Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 300 of 333
Found at i:98910299 original size:41 final size:41
Alignment explanation
Indices: 98910211--98910410 Score: 231
Period size: 41 Copynumber: 4.8 Consensus size: 41
98910201 AACCTTGAGT
* * *
98910211 CTAGCAAGTTTCGTGCCGGTGAGTTCATATCAAGCGT-TGTGC
1 CTAGCAGGCTTCGTGCCGGTGA-TTTATATCAAGC-TCTGTGC
* *
98910253 TTAGCAGGCTTCGTGCCGGTGATTTATATCAGGCTCTGTGC
1 CTAGCAGGCTTCGTGCCGGTGATTTATATCAAGCTCTGTGC
* * *
98910294 CTAGCAGGCTTCGTGCCAGTGATTTATGTCAAGCTTTGTGC
1 CTAGCAGGCTTCGTGCCGGTGATTTATATCAAGCTCTGTGC
* * **
98910335 TTAGCAGGCTCCGTGCTAGTGATTTATATCAAGCTCTGTGC
1 CTAGCAGGCTTCGTGCCGGTGATTTATATCAAGCTCTGTGC
* * *
98910376 CTAGCAGGCTTTGTGCCGGTGTAATTGTATCAAGC
1 CTAGCAGGCTTCGTGCCGGTG-ATTTATATCAAGC
98910411 CTCGAGCTTG
Statistics
Matches: 134, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
40 1 0.01
41 103 0.77
42 30 0.22
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.33
Consensus pattern (41 bp):
CTAGCAGGCTTCGTGCCGGTGATTTATATCAAGCTCTGTGC
Found at i:98910343 original size:82 final size:83
Alignment explanation
Indices: 98910211--98910392 Score: 258
Period size: 82 Copynumber: 2.2 Consensus size: 83
98910201 AACCTTGAGT
* * * * *
98910211 CTAGCAAGTTTCGTGCCGGTGAGTTCATATCAAGCGTTGTGCTTAGCAGGCTTCGTGCCGGTGAT
1 CTAGCAGGCTTCGTGCCAGTGAGTTCATATCAAGCGTTGTGCTTAGCAGGCTCCGTGCCAGTGAT
*
98910276 TTATATCAGGCTCTGTGC
66 TTATATCAAGCTCTGTGC
* * * *
98910294 CTAGCAGGCTTCGTGCCAGTGA-TTTATGTCAAGCTTTGTGCTTAGCAGGCTCCGTGCTAGTGAT
1 CTAGCAGGCTTCGTGCCAGTGAGTTCATATCAAGCGTTGTGCTTAGCAGGCTCCGTGCCAGTGAT
98910358 TTATATCAAGCTCTGTGC
66 TTATATCAAGCTCTGTGC
*
98910376 CTAGCAGGCTTTGTGCC
1 CTAGCAGGCTTCGTGCC
98910393 GGTGTAATTG
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 69 0.78
83 19 0.22
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (83 bp):
CTAGCAGGCTTCGTGCCAGTGAGTTCATATCAAGCGTTGTGCTTAGCAGGCTCCGTGCCAGTGAT
TTATATCAAGCTCTGTGC
Found at i:98914995 original size:3 final size:3
Alignment explanation
Indices: 98914987--98915024 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
98914977 CAAAAACAGA
98914987 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG G-G GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
98915025 TTTTGTTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:98916890 original size:13 final size:13
Alignment explanation
Indices: 98916868--98916897 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
98916858 TCTGTTTTCA
98916868 TTTT-TTTTTATT
1 TTTTATTTTTATT
98916880 TTTTATTTTTATT
1 TTTTATTTTTATT
98916893 TTTTA
1 TTTTA
98916898 AGTTATGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:98918477 original size:14 final size:14
Alignment explanation
Indices: 98918451--98918483 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
98918441 CCTCCCGATA
98918451 ATTATTGATTCCAT
1 ATTATTGATTCCAT
98918465 -TTATTGCATTCCAT
1 ATTATTG-ATTCCAT
98918479 ATTAT
1 ATTAT
98918484 AGGTCTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.35
14 7 0.41
15 4 0.24
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (14 bp):
ATTATTGATTCCAT
Found at i:98921159 original size:15 final size:15
Alignment explanation
Indices: 98921139--98921168 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
98921129 GAAGAATGCA
98921139 ACAAACATGGGTATT
1 ACAAACATGGGTATT
98921154 ACAAACATGGGTATT
1 ACAAACATGGGTATT
98921169 GAGTTGTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
ACAAACATGGGTATT
Found at i:98935516 original size:3 final size:3
Alignment explanation
Indices: 98935508--98935555 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
98935498 GAAATAAGAG
* *
98935508 TAA TAA TAA TAA TAA TAA CAA TAG TAA TAA TAA -AA TAA TTAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
98935552 TAA T
1 TAA T
98935556 GTAAAGGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:98951279 original size:46 final size:46
Alignment explanation
Indices: 98951226--98951401 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
98951216 TTGTTGAGCA
* *
98951226 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
98951272 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
98951319 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
98951365 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCTCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
98951402 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 68 0.65
47 36 0.35
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:98951335 original size:93 final size:93
Alignment explanation
Indices: 98951223--98951393 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
98951213 GGATTGTTGA
* * * *
98951223 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
98951288 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
98951316 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
98951381 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
98951394 TCTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:98954373 original size:15 final size:15
Alignment explanation
Indices: 98954334--98954413 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
98954324 GTATATTGGG
*
98954334 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
98954349 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
98954364 TTTCTTTATTCTAGG-
1 TTTCTTTATTCT-GGA
*
98954379 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
98954394 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
98954408 TTTCTT
1 TTTCTT
98954414 CTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
14 12 0.22
15 39 0.71
16 4 0.07
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:98956853 original size:46 final size:46
Alignment explanation
Indices: 98956800--98956975 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
98956790 TTGTTGAGCA
*
98956800 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
98956846 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
98956893 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
98956939 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
98956976 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 68 0.66
47 35 0.34
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:98956956 original size:93 final size:93
Alignment explanation
Indices: 98956797--98956968 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
98956787 GGATTGTTGA
* * * *
98956797 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
98956862 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
98956890 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
98956955 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
98956969 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:98963843 original size:43 final size:43
Alignment explanation
Indices: 98963739--98963885 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
98963729 TATCCCGTAT
* * * * *
98963739 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCTAGAC
1 ATGGTCTTACACGTAATCATATAACGATGCCAATGTCCTAGAC
* * *
98963782 AGGGTCTTATACGAAATCATATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCATATAACGATGCCAATGTCCTAGAC
* * *
98963825 ATGGTCTTACATGTAATCATAGT-ACAATGCCAAT-TTCTCAGAC
1 ATGGTCTTACACGTAATCATA-TAACGATGCCAATGTCCT-AGAC
*
98963868 ATGGTTTTACACGTAATC
1 ATGGTCTTACACGTAATC
98963886 TCATCTCGGT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 3 0.03
43 82 0.95
44 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCATATAACGATGCCAATGTCCTAGAC
Found at i:98965737 original size:43 final size:43
Alignment explanation
Indices: 98965638--98965748 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
98965628 CTGTAGCAGT
* *
98965638 GCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGAC
1 GCTTTTCCCACAAACGCCGCTAAAGAACATGACATTTAACGAC
* * **
98965681 GCTTTTCCCACAAATGCCGCTAAAGAACATGACATTTAATGGT
1 GCTTTTCCCACAAACGCCGCTAAAGAACATGACATTTAACGAC
*
98965724 G-TTTTCTCTACAAACGCCGCTAAAG
1 GCTTTTC-CCACAAACGCCGCTAAAG
98965749 GTCATGTTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 5 0.08
43 54 0.92
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
GCTTTTCCCACAAACGCCGCTAAAGAACATGACATTTAACGAC
Found at i:98966171 original size:66 final size:66
Alignment explanation
Indices: 98966086--98966219 Score: 173
Period size: 66 Copynumber: 2.0 Consensus size: 66
98966076 ATTCTAAAGA
* *
98966086 TGTAGCTGGAGTTCCTCATATTTTCTACTT-GCCTCTGCTTCCCTCT-CTGCTGCCTCCACTTTA
1 TGTAGCTGGAGTTCCTCATATTTTCT-CTTAGCCTCTGCTTCCCT-TGATGCCGCCTCCACTTTA
98966149 AGT
64 AGT
** * * *
98966152 TGTAGCTGGAGTTTTTCATATTTTCTTTTAGCCTCTGCTTCTCTTGATGCCGCCTCTACTTTAAG
1 TGTAGCTGGAGTTCCTCATATTTTCTCTTAGCCTCTGCTTCCCTTGATGCCGCCTCCACTTTAAG
98966217 T
66 T
98966218 TG
1 TG
98966220 AGCAATTTGC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 3 0.05
66 56 0.95
ACGTcount: A:0.13, C:0.27, G:0.16, T:0.44
Consensus pattern (66 bp):
TGTAGCTGGAGTTCCTCATATTTTCTCTTAGCCTCTGCTTCCCTTGATGCCGCCTCCACTTTAAG
T
Found at i:98975257 original size:29 final size:29
Alignment explanation
Indices: 98975215--98975270 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
98975205 GGCAAAATAT
98975215 TTATAAAATTAAAAATA-TGTTATAAAAGC
1 TTATAAAATTAAAAATATTGTT-TAAAAGC
* *
98975244 TTATCAAATTAAAATTATTGTTTAAAA
1 TTATAAAATTAAAAATATTGTTTAAAA
98975271 ATATGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (29 bp):
TTATAAAATTAAAAATATTGTTTAAAAGC
Found at i:98976079 original size:28 final size:29
Alignment explanation
Indices: 98976044--98976102 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
98976034 CCAAATCTCC
98976044 AAATTTTTATATTTTCCAAGTTAAAAGCA
1 AAATTTTTATATTTTCCAAGTTAAAAGCA
*
98976073 AAATTTTTATATTTTCCAAGTTAAATGCA
1 AAATTTTTATATTTTCCAAGTTAAAAGCA
98976102 A
1 A
98976103 GTACCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (29 bp):
AAATTTTTATATTTTCCAAGTTAAAAGCA
Found at i:98976802 original size:22 final size:22
Alignment explanation
Indices: 98976759--98976807 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
98976749 GGAAAATCAA
* *
98976759 AGGGATTTCGGGATCTTGATTT
1 AGGGATTTCGAGATCTTAATTT
* *
98976781 AGGGATTTTGAGATTTTAATTT
1 AGGGATTTCGAGATCTTAATTT
*
98976803 TGGGA
1 AGGGA
98976808 AAAATTAATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.31, T:0.43
Consensus pattern (22 bp):
AGGGATTTCGAGATCTTAATTT
Found at i:98978417 original size:9 final size:9
Alignment explanation
Indices: 98978403--98978438 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
98978393 AAGTAAAATT
98978403 AAATTAATC
1 AAATTAATC
98978412 AAATTAATC
