Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 58 of 74
Found at i:11535105 original size:24 final size:23
Alignment explanation
Indices: 11535077--11535122 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11535067 AAATTCTAGA
11535077 AATTTTCTAAAG-AATCAAAATATT
1 AATTTT-TAAAGAAAT-AAAATATT
*
11535101 AATTTTTTAAGAAATAAAATAT
1 AATTTTTAAAGAAATAAAATAT
11535123 GATTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (23 bp):
AATTTTTAAAGAAATAAAATATT
Found at i:11535210 original size:18 final size:19
Alignment explanation
Indices: 11535187--11535230 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
11535177 TATTAAATTT
11535187 AATATTAAAAAAAATT-AA
1 AATATTAAAAAAAATTCAA
** *
11535205 AATATTCTAAAATATTCAA
1 AATATTAAAAAAAATTCAA
11535224 AATATTA
1 AATATTA
11535231 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
AATATTAAAAAAAATTCAA
Found at i:11535460 original size:20 final size:20
Alignment explanation
Indices: 11535435--11535488 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
11535425 CGTATCAGTA
*
11535435 AAGTCAATGATCACATTATC
1 AAGTCAATGGTCACATTATC
*
11535455 AAGTCAATGGTCACATTATT
1 AAGTCAATGGTCACATTATC
11535475 AAGTCAATGGTCAC
1 AAGTCAATGGTCAC
11535489 GGAGCATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
AAGTCAATGGTCACATTATC
Found at i:11537276 original size:22 final size:22
Alignment explanation
Indices: 11537220--11537278 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
11537210 TTTTGATAGT
* *
11537220 GACTGCTATAGTGATTGTTATT
1 GACTGCAATAGTGATTGTTATC
* * *
11537242 GACTGTAACAGTGATTGTTGTC
1 GACTGCAATAGTGATTGTTATC
*
11537264 GATTGCAATAGTGAT
1 GACTGCAATAGTGAT
11537279 AGCTGTCTTG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (22 bp):
GACTGCAATAGTGATTGTTATC
Found at i:11546699 original size:21 final size:21
Alignment explanation
Indices: 11546635--11546700 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
11546625 ACATAAACCA
* *
11546635 ATCGATCCTTTTAAGCAAGGG
1 ATCGATCCTTTCAAGAAAGGG
*** * *
11546656 ATCGATCAGGTCATGAAATGG
1 ATCGATCCTTTCAAGAAAGGG
*
11546677 ATCGATCCTTTCAAGGAAGGG
1 ATCGATCCTTTCAAGAAAGGG
11546698 ATC
1 ATC
11546701 AATCGAGTTT
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (21 bp):
ATCGATCCTTTCAAGAAAGGG
Found at i:11557261 original size:30 final size:31
Alignment explanation
Indices: 11557224--11557283 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
11557214 GACCTTTTTG
*
11557224 TTTTTTTTGCCAAGTAAGCAGTCAAATTTAA
1 TTTTTTTTCCCAAGTAAGCAGTCAAATTTAA
*
11557255 TTTTTTTTCCCAAGTCAGCAGTCAAATTT
1 TTTTTTTTCCCAAGTAAGCAGTCAAATTT
11557284 GTCTTTTGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (31 bp):
TTTTTTTTCCCAAGTAAGCAGTCAAATTTAA
Found at i:11581205 original size:27 final size:27
Alignment explanation
Indices: 11581170--11581244 Score: 87
Period size: 34 Copynumber: 2.5 Consensus size: 27
11581160 TAAAATGTAT
11581170 ATAATAACAAAATATTTAATCCAACTA
1 ATAATAACAAAATATTTAATCCAACTA
11581197 ATAATAACAAAATACTTATAATTTAATCCAACTA
1 ATAATAAC--AA-A---AT-ATTTAATCCAACTA
11581231 ATAATAACAAAATA
1 ATAATAACAAAATA
11581245 ATTATAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
27 9 0.22
28 2 0.05
29 2 0.05
30 1 0.02
31 1 0.02
32 2 0.05
33 2 0.05
34 22 0.54
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.29
Consensus pattern (27 bp):
ATAATAACAAAATATTTAATCCAACTA
Found at i:11581226 original size:34 final size:34
Alignment explanation
Indices: 11581183--11581265 Score: 157
Period size: 34 Copynumber: 2.4 Consensus size: 34
11581173 ATAACAAAAT
*
11581183 ATTTAATCCAACTAATAATAACAAAATACTTATA
1 ATTTAATCCAACTAATAATAACAAAATAATTATA
11581217 ATTTAATCCAACTAATAATAACAAAATAATTATA
1 ATTTAATCCAACTAATAATAACAAAATAATTATA
11581251 ATTTAATCCAACTAA
1 ATTTAATCCAACTAA
11581266 CATTTTCTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (34 bp):
ATTTAATCCAACTAATAATAACAAAATAATTATA
Found at i:11584505 original size:14 final size:15
Alignment explanation
Indices: 11584486--11584514 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11584476 ATTATCATGC
11584486 AATGAAA-AAATAAA
1 AATGAAATAAATAAA
11584500 AATGAAATAAATAAA
1 AATGAAATAAATAAA
11584515 TAAAACATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (15 bp):
AATGAAATAAATAAA
Found at i:11584602 original size:18 final size:17
Alignment explanation
Indices: 11584597--11584629 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11584587 ATGAAAAACA
11584597 AGAAAAACATAAAAAAT
1 AGAAAAACATAAAAAAT
*
11584614 AGAAAAA-ATCAAAAAT
1 AGAAAAACATAAAAAAT
11584630 CAAAATCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (17 bp):
AGAAAAACATAAAAAAT
Found at i:11585184 original size:3 final size:3
Alignment explanation
Indices: 11585176--11585227 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
11585166 AACAAAATCC
11585176 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
11585224 ATA A
1 ATA A
11585228 AATCAAATCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11586055 original size:19 final size:19
Alignment explanation
Indices: 11586033--11586093 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
11586023 TTTTTGTTTT
11586033 TTTTTTTGTATTTTCTT-GA
1 TTTTTTT-TATTTTCTTAGA
*
11586052 TTTTTTATAATTTT-TTAGA
1 TTTTTT-TTATTTTCTTAGA
* *
11586071 GTTTTTTTATTTTCTTAAA
1 TTTTTTTTATTTTCTTAGA
11586090 TTTT
1 TTTT
11586094 AATTTTTGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 8 0.24
19 25 0.74
20 1 0.03
ACGTcount: A:0.18, C:0.03, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTTTTTATTTTCTTAGA
Found at i:11586055 original size:22 final size:23
Alignment explanation
Indices: 11586007--11586057 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
11585997 AAGTTTTTCC
*
11586007 TTTTTTTTTTGCTAGCTTTTTGT
1 TTTTTTTTTTGCTAGCTTTTTGA
*
11586030 TTTTTTTTTTG-TA-TTTTCTTGA
1 TTTTTTTTTTGCTAGCTTT-TTGA
11586052 TTTTTT
1 TTTTTT
11586058 ATAATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 11 0.44
23 11 0.44
ACGTcount: A:0.06, C:0.06, G:0.10, T:0.78
Consensus pattern (23 bp):
TTTTTTTTTTGCTAGCTTTTTGA
Found at i:11586174 original size:46 final size:46
Alignment explanation
Indices: 11586122--11586264 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 46
11586112 GGAATTTTTT
* *
11586122 TTTTGAAAACTCCTCTCATTAAAG-ATTCATAATTTTTGAAAATAAA
1 TTTTGAAAACTCCACT-ATTAAAGTATTCATAACTTTTGAAAATAAA
* ** *
11586168 TTTTGAAAGCTCCACTATTAGGGTTTTCATAACTTTTGAAAATAAA
1 TTTTGAAAACTCCACTATTAAAGTATTCATAACTTTTGAAAATAAA
* * * * *
11586214 TTTTAAAAACT-CATTTAATTAGAGGT-TTCACAACTTTTAAAAATAAA
1 TTTTGAAAACTCCA-CT-ATTA-AAGTATTCATAACTTTTGAAAATAAA
11586261 TTTT
1 TTTT
11586265 AGTGCTCATT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
45 7 0.09
46 44 0.54
47 27 0.33
48 3 0.04
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (46 bp):
TTTTGAAAACTCCACTATTAAAGTATTCATAACTTTTGAAAATAAA
Found at i:11586251 original size:47 final size:46
Alignment explanation
Indices: 11586155--11586265 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 46
11586145 GATTCATAAT
* * *
11586155 TTTTGAAAATAAATTTTGAAAGCTCCACTATTAGGGTTTTCATAAC
1 TTTTGAAAATAAATTTTAAAAACTCCACTATTAGGGTTTTCACAAC
*
11586201 TTTTGAAAATAAATTTTAAAAACT-CATTTAATTAGAGG-TTTCACAAC
1 TTTTGAAAATAAATTTTAAAAACTCCA-CT-ATTAG-GGTTTTCACAAC
*
11586248 TTTTAAAAATAAATTTTA
1 TTTTGAAAATAAATTTTA
11586266 GTGCTCATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
45 2 0.04
46 23 0.40
47 30 0.53
48 2 0.04
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (46 bp):
TTTTGAAAATAAATTTTAAAAACTCCACTATTAGGGTTTTCACAAC
Found at i:11586292 original size:46 final size:47
Alignment explanation
Indices: 11586198--11586301 Score: 122
Period size: 46 Copynumber: 2.2 Consensus size: 47
11586188 GGGTTTTCAT
* *
11586198 AACTTTTGAAAATAAATTTTAAAAACTCATTTAATTAGAGGTTTCAC
1 AACTTTTAAAAATAAATTTTAAAAACTCATTTAATTAGAGGTTCCAC
*** *
11586245 AACTTTTAAAAATAAATTTT-AGTGCTCATTTCATTAGA-GTCTCCAC
1 AACTTTTAAAAATAAATTTTAAAAACTCATTTAATTAGAGGT-TCCAC
*
11586291 AACTTTGAAAA
1 AACTTTTAAAA
11586302 TTTAAATCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
45 2 0.04
46 28 0.57
47 19 0.39
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (47 bp):
AACTTTTAAAAATAAATTTTAAAAACTCATTTAATTAGAGGTTCCAC
Found at i:11587174 original size:22 final size:22
Alignment explanation
Indices: 11587143--11587197 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
11587133 AGGCTTAAAA
* *
11587143 TGCCATCTAATCTGGGTTTGGG
1 TGCCAGCTAATCTGGGCTTGGG
** *
11587165 TGTTAGCTAATTTGGGCTTGGG
1 TGCCAGCTAATCTGGGCTTGGG
11587187 TGCCAGCTAAT
1 TGCCAGCTAAT
11587198 ATAAGCTTAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.31, T:0.36
Consensus pattern (22 bp):
TGCCAGCTAATCTGGGCTTGGG
Found at i:11587311 original size:52 final size:51
Alignment explanation
Indices: 11587185--11587314 Score: 143
Period size: 52 Copynumber: 2.5 Consensus size: 51
11587175 TTTGGGCTTG
*
11587185 GGTGCCAGCTAATATAAGCTTAAAGTACCAGCTAAACCAAACTTAAAATTTA
1 GGTGCCAACTAAT-TAAGCTTAAAGTACCAGCTAAACCAAACTTAAAATTTA
* * * * * ***
11587237 GGTACTAACTAATTTAGACTTAAATTACCAGCTAAATCGGGCTTAAAATTTA
1 GGTGCCAACTAATTAAG-CTTAAAGTACCAGCTAAACCAAACTTAAAATTTA
*
11587289 GGTGCCAACTAATCCAAGCTTAAAGT
1 GGTGCCAACTAAT-TAAGCTTAAAGT
11587315 GTTAGCTAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
51 3 0.05
52 57 0.92
53 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (51 bp):
GGTGCCAACTAATTAAGCTTAAAGTACCAGCTAAACCAAACTTAAAATTTA
Found at i:11593809 original size:78 final size:78
Alignment explanation
Indices: 11593656--11593801 Score: 229
Period size: 78 Copynumber: 1.9 Consensus size: 78
11593646 TATTTCTTTA
* * * * *
11593656 TTAAATAAAAAGTAACAAAAATCTTTATTGAAAATTATTTTAAATGCCTCGTTACTTTTGTAGCA
