGAAAGATTCGAAAGACTTCAAGTTTCACAAAGG-TCTAGATTCGCAA
* *
11322071 AGATGCAAGATTCGTAAAGAT
65 AGATGTAAGATTCGTAAGGAT
* * * * *
11322092 TTTCAAATTTGTAAGAAAAAAAGATTCGCAAGACTCCAAGTTTCACAAAGGCTCTAGATTCGTAA
1 TTTCAAATTCGTAAGAAAGAAAGATTCGAAAGACTTCAAGTTTCACAAAGG-TCTAGATTCGCAA
*
11322157 AAATGTAAGATTCGTAAG
65 AGATGTAAGATTCGTAAG
11322175 AAAAAAAAAT
Statistics
Matches: 138, Mismatches: 30, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
86 137 0.99
87 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (85 bp):
TTTCAAATTCGTAAGAAAGAAAGATTCGAAAGACTTCAAGTTTCACAAAGGTCTAGATTCGCAAA
GATGTAAGATTCGTAAGGAT
Found at i:11322203 original size:68 final size:68
Alignment explanation
Indices: 11322102--11322228 Score: 200
Period size: 68 Copynumber: 1.9 Consensus size: 68
11322092 TTTCAAATTT
* * *
11322102 GTAAGAAAAAAAGATTCGCAAGACTCCAAGTTTCACAAAGGCTCTAGATTCGTAAAAATGTAAGA
1 GTAAGAAAAAAAAATTCACAAGACTCCAAGTTTCACAAAGGCTCTAGATTCATAAAAATGTAAGA
11322167 TTC
66 TTC
* **
11322170 GTAAGAAAAAAAAATTCACAAGACTCTAAGTTTCGTAAAGGCTCTAGATTCATAAAAAT
1 GTAAGAAAAAAAAATTCACAAGACTCCAAGTTTCACAAAGGCTCTAGATTCATAAAAAT
11322229 ACAAGACTCG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 53 1.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (68 bp):
GTAAGAAAAAAAAATTCACAAGACTCCAAGTTTCACAAAGGCTCTAGATTCATAAAAATGTAAGA
TTC
Found at i:11322313 original size:87 final size:87
Alignment explanation
Indices: 11322164--11322380 Score: 264
Period size: 87 Copynumber: 2.5 Consensus size: 87
11322154 TAAAAATGTA
* * *
11322164 AGATTCGTAAGAAAAAAAAATTCACAAGAC-TCTAAGTTTCGTAAAGGCTCTAGATTCATAAAAA
1 AGATTTGTAAGAAAGAAAAATTCACAAGACTTC-AAGTTTCGTAAAGGCTCTACATTCATAAAAA
11322228 TACAAGACTCGTAAAGATTTTTT
65 TACAAGACTCGTAAAGATTTTTT
* * *
11322251 AGATTTGTAAGAAAGAAAGATTCACAAGACTTCAAGTTTCGTAAATGTTCTACATT-AGTAAAAA
1 AGATTTGTAAGAAAGAAAAATTCACAAGACTTCAAGTTTCGTAAAGGCTCTACATTCA-TAAAAA
* * *
11322315 TGCAAGATTCGTAAGGATTTTTT
65 TACAAGACTCGTAAAGATTTTTT
* * *
11322338 --ATTCT-CAAGAAAGAAAAATTTACAAGATTTCAAGTTTCGTAAA
1 AGATT-TGTAAGAAAGAAAAATTCACAAGACTTCAAGTTTCGTAAA
11322381 AGTAAAAAAA
Statistics
Matches: 114, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
85 37 0.32
86 2 0.02
87 73 0.64
88 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (87 bp):
AGATTTGTAAGAAAGAAAAATTCACAAGACTTCAAGTTTCGTAAAGGCTCTACATTCATAAAAAT
ACAAGACTCGTAAAGATTTTTT
Found at i:11322347 original size:155 final size:154
Alignment explanation
Indices: 11322035--11322329 Score: 403
Period size: 155 Copynumber: 1.9 Consensus size: 154
11322025 AAAGATTTGT
* * * *
11322035 AAGACGTCAAGTTTCGCAAAGGTTCTAGATTCACAAAGATGCAAGATTCGTAAAGATTTTCAAAT
1 AAGACGTCAAGTTTCGCAAAGGCTCTAGATTCACAAAAATACAAGACTCGTAAAGATTTTCAAAT
* * * *
11322100 TTGTAAGAAAAAAAGATTCGCAAGACTCCAAGTTTCACAAAGGCTCTAGATTCGTAAAAATGTAA
66 TTGTAAGAAAAAAAGATTCACAAGACTCCAAGTTTCACAAAGGCTCTACATTAGTAAAAATGCAA
11322165 GATTCGTAAGAAAAAAAAATTCAC
131 GATTCGTAAGAAAAAAAAATTCAC
* * * *
11322189 AAGAC-TCTAAGTTTCGTAAAGGCTCTAGATTCATAAAAATACAAGACTCGTAAAGATTTTTTAG
1 AAGACGTC-AAGTTTCGCAAAGGCTCTAGATTCACAAAAATACAAGACTCGTAAAGA-TTTTCAA
* * ** * *
11322253 ATTTGTAAGAAAGAAAGATTCACAAGACTTCAAGTTTCGTAAATGTTCTACATTAGTAAAAATGC
64 ATTTGTAAGAAAAAAAGATTCACAAGACTCCAAGTTTCACAAAGGCTCTACATTAGTAAAAATGC
11322318 AAGATTCGTAAG
129 AAGATTCGTAAG
11322330 GATTTTTTAT
Statistics
Matches: 121, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
153 2 0.02
154 47 0.39
155 72 0.60
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (154 bp):
AAGACGTCAAGTTTCGCAAAGGCTCTAGATTCACAAAAATACAAGACTCGTAAAGATTTTCAAAT
TTGTAAGAAAAAAAGATTCACAAGACTCCAAGTTTCACAAAGGCTCTACATTAGTAAAAATGCAA
GATTCGTAAGAAAAAAAAATTCAC
Found at i:11323453 original size:25 final size:24
Alignment explanation
Indices: 11323424--11323473 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
11323414 TAAGTCTTCA
*
11323424 TTTTTCCTCATTTGTCTTTTTTTTT