1 AAATTAATC
*
98978421 AAATTAATTA
1 AAATTAA-TC
98978431 AAATTAAT
1 AAATTAAT
98978439 ATGATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (9 bp):
AAATTAATC
Found at i:98978426 original size:18 final size:19
Alignment explanation
Indices: 98978403--98978438 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
98978393 AAGTAAAATT
*
98978403 AAATTAA-TCAAATTAATC
1 AAATTAATTAAAATTAATC
98978421 AAATTAATTAAAATTAAT
1 AAATTAATTAAAATTAAT
98978439 ATGATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATTAATTAAAATTAATC
Found at i:98978915 original size:31 final size:31
Alignment explanation
Indices: 98978839--98978957 Score: 123
Period size: 31 Copynumber: 3.6 Consensus size: 31
98978829 TTTAATAGAT
* * *
98978839 TTAATATTAAATTTAATTTAATACTTATCT-TA
1 TTAATATTAAATTTAATTTAA-AGTGAT-TATC
98978871 TTAATATTTTATTAATTTAATATTAAAGTGATTATC
1 TTAATA--TTA--AATTTAAT-TTAAAGTGATTATC
**
98978907 TTAATATTAAATTTAATTTATTGTGATTATC
1 TTAATATTAAATTTAATTTAAAGTGATTATC
98978938 TTAATATTAAATTTAATTTA
1 TTAATATTAAATTTAATTTA
98978958 TTGTTTATCT
Statistics
Matches: 76, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
31 32 0.42
32 14 0.18
34 6 0.08
35 1 0.01
36 19 0.25
37 4 0.05
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (31 bp):
TTAATATTAAATTTAATTTAAAGTGATTATC
Found at i:98978958 original size:31 final size:31
Alignment explanation
Indices: 98978880--98978968 Score: 130
Period size: 31 Copynumber: 2.9 Consensus size: 31
98978870 ATTAATATTT
**
98978880 TATT-AATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTTAAT-TTATTGTGATTATCTTAA
98978911 TATTAAATTTAATTTATTGTGATTATCTTAA
1 TATTAAATTTAATTTATTGTGATTATCTTAA
98978942 TATTAAATTTAATTTATTGT--TTATCTT
1 TATTAAATTTAATTTATTGTGATTATCTT
98978969 GTAGATAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
29 7 0.13
31 40 0.73
32 8 0.15
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (31 bp):
TATTAAATTTAATTTATTGTGATTATCTTAA
Found at i:98979559 original size:12 final size:12
Alignment explanation
Indices: 98979542--98979571 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
98979532 GATCACATGG
*
98979542 CCGTGTCCAAGC
1 CCGTGTCCAACC
98979554 CCGTGTCCAACC
1 CCGTGTCCAACC
98979566 CCGTGT
1 CCGTGT
98979572 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.43, G:0.23, T:0.20
Consensus pattern (12 bp):
CCGTGTCCAACC
Found at i:98985642 original size:18 final size:20
Alignment explanation
Indices: 98985619--98985663 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
98985609 GACATTGAAA
98985619 AATATTGAATAC-GAAA-TG
1 AATATTGAATACTGAAATTG
98985637 AATATTG-ATACTGAAATTG
1 AATATTGAATACTGAAATTG
*
98985656 AAAATTGA
1 AATATTGA
98985664 GAAATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.17
18 11 0.48
19 8 0.35
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (20 bp):
AATATTGAATACTGAAATTG
Found at i:98987090 original size:11 final size:11
Alignment explanation
Indices: 98987074--98987102 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
98987064 AAATGAAGGT
98987074 AAGCTTACTTA
1 AAGCTTACTTA
98987085 AAGCTTACTTA
1 AAGCTTACTTA
98987096 AAGCTTA
1 AAGCTTA
98987103 GTAAGTTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (11 bp):
AAGCTTACTTA
Found at i:98993768 original size:31 final size:31
Alignment explanation
Indices: 98993730--98993789 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
98993720 AACTTTAAAT
*
98993730 ATATATAAATTGAAAATAATAACAAAAAAGA
1 ATATATAAATTGAAAATAAAAACAAAAAAGA
*
98993761 ATATATAAATTGAAAATAAAAATAAAAAA
1 ATATATAAATTGAAAATAAAAACAAAAAA
98993790 TTTAGTTAAA
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:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (31 bp):
ATATATAAATTGAAAATAAAAACAAAAAAGA
Found at i:98993878 original size:10 final size:10
Alignment explanation
Indices: 98993863--98993888 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
98993853 AATTGTAAAA
98993863 TTTAAAATAT
1 TTTAAAATAT
98993873 TTTAAAATAT
1 TTTAAAATAT
98993883 TTTAAA
1 TTTAAA
98993889 CATTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTTAAAATAT
Found at i:98999304 original size:21 final size:24
Alignment explanation
Indices: 98999258--98999305 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
98999248 TTTAATTTAT
*
98999258 TTTAACAATAATTATAAAAATATA
1 TTTAACAATAAATATAAAAATATA
98999282 TTTAA-AATAAATA-AAAAAT-TA
1 TTTAACAATAAATATAAAAATATA
98999303 TTT
1 TTT
98999306 GTAGTTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 6 0.26
23 7 0.30
24 5 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTAACAATAAATATAAAAATATA
Found at i:99005362 original size:18 final size:18
Alignment explanation
Indices: 99005339--99005431 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
99005329 CCCAACTACT
*
99005339 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
99005357 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
* *
99005375 GTATACGTAAATAGTATC
1 GTATACGTGAATAGTACC
*
99005393 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
99005411 GTATACATGAATAGTACC
1 GTATACGTGAATAGTACC
99005429 GTA
1 GTA
99005432 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:99005396 original size:36 final size:36
Alignment explanation
Indices: 99005339--99005431 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
99005329 CCCAACTACT
* *
99005339 GTATACGTGAACAGTACCGTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
* *
99005375 GTATACGTAAATAGTATCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
99005411 GTATACATGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
99005432 AACGGTCGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:99010555 original size:30 final size:31
Alignment explanation
Indices: 99010519--99010581 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
99010509 TTGAGTTAGG
*
99010519 AGGGAAAAGATGAAAAAAT-AAGAAA-AAAAA
1 AGGGAAAA-AAGAAAAAATAAAGAAATAAAAA
*
99010549 AGGGAAAAAAGAAAAATTAAAGAAATAAAAA
1 AGGGAAAAAAGAAAAAATAAAGAAATAAAAA
99010580 AG
1 AG
99010582 AAATTAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 14 0.48
31 7 0.24
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (31 bp):
AGGGAAAAAAGAAAAAATAAAGAAATAAAAA
Found at i:99013189 original size:65 final size:67
Alignment explanation
Indices: 99013121--99013543 Score: 388
Period size: 74 Copynumber: 6.0 Consensus size: 67
99013111 GTATACTTTA
* ** *
99013121 ATAATAATATCAATTTTAAATATTTAAAAAGTGTAAGAATAGCAAATAAAT-AATAAATAGATAA
1 ATAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAAT----AATAAATAAATAAATAAAT-A
*
99013185 AATAAAT
61 GATAAAT
* * * * *
99013192 ATAAATAATATCAAATTTAAATATCTAAAAGGTAAAAGAATAACAAATAAATAGAT-AA-A-ACA
1 AT-AATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATA
99013254 AAT
65 AAT
* *
99013257 ATTAATAATACCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATGGATA
1 A-TAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAT--A-G
99013322 ATATAGAT
62 ATA-A-AT
* *
99013330 ATAAATAATATCAAATTTTAAATATTTAAAAAGTGAAAGAATAATGAATAAATAAATAAATAGAT
1 AT-AATAATATCAAA-TTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGAT
99013395 AAAACAAAT
64 -----AAAT
* **
99013404 ATAGATAATATCAAATTTTAAATATTTAAAAAGTAAGAGAATAAGGAATAAATAAATAAATAGTT
1 ATA-ATAATATCAAA-TTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAG--
*
99013469 AAAACGAAT
62 -ATA--AAT
* *
99013478 ATAGATAATGTCAAATTTAAATATTT-AATAGTAAAAGAATAATAAATAAATAAATAAATAGATA
1 ATA-ATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATA
99013542 AA
65 AA
99013544 ACAACTCATA
Statistics
Matches: 299, Mismatches: 29, Indels: 52
0.79 0.08 0.14
Matches are distributed among these distances:
65 54 0.18
66 4 0.01
67 2 0.01
68 7 0.02
69 9 0.03
71 6 0.02
72 68 0.23
73 26 0.09
74 120 0.40
75 1 0.00
76 1 0.00
77 1 0.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (67 bp):
ATAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATAA
AT
Found at i:99013207 original size:20 final size:20
Alignment explanation
Indices: 99013158--99013207 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
99013148 AAAGTGTAAG
99013158 AATAGCAAATAAATAATAAAT
1 AATA-CAAATAAATAATAAAT
99013179 AGATA-AAATAAAT-ATAAAT
1 A-ATACAAATAAATAATAAAT
99013198 AATATCAAAT
1 AATA-CAAAT
99013208 TTAAATATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 3 0.12
19 7 0.27
20 12 0.46
21 1 0.04
22 3 0.12
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (20 bp):
AATACAAATAAATAATAAAT
Found at i:99013373 original size:36 final size:35
Alignment explanation
Indices: 99013333--99013447 Score: 99
Period size: 36 Copynumber: 3.1 Consensus size: 35
99013323 TATAGATATA
99013333 AATAATATCAAATTTTAAATATTTAAAAAGTGAAAG
1 AATAATATCAAATTTTAAATATTTAAAAAGT-AAAG
** * * * *
99013369 AATAATGAAT-AAATAAATAAATAGATAAAACAAATATAG
1 AATAAT--ATCAAAT-TTTAAATA-TTTAAA-AAGTAAAG
99013408 -ATAATATCAAATTTTAAATATTTAAAAAGTAAGAG
1 AATAATATCAAATTTTAAATATTTAAAAAGTAA-AG
99013443 AATAA
1 AATAA
99013448 GGAATAAATA
Statistics
Matches: 59, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
34 4 0.07
35 6 0.10
36 18 0.31
37 8 0.14
38 13 0.22
39 7 0.12
40 3 0.05
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.30
Consensus pattern (35 bp):
AATAATATCAAATTTTAAATATTTAAAAAGTAAAG
Found at i:99013373 original size:74 final size:73
Alignment explanation
Indices: 99013236--99013547 Score: 446
Period size: 74 Copynumber: 4.3 Consensus size: 73
99013226 AAAGAATAAC
* *
99013236 AAATAAATAGATAAAACAAATATTAATAATACCAAATTTAAATATTTAAAAAGTAAAAGAATAAT
1 AAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAAT
99013301 AAATAAAT
66 AAATAAAT
* * * * *
99013309 AAATAAATGGATAATATAGATATAAATAATATCAAATTTTAAATATTTAAAAAGTGAAAGAATAA
1 AAATAAATAGATAAAACAAATATAAATAATATCAAA-TTTAAATATTTAAAAAGTAAAAGAATAA
*
99013374 TGAATAAAT
65 TAAATAAAT
* *
99013383 AAATAAATAGATAAAACAAATATAGATAATATCAAATTTTAAATATTTAAAAAGTAAGAGAATAA
1 AAATAAATAGATAAAACAAATATAAATAATATCAAA-TTTAAATATTTAAAAAGTAAAAGAATAA
**
99013448 GGAATAAAT
65 TAAATAAAT
* * * * *
99013457 AAATAAATAGTTAAAACGAATATAGATAATGTCAAATTTAAATATTT-AATAGTAAAAGAATAAT
1 AAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAAT
99013521 AAATAAAT
66 AAATAAAT
99013529 AAATAAATAGATAAAACAA
1 AAATAAATAGATAAAACAA
99013548 CTCATAAAAG
Statistics
Matches: 213, Mismatches: 25, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
72 38 0.18
73 41 0.19
74 134 0.63
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (73 bp):
AAATAAATAGATAAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAAT
AAATAAAT
Found at i:99016450 original size:6 final size:6