1 TTAAATAAAAAGTAACAAAAATCTTTATTGAAAATTATTCTAAATACCCCATTACTTTTGTAACA
11593721 TTTAAAAAAAAAG
66 TTTAAAAAAAAAG
* *
11593734 TTAAATAAAAAGTAACAAAAATTTTTATTGAAAATTATTCTAAATACCCCATTACTTTTTTAACA
1 TTAAATAAAAAGTAACAAAAATCTTTATTGAAAATTATTCTAAATACCCCATTACTTTTGTAACA
11593799 TTT
66 TTT
11593802 TAGAAAAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 61 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.38
Consensus pattern (78 bp):
TTAAATAAAAAGTAACAAAAATCTTTATTGAAAATTATTCTAAATACCCCATTACTTTTGTAACA
TTTAAAAAAAAAG
Found at i:11594351 original size:31 final size:32
Alignment explanation
Indices: 11594316--11594384 Score: 122
Period size: 31 Copynumber: 2.2 Consensus size: 32
11594306 ATGCATAGAG
11594316 AATAAATAGATAAGTAAACAAACAAAACC-AA
1 AATAAATAGATAAGTAAACAAACAAAACCAAA
*
11594347 AATAAATAGATAAGTAAACAAATAAAACCAAA
1 AATAAATAGATAAGTAAACAAACAAAACCAAA
11594379 AATAAA
1 AATAAA
11594385 GTTTACCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 28 0.78
32 8 0.22
ACGTcount: A:0.70, C:0.10, G:0.06, T:0.14
Consensus pattern (32 bp):
AATAAATAGATAAGTAAACAAACAAAACCAAA
Found at i:11595955 original size:22 final size:23
Alignment explanation
Indices: 11595924--11595974 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
11595914 AACTAAGATT
*
11595924 TTTTTTTCTTTTTT-TATATAAA
1 TTTTTCTCTTTTTTATATATAAA
*
11595946 TTTTTCTCTTTTTTACTATTTAAA
1 TTTTTCTCTTTTTTA-TATATAAA
11595970 TTTTT
1 TTTTT
11595975 TGTAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.52
24 12 0.48
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTCTCTTTTTTATATATAAA
Found at i:11597752 original size:17 final size:18
Alignment explanation
Indices: 11597708--11597755 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
11597698 GCTTTAAAAG
*
11597708 AAAATAACTAAATGCTTC
1 AAAATAAATAAATGCTTC
*
11597726 ATAAAGTAAATAAGTGCTT-
1 A-AAA-TAAATAAATGCTTC
11597745 AAAATAAATAA
1 AAAATAAATAA
11597756 TAATGCGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.27
18 4 0.15
19 4 0.15
20 11 0.42
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.27
Consensus pattern (18 bp):
AAAATAAATAAATGCTTC
Found at i:11601327 original size:12 final size:12
Alignment explanation
Indices: 11601310--11601334 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11601300 TCCTATAAAG
11601310 AAACAAACAAAA
1 AAACAAACAAAA
11601322 AAACAAACAAAA
1 AAACAAACAAAA
11601334 A
1 A
11601335 CGAAGCATAC
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:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACAAACAAAA
Found at i:11604803 original size:7 final size:7
Alignment explanation
Indices: 11604791--11604954 Score: 109
Period size: 7 Copynumber: 24.9 Consensus size: 7
11604781 CCTAATTCGG
11604791 TTAAACC
1 TTAAACC
11604798 TTAAACC
1 TTAAACC
*
11604805 TTAAACT
1 TTAAACC
11604812 TTAAAACC
1 TT-AAACC
11604820 -TAAACC
1 TTAAACC
*
11604826 CTAACACC
1 TTAA-ACC
*
11604834 -TAAAAC
1 TTAAACC
11604840 TTAAACC
1 TTAAACC
11604847 TTAAACC
1 TTAAACC
*
11604854 CTAAACC
1 TTAAACC
* *
11604861 CTAAACA
1 TTAAACC
11604868 TTAAA-C
1 TTAAACC
*
11604874 ATAAACC
1 TTAAACC
11604881 -TAAACC
1 TTAAACC
*
11604887 CTAAACC
1 TTAAACC
*
11604894 TTAAGCC
1 TTAAACC
11604901 --AAACC
1 TTAAACC
11604906 TTAAACC
1 TTAAACC
*
11604913 CTAAACC
1 TTAAACC
*
11604920 CT-AACC
1 TTAAACC
*
11604926 -TAGACC
1 TTAAACC
*
11604932 CTAAACC
1 TTAAACC
11604939 ---AACC
1 TTAAACC
11604943 -TAAACC
1 TTAAACC
11604949 TTAAAC
1 TTAAAC
11604955 TACTAACCAA
Statistics
Matches: 129, Mismatches: 15, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
4 4 0.03
5 5 0.04
6 28 0.22
7 85 0.66
8 7 0.05
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (7 bp):
TTAAACC
Found at i:11604810 original size:14 final size:13
Alignment explanation
Indices: 11604792--11604954 Score: 122
Period size: 14 Copynumber: 12.4 Consensus size: 13
11604782 CTAATTCGGT
11604792 TAAACCTTAAACC
1 TAAACCTTAAACC
*
11604805 TTAAACTTTAAAACC
1 -TAAACCTT-AAACC
*
11604820 TAAACCCTAACACC
1 TAAACCTTAA-ACC
*
11604834 TAAAACTTAAACC
1 TAAACCTTAAACC
*
11604847 TTAAACCCTAAACCC
1 -TAAACCTTAAA-CC
* *
11604862 TAAACATTAAACA
1 TAAACCTTAAACC
11604875 TAAACC-TAAACCC
1 TAAACCTTAAA-CC
*
11604888 TAAACCTTAAGCC
1 TAAACCTTAAACC
11604901 -AAACCTTAAACCC
1 TAAACCTTAAA-CC
*
11604914 TAAACCCT-AACC
1 TAAACCTTAAACC
* *
11604926 TAGACCCTAAACC
1 TAAACCTTAAACC
11604939 --AACC-TAAACC
1 TAAACCTTAAACC
11604949 TTAAAC
1 -TAAAC
11604955 TACTAACCAA
Statistics
Matches: 120, Mismatches: 17, Indels: 25
0.74 0.10 0.15
Matches are distributed among these distances:
10 6 0.05
11 3 0.03
12 22 0.18
13 31 0.26
14 51 0.43
15 7 0.06
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (13 bp):
TAAACCTTAAACC
Found at i:11604936 original size:26 final size:26
Alignment explanation
Indices: 11604849--11604938 Score: 85
Period size: 26 Copynumber: 3.5 Consensus size: 26
11604839 CTTAAACCTT
** *
11604849 AAACCCTAAACCCTAAACATTAA-AC
1 AAACCCTAAACCCTAAACCCTAAGCC
* *
11604874 ATAAACCTAAACCCTAAACCTTAAGCC
1 A-AACCCTAAACCCTAAACCCTAAGCC
*
11604901 AAACCTTAAACCCTAAACCCTAA-CC
1 AAACCCTAAACCCTAAACCCTAAGCC
*
11604926 TAGACCCTAAACC
1 -AAACCCTAAACC
11604939 AACCTAAACC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.06
26 49 0.91
27 2 0.04
ACGTcount: A:0.46, C:0.36, G:0.02, T:0.17
Consensus pattern (26 bp):
AAACCCTAAACCCTAAACCCTAAGCC
Found at i:11604944 original size:17 final size:18
Alignment explanation
Indices: 11604843--11604954 Score: 75
Period size: 19 Copynumber: 5.9 Consensus size: 18
11604833 CTAAAACTTA
11604843 AACCTTAAACCCTAAACCCT
1 AACC-TAAACCCTAAA-CCT
* *
11604863 AAACATTAAA-CATAAACCT
1 -AAC-CTAAACCCTAAACCT
* * *
11604882 AAACCCTAAACCTTAAGCCA
1 -AA-CCTAAACCCTAAACCT
11604902 AACCTTAAACCCTAAACCCT
1 AACC-TAAACCCTAAA-CCT
*
11604922 AACCTAGACCCTAAACC-
1 AACCTAAACCCTAAACCT
*
11604939 AACCTAAACCTTAAAC
1 AACCTAAACCCTAAAC
11604955 TACTAACCAA
Statistics
Matches: 74, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
17 14 0.19
18 4 0.05
19 31 0.42
20 18 0.24
21 7 0.09
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.18
Consensus pattern (18 bp):
AACCTAAACCCTAAACCT
Found at i:11604961 original size:37 final size:36
Alignment explanation
Indices: 11604902--11604991 Score: 103
Period size: 36 Copynumber: 2.4 Consensus size: 36
11604892 CCTTAAGCCA
* * *
11604902 AACCTTAAACCCTAAACCCTAACCTAGA-CCCTAAACC
1 AACCTTAAACCTTAAACACTAACC-AAATCCC-AAACC
11604939 AACC-TAAACCTTAAACTACTAACCAAATCCCAAACC
1 AACCTTAAACCTTAAAC-ACTAACCAAATCCCAAACC
11604975 AACCCTTAAACCTTAAA
1 AA-CCTTAAACCTTAAA
11604992 AGCAATCATG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
36 20 0.43
37 15 0.33
38 11 0.24
ACGTcount: A:0.44, C:0.37, G:0.01, T:0.18
Consensus pattern (36 bp):
AACCTTAAACCTTAAACACTAACCAAATCCCAAACC
Found at i:11615356 original size:3 final size:3
Alignment explanation
Indices: 11615344--11615390 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
11615334 TTTTTTAGCG
*
11615344 TAA T-A TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11615391 ATGAGTCAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:11620084 original size:58 final size:57
Alignment explanation
Indices: 11619996--11620257 Score: 276
Period size: 58 Copynumber: 4.7 Consensus size: 57
11619986 AAAAAAATTA
* ** *
11619996 AAAAAATATTTTTTTAAAAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAAATTTTT
1 AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAATTTTT
*
11620055 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTC-T-----T--ATTTTA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTTT
* * *
11620103 AAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTTT
* * * *
11620160 -AAAAATGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCT
1 AAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAA-TTTTT
* *
11620219 AAAAAATATTTTAGA-AAAAAGTTGAAAGTATCAATTTTT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTT
11620258 TCTGTACAAA
Statistics
Matches: 173, Mismatches: 17, Indels: 28
0.79 0.08 0.13
Matches are distributed among these distances:
48 39 0.23
49 4 0.02
50 1 0.01
51 1 0.01
55 1 0.01
56 7 0.04
57 31 0.18
58 71 0.41
59 12 0.07
60 6 0.03
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (57 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTTT
Found at i:11620107 original size:48 final size:48
Alignment explanation
Indices: 11620049--11620142 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
11620039 TGAAAATAAA
*
11620049 ATTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTT
1 ATTTTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTT
*
11620097 ATTTTAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
1 ATTTTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
11620143 CTTGAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.41
Consensus pattern (48 bp):
ATTTTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTT
Found at i:11624013 original size:21 final size:21
Alignment explanation
Indices: 11623989--11624035 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
11623979 TTTAATTATA
11623989 TTATTTTTAATAAATTTTAAC
1 TTATTTTTAATAAATTTTAAC
* *
11624010 TTA-TTTTAATATATTTTTAC
1 TTATTTTTAATAAATTTTAAC
11624030 TATATT
1 T-TATT
11624036 AATTTTATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 16 0.73
21 5 0.23
22 1 0.05
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTTTAATAAATTTTAAC
Found at i:11624220 original size:16 final size:14
Alignment explanation
Indices: 11624185--11624226 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
11624175 AACTTTGATA
11624185 TATTAAT-TTAAAT
1 TATTAATATTAAAT
11624198 TATTAATATTATAAT
1 TATTAATATTA-AAT
11624213 TGATTAATA-TAAAT
1 T-ATTAATATTAAAT