1 TTTTTCCTCATTTGT-TTCTTTTTT
* *
11323449 TTTTTCTTTATTTGTTTCTTTTTT
1 TTTTTCCTCATTTGTTTCTTTTTT
11323473 T
1 T
11323474 GGCACATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.80
Consensus pattern (24 bp):
TTTTTCCTCATTTGTTTCTTTTTT
Found at i:11323489 original size:79 final size:77
Alignment explanation
Indices: 11323324--11323473 Score: 187
Period size: 79 Copynumber: 1.9 Consensus size: 77
11323314 CGCCCTTTTA
*
11323324 GGTTTTTAGTTTAAGTCTTTCTTTTTTCTCTTTGTCTCTTTATTTTATTTTATTTTTGTTTCTTT
1 GGTTTTTAGTTTAAGTCTTTCTTTTTCCTCTTTGTCTCTTTATTTTATTTTATTTTTGTTTCTTT
11323389 TTTTTAGCCTTT
66 TTTTTAGCCTTT
* * * *
11323401 CGGGGTTTTAGTTTAAGTC-TTCATTTTTCCTCATTTGTCT-TTTTTTTTTTTTTCTTTATTTGT
1 --GGTTTTTAGTTTAAGTCTTTC-TTTTTCCTC-TTTGTCTCTTTATTTTATTTT-ATT-TTTGT
11323464 TTCTTTTTTT
60 TTCTTTTTTT
11323474 GGCACATTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
78 3 0.05
79 35 0.56
80 9 0.15
81 15 0.24
ACGTcount: A:0.09, C:0.12, G:0.10, T:0.69
Consensus pattern (77 bp):
GGTTTTTAGTTTAAGTCTTTCTTTTTCCTCTTTGTCTCTTTATTTTATTTTATTTTTGTTTCTTT
TTTTTAGCCTTT
Found at i:11327267 original size:17 final size:16
Alignment explanation
Indices: 11327239--11327279 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
11327229 TAACAAATTT
11327239 ATTTTA-TTTGAAAAAG
1 ATTTTATTTTG-AAAAG
11327255 ATTTTATTTTGAAAAG
1 ATTTTATTTTGAAAAG
11327271 ATTTT-TTTT
1 ATTTTATTTT
11327280 AATAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.17
16 16 0.67
17 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
ATTTTATTTTGAAAAG
Found at i:11327402 original size:18 final size:18
Alignment explanation
Indices: 11327359--11327402 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11327349 TTTTTTGGTC
11327359 TTTTTCTTTCCCTTCTTT
1 TTTTTCTTTCCCTTCTTT
*
11327377 TTTATTCTTT-GCTTCTTT
1 TTT-TTCTTTCCCTTCTTT
11327395 TGTTTTCT
1 T-TTTTCT
11327403 AGGAAAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTTCTTTCCCTTCTTT
Found at i:11327498 original size:16 final size:16
Alignment explanation
Indices: 11327440--11327497 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
11327430 AGAAAAATAA
*
11327440 AAAAATGAAAATAAAAT
1 AAAAAT-AAAAGAAAAT
*
11327457 AAAAACT-TAAGAAAAT
1 AAAAA-TAAAAGAAAAT
11327473 AAAAATAAAAGAAAAT
1 AAAAATAAAAGAAAAT
11327489 -AAAATAAAA
1 AAAAATAAAA
11327498 AATAAAATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 10 0.28
16 20 0.56
17 5 0.14
18 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (16 bp):
AAAAATAAAAGAAAAT
Found at i:11327505 original size:27 final size:26
Alignment explanation
Indices: 11327432--11327516 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
11327422 TTTGGACTAG
* *
11327432 AAAAATAAAAAAATGAAAATAAAATAA
1 AAAAAT-AAAAAATAAAAATAAAAAAA
**
11327459 AAACTTAAGAAAATAAAAATAAAAGAAA
1 AAAAATAA-AAAATAAAAATAAAA-AAA
*
11327487 ATAAAATAAAAAAT-AAAATGAAAAAA
1 A-AAAATAAAAAATAAAAATAAAAAAA
11327513 AAAA
1 AAAA
11327517 CCTACGATCA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
25 3 0.06
26 6 0.12
27 26 0.54
28 8 0.17
29 5 0.10
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.14
Consensus pattern (26 bp):
AAAAATAAAAAATAAAAATAAAAAAA
Found at i:11327513 original size:16 final size:15
Alignment explanation
Indices: 11327465--11327515 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 15
11327455 ATAAAAACTT
11327465 AAGAAAATAAAAATAA
1 AAGAAAATAAAAA-AA
11327481 AAGAAAATAAAATAAAA
1 AAGAAAAT-AAA-AAAA
*
11327498 AATAAAATGAAAAAAA
1 AAGAAAAT-AAAAAAA
11327514 AA
1 AA
11327516 ACCTACGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 14 0.45
17 15 0.48
18 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (15 bp):
AAGAAAATAAAAAAA
Found at i:11328327 original size:3 final size:3
Alignment explanation
Indices: 11328319--11328433 Score: 119
Period size: 3 Copynumber: 38.3 Consensus size: 3
11328309 TATAAAAGAG
