Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 149 of 202
Found at i:46509242 original size:18 final size:18
Alignment explanation
Indices: 46509088--46509248 Score: 74
Period size: 18 Copynumber: 9.1 Consensus size: 18
46509078 TTCCCTTTTT
* *
46509088 TTTCTTTCTTCCCTCTTC
1 TTTCTTTCTTTCCTCTCC
* *
46509106 TTCTTTTTTTTTCTCTTCTCC
1 TT-TCTTTCTTTC-C-TCTCC
46509127 TTTCCCTTTCTTTCCT-T-C
1 TTT--CTTTCTTTCCTCTCC
** *
46509145 TTTCTTTCTTTTTTCTTC
1 TTTCTTTCTTTCCTCTCC
* *
46509163 TCTTC-TCCTTT--TCTTC
1 T-TTCTTTCTTTCCTCTCC
46509179 -TTCTTTCTTTCCT-T--
1 TTTCTTTCTTTCCTCTCC
* *
46509193 TTT-TCTCTTCTCCTTTCC
1 TTTCTTTCTT-TCCTCTCC
46509211 TTTTCTTTCTTTCCTCTCC
1 -TTTCTTTCTTTCCTCTCC
46509230 TTTCTTTCTTTCC-CTCC
1 TTTCTTTCTTTCCTCTCC
46509247 TT
1 TT
46509249 CTGCCCCCAC
Statistics
Matches: 112, Mismatches: 13, Indels: 37
0.69 0.08 0.23
Matches are distributed among these distances:
14 8 0.07
15 11 0.10
16 16 0.14
17 8 0.07
18 26 0.23
19 21 0.19
20 8 0.07
21 7 0.06
22 7 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCTTTCTTTCCTCTCC
Found at i:46509247 original size:41 final size:42
Alignment explanation
Indices: 46509087--46509250 Score: 137
Period size: 40 Copynumber: 4.0 Consensus size: 42
46509077 TTTCCCTTTT
* * * *
46509087 TTTTCTTTCTTCCCTCTTC-TTCTTTTTTTTTCT-CTTCTCC
1 TTTTCTTTCTTTCCTCTCCTTTCTTTCTTTTCCTCCTTCTCC
* *
46509127 TTTCCCTTTCTTTCCT-T-CTTTCTTTCTTTTTTCTTCTCTTCTCC
1 TTT-TCTTTCTTTCCTCTCCTTTCTTTC--TTTTCCTC-CTTCTCC
* *
46509171 TTTTCTTCTTCTTT-CTTTCCTTT-TTTCTCTT-CTCCTT-TCC
1 TTTTC-T-TTCTTTCCTCTCCTTTCTTTCTTTTCCTCCTTCTCC
*
46509211 TTTTCTTTCTTTCCTCTCCTTTCTTTCTTTCCCTCCTTCT
1 TTTTCTTTCTTTCCTCTCCTTTCTTTCTTTTCCTCCTTCT
46509251 GCCCCCACCA
Statistics
Matches: 99, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
38 6 0.06
39 10 0.10
40 24 0.24
41 19 0.19
42 8 0.08
43 4 0.04
44 13 0.13
45 11 0.11
46 4 0.04
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (42 bp):
TTTTCTTTCTTTCCTCTCCTTTCTTTCTTTTCCTCCTTCTCC
Found at i:46509319 original size:27 final size:27
Alignment explanation
Indices: 46509279--46509349 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
46509269 CCCATAAAAC
*
46509279 CCATTGGTGTCGCCAATGGTATTGGCA
1 CCATTGGTGCCGCCAATGGTATTGGCA
*
46509306 CCATTGGTGCCGCCAATGGTTTTGGCA
1 CCATTGGTGCCGCCAATGGTATTGGCA
*
46509333 CCTTTGGTGCCGCCAAT
1 CCATTGGTGCCGCCAAT
46509350 ACCATTGGCG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.30
Consensus pattern (27 bp):
CCATTGGTGCCGCCAATGGTATTGGCA
Found at i:46509357 original size:27 final size:27
Alignment explanation
Indices: 46509279--46509358 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 27
46509269 CCCATAAAAC
* ***
46509279 CCATTGGTGTCGCCAATGGTATTGGCA
1 CCATTGGTGCCGCCAATACCATTGGCA
****
46509306 CCATTGGTGCCGCCAATGGTTTTGGCA
1 CCATTGGTGCCGCCAATACCATTGGCA
*
46509333 CCTTTGGTGCCGCCAATACCATTGGC
1 CCATTGGTGCCGCCAATACCATTGGC
46509359 GTCACCAGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.29
Consensus pattern (27 bp):
CCATTGGTGCCGCCAATACCATTGGCA
Found at i:46509465 original size:22 final size:22
Alignment explanation
Indices: 46509437--46509489 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 22
46509427 TTGGTAAATA
46509437 AAAAAAAGTT-TATATATTTTGGT
1 AAAAAAA-TTGTA-ATATTTTGGT
46509460 AAAAAAATTGTAATATTTTGGT
1 AAAAAAATTGTAATATTTTGGT
46509482 AAATAAAA
1 AAA-AAAA
46509490 AAAAAGTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (22 bp):
AAAAAAATTGTAATATTTTGGT
Found at i:46509499 original size:29 final size:28
Alignment explanation
Indices: 46509422--46509514 Score: 119
Period size: 29 Copynumber: 3.5 Consensus size: 28
46509412 GTTTTTTTAT
46509422 ATATTTTGGTAAATAAAAAAAAGTT-TA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
46509449 TATATTTTGG----T-AAAAAAA-TTGTA
1 -ATATTTTGGTAAATAAAAAAAAGTTGTA
46509472 ATATTTTGGTAAATAAAAAAAAAGTTGTA
1 ATATTTTGGTAAAT-AAAAAAAAGTTGTA
46509501 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
46509515 TTTTATTTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
22 11 0.19
23 9 0.16
24 1 0.02
26 1 0.02
28 16 0.28
29 19 0.33
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTGTA
Found at i:46510101 original size:23 final size:23
Alignment explanation
Indices: 46510070--46510127 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
46510060 CCAATAGGGG
*
46510070 ACTTTTGTTACTAGTACTCTAGT
1 ACTTATGTTACTAGTACTCTAGT
* * * *
46510093 ACTTCTGTTATTAGTACTTTGGT
1 ACTTATGTTACTAGTACTCTAGT
46510116 ACTTATGTTACT
1 ACTTATGTTACT
46510128 GGCACTACGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.50
Consensus pattern (23 bp):
ACTTATGTTACTAGTACTCTAGT
Found at i:46511448 original size:32 final size:32
Alignment explanation
Indices: 46511407--46511472 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
46511397 ACAATAAATG
*
46511407 TTTGGATAATTACCCTTGAATTTTTGTAGACA
1 TTTGGATAATTACCCTTGAACTTTTGTAGACA
46511439 TTTGGATAATTACCCTTGAACTTTTGTAGACA
1 TTTGGATAATTACCCTTGAACTTTTGTAGACA
46511471 TT
1 TT
46511473 AATTTATAAA
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:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (32 bp):
TTTGGATAATTACCCTTGAACTTTTGTAGACA
Found at i:46517894 original size:42 final size:42
Alignment explanation
Indices: 46517831--46517967 Score: 188
Period size: 42 Copynumber: 3.3 Consensus size: 42
46517821 GTGTAACACA
* *
46517831 CCCGTGTGCCAGGCTGTGTAACTCTCTGAGTTGCCCCACATG
1 CCCGTGTGCTAGGCCGTGTAACTCTCTGAGTTGCCCCACATG
*
46517873 CCCGTAG-GCTAGGTCC-TGTAACTCTCTAAGTTGCCCCACATG
1 CCCGT-GTGCTAGG-CCGTGTAACTCTCTGAGTTGCCCCACATG
* *
46517915 CTCGTGTGCTAGGCCGTATAACTCTCTGAGTTGCCCCACATG
1 CCCGTGTGCTAGGCCGTGTAACTCTCTGAGTTGCCCCACATG
*
46517957 CCCATGTGCTA
1 CCCGTGTGCTA
46517968 AGCCATGTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
41 3 0.04
42 78 0.94
43 2 0.02
ACGTcount: A:0.17, C:0.33, G:0.23, T:0.27
Consensus pattern (42 bp):
CCCGTGTGCTAGGCCGTGTAACTCTCTGAGTTGCCCCACATG
Found at i:46519610 original size:60 final size:60
Alignment explanation
Indices: 46519512--46519625 Score: 192
Period size: 60 Copynumber: 1.9 Consensus size: 60
46519502 GAAAGGACTG
* * *
46519512 TTCATAATAGACTTCGAGAACAAAGAAATATGGCTCTACCAGGGCACAATGCAGGTACTA
1 TTCAGAATAGACTTCGAGAACAAAGAAATATGACTCTACCAGGGAACAATGCAGGTACTA
*
46519572 TTCAGAATAGACTTCGAGAACAATGAAATATGACTCTACCAGGGAACAATGCAG
1 TTCAGAATAGACTTCGAGAACAAAGAAATATGACTCTACCAGGGAACAATGCAG
46519626 CCATACCCCC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (60 bp):
TTCAGAATAGACTTCGAGAACAAAGAAATATGACTCTACCAGGGAACAATGCAGGTACTA
Found at i:46525959 original size:18 final size:18
Alignment explanation
Indices: 46525938--46525985 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
46525928 AAGAAGTTGA
*
46525938 TGTTGCAGAAGCA-TAAGT
1 TGTTGCAGAAG-AGGAAGT
*
46525956 TGTTGTAGAAGAGGAAGT
1 TGTTGCAGAAGAGGAAGT
*
46525974 TGTTGCTGAAGA
1 TGTTGCAGAAGA
46525986 AGATAAAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.31, C:0.06, G:0.33, T:0.29
Consensus pattern (18 bp):
TGTTGCAGAAGAGGAAGT
Found at i:46525987 original size:39 final size:36
Alignment explanation
Indices: 46525919--46525996 Score: 86
Period size: 39 Copynumber: 2.1 Consensus size: 36
46525909 GAAGACACTA
* *
46525919 TTGTTGAGAAAGAAGTTGATGTTGCAGAAGCAT-AAG
1 TTGTTGAGAAAGAAGTTGATGCTGAAGAAG-ATAAAG
*
46525955 TTGTTGTAGAAGAGGAAGTTGTTGCTGAAGAAGATAAAG
1 TTGTTG-AGAA-A-GAAGTTGATGCTGAAGAAGATAAAG
46525994 TTG
1 TTG
46525997 CTAAAAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
36 6 0.17
37 4 0.11
38 3 0.09
39 22 0.63
ACGTcount: A:0.35, C:0.04, G:0.32, T:0.29
Consensus pattern (36 bp):
TTGTTGAGAAAGAAGTTGATGCTGAAGAAGATAAAG
Found at i:46526456 original size:17 final size:17
Alignment explanation
Indices: 46526434--46526467 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46526424 GATAAGTATA
*
46526434 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
46526451 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
46526468 AGTGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.53
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:46529313 original size:20 final size:19
Alignment explanation
Indices: 46529288--46529356 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
46529278 TAAATGCGTT
46529288 CAGGGGTACTGAAGTACACA
1 CAGGGGTACTGAAGTACA-A
* * *
46529308 CAGGGGCA-TGTATGTGCAA
1 CAGGGGTACTG-AAGTACAA
*
46529327 TCAGGGGTGCTGAAGTACAAA
1 -CAGGGGTACTGAAGTAC-AA
46529348 CAGGGGTAC
1 CAGGGGTAC
46529357 GTCTATGCAA
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
19 3 0.08
20 30 0.81
21 4 0.11
ACGTcount: A:0.30, C:0.17, G:0.35, T:0.17