Alignment explanation
Indices: 99016438--99016497 Score: 93
Period size: 6 Copynumber: 10.0 Consensus size: 6
99016428 CATTTGAATC
* * *
99016438 TTAATA ATAATA ATAATA ATAATA TTAATA TTAATA TTAATA TTAATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
99016486 TTAATA TTAATA
1 TTAATA TTAATA
99016498 ATTTGTTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
TTAATA
Found at i:99016649 original size:32 final size:32
Alignment explanation
Indices: 99016613--99016678 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
99016603 AAATAACGGT
*
99016613 AATAAATTTGATATTTAAAAACTGTTGAAAAA
1 AATAAATTTGATATTTAAAAACTGCTGAAAAA
99016645 AATAAATTTGATATTTAAAAACTGCTGAAAAA
1 AATAAATTTGATATTTAAAAACTGCTGAAAAA
99016677 AA
1 AA
99016679 AGTATATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.32
Consensus pattern (32 bp):
AATAAATTTGATATTTAAAAACTGCTGAAAAA
Found at i:99018679 original size:10 final size:10
Alignment explanation
Indices: 99018664--99018749 Score: 56
Period size: 10 Copynumber: 8.9 Consensus size: 10
99018654 AATAAATTTC
99018664 TATATTTTTT
1 TATATTTTTT
99018674 TATA---TTT
1 TATATTTTTT
*
99018681 TAAATTTTTT
1 TATATTTTTT
* *
99018691 TCTAATTTTT
1 TATATTTTTT
**
99018701 TA-ATAACTTT
1 TATAT-TTTTT
*
99018711 TATATTTTTCC
1 TATATTTTT-T
99018722 TATATTTTTT
1 TATATTTTTT
*
99018732 TATATTTTTA
1 TATATTTTTT
99018742 TA-ATTTTT
1 TATATTTTT
99018750 ATTGTCTTTT
Statistics
Matches: 57, Mismatches: 13, Indels: 13
0.69 0.16 0.16
Matches are distributed among these distances:
7 6 0.11
9 7 0.12
10 33 0.58
11 11 0.19
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (10 bp):
TATATTTTTT
Found at i:99018681 original size:29 final size:29
Alignment explanation
Indices: 99018649--99018749 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 29
99018639 ACTTTTGGTG
**
99018649 TTTTTAATAAATTTCTATATTTTTTTATA
1 TTTTTAATATTTTTCTATATTTTTTTATA
* * *
99018678 TTTTAAATTTTTTTCTA-ATTTTTTAATAA
1 TTTTTAATATTTTTCTATATTTTTTTAT-A
*
99018707 CTTTT-ATATTTTTCCTATATTTTTTTATA
1 TTTTTAATATTTTT-CTATATTTTTTTATA
99018736 TTTTT-ATAATTTTT
1 TTTTTAAT-ATTTTT
99018750 ATTGTCTTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
28 16 0.28
29 27 0.47
30 15 0.26
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTTAATATTTTTCTATATTTTTTTATA
Found at i:99018699 original size:9 final size:9
Alignment explanation
Indices: 99018664--99018751 Score: 54
Period size: 9 Copynumber: 9.3 Consensus size: 9
99018654 AATAAATTTC
99018664 TATATTTTT
1 TATATTTTT
*
99018673 T-TATATTT
1 TATATTTTT
*
99018681 TAAATTTTTT
1 TATA-TTTTT
*
99018691 TCTAATTTTT
1 TAT-ATTTTT
**
99018701 TAATAACTTT
1 T-ATATTTTT
99018711 TATATTTTT
1 TATATTTTT
99018720 CCTATATTTTT
1 --TATATTTTT
99018731 T-TATATTTT
1 TATAT-TTTT
*
99018740 TATAATTTT
1 TATATTTTT
99018749 TAT
1 TAT
99018752 TGTCTTTTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
8 10 0.17
9 21 0.35
10 18 0.30
11 11 0.18
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (9 bp):
TATATTTTT
Found at i:99018718 original size:30 final size:28
Alignment explanation
Indices: 99018660--99018749 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 28
99018650 TTTTAATAAA
*
99018660 TTTCTATATTTTTTTATATTTTAAATTTT
1 TTTCTATATTTTTTTATATTTTATA-TTT
*
99018689 TTTCTA-ATTTTTTAATAACTTTTATATTT
1 TTTCTATATTTTTTTAT-A-TTTTATATTT
* *
99018718 TTCCTATATTTTTTTATATTTTTATAATT
1 TTTCTATATTTTTTTATA-TTTTATATTT
99018747 TTT
1 TTT
99018750 ATTGTCTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 9 0.18
29 27 0.53
30 15 0.29
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTCTATATTTTTTTATATTTTATATTT
Found at i:99018747 original size:19 final size:19
Alignment explanation
Indices: 99018667--99018749 Score: 73
Period size: 19 Copynumber: 4.3 Consensus size: 19
99018657 AAATTTCTAT
99018667 ATTTTTTTATA-TTTTA-A
1 ATTTTTTTATATTTTTATA
*
99018684 ATTTTTTTCTAATTTTT-TA
1 ATTTTTTTAT-ATTTTTATA
** *
99018703 ATAACTTTTATATTTTTCCTA
1 AT-TTTTTTATATTTTT-ATA
99018724 TATTTTTTTATATTTTTATA
1 -ATTTTTTTATATTTTTATA
99018744 ATTTTT
1 ATTTTT
99018750 ATTGTCTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 9 0.17
18 1 0.02
19 19 0.37
20 7 0.13
21 14 0.27
22 2 0.04
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTTTATATTTTTATA
Found at i:99018868 original size:16 final size:17
Alignment explanation
Indices: 99018838--99018873 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
99018828 ACTTTAAATA
99018838 TTATATTTCTATAATTT
1 TTATATTTCTATAATTT
99018855 TTATATTT-TATAATTT
1 TTATATTTCTATAATTT
99018871 TTA
1 TTA
99018874 AAAAAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATATTTCTATAATTT
Found at i:99018889 original size:19 final size:19
Alignment explanation
Indices: 99018865--99018901 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
99018855 TTATATTTTA
99018865 TAATTTTTAAAAAAAATTC
1 TAATTTTTAAAAAAAATTC
* *
99018884 TAATTTTTTAAATAAATT
1 TAATTTTTAAAAAAAATT
99018902 TAAAATACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATTTTTAAAAAAAATTC
Found at i:99021313 original size:17 final size:18
Alignment explanation
Indices: 99021285--99021344 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
99021275 GGTGTCCAAA
99021285 TTTAGATGAAATATTAATT
1 TTTAG-TGAAATATTAATT
* *
99021304 CTTAGT-AAATTTATATATT
1 TTTAGTGAAATAT-TA-ATT
99021323 TTTA-TGAAATATTAATT
1 TTTAGTGAAATATTAATT
99021340 TTTAG
1 TTTAG
99021345 GTTATTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
17 12 0.36
18 6 0.18
19 15 0.45
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (18 bp):
TTTAGTGAAATATTAATT
Found at i:99021544 original size:35 final size:34
Alignment explanation
Indices: 99021468--99021544 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 34
99021458 CTAAATTAAA
** *
99021468 AATACAACATATAAATTAATAAAAATTTAAAATTT
1 AATA-AACATATAAAAGAATAAAAATTTAAAAATT
99021503 AAATAAACATATAAAAGAACTAAAAATTTATAAAATT
1 -AATAAACATATAAAAGAA-TAAAAATTTA-AAAATT
99021540 -ATAAA
1 AATAAA
99021545 ATGTATAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 17 0.47
36 14 0.39
37 5 0.14
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (34 bp):
AATAAACATATAAAAGAATAAAAATTTAAAAATT
Found at i:99021691 original size:26 final size:25
Alignment explanation
Indices: 99021635--99021691 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
99021625 TTATTAATTT
*
99021635 ATATATTTTAAAATTTTGAAAAAAA
1 ATATATTTTAAAATTTTCAAAAAAA
*
99021660 ATTATATTTTTAAA-TTTCAAAATAATA
1 A-TATATTTTAAAATTTTCAAAA-AA-A
99021687 ATATA
1 ATATA
99021692 AATAACATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 8 0.30
26 17 0.63
27 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
ATATATTTTAAAATTTTCAAAAAAA
Found at i:99025954 original size:6 final size:7
Alignment explanation
Indices: 99025928--99025953 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
99025918 GATGCCATTC
99025928 TTTTTTA
1 TTTTTTA
99025935 TTTTTTA
1 TTTTTTA
99025942 TTTTTTA
1 TTTTTTA
99025949 TTTTT
1 TTTTT
99025954 AAGTCACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:99027080 original size:10 final size:10
Alignment explanation
Indices: 99027062--99027095 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
99027052 AACTATTAAT
99027062 ATATTATATA
1 ATATTATATA
*
99027072 ATATGATATA
1 ATATTATATA
*
99027082 ACATTATATA
1 ATATTATATA
99027092 ATAT
1 ATAT
99027096 AGTAGGAGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (10 bp):
ATATTATATA
Found at i:99027219 original size:16 final size:17
Alignment explanation
Indices: 99027200--99027232 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
99027190 TATATACTGT
99027200 ACTACTATTAT-ATATA
1 ACTACTATTATAATATA
*
99027216 ACTATTATTATAATATA
1 ACTACTATTATAATATA
99027233 GATTATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (17 bp):
ACTACTATTATAATATA
Found at i:99027645 original size:250 final size:253
Alignment explanation
Indices: 99026961--99028211 Score: 1272
Period size: 242 Copynumber: 5.0 Consensus size: 253
99026951 ATATTAATAC
* *
99026961 ATATATAACTATTATTATAATATATGTTATAATAAAAAAATATATAGTATTACATGATATTATAA
1 ATATATAACTATTA-T-T-ATA-ATGTTATAAT---AAAAGATATAGTATTATATGATATTATAA
*
99027026 TGTTTAATCATTGATGCATATATATAAACTA-T--TA-A-TATAT-TAT---ATA--ATATGATA
59 TGTTTAATCATTGATGTATATATATAAACTATTAATATATTATATATATACGATATGATATGATA
** * * * * ** *
99027080 TAACATTATATAATATAGTAGGAGGATTAATTTTTAAATATACAAAAATTATAGATACTTGGAGC
124 TAACATTATATAATATAGTAGGAGGGCTAACTTTCAAATGTACAAAAAGTATAGGGACTTAGAGC
** * *
99027145 ATATTTCAACT-ATCATAATAGCAAACAATAATATA-TAATAAGTAATATATACTGTACTACTAT
189 ATATTTCAACTAAT-ATAATAATAAACAATAATATATTAATAATTAATATATAATGTACTACTAT
99027208 T
253 T
* * * *
99027209 ATATATAACTATTATTATAATATAGATTATAAAATATATAGTATTATATGATATTATAATGTTTA
1 ATATATAACTATTATTATAATGT-TATAATAAAAGATATAGTATTATATGATATTATAATGTTTA
* *
99027274 ATCATTTATGTATATATATAAAC--------TATTA-ATATAT--GATATGATATGATATAGCAT
65 ATCATTGATGTATATATATAAACTATTAATATATTATATATATACGATATGATATGATATAACAT
* * * * * *
99027328 TATATACTATGGTAGGAGGGCTAATTTTCAAATGCACGAAAAGTATATGGACTTAGAGCATATTT
130 TATATAATATAGTAGGAGGGCTAACTTTCAAATGTACAAAAAGTATAGGGACTTAGAGCATATTT
* * ** *
99027393 CAACTAGTATAATAATAAACAACAATATA-TAATACGTAATATATGATGTACTACTATT
195 CAACTAATATAATAATAAACAATAATATATTAATAATTAATATATAATGTACTACTATT
* * *
99027451 ATA-A-AGCTATTATTATAAT-TTATAATAAAAGATATAATATT-TCATAATATTATAATGTTTA
1 ATATATAACTATTATTATAATGTTATAATAAAAGATATAGTATTAT-ATGATATTATAATGTTTA
*
99027512 ATCATTGGTGTATATATATAAACTATTAATATATTATATACTATACGATATGATATGATATAACA
65 ATCATTGATGTATATATATAAACTATTAATATATTATATA-TATACGATATGATATGATATAACA
* * * * * * *
99027577 TAATATAATATAATAGGATGGCTACCTTTCATATGTACAAAAACTATAGGGACTTAGAGTATATT
129 TTATATAATATAGTAGGAGGGCTAACTTTCAAATGTACAAAAAGTATAGGGACTTAGAGCATATT
* * * *
99027642 TCAACTAATATAATAATAAAAAATAATA-ATTAAT-TTATAATAAATAATGTACAACTATT
194 TCAACTAATATAATAATAAACAATAATATATTAATAAT-TAATATATAATGTACTACTATT
*
99027701 ATATATAATTATTA-TATAATAGATTATAATAAAAGATATAGTATTATATGATATTATAATGTTT
1 ATATATAACTATTATTATAAT-G-TTATAATAAAAGATATAGTATTATATGATATTATAATGTTT
* * * *
99027765 AATTATTGATG--CATATATAAACTATTATTATATTATAT-TATAC---ATGATATGATATAGCA
64 AATCATTGATGTATATATATAAACTATTAATATATTATATATATACGATATGATATGATATAACA
* * * * * * *
99027824 TTATATAATATAGTAGGAGGGTTAATTTTTAAATATA-AGAAAAATACAGGGATTTAGAGCATAT
129 TTATATAATATAGTAGGAGGGCTAACTTTCAAATGTACA-AAAAGTATAGGGACTTAGAGCATAT
*
99027888 TTCAACTAATATAATAATAAACAATAATATA-TAATAAAATTAATATATAATGTACTACCATT
193 TTCAACTAATATAATAATAAACAATAATATATTAAT--AATTAATATATAATGTACTACTATT
**
99027950 ATATATAACTATTATTATATTATTGGTTATAATAAAATCTATAGTATTATATGATATTATAATGT