11328319 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
11328367 AAT AAT AAT -GT AAT -AT AAT ACCAT ATAT TAT ACT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A--AT A-AT AAT AAT AAT AAT AAT AAT
* * *
11328413 AGT AAA AAT AGT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
11328434 CTATAATATA
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
2 5 0.05
3 82 0.89
4 2 0.02
5 3 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:11328524 original size:3 final size:3
Alignment explanation
Indices: 11328516--11328560 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
11328506 GGATGTCCAC
11328516 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11328561 GATGATGATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11329395 original size:13 final size:13
Alignment explanation
Indices: 11329377--11329405 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11329367 ATTTATTAAT
11329377 AAATTTAATTTTA
1 AAATTTAATTTTA
11329390 AAATTTAATTTTA
1 AAATTTAATTTTA
11329403 AAA
1 AAA
11329406 ATATTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTTAATTTTA
Found at i:11329426 original size:22 final size:22
Alignment explanation
Indices: 11329387--11329428 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11329377 AAATTTAATT
*
11329387 TTAAAATTTAATTTTAAAAATA
1 TTAAAATTTAATTATAAAAATA
11329409 TTAAAATATTAA-TATAAAAA
1 TTAAAAT-TTAATTATAAAAA
11329429 CATTTTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAAATTTAATTATAAAAATA
Found at i:11341630 original size:20 final size:20
Alignment explanation
Indices: 11341601--11341640 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11341591 ATTATCATTA
*
11341601 TTATTATTTTTATATTGTTT
1 TTATTATTTTAATATTGTTT
*
11341621 TTATTTTTTTAATATTGTTT
1 TTATTATTTTAATATTGTTT
11341641 AACTAAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (20 bp):
TTATTATTTTAATATTGTTT
Found at i:11341857 original size:15 final size:16
Alignment explanation
Indices: 11341836--11341869 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11341826 TTTTTTAAAA
*
11341836 AAAAATTCATTTTTTT
1 AAAATTTCATTTTTTT
*
11341852 AAAATTTTATTTTTTT
1 AAAATTTCATTTTTTT
11341868 AA
1 AA
11341870 CAAAAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
AAAATTTCATTTTTTT
Found at i:11342098 original size:3 final size:3
Alignment explanation
Indices: 11342090--11342132 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
11342080 ATAAAATAGC
*
11342090 AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11342133 TCATAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:11342183 original size:12 final size:12
Alignment explanation
Indices: 11342168--11342216 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
11342158 AATCAACACA
*
11342168 AAAAAATAAAAT
1 AAAAAATAAAAC
*
11342180 AAAAATTAAAAC
1 AAAAAATAAAAC
*
11342192 AAAAAATAAAAAG
1 AAAAAAT-AAAAC
*
11342205 AAAAAAAAAAAC
1 AAAAAATAAAAC
11342217 CTACCAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.10
Consensus pattern (12 bp):
AAAAAATAAAAC
Found at i:11342203 original size:25 final size:24
Alignment explanation
Indices: 11342136--11342209 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 24
11342126 AATAATATCA
11342136 TAAAA-AAATAAAAAAGAATAAAAAT
1 TAAAACAAA-AAAAAA-AATAAAAAT
* *
11342161 CAACACAAAAAAATAAAATAAAAAT
1 TAAAACAAAAAAA-AAAATAAAAAT
*
11342186 TAAAACAAAAAATAAAAAGAAAAA
1 TAAAACAAAAAA-AAAAATAAAAA
11342210 AAAAAACCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
25 35 0.85
26 6 0.15
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (24 bp):
TAAAACAAAAAAAAAAATAAAAAT
Found at i:11342203 original size:30 final size:30
Alignment explanation
Indices: 11342137--11342213 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
11342127 ATAATATCAT
* *
11342137 AAAAAAATAAAAAAGAATAAAAATCAACAC
1 AAAAAAATAAAAAAAAATAAAAATCAACAA
*
11342167 AAAAAAATAAAATAAAAATTAAAA-CAA-AA