11624227 AATAACAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 6 0.23
16 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
TATTAATATTAAAT
Found at i:11624433 original size:16 final size:16
Alignment explanation
Indices: 11624412--11624442 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11624402 ATATAAATAT
11624412 TAAATTTCAAATTTTG
1 TAAATTTCAAATTTTG
11624428 TAAATTTCAAATTTT
1 TAAATTTCAAATTTT
11624443 ATATGAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TAAATTTCAAATTTTG
Found at i:11625326 original size:15 final size:16
Alignment explanation
Indices: 11625268--11625323 Score: 78
Period size: 15 Copynumber: 3.4 Consensus size: 16
11625258 AAGTACAAAT
11625268 AATATAATTAAATATCAA
1 AATATAA-TAAAT-TCAA
11625286 AATATAATAAAATTCAA
1 AATATAAT-AAATTCAA
11625303 AAT-TAATAAATTCAA
1 AATATAATAAATTCAA
11625318 AATATA
1 AATATA
11625324 TAATAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
15 11 0.31
16 6 0.17
17 8 0.22
18 11 0.31
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
AATATAATAAATTCAA
Found at i:11625329 original size:18 final size:18
Alignment explanation
Indices: 11625242--11625329 Score: 64
Period size: 18 Copynumber: 5.0 Consensus size: 18
11625232 TCTCTTAGAT
*
11625242 ATTCAATATATAT-ATAA
1 ATTCAAAATATATAATAA
*
11625259 AGT-ACAAATAATATAATTAA
1 ATTCA-AAAT-ATATAA-TAA
11625279 ATATC-AAA-ATATAATAAA
1 AT-TCAAAATATATAAT-AA
11625297 ATTC-AAA-AT-TAATAA
1 ATTCAAAATATATAATAA
11625312 ATTCAAAATATATAATAA
1 ATTCAAAATATATAATAA
11625330 TATTTAAGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 19
0.73 0.04 0.24
Matches are distributed among these distances:
15 6 0.10
16 8 0.14
17 15 0.26
18 20 0.34
19 1 0.02
20 7 0.12
21 1 0.02
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (18 bp):
ATTCAAAATATATAATAA
Found at i:11625728 original size:20 final size:20
Alignment explanation
Indices: 11625703--11625760 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
11625693 GTTGAAATGA
*
11625703 AATAGTTTTAAAATTTAAGT
1 AATAGTTTTAAAATTTAAAT
* *
11625723 AATAGTATTAAATTTTAAAT
1 AATAGTTTTAAAATTTAAAT
11625743 AATTA-TTTTAAAAATTTA
1 AA-TAGTTTT-AAAATTTA
11625761 TTGCAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 22 0.71
21 9 0.29
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
AATAGTTTTAAAATTTAAAT
Found at i:11631880 original size:32 final size:32
Alignment explanation
Indices: 11631838--11631943 Score: 98
Period size: 32 Copynumber: 3.5 Consensus size: 32
11631828 GGTTTGTTTC
*
11631838 TATTTT-T-AAATATAATATAGATTTTTAATA
1 TATTTTATCAAATATAATATACATTTTTAATA
* * *
11631868 TATTTTATTAAATATAAAATTTCATTTTT--T-
1 TATTTTATCAAATATAATA-TACATTTTTAATA
*
11631898 TATTTT-TCAAATATAATATATATTTTTAATA
1 TATTTTATCAAATATAATATACATTTTTAATA
* *
11631929 CATTTGATCAAATAT
1 TATTTTATCAAATAT
11631944 TAGAATTTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
28 7 0.12
29 10 0.17
30 13 0.22
31 6 0.10
32 17 0.28
33 7 0.12
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (32 bp):
TATTTTATCAAATATAATATACATTTTTAATA
Found at i:11631975 original size:80 final size:79
Alignment explanation
Indices: 11631906--11632064 Score: 230
Period size: 80 Copynumber: 2.0 Consensus size: 79
11631896 TTTATTTTTC
* * *
11631906 AAATATAATA-TATATTTTTAATACATTTGATCAAATATTAGAATTTAAAATAAATATATTTCAA
1 AAATATAATATTA-ATTTTTAATAAATTTGATCAAATATTAGAATGTAAAATAAATAAATTTCAA
11631970 AATTTTCTATTTTAA
65 AATTTTCTATTTTAA
* * *
11631985 AAATATAATATTGAATTTTTAATAAATTTTATCAAATATTATAATGTCAAATAAATAAATTTCAA
1 AAATATAATATT-AATTTTTAATAAATTTGATCAAATATTAGAATGTAAAATAAATAAATTTCAA
*
11632050 AAGTTTCTATTTTAA
65 AATTTTCTATTTTAA
11632065 TAATTTTTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
79 10 0.14
80 60 0.85
81 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (79 bp):
AAATATAATATTAATTTTTAATAAATTTGATCAAATATTAGAATGTAAAATAAATAAATTTCAAA
ATTTTCTATTTTAA
Found at i:11633279 original size:2 final size:2
Alignment explanation
Indices: 11633267--11633296 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11633257 TCAACTCTCC
*
11633267 AT AT AT CT 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
11633297 TTTCTATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11638756 original size:15 final size:15
Alignment explanation
Indices: 11638736--11638765 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11638726 AATAAATAGG
11638736 TAGTTGAATTTTTTT
1 TAGTTGAATTTTTTT
*
11638751 TAGTTGTATTTTTTT
1 TAGTTGAATTTTTTT
11638766 GTCTATATAG
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:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (15 bp):
TAGTTGAATTTTTTT
Found at i:11642482 original size:10 final size:11
Alignment explanation
Indices: 11642460--11642497 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11642450 CACAAATCAA
11642460 TAATAACATAT
1 TAATAACATAT
11642471 TAATAA-ATAT
1 TAATAACATAT
* *
11642481 TAATAACTTAG
1 TAATAACATAT
11642492 TAATAA
1 TAATAA
11642498 TCATTAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (11 bp):
TAATAACATAT
Found at i:11642503 original size:21 final size:21
Alignment explanation
Indices: 11642454--11642559 Score: 67
Period size: 21 Copynumber: 5.1 Consensus size: 21
11642444 GATAAACACA
* * *
11642454 AATCAATAATAACATATTAAT
1 AATCATTAATAACTTAGTAAT
11642475 AAAT-ATTAATAACTTAGTAAT
1 -AATCATTAATAACTTAGTAAT
*
11642496 AATCATTAA-AACCTTAAT-AT
1 AATCATTAATAA-CTTAGTAAT
* * *
11642516 AATTAGT-ATAATTTAGTAAT
1 AATCATTAATAACTTAGTAAT
** * *
11642536 AATCATCGATAATTTAGTAGT
1 AATCATTAATAACTTAGTAAT
11642557 AAT
1 AAT
11642560 TAGTGATAAC
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
19 5 0.07
20 20 0.30
21 39 0.58
22 3 0.04
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.38
Consensus pattern (21 bp):
AATCATTAATAACTTAGTAAT
Found at i:11642567 original size:21 final size:21
Alignment explanation
Indices: 11642515--11642602 Score: 81
Period size: 21 Copynumber: 4.1 Consensus size: 21
11642505 AACCTTAATA
*
11642515 TAATTAGT-ATAATTTAGTAA
1 TAATTAGTGATAATTTAGTAG
*
11642535 TAATCA-TCGATAATTTAGTAG
1 TAATTAGT-GATAATTTAGTAG
* *
11642556 TAATTAGTGATAACTTAATAG
1 TAATTAGTGATAATTTAGTAG
* *
11642577 TAAATTAATTGATAAATTAGTAG
1 T-AATT-AGTGATAATTTAGTAG
11642600 TAA
1 TAA
11642603 ATAATTTGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 5 0.09
21 28 0.51
22 7 0.13
23 14 0.25
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.40
Consensus pattern (21 bp):
TAATTAGTGATAATTTAGTAG
Found at i:11642600 original size:23 final size:23
Alignment explanation
Indices: 11642543--11642614 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
11642533 AATAATCATC
* *
11642543 GATAATTTAGTAGT-AATT-AGT
1 GATAAATTAGTAGTAAATTAATT
* *
11642564 GATAACTTAATAGTAAATTAATT
1 GATAAATTAGTAGTAAATTAATT
11642587 GATAAATTAGTAGTAAA-TAATTT
1 GATAAATTAGTAGTAAATTAA-TT
11642610 GATAA
1 GATAA
11642615 TTTTTAGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
21 12 0.28
22 7 0.16
23 24 0.56
ACGTcount: A:0.46, C:0.01, G:0.14, T:0.39
Consensus pattern (23 bp):
GATAAATTAGTAGTAAATTAATT
Found at i:11642616 original size:22 final size:21
Alignment explanation
Indices: 11642563--11642626 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 21
11642553 TAGTAATTAG
11642563 TGATAACTTAATAGTAAATTAAT
1 TGATAA-TTAATAGTAAA-TAAT
*
11642586 TGATAAATTAGTAGTAAATAATT
1 TGAT-AATTAATAGTAAATAA-T
**
11642609 TGATAATTTTTAGTAAAT
1 TGATAATTAATAGTAAAT
11642627 CAGTAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 15 0.42
23 19 0.53
24 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (21 bp):
TGATAATTAATAGTAAATAAT
Found at i:11642777 original size:22 final size:23
Alignment explanation
Indices: 11642715--11642778 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
11642705 CTAAATCAAA
* *
11642715 GATAACTTAACAA-AAAATATGT
1 GATAACTTAATAATAAATTATGT
* *
11642737 GATAATTTAGTAACT-AATTAT-T
1 GATAACTTAATAA-TAAATTATGT
11642759 GATAACTTAATAATAAATTA
1 GATAACTTAATAATAAATTA
11642779 ATAATAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 1 0.03
22 27 0.82
23 5 0.15
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (23 bp):
GATAACTTAATAATAAATTATGT
Found at i:11642785 original size:22 final size:21
Alignment explanation
Indices: 11642760--11642820 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
11642750 CTAATTATTG
*
11642760 ATAACTTAATAATAAATTAATA
1 ATAA-TTAATAGTAAATTAATA
* *
11642782 ATAATCAAATAGTAAATTAGTA
1 ATAAT-TAATAGTAAATTAATA
*
11642804 ATTATTTAATAGTAAAT
1 A-TAATTAATAGTAAAT
11642821 CAGTTTTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.88
23 3 0.09
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (21 bp):
ATAATTAATAGTAAATTAATA
Found at i:11642833 original size:22 final size:22
Alignment explanation
Indices: 11642789--11642840 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
11642779 ATAATAATCA
*
11642789 AATAGTAAATTAGTAATTATTT
1 AATAGTAAATCAGTAATTATTT
*
11642811 AATAGTAAATCAGT-TTTAGTTT
1 AATAGTAAATCAGTAATTA-TTT
11642833 AATAGTAA
1 AATAGTAA
11642841 TTAATTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 3 0.11
22 24 0.89
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (22 bp):
AATAGTAAATCAGTAATTATTT
Found at i:11642880 original size:22 final size:22
Alignment explanation
Indices: 11642852--11643123 Score: 78
Period size: 22 Copynumber: 12.5 Consensus size: 22
11642842 TAATTGATAG
11642852 TAGTAAATCATAAATAATTTAA
1 TAGTAAATCATAAATAATTTAA
* *
11642874 TAGTAAAT--TAATGATAAATTAG
1 TAGTAAATCATAA--ATAATTTAA
* * ** *
11642896 TAGCAAATAATTGATAATTTAG
1 TAGTAAATCATAAATAATTTAA
* * *
11642918 TAGTTAATTATTAAA-AACTTAA
1 TAGTAAATCA-TAAATAATTTAA
* * * * *
11642940 AAATAAATCA-ATATAACTTAG
1 TAGTAAATCATAAATAATTTAA
** **
11642961 TAGTAAATCATCCATAACATAA