1 ATATATAACTATTATTATA--A-T-GTTATAATAAAAGATATAGTATTATATGATATTATAATGT
* * * * * *
99028015 TTAAACATTGATGCATATATGTGAATAAACTATTAAAATA-TAT-TATATACTATATGACATTAT
62 TTAATCATTGATG--TATATAT--ATAAACTATTAATATATTATATATATACGATATGATATGAT
* * * ** *
99028078 ACAACATTATATAATAGAGTAGGAGGGTTAACTTTCAAATGTATGAAAAGTATAGAGACTTAGAG
123 ATAACATTATATAATATAGTAGGAGGGCTAACTTTCAAATGTACAAAAAGTATAGGGACTTAGAG
* *
99028143 CATATTTCAACCAATATAATAATAAACAATAATATATGTTAATAATTAATATATGATGTACTACT
188 CATATTTCAACTAATATAATAATAAACAATAATATA--TTAATAATTAATATATAATGTACTACT
99028208 ATT
251 ATT
99028211 A
1 A
99028212 AATTATAGAA
Statistics
Matches: 841, Mismatches: 110, Indels: 91
0.81 0.11 0.09
Matches are distributed among these distances:
237 1 0.00
238 58 0.07
239 6 0.01
240 17 0.02
241 1 0.00
242 172 0.20
243 1 0.00
244 3 0.00
245 7 0.01
246 7 0.01
247 100 0.12
248 18 0.02
249 33 0.04
250 131 0.16
251 7 0.01
252 80 0.10
253 2 0.00
254 46 0.05
255 1 0.00
256 4 0.00
257 8 0.01
258 14 0.02
260 96 0.11
261 24 0.03
263 4 0.00
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (253 bp):
ATATATAACTATTATTATAATGTTATAATAAAAGATATAGTATTATATGATATTATAATGTTTAA
TCATTGATGTATATATATAAACTATTAATATATTATATATATACGATATGATATGATATAACATT
ATATAATATAGTAGGAGGGCTAACTTTCAAATGTACAAAAAGTATAGGGACTTAGAGCATATTTC
AACTAATATAATAATAAACAATAATATATTAATAATTAATATATAATGTACTACTATT
Found at i:99027933 original size:16 final size:17
Alignment explanation
Indices: 99027894--99027938 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
99027884 ATATTTCAAC
99027894 TAATATAATAATAAACAA
1 TAATAT-ATAATAAACAA
*
99027912 TAATATATAATAAA-AT
1 TAATATATAATAAACAA
99027928 TAATATATAAT
1 TAATATATAAT
99027939 GTACTACCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
17 8 0.31
18 6 0.23
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATATATAATAAACAA
Found at i:99028228 original size:497 final size:489
Alignment explanation
Indices: 99026973--99028282 Score: 1221
Period size: 492 Copynumber: 2.7 Consensus size: 489
99026963 ATATAACTAT
* * * * *
99026973 TATTATAATATATGTTATAATAAAAAAATATATAGTATTACATGATATTATAATGTTTAATCATT
1 TATTATTATA-AT-TTATAAT-AAAAGATATA-A-TATTTCATAATATTATAATGTTTAAACATT
* *
99027038 GATGCATATATATAAACTATT--AATA-TAT-TA-TATA--ATATG--AT-AT--AACATTATAT
61 GATGTATATATATAAACTATTAAAATATTATATACTATACGATATGACATGATACAACATAATAT
* * ** * * * * * *
99027091 AATATAGTAGGAGGATTAATTTTTAAATATACAAAAATTATAGATACTTGGAGCATATTTCAA-C
126 AATAGAATAGGAGGGCTAACTTTCAAATGTACAAAAACTATAGAGACTTAGAGCATATTTCAACC
* ** * * * * *
99027155 TATCATAATAGCAAACAATAAT-ATATAAT-AAGTAATATATACTGTACTACTATTATATATAAC
191 AAT-ATAATAATAAAAAATAATAAT-TAATGTA-TAATAAATA-AGTA--ACTATGATATATAAC
* * * *
99027218 TATTATTATAATATAGAT-T-ATAAAATATATAGTATTATATGATATTATAATGTTTAATCATTT
250 TATTA-AATAATAGA-ATATAATAAAAGATATAGTATTATATGATATTATAATGTTTAATCATTG
* * *
99027281 ATGTATATATATAAACTATTAATATATGATATGATATGATATAGCATTATATACTATGGTAGGAG
313 ATGCATATATATAAACTATTAATATATGATATGATATGATATAGCATTATATAATATAGTAGGAG
* * * * * *
99027346 GGCTAATTTTCAAATGCACGAAAAGTATATGGACTTAGAGCATATTTCAACTAGTATAATAATAA
378 GGCTAATTTTCAAATACAAGAAAAATACAGGGACTTAGAGCATATTTCAACTAATATAATAATAA
* * * *
99027411 ACAACAATATATAATACGTAATATATGATGTACTACTATTATAAAGC
443 ACAACAATATATAATAAGTAATATATAATGTACTACCATTATAAAAC
* *
99027458 TATTATTATAATTTATAATAAAAGATATAATATTTCATAATATTATAATGTTTAATCATTGGTGT
1 TATTATTATAATTTATAATAAAAGATATAATATTTCATAATATTATAATGTTTAAACATTGATGT
* * * *
99027523 ATATATATAAACTATTAATATATTATATACTATACGATATGATATGATATAACATAATATAATAT
66 ATATATATAAACTATTAAAATATTATATACTATACGATATGACATGATACAACATAATATAATAG
* * * * * *
99027588 AATAGGATGGCTACCTTTCATATGTACAAAAACTATAGGGACTTAGAGTATATTTCAACTAATAT
131 AATAGGAGGGCTAACTTTCAAATGTACAAAAACTATAGAGACTTAGAGCATATTTCAACCAATAT
* * * *
99027653 AATAATAAAAAATAATAATTAATTTATAATAAATAATGTACAACTATTATATATAATTATTATAT
196 AATAATAAAAAATAATAATTAATGTATAATAAATAA-GT--AACTATGATATATAACTATTAAAT
* *
99027718 AATAGATTATAATAAAAGATATAGTATTATATGATATTATAATGTTTAATTATTGATGCATATAT
258 AATAGAATATAATAAAAGATATAGTATTATATGATATTATAATGTTTAATCATTGATGCATATAT
* * *
99027783 A-AACTATTATTATATTATATTATACATGATATGATATAGCATTATATAATATAGTAGGAGGGTT
323 ATAA--ACTATTA-A-TATATGAT--ATGATATGATATAGCATTATATAATATAGTAGGAGGGCT
* * *
99027847 AATTTTTAAATATAAGAAAAATACAGGGATTTAGAGCATATTTCAACTAATATAATAATAAACAA
382 AATTTTCAAATACAAGAAAAATACAGGGACTTAGAGCATATTTCAACTAATATAATAATAAACAA
* *
99027912 TAATATATAATAAAATTAATATATAATGTACTACCATTATATATAAC
447 CAATATATAAT--AAGTAATATATAATGTACTACCATTATA-A-AAC
** * *
99027959 TATTATTATATTATTGGTTATAATAAAATCTATAGTATTAT-ATGATATTATAATGTTTAAACAT
1 TATTATTATA--A-T--TTATAATAAAAGATATAATATT-TCATAATATTATAATGTTTAAACAT
* * *
99028023 TGATGCATATATGTGAATAAACTATTAAAATA-TAT-TA-TATACTATATGACATTATACAACAT
60 TGATG--TATATAT--ATAAACTATTAAAATATTATATACTATACGATATGACATGATACAACAT
* * * ** *
99028085 TATATAATAGAGTAGGAGGGTTAACTTTCAAATGTATGAAAAGTATAGAGACTTAGAGCATATTT
121 AATATAATAGAATAGGAGGGCTAACTTTCAAATGTACAAAAACTATAGAGACTTAGAGCATATTT
* * *
99028150 CAACCAATATAATAATAAACAATAAT-A-T-ATGT-TAATAATTAA-T-A-TATGATGTACT-AC
186 CAACCAATATAATAATAAAAAATAATAATTAATGTATAATAAATAAGTAACTATGATATA-TAAC
* * * * *
99028207 TATTAAATTATAGAATATAATAAAAGATACCA-TGTTACAT--TAGTT-TAAAGTTTAATCATTG
250 TATTAAATAATAGAATATAATAAAAGATA-TAGTATTATATGATA-TTATAATGTTTAATCATTG
*
99028268 AAGCATATATATAAA
313 ATGCATATATATAAA
99028283 GCAATGGTGA
Statistics
Matches: 684, Mismatches: 97, Indels: 79
0.80 0.11 0.09
Matches are distributed among these distances:
480 47 0.07
481 1 0.00
482 12 0.02
483 10 0.01
484 4 0.01
485 13 0.02
487 5 0.01
489 2 0.00
490 3 0.00
491 11 0.02
492 157 0.23
493 11 0.02
494 3 0.00
495 33 0.05
496 4 0.01
497 142 0.21
498 3 0.00
499 24 0.04
500 1 0.00
501 13 0.02
503 10 0.01
504 4 0.01
505 1 0.00
506 45 0.07
507 99 0.14
508 8 0.01
509 3 0.00
510 15 0.02
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.38
Consensus pattern (489 bp):
TATTATTATAATTTATAATAAAAGATATAATATTTCATAATATTATAATGTTTAAACATTGATGT
ATATATATAAACTATTAAAATATTATATACTATACGATATGACATGATACAACATAATATAATAG
AATAGGAGGGCTAACTTTCAAATGTACAAAAACTATAGAGACTTAGAGCATATTTCAACCAATAT
AATAATAAAAAATAATAATTAATGTATAATAAATAAGTAACTATGATATATAACTATTAAATAAT
AGAATATAATAAAAGATATAGTATTATATGATATTATAATGTTTAATCATTGATGCATATATATA
AACTATTAATATATGATATGATATGATATAGCATTATATAATATAGTAGGAGGGCTAATTTTCAA
ATACAAGAAAAATACAGGGACTTAGAGCATATTTCAACTAATATAATAATAAACAACAATATATA
ATAAGTAATATATAATGTACTACCATTATAAAAC
Found at i:99031475 original size:17 final size:17
Alignment explanation
Indices: 99031453--99031487 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
99031443 TTTCAACCAG
99031453 TATAATAAAAAATAATA
1 TATAATAAAAAATAATA
* *
99031470 TATAATAATAATTAATA
1 TATAATAAAAAATAATA
99031487 T
1 T
99031488 CTTATGTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TATAATAAAAAATAATA
Found at i:99032395 original size:23 final size:23
Alignment explanation
Indices: 99032369--99032415 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
99032359 GTAAAATAAA
99032369 TTATTACATTA-AAAATTAAAAAT
1 TTATTA-ATTATAAAATTAAAAAT
* *
99032392 TTATTATTTATAAAATTTAAAAT
1 TTATTAATTATAAAATTAAAAAT
99032415 T
1 T
99032416 ATTTGAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TTATTAATTATAAAATTAAAAAT
Found at i:99032599 original size:21 final size:21
Alignment explanation
Indices: 99032575--99032616 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
99032565 ATTAATTTAG
*
99032575 AAGAAAATAAAAGAAAAGAAA
1 AAGAAAACAAAAGAAAAGAAA
* *
99032596 AAGAAAACAAAATAATAGAAA
1 AAGAAAACAAAAGAAAAGAAA
99032617 TTGAAACCTT
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:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (21 bp):
AAGAAAACAAAAGAAAAGAAA
Found at i:99034277 original size:30 final size:30
Alignment explanation
Indices: 99034243--99034304 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
99034233 CTTAATAAGT
* *
99034243 AAATGCCTCTAAAGTAGTAAAAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
*
99034273 AAATGCCTTTAAAATAATAAAAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
99034303 AA
1 AA
99034305 TAAAATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTAAC
Found at i:99034970 original size:14 final size:14
Alignment explanation
Indices: 99034953--99034983 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
99034943 GTTATTTTTT
99034953 TTACTATTATGTTG
1 TTACTATTATGTTG
*
99034967 TTACTATTTTGTTG
1 TTACTATTATGTTG
99034981 TTA
1 TTA
99034984 TTATATAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:99035141 original size:18 final size:18
Alignment explanation
Indices: 99035120--99035159 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
99035110 AAAATATTTA
*
99035120 TTTTAATAT-TTTTAGTAT
1 TTTTAATATATTATA-TAT
99035138 TTTTAATATATTATATAT
1 TTTTAATATATTATATAT
99035156 TTTT
1 TTTT
99035160 TAAAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTAATATATTATATAT
Found at i:99035980 original size:19 final size:19
Alignment explanation
Indices: 99035944--99035980 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
99035934 TAACTAGGCT
* *
99035944 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
99035963 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
99035981 GAAAAATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:99036184 original size:16 final size:18
Alignment explanation
Indices: 99036152--99036185 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
99036142 TTATTACGGT
99036152 TTATATATTAGTTATTAA
1 TTATATATTAGTTATTAA
99036170 TTAT-TATTA-TTATTAA
1 TTATATATTAGTTATTAA
99036186 ATAAATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTATATATTAGTTATTAA
Found at i:99036483 original size:31 final size:32
Alignment explanation
Indices: 99036434--99036497 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
99036424 ATATTAAATA
*
99036434 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
99036465 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
99036497 A
1 A
99036498 CAAATGTACG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:99036529 original size:142 final size:142
Alignment explanation
Indices: 99036291--99036587 Score: 325
Period size: 142 Copynumber: 2.1 Consensus size: 142
99036281 TTTAGAACAA
* * *
99036291 AAGATATTTATTAATTAAATAATTAAATAAAGAGATTTTTGTTTGATAAATAAATTAAATAATGA
1 AAGATATTTATTAATTAAATAATTAAATAAAGAGATTTTTATGTAATAAATAAATTAAATAATGA
* * * * * * * * * *
99036356 CAATTGTAATAAATTTATTGGTCCAAATGTAAAAATATAAGTGTGTACAATTGTAATATTAGTAT
66 CAAATGTAATAAATTTAGTGGTACAAATGTAAAAATACAAATGTATACAAATGTAAAATAAATA-
99036421 TTGA-TATTAAAT