Consensus pattern (19 bp):
CAGGGGTACTGAAGTACAA
Found at i:46529366 original size:40 final size:40
Alignment explanation
Indices: 46529287--46529366 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
46529277 GTAAATGCGT
* * *
46529287 TCAGGGGTACTGAAGTACACACAGGGGCATGTATGTGCAA
1 TCAGGGGTACTGAAGTACAAACAGGGGCACGTATATGCAA
* * *
46529327 TCAGGGGTGCTGAAGTACAAACAGGGGTACGTCTATGCAA
1 TCAGGGGTACTGAAGTACAAACAGGGGCACGTATATGCAA
46529367 ATAGGGTATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.33, T:0.20
Consensus pattern (40 bp):
TCAGGGGTACTGAAGTACAAACAGGGGCACGTATATGCAA
Found at i:46537965 original size:32 final size:32
Alignment explanation
Indices: 46537924--46538060 Score: 265
Period size: 32 Copynumber: 4.3 Consensus size: 32
46537914 GTAAACTAAC
*
46537924 TTTCGTGAATATAGCATATAAGCATTCATACT
1 TTTCATGAATATAGCATATAAGCATTCATACT
46537956 TTTCATGAATATAGCATATAAGCATTCATACT
1 TTTCATGAATATAGCATATAAGCATTCATACT
46537988 TTTCATGAATATAGCATATAAGCATTCATACT
1 TTTCATGAATATAGCATATAAGCATTCATACT
46538020 TTTCATGAATATAGCATATAAGCATTCATACT
1 TTTCATGAATATAGCATATAAGCATTCATACT
46538052 TTTCATGAA
1 TTTCATGAA
46538061 CATGGCTATA
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 104 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (32 bp):
TTTCATGAATATAGCATATAAGCATTCATACT
Found at i:46540807 original size:20 final size:20
Alignment explanation
Indices: 46540784--46540844 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
46540774 GGGTATTAAA
46540784 GTACAAACAAGGGCACGTAT
1 GTACAAACAAGGGCACGTAT
* * *
46540804 GTACAATC-AGGGTATCG-AA
1 GTACAAACAAGGGCA-CGTAT
46540823 GTACAAACAAGGGCACGTAT
1 GTACAAACAAGGGCACGTAT
46540843 GT
1 GT
46540845 GCAATCATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (20 bp):
GTACAAACAAGGGCACGTAT
Found at i:46540828 original size:39 final size:40
Alignment explanation
Indices: 46540694--46540851 Score: 205
Period size: 40 Copynumber: 4.0 Consensus size: 40
46540684 ATGCGTTCAA
*
46540694 GGGTACTGAAGTACAAACAGGGGCACGTATGTGCAATCAG
1 GGGTACTGAAGTACAAACAAGGGCACGTATGTGCAATCAG
*** *
46540734 GGGTACTGAAGTACAAATTGGGGCACATATGTGCAAAT-AG
1 GGGTACTGAAGTACAAACAAGGGCACGTATGTGC-AATCAG
* * *
46540774 GGGTATTAAAGTACAAACAAGGGCACGTATGTACAATCA-
1 GGGTACTGAAGTACAAACAAGGGCACGTATGTGCAATCAG
46540813 GGGTA-TCGAAGTACAAACAAGGGCACGTATGTGCAATCA
1 GGGTACT-GAAGTACAAACAAGGGCACGTATGTGCAATCA
46540852 TTCAATAATT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 38 0.37
40 61 0.59
41 3 0.03
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (40 bp):
GGGTACTGAAGTACAAACAAGGGCACGTATGTGCAATCAG
Found at i:46543099 original size:29 final size:29
Alignment explanation
Indices: 46543066--46543296 Score: 234
Period size: 29 Copynumber: 7.9 Consensus size: 29
46543056 GATGGTTGTC
* * *
46543066 ACCATCTCTTTTCATATTTGATGATCGAA
1 ACCATCCCTTTTCATAGTTGATGGTCGAA
* * *
46543095 ACCATCCCTTTTCATTAATCGATGGTC-ATC
1 ACCATCCCTTTTCA-TAGTTGATGGTCGA-A
* **
46543125 ACCATCCCTTTTCATAGTCGATAATCGAA
1 ACCATCCCTTTTCATAGTTGATGGTCGAA
* *
46543154 ACTATCCCTTTTCATA-TATGATGGTC-ATC
1 ACCATCCCTTTTCATAGT-TGATGGTCGA-A
**
46543183 ACCATCCCTTTTCATAGTTGATGGTCGTC
1 ACCATCCCTTTTCATAGTTGATGGTCGAA
*
46543212 ACCATCCCTTTTCATAGTCGATGGTCGAA
1 ACCATCCCTTTTCATAGTTGATGGTCGAA
* *
46543241 ACTATCCCTTTTCATAGTTGATAGTCGAA
1 ACCATCCCTTTTCATAGTTGATGGTCGAA
* * *
46543270 ACTATCCCTTTTCATAGTGGATAGTCG
1 ACCATCCCTTTTCATAGTTGATGGTCG
46543297 TCGATACATC
Statistics
Matches: 172, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.01
29 145 0.84
30 25 0.15
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (29 bp):
ACCATCCCTTTTCATAGTTGATGGTCGAA
Found at i:46543232 original size:87 final size:86
Alignment explanation
Indices: 46543073--46543298 Score: 301
Period size: 87 Copynumber: 2.6 Consensus size: 86
46543063 GTCACCATCT
* * *
46543073 CTTTTCATATTTGATGATCGAAACCATCCCTTTTCATTAATCGATGGTCATCACCATCCCTTTTC
1 CTTTTCATA-TTGATGGTCGAAACCATCCCTTTTCA-TAGTCGATGGTCGTCACCATCCCTTTTC
46543138 ATAGTCGATAATCGAAACTATCC
64 ATAGTCGATAATCGAAACTATCC
* *
46543161 CTTTTCATATATGATGGTC-ATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTC
1 CTTTTCATAT-TGATGGTCGA-AACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTTC
**
46543225 ATAGTCGATGGTCGAAACTATCC
64 ATAGTCGATAATCGAAACTATCC
* * * *
46543248 CTTTTCATAGTTGATAGTCGAAACTATCCCTTTTCATAGTGGATAGTCGTC
1 CTTTTCATA-TTGATGGTCGAAACCATCCCTTTTCATAGTCGATGGTCGTC
46543299 GATACATCGT
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
87 90 0.74
88 32 0.26
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (86 bp):
CTTTTCATATTGATGGTCGAAACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTTCAT
AGTCGATAATCGAAACTATCC
Found at i:46543286 original size:58 final size:58
Alignment explanation
Indices: 46543055--46543287 Score: 274
Period size: 58 Copynumber: 4.0 Consensus size: 58
46543045 AGTGTGCTAA
** * * *
46543055 CGATGGTTGTCACCATCTCTTTTCATATTTGAT-GATCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCATCACCATCCCTTTTCATAGTTGATAG-TCGAAACCATCCCTTTTCA-TAGT
* * *
46543114 CGATGGTCATCACCATCCCTTTTCATAGTCGATAATCGAAACTATCCCTTTTCATA-T
1 CGATGGTCATCACCATCCCTTTTCATAGTTGATAGTCGAAACCATCCCTTTTCATAGT
* * **
46543171 ATGATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAGT
1 -CGATGGTCATCACCATCCCTTTTCATAGTTGATAGTCGAAACCATCCCTTTTCATAGT
* * *
46543230 CGATGGTCGA-AACTATCCCTTTTCATAGTTGATAGTCGAAACTATCCCTTTTCATAGT
1 CGATGGTC-ATCACCATCCCTTTTCATAGTTGATAGTCGAAACCATCCCTTTTCATAGT
46543288 GGATAGTCGT
Statistics
Matches: 149, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
57 1 0.01
58 100 0.67
59 48 0.32
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.37
Consensus pattern (58 bp):
CGATGGTCATCACCATCCCTTTTCATAGTTGATAGTCGAAACCATCCCTTTTCATAGT
Found at i:46544654 original size:35 final size:36
Alignment explanation
Indices: 46544602--46544671 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
46544592 TATTATAATA
* * *
46544602 ACTATCACATGGTATGAA-AACATACTCGCATATTT
1 ACTATCACATGGAATGAATAACATACCCACATATTT
*
46544637 ACTATCATATGGAATGAATAACATACCCACATATT
1 ACTATCACATGGAATGAATAACATACCCACATATT
46544672 CTCTTTCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (36 bp):
ACTATCACATGGAATGAATAACATACCCACATATTT
Found at i:46547751 original size:26 final size:26
Alignment explanation
Indices: 46547721--46547785 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
46547711 ACAAAACATC
* *
46547721 GGCTCAAAGCCTGCTAAATATTCATT
1 GGCTCAAAGCCTGCTAAATATACACT
*
46547747 GGCTCAAAGCATGCTAAATATACACT
1 GGCTCAAAGCCTGCTAAATATACACT
* *
46547773 GACACAAAGCCTG
1 GGCTCAAAGCCTG
46547786 ATACACTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (26 bp):
GGCTCAAAGCCTGCTAAATATACACT
Found at i:46550951 original size:18 final size:19
Alignment explanation
Indices: 46550928--46550966 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
46550918 CCAAATTTCC
*
46550928 AACCTTAAACTC-TAAAAA
1 AACCTTAAACCCTTAAAAA
*
46550946 AACCTTGAACCCTTAAAAA
1 AACCTTAAACCCTTAAAAA
46550965 AA
1 AA
46550967 GGTCGAGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.21
Consensus pattern (19 bp):
AACCTTAAACCCTTAAAAA
Found at i:46553903 original size:18 final size:18
Alignment explanation
Indices: 46553877--46553934 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
46553867 AATTTCTTTA
*
46553877 TATACTTTTTGAAATTTT
1 TATAATTTTTGAAATTTT
* * *
46553895 TATAATTTTTTAAA-ATA
1 TATAATTTTTGAAATTTT
*
46553912 TATAAATTTTG--ATTTT
1 TATAATTTTTGAAATTTT
46553928 TATAATT
1 TATAATT
46553935 ATTTTTAATT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
15 1 0.03
16 7 0.23
17 10 0.33
18 12 0.40
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (18 bp):
TATAATTTTTGAAATTTT
Found at i:46553945 original size:19 final size:19
Alignment explanation
Indices: 46553882--46553988 Score: 74
Period size: 19 Copynumber: 5.3 Consensus size: 19
46553872 CTTTATATAC
* *
46553882 TTTTTGAAATT-TTTATAA
1 TTTTTAAAATTATTTTTAA
*
46553900 TTTTTTAAAATATATAAATTTTGA
1 -TTTTTAAAAT-TAT---TTTTAA
*
46553924 TTTTTATAATTATTTTTAA
1 TTTTTAAAATTATTTTTAA
*
46553943 -TTTTAAACATTATTTTGAA
1 TTTTTAAA-ATTATTTTTAA
*
46553962 TTTTAGAAAATTATTTTGTAA
1 TTTT-TAAAATTATTTT-TAA
46553983 TTTTTA
1 TTTTTA
46553989 TTGAGAGAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
18 6 0.09
19 24 0.35
20 13 0.19
21 10 0.14
22 3 0.04
23 9 0.13
24 4 0.06
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTAAAATTATTTTTAA
Found at i:46553976 original size:20 final size:19
Alignment explanation
Indices: 46553917--46553986 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
46553907 AAATATATAA
* *