1 TAGTAAATCATAAATAATTTAA
* * * *
11642983 TAATTAATCA-ATGATAACTTAA
1 TAGTAAATCATA-AATAATTTAA
* **
11643005 TAATAAATCATGCATAATTTAA
1 TAGTAAATCATAAATAATTTAA
* *
11643027 TA-TAAATC-TGTAATAGTTTAA
1 TAGTAAATCAT-AAATAATTTAA
* * *
11643048 TAGTGTAA-CATAGATAATTTAG
1 TAGT-AAATCATAAATAATTTAA
* *
11643070 TAGTAAATCAGT-TATAATTTTA
1 TAGTAAATCA-TAAATAATTTAA
* * *
11643092 TACTAAATAATAAA-AAATTAA
1 TAGTAAATCATAAATAATTTAA
11643113 GTAGTAAATCA
1 -TAGTAAATCA
11643124 ATGATAACAT
Statistics
Matches: 180, Mismatches: 53, Indels: 34
0.67 0.20 0.13
Matches are distributed among these distances:
20 6 0.03
21 38 0.21
22 129 0.72
23 6 0.03
24 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.36
Consensus pattern (22 bp):
TAGTAAATCATAAATAATTTAA
Found at i:11643028 original size:44 final size:43
Alignment explanation
Indices: 11642933--11643034 Score: 125
Period size: 44 Copynumber: 2.4 Consensus size: 43
11642923 AATTATTAAA
* * *
11642933 AACTTAAAAATAAATCAATATAACTTAGTAGTAAATCATCCAT
1 AACTTAATAATAAATCAATATAACTTAATAATAAATCATCCAT
* * *
11642976 AACATAATAATTAATCAATGATAACTTAATAATAAATCATGCAT
1 AACTTAATAATAAATCAAT-ATAACTTAATAATAAATCATCCAT
*
11643020 AATTTAAT-ATAAATC
1 AACTTAATAATAAATC
11643035 TGTAATAGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 22 0.45
44 27 0.55
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.32
Consensus pattern (43 bp):
AACTTAATAATAAATCAATATAACTTAATAATAAATCATCCAT
Found at i:11643143 original size:44 final size:45
Alignment explanation
Indices: 11643063--11643151 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 45
11643053 TAACATAGAT
* * * ** * *
11643063 AATTTAGTAGTAAATCAGTTATAATTTTATACTAAATA-ATAAAA
1 AATTAAGTAGTAAATCAATGATAACATAATAATAAATATATAAAA
11643107 AATTAAGTAGTAAATCAATGATAACATAATAATAAATATATAAAA
1 AATTAAGTAGTAAATCAATGATAACATAATAATAAATATATAAAA
11643152 TATATAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 31 0.84
45 6 0.16
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (45 bp):
AATTAAGTAGTAAATCAATGATAACATAATAATAAATATATAAAA
Found at i:11643214 original size:22 final size:22
Alignment explanation
Indices: 11643189--11643239 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
11643179 AGTAATAAAT
* *
11643189 TAATAACATGACAGTAAATCAC
1 TAATAACATAACAATAAATCAC
* * *
11643211 TAATAATATAATAATAAATTAC
1 TAATAACATAACAATAAATCAC
11643233 TAATAAC
1 TAATAAC
11643240 TTAGTTATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (22 bp):
TAATAACATAACAATAAATCAC
Found at i:11643249 original size:22 final size:21
Alignment explanation
Indices: 11643224--11643275 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
11643214 TAATATAATA
*
11643224 ATAAATTACTAATAACTTAGTT
1 ATAAATTAATAATAACTTAG-T
* *
11643246 ATAAATTAATGATAATTTAGT
1 ATAAATTAATAATAACTTAGT
11643267 AGTAAATTA
1 A-TAAATTA
11643276 GTTAATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (21 bp):
ATAAATTAATAATAACTTAGT
Found at i:11643372 original size:22 final size:21
Alignment explanation
Indices: 11643323--11643504 Score: 95
Period size: 22 Copynumber: 8.4 Consensus size: 21
11643313 AATTAATAAC
*
11643323 AAATCAATTATAACTTT-ATAAT
1 AAATC-ATTATAA-TTTAATAGT
* *
11643345 -AATCATTAGTAATTTAGTGGT
1 AAATCATTA-TAATTTAATAGT
* *
11643366 AAATCATCAACAATTTAATAG-
1 AAATCAT-TATAATTTAATAGT
* *
11643387 AAATCATTCATAACTTAATGGT
1 AAATCATT-ATAATTTAATAGT
*
11643409 AAATCATTCATAA-TTAGA-AAT
1 AAATCATT-ATAATTTA-ATAGT
* *
11643430 AAATAATTAATAATTTAGTAGT
1 AAATCATT-ATAATTTAATAGT
*
11643452 AAATTATTGATAATTTAATAGT
1 AAATCATT-ATAATTTAATAGT
* * * *
11643474 AAATAACTAATAACTTAATTGT
1 AAATCA-TTATAATTTAATAGT
*
11643496 CAATCATTA
1 AAATCATTA
11643505 ATAACTTTTT
Statistics
Matches: 123, Mismatches: 27, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
20 7 0.06
21 42 0.34
22 72 0.59
23 2 0.02
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (21 bp):
AAATCATTATAATTTAATAGT
Found at i:11643413 original size:86 final size:89
Alignment explanation
Indices: 11643323--11643512 Score: 203
Period size: 86 Copynumber: 2.2 Consensus size: 89
11643313 AATTAATAAC
* * * *
11643323 AAATCAATT-ATAACTTTA-TAAT-AATCATTAGTAATTTAGTGGTAAATCATCAACAATTTAAT
1 AAATC-ATTAATAACTTTAGAAATAAATAATTAATAATTTAGTAGTAAATCATCAACAATTTAAT
* * *
11643385 AG-AAATCATTCATAACTTAATGGT
65 AGTAAATAACTAATAACTTAATGGT
* * ** *
11643409 AAATCATTCATAA--TTAGAAATAAATAATTAATAATTTAGTAGTAAATTATTGATAATTTAATA
1 AAATCATTAATAACTTTAGAAATAAATAATTAATAATTTAGTAGTAAATCATCAACAATTTAATA
*
11643472 GTAAATAACTAATAACTTAATTGT
66 GTAAATAACTAATAACTTAATGGT
*
11643496 CAATCATTAATAACTTT
1 AAATCATTAATAACTTT
11643513 TTATACTTGA
Statistics
Matches: 84, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
84 3 0.04
85 6 0.07
86 44 0.52
87 29 0.35
89 2 0.02
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.38
Consensus pattern (89 bp):
AAATCATTAATAACTTTAGAAATAAATAATTAATAATTTAGTAGTAAATCATCAACAATTTAATA
GTAAATAACTAATAACTTAATGGT
Found at i:11643813 original size:22 final size:22
Alignment explanation
Indices: 11643788--11643861 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 22
11643778 GACAACTTAT
* *
11643788 TAATTAATCATTGATAATATAA
1 TAATAAATCAATGATAATATAA
*
11643810 TAATAAATCAATGATAATTTAA
1 TAATAAATCAATGATAATATAA
* * * *
11643832 TAGTAAATTAGTGATAATTTAA
1 TAATAAATCAATGATAATATAA
*
11643854 TAGTAAAT
1 TAATAAAT
11643862 TAGTTTCAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (22 bp):
TAATAAATCAATGATAATATAA
Found at i:11643862 original size:22 final size:22
Alignment explanation
Indices: 11643799--11643865 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
11643789 AATTAATCAT
* * * *
11643799 TGATAATATAATAATAAATCAA
1 TGATAATTTAATAGTAAATTAG
11643821 TGATAATTTAATAGTAAATTAG
1 TGATAATTTAATAGTAAATTAG
11643843 TGATAATTTAATAGTAAATTAG
1 TGATAATTTAATAGTAAATTAG
11643865 T
1 T
11643866 TTCAATATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (22 bp):
TGATAATTTAATAGTAAATTAG
Found at i:11644137 original size:22 final size:22
Alignment explanation
Indices: 11644112--11644162 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
11644102 GATTTTGTAA
11644112 TAAAT-AATCGAAAAC-TAAGTAG
1 TAAATCAAT-GAAAACATAA-TAG
*
11644134 TAAATCAATGATAACATAATAG
1 TAAATCAATGAAAACATAATAG
11644156 TAAATCA
1 TAAATCA
11644163 TTGATAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (22 bp):
TAAATCAATGAAAACATAATAG
Found at i:11644308 original size:22 final size:22
Alignment explanation
Indices: 11644280--11644442 Score: 107
Period size: 22 Copynumber: 7.5 Consensus size: 22
11644270 GATAACTTTG
11644280 TAGTAAATCATCAATAAATTAA
1 TAGTAAATCATCAATAAATTAA
* *
11644302 TAATAAATCATCACTAAATTAA
1 TAGTAAATCATCAATAAATTAA
* * * * *
11644324 CAATAAATCAAT-TATAACTTTA
1 TAGTAAATC-ATCAATAAATTAA
** * * * *
11644346 TAACAAATTATCACTAACTTAG
1 TAGTAAATCATCAATAAATTAA
* *
11644368 TAGTAAATTATCAATAATTTAA
1 TAGTAAATCATCAATAAATTAA
* *
11644390 TAGTAAATTATTC-ATAACTTAA
1 TAGTAAATCA-TCAATAAATTAA
** *
11644412 TAGTAAATC-TTTATAAATTAG
1 TAGTAAATCATCAATAAATTAA
11644433 TAGTAAATCA
1 TAGTAAATCA
11644443 ATGTTAATTA
Statistics
Matches: 112, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
20 1 0.01
21 18 0.16
22 89 0.79
23 4 0.04
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.36
Consensus pattern (22 bp):
TAGTAAATCATCAATAAATTAA
Found at i:11644375 original size:44 final size:44
Alignment explanation
Indices: 11644272--11644420 Score: 122
Period size: 44 Copynumber: 3.4 Consensus size: 44
11644262 TAATTAATGA
* *
11644272 TAACTTTGTAGTAAATCATCAATAAATTAATAATAAATCATCAC
1 TAACTTAGTAGTAAATCATCAATAAATTAATAACAAATCATCAC
* ** * * * * *
11644316 TAAATTAACAATAAATCAAT-TATAACTTTATAACAAATTATCAC
1 TAACTTAGTAGTAAATC-ATCAATAAATTAATAACAAATCATCAC
* * ** *
11644360 TAACTTAGTAGTAAATTATCAATAATTTAATAGTAAATTATTCA-
1 TAACTTAGTAGTAAATCATCAATAAATTAATAACAAATCA-TCAC
*
11644404 TAACTTAATAGTAAATC
1 TAACTTAGTAGTAAATC
11644421 TTTATAAATT
Statistics
Matches: 80, Mismatches: 22, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
43 2 0.03
44 73 0.91
45 5 0.06
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.36
Consensus pattern (44 bp):
TAACTTAGTAGTAAATCATCAATAAATTAATAACAAATCATCAC
Found at i:11644436 original size:21 final size:22
Alignment explanation
Indices: 11644364--11644470 Score: 82
Period size: 22 Copynumber: 5.0 Consensus size: 22
11644354 TATCACTAAC
* *
11644364 TTAGTAGTAAAT-TATCAATAAT
1 TTAGTAGTAAATCTAT-TATAAA
* *
11644386 TTAATAGTAAAT-TATTCATAAC
1 TTAGTAGTAAATCTATT-ATAAA
*
11644408 TTAATAGTAAATCT-TTATAAA
1 TTAGTAGTAAATCTATTATAAA
*
11644429 TTAGTAGTAAATCAATGT-T-AA
1 TTAGTAGTAAATCTAT-TATAAA
11644450 TTAGTAGTAAATC-ATTGATAA
1 TTAGTAGTAAATCTATT-ATAA
11644471 TTGAGAAATA
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.01
20 2 0.03
21 32 0.44
22 35 0.49
23 2 0.03
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (22 bp):
TTAGTAGTAAATCTATTATAAA
Found at i:11644856 original size:21 final size:21
Alignment explanation
Indices: 11644791--11644928 Score: 102
Period size: 21 Copynumber: 6.6 Consensus size: 21
11644781 AGAAGGTTAA
* *
11644791 TTACTAAAATTA-ATTAAGAG
1 TTACCAAAATTATATTAAAAG
* * **
11644811 ATTACCAACATTTTATTAATGG
1 -TTACCAAAATTATATTAAAAG
*
11644833 TTACCAAAATTATATTATAAG
1 TTACCAAAATTATATTAAAAG
* * *
11644854 TTATCAAACTAATATTTAAAA-
1 TTACCAAAATTATA-TTAAAAG
* *
11644875 TTACCAAAATCATATCAAATAG
1 TTACCAAAATTATATTAAA-AG
*
11644897 -TACCAAAATTTTATTAAAAG
1 TTACCAAAATTATATTAAAAG
*
11644917 TTATCAAAATTA
1 TTACCAAAATTA
11644929 AAATTGCATA
Statistics
Matches: 89, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
20 6 0.07
21 72 0.81
22 11 0.12
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (21 bp):
TTACCAAAATTATATTAAAAG
Found at i:11645003 original size:3 final size:3