130 TTGATTATTAAAT
* * * * *
99036433 AAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATATATTAAATTATGA
1 AAGATATTTATTAATTAAATAATTAAATAAAGAGATTTTTATGTAATAAATAAATTAAATAATGA
* ** *
99036498 CAAATGTACGGTAAAATTT-GT-G-ACATGTGTAATAATACAAATGTATACAAATGTAAAATAAA
66 CAAATGTA--AT-AAATTTAGTGGTACAAATGTAAAAATACAAATGTATACAAATGTAAAATAAA
99036560 TATTGATTATTAAAT
128 TATTGATTATTAAAT
99036575 -AGATATTTATTAA
1 AAGATATTTATTAA
99036588 CTTATTATAT
Statistics
Matches: 129, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
141 17 0.13
142 103 0.80
143 1 0.01
144 2 0.02
145 6 0.05
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (142 bp):
AAGATATTTATTAATTAAATAATTAAATAAAGAGATTTTTATGTAATAAATAAATTAAATAATGA
CAAATGTAATAAATTTAGTGGTACAAATGTAAAAATACAAATGTATACAAATGTAAAATAAATAT
TGATTATTAAAT
Found at i:99037441 original size:15 final size:15
Alignment explanation
Indices: 99037398--99037450 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
99037388 GAATTTATTA
99037398 AATTTATATTGATTG
1 AATTTATATTGATTG
*
99037413 AAATTAT-TTGGATTG
1 AATTTATATT-GATTG
*
99037428 AATTTATATTGATTT
1 AATTTATATTGATTG
99037443 AA-TTATAT
1 AATTTATAT
99037451 AATATATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 8 0.24
15 23 0.70
16 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
AATTTATATTGATTG
Found at i:99037709 original size:12 final size:12
Alignment explanation
Indices: 99037687--99037717 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
99037677 TATATGTGAT
99037687 TATTAGAATGGTA
1 TATT-GAATGGTA
99037700 TATTGAATGGTA
1 TATTGAATGGTA
99037712 TATTGA
1 TATTGA
99037718 TGCAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (12 bp):
TATTGAATGGTA
Found at i:99044041 original size:44 final size:44
Alignment explanation
Indices: 99043991--99044492 Score: 117
Period size: 44 Copynumber: 11.4 Consensus size: 44
99043981 TTTGCTCTGT
99043991 TACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCC
* * * * * * **
99044035 TACTGCTTAGGGGGATAAGGCTCACCGT--CTTCGATCC--ACTCCAC
1 TACTGCTTAGGGAGATAA-GAT--CTGTAATTTCTAGCCTGTTTCC-C
* ** *
99044079 TACTGCTTA-GGAGATAAGATCTGTAATTTCCAGTTTGTTTCTC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCC
* * ** ***
99044122 TACTGCTTAAGGG-GATAAAGCTCACCGT--TTTC--GATTCACTCCAC
1 TACTGCTT-AGGGAGAT-AAGAT--CTGTAATTTCTAGCCTGTTTCC-C
* * *
99044166 TACTGCTTAGGGAAATAAGATCTGTAATTT-TCAGTCTGTTTCCT
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCT-AGCCTGTTTCCC
* * * * * ** * * * * *
99044210 TACTGTTTAGGGGGTTAAG-GCT-CACCGTCCTCGATCTGCTTCAC
1 TACTGCTTAGGGAGATAAGATCTGTA-ATTTCTAG-CCTGTTTCCC
* * *
99044254 TACTACTTAGGGAGATAAGATCTGTAATTT-TCAGCCTATTTTCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCT-AGCCTGTTTCCC
* * * * ** * * * ** *
99044298 TACTGCTTAGGGGGTTAAG-GCT-CACCGTCCTCGATCTACTTCAC
1 TACTGCTTAGGGAGATAAGATCTGTA-ATTTCTAG-CCTGTTTCCC
* * *
99044342 TACTACTTAGGGAGATAAGATCTGTAATTTCCAGCATGTTTCCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCC
* * * * * * * * *
99044386 TACTGTTTAGGGGGTTAAAGCTCACCGT-CTTT-GATCC-G-CTCCAC
1 TACTGCTTAGGGAGAT-AAGAT--CTGTAATTTCTAGCCTGTTTCC-C
* *
99044430 TACCGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCC
*
99044474 TACTGCTTAGGGGGATAAG
1 TACTGCTTAGGGAGATAAG
99044493 GCTCACAGTC
Statistics
Matches: 305, Mismatches: 114, Indels: 78
0.61 0.23 0.16
Matches are distributed among these distances:
40 3 0.01
41 6 0.02
42 11 0.04
43 53 0.17
44 177 0.58
45 41 0.13
46 5 0.02
47 9 0.03
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (44 bp):
TACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCC
Found at i:99044236 original size:88 final size:88
Alignment explanation
Indices: 99043991--99044673 Score: 836
Period size: 88 Copynumber: 7.8 Consensus size: 88
99043981 TTTGCTCTGT
99043991 TACTGCTTAGGGAGATAAGATCTGTAA-TTTCTAGCCTGTTTCCCTACTGCTTAGGGGGATAAGG
1 TACTGCTTAGGGAGATAAGATCTGTAATTTTC-AGCCTGTTTCCCTACTGCTTAGGGGGATAAGG
*
99044055 CTCACCGTCTTCGATCCACTCCAC
65 CTCACCGTCTTCGATCTACTCCAC
* ** * * *
99044079 TACTGCTTA-GGAGATAAGATCTGTAATTTCCAGTTTGTTTCTCTACTGCTTAAGGGGATAAAGC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
*
99044143 TCACCGTTTTCGAT-TCACTCCAC
66 TCACCGTCTTCGATCT-ACTCCAC
* * * * *
99044166 TACTGCTTAGGGAAATAAGATCTGTAATTTTCAGTCTGTTTCCTTACTGTTTAGGGGGTTAAGGC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
* * *
99044231 TCACCGTCCTCGATCTGCTTCAC
66 TCACCGTCTTCGATCTACTCCAC
* * * *
99044254 TACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
* *
99044319 TCACCGTCCTCGATCTACTTCAC
66 TCACCGTCTTCGATCTACTCCAC
* * * * * *
99044342 TACTACTTAGGGAGATAAGATCTGTAATTTCCAGCATGTTTCCCTACTGTTTAGGGGGTTAAAGC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
* **
99044407 TCACCGTCTTTGATCCGCTCCAC
66 TCACCGTCTTCGATCTACTCCAC
* *
99044430 TACCGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
* * *
99044495 TCACAGTCTTCAACCTACTCCAC
66 TCACCGTCTTCGATCTACTCCAC
* * * * ** *
99044518 TACTGCTTAGGGAGATAGGGTGGTCTGTCATTTTCAGCCCGTTTCCCTACTATTTAAGGGGATAA
1 TACTGCTTAGGGAGATA---AGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAA
* *
99044583 GGCTCACCGTCTTCGATCTGCTCCTC
63 GGCTCACCGTCTTCGATCTACTCCAC
* * * *
99044609 TACTGCTTAGGGAGATAAGATCTATAATTTTCAACATG--TCCTCTACTACTTAGGGGGATAAGG
1 TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCC-CTACTGCTTAGGGGGATAAGG
99044672 CT
65 CT
99044674 AGTGAATTCT
Statistics
Matches: 512, Mismatches: 75, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
86 3 0.01
87 95 0.19
88 338 0.66
89 1 0.00
91 75 0.15
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (88 bp):
TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGC
TCACCGTCTTCGATCTACTCCAC
Found at i:99044820 original size:64 final size:64
Alignment explanation
Indices: 99044742--99044866 Score: 178
Period size: 64 Copynumber: 2.0 Consensus size: 64
99044732 TCATGTATCT
* * *
99044742 ATGCTTATGCCAAATAATTAGGACACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTA
1 ATGCTTATGCCAAATAATTAGGACACTATGATCAAAACGAATCAAATGCCCCTAACTAGATGTA
** ** *
99044806 ATGCTTATTTCAAATAATTAGGATGCTATGATCAAAACGAATCCAATGCCCCTAACTAGAT
1 ATGCTTATGCCAAATAATTAGGACACTATGATCAAAACGAATCAAATGCCCCTAACTAGAT
99044867 ATGTTATGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.29
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGACACTATGATCAAAACGAATCAAATGCCCCTAACTAGATGTA
Found at i:99049313 original size:25 final size:25
Alignment explanation
Indices: 99049279--99049330 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
99049269 TAGAGACATA
99049279 AATTTAAATGAAAATAATATTGACT
1 AATTTAAATGAAAATAATATTGACT
*
99049304 AATTTAAATGAAAATAATATTGGCT
1 AATTTAAATGAAAATAATATTGACT
99049329 AA
1 AA
99049331 CTTACTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.35
Consensus pattern (25 bp):
AATTTAAATGAAAATAATATTGACT
Found at i:99051981 original size:19 final size:19
Alignment explanation
Indices: 99051946--99051984 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
99051936 AAACTTTTAA
*
99051946 TATTTTATGTTATAAAAAT
1 TATTTTATATTATAAAAAT
99051965 TATTTTATATGTA-AAAAAT
1 TATTTTATAT-TATAAAAAT
99051984 T
1 T
99051985 TAATTCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTTTATATTATAAAAAT
Found at i:99057047 original size:12 final size:11
Alignment explanation
Indices: 99057026--99057058 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
99057016 TATTGGTTGA
99057026 GCCATGATGAT
1 GCCATGATGAT
99057037 GCCATTGATGAT
1 GCCA-TGATGAT
99057049 GCCATGATGA
1 GCCATGATGA
99057059 CAAGTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (11 bp):
GCCATGATGAT
Found at i:99058936 original size:19 final size:19
Alignment explanation
Indices: 99058901--99058937 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
99058891 TTTTAAAAAA
* *
99058901 AATATTTTTATATATTTTC
1 AATATTTTTACAAATTTTC
99058920 AATATTTTTACAAATTTT
1 AATATTTTTACAAATTTT
99058938 AAATTATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
AATATTTTTACAAATTTTC
Found at i:99072773 original size:256 final size:256
Alignment explanation
Indices: 99072329--99072817 Score: 775
Period size: 256 Copynumber: 1.9 Consensus size: 256
99072319 CAGCCCGATG
* *
99072329 TTGGGCCTAGTCGGAACAGTATTTCGGGACCACAAATCTGACGAGGAAAAAAATTATTTTTATTA
1 TTGGGCCTAGTCGGAACAGTATTTCGAGACCACAAATCCGACGAGGAAAAAAATTATTTTTATTA
** * *
99072394 TATTTTATGGTCTACGATTTCACGGAATGATTTCGTGAAAATTTCATTCGAAAATTTTGACGTTT
66 TATTTTATGGTCTAAAATTTCACGGAATGATTTCATGAAAATTTCATTCAAAAATTTTGACGTTT
* *
99072459 AGGCACTCAATTTAGTCAAAAAGACTAAATTGTAAAAAGTACAAAAGTTAATTTCTACATGATAG
131 AGGCACTCAATTTAGTCAAAAAGACTAAATCGTAAAAAGTACAAAAGTTAAGTTCTACATGATAG
99072524 AGGTGTCCAATTGTTATGAAATTTTAAATTGAAGGTCCCTTAAATGTGTAACATCTTGATT
196 AGGTGTCCAATTGTTATGAAATTTTAAATTGAAGGTCCCTTAAATGTGTAACATCTTGATT
* * * *
99072585 TTGGGCCTAGTCGGAACAGTGGTTTCGAGATCACAAATCCGATGA-G-AAAAATTTATTTTTATT
1 TTGGGCCTAGTCGGAACAGT-ATTTCGAGACCACAAATCCGACGAGGAAAAAAATTATTTTTATT
* *
99072648 ATATTTTTATGGTTTAAAATTTCACGGAATGATTTTATGAAAATTTCATTCAAAAATTTTGACGT
65 ATA-TTTTATGGTCTAAAATTTCACGGAATGATTTCATGAAAATTTCATTCAAAAATTTTGACGT
* * * *
99072713 TTGGGCACTCAATTTAGTCAAAAGGACTAAATCGTAAAAAGTACAAAAGTTGAGTTCTACATGCT
129 TTAGGCACTCAATTTAGTCAAAAAGACTAAATCGTAAAAAGTACAAAAGTTAAGTTCTACATGAT
*
99072778 AGAGGTGTCCAATTGTTATGAAATTTTAAATTGGAGGTCC
194 AGAGGTGTCCAATTGTTATGAAATTTTAAATTGAAGGTCC
99072818 TTATACGGTA
Statistics
Matches: 212, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
255 19 0.09
256 174 0.82
257 19 0.09
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (256 bp):
TTGGGCCTAGTCGGAACAGTATTTCGAGACCACAAATCCGACGAGGAAAAAAATTATTTTTATTA
TATTTTATGGTCTAAAATTTCACGGAATGATTTCATGAAAATTTCATTCAAAAATTTTGACGTTT
AGGCACTCAATTTAGTCAAAAAGACTAAATCGTAAAAAGTACAAAAGTTAAGTTCTACATGATAG
AGGTGTCCAATTGTTATGAAATTTTAAATTGAAGGTCCCTTAAATGTGTAACATCTTGATT
Found at i:99077186 original size:28 final size:28
Alignment explanation
Indices: 99077153--99077251 Score: 136
Period size: 28 Copynumber: 3.7 Consensus size: 28
99077143 TATCTAAGAT
*
99077153 ATGACATTGTGCTAAGTGAAATAAGACC
1 ATGACATTGTGCTAAGTGAAATAAGTCC
99077181 ATGACA---T-CTAAGTGAAATAAGTCC
1 ATGACATTGTGCTAAGTGAAATAAGTCC
*
99077205 ATGACAATGTGCTAAGTGAAATAAGTCC
1 ATGACATTGTGCTAAGTGAAATAAGTCC
99077233 AT-AGCATTGTGCTAAGTGA
1 ATGA-CATTGTGCTAAGTGA
99077252 GAAATTTCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
24 22 0.34
25 1 0.02
27 2 0.03
28 39 0.61
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (28 bp):
ATGACATTGTGCTAAGTGAAATAAGTCC
Found at i:99077370 original size:51 final size:51
Alignment explanation