1 AAAAAAATAAAA-AAAAATAAAAATCAACAA
*
11342196 AATAAAAAGAAAAAAAAA
1 AA-AAAAATAAAAAAAAA
11342214 AACCTACCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.20
30 24 0.59
31 9 0.22
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (30 bp):
AAAAAAATAAAAAAAAATAAAAATCAACAA
Found at i:11342209 original size:19 final size:18
Alignment explanation
Indices: 11342137--11342215 Score: 63
Period size: 19 Copynumber: 4.4 Consensus size: 18
11342127 ATAATATCAT
*
11342137 AAAAAAAT-AAAA-AAGA
1 AAAAAAATAAAAAGAAAA
* * * *
11342153 ATAAAAATCAACACAAAA
1 AAAAAAATAAAAAGAAAA
*
11342171 AAATAAAATAAAAATTAAAA
1 AAA-AAAATAAAAA-GAAAA
*
11342191 CAAAAAATAAAAAGAAAA
1 AAAAAAATAAAAAGAAAA
11342209 AAAAAAA
1 AAAAAAA
11342216 CCTACCAAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
16 7 0.14
17 3 0.06
18 15 0.31
19 18 0.37
20 6 0.12
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (18 bp):
AAAAAAATAAAAAGAAAA
Found at i:11342706 original size:15 final size:16
Alignment explanation
Indices: 11342688--11342728 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
11342678 AGCCAAGATA
11342688 AAAAAATTTTGTTT-T
1 AAAAAATTTTGTTTCT
*
11342703 AAAAATTTTTGTTTCT
1 AAAAAATTTTGTTTCT
*
11342719 AGAAAATTTT
1 AAAAAATTTT
11342729 TTTGACTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (16 bp):
AAAAAATTTTGTTTCT
Found at i:11343412 original size:40 final size:40
Alignment explanation
Indices: 11343368--11343577 Score: 252
Period size: 40 Copynumber: 5.3 Consensus size: 40
11343358 ACTAGTGGAT
** *
11343368 ATGAAACTTTAAATTTGAAACGCTTCTTTGACCAAAGGCA
1 ATGAAACTTTAAATTCAAAAGGCTTCTTTGACCAAAGGCA
* * *
11343408 ATGAAATTTTAAATTTAAAAGGCTTCTCTGACCAAAGGCA
1 ATGAAACTTTAAATTCAAAAGGCTTCTTTGACCAAAGGCA
* *
11343448 ATGAAACTTTAAATTCAAAAGGCTCCTCTGACCAAAGGCA
1 ATGAAACTTTAAATTCAAAAGGCTTCTTTGACCAAAGGCA
* *
11343488 ATGAAACTTTAAATTCAAAAGGCTT-TTCTAACAAAAGGCA
1 ATGAAACTTTAAATTCAAAAGGCTTCTT-TGACCAAAGGCA
*
11343528 ATGAAACTTTAAA---AGAAA-GC-TCTTCTGACCAGAGGCA
1 ATGAAACTTTAAATTCA-AAAGGCTTCTT-TGACCAAAGGCA
11343565 ATGAAACTTTAAA
1 ATGAAACTTTAAA
11343578 GGAAAAATCT
Statistics
Matches: 153, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
36 1 0.01
37 28 0.18
38 3 0.02
39 1 0.01
40 120 0.78
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (40 bp):
ATGAAACTTTAAATTCAAAAGGCTTCTTTGACCAAAGGCA
Found at i:11343430 original size:80 final size:80
Alignment explanation
Indices: 11343338--11343577 Score: 274
Period size: 80 Copynumber: 3.0 Consensus size: 80
11343328 TAACTTCTGA
* ** ** * *
11343338 AAATTTAAAAGGCTCCTCTGACTAGTGG-ATATGAAACTTTAAATTTGAAACGCTTCTTTGACCA
1 AAATTTAAAAGGCTCCTCTGACCAAAGGCA-ATGAAACTTTAAATTCAAAACGCTCCTCTGACCA
*
11343402 AAGGCAATGAAATTTT
65 AAGGCAATGAAACTTT
* *
11343418 AAATTTAAAAGGCTTCTCTGACCAAAGGCAATGAAACTTTAAATTCAAAAGGCTCCTCTGACCAA
1 AAATTTAAAAGGCTCCTCTGACCAAAGGCAATGAAACTTTAAATTCAAAACGCTCCTCTGACCAA
11343483 AGGCAATGAAACTTT
66 AGGCAATGAAACTTT
* ** * * *
11343498 AAATTCAAAAGGCTTTTCTAACAAAAGGCAATGAAACTTTAAA---AGAAA-GCTCTTCTGACCA
1 AAATTTAAAAGGCTCCTCTGACCAAAGGCAATGAAACTTTAAATTCA-AAACGCTCCTCTGACCA
*
11343559 GAGGCAATGAAACTTT
65 AAGGCAATGAAACTTT
11343575 AAA
1 AAA
11343578 GGAAAAATCT
Statistics
Matches: 142, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
77 31 0.22
78 3 0.02
80 107 0.75
81 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (80 bp):
AAATTTAAAAGGCTCCTCTGACCAAAGGCAATGAAACTTTAAATTCAAAACGCTCCTCTGACCAA
AGGCAATGAAACTTT
Found at i:11345551 original size:22 final size:22
Alignment explanation
Indices: 11345523--11345566 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
11345513 TTATGGATTT
*
11345523 CTTCAAGCAATTTTTTGGCTTC
1 CTTCAAGCAACTTTTTGGCTTC
11345545 CTTCAAGCAACTTTTTGGCTTC
1 CTTCAAGCAACTTTTTGGCTTC
11345567 AATGGCATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (22 bp):
CTTCAAGCAACTTTTTGGCTTC