Alignment explanation
Indices: 11644995--11645031 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
11644985 TGATTAATAT
11644995 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11645032 AGTATAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11650544 original size:19 final size:18
Alignment explanation
Indices: 11650520--11650560 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
11650510 TTATTATATC
11650520 TTTAAAAATTATATAATAA
1 TTTAAAAATTATATAA-AA
11650539 TTT--AAATTATATAAAA
1 TTTAAAAATTATATAAAA
11650555 TTTAAA
1 TTTAAA
11650561 GAAGTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 5 0.25
17 11 0.55
18 1 0.05
19 3 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTAAAAATTATATAAAA
Found at i:11650558 original size:16 final size:17
Alignment explanation
Indices: 11650525--11650560 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
11650515 ATATCTTTAA
11650525 AAATTATATAATAATTT
1 AAATTATATAATAATTT
11650542 AAATTATATAA-AATTT
1 AAATTATATAATAATTT
11650558 AAA
1 AAA
11650561 GAAGTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATTATATAATAATTT
Found at i:11653725 original size:22 final size:23
Alignment explanation
Indices: 11653683--11653728 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
11653673 AAAGTTTAAG
11653683 AAAAAGTCTTGTAGCTTTGAAAAA
1 AAAAAGTCTTGTAGC-TTGAAAAA
11653707 AAAAAGTCTTGTAGC-TGAAAAA
1 AAAAAGTCTTGTAGCTTGAAAAA
11653729 GATGGAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 7 0.32
24 15 0.68
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (23 bp):
AAAAAGTCTTGTAGCTTGAAAAA
Found at i:11655848 original size:27 final size:29
Alignment explanation
Indices: 11655818--11655883 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 29
11655808 CAATAAATTC
* *
11655818 AAATTTTAAAAAATATGGGC-ATTT-TTA
1 AAATTTTAAAAAATATCGACAATTTGTTA
* *
11655845 AAATATT-CAAAATATCGACAATTTGTTA
1 AAATTTTAAAAAATATCGACAATTTGTTA
*
11655873 AAAATTTAAAA
1 AAATTTTAAAA
11655884 TTTTTAATTA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
26 9 0.31
27 10 0.34
28 8 0.28
29 2 0.07
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (29 bp):
AAATTTTAAAAAATATCGACAATTTGTTA
Found at i:11656939 original size:20 final size:20
Alignment explanation
Indices: 11656888--11656950 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
11656878 CGATCTAATA
*
11656888 TATATATAAAATTTTA-ATT
1 TATATATATAATTTTATATT
*
11656907 AAT-TA-ATTAATTTTATATT
1 TATATATA-TAATTTTATATT
11656926 TATATATATAATTTTATATT
1 TATATATATAATTTTATATT
11656946 TATAT
1 TATAT
11656951 TAAAAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.03
18 9 0.24
19 7 0.19
20 19 0.51
21 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATATATATAATTTTATATT
Found at i:11658728 original size:101 final size:100
Alignment explanation
Indices: 11658575--11658757 Score: 305
Period size: 101 Copynumber: 1.8 Consensus size: 100
11658565 TTTAATAAAG
* *
11658575 ATAAAATTACATTTCATTATATTATAATGATAGAAATAATTTGTAATAGTAAAGAAAAATATATA
1 ATAAAATTACATTTCATTATACTATAATGATAGAAATAATTTGTAATAGTAAAGAAAAA-ATAGA
11658640 TACTAGATAATTTAAAATTATTTATAATATATATTA
65 TACTAGATAATTTAAAATTATTTATAATATATATTA
* *
11658676 ATAAAATTACATTGT-ATTATGCTATAATGATAGAAATAATTTGTAATCGTAAAGAAAAAATAGA
1 ATAAAATTACATT-TCATTATACTATAATGATAGAAATAATTTGTAATAGTAAAGAAAAAATAGA
11658740 TACTAGATAATTTAAAAT
65 TACTAGATAATTTAAAAT
11658758 AAAACTAAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 22 0.29
101 54 0.70
102 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (100 bp):
ATAAAATTACATTTCATTATACTATAATGATAGAAATAATTTGTAATAGTAAAGAAAAAATAGAT
ACTAGATAATTTAAAATTATTTATAATATATATTA
Found at i:11662790 original size:22 final size:22
Alignment explanation
Indices: 11662752--11662834 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 22
11662742 AGTTATTACA
*
11662752 GATTTA-TATTAAATTATGCAT
1 GATTTATTATTAAGTTATGCAT
*
11662773 GATTTATTATTAGGTTAT-CATT
1 GATTTATTATTAAGTTATGCA-T
* * *
11662795 GATTAATTATTATGTTATGGAT
1 GATTTATTATTAAGTTATGCAT
*
11662817 GATTTACTATTAAGTTAT
1 GATTTATTATTAAGTTAT
11662835 ATTGATTTAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 8 0.16
22 42 0.82
23 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.51
Consensus pattern (22 bp):
GATTTATTATTAAGTTATGCAT
Found at i:11662842 original size:21 final size:22
Alignment explanation
Indices: 11662752--11662853 Score: 86
Period size: 22 Copynumber: 4.7 Consensus size: 22
11662742 AGTTATTACA
*
11662752 GATTTA-TATTAAATTATGCA-T
1 GATTTACTATTAAGTTATG-ATT
* * *
11662773 GATTTATTATTAGGTTATCATT
1 GATTTACTATTAAGTTATGATT
* * *
11662795 GATTAATTATTATGTTATGGA-T
1 GATTTACTATTAAGTTAT-GATT
11662817 GATTTACTATTAAGTTAT-ATT
1 GATTTACTATTAAGTTATGATT
*
11662838 GATTTACTTTTAAGTT
1 GATTTACTATTAAGTT
11662854 TTTAATAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.01
21 23 0.34
22 42 0.63
23 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.52
Consensus pattern (22 bp):
GATTTACTATTAAGTTATGATT
Found at i:11662891 original size:22 final size:22
Alignment explanation
Indices: 11662815--11662893 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
11662805 TATGTTATGG
* *
11662815 ATGATTTACTATTAAGTTATAT
1 ATGATTTACTACTAAGTTATTT
**
11662837 -TGATTTACTTTTAAGTT-TTT
1 ATGATTTACTACTAAGTTATTT
* * *
11662857 AATAATTAACTACTAAATTATTT
1 -ATGATTTACTACTAAGTTATTT
11662880 ATGATTTACTACTA
1 ATGATTTACTACTA
11662894 TCAATTAATT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 2 0.04
21 16 0.36
22 24 0.53
23 3 0.07
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (22 bp):
ATGATTTACTACTAAGTTATTT
Found at i:11662927 original size:22 final size:22
Alignment explanation
Indices: 11662902--11662953 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
11662892 TATCAATTAA
*
11662902 TTACTATTAAACTAA-AACTGAT
1 TTACTATTAAA-TAATAACTAAT
*
11662924 TTACTATTAAATAATTACTAAT
1 TTACTATTAAATAATAACTAAT
11662946 TTACTATT
1 TTACTATT
11662954 TGGTTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 3 0.11
22 24 0.89
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (22 bp):
TTACTATTAAATAATAACTAAT
Found at i:11663135 original size:22 final size:21
Alignment explanation
Indices: 11663110--11663171 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
11663100 ATATTATTGT
11663110 ATTATTATTGATTTACTAAAAA
1 ATTATTATT-ATTTACTAAAAA
* * **
11663132 ATTATCAATTACTTACTACTAA
1 ATTAT-TATTATTTACTAAAAA
*
11663154 TTTATTATTAATTTACTA
1 ATTATTATT-ATTTACTA
11663172 TTAAGTTATC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
21 3 0.10
22 25 0.81
23 3 0.10
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTATTATTATTTACTAAAAA
Found at i:11663180 original size:22 final size:22
Alignment explanation
Indices: 11663144--11663203 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
11663134 TATCAATTAC
* * *
11663144 TTACTACTAATTTATTATTAAT
1 TTACTACTAAGTTATCACTAAT
*
11663166 TTACTATTAAGTTATCACTAAT
1 TTACTACTAAGTTATCACTAAT
* *
11663188 TTATTACTAAATTATC
1 TTACTACTAAGTTATC
11663204 GATGATTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.50
Consensus pattern (22 bp):
TTACTACTAAGTTATCACTAAT
Found at i:11663196 original size:11 final size:11
Alignment explanation
Indices: 11663148--11663202 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
11663138 AATTACTTAC
11663148 TACTAATTTAT
1 TACTAATTTAT
* *
11663159 TATTAATTTAC
1 TACTAATTTAT
* *
11663170 TATTAAGTTAT
1 TACTAATTTAT
*
11663181 CACTAATTTAT
1 TACTAATTTAT
*
11663192 TACTAAATTAT
1 TACTAATTTAT
11663203 CGATGATTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (11 bp):
TACTAATTTAT
Found at i:11663196 original size:44 final size:44
Alignment explanation
Indices: 11663110--11663202 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
11663100 ATATTATTGT
* *
11663110 ATTATTATTGATTTACTAAAAAATTATCAATTACTTACTACTAA
1 ATTATTATTAATTTACTAAAAAATTATCAATAACTTACTACTAA
* ** * * * *
11663154 TTTATTATTAATTTACTATTAAGTTATCACTAATTTATTACTAA
1 ATTATTATTAATTTACTAAAAAATTATCAATAACTTACTACTAA
11663198 ATTAT
1 ATTAT
11663203 CGATGATTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (44 bp):
ATTATTATTAATTTACTAAAAAATTATCAATAACTTACTACTAA
Found at i:11663268 original size:22 final size:22
Alignment explanation
Indices: 11663243--11663295 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
11663233 ATTTAAGGTT
*
11663243 TTAATGATTAATTACTAAGTTA
1 TTAATGATTAATTAATAAGTTA
* * *
11663265 TTAATTATTTATTAATATGTTA
1 TTAATGATTAATTAATAAGTTA
*
11663287 TTATTGATT
1 TTAATGATT
11663296 TGTGTTTATC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (22 bp):
TTAATGATTAATTAATAAGTTA
Found at i:11664024 original size:149 final size:148
Alignment explanation
Indices: 11663864--11664149 Score: 317
Period size: 149 Copynumber: 1.9 Consensus size: 148
11663854 TTACCTTTGC
* * * * * * * * *
11663864 ATTCTTCAT-AAACAATTTCTTTTATTACACAAAATTATGGTTTTTTTTTTAATTGTTGCTTCAT
1 ATTCTCCATAAAAAAATTTCTTCTACTAAACAAAAATATGG-TATATTTTTAATTATTGCTTCAT
* * *
11663928 -TCTAGTTACTATTATTAAAAATAATTTTTTTGATATTTTGATACCAATCATC-TTCTCTATTTG
65 GT-TA-TTACCATTATTAAAAATAATTTTTTTCATATTTTGATACCAATCAACTTTCTC-ATTTG
11663991 GAAAGAGTAAAGAATATTTCCT
127 GAAAGAGTAAAGAATATTTCCT
* *
11664013 ATTCTCCATAAAAAAAATTTCTTCTACTAAATAAAAATATTGTATATTTTTAATTATTGCTTCAT
1 ATTCTCCAT-AAAAAAATTTCTTCTACTAAACAAAAATATGGTATATTTTTAATTATTGCTTCAT
* * * * * * *
11664078 GTTATTCCCATTATTGAAATTGATTTTTTTCATATTTTGATTCCAATCAACTTTTTCATTTGTAA
65 GTTATTACCATTATTAAAAATAATTTTTTTCATATTTTGATACCAATCAACTTTCTCATTTGGAA
11664143 AGAGTAA
130 AGAGTAA
11664150 CAAATACTGT
Statistics
Matches: 112, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
149 61 0.54
150 26 0.23
151 25 0.22
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (148 bp):