46553917 ATTTTG-ATTTTTATAATT
1 ATTTTGAATTTTAAAAATT
* *
46553935 ATTTTTAATTTTAAACATT
1 ATTTTGAATTTTAAAAATT
46553954 ATTTTGAATTTTAGAAAATT
1 ATTTTGAATTTTA-AAAATT
46553974 ATTTTGTAATTTT
1 ATTTTG-AATTTT
46553987 TATTGAGAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 5 0.12
19 21 0.49
20 11 0.26
21 6 0.14
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:46556110 original size:23 final size:23
Alignment explanation
Indices: 46556080--46556137 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
46556070 GCAATAGGAG
*
46556080 ACTTTTGTTACTAGTACTCTGGT
1 ACTTTTGTTACTAGTACTCTAGT
* *
46556103 ACTTTTGTTATTAGTACTTTAGT
1 ACTTTTGTTACTAGTACTCTAGT
*
46556126 ACTTATGTTACT
1 ACTTTTGTTACT
46556138 GGCACTTCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (23 bp):
ACTTTTGTTACTAGTACTCTAGT
Found at i:46563117 original size:210 final size:209
Alignment explanation
Indices: 46562750--46563169 Score: 831
Period size: 210 Copynumber: 2.0 Consensus size: 209
46562740 GAAAAAAGGT
46562750 ACGTTAAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAGT
1 ACGTTAAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAGT
46562815 AATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAATT
66 AATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAATT
46562880 CTTCATATAATCATGCATTAAAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTATGT
131 CTTCATATAATCATGCATTAAAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTATGT
46562945 AAATATAATTTCAA
196 AAATATAATTTCAA
46562959 ACGTTAAAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAG
1 ACGTT-AAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAG
46563024 TAATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAAT
65 TAATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAAT
46563089 TCTTCATATAATCATGCATTAAAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTATG
130 TCTTCATATAATCATGCATTAAAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTATG
46563154 TAAATATAATTTCAA
195 TAAATATAATTTCAA
46563169 A
1 A
46563170 ATTTTATATC
Statistics
Matches: 210, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
209 5 0.02
210 205 0.98
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (209 bp):
ACGTTAAAATCTATATAATTTAGAGTTATCATAGCCCCAAACTTAAGCCATTGCTCGTCTCGAGT
AATGTTTCAAGAAAATCAATAATTTCAACACGGTAATCTTACACAATAATTAAGAAGAATCAATT
CTTCATATAATCATGCATTAAAAAATTTATGCCTACAAACGCTTCTTACTAACAATTTGCTATGT
AAATATAATTTCAA
Found at i:46564148 original size:15 final size:15
Alignment explanation
Indices: 46564128--46564156 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46564118 TGACCCATAC
46564128 CCCTTTAAAAAGAAT
1 CCCTTTAAAAAGAAT
46564143 CCCTTTAAAAAGAA
1 CCCTTTAAAAAGAA
46564157 GCAATGTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
CCCTTTAAAAAGAAT
Found at i:46573405 original size:138 final size:138
Alignment explanation
Indices: 46573148--46573409 Score: 402
Period size: 138 Copynumber: 1.9 Consensus size: 138
46573138 TTTATTAAAT
46573148 ATTTTGATGTTTGACTAGTTAATTAAAGAAAATGACTAAATCGTAAAAACTGCAAAAGTTAATCG
1 ATTTTGATGTTTGACTAGTTAATTAAAGAAAATGACTAAATCGTAAAAACTGCAAAAGTTAATCG
* *
46573213 CTATGGGCTAATAAGAGTTAATGTCGAAAATATGACTAAATTCATAAAGTGTCAAAGTTAATTTG
66 CTATAGGCTAATAAGAGTTAATGTCGAAAATATGACTAAATTCATAAAGGGTCAAAGTTAATTTG
46573278 GTTTGTTA
131 GTTTGTTA
* * * *
46573286 ATTTTGATGTTTGGCTAGTTAATTAAAGAAAATGACTAAATCGTCAAAATTGTAAAAGTTAATCG
1 ATTTTGATGTTTGACTAGTTAATTAAAGAAAATGACTAAATCGTAAAAACTGCAAAAGTTAATCG
* * * *
46573351 CTATAGGCTAATAAGAGTTAATTTTGAAAAT-TAGACTAATTTGGA-AAAGGGTCAAAGTT
66 CTATAGGCTAATAAGAGTTAATGTCGAAAATAT-GACTAAATT-CATAAAGGGTCAAAGTT
46573410 GTGAGTTTTT
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
137 1 0.01
138 110 0.98
139 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (138 bp):
ATTTTGATGTTTGACTAGTTAATTAAAGAAAATGACTAAATCGTAAAAACTGCAAAAGTTAATCG
CTATAGGCTAATAAGAGTTAATGTCGAAAATATGACTAAATTCATAAAGGGTCAAAGTTAATTTG
GTTTGTTA
Found at i:46584783 original size:19 final size:19
Alignment explanation
Indices: 46584759--46584805 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
46584749 AAATACTTAT
46584759 AATTTACATAACCAAAACC
1 AATTTACATAACCAAAACC
*
46584778 AATTTACATAACCAAAACT
1 AATTTACATAACCAAAACC
*
46584797 TATTTACAT
1 AATTTACAT
46584806 GCCACTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTTACATAACCAAAACC
Found at i:46586767 original size:26 final size:26
Alignment explanation
Indices: 46586701--46586767 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
46586691 CATCCCGACC
* *
46586701 CACAGCTTGTGTGAACAGGCTCATTT
1 CACAGCTCGTGTGAGCAGGCTCATTT
*
46586727 CAAAGCTCGTGTGAGCAGGCTCATTT
1 CACAGCTCGTGTGAGCAGGCTCATTT
46586753 CACAGCTCGTGTGAG
1 CACAGCTCGTGTGAG
46586768 GAAAAATGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGGCTCATTT
Found at i:46594871 original size:18 final size:18
Alignment explanation
Indices: 46594848--46594912 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
46594838 CTTTATGTAT
46594848 TTTTTTAAATTTTTATAA
1 TTTTTTAAATTTTTATAA
* *
46594866 TTTTTTAAA-ATATATAA
1 TTTTTTAAATTTTTATAA
* *
46594883 -ATTTT-GATTTTTATAA
1 TTTTTTAAATTTTTATAA
*
46594899 TTATTTTGAATTTT
1 TT-TTTTAAATTTT
46594913 AGAAAATTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
15 1 0.03
16 10 0.29
17 6 0.17
18 13 0.37
19 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTTTAAATTTTTATAA
Found at i:46594913 original size:18 final size:18
Alignment explanation
Indices: 46594858--46594933 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 18
46594848 TTTTTTAAAT
*
46594858 TTTTATAATT-TTTTAAA
1 TTTTATAATTATTTTGAA
* * *
46594875 ATATATAA--ATTTTGAT
1 TTTTATAATTATTTTGAA
46594891 TTTTATAATTATTTTGAA
1 TTTTATAATTATTTTGAA
*
46594909 TTTTAGAAAATTATTTTGTAA
1 TTTT--ATAATTATTTTG-AA
46594930 TTTT
1 TTTT
46594934 TATTGAGAGA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
16 11 0.24
17 6 0.13
18 11 0.24
20 11 0.24
21 6 0.13
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTATAATTATTTTGAA
Found at i:46596623 original size:39 final size:41
Alignment explanation
Indices: 46596578--46596714 Score: 128
Period size: 40 Copynumber: 3.5 Consensus size: 41
46596568 GGCGTTTGAA
46596578 TAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGC-TATC
1 TAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTTATC
* * * *
46596618 TAAAAAACGCCACTAAAGATCGAGT-ATTAGCGGCGCTTTTC
1 TAAAAAACGCCGCTAAAAATC-AATCATTAGCGGCGCTTATC
* * *
46596659 T-AAAAACGCCGTTAAAAAT-GAGCATTAGCGGCG-TT-T-
1 TAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTTATC
46596695 TAAAAAAAGCGCCGC-AAAAA
1 T-AAAAAA-CGCCGCTAAAAA
46596715 CCTAAACCTA
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 12 0.15
39 15 0.19
40 45 0.56
41 6 0.08
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.20
Consensus pattern (41 bp):
TAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTTATC
Found at i:46596949 original size:41 final size:41
Alignment explanation
Indices: 46596754--46596948 Score: 318
Period size: 41 Copynumber: 4.8 Consensus size: 41
46596744 TTTTTAGGGA
46596754 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
46596795 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
* * * * *
46596836 TTTAGCGGCATTTTTGATGAAGCGCCACTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
* * *
46596877 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAAGCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
46596918 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAA
46596949 AAGCATTTTA
Statistics
Matches: 144, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 144 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
Found at i:46597532 original size:14 final size:15
Alignment explanation
Indices: 46597497--46597532 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
46597487 TATTTTAAGG
46597497 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
46597512 TTTAGGGATTATGGA
1 TTTAGGGAGTATGGA
46597527 -TTAGGG
1 TTTAGGG
46597533 TTGGGATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:46597572 original size:22 final size:22
Alignment explanation
Indices: 46597524--46597587 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
46597514 TAGGGATTAT
*
46597524 GGATTA-GGGTT-GGGATTTAA
1 GGATTAGGGGTTAGGGGTTTAA
* *
46597544 GGTTTAGGGGTTAGGGGTTTAG
1 GGATTAGGGGTTAGGGGTTTAA
**
46597566 GGATTAGATGTTA-GGGTTTAA
1 GGATTAGGGGTTAGGGGTTTAA
46597587 G
1 G
46597588 AGTTAGAGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
20 5 0.14
21 13 0.37
22 17 0.49
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (22 bp):