Indices: 99077275--99077528 Score: 391
Period size: 51 Copynumber: 4.9 Consensus size: 51
99077265 TGAACCTTAG
*
99077275 GAATAAAATAGCTTTGGACACATACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATATAATAGCTTTGG--AC--ACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
99077330 GAATATAATAGCTTTGGACACAAGTGTGGTTCTATGTGAAGGCCACTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
99077381 GAATATAATAGCTTTGGACACAAGTGTGGTACTATTTGAAGGCCATTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
99077432 GAATATAATAGCTTTGGACATAAGTGTGGTACTATGTGAAGGCCACTTTAT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
99077483 GAATAAAATAGCTTTGGCCACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC
99077529 CGCGTATCCG
Statistics
Matches: 186, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
51 168 0.90
53 2 0.01
55 16 0.09
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (51 bp):
GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:99080679 original size:32 final size:32
Alignment explanation
Indices: 99080643--99080744 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 32
99080633 TAAGAGTATG
99080643 AAATGAACTTGATATTCAAATGGTAAGTTATT
1 AAATGAACTTGATATTCAAATGGTAAGTTATT
* * * * *
99080675 AAATGAA--T-A-ATTGAGAAATTGAAAGAGTATG
1 AAATGAACTTGATATT--CAAATGGTAAG-TTATT
99080706 AAATGAACTTGATATTCAAATGGTAAGTTATT
1 AAATGAACTTGATATTCAAATGGTAAGTTATT
99080738 AAATGAA
1 AAATGAA
99080745 TCGTGTAAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
28 3 0.06
29 1 0.02
30 9 0.17
31 10 0.19
32 17 0.32
33 9 0.17
34 1 0.02
35 3 0.06
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.32
Consensus pattern (32 bp):
AAATGAACTTGATATTCAAATGGTAAGTTATT
Found at i:99080719 original size:63 final size:63
Alignment explanation
Indices: 99080620--99080745 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
99080610 ATTTATATGA
*
99080620 AATTGAGAAATTGTAAGAGTATGAAATGAACTTGATATTCAAATGGTAAGTTATTAAATGAAT
1 AATTGAGAAATTGAAAGAGTATGAAATGAACTTGATATTCAAATGGTAAGTTATTAAATGAAT
99080683 AATTGAGAAATTGAAAGAGTATGAAATGAACTTGATATTCAAATGGTAAGTTATTAAATGAAT
1 AATTGAGAAATTGAAAGAGTATGAAATGAACTTGATATTCAAATGGTAAGTTATTAAATGAAT
99080746 CGTGTAAGAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.33
Consensus pattern (63 bp):
AATTGAGAAATTGAAAGAGTATGAAATGAACTTGATATTCAAATGGTAAGTTATTAAATGAAT
Found at i:99083502 original size:12 final size:12
Alignment explanation
Indices: 99083485--99083509 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99083475 AAATGGAAAT
99083485 CAACATTTTGCA
1 CAACATTTTGCA
99083497 CAACATTTTGCA
1 CAACATTTTGCA
99083509 C
1 C
99083510 TAAAACTGTT
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:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CAACATTTTGCA
Found at i:99084566 original size:50 final size:50
Alignment explanation
Indices: 99084491--99084667 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
99084481 CCATGGCAAC
99084491 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
99084541 AAGTGATAAGTAATAGCTTCGGCTACATTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
99084591 AAGTGATAAGTGATAACTTCGGCTACACTTATCTGGTCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
99084641 CAAGTGAAAAGTGGTAGCTTCTGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
99084668 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 92 0.81
51 22 0.19
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:99084760 original size:31 final size:31
Alignment explanation
Indices: 99084643--99084752 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
99084633 ACAAATGACA
* *
99084643 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
99084674 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
99084705 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
99084736 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
99084753 TCAGCTACAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:99084848 original size:47 final size:46
Alignment explanation
Indices: 99084778--99084981 Score: 191
Period size: 47 Copynumber: 4.4 Consensus size: 46
99084768 AAGTGATTTC
* * *
99084778 CGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATATGCTA
1 CGTATAAGACCATAGCTGGGATATGGCATCAGTGTGATATGTGATA
* * *
99084824 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATAGCTGGGATATGGCATCAGTGTGATATGTGATA
* * * * *
99084871 CGTGTAAGACCATAGATAGGCTATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATAGCTGGGATATGGCATC-A-GTGTGATATGTGA-TA
* * * *
99084920 CGTGTAAGACCATAGCTGGGCTATGGCATC-G-AT-ATATG-AATA
1 CGTATAAGACCATAGCTGGGATATGGCATCAGTGTGATATGTGATA
* *
99084962 TGTGTAAGACCATAGCTGGG
1 CGTATAAGACCATAGCTGGG
99084982 CCATGACATC
Statistics
Matches: 136, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
42 21 0.15
43 1 0.01
44 5 0.04
45 1 0.01
46 25 0.18
47 43 0.32
48 11 0.08
49 29 0.21
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATAGCTGGGATATGGCATCAGTGTGATATGTGATA
Found at i:99084930 original size:49 final size:48
Alignment explanation
Indices: 99084860--99084965 Score: 167
Period size: 49 Copynumber: 2.2 Consensus size: 48
99084850 GCATCAGTGA
*
99084860 GATATGTGATTCGTGTAAGACCATAGATAGGCTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGATAGGCTATGGCATCGATATAT
* *
99084908 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGATAGGCTATGGCATCGATATAT
99084957 GAATATGTG
1 G-ATATGTG
99084966 TAAGACCATA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
48 11 0.21
49 35 0.66
50 7 0.13
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.31
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGATAGGCTATGGCATCGATATAT
Found at i:99084967 original size:42 final size:42
Alignment explanation
Indices: 99084921--99085032 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
99084911 ATGTGATTAC
*
99084921 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATATGAAGAT
* * *
99084963 GTGTAAGACCATAGCTGGGCCATGACATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCATTATATGAAGAT
* **
99085005 GTGTAAGACCATAGTTGAACTATGGCAT
1 GTGTAAGACCATAGCTGGGCTATGGCAT
99085033 TGAGAAAACG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCATTATATGAAGAT
Found at i:99088477 original size:46 final size:46
Alignment explanation
Indices: 99088424--99088546 Score: 237
Period size: 46 Copynumber: 2.7 Consensus size: 46
99088414 CATATTTCAT
99088424 GGTCGATGCATGTCCCAGACATGTCTTACACAGGCTTACATCTTGA
1 GGTCGATGCATGTCCCAGACATGTCTTACACAGGCTTACATCTTGA
99088470 GGTCGATGCATGTCCCAGACATGTCTTACACAGGCTTACATCTTGA
1 GGTCGATGCATGTCCCAGACATGTCTTACACAGGCTTACATCTTGA
*
99088516 GGTCGATGCATGTCCTAGACATGTCTTACAC
1 GGTCGATGCATGTCCCAGACATGTCTTACAC
99088547 TAGCACTCGT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (46 bp):
GGTCGATGCATGTCCCAGACATGTCTTACACAGGCTTACATCTTGA
Found at i:99096117 original size:21 final size:21
Alignment explanation
Indices: 99096091--99096142 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
99096081 TACCGCTGCT
*
99096091 TCTAATCTCACCGCTATAGTA
1 TCTAATCTCACCGCTACAGTA
*
99096112 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
99096133 TCAAATCTCA
1 TCTAATCTCA
99096143 TTGCCACCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:99100084 original size:26 final size:25
Alignment explanation
Indices: 99100040--99100137 Score: 92
Period size: 26 Copynumber: 3.9 Consensus size: 25
99100030 TATGAGATCT
*
99100040 TAAAATAAATATTA-ATAAAATAGTA
1 TAAAATAAATAGTATATAAAATA-TA
* * *
99100065 TAAACTAAATAGCATATAAAAGAT-
1 TAAAATAAATAGTATATAAAATATA
* * *
99100089 TAAAATAAACAGTATATAAAACAACA
1 TAAAATAAATAGTATATAAAA-TATA
*
99100115 TAAAATAAATAATATATAAAATA
1 TAAAATAAATAGTATATAAAATA
99100138 ATTTGAAGCT
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
24 18 0.31
25 14 0.24
26 26 0.45
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (25 bp):
TAAAATAAATAGTATATAAAATATA
Found at i:99102503 original size:22 final size:22
Alignment explanation
Indices: 99102477--99102518 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
99102467 TATTAAAATG
99102477 TATATTTT-TAATTGACATTTTA
1 TATATTTTATAATT-ACATTTTA
99102499 TATATTTTATAATTACATTT
1 TATATTTTATAATTACATTT
99102519 CAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (22 bp):
TATATTTTATAATTACATTTTA
Found at i:99103769 original size:11 final size:11
Alignment explanation
Indices: 99103722--99103761 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
99103712 GTTTTCTCCC
*
99103722 TATTTTGTTAT
1 TATTTTGCTAT
*
99103733 TATTTTACTAT
1 TATTTTGCTAT
*
99103744 TACTTTGCTAT
1 TATTTTGCTAT
99103755 TATTTTG
1 TATTTTG
99103762 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.65
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:99103965 original size:18 final size:18
Alignment explanation
Indices: 99103944--99103983 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
99103934 GAAATATTTA
*
99103944 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
99103962 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
99103980 TTTT
1 TTTT
99103984 AAAAGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:99117118 original size:20 final size:20
Alignment explanation
Indices: 99117069--99117118 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
99117059 TTATGCTACA
99117069 TCAGTATTCTTATCTTGAATT
1 TCAGTATT-TTATCTTGAATT
*
99117090 TCAGGATTTTATCTTGAATT
1 TCAGTATTTTATCTTGAATT
*
99117110 TTAGTATTT
1 TCAGTATTT
99117119 AAATTTGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.54
Consensus pattern (20 bp):
TCAGTATTTTATCTTGAATT
Found at i:99119508 original size:16 final size:17
Alignment explanation
Indices: 99119483--99119516 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
99119473 AAGGTAAAAA
99119483 TTTATATTTTT-TATTT
1 TTTATATTTTTGTATTT
*
99119499 TTTATTTTTTTGTATTT
1 TTTATATTTTTGTATTT
99119516 T
1 T
99119517 CTTTTATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTATATTTTTGTATTT
Found at i:99120751 original size:70 final size:71
Alignment explanation
Indices: 99120631--99120821 Score: 248
Period size: 71 Copynumber: 2.7 Consensus size: 71
99120621 AACATGTGAA
* *
99120631 CTGAGGCTCAACTCACTTT-TCGC-ATATGAGTTGATTTTTTGACAACAGAAATTG-AAATACCT
1 CTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTGAAAACAGAAATTGAAAATACCT
*
99120693 CAGCATGTC
63 CAACATGTC
*
99120702 CTGA-GCTCAACTCATTTCTCACAATATGAGTTGAATTTGAAAAGCAGAAATTGAAAATACCTCA
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAA-CAGAAATTGAAAATACCTCA
*
99120766 ACGTGTC
65 ACATGTC
*
99120773 TTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATTTTGAAAACAGAA
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTGAAAACAGAA
99120822 TATGAGTTGA
Statistics
Matches: 107, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
69 10 0.09
70 22 0.21
71 57 0.53
72 18 0.17
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (71 bp):
CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAACAGAAATTGAAAATACCTCAA
CATGTC
Found at i:99120849 original size:26 final size:25
Alignment explanation
Indices: 99120795--99120849 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
99120785 TCATTCTCGC
*
99120795 AATATGAGTTGAATTTTGAAAACAG
1 AATATGAGTTGAATTTTAAAAACAG
*
99120820 AATATGAGTTG-ATTCTTCAAAAACAT
1 AATATGAGTTGAATT-TT-AAAAACAG
99120846 AATA
1 AATA
99120850 ATGAAACAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 3 0.12
25 13 0.50
26 10 0.38
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (25 bp):
AATATGAGTTGAATTTTAAAAACAG
Found at i:99120974 original size:73 final size:72
Alignment explanation
Indices: 99120853--99121132 Score: 395
Period size: 73 Copynumber: 3.9 Consensus size: 72
99120843 CATAATAATG
*** * **
99120853 AAACAGAAA-TGAAAATA-CTCTGTGTGACCTG-GGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
99120915 TTTTTTGA
66 -ATTTTGA
* * *
99120923 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
99120988 ATTTTGA
66 ATTTTGA
*
99120995 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAA-CAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
99121060 AATTTTGA
65 AATTTTGA
* * *
99121068 AAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
99121133 TTCTTTCAAA
Statistics
Matches: 192, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
70 8 0.04
71 7 0.04
72 79 0.41
73 98 0.51
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (72 bp):
AAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
ATTTTGA
Found at i:99121116 original size:72 final size:72
Alignment explanation
Indices: 99120884--99121132 Score: 408
Period size: 73 Copynumber: 3.4 Consensus size: 72
99120874 GTGTGACCTG
** * * *
99120884 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 GGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
99120949 TGTCCTGA
65 TGTCTTGA
*
99120957 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACG
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACG
99121022 TGTCTTGA
65 TGTCTTGA
*
99121030 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAATGT
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGT
99121095 GTCTTGA
66 GTCTTGA
99121102 GGCTCAACTCATTTCTCGCAATATGAGTTGA
1 GGCTCAACTCATTTCTCGCAATATGAGTTGA
99121133 TTCTTTCAAA
Statistics
Matches: 166, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
72 68 0.41
73 98 0.59
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (72 bp):
GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGT
GTCTTGA
Found at i:99121214 original size:88 final size:86
Alignment explanation
Indices: 99121065--99121310 Score: 287
Period size: 88 Copynumber: 2.8 Consensus size: 86
99121055 AGTTGAATTT
* ** * **
99121065 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAA-AGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
99121130 TGA-TTCTTTCAAAAACATAATAA
65 TGATTTCTTTCAAAAACA-AA-AA
* *
99121153 TGAAAATAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAA-AGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
99121218 TGATTTTTTTGAAAAACAGAAA
65 TGATTTCTTTCAAAAACAAAAA
* * *
99121240 TCAAAAGGCTTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAAAG--AAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
99121305 AGTTGA
62 AGTTGA
99121311 AATTAAAACA
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
86 1 0.01
87 7 0.05
88 74 0.54
89 13 0.10
90 41 0.30
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (86 bp):
TGAAAAAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTCTTTCAAAAACAAAAA
Found at i:99121633 original size:76 final size:73
Alignment explanation
Indices: 99121537--99121868 Score: 400
Period size: 76 Copynumber: 4.5 Consensus size: 73
99121527 GTAATCTGAA
*
99121537 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAACAGAAATTGAAAATACCTCAGCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCTCAGC-
*
99121602 TGTGAACCGAG
65 -GTG-TCCGAG
* * *
99121613 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACA-AAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTAAAAACAGAAATTGAAAATACCTCAGC
*
99121677 GTGTCTTGAG
65 GTGTC-CGAG
** * * * *
99121687 GCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCTCAGCG
99121750 TGTCCTGAG
66 TGTCC-GAG
** * *
99121759 GCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTTTTTTAACAACAGAAATTGAAATTACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTAAAAACAGAAATTGAAAATACCTCA
*
99121824 GCGTGTCTGAG
63 GCGTGTCCGAG
*
99121835 GCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
99121869 GAAAAACAAA
Statistics
Matches: 227, Mismatches: 20, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
71 11 0.05
72 54 0.24
73 5 0.02
74 34 0.15
76 77 0.34
77 46 0.20
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (73 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCTCAGCG
TGTCCGAG
Found at i:99121835 original size:148 final size:146
Alignment explanation
Indices: 99121531--99121886 Score: 459
Period size: 148 Copynumber: 2.4 Consensus size: 146
99121521 CAGTGTGTAA
* * *
99121531 TCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAACAGAAATTGAAAATACC
1 TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTT-GAAAACAGAAATTGAAAATACC
99121596 TCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAAAA
64 TCAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAAAA
99121661 TTGAAAATACCTCAACGTG
128 TTGAAAATACCTCAACGTG
** * *
99121680 TCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCT
1 TC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
* ** * *
99121745 CAGC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTTTTTTAACAACAGA
65 CAGCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTTTGAA-AACA-A
* *
99121808 AATTGAAATTACCTCAGCGTG
126 AATTGAAAATACCTCAACGTG
* *
99121829 TCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
99121887 GGCTTAACTC
Statistics
Matches: 181, Mismatches: 20, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
145 2 0.01
146 33 0.18
147 19 0.10
148 69 0.38
149 28 0.15
150 30 0.17
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (146 bp):
TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTC
AGCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAAAATTG
AAAATACCTCAACGTG
Found at i:99122033 original size:70 final size:70
Alignment explanation
Indices: 99121886--99122060 Score: 212
Period size: 70 Copynumber: 2.5 Consensus size: 70
99121876 AAAAATTAAA
* * * * * **
99121886 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
99121950 CCCGG
66 CCCGG
*
99121955 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
99122019 GTCTTG
65 GCCCGG
99122025 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
99122061 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
69 27 0.29
70 61 0.66
71 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCGG
Found at i:99143959 original size:46 final size:46
Alignment explanation
Indices: 99143878--99143998 Score: 188
Period size: 46 Copynumber: 2.6 Consensus size: 46
99143868 GCCCATAAGC
* * *
99143878 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGT
* * *
99143924 GAGCTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGT
99143970 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
99143999 TGCTCAACCA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGT
Found at i:99144017 original size:46 final size:45
Alignment explanation
Indices: 99143878--99144017 Score: 115
Period size: 46 Copynumber: 3.0 Consensus size: 45
99143868 GCCCATAAGC
* ** * *
99143878 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCACAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCAT-C-CAAGT
* * * *
99143924 GAGCTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCA-CCATCCAAGT
*
99143970 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCAAGT
99144016 GA
1 GA
99144018 CATGTCACTT
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
44 8 0.11
45 1 0.01
46 60 0.82
48 1 0.01
50 3 0.04
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCAAGT
Found at i:99147132 original size:15 final size:16
Alignment explanation
Indices: 99147114--99147143 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
99147104 AAGCAGGGGA
99147114 AGGAAAG-AAAGAAAG
1 AGGAAAGAAAAGAAAG
99147129 AGGAAAGAAAAGAAA
1 AGGAAAGAAAAGAAA
99147144 AAGGGAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AGGAAAGAAAAGAAAG
Found at i:99148621 original size:21 final size:21
Alignment explanation
Indices: 99148595--99148680 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
99148585 GGCTTTATCG
* *
99148595 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
99148616 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
99148637 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* * * *
99148658 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
99148679 AT
1 AT
99148681 ACTGATCAGG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:99149625 original size:25 final size:25
Alignment explanation
Indices: 99149585--99149680 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
99149575 CCAAATAATA
* *
99149585 CGCCATAAAGGATTTCCAGAGAATT
1 CGCCACAAAGGCTTTCCAGAGAATT
* * *
99149610 CGCAACAAAGGCTTTCTAGAGAATA
1 CGCCACAAAGGCTTTCCAGAGAATT
* * *
99149635 CGCCGCAAAGGCTTTTCAGAGGATT
1 CGCCACAAAGGCTTTCCAGAGAATT
* *
99149660 TGCCACAAAGGCTTTCTAGAG
1 CGCCACAAAGGCTTTCCAGAG
99149681 TGGTGAAACA
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (25 bp):
CGCCACAAAGGCTTTCCAGAGAATT
Found at i:99149638 original size:50 final size:50
Alignment explanation
Indices: 99149581--99149680 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
99149571 TTTCCCAAAT
*
99149581 AATACGCCATAAAGGATTTCCAGAGAATTCGCAACAAAGGCTTTCTAGAG
1 AATACGCCACAAAGGATTTCCAGAGAATTCGCAACAAAGGCTTTCTAGAG
* * * * * *
99149631 AATACGCCGCAAAGGCTTTTCAGAGGATTTGCCACAAAGGCTTTCTAGAG
1 AATACGCCACAAAGGATTTCCAGAGAATTCGCAACAAAGGCTTTCTAGAG
99149681 TGGTGAAACA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (50 bp):
AATACGCCACAAAGGATTTCCAGAGAATTCGCAACAAAGGCTTTCTAGAG
Found at i:99159390 original size:111 final size:109
Alignment explanation
Indices: 99159278--99159485 Score: 321
Period size: 111 Copynumber: 1.9 Consensus size: 109