ATTCTCCATAAAAAAATTTCTTCTACTAAACAAAAATATGGTATATTTTTAATTATTGCTTCATG
TTATTACCATTATTAAAAATAATTTTTTTCATATTTTGATACCAATCAACTTTCTCATTTGGAAA
GAGTAAAGAATATTTCCT
Found at i:11666992 original size:15 final size:15
Alignment explanation
Indices: 11666972--11667001 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11666962 TTATATAGAC
11666972 AAAAAAATACAACTA
1 AAAAAAATACAACTA
*
11666987 AAAAAAATTCAACTA
1 AAAAAAATACAACTA
11667002 CCTATTTATT
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:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAAATACAACTA
Found at i:11672474 original size:2 final size:2
Alignment explanation
Indices: 11672467--11672500 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11672457 CTTATAGAAA
*
11672467 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11672501 GGAGAGTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11673814 original size:78 final size:78
Alignment explanation
Indices: 11673719--11673947 Score: 229
Period size: 78 Copynumber: 3.0 Consensus size: 78
11673709 AAATACAAAC
* * * *
11673719 TTTTGAAATTTATTTATTTGACATTATAATATTTGATAAAATTTATTAAAATTCA-ATATTATAT
1 TTTTGAAATATATTTATTTGAAATTATAATATTTGATAAAATGTATTAAAAAT-ATATATTATAT
*
11673783 TTTAAAACAGAAAA
65 TTGAAAACAGAAAA
*
11673797 TTTTGAAATATATTTATTTTAAATTATAATATTTGATAAAATGTATTAAAAATATATATTATATT
1 TTTTGAAATATATTTATTTGAAATTATAATATTTGATAAAATGTATTAAAAATATATATTATATT
*
11673862 TGAAAA-ATAAAA
66 TGAAAACAGAAAA
** * ** * * *
11673874 -AAT-AAAT-TATTAAAAATGAAAATT-T-ATATTTAATAAAATATATTAAAAATCTATATTATA
1 TTTTGAAATATATT-TATTTG-AAATTATAATATTTGATAAAATGTATTAAAAATATATATTATA
* *
11673934 TTTAAAAATAGAAA
64 TTTGAAAACAGAAA
11673948 CAAACCCAAT
Statistics
Matches: 129, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
74 43 0.33
75 11 0.09
76 6 0.05
77 6 0.05
78 63 0.49
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (78 bp):
TTTTGAAATATATTTATTTGAAATTATAATATTTGATAAAATGTATTAAAAATATATATTATATT
TGAAAACAGAAAA
Found at i:11676129 original size:21 final size:20
Alignment explanation
Indices: 11676105--11676145 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
11676095 ATCAAGCAAA
* *
11676105 AATTGATCAAATAAGTCATAT
1 AATTAATCAAACAAGT-ATAT
11676126 AATTAATCAAACAAGTATAT
1 AATTAATCAAACAAGTATAT
11676146 GATAATTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (20 bp):
AATTAATCAAACAAGTATAT
Found at i:11679690 original size:20 final size:20
Alignment explanation
Indices: 11679633--11679690 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
11679623 CTTTTTGCAA
* * *
11679633 TAAATTTTTAAAATAACTATT
1 TAAA-TTTTAAAATTATTACT
* * *
11679654 TAAAATTTAATACTATTACT
1 TAAATTTTAAAATTATTACT
11679674 TAAATTTTAAAATTATT
1 TAAATTTTAAAATTATT
11679691 TCATTTCAAC
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAATTTTAAAATTATTACT
Found at i:11680983 original size:16 final size:16
Alignment explanation
Indices: 11680962--11680992 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11680952 ATACTCATAT
11680962 AAAATTTAAAATTTAC
1 AAAATTTAAAATTTAC
*
11680978 AAAATTTGAAATTTA
1 AAAATTTAAAATTTA
11680993 ATATTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAATTTAAAATTTAC
Found at i:11681200 original size:32 final size:31
Alignment explanation
Indices: 11681163--11681222 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
11681153 TATATAATTA
11681163 ATTATTAATAAT-ATCATATTAATAATATTGTT
1 ATTATTAATAATAATCA-ATT-ATAATATTGTT
* *
11681195 ATTATTTATATTAATCAATTATAATATT
1 ATTATTAATAATAATCAATTATAATATT
11681223 AATAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 8 0.32
32 13 0.52
33 4 0.16
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (31 bp):
ATTATTAATAATAATCAATTATAATATTGTT
Found at i:11681223 original size:16 final size:14
Alignment explanation
Indices: 11681198--11681239 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 14
11681188 TATTGTTATT
11681198 ATTT-ATATTAATCA
1 ATTTAATATTAAT-A
11681212 ATTATAATATTAATA
1 ATT-TAATATTAATA
11681227 ATTTAA-ATTAATA
1 ATTTAATATTAATA
11681240 TATCCAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 5 0.19
16 8 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTAATATTAATA
Found at i:11681415 original size:10 final size:10
Alignment explanation
Indices: 11681400--11681433 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
11681390 TAATATAGTA
11681400 AAAATATATT
1 AAAATATATT
*
11681410 AAAATAAATT
1 AAAATATATT
*
11681420 AAAATTTATT
1 AAAATATATT
11681430 AAAA
1 AAAA
11681434 ATAATATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATATATT
Found at i:11685655 original size:59 final size:58
Alignment explanation
Indices: 11685529--11685868 Score: 432
Period size: 59 Copynumber: 5.7 Consensus size: 58
11685519 TCTTGTGTAG
11685529 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAAATTTATTTTTAA
* * *
11685587 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTT-ATTTTTAA
* * *
11685646 GGAAAATTGATACTTTCAACTTTTTCTCAAAAGAAAACCTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAA-AATA-TTTTTTTGAAAATTTATTTTTAA
* * * * *
11685707 GGAAAATTGATATTTTCAACTTTT-CTCCAAAAATATTCTTTAGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAAATTT-ATTTTTAA
* * *
11685766 GGAAAATCGATACTTTCAACTTTTCCTCAAAAAGCTTTTTTTTTTTAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA---TATTTTTTTGAAAATTTATTTTTAA
* *
11685827 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
11685869 TTATTTTTAT
Statistics
Matches: 243, Mismatches: 28, Indels: 22
0.83 0.10 0.08
Matches are distributed among these distances:
57 1 0.00
58 65 0.27
59 71 0.29
60 10 0.04
61 71 0.29
62 25 0.10
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:11685713 original size:120 final size:119
Alignment explanation
Indices: 11685529--11685868 Score: 490
Period size: 120 Copynumber: 2.9 Consensus size: 119
11685519 TCTTGTGTAG
11685529 GGAAAATTGATACTTTCAACTTTTCCTC---AAAAACTTTTTTTTGAAAATTTATTTTTAAGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAC-TTTTTTTGAAAATTTATTTTTAAGAAA
*
11685591 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTGATTTTCAA
65 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTGATTTTCAA
* * *
11685646 GGAAAATTGATACTTTCAACTTTTTCTCAAAAGAAAACCTTTTTTGAAAATTTATTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAA-AAAACTTTTTTTGAAAATTTATTTTTAAGAAA
* * *
11685711 AATTGATATTTTCAACTTTT-CTCCAAAAATATTCTTTAGAAACTTTGATTTTCAA
65 AATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAACTTTGATTTTCAA
* **** *
11685766 GGAAAATCGATACTTTCAACTTTTCCTCAAAAAGCTTTTTTTTTTTAAAATTTATTTTTAAGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-AAACTTTTTTTGAAAATTTATTTTTAAGAAA
*
11685831 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
65 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
11685869 TTATTTTTAT
Statistics
Matches: 196, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
117 27 0.14
119 3 0.02
120 160 0.82
121 6 0.03
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTGAAAATTTATTTTTAAGAAAA
ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTGATTTTCAA
Found at i:11685925 original size:4 final size:4
Alignment explanation
Indices: 11685916--11686028 Score: 67
Period size: 4 Copynumber: 28.0 Consensus size: 4
11685906 ATAAAAGTGA
* *
11685916 AAAT AAAT AAAT AAAG AAA- AACAA AAAT -AA- AAAT AAA- AAA- AATATT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AA-A-T
* * *
11685962 AAAT AAACCT AATCT A-AT AAAT AAAAA AAAT AAAT AAAT AAAC AAAT
1 AAAT AAA--T AA-AT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
*
11686009 AAAC AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT
11686029 TAAAAAAAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
3 13 0.15
4 61 0.70
5 8 0.09
6 5 0.06
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:11685949 original size:30 final size:29
Alignment explanation
Indices: 11685885--11685952 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
11685875 TTATTTAAAG
* * *
11685885 AAAATAGAATAATAAAACAAAATAAAAGTG
1 AAAATA-AATAATAAAACAAAACAAAAATA
11685915 AAAATAAATAAATAAAGA-AAAACAAAAATA
1 AAAATAAAT-AATAAA-ACAAAACAAAAATA
11685945 AAAATAAA
1 AAAATAAA
11685953 AAAAATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 3 0.09
30 29 0.88
31 1 0.03
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (29 bp):
AAAATAAATAATAAAACAAAACAAAAATA
Found at i:11685959 original size:35 final size:33
Alignment explanation
Indices: 11685880--11686041 Score: 102
Period size: 34 Copynumber: 4.8 Consensus size: 33
11685870 TATTTTTATT
* * *
11685880 TAAAGAAAATAGAAT-AATAAAACAAAATAAAAG
1 TAAAAAAAATA-AATAAAAAAAACAAAATAAAAA
*
11685913 TGAAAATAAATAAATAAAGAAAAACAAAAATAAAAA
1 T-AAAAAAAATAAATAAA-AAAAAC-AAAATAAAAA
* * * **
11685949 TAAAAAAAAT-ATTAAATAAACCTAATCTAATAAA
1 TAAAAAAAATAAATAAAAAAAAC-AAAATAA-AAA
*
11685983 TAAAAAAAATAAAT-AAATAAAC-AAATAAACAA
1 TAAAAAAAATAAATAAAAAAAACAAAATAAA-AA
* *
11686015 -ATAAATAAATAAATTAAAAAAA-AAAAT
1 TA-AAAAAAATAAATAAAAAAAACAAAAT
11686042 TGAAGCGGCT
Statistics
Matches: 100, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
31 2 0.02
32 17 0.17
33 23 0.23
34 33 0.33
35 15 0.15
36 10 0.10
ACGTcount: A:0.74, C:0.04, G:0.03, T:0.19
Consensus pattern (33 bp):
TAAAAAAAATAAATAAAAAAAACAAAATAAAAA
Found at i:11685965 original size:16 final size:17
Alignment explanation
Indices: 11685934--11686007 Score: 73
Period size: 18 Copynumber: 4.4 Consensus size: 17
11685924 AAATAAAGAA
11685934 AAACAAAAATAA-AAAT
1 AAACAAAAATAATAAAT
*
11685950 AAA-AAAAATATTAAAT
1 AAACAAAAATAATAAAT
* **
11685966 AAACCTAATCTAATAAAT
1 AAA-CAAAAATAATAAAT
11685984 AAA-AAAAATAAATAAAT
1 AAACAAAAAT-AATAAAT
11686001 AAACAAA
1 AAACAAA
11686008 TAAACAAATA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