GGATTAGGGGTTAGGGGTTTAA
Found at i:46601231 original size:42 final size:42
Alignment explanation
Indices: 46601113--46601257 Score: 157
Period size: 42 Copynumber: 3.4 Consensus size: 42
46601103 ATGATATGTT
* * * *
46601113 TTTAGCGGCGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGAGA-AAGCGTCGCTAAAGGTCATGGTC
* * * *
46601155 TATAGCGGCGTTTGAGATAAAAAGCGTCGCTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTG--AGAAAGCGTCGCTAAAGGTCATGGTC
* * *
46601199 TTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCATGGTA
1 TTTAGCGGCGTTTGTGAGAAAGCGTCGCTAAAGGTCATGGTC
46601241 TTTAGCGGCGTTTGTGA
1 TTTAGCGGCGTTTGTGA
46601258 ATAGGGGACT
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
42 50 0.60
43 15 0.18
44 19 0.23
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGAGAAAGCGTCGCTAAAGGTCATGGTC
Found at i:46602164 original size:50 final size:50
Alignment explanation
Indices: 46602086--46602222 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 50
46602076 AATAATAACA
* * **
46602086 TGCCAAAGCCATGTCCCTGACATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *** *
46602136 TGCCCATGCCATGTCCCAGACATTGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
46602186 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
46602223 TCTCATTCCC
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:46606437 original size:13 final size:13
Alignment explanation
Indices: 46606419--46606452 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
46606409 TAATGTCCAA
46606419 CTCATGAGCTAAT
1 CTCATGAGCTAAT
46606432 CTCATGAGCTAAT
1 CTCATGAGCTAAT
46606445 CTCATGAG
1 CTCATGAG
46606453 GTTGTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (13 bp):
CTCATGAGCTAAT
Found at i:46607061 original size:25 final size:25
Alignment explanation
Indices: 46607022--46607071 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
46607012 GTTCATAATG
*
46607022 ATAACTTAATAAAATTAATCCTAAC
1 ATAACTTAACAAAATTAATCCTAAC
*
46607047 ATAACTTAACCAAATTAATCCTAAC
1 ATAACTTAACAAAATTAATCCTAAC
46607072 CAATCCCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAACTTAACAAAATTAATCCTAAC
Found at i:46608165 original size:11 final size:13
Alignment explanation
Indices: 46608141--46608172 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
46608131 TAGTTTATTA
46608141 ATATTTTAATATG
1 ATATTTTAATATG
46608154 AT-TTTTAA-ATG
1 ATATTTTAATATG
46608165 ATATTTTA
1 ATATTTTA
46608173 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:46610247 original size:15 final size:15
Alignment explanation
Indices: 46610227--46610255 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46610217 AGAACCTTTC
46610227 CCCTTTAAAAAGAAT
1 CCCTTTAAAAAGAAT
46610242 CCCTTTAAAAAGAA
1 CCCTTTAAAAAGAA
46610256 GTAATGTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
CCCTTTAAAAAGAAT
Found at i:46615852 original size:39 final size:39
Alignment explanation
Indices: 46615760--46615858 Score: 112
Period size: 39 Copynumber: 2.6 Consensus size: 39
46615750 AAAATCCTTG
*
46615760 TTATAATTATTGTAATTATAA-TTCAAGATCGAATATTA
1 TTATAATTATTGTAATTATAATTTCAAGATCAAATATTA
* *** *
46615798 TTATAATT-TCTGTAATTGTAATTTTTTGATCAAATTTTA
1 TTATAATTAT-TGTAATTATAATTTCAAGATCAAATATTA
*
46615837 TTATAATTATGGTAATTATAAT
1 TTATAATTATTGTAATTATAAT
46615859 ATTTCGTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 1 0.02
38 18 0.36
39 30 0.60
40 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAATTTCAAGATCAAATATTA
Found at i:46621852 original size:23 final size:23
Alignment explanation
Indices: 46621826--46621947 Score: 154
Period size: 23 Copynumber: 5.3 Consensus size: 23
46621816 ATAAGTGCCA
46621826 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
46621849 CACTGATACGTGGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
46621872 CACTGAAATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46621895 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * * *
46621918 CACTTAAACGTAGACGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46621941 CACTGAT
1 CACTGAT
46621948 CAATAACACT
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 81 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46621896 original size:46 final size:46
Alignment explanation
Indices: 46621826--46621947 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
46621816 ATAAGTGCCA
* *
46621826 CACTGATATGTAGCCGAAGCTACCACTGATACGTGGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* *
46621872 CACTGAAATGTAGCCGAAGTTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* * *
46621918 CACTTAAACGTAGACGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
46621948 CAATAACACT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
Found at i:46622196 original size:18 final size:17
Alignment explanation
Indices: 46622170--46622208 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
46622160 ATTTTCCTTC
46622170 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
46622187 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
46622205 CACA
1 CACA
46622209 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:46629400 original size:30 final size:30
Alignment explanation
Indices: 46629366--46629426 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
46629356 CCTGAGCCTT
* *
46629366 ATACAATAGCAGTGTGTGGGCCATAGCCCA
1 ATACAATAACAGAGTGTGGGCCATAGCCCA
* *
46629396 ATACAGTAACAGAGTGTGGGCCTTAGCCCA
1 ATACAATAACAGAGTGTGGGCCATAGCCCA
46629426 A
1 A
46629427 AACAGTAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (30 bp):
ATACAATAACAGAGTGTGGGCCATAGCCCA
Found at i:46629553 original size:26 final size:26
Alignment explanation
Indices: 46629506--46629605 Score: 128
Period size: 26 Copynumber: 3.8 Consensus size: 26
46629496 AACACACCAA
* *
46629506 TATCACAGCAAAGCTGCCAGTATCAG
1 TATCGCAGCAAAGCTACCAGTATCAG
* * *
46629532 TAACGCAGCAAAGCTACTAGTAACAG
1 TATCGCAGCAAAGCTACCAGTATCAG
* * *
46629558 TATCGCAACAAAGCTGCCAATATCAG
1 TATCGCAGCAAAGCTACCAGTATCAG
46629584 TATCGCAGCAAAGCTACCAGTA
1 TATCGCAGCAAAGCTACCAGTA
46629606 ACATTATTTG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAGTATCAG
Found at i:46629879 original size:54 final size:54
Alignment explanation
Indices: 46629807--46629997 Score: 199
Period size: 54 Copynumber: 3.6 Consensus size: 54
46629797 TATAATGGTC
* *
46629807 ATTTTA-CCTCTCGGGGGTATTTTGGTAATTCTAACCTTCGAGGGTATTTCGATA
1 ATTTTACCCT-TCGAGGGTATTTCGGTAATTCTAACCTTCGAGGGTATTTCGATA
* * * * *
46629861 GTATTACCTTTCGAGGGTATTTCAGAAATTCT-ACCTTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTCTAACC-TTCGAGGGTATTTCGATA
* * * * * * * *
46629915 ATTTTACCCATAGAGGG-CTTTCGGTAATTTTATCCTTTGAAGATATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTCTAACCTTCGAGGGTATTTCGATA
*
46629968 ATTTTACCCTTCGAGGGTATTTTGGTAATT
1 ATTTTACCCTTCGAGGGTATTTCGGTAATT
46629998 TTACCCACGA
Statistics
Matches: 109, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
53 43 0.39
54 64 0.59
55 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (54 bp):
ATTTTACCCTTCGAGGGTATTTCGGTAATTCTAACCTTCGAGGGTATTTCGATA
Found at i:46629998 original size:27 final size:27
Alignment explanation
Indices: 46629807--46630003 Score: 173
Period size: 27 Copynumber: 7.3 Consensus size: 27
46629797 TATAATGGTC
* *
46629807 ATTTTA-CCTCTCGGGGGTATTTTGGTA
1 ATTTTACCCT-TCGAGGGTATTTCGGTA
* * *
46629834 ATTCTAACCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * * * *
46629861 GTATTACCTTTCGAGGGTATTTCAGAA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
46629888 ATTCTACCTTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
46629915 ATTTTACCCATAGAGGG-CTTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * * * *
46629941 ATTTTATCCTTTGAAGATATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
46629968 ATTTTACCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
46629995 ATTTTACCC
1 ATTTTACCC
46630004 ACGAATCGCA
Statistics
Matches: 131, Mismatches: 37, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
26 19 0.15
27 109 0.83
28 3 0.02
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:46631449 original size:22 final size:22
Alignment explanation
Indices: 46631421--46631561 Score: 201
Period size: 22 Copynumber: 6.4 Consensus size: 22
46631411 TGTTGATAGT
*
46631421 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
46631443 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
46631465 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
46631487 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
46631509 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
46631531 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