Found at i:11355938 original size:3 final size:3
Alignment explanation
Indices: 11355924--11355967 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
11355914 ATAAAATAGC
*
11355924 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11355968 AAAGAAACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11356020 original size:20 final size:21
Alignment explanation
Indices: 11355972--11356028 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
11355962 TAATAAAAAG
11355972 AAACAAAATAAATAAAAATCA
1 AAACAAAATAAATAAAAATCA
**
11355993 GTACAAAATAAAT-AAAATCA
1 AAACAAAATAAATAAAAATCA
*
11356013 AAA-TAAA-AAATAAAAA
1 AAACAAAATAAATAAAAA
11356029 ATCTACTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.13
19 7 0.23
20 8 0.27
21 11 0.37
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (21 bp):
AAACAAAATAAATAAAAATCA
Found at i:11356481 original size:16 final size:16
Alignment explanation
Indices: 11356462--11356498 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11356452 AGCCTAGATT
11356462 GAAAATTTTTGTTTTG
1 GAAAATTTTTGTTTTG
* *
11356478 GAAATTTTTTGTTTTT
1 GAAAATTTTTGTTTTG
11356494 GAAAA
1 GAAAA
11356499 AAAAATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (16 bp):
GAAAATTTTTGTTTTG
Found at i:11364468 original size:23 final size:21
Alignment explanation
Indices: 11364441--11364490 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 21
11364431 TATATACAAT
*
11364441 AAATAAATAAGCAAGTATAAAA
1 AAATAAATAAGCAA-AATAAAA
* *
11364463 AGAATAGATAAGGAAAATAAAA
1 A-AATAAATAAGCAAAATAAAA
11364485 AAATAA
1 AAATAA
11364491 TCCCAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.17
22 8 0.35
23 11 0.48
ACGTcount: A:0.70, C:0.02, G:0.12, T:0.16
Consensus pattern (21 bp):
AAATAAATAAGCAAAATAAAA
Found at i:11364818 original size:15 final size:15
Alignment explanation
Indices: 11364798--11364828 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11364788 TAATGCCCTC
11364798 ACAACACTAATCTGA
1 ACAACACTAATCTGA
11364813 ACAACACTAATCTGA
1 ACAACACTAATCTGA
11364828 A
1 A
11364829 GGATGGTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.06, T:0.19
Consensus pattern (15 bp):
ACAACACTAATCTGA
Found at i:11365480 original size:23 final size:23
Alignment explanation
Indices: 11365447--11365506 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
11365437 ACAAATAATA
*
11365447 AAAATTGAAAAT-TAAAACTAAAT
1 AAAATTAAAAATAT-AAACTAAAT
*
11365470 TAAATTAAAAATATAAACTAAAT
1 AAAATTAAAAATATAAACTAAAT
*
11365493 AAAATCATAAAATA
1 AAAATTA-AAAATA
11365507 AAAAAAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 24 0.77
24 7 0.23
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATTAAAAATATAAACTAAAT
Found at i:11365495 original size:17 final size:18
Alignment explanation
Indices: 11365465--11365513 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
11365455 AAATTAAAAC
*
11365465 TAAATTAAATTAAAAAT-A
1 TAAAATAAA-TAAAAATCA
*
11365483 TAAACTAAAT-AAAATCA
1 TAAAATAAATAAAAATCA
11365500 TAAAATAAA-AAAAA
1 TAAAATAAATAAAAA
11365514 AAGAAAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 5 0.19
17 14 0.52
18 8 0.30
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAATAAATAAAAATCA
Found at i:11366384 original size:3 final size:3
Alignment explanation
Indices: 11366373--11366512 Score: 55
Period size: 3 Copynumber: 52.3 Consensus size: 3
11366363 AAAAAACAAA
*
11366373 AAT ATAT AAT AAT AA- AAT AAT -AT AAT -AC AAT -AT AAT -AT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
11366414 -AT AAT -AT GAT -AT AAT AAT AAT AGT AAT -GT AAT -AT ACT -AT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
11366456 AAT -TT ACT -AT AAT -AT AAT AAT -AC AAT AGT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11366499 -AT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT A
11366513 TGATACAATA
Statistics
Matches: 102, Mismatches: 16, Indels: 38