15 7 0.16
16 13 0.29
17 10 0.22
18 15 0.33
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (17 bp):
AAACAAAAATAATAAAT
Found at i:11686010 original size:16 final size:16
Alignment explanation
Indices: 11685916--11686041 Score: 80
Period size: 16 Copynumber: 7.8 Consensus size: 16
11685906 ATAAAAGTGA
* *
11685916 AAATAAATAAATAAAG
1 AAATAAAAAAATAAAT
11685932 AAA-AACAAAAAT-AA-
1 AAATAA-AAAAATAAAT
*
11685946 AAATAAAAAAA-ATATT
1 AAATAAAAAAATA-AAT
** *
11685962 AAATAAACCTAATCTAAT
1 AAATAAA-AAAAT-AAAT
11685980 AAATAAAAAAAATAAAT
1 AAAT-AAAAAAATAAAT
* *
11685997 AAATAAACAAATAAAC
1 AAATAAAAAAATAAAT
*
11686013 AAATAAATAAATAAATT
1 AAATAAAAAAATAAA-T
*
11686030 AAAAAAAAAAAT
1 AAATAAAAAAAT
11686042 TGAAGCGGCT
Statistics
Matches: 85, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
14 8 0.09
15 7 0.08
16 39 0.46
17 19 0.22
18 9 0.11
19 3 0.04
ACGTcount: A:0.75, C:0.05, G:0.01, T:0.19
Consensus pattern (16 bp):
AAATAAAAAAATAAAT
Found at i:11686889 original size:22 final size:21
Alignment explanation
Indices: 11686864--11686924 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
11686854 AAAATCAAAC
*
11686864 AAAAAATGAATCATATAAATAA
1 AAAAAATGAA-CAGATAAATAA
*
11686886 AAAAAATTAACAGATAAATTAA
1 AAAAAATGAACAGATAAA-TAA
*
11686908 AATTAAAT-AACAGATAA
1 AA-AAAATGAACAGATAA
11686925 TACATAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.21
22 23 0.68
23 4 0.12
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAAAATGAACAGATAAATAA
Found at i:11687099 original size:17 final size:18
Alignment explanation
Indices: 11687058--11687100 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
11687048 TATATAAAAT
11687058 AATAAAAATACAAATACA
1 AATAAAAATACAAATACA
11687076 AAT-AAAATACAAATA-A
1 AATAAAAATACAAATACA
*
11687092 ACTAAAAAT
1 AATAAAAAT
11687101 GTAAAATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 17 0.74
18 3 0.13
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (18 bp):
AATAAAAATACAAATACA
Found at i:11687123 original size:24 final size:24
Alignment explanation
Indices: 11687078--11687121 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
11687068 CAAATACAAA
11687078 TAAAATACAAATAAACTAAAAATG
1 TAAAATACAAATAAACTAAAAATG
11687102 TAAAATACAAA-AAA-TAAAAA
1 TAAAATACAAATAAACTAAAAA
11687122 AAATAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (24 bp):
TAAAATACAAATAAACTAAAAATG
Found at i:11694752 original size:25 final size:22
Alignment explanation
Indices: 11694707--11694751 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11694697 TTTTTAATCG
*
11694707 TAATTATAATGATTTTTTATTA
1 TAATTATAATAATTTTTTATTA
11694729 TAATTATAATAATTTTTTATTA
1 TAATTATAATAATTTTTTATTA
11694751 T
1 T
11694752 TTTTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TAATTATAATAATTTTTTATTA
Found at i:11705197 original size:50 final size:49
Alignment explanation
Indices: 11705129--11705225 Score: 113
Period size: 50 Copynumber: 2.0 Consensus size: 49
11705119 AAATGAGAAA
* * ** * *
11705129 TAAAAAGAATTTTTTAAATGGGCCCAAATGGTGGAAAATTTAAAAATTC
1 TAAAAAAAATTTTCTAAATGAACCCAAATGATGAAAAATTTAAAAATTC
* *
11705178 TAAAAAAAATATTTCTAAATTAACCCAAATGATGAAAAATTTAGAAAT
1 TAAAAAAAAT-TTTCTAAATGAACCCAAATGATGAAAAATTTAAAAAT
11705226 AAAAAAAAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 9 0.23
50 30 0.77
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (49 bp):
TAAAAAAAATTTTCTAAATGAACCCAAATGATGAAAAATTTAAAAATTC
Found at i:11705233 original size:114 final size:114
Alignment explanation
Indices: 11705115--11705349 Score: 316
Period size: 114 Copynumber: 2.1 Consensus size: 114
11705105 ATTTTCTTTC
* * * *
11705115 AAAAAAATGAGAAATAAAAAGAATTTTTTAAATGGGCCCAAATGGTGGAAAATTTAAAAA-TTCT
1 AAAAAAAGGAGAAATAAAAAGAA-TTTCTAAATAGGCCCAAATGATGG-AAATTTAAAAATTTC-
* *
11705179 AAA-AA-AAA-TATTTCTAAATTAACCCAAATGATGAAAAATTTAGAAATAA
63 AAACAAGAAACTATTTATAAATTAACCCAAATGATGAAAAATTTAAAAATAA
*
11705228 AAAAAAAGGAGAAATAAAAAGAATTTCTAAATAGGCCCAAATGATGGAAATTTAGAAATTTCAAA
1 AAAAAAAGGAGAAATAAAAAGAATTTCTAAATAGGCCCAAATGATGGAAATTTAAAAATTTCAAA
* * *
11705293 CAAGAAACTATTTATAAATTGACCTAAATGGTGAAAAATTTAAAAATAA
66 CAAGAAACTATTTATAAATTAACCCAAATGATGAAAAATTTAAAAATAA
*
11705342 ATAAAAAG
1 AAAAAAAG
11705350 AATTTCTAAA
Statistics
Matches: 107, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
111 13 0.12
112 26 0.24
113 25 0.23
114 43 0.40
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (114 bp):
AAAAAAAGGAGAAATAAAAAGAATTTCTAAATAGGCCCAAATGATGGAAATTTAAAAATTTCAAA
CAAGAAACTATTTATAAATTAACCCAAATGATGAAAAATTTAAAAATAA
Found at i:11705378 original size:49 final size:49
Alignment explanation
Indices: 11705239--11705393 Score: 118
Period size: 49 Copynumber: 3.1 Consensus size: 49
11705229 AAAAAAGGAG
* * *
11705239 AAATAAAAAGAATTTCTAAATAGGCCCAAATGATG-GAAATTTAGAAATTTC
1 AAATAAAAAGAATTTCTAAATAAGCCCAAATG-TGAAAAATTTA-AAA-ATC
* ** * * *
11705290 AAACAAGAAACTATTTATAAAT-TGACCTAAATGGTGAAAAATTTAAAAAT-
1 AAATAA-AAAGAATTTCTAAATAAG-CCCAAAT-GTGAAAAATTTAAAAATC
* *
11705340 AAATAAAAAGAATTTCTAAATAAGCCCAAATAGTGAAAATTTTAGAAATTC
1 AAATAAAAAGAATTTCTAAATAAGCCCAAAT-GTGAAAAATTTA-AAAATC
11705391 AAA
1 AAA
11705394 AAGAGAAAAT
Statistics
Matches: 80, Mismatches: 17, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
49 29 0.36
50 10 0.12
51 10 0.12
52 23 0.29
53 8 0.10
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (49 bp):
AAATAAAAAGAATTTCTAAATAAGCCCAAATGTGAAAAATTTAAAAATC
Found at i:11709392 original size:23 final size:22
Alignment explanation
Indices: 11709366--11709433 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 22
11709356 TGGGTGAAAG
*
11709366 AATGAAAGAAAGGAAAAGAAAAA
1 AATGAAAAAAAGGAAAA-AAAAA
*
11709389 AATGAAAAAAATG--AAAAAAA
1 AATGAAAAAAAGGAAAAAAAAA
*
11709409 AATGAAAAAAATGAAAAAAATAA
1 AATGAAAAAAAGGAAAAAAA-AA
11709432 AA
1 AA
11709434 AAAATGAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 18 0.45
21 2 0.05
22 5 0.12
23 15 0.38
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (22 bp):
AATGAAAAAAAGGAAAAAAAAA
Found at i:11709395 original size:9 final size:9
Alignment explanation
Indices: 11709379--11709476 Score: 105
Period size: 9 Copynumber: 11.0 Consensus size: 9
11709369 GAAAGAAAGG
11709379 AAAA-GAAA
1 AAAATGAAA
11709387 AAAATGAAA
1 AAAATGAAA
11709396 AAAATGAAAAA
1 AAAATG--AAA
11709407 AAAATGAAA
1 AAAATGAAA
11709416 AAAATGAAA
1 AAAATGAAA
*
11709425 AAAATAAAA
1 AAAATGAAA
11709434 AAAATG-AA
1 AAAATGAAA
*
11709442 AGAATGAAA
1 AAAATGAAA
**
11709451 AAAA-GATG
1 AAAATGAAA
11709459 AAAATGAAA
1 AAAATGAAA
11709468 TAAAA-GAAA
1 -AAAATGAAA
11709477 GACTCAGATT
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
8 17 0.22
9 46 0.61
10 4 0.05
11 9 0.12
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (9 bp):
AAAATGAAA
Found at i:11709404 original size:18 final size:17
Alignment explanation
Indices: 11709379--11709476 Score: 99
Period size: 17 Copynumber: 5.5 Consensus size: 17
11709369 GAAAGAAAGG
11709379 AAAAGAAAAAAATGAAA
1 AAAAGAAAAAAATGAAA
11709396 AAAATGAAAAAAAAATGAAA
1 AAAA-G--AAAAAAATGAAA
*
11709416 AAAATGAAAAAAATAAAA
1 AAAA-GAAAAAAATGAAA
*
11709434 AAAATG-AAAGAATGAAA
1 AAAA-GAAAAAAATGAAA
**
11709451 AAAAGATGAAAATGAAA
1 AAAAGAAAAAAATGAAA
11709468 TAAAAGAAA
1 -AAAAGAAA
11709477 GACTCAGATT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
16 1 0.01
17 25 0.37
18 24 0.35
20 18 0.26
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (17 bp):
AAAAGAAAAAAATGAAA
Found at i:11709409 original size:20 final size:20
Alignment explanation
Indices: 11709384--11709442 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
11709374 AAAGGAAAAG
11709384 AAAAAAATGAAAAAAATGAA
1 AAAAAAATGAAAAAAATGAA
11709404 AAAAAAATGAAAAAAATG--
1 AAAAAAATGAAAAAAATGAA
*
11709422 AAAAAAATAAAAAAAATGAA
1 AAAAAAATGAAAAAAATGAA
11709442 A
1 A
11709443 GAATGAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 17 0.47
20 19 0.53
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.10
Consensus pattern (20 bp):
AAAAAAATGAAAAAAATGAA
Found at i:11709425 original size:43 final size:42
Alignment explanation
Indices: 11709366--11709476 Score: 107
Period size: 46 Copynumber: 2.5 Consensus size: 42
11709356 TGGGTGAAAG
* *
11709366 AATGAAAGAAAGGAAAAGAAAAAAATGAAAAAAATGAAAAAAA
1 AATGAAAAAAATGAAAAGAAAAAAATG-AAAAAATGAAAAAAA
* *
11709409 AATGAAAAAAATGAAAAAAATAAAAAAAATGAAAGAATGAAAAAAA
1 AATGAAAAAAATG---AAAA-GAAAAAAATGAAAAAATGAAAAAAA
*
11709455 GATGAAAATGAAAT-AAAAGAAA
1 AATGAAAA--AAATGAAAAGAAA
11709477 GACTCAGATT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
43 14 0.25
44 4 0.07
46 25 0.45
47 9 0.16
48 4 0.07
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (42 bp):
AATGAAAAAAATGAAAAGAAAAAAATGAAAAAATGAAAAAAA
Found at i:11709472 original size:20 final size:19
Alignment explanation
Indices: 11709379--11709472 Score: 92
Period size: 20 Copynumber: 5.1 Consensus size: 19
11709369 GAAAGAAAGG
11709379 AAAA-GAAAA-AAATGAAA
1 AAAATGAAAAGAAATGAAA
*
11709396 AAAATGAAAAAAAAATGAAA
1 AAAATG-AAAAGAAATGAAA
*
11709416 AAAATGAAAA-AAATAAAA
1 AAAATGAAAAGAAATGAAA
11709434 AAAATG-AAAG-AATGAAAA
1 AAAATGAAAAGAAATG-AAA
11709452 AAAGATGAAAATGAAAT-AAA
1 AAA-ATGAAAA-GAAATGAAA
11709472 A
1 A
11709473 GAAAGACTCA
Statistics
Matches: 66, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
17 10 0.15
18 20 0.30
19 11 0.17
20 21 0.32
21 1 0.02
22 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.11
Consensus pattern (19 bp):
AAAATGAAAAGAAATGAAA
Found at i:11711155 original size:42 final size:42
Alignment explanation
Indices: 11711097--11711426 Score: 348
Period size: 42 Copynumber: 8.0 Consensus size: 42
11711087 CAATGAGCCT
* * * *
11711097 TTTAT-TTTTCAAAGTTGTGTTGCCTCTGTTTAAAGGAGCAA