46631553 ACGTACTAA
1 ACGTACTAA
46631562 CCTGCTACAT
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 107 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:46633923 original size:16 final size:15
Alignment explanation
Indices: 46633896--46633929 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
46633886 ATAACTAGTA
*
46633896 TATAATTATATTTAT
1 TATAATTATATTAAT
46633911 TATAATATATATTAAT
1 TATAAT-TATATTAAT
46633927 TAT
1 TAT
46633930 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:46635233 original size:38 final size:37
Alignment explanation
Indices: 46635183--46635258 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 37
46635173 GGACAGTTTC
46635183 AAAAAAAGATATTCACACTTGTCGCAGAAAATATTTG
1 AAAAAAAGATATTCACACTTGTCGCAGAAAATATTTG
*
46635220 AAAAAAACGATATTCACACTTGTCGTAGAAAATATTTG
1 AAAAAAA-GATATTCACACTTGTCGCAGAAAATATTTG
46635258 A
1 A
46635259 CACCATTACC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 7 0.19
38 30 0.81
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (37 bp):
AAAAAAAGATATTCACACTTGTCGCAGAAAATATTTG
Found at i:46637730 original size:27 final size:27
Alignment explanation
Indices: 46637686--46637782 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 27
46637676 TTATCCTATA
* *
46637686 GGGGTATTTTGGTCATTTTACCTTTCG
1 GGGGTATTTCGATCATTTTACCTTTCG
* *
46637713 GGGGTATTTCGATAATTTTACCCTTT-T
1 GGGGTATTTCGATCATTTTA-CCTTTCG
** * *
46637740 AAGGTATTTC-A-GATTTTACCCTTCG
1 GGGGTATTTCGATCATTTTACCTTTCG
*
46637765 GGGGTAATTCGATCATTT
1 GGGGTATTTCGATCATTT
46637783 AAAAATCCTT
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
24 4 0.08
25 13 0.25
26 2 0.04
27 29 0.55
28 5 0.09
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (27 bp):
GGGGTATTTCGATCATTTTACCTTTCG
Found at i:46639319 original size:25 final size:25
Alignment explanation
Indices: 46639282--46639335 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
46639272 TGAACCTCTG
* *
46639282 ACCTTCTTACCACACCTGTGACGCC
1 ACCTCCTTACCACACCTATGACGCC
* *
46639307 ACCTCCTTGCCACACCTATGTCGCC
1 ACCTCCTTACCACACCTATGACGCC
46639332 ACCT
1 ACCT
46639336 TGCCACTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.46, G:0.11, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTATGACGCC
Found at i:46669390 original size:30 final size:30
Alignment explanation
Indices: 46669333--46669394 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
46669323 GCTTTTTGAA
* *
46669333 AATATTCACAAAAAGAGGCATCTAATTTTT
1 AATATTCACAAAAAGAGGCACCAAATTTTT
*
46669363 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTCACAAAAAGAGGC-ACCAAATTTTT
46669393 AA
1 AA
46669395 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (30 bp):
AATATTCACAAAAAGAGGCACCAAATTTTT
Found at i:46676936 original size:13 final size:13
Alignment explanation
Indices: 46676920--46676948 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46676910 GTTAAAAAGG
46676920 GTATGCAAAATGT
1 GTATGCAAAATGT
46676933 GTATGCAAAATGT
1 GTATGCAAAATGT
46676946 GTA
1 GTA
46676949 AATTTTCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (13 bp):
GTATGCAAAATGT
Found at i:46681067 original size:43 final size:43
Alignment explanation
Indices: 46680946--46681070 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
46680936 CGTTCCACCA
* * *
46680946 AAACCATGTGCAACTT-GAAATAGGATCACACAGTCATGTCGCC
1 AAACCATGTGCCA-TTCGAAATAGGATCACACGGTCGTGTCGCC
* *
46680989 AAACTATGTGCCATACGAAATAGGATCACACGGTCGTGTCGCC
1 AAACCATGTGCCATTCGAAATAGGATCACACGGTCGTGTCGCC
* * *
46681032 AAACCATGTGCCATTCAAAATAGGGTCACATGGTCGTGT
1 AAACCATGTGCCATTCGAAATAGGATCACACGGTCGTGT
46681071 AACAACAGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (43 bp):
AAACCATGTGCCATTCGAAATAGGATCACACGGTCGTGTCGCC
Found at i:46688125 original size:23 final size:23
Alignment explanation
Indices: 46688096--46688143 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
46688086 ACTTTTCATA
46688096 TTCACTCTTCATACTT-AAGTCTC
1 TTCACTCTTCATA-TTCAAGTCTC
46688119 TTCACTCTTCATATTCAAGTCTC
1 TTCACTCTTCATATTCAAGTCTC
46688142 TT
1 TT
46688144 TACATTTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.21, C:0.29, G:0.04, T:0.46
Consensus pattern (23 bp):
TTCACTCTTCATATTCAAGTCTC
Found at i:46689254 original size:21 final size:20
Alignment explanation
Indices: 46689228--46689272 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
46689218 GGGATGATTG
46689228 CTTCAACCCGTACAAAGTTTT
1 CTTCAACCCGTA-AAAGTTTT
** *
46689249 CTTCAACTTGTAAAATTTTT
1 CTTCAACCCGTAAAAGTTTT
46689269 CTTC
1 CTTC
46689273 TTCTCCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (20 bp):
CTTCAACCCGTAAAAGTTTT
Found at i:46695660 original size:19 final size:19
Alignment explanation
Indices: 46695635--46695687 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
46695625 AAAATTTTTC
46695635 ATTTTTTTAAATTTATT-T-
1 ATTTTTTTAAATTT-TTATA
46695653 ATTTTTTTGAAATTTTTATA
1 ATTTTTTT-AAATTTTTATA
*
46695673 ATTTTTTTGAATTTT
1 ATTTTTTTAAATTTT
46695688 AAAGATTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 10 0.32
19 13 0.42
20 8 0.26
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (19 bp):
ATTTTTTTAAATTTTTATA
Found at i:46695670 original size:17 final size:16
Alignment explanation
Indices: 46695626--46695671 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 16
46695616 TTATTCTAGA
46695626 AAATTTTTCATTTTTTT
1 AAATTTTT-ATTTTTTT
46695643 AAATTTATTTATTTTTTT
1 AAA-TT-TTTATTTTTTT
46695661 GAAATTTTTAT
1 -AAATTTTTAT
46695672 AATTTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.31
18 12 0.46
19 6 0.23
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
AAATTTTTATTTTTTT
Found at i:46696637 original size:9 final size:9
Alignment explanation
Indices: 46696623--46696653 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46696613 GTTAAACGAA
46696623 TCGAGTTAT
1 TCGAGTTAT
*
46696632 TCGAGTTAA
1 TCGAGTTAT
46696641 TCGAGTTAT
1 TCGAGTTAT
46696650 TCGA
1 TCGA
46696654 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:46696733 original size:9 final size:9
Alignment explanation
Indices: 46696706--46696742 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
46696696 TTGAGTTTCG
46696706 AATTCGAAT
1 AATTCGAAT
* *
46696715 AACTCAAAT
1 AATTCGAAT
46696724 AATTCGAAT
1 AATTCGAAT
46696733 AATTCGAAT
1 AATTCGAAT
46696742 A
1 A
46696743 TCACACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:46697094 original size:19 final size:19
Alignment explanation
Indices: 46697062--46697098 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
46697052 TTTTAAATAT
46697062 TTTCCCTCCAAACTATTTAC
1 TTTCCCTCCAAACT-TTTAC
46697082 TTTCCCT-CAAACTTTTA
1 TTTCCCTCCAAACTTTTA
46697099 TTCTCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTCCCTCCAAACTTTTAC
Found at i:46699484 original size:11 final size:11
Alignment explanation
Indices: 46699468--46699492 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46699458 AGAGAAATTT
46699468 AAATAAAAATA
1 AAATAAAAATA
46699479 AAATAAAAATA
1 AAATAAAAATA
46699490 AAA
1 AAA
46699493 AGAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:46702170 original size:15 final size:15
Alignment explanation
Indices: 46702150--46702178 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46702140 CATGTAGAAA
46702150 TTAAATTAAACTAAG
1 TTAAATTAAACTAAG
46702165 TTAAATTAAACTAA
1 TTAAATTAAACTAA
46702179 TGGAATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (15 bp):
TTAAATTAAACTAAG
Found at i:46703406 original size:42 final size:41
Alignment explanation
Indices: 46703360--46703440 Score: 126
Period size: 42 Copynumber: 2.0 Consensus size: 41
46703350 ATTGTAAATC
* *
46703360 CAACAACCCATGTTTATCTTCTCCTCTTTTTAAATTCTTTAT
1 CAACAACCCAAGATTATCTTCTCCT-TTTTTAAATTCTTTAT
*
46703402 CAACAACTCAAGATTATCTTCTCCTTTTTTAAATTCTTT
1 CAACAACCCAAGATTATCTTCTCCTTTTTTAAATTCTTT
46703441 TTTTCTAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 14 0.39
42 22 0.61
ACGTcount: A:0.26, C:0.25, G:0.02, T:0.47
Consensus pattern (41 bp):
CAACAACCCAAGATTATCTTCTCCTTTTTTAAATTCTTTAT
Found at i:46714280 original size:148 final size:146
Alignment explanation
Indices: 46714057--46714356 Score: 449
Period size: 148 Copynumber: 2.0 Consensus size: 146
46714047 AAAACTTTTG
* *
46714057 TTTTTTTTTAAAAGGAGAGTTTTGATTTTTAAAATAAAAATCTATTTTTTAGTCATTTTAAAGGA
1 TTTTTTTTTAAAAGGAGAGTTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATTTTAAAGGA
* * *
46714122 AAGATTAAAATTTTAAAATAAAGTTTTGAGTTTTTTCAACTATTTCGAAATAAAATTTTTGATCT
66 AAGATTAAAATTTTAAAATAAAGTTTTAAGTTTTTTCAACTATGTCGAAATAAAAGTTTTGATCT
46714187 TTATGAAAAGTAGTGA