0.65 0.10 0.24
Matches are distributed among these distances:
2 30 0.29
3 69 0.68
4 3 0.03
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:11366398 original size:5 final size:5
Alignment explanation
Indices: 11366376--11366534 Score: 141
Period size: 5 Copynumber: 32.0 Consensus size: 5
11366366 AAACAAAAAT
* * *
11366376 ATATA ATAATA AAATA ATATA ATACA ATATA ATATA ATATA ATATG ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* * * *
11366427 ATAATA ATAGTA ATGTA ATATA CTAT- -TATA ATTTA CTATA ATAT- A-ATA
1 AT-ATA ATA-TA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* * *
11366475 ATACA ATAGTA ATAATA ATATA ATATA ATAT- A-ATA ATATG ATACA ATATA
1 ATATA ATA-TA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
11366525 ATATA ATATA
1 ATATA ATATA
11366535 GTATGATAAC
Statistics
Matches: 124, Mismatches: 19, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
3 7 0.06
4 4 0.03
5 92 0.74
6 20 0.16
7 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:11366489 original size:14 final size:13
Alignment explanation
Indices: 11366376--11366570 Score: 58
Period size: 13 Copynumber: 14.8 Consensus size: 13
11366366 AAACAAAAAT
*
11366376 ATATAATAATAAA
1 ATATAATAATACA
11366389 ATA-ATATAATACA
1 ATATA-ATAATACA
11366402 ATATAAT-AT--A
1 ATATAATAATACA
*
11366412 ATATAAT-ATGA-T
1 ATATAATAAT-ACA
*
11366424 ATAATAATAATAGTA
1 AT-ATAATAATA-CA
*
11366439 ATGTAAT-ATACTA
1 ATATAATAATAC-A
* * *
11366452 TTATAATTTACTATA
1 ATATAA--TAATACA
11366467 ATATAATAATACA
1 ATATAATAATACA
11366480 ATAGTAATAAT--A
1 ATA-TAATAATACA
11366492 ATATAAT-ATA-A
1 ATATAATAATACA
11366503 TATAATAATATGATACA
1 -AT-ATAATA--ATACA
11366520 ATATAAT-AT--A
1 ATATAATAATACA
*
11366530 ATATAGTATGATAACA
1 ATATA--ATAAT-ACA
*
11366546 ATATGATAATAACA
1 ATATAATAAT-ACA
*
11366560 AAATAATAATA
1 ATATAATAATA
11366571 GTAAAGCAGA
Statistics
Matches: 140, Mismatches: 16, Indels: 52
0.67 0.08 0.25
Matches are distributed among these distances:
10 18 0.13
11 5 0.04
12 15 0.11
13 45 0.32
14 30 0.21
15 14 0.10
16 12 0.09
17 1 0.01
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (13 bp):
ATATAATAATACA
Found at i:11371761 original size:15 final size:15
Alignment explanation
Indices: 11371714--11371763 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
11371704 CGTTTGAGGA
* *
11371714 TTTTGAGATTTTTGGA
1 TTTTG-GATTTTAGGG
* *
11371730 TTTTGGATTTCAAGG
1 TTTTGGATTTTAGGG
11371745 TTTTGGATTTTAGGG
1 TTTTGGATTTTAGGG
11371760 TTTT
1 TTTT
11371764 AAAATTTTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 23 0.82
16 5 0.18
ACGTcount: A:0.16, C:0.02, G:0.26, T:0.56
Consensus pattern (15 bp):
TTTTGGATTTTAGGG
Found at i:11373877 original size:16 final size:16
Alignment explanation
Indices: 11373856--11373904 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
11373846 CAAATAGTCC
*
11373856 AAATATCATATTTATA
1 AAATATAATATTTATA
*
11373872 AAATATAATA-TGATA
1 AAATATAATATTTATA
* *
11373887 AAACATAATATATATA
1 AAATATAATATTTATA
11373903 AA
1 AA
11373905 TTCAAATACA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATATAATATTTATA
Found at i:11374130 original size:1 final size:1
Alignment explanation
Indices: 11374124--11374148 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
11374114 ATAACATCAT
11374124 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
11374149 CCTAGGCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11374185 original size:17 final size:17
Alignment explanation
Indices: 11374163--11374196 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11374153 GGCTATGTTT
11374163 ACTCCATGACAAAAGGA
1 ACTCCATGACAAAAGGA
*
11374180 ACTCCATGGCAAAAGGA
1 ACTCCATGACAAAAGGA
11374197 GTATAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.21, T:0.12
Consensus pattern (17 bp):
ACTCCATGACAAAAGGA
Found at i:11374843 original size:31 final size:30
Alignment explanation