99159268 TAACTTCCAT
* *
99159278 TCATTCAAAAATTAGGATTTCTATCATAT-ATA-TATATATAAAAGAACTATAAATTATAGAATT
1 TCATTCAAAAATTAGGATTTCTATAATATCATAGTATATATAAAACAACTATAAATTATAGAATT
*
99159341 GTTGGATTTAAATATTTTCATTCATCCAACAATTCATCAATTCA
66 GTTGGATTTAAATATTTTCATTAATCCAACAATTCATCAATTCA
* ** *
99159385 TCATTCAAAAATTAGGATTTCTATAATATGCGTAGGTATATATATGACAACTATAAATTATAGAC
1 TCATTCAAAAATTAGGATTTCTATAATAT-CATA-GTATATATAAAACAACTATAAATTATAGAA
99159450 TTGTTGGATTTAAATATTTTCATTAATCCAACAATT
64 TTGTTGGATTTAAATATTTTCATTAATCCAACAATT
99159486 GATGAAATTC
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 28 0.31
109 2 0.02
111 60 0.67
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (109 bp):
TCATTCAAAAATTAGGATTTCTATAATATCATAGTATATATAAAACAACTATAAATTATAGAATT
GTTGGATTTAAATATTTTCATTAATCCAACAATTCATCAATTCA
Found at i:99162564 original size:14 final size:16
Alignment explanation
Indices: 99162541--99162581 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
99162531 TATTTCTTAT
*
99162541 TATAAAATATAA-A-A
1 TATAACATATAATATA
99162555 TATAACATATAATATA
1 TATAACATATAATATA
99162571 TATAACATATA
1 TATAACATATA
99162582 TATTATCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 1 0.04
16 12 0.50
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
TATAACATATAATATA
Found at i:99162870 original size:10 final size:10
Alignment explanation
Indices: 99162857--99162965 Score: 52
Period size: 10 Copynumber: 11.3 Consensus size: 10
99162847 ATCATAAAAG
99162857 AATATTTAAA
1 AATATTTAAA
*
99162867 AATATAT-AA
1 AATATTTAAA
*
99162876 AA-ATTGAAA
1 AATATTTAAA
*
99162885 AAAATATTAAA
1 AATAT-TTAAA
99162896 AATA-TT-AA
1 AATATTTAAA
*
99162904 AA-ATGTAAA
1 AATATTTAAA
99162913 ATATATTTAAA
1 A-ATATTTAAA
*
99162924 AAT-TGTAAA
1 AATATTTAAA
* *
99162933 AAAAATTAAA
1 AATATTTAAA
*
99162943 TAT-TGTTAAA
1 AATAT-TTAAA
* *
99162953 AATCTTTTAA
1 AATATTTAAA
99162963 AAT
1 AAT
99162966 TGTAAAAAAG
Statistics
Matches: 73, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
7 1 0.01
8 7 0.10
9 20 0.27
10 30 0.41
11 15 0.21
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (10 bp):
AATATTTAAA
Found at i:99162905 original size:18 final size:19
Alignment explanation
Indices: 99162857--99163000 Score: 68
Period size: 20 Copynumber: 7.5 Consensus size: 19
99162847 ATCATAAAAG
99162857 AATATTTAAAAATATATAAA
1 AATATTTAAAAATAT-TAAA
**
99162877 AAT-TGAAAAAAATATTAAA
1 AATAT-TTAAAAATATTAAA
*
99162896 AATA-TTAAAAAT-GTAAA
1 AATATTTAAAAATATTAAA
99162913 ATATATTTAAAAAT-TGTAAA
1 A-ATATTTAAAAATAT-TAAA
* * * *
99162933 AAAAATTAAATATTGTTAAA
1 AATATTTAAA-AATATTAAA
* *
99162953 AATCTTTTAAAAT-TGTAAA
1 AATATTTAAAAATAT-TAAA
*
99162972 AA-AGTTATTAAAAATA-AAAA
1 AATA--T-TTAAAAATATTAAA
99162992 AATATTTAA
1 AATATTTAA
99163001 TTTTTTAAAA
Statistics
Matches: 94, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
17 5 0.05
18 14 0.15
19 32 0.34
20 34 0.36
21 9 0.10
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (19 bp):
AATATTTAAAAATATTAAA
Found at i:99162905 original size:28 final size:29
Alignment explanation
Indices: 99162852--99162934 Score: 100
Period size: 28 Copynumber: 2.9 Consensus size: 29
99162842 AAAAGATCAT
*
99162852 AAAAGAATATTTAAAAATATATAAAAATTG
1 AAAAAAATATTTAAAAATATATAAAAA-TG
99162882 AAAAAAATA-TTAAAAATAT-TAAAAATG
1 AAAAAAATATTTAAAAATATATAAAAATG
* * *
99162909 TAAAATATATTTAAAAAT-TGTAAAAA
1 AAAAAAATATTTAAAAATATATAAAAA
99162935 AAATTAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 10 0.21
28 20 0.42
29 10 0.21
30 8 0.17
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (29 bp):
AAAAAAATATTTAAAAATATATAAAAATG
Found at i:99162934 original size:9 final size:10
Alignment explanation
Indices: 99162857--99162934 Score: 60
Period size: 10 Copynumber: 8.2 Consensus size: 10
99162847 ATCATAAAAG
*
99162857 AATATTTAAA
1 AATATGTAAA
*
99162867 AATATATAAA
1 AATATGTAAA
*
99162877 AAT-TGAAAAA
1 AATATG-TAAA
99162887 AATAT-TAAA
1 AATATGTAAA
99162896 AATAT-T-AA
1 AATATGTAAA
99162904 AA-ATGTAAA
1 AATATGTAAA
*
99162913 ATATATTTAAA
1 A-ATATGTAAA
99162924 AAT-TGTAAA
1 AATATGTAAA
99162933 AA
1 AA
99162935 AAATTAAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
7 2 0.04
8 5 0.09
9 20 0.36
10 21 0.38
11 8 0.14
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (10 bp):
AATATGTAAA
Found at i:99162974 original size:20 final size:19
Alignment explanation
Indices: 99162900--99163030 Score: 68
Period size: 20 Copynumber: 6.7 Consensus size: 19
99162890 ATTAAAAATA
* *
99162900 TTAAAAATGTAAAATATATT
1 TTAAAATTGTAAAAAAT-TT
* **
99162920 TAAAAATTGTAAAAAA-AA
1 TTAAAATTGTAAAAAATTT
*
99162938 TTAAATATTGTTAAAAATCTT
1 TTAAA-ATTGTAAAAAAT-TT
*
99162959 TTAAAATTGTAAAAAAGTTA
1 TTAAAATTGTAAAAAA-TTT
* * *
99162979 TTAAAAAT-AAAAAAATAT
1 TTAAAATTGTAAAAAATTT
** *
99162997 TTAATTTTTTAAAAAAATTAT
1 TTAAAATTGT-AAAAAATT-T
*
99163018 TAAAAATTGTAAA
1 TTAAAATTGTAAA
99163031 TATTTAACAA
Statistics
Matches: 80, Mismatches: 24, Indels: 14
0.68 0.20 0.12
Matches are distributed among these distances:
18 10 0.12
19 16 0.20
20 41 0.51
21 13 0.16
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (19 bp):
TTAAAATTGTAAAAAATTT
Found at i:99163323 original size:20 final size:19
Alignment explanation
Indices: 99163236--99163442 Score: 100
Period size: 20 Copynumber: 10.6 Consensus size: 19
99163226 CCACCAATTC
*
99163236 ACAATTTTTTAATCATTATTT
1 ACAA-TTTTTAATAATT-TTT
*
99163257 ACAAATTTTAATAATTATTT
1 ACAATTTTTAATAATT-TTT
* * *
99163277 GCATTTTTTAAT-ATTTTCC
1 ACAATTTTTAATAATTTT-T
* *
99163296 CCAATTTTTTATAATTTTT
1 ACAATTTTTAATAATTTTT
* *
99163315 ACAAGTTTTAAATAAGGTTTT
1 ACAA-TTTTTAATAA-TTTTT
*
99163336 ATAATTTTTAATAATTTTTTT
1 ACAATTTTTAATAA--TTTTT
*
99163357 ACAA-TATTAA-AATATTTT
1 ACAATTTTTAATAAT-TTTT
* * *
99163375 AAAAAATATTTAATAATTATT
1 --ACAATTTTTAATAATTTTT
** *
99163396 ACAATAATTAAT-TTTTTT
1 ACAATTTTTAATAATTTTT
*
99163414 ACAATTTTTAA-ATTTTTT
1 ACAATTTTTAATAATTTTT
**
99163432 TTAATTTTTAA
1 ACAATTTTTAA
99163443 CATTTTTTAA
Statistics
Matches: 143, Mismatches: 32, Indels: 25
0.71 0.16 0.12
Matches are distributed among these distances:
17 1 0.01
18 34 0.24
19 27 0.19
20 53 0.37
21 25 0.17
22 3 0.02
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.55
Consensus pattern (19 bp):
ACAATTTTTAATAATTTTT
Found at i:99163417 original size:18 final size:19
Alignment explanation
Indices: 99163348--99163432 Score: 57
Period size: 18 Copynumber: 4.5 Consensus size: 19
99163338 AATTTTTAAT
99163348 AATTTTTTTACAAT-ATTA
1 AATTTTTTTACAATAATTA
* * * * *
99163366 AAATATTTTAAAAAATATTT
1 AATTTTTTTACAATA-ATTA
* *
99163386 AATAATTATTACAATAATT-
1 AAT-TTTTTTACAATAATTA
**
99163405 AATTTTTTTACAATTTTTA
1 AATTTTTTTACAATAATTA
99163424 AATTTTTTT
1 AATTTTTTT
99163433 TAATTTTTAA
Statistics
Matches: 48, Mismatches: 15, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
18 21 0.44
19 12 0.25
20 8 0.17
21 7 0.15
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTTTTTTACAATAATTA
Found at i:99163429 original size:19 final size:19
Alignment explanation
Indices: 99163405--99163489 Score: 93
Period size: 19 Copynumber: 4.5 Consensus size: 19
99163395 TACAATAATT
99163405 AATTTTTTTACAATTTTTA
1 AATTTTTTTACAATTTTTA
*
99163424 AATTTTTTT-TAATTTTTA
1 AATTTTTTTACAATTTTTA
* * *
99163442 ACATTTTTTAATAA-TTTAA
1 A-ATTTTTTTACAATTTTTA
*
99163461 ATATTTTTTTACGATTTTTA
1 A-ATTTTTTTACAATTTTTA
99163481 AATTTTTTT
1 AATTTTTTT
99163490 TATAAATTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
18 9 0.16
19 38 0.69
20 8 0.15
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (19 bp):
AATTTTTTTACAATTTTTA
Found at i:99163449 original size:20 final size:19
Alignment explanation
Indices: 99163405--99163500 Score: 81
Period size: 18 Copynumber: 5.0 Consensus size: 19
99163395 TACAATAATT
**
99163405 AATTTTTTTACAATTTTTA
1 AATTTTTTTTTAATTTTTA
99163424 AA-TTTTTTTTAATTTTTA
1 AATTTTTTTTTAATTTTTA
**
99163442 ACATTTTTTAATAA--TTTA
1 A-ATTTTTTTTTAATTTTTA
*
99163460 AATATTTTTTTACGATTTTTA
1 AATTTTTTTTTA--ATTTTTA
*
99163481 AATTTTTTTTATAAATTTTA
1 AATTTTTTTT-TAATTTTTA
99163501 CAATATTTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
17 8 0.13
18 20 0.33
19 4 0.07
20 14 0.23
21 13 0.21
22 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (19 bp):
AATTTTTTTTTAATTTTTA
Found at i:99167536 original size:16 final size:16
Alignment explanation
Indices: 99167515--99167569 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
99167505 GTTTGGTTCA
*
99167515 TTGTAATAGAATAGGG
1 TTGTAATAGAATAGAG
*
99167531 TTGTAATTGAATAGAG
1 TTGTAATAGAATAGAG
*
99167547 TTGTAATGGAATAGAG
1 TTGTAATAGAATAGAG
*
99167563 CTGTAAT
1 TTGTAAT
99167570 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (16 bp):
TTGTAATAGAATAGAG
Found at i:99167636 original size:44 final size:46
Alignment explanation
Indices: 99167555--99167643 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
99167545 AGTTGTAATG
*
99167555 GAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATT
1 GAATAGAGCTGTAATCAGTAATTCAATTGTTTAGTTGAATGGAATT
*
99167601 GAATAGAGCTGTAAT-AG-AATTC-TTGTGTTTAGTTGAATGGAAT
1 GAATAGAGCTGTAATCAGTAATTCAAT-TGTTTAGTTGAATGGAAT
99167644 AGATGTTGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 1 0.03
44 22 0.55
45 2 0.05
46 15 0.38
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (46 bp):
GAATAGAGCTGTAATCAGTAATTCAATTGTTTAGTTGAATGGAATT
Found at i:99167827 original size:12 final size:11
Alignment explanation
Indices: 99167800--99167874 Score: 61
Period size: 12 Copynumber: 6.8 Consensus size: 11
99167790 TATTAAATAC
99167800 AATTTAATAA-
1 AATTTAATAAT
99167810 AA--TAATATAT
1 AATTTAATA-AT
99167820 AATTTAATAAT
1 AATTTAATAAT
*
99167831 ATTCTTAAT-AT
1 AAT-TTAATAAT
99167842 AATTATTAATAAT
1 AA-T-TTAATAAT
99167855 -ATTTAATAAT
1 AATTTAATAAT
99167865 AATTTTAATA
1 AA-TTTAATA
99167875 TAAAATTATT
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
8 5 0.09
9 1 0.02
10 12 0.23
11 9 0.17
12 24 0.45
13 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (11 bp):
AATTTAATAAT
Found at i:99167844 original size:22 final size:21
Alignment explanation
Indices: 99167816--99167874 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 21
99167806 ATAAAATAAT
99167816 ATATAA-TTTAATAATATTCTTA
1 ATATAATTTTAATAATA-T-TTA
99167838 ATATAATTATTAATAATATTTA
1 ATATAATT-TTAATAATATTTA
99167860 ATAATAATTTTAATA
1 AT-ATAATTTTAATA
99167875 TAAAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 17 0.50
23 8 0.24
24 9 0.26
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATAATTTTAATAATATTTA
Done.