131 TTATGAAAAGTAGTGA
** * *
46714203 TTTTTTTTTAAAA-GAGAAGTTTAGATTTTTTAAAAATGTAAATATGTTTTTTAGTCATTTTGAA
1 TTTTTTTTTAAAAGGAG-AGTTTAGA-TTTTT-AAAATAAAAATATATTTTTTAGTCATTTTAAA
* * * *
46714267 TGAAAGTTTAAAATTTTTAAATAAAGTTTTAATTTTTTTCAACTATGTCGAAATAAAAGTTTTGA
63 GGAAAGATTAAAATTTTAAAATAAAGTTTTAAGTTTTTTCAACTATGTCGAAATAAAAGTTTTGA
46714332 TCTTTATGAAAAGTAGTGA
128 TCTTTATGAAAAGTAGTGA
46714351 TTTTTT
1 TTTTTT
46714357 AAAAGAAGAA
Statistics
Matches: 138, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
145 3 0.02
146 20 0.14
147 5 0.04
148 110 0.80
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (146 bp):
TTTTTTTTTAAAAGGAGAGTTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATTTTAAAGGA
AAGATTAAAATTTTAAAATAAAGTTTTAAGTTTTTTCAACTATGTCGAAATAAAAGTTTTGATCT
TTATGAAAAGTAGTGA
Found at i:46715697 original size:27 final size:27
Alignment explanation
Indices: 46715649--46715930 Score: 134
Period size: 27 Copynumber: 10.5 Consensus size: 27
46715639 TCGATATCTG
*
46715649 GACCGAAATACCCCCAAAGGGTAAAAT
1 GACCGAAATACCCCCAATGGGTAAAAT
* * *
46715676 GACCGAAATATCCTCGATGGGTAAAAT
1 GACCGAAATACCCCCAATGGGTAAAAT
* * * *
46715703 GACCAAAATACCCTCGATGCGTAAAAT
1 GACCGAAATACCCCCAATGGGTAAAAT
* * * *
46715730 AACTGAAA-AGCCCCAATAGGATAAAAT
1 GACCGAAATACCCCCAAT-GGGTAAAAT
* *
46715757 GACCGAAATACCCCC-GTAGGGTAGAAT
1 GACCGAAATACCCCCAAT-GGGTAAAAT
* *
46715784 -ACCGAAACAGCCCC-ATAGGGTAAAAT
1 GACCGAAATACCCCCAAT-GGGTAAAAT
* * * ** *
46715810 CATCGTAATA-CCCCTGTAGGGCAAAAT
1 GACCGAAATACCCCCAAT-GGGTAAAAT
* **
46715837 GACCGTAATA-CCCCTGTAGGGTAAAAT
1 GACCGAAATACCCCCAAT-GGGTAAAAT
* *
46715864 GACC-ATAAT-GCCCCTATAGGGTAAAAT
1 GACCGA-AATACCCCCAAT-GGGTAAAAT
** *
46715891 GACCTTAATA-TCCC-ATAGGGTAAAAT
1 GACCGAAATACCCCCAAT-GGGTAAAAT
* *
46715917 GACTGTAATACCCC
1 GACCGAAATACCCC
46715931 TGTAGGGTAA
Statistics
Matches: 206, Mismatches: 40, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
26 52 0.25
27 149 0.72
28 5 0.02
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (27 bp):
GACCGAAATACCCCCAATGGGTAAAAT
Found at i:46715820 original size:53 final size:53
Alignment explanation
Indices: 46715666--46716134 Score: 360
Period size: 54 Copynumber: 8.7 Consensus size: 53
46715656 ATACCCCCAA
* * * **
46715666 AGGGTAAAATGACCGAAATATCCTCGAT-GGGTAAAATGACCAAAATA-CCCTCG-
1 AGGGTAAAATGACCGTAA-AGCC-CCATAGGGTAAAATGACCGTAATACCCCT-GT
* * * * * * *
46715719 ATGCGTAAAATAACTGAAAAGCCCCAATAGGATAAAATGACCGAAATACCCCCGT
1 A-GGGTAAAATGACCGTAAAGCCCC-ATAGGGTAAAATGACCGTAATACCCCTGT
* * * *
46715774 AGGGTAGAAT-ACCGAAACAGCCCCATAGGGTAAAATCATCGTAATACCCCTGT
1 AGGGTAAAATGACCGTAA-AGCCCCATAGGGTAAAATGACCGTAATACCCCTGT
* * * * *
46715827 AGGGCAAAATGACCGTAATA-CCCCTGTAGGGTAAAATGACCATAATGCCCCTAT
1 AGGGTAAAATGACCGTAA-AGCCCC-ATAGGGTAAAATGACCGTAATACCCCTGT
* * *
46715881 AGGGTAAAATGACCTTAATA-TCCCATAGGGTAAAATGACTGTAATACCCCTGT
1 AGGGTAAAATGACCGTAA-AGCCCCATAGGGTAAAATGACCGTAATACCCCTGT
* * * * *
46715934 AGGGTAAAATAACTGTAATGCCCTATAGGGTAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAAAGCCCCATAGGGTAAAATGACCGTAATACCCCTGT
* * * ** * * * *
46715987 AGGATAAAATAACCGTAATGCCCTTGTAGGGTAAAATAACCATAATGCCCTTGT
1 AGGGTAAAATGACCGTAAAGCCC-CATAGGGTAAAATGACCGTAATACCCCTGT
* * * * *
46716041 AGGGTAAAATGATCGTACCA-CCCCTGTAGGGTAAAATGACCGTAATGCCCTTGT
1 AGGGTAAAATGACCGTA-AAGCCCC-ATAGGGTAAAATGACCGTAATACCCCTGT
*
46716095 AGGGTAAAATGATCGTAATA-CCCCTATAGGGTAAAATGAC
1 AGGGTAAAATGACCGTAA-AGCCCC-ATAGGGTAAAATGAC
46716135 ATTAATGCCC
Statistics
Matches: 343, Mismatches: 60, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.00
53 137 0.40
54 201 0.59
55 4 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (53 bp):
AGGGTAAAATGACCGTAAAGCCCCATAGGGTAAAATGACCGTAATACCCCTGT
Found at i:46715856 original size:80 final size:80
Alignment explanation
Indices: 46715649--46716134 Score: 412
Period size: 80 Copynumber: 6.0 Consensus size: 80
46715639 TCGATATCTG
* * * * * * *
46715649 GACCGAAATACCCCCAAAGGGTAAAATGACCGAAATA-TCCTCG-ATGGGTAAAATGACCAAAAT
1 GACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCT-GTA-GGGTAAAATAACCGAAAT
* *
46715712 ACCCTCGAT-GCGTAAAAT
64 GCCC-C-ATAGGGTAAAAT
* * * * * * * * *
46715730 AACTG-AAAAGCCCCAATAGGATAAAATGACCGAAATACCCCCGTAGGGTAGAAT-ACCGAAACA
1 GACCGTAATA-CCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGAAA-T
46715793 GCCCCATAGGGTAAAAT
64 GCCCCATAGGGTAAAAT
* * * * *
46715810 CATCGTAATACCCCTGTAGGGCAAAATGACCGTAATACCCCTGTAGGGTAAAATGACC-ATAATG
1 GACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGA-AATG
46715874 CCCCTATAGGGTAAAAT
65 CCCC-ATAGGGTAAAAT
* * * * *
46715891 GACCTTAATATCCC-ATAGGGTAAAATGACTGTAATACCCCTGTAGGGTAAAATAACTGTAATGC
1 GACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGAAATGC
*
46715955 CCTATAGGGTAAAAT
66 CCCATAGGGTAAAAT
* * * *
46715970 GACCGTAATACCCCTATAGGATAAAATAACCGTAATGCCCTTGTAGGGTAAAATAACC-ATAATG
1 GACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGA-AATG
**
46716034 CCCTTGTAGGGTAAAAT
65 CCC-CATAGGGTAAAAT
* ** * * * * * * *
46716051 GATCGTACCACCCCTGTAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGATCGTAATAC
1 GACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGAAATGC
46716116 CCCTATAGGGTAAAAT
66 CCC-ATAGGGTAAAAT
46716132 GAC
1 GAC
46716135 ATTAATGCCC
Statistics
Matches: 331, Mismatches: 59, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
79 26 0.08
80 152 0.46
81 150 0.45
82 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (80 bp):
GACCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGAAATGC
CCCATAGGGTAAAAT
Found at i:46716140 original size:27 final size:27
Alignment explanation
Indices: 46715746--46716134 Score: 408
Period size: 27 Copynumber: 14.5 Consensus size: 27
46715736 AAAGCCCCAA
* * *
46715746 TAGGATAAAATGACCGAAATACCCCCG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * * *
46715773 TAGGGTAGAAT-ACCGAAACAGCCCC-A
1 TAGGGTAAAATGACCGTAATA-CCCCTG
* *
46715799 TAGGGTAAAATCATCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
*
46715826 TAGGGCAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * *
46715853 TAGGGTAAAATGACCATAATGCCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTG
* * *
46715880 TAGGGTAAAATGACCTTAATATCCC-A
1 TAGGGTAAAATGACCGTAATACCCCTG
*
46715906 TAGGGTAAAATGACTGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * * *
46715933 TAGGGTAAAATAACTGTAAT-GCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTG
*
46715959 TAGGGTAAAATGACCGTAATACCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTG
* * * *
46715986 TAGGATAAAATAACCGTAATGCCCTTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * * *
46716013 TAGGGTAAAATAACCATAATGCCCTTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* **
46716040 TAGGGTAAAATGATCGTACCACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* *
46716067 TAGGGTAAAATGACCGTAATGCCCTTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* *
46716094 TAGGGTAAAATGATCGTAATACCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTG
46716121 TAGGGTAAAATGAC
1 TAGGGTAAAATGAC
46716135 ATTAATGCCC
Statistics
Matches: 304, Mismatches: 53, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
26 67 0.22
27 237 0.78
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCCTG
Found at i:46716237 original size:24 final size:24
Alignment explanation
Indices: 46716204--46716262 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
46716194 TCTGTGGTTA
* *
46716204 AATGACTGATTTGTCTGTG-TTTGG
1 AATGACTGATTTATCTATGATTT-G
*
46716228 TATGACTGATTTATCTATGATTTG
1 AATGACTGATTTATCTATGATTTG
46716252 AATGACTGATT
1 AATGACTGATT
46716263 CTGAGCATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.46
Consensus pattern (24 bp):
AATGACTGATTTATCTATGATTTG
Found at i:46716478 original size:32 final size:32
Alignment explanation
Indices: 46716434--46716670 Score: 221
Period size: 32 Copynumber: 7.4 Consensus size: 32
46716424 GCTGAGATGC
46716434 TACTGATGGCTTTGTGCCGATCATAGTACTGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* *
46716466 TACTGATAGCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* * *
46716498 TATTGATGGCTTTGTACCGATCATATTTCACTGT
1 TACTGATGGCTTTGTGCCGATCATA-GT-ACTGT
* * *
46716532 TACTGATGGCTGTGTGTCGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACTGT
** *
46716564 TACTGATGGCTTTGTGCTAATCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCGATCATAG-TACTGT
* * *
46716596 TACTGATGGCTGTGTGCTGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACTGT
* * * * *
46716628 TACTAATGGATTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
*
46716659 TACTTATGGCTT
1 TACTGATGGCTT
46716671 GTAGCCATTC
Statistics