1 TTTATCTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAA
11711138 TTTATCTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAA
1 TTTATCTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAA
* * *
11711180 TTTA-CTATCCAAAGTTATGGTGCCTC-ATTTAGAGGAGTAA
1 TTTATCTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAA
* * *
11711220 TTTTATCTTTTCAAAGTTATGGTGCCTCTATTTAGAGAAGCAA
1 -TTTATCTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAA
* ** * *
11711263 TTTATTTTTTTAAAGTTGTGGTGCCTCTGTTTAGAGGAGTAA
1 TTTATCTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAA
* * *
11711305 TTTAT-TTTTCAAAGTTGCGGTGCCTCTGTTTAGAGGAGCAA
1 TTTATCTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAA
* * * * * *
11711346 TTTA-CTTTCTAAAGTTGTGGTGCCTTTGTTTAAAAGAGCCAT
1 TTTATCTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAG-CAA
* * * *
11711388 TTTAT-TTTCAAAAGTTGTTGAGCCTCTATTTAAAGGAGC
1 TTTATCTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGC
11711427 TTGTTTACTT
Statistics
Matches: 249, Mismatches: 33, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
40 13 0.05
41 94 0.38
42 130 0.52
43 12 0.05
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.41
Consensus pattern (42 bp):
TTTATCTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAA
Found at i:11711245 original size:83 final size:83
Alignment explanation
Indices: 11711097--11711426 Score: 378
Period size: 83 Copynumber: 4.0 Consensus size: 83
11711087 CAATGAGCCT
* * * * * *
11711097 TTTATTTTTCAAAGTTGTGTTGCCTCTGTTTAAAGGAGCAATTTATCTTTCCAAAGTTGTGGTGC
1 TTTACTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGTAATTTATCTTTTCAAAGTTGTGGTGC
11711162 CTCTATTTAGAGGAGCAA
66 CTCTATTTAGAGGAGCAA
* * * *
11711180 TTTACTATCCAAAGTTATGGTGCCTC-ATTTAGAGGAGTAATTTTATCTTTTCAAAGTTATGGTG
1 TTTACTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGTAA-TTTATCTTTTCAAAGTTGTGGTG
*
11711244 CCTCTATTTAGAGAAGCAA
65 CCTCTATTTAGAGGAGCAA
* ** *
11711263 TTTATTTTTTTAAAGTTGTGGTGCCTCTGTTTAGAGGAGTAATTTAT-TTTTCAAAGTTGCGGTG
1 TTTA-CTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGTAATTTATCTTTTCAAAGTTGTGGTG
*
11711327 CCTCTGTTTAGAGGAGCAA
65 CCTCTATTTAGAGGAGCAA
* * * * ** * * *
11711346 TTTACTTTCTAAAGTTGTGGTGCCTTTGTTTAAAAGAGCCATTT-TATTTTCAAAAGTTGTTGAG
1 TTTACTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGTAATTTATCTTTTC-AAAGTTGTGGTG
*
11711410 CCTCTATTTAAAGGAGC
65 CCTCTATTTAGAGGAGC
11711427 TTGTTTACTT
Statistics
Matches: 209, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
81 1 0.00
82 49 0.23
83 124 0.59
84 22 0.11
85 13 0.06
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.41
Consensus pattern (83 bp):
TTTACTTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGTAATTTATCTTTTCAAAGTTGTGGTGC
CTCTATTTAGAGGAGCAA
Found at i:11711327 original size:125 final size:126
Alignment explanation
Indices: 11711096--11711426 Score: 370
Period size: 125 Copynumber: 2.7 Consensus size: 126
11711086 TCAATGAGCC
* * *
11711096 TTTTAT-TTTTCAAAGTTGTGTTGCCTCTGTTTAAAGGAGCAATTTATCTTTCCAAAGTTGTGGT
1 TTTTATCTTTTCAAAGTTGTGGTGCCTCTATTTAAAGAAGCAATTTATCTTTCCAAAGTTGTGGT
* *
11711160 GCCTCTATTTAGAGGAGCAATTTACTATCCAAAGTTATGGTGCCTC-ATTTAGAGGAGTAA
66 GCCTCTATTTAGAGGAGCAATTTACTATCCAAAGTTACGGTGCCTCTATTTAGAGGAGCAA
* * * **
11711220 TTTTATCTTTTCAAAGTTATGGTGCCTCTATTTAGAGAAGCAATTTATTTTTTTAAAGTTGTGGT
1 TTTTATCTTTTCAAAGTTGTGGTGCCTCTATTTAAAGAAGCAATTTATCTTTCCAAAGTTGTGGT
* * * * * * *
11711285 GCCTCTGTTTAGAGGAGTAATTTATTTTTCAAAGTTGCGGTGCCTCTGTTTAGAGGAGCAA
66 GCCTCTATTTAGAGGAGCAATTTACTATCCAAAGTTACGGTGCCTCTATTTAGAGGAGCAA
* * * *
11711346 -TTTA-C-TTTCTAAAGTTGTGGTGCCTTTGTTTAAA-AGAGCCATTTTAT-TTTCAAAAGTTGT
1 TTTTATCTTTTC-AAAGTTGTGGTGCCTCTATTTAAAGA-AG-CAATTTATCTTTCCAAAGTTGT
* * *
11711406 TGAGCCTCTATTTAAAGGAGC
63 GGTGCCTCTATTTAGAGGAGC
11711427 TTGTTTACTT
Statistics
Matches: 173, Mismatches: 29, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
123 5 0.03
124 56 0.32
125 100 0.58
126 12 0.07
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.41
Consensus pattern (126 bp):
TTTTATCTTTTCAAAGTTGTGGTGCCTCTATTTAAAGAAGCAATTTATCTTTCCAAAGTTGTGGT
GCCTCTATTTAGAGGAGCAATTTACTATCCAAAGTTACGGTGCCTCTATTTAGAGGAGCAA
Found at i:11712438 original size:26 final size:26
Alignment explanation
Indices: 11712409--11712463 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
11712399 AATAAATATT
11712409 AATTATTC-AATGATGAAATTTATA-AA
1 AATT-TTCAAATGAT-AAATTTATATAA
*
11712435 AA-TTTCAAATGATAAATTTTTATAA
1 AATTTTCAAATGATAAATTTATATAA
11712460 AATT
1 AATT
11712464 CTTAGGTGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
24 11 0.44
25 11 0.44
26 3 0.12
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (26 bp):
AATTTTCAAATGATAAATTTATATAA
Found at i:11712632 original size:57 final size:56
Alignment explanation
Indices: 11712569--11712778 Score: 231
Period size: 57 Copynumber: 3.8 Consensus size: 56
11712559 AAAAAAGGAG
*
11712569 AAATAAAAAGAATTTCTAAATGGACTCAAATGGTGAAAAAATTAGAAATAACAAAAA
1 AAATAAAAA-AATTTCTAAATGGACTCAAATGGTGAAAAATTTAGAAATAACAAAAA
* * * *
11712626 AAATAAAAAGAATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAAT-TC-CAAA
1 AAATAAAAA-AATTTCTAAATGGACTCAAATGGTGAAAAATTTAGAAATAACAAAAA
* * * *
11712681 AAA-GAAAATATTTCTAAATTGACT-AAATGGTGAAAAATTTAGAAATAA-ATAAAT
1 AAATAAAAAAATTTCTAAATGGACTCAAATGGTGAAAAATTTAGAAATAACA-AAAA
*
11712735 AAAT--AAAAA-TTCTAAATTGGAC-CAAATGATGAAAAATTTAGAAA
1 AAATAAAAAAATTTCTAAA-TGGACTCAAATGGTGAAAAATTTAGAAA
11712779 CTCAAAAAGA
Statistics
Matches: 132, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
52 29 0.22
53 41 0.31
54 9 0.07
55 6 0.05
56 1 0.01
57 46 0.35
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.25
Consensus pattern (56 bp):
AAATAAAAAAATTTCTAAATGGACTCAAATGGTGAAAAATTTAGAAATAACAAAAA
Found at i:11712722 original size:52 final size:53
Alignment explanation
Indices: 11712580--11712818 Score: 220
Period size: 53 Copynumber: 4.4 Consensus size: 53
11712570 AATAAAAAGA
* * * * *
11712580 ATTTCTAAATGGACTCAAATGGTGAAAAAATTAGAAATAACAAAAAAAATAAAAAGA
1 ATTTCTAAATTGAC-CAAATGGTGAAAAATTTAGAAATAAC-CAAAAAA-GAAAA-T
* *
11712637 ATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAAT-TCCAAAAAAGAAAAT
1 ATTTCTAAATTGA-CCAAATGGTGAAAAATTTAGAAATAACCAAAAAAGAAAAT
* ** *
11712690 ATTTCTAAATTGACTAAATGGTGAAAAATTTAGAAATAAATAAATAAATAAAA-
1 ATTTCTAAATTGACCAAATGGTGAAAAATTTAGAAATAACCAAA-AAAGAAAAT
*
11712743 A-TTCTAAATTGGACCAAATGATGAAAAATTTAG--A-AACTCAAAAAGAGAAAAT
1 ATTTCTAAATT-GACCAAATGGTGAAAAATTTAGAAATAAC-CAAAAA-AGAAAAT
* *
11712795 ATTTCTAATTTGGCCAAAATGGTG
1 ATTTCTAAATTGACC-AAATGGTG
11712819 GAATAATTAA
Statistics
Matches: 153, Mismatches: 20, Indels: 22
0.78 0.10 0.11
Matches are distributed among these distances:
50 4 0.03
51 9 0.06
52 36 0.24
53 51 0.33
54 11 0.07
55 6 0.04
56 1 0.01
57 34 0.22
58 1 0.01
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (53 bp):
ATTTCTAAATTGACCAAATGGTGAAAAATTTAGAAATAACCAAAAAAGAAAAT
Found at i:11712768 original size:105 final size:109
Alignment explanation
Indices: 11712580--11712802 Score: 307
Period size: 105 Copynumber: 2.1 Consensus size: 109
11712570 AATAAAAAGA
11712580 ATTTCTAAATGGACTCAAATGGTGAAAAAATTAGAAATAACAAAAAAAATAAAAAGAATTTCTAA
1 ATTTCTAAATGGACTCAAATGGTGAAAAAATTAGAAATAACAAAAAAAAT-AAAAGAATTTCTAA
* *
11712645 ATAGACCCAAATGGTGAAAAATTTAGAAATTCCAAAAA-AGAAAAT
65 ATAGACCCAAATGATGAAAAATTTAGAAACT-CAAAAAGAGAAAAT
* * *
11712690 ATTTCTAAATTGACT-AAATGGTGAAAAATTTAGAAATAA-ATAAATAAAT-AAA-AA-TTCTAA
1 ATTTCTAAATGGACTCAAATGGTGAAAAAATTAGAAATAACA-AAAAAAATAAAAGAATTTCTAA
*
11712750 ATTGGA-CCAAATGATGAAAAATTTAGAAACTCAAAAAGAGAAAAT
65 A-TAGACCCAAATGATGAAAAATTTAGAAACTCAAAAAGAGAAAAT
11712795 ATTTCTAA
1 ATTTCTAA
11712803 TTTGGCCAAA
Statistics
Matches: 104, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
104 6 0.06
105 45 0.43
106 5 0.05
107 3 0.03
108 1 0.01
109 30 0.29
110 14 0.13
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (109 bp):
ATTTCTAAATGGACTCAAATGGTGAAAAAATTAGAAATAACAAAAAAAATAAAAGAATTTCTAAA
TAGACCCAAATGATGAAAAATTTAGAAACTCAAAAAGAGAAAAT
Found at i:11717408 original size:21 final size:21
Alignment explanation
Indices: 11717375--11717418 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
11717365 AGATAATGAA
11717375 ATTTTTTTCTTTTACTACATT
1 ATTTTTTTCTTTTACTACATT
11717396 ATTTATTTT-TTTTACTACATT
1 ATTT-TTTTCTTTTACTACATT
11717417 AT
1 AT
11717419 AATTATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTTTTTCTTTTACTACATT
Found at i:11717897 original size:15 final size:14
Alignment explanation
Indices: 11717871--11717900 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
11717861 TACGTATATC
11717871 ATATATATATCACA
1 ATATATATATCACA
11717885 ATATATCATATCACA
1 ATATAT-ATATCACA
11717900 A
1 A
11717901 GACTTGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATATATATCACA
Found at i:11719274 original size:16 final size:17
Alignment explanation
Indices: 11719240--11719289 Score: 93
Period size: 16 Copynumber: 3.0 Consensus size: 17
11719230 ATGAAAATTG
11719240 AATTTATTCATTATTAA
1 AATTTATTCATTATTAA
11719257 AATTTATTCATT-TTAA
1 AATTTATTCATTATTAA
11719273 AATTTATTCATTATTAA
1 AATTTATTCATTATTAA
11719290 TTATTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 16 0.50
17 16 0.50
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTTATTCATTATTAA
Found at i:11719491 original size:19 final size:17
Alignment explanation
Indices: 11719443--11719484 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
11719433 TATAATGATA
*
11719443 ATATATATATAAATTAT
1 ATATAAATATAAATTAT
11719460 ATATAAATATAAATTAT
1 ATATAAATATAAATTAT
11719477 ATATAAAT
1 ATATAAAT
11719485 GCATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAAATATAAATTAT
Done.