Indices: 11374808--11374874 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
11374798 ACACTATCAG
*
11374808 TAAATTAGATAATATCATCTCATTAATGAAA
1 TAAATTAAATAATATCATCTCATTAAT-AAA
* * *
11374839 TAAATTAAATAATGTCATCTTATTAATCAA
1 TAAATTAAATAATATCATCTCATTAATAAA
11374869 TAAATT
1 TAAATT
11374875 TTTTAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (30 bp):
TAAATTAAATAATATCATCTCATTAATAAA
Found at i:11375006 original size:2 final size:2
Alignment explanation
Indices: 11375001--11375040 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
11374991 AAATATAAAT
* * *
11375001 TA TA TA TA TA TA TA TA TA TG CA TA TA TA TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11375041 GTTTCAATCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11376024 original size:9 final size:9
Alignment explanation
Indices: 11376010--11376037 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
11376000 CAAATGAGCA
11376010 ACCACCTTC
1 ACCACCTTC
11376019 ACCACCTTC
1 ACCACCTTC
11376028 ACCACCTTC
1 ACCACCTTC
11376037 A
1 A
11376038 GACGCTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.25, C:0.54, G:0.00, T:0.21
Consensus pattern (9 bp):
ACCACCTTC
Found at i:11376223 original size:33 final size:33
Alignment explanation
Indices: 11376165--11376270 Score: 142
Period size: 33 Copynumber: 3.1 Consensus size: 33
11376155 TCCAAGTCAA
11376165 CTCCTAGCCCTCCTCCTAAGCAGCAATCACCACCAC
1 CTCCTAGCCCT-CT--TAAGCAGCAATCACCACCAC
11376201 CTCCTAGCCCTCTTAAGCAGCAATCACCACCAC
1 CTCCTAGCCCTCTTAAGCAGCAATCACCACCAC
* * *
11376234 CTCCTGGCCCTCCTATGCAGCAATCA-CAGCCAC
1 CTCCTAGCCCTCTTAAGCAGCAATCACCA-CCAC
11376267 CTCC
1 CTCC
11376271 CAGCAGCCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
32 2 0.03
33 51 0.77
35 2 0.03
36 11 0.17
ACGTcount: A:0.24, C:0.48, G:0.10, T:0.18
Consensus pattern (33 bp):
CTCCTAGCCCTCTTAAGCAGCAATCACCACCAC
Found at i:11376340 original size:21 final size:21
Alignment explanation
Indices: 11376314--11376388 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
11376304 GCCAGAGAAG
11376314 TCTCCTCCTCCTCCCTCTCCT
1 TCTCCTCCTCCTCCCTCTCCT
*
11376335 TCTCCTCCTCCTCCTTCTCCT
1 TCTCCTCCTCCTCCCTCTCCT
*
11376356 CCTCCTCCTCCT-CCTACTCCT
1 TCTCCTCCTCCTCCCT-CTCCT
**
11376377 TCTGATCCTCCT
1 TCTCCTCCTCCT
11376389 GACAATTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 2 0.04
21 45 0.96
ACGTcount: A:0.03, C:0.57, G:0.01, T:0.39
Consensus pattern (21 bp):
TCTCCTCCTCCTCCCTCTCCT
Found at i:11376388 original size:3 final size:3
Alignment explanation
Indices: 11376315--11376376 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
11376305 CCAGAGAAGT
* *
11376315 CTC CTC CTC CTC C-C TCTC CTT CTC CTC CTC CTC CTT CTC CTC CTC
1 CTC CTC CTC CTC CTC -CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
*
11376360 CTC CTC CTC CTA CTC CT
1 CTC CTC CTC CTC CTC CT
11376377 TCTGATCCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 49 0.96
4 1 0.02
ACGTcount: A:0.02, C:0.61, G:0.00, T:0.37
Consensus pattern (3 bp):
CTC
Found at i:11382320 original size:2 final size:2
Alignment explanation
Indices: 11382309--11382342 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
11382299 CATATACAAA
11382309 AT AT -T AT AT 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
11382343 ATACATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11382696 original size:131 final size:131
Alignment explanation
Indices: 11382517--11382836 Score: 371
Period size: 131 Copynumber: 2.4 Consensus size: 131
11382507 ATTTTTTATT
* * *
11382517 ATTTAATAAAAAATTAACATGTGATCAAATTAACTATTATACCTTTATACCATAATTATAAAAAG
1 ATTTGATAAGAAATTAACATGTGATCAAATTGACTATTATACCTTTATACCATAATTA-AAAAAG
**
11382582 -ATATATTCTCTCATAATTATTTACTATAATACCTCC-CTTAAAAAATTA-GTAAATACCC-TTT
65 TATATATTCTCTCATAATTA-TTACTATAATACCTCCTC-TAAAAAATTACAAAAATACCCTTTT
11382643 CTATC
128 C-ATC
* * * * * **