Matches: 168, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
31 11 0.07
32 129 0.77
33 3 0.02
34 25 0.15
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACTGT
Found at i:46716518 original size:64 final size:64
Alignment explanation
Indices: 46716432--46716669 Score: 248
Period size: 64 Copynumber: 3.7 Consensus size: 64
46716422 TTGCTGAGAT
* *
46716432 GCTACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATAGCTTTGTGCCGATCATAGT-ACC
1 GCTACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATGGCTGTGTGCCGATCATA-TCACC
* * * * *
46716496 GTTATTGATGGCTTTGTACCGATCATATTTCACTGTTACTGATGGCTGTGTGTCGATCATATCAC
1 GCTACTGATGGCTTTGTGCCGATCATA-GT-ACTGTTACTGATGGCTGTGTGCCGATCATATCAC
*
46716561 T
64 C
** * * *
46716562 GCTACTGATGGCTTTGTGCTAATCAT-GTTACCGTTACTGATGGCTGTGTGCTGATCATATCACT
1 GCTACTGATGGCTTTGTGCCGATCATAG-TACTGTTACTGATGGCTGTGTGCCGATCATATCACC
* * * * * *
46716626 GCTACTAATGGATTTGTGCCAATCACATTACTG-TACTTATGGCT
1 GCTACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATGGCT
46716670 TGTAGCCATT
Statistics
Matches: 145, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
63 10 0.07
64 82 0.57
65 3 0.02
66 50 0.34
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (64 bp):
GCTACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATGGCTGTGTGCCGATCATATCACC
Found at i:46716603 original size:98 final size:98
Alignment explanation
Indices: 46716434--46716621 Score: 254
Period size: 98 Copynumber: 1.9 Consensus size: 98
46716424 GCTGAGATGC
* * *
46716434 TACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATAGCTTTGTGCCGATCATAGTACCGTT
1 TACTGATGGCTGTGTGCCGATCATAGTACTGCTACTGATAGCTTTGTGCCAATCATAGTACCGTT
* *
46716499 ATTGATGGCTTTGTACCGATCATATTTCACTGT
66 ACTGATGGCTGTGTACCGATCATATTTCACTGT
* * *
46716532 TACTGATGGCTGTGTGTCGATCATA-TCACTGCTACTGATGGCTTTGTGCTAATCAT-GTTACCG
1 TACTGATGGCTGTGTGCCGATCATAGT-ACTGCTACTGATAGCTTTGTGCCAATCATAG-TACCG
* *
46716595 TTACTGATGGCTGTGTGCTGATCATAT
64 TTACTGATGGCTGTGTACCGATCATAT
46716622 CACTGCTACT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
97 2 0.03
98 76 0.97
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (98 bp):
TACTGATGGCTGTGTGCCGATCATAGTACTGCTACTGATAGCTTTGTGCCAATCATAGTACCGTT
ACTGATGGCTGTGTACCGATCATATTTCACTGT
Found at i:46717343 original size:10 final size:10
Alignment explanation
Indices: 46717328--46717352 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46717318 ATAGATAAGT
46717328 AAAATCTACC
1 AAAATCTACC
46717338 AAAATCTACC
1 AAAATCTACC
46717348 AAAAT
1 AAAAT
46717353 GTGGGATGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATCTACC
Found at i:46722803 original size:93 final size:93
Alignment explanation
Indices: 46722644--46722851 Score: 389
Period size: 93 Copynumber: 2.2 Consensus size: 93
46722634 TTGATGTTGT
* *
46722644 GTTTTAGATTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCCTTATATGGTTGAAAATA
1 GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCCTTATATAGTTGAAAATA
46722709 TCAGGCGAGCATGAAAATGAGTTTTAGA
66 TCAGGCGAGCATGAAAATGAGTTTTAGA
*
46722737 GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCTTTATATAGTTGAAAATA
1 GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCCTTATATAGTTGAAAATA
46722802 TCAGGCGAGCATGAAAATGAGTTTTAGA
66 TCAGGCGAGCATGAAAATGAGTTTTAGA
46722830 GTTTTAGAGTTTGAAGGTAATT
1 GTTTTAGAGTTTGAAGGTAATT
46722852 TGCATACAAT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 112 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (93 bp):
GTTTTAGAGTTTGAAGGTAATTGGGAGAGATTTCTACCATACAAAGCCTTATATAGTTGAAAATA
TCAGGCGAGCATGAAAATGAGTTTTAGA
Found at i:46730624 original size:19 final size:15
Alignment explanation
Indices: 46730582--46730614 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
46730572 CTATTCTTTT
46730582 CAGGTTGAAAATTAA
1 CAGGTTGAAAATTAA
46730597 CAGGTTGAAAATTAA
1 CAGGTTGAAAATTAA
46730612 CAG
1 CAG
46730615 CTTGGTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.24
Consensus pattern (15 bp):
CAGGTTGAAAATTAA
Found at i:46738833 original size:27 final size:27
Alignment explanation
Indices: 46738795--46739173 Score: 360
Period size: 27 Copynumber: 14.1 Consensus size: 27
46738785 TCGATATTTG
46738795 GACCGAAATACCCCCGAAGGGTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
*
46738822 GACCGAAATACCCCCGATGGGTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* * *
46738849 GACCAAAATACTCTCGAAGGGTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
*
46738876 GACCGAAATA-CCCCTAATGGGTAAAAT
1 GACCGAAATACCCCCGAA-GGGTAAAAT
* * * *
46738903 GACCGACATACCCTCGATGGATAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* * *
46738930 GATCGAAATACCCTCGATGGGTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* * *
46738957 GACCGAAATACCCTCGATGGCTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* ** *
46738984 AATTGAAATACCCCCGAAGAGTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* * *
46739011 GATCGAAATACCCTCGATGGGTAAAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* *
46739038 GACCGAAATACCCTCGAAGGGT-TAAT
1 GACCGAAATACCCCCGAAGGGTAAAAT
* *
46739064 GA-CGAAAATACCCTCGATAAGGTAAAAT
1 GACCG-AAATACCCCCGA-AGGGTAAAAT
*
46739092 GACCGAAATACCCCC-ATAGGGTAGAAT
1 GACCGAAATACCCCCGA-AGGGTAAAAT
*
46739119 -ACTGAAAT-CCCCTC-ATAGGGTAAAAT
1 GACCGAAATACCCC-CGA-AGGGTAAAAT
* * *
46739145 AACC-ATAATACCCCTGTAGGGTAAAAT
1 GACCGA-AATACCCCCGAAGGGTAAAAT
46739172 GA
1 GA
46739174 TCGTAATGCC
Statistics
Matches: 296, Mismatches: 45, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
25 6 0.02
26 41 0.14
27 225 0.76
28 22 0.07
29 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (27 bp):
GACCGAAATACCCCCGAAGGGTAAAAT
Found at i:46738882 original size:54 final size:54
Alignment explanation
Indices: 46738795--46739173 Score: 403
Period size: 54 Copynumber: 7.0 Consensus size: 54
46738785 TCGATATTTG
*
46738795 GACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
1 GACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
* * **
46738849 GACCAAAATACTCTCGAAGGGTAAAATGACCGAAATACCCCTAATGGGTAAAAT
1 GACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
* * * * *
46738903 GACCGACATACCCTCGATGGATAAAATGATCGAAATACCCTCGATGGGTAAAAT
1 GACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
* * * ** * *
46738957 GACCGAAATACCCTCGATGGCTAAAATAATTGAAATACCCCCGAAGAGTAAAAT
1 GACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
* * * * *
46739011 GATCGAAATACCCTCGATGGGTAAAATGACCGAAATACCCTCGAAGGGT-TAAT
1 GACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
* *
46739064 GA-CGAAAATACCCTCGATAAGGTAAAATGACCGAAATACCCCC-ATAGGGTAGAAT
1 GACCG-AAATACCCTCGA-AGGGTAAAATGACCGAAATACCCCCGAT-GGGTAAAAT
* * * *
46739119 -ACTGAAATCCCCTC-ATAGGGTAAAATAACC-ATAATACCCCTG-TAGGGTAAAAT
1 GACCGAAATACCCTCGA-AGGGTAAAATGACCGA-AATACCCCCGAT-GGGTAAAAT
46739172 GA
1 GA
46739174 TCGTAATGCC
Statistics
Matches: 277, Mismatches: 40, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
52 3 0.01
53 50 0.18
54 220 0.79
55 4 0.01
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (54 bp):
GACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGATGGGTAAAAT
Found at i:46739436 original size:27 final size:26
Alignment explanation
Indices: 46739406--46739471 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
46739396 ATTACCAGTG
*
46739406 GCTTGGCTACATATACTATTACTGGCA
1 GCTTGGCTAC-GATACTATTACTGGCA
* *
46739433 GCTTTGCTACGATACTATTGCTGGCA
1 GCTTGGCTACGATACTATTACTGGCA
* *
46739459 GCTTTGCTGCGAT
1 GCTTGGCTACGAT
46739472 GCTACTGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
26 26 0.74
27 9 0.26
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
GCTTGGCTACGATACTATTACTGGCA
Found at i:46739456 original size:26 final size:26
Alignment explanation
Indices: 46739418--46739471 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
46739408 TTGGCTACAT
46739418 ATACTATTACTGGCAGCTTTGCTACG
1 ATACTATTACTGGCAGCTTTGCTACG
* *
46739444 ATACTATTGCTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTACG
46739470 AT
1 AT
46739472 GCTACTGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTACG
Found at i:46739483 original size:26 final size:26
Alignment explanation
Indices: 46739428--46739483 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
46739418 ATACTATTAC
* *
46739428 TGGCAGCTTTGCTACGATACTATTGC
1 TGGCAGCTTTGCTACGATACTACTGA
* *
46739454 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAGCTTTGCTACGATACTACTGA
46739480 TGGC
1 TGGC
46739484 TTTGTACCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.16, C:0.23, G:0.29, T:0.32
Consensus pattern (26 bp):
TGGCAGCTTTGCTACGATACTACTGA