11382648 ATTTGATAAGAAATTAACATGTGGTCAAATTGATTATTGTGTCC-TTATATCATAATTACGAAAG
1 ATTTGATAAGAAATTAACATGTGATCAAATTGACTATTAT-ACCTTTATACCATAATTAAAAAAG
* * * * *
11382712 TATTTTTTTTCTTATAATTATTACTATAATACCTCCTCTAACAAATTACAAAAATACCCTTTTCA
65 TATATATTCTCTCATAATTATTACTATAATACCTCCTCTAAAAAATTACAAAAATACCCTTTTCA
*
11382777 TT
130 TC
* * *
11382779 ATTTGATAAGAAATTAACATATGATCAAATTGACTATTATACTTTTATACTATAATTA
1 ATTTGATAAGAAATTAACATGTGATCAAATTGACTATTATACCTTTATACCATAATTA
11382837 TGAAAATATC
Statistics
Matches: 157, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
130 30 0.19
131 121 0.77
132 6 0.04
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (131 bp):
ATTTGATAAGAAATTAACATGTGATCAAATTGACTATTATACCTTTATACCATAATTAAAAAAGT
ATATATTCTCTCATAATTATTACTATAATACCTCCTCTAAAAAATTACAAAAATACCCTTTTCAT
C
Found at i:11383283 original size:25 final size:26
Alignment explanation
Indices: 11383246--11383301 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
11383236 AATTAACTAA
11383246 AATTACTAGAATA-C-CTTCCTACAAT
1 AATTACTAGAATATCTCTT-CTACAAT
*
11383271 AATTACATA-AATATCTCTTCTACTAT
1 AATTAC-TAGAATATCTCTTCTACAAT
11383297 AATTA
1 AATTA
11383302 ACTAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 10 0.37
26 14 0.52
27 3 0.11
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.38
Consensus pattern (26 bp):
AATTACTAGAATATCTCTTCTACAAT
Found at i:11387197 original size:33 final size:33
Alignment explanation
Indices: 11387160--11387295 Score: 125
Period size: 33 Copynumber: 4.1 Consensus size: 33
11387150 CATGTCCGAC
*
11387160 CATTCTGAATCCTGTGGGAT-TCCCATTTCCAGG
1 CATTCTGAATCCTGTAGGATCT-CCATTTCCAGG
* * * *
11387193 CATTCTAAATCCTGTAGGATCTTCAATTCGAGG
1 CATTCTGAATCCTGTAGGATCTCCATTTCCAGG
* * * *
11387226 CAATCT-AATTTCTGTTGGATCCCCATGTT-CAGG
1 CATTCTGAA-TCCTGTAGGATCTCCAT-TTCCAGG
* *
11387259 CATTCTGAACCCTCTAGGATCTCCATTTCCAGG
1 CATTCTGAATCCTGTAGGATCTCCATTTCCAGG
11387292 CATT
1 CATT
11387296 TTGTCACCTT
Statistics
Matches: 80, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
32 4 0.05
33 71 0.89
34 5 0.06
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (33 bp):
CATTCTGAATCCTGTAGGATCTCCATTTCCAGG
Found at i:11387593 original size:15 final size:15
Alignment explanation
Indices: 11387569--11387599 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11387559 AACGGCAACG
*
11387569 GGCTGTTGTGTTTGA
1 GGCTGCTGTGTTTGA
11387584 GGCTGCTGTGTTTGA
1 GGCTGCTGTGTTTGA
11387599 G
1 G
11387600 TCGACATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.10, G:0.42, T:0.42
Consensus pattern (15 bp):
GGCTGCTGTGTTTGA
Found at i:11388618 original size:23 final size:24
Alignment explanation
Indices: 11388592--11388636 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11388582 TATAAATAAA
*
11388592 AAATAAAT-TAAAATATTTAAATT
1 AAATAAATATAAAATATATAAATT
*
11388615 AAATAAATATAAATTATATAAA
1 AAATAAATATAAAATATATAAA
11388637 AAATTATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATAAATATAAAATATATAAATT
Found at i:11389405 original size:15 final size:16
Alignment explanation
Indices: 11389385--11389421 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
11389375 TTGAGGCTTA
*
11389385 AGAGAAAAAGAGTTT-
1 AGAGAAAAAGAATTTG
11389400 AGAGAAAAAGAATTTG
1 AGAGAAAAAGAATTTG
11389416 AGAGAA
1 AGAGAA
11389422 TTTAGAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.16
Consensus pattern (16 bp):
AGAGAAAAAGAATTTG
Found at i:11390349 original size:24 final size:24
Alignment explanation
Indices: 11390321--11390371 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
11390311 CCAATATTAT
11390321 ACCACCATTCTGCTAAAGAAATAC
1 ACCACCATTCTGCTAAAGAAATAC
11390345 ACCACCATTCTGCTAAAGAAATAC
1 ACCACCATTCTGCTAAAGAAATAC
11390369 ACC
1 ACC
11390372 TAGACCACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.31, G:0.08, T:0.20
Consensus pattern (24 bp):
ACCACCATTCTGCTAAAGAAATAC
Done.