Found at i:46739520 original size:32 final size:32
Alignment explanation
Indices: 46739474--46739742 Score: 233
Period size: 32 Copynumber: 8.4 Consensus size: 32
46739464 GCTGCGATGC
46739474 TACTGATGGCTTTGTACCGATCATAGTACTGT
1 TACTGATGGCTTTGTACCGATCATAGTACTGT
* * *
46739506 TATTGATGGTTTTGTACCGATCATAGTACAGT
1 TACTGATGGCTTTGTACCGATCATAGTACTGT
* * *
46739538 TACTAATGGCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTTTGTACCGATCATAGTACTGT
* * * *
46739570 TACTGATGGTTTTGTGCCGATCATATTTCACTAT
1 TACTGATGGCTTTGTACCGATCATA-GT-ACTGT
* ** **
46739604 TACTGATGGCTGTGTGTCGATCATA-TCACTAC
1 TACTGATGGCTTTGTACCGATCATAGT-ACTGT
*
46739636 TACTGATGGCTTTGTACCGATCAT-GTTACCGT
1 TACTGATGGCTTTGTACCGATCATAG-TACTGT
* * *
46739668 TACTGATGG-TTGTGTCCCAATCATA-TCACTGC
1 TACTGATGGCTT-TGTACCGATCATAGT-ACTGT
* * * *
46739700 TACTGATGGCTTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTACCGATCATAGTACTGT
*
46739731 TACTTATGGCTT
1 TACTGATGGCTT
46739743 GTAGCCATTC
Statistics
Matches: 198, Mismatches: 30, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
31 14 0.07
32 154 0.78
33 5 0.03
34 25 0.13
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTACCGATCATAGTACTGT
Found at i:46739649 original size:98 final size:96
Alignment explanation
Indices: 46739538--46739715 Score: 250
Period size: 98 Copynumber: 1.8 Consensus size: 96
46739528 ATAGTACAGT
* * * *
46739538 TACTAATGGCTTTGTGCCGATCATAG-TACCGTTACTGATGGTTTTGTGCCGATCATATTTCACT
1 TACTAATGGCTTTGTACCGATCAT-GTTACCGTTACTGATGGTTGTGTCCCAATCATA--TCACT
*
46739602 ATTACTGATGGCTGTGTGTCGATCATATCACTAC
63 ACTACTGATGGCTGTGTGTCGATCATATCACTAC
* *
46739636 TACTGATGGCTTTGTACCGATCATGTTACCGTTACTGATGGTTGTGTCCCAATCATATCACTGCT
1 TACTAATGGCTTTGTACCGATCATGTTACCGTTACTGATGGTTGTGTCCCAATCATATCACTACT
*
46739701 ACTGATGGCTTTGTG
66 ACTGATGGCTGTGTG
46739716 CCAATCACAT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
96 20 0.28
97 1 0.01
98 50 0.70
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (96 bp):
TACTAATGGCTTTGTACCGATCATGTTACCGTTACTGATGGTTGTGTCCCAATCATATCACTACT
ACTGATGGCTGTGTGTCGATCATATCACTAC
Found at i:46739707 original size:130 final size:130
Alignment explanation
Indices: 46739474--46739722 Score: 299
Period size: 130 Copynumber: 1.9 Consensus size: 130
46739464 GCTGCGATGC
* ** * *
46739474 TACTGATGGCTTTGTACCGATCATAGTACTGTTATTGATGGTTTTGTACCGATCATAGTACAGTT
1 TACTGATGGCTGTGTACCGATCATAGTACTACTACTGATGGCTTTGTACCGATCATAGTACAGTT
* * * * *
46739539 ACTAATGGCTTTGTGCCGATCATAGTACCGTTACTGATGGTTTTGTGCCGATCATATTTCACTAT
66 ACTAATGGCTTTGTCCCAATCATAGTACCGCTACTGATGGCTTTGTGCCAATCATATTTCACTAT
** *
46739604 TACTGATGGCTGTGTGTCGATCATA-TCACTACTACTGATGGCTTTGTACCGATCAT-GTTACCG
1 TACTGATGGCTGTGTACCGATCATAGT-ACTACTACTGATGGCTTTGTACCGATCATAG-TACAG
* *
46739667 TTACTGATGG-TTGTGTCCCAATCATA-TCACTGCTACTGATGGCTTTGTGCCAATCA
64 TTACTAATGGCTT-TGTCCCAATCATAGT-ACCGCTACTGATGGCTTTGTGCCAATCA
46739723 CATTACTGTA
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
129 5 0.05
130 95 0.95
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (130 bp):
TACTGATGGCTGTGTACCGATCATAGTACTACTACTGATGGCTTTGTACCGATCATAGTACAGTT
ACTAATGGCTTTGTCCCAATCATAGTACCGCTACTGATGGCTTTGTGCCAATCATATTTCACTAT
Found at i:46739759 original size:22 final size:21
Alignment explanation
Indices: 46739734--46739798 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
46739724 ATTACTGTAC
46739734 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
** * *
46739756 TTATACCTTATAGCTATCCTGT
1 TTATGGCTT-TAGCCATTCTGT
*
46739778 TTACGGCTCTTAGCCATTCTG
1 TTATGGCT-TTAGCCATTCTG
46739799 ACTACTGGCA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:46739993 original size:28 final size:28
Alignment explanation
Indices: 46739960--46740013 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
46739950 CATACTGATA
* *
46739960 CTGTATCGGGCTTAGGCTCACACTGTTT
1 CTGTATCGGGCTAAGGCCCACACTGTTT
*
46739988 CTGTATTGGGCTAAGGCCCACACTGT
1 CTGTATCGGGCTAAGGCCCACACTGT
46740014 ACTATTACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.31
Consensus pattern (28 bp):
CTGTATCGGGCTAAGGCCCACACTGTTT
Found at i:46744938 original size:40 final size:39
Alignment explanation
Indices: 46744892--46745162 Score: 222
Period size: 40 Copynumber: 6.8 Consensus size: 39
46744882 AGGGGGATCG
*
46744892 AAGTACAAATAGGGGCATGTATGTGCAATCAAGGGTACC
1 AAGTACAAATAGGGGCACGTATGTGCAATCAAGGGTACC
* * * * *
46744931 GACGTACAAACAGGGGCACATATGTGCAAT-TAGGCATACC
1 -AAGTACAAATAGGGGCACGTATGTGCAATCAAGG-GTACC
* * *
46744971 ATAGTACAAATAAGGGTACGTATGTGCAATCAAGGGTATC
1 A-AGTACAAATAGGGGCACGTATGTGCAATCAAGGGTACC
* **
46745011 AACGTACAAACAGGGGCACGTATGTGCAATCAAGCATACC
1 AA-GTACAAATAGGGGCACGTATGTGCAATCAAGGGTACC
* * * * ** ** * *
46745051 ATAGTATAAATAAGGGTATGCCTGCACAA-CCAGAGGTACTG
1 A-AGTACAAATAGGGGCACGTATGTGCAATCAAG-GGTAC-C
* * *
46745092 AAGTACAAACAAGGGCACATATGTGCAATCAAGGGTACC
1 AAGTACAAATAGGGGCACGTATGTGCAATCAAGGGTACC
*
46745131 AAAGTAAAAATAGGGGCACGTATGTGCAATCA
1 -AAGTACAAATAGGGGCACGTATGTGCAATCA
46745163 TCAATAATTA
Statistics
Matches: 174, Mismatches: 48, Indels: 18
0.73 0.20 0.08
Matches are distributed among these distances:
39 8 0.05
40 158 0.91
41 8 0.05
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (39 bp):
AAGTACAAATAGGGGCACGTATGTGCAATCAAGGGTACC
Found at i:46744994 original size:80 final size:80
Alignment explanation
Indices: 46744893--46745162 Score: 294
Period size: 80 Copynumber: 3.4 Consensus size: 80
46744883 GGGGGATCGA
* *
46744893 AGTACAAATAGGGGCATGTATGTGCAATCAAGGGTACCGACGTACAAACAGGGGCACATATGTGC
1 AGTACAAATAAGGGCACGTATGTGCAATCAAGGGTACCGACGTACAAACAGGGGCACATATGTGC
*
46744958 AATTAGGCATACCAT
66 AATAAGGCATACCAT
* * * *
46744973 AGTACAAATAAGGGTACGTATGTGCAATCAAGGGTATCAACGTACAAACAGGGGCACGTATGTGC
1 AGTACAAATAAGGGCACGTATGTGCAATCAAGGGTACCGACGTACAAACAGGGGCACATATGTGC
46745038 AATCAA-GCATACCAT
66 AAT-AAGGCATACCAT
* * * ** ** * * * *
46745053 AGTATAAATAAGGGTATGCCTGCACAA-CCAGAGGTACTGAAGTACAAACAAGGGCACATATGTG
1 AGTACAAATAAGGGCACGTATGTGCAATCAAG-GGTACCGACGTACAAACAGGGGCACATATGTG
* *
46745117 CAATCAAGG-GTACCAA
65 CAAT-AAGGCATACCAT
* *
46745133 AGTAAAAATAGGGGCACGTATGTGCAATCA
1 AGTACAAATAAGGGCACGTATGTGCAATCA
46745163 TCAATAATTA
Statistics
Matches: 155, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
79 3 0.02
80 149 0.96
81 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (80 bp):
AGTACAAATAAGGGCACGTATGTGCAATCAAGGGTACCGACGTACAAACAGGGGCACATATGTGC
AATAAGGCATACCAT
Found at i:46745007 original size:20 final size:20
Alignment explanation
Indices: 46744982--46745044 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
46744972 TAGTACAAAT
46744982 AAGGGTACGTATGTGCAATC
1 AAGGGTACGTATGTGCAATC
* * * *
46745002 AAGGGTATC-AACGTACAAAC
1 AAGGGTA-CGTATGTGCAATC
* *
46745022 AGGGGCACGTATGTGCAATC
1 AAGGGTACGTATGTGCAATC
46745042 AAG
1 AAG
46745045 CATACCATAG
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (20 bp):
AAGGGTACGTATGTGCAATC
Found at i:46753231 original size:40 final size:40
Alignment explanation
Indices: 46753091--46753231 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
46753081 AGGGTTACAG
* ** ** * **
46753091 AGTATAAACAAGGGCACGTAACTGCATTCAAAGGTACTGA
1 AGTACAAACAAGGGCACGTATGTGCAACCAAGGGTACCAA
* * *
46753131 AGTACAAAC-AGGAGCATGTATGTGCAATCAAGGGTACCGA
1 AGTACAAACAAGG-GCACGTATGTGCAACCAAGGGTACCAA
* * *
46753171 AGTACAAATAGGGGCACGTATGTGCAACCAGGGGTACCAA
1 AGTACAAACAAGGGCACGTATGTGCAACCAAGGGTACCAA
*
46753211 AGTACAAACAAGGGAACGTAT
1 AGTACAAACAAGGGCACGTAT
46753232 ATACAGTCAT
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 78 0.94
41 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.17
Consensus pattern (40 bp):
AGTACAAACAAGGGCACGTATGTGCAACCAAGGGTACCAA
Found at i:46755839 original size:28 final size:28
Alignment explanation
Indices: 46755791--46755880 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
46755781 CATTGTACTA
* *
46755791 TTACTGTTTTGGGCTAGGGCCCACACTG
1 TTACTGTATTGGGCTAAGGCCCACACTG
46755819 TTTA-TGTATTGGGCTAAGGCCCACACTG
1 -TTACTGTATTGGGCTAAGGCCCACACTG
* *
46755847 TTACTGTATCGGGCTAAGGCCCACATTG
1 TTACTGTATTGGGCTAAGGCCCACACTG
46755875 -TACTGT
1 TTACTGT
46755881 TACTGAATAG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 9 0.16
28 44 0.79
29 3 0.05
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTG
Found at i:46755880 original size:33 final size:32
Alignment explanation
Indices: 46755780--46755902 Score: 100
Period size: 28 Copynumber: 4.0 Consensus size: 32
46755770 TTGCATTACG
* * *
46755780 ACATTGTACTATTACTGTTTTGGGCTAGGGCCC
1 ACATTG-ACTGTTACTGTATTGGGCTAAGGCCC
*
46755813 ACACTG--T-TTA-TGTATTGGGCTAAGGCCC
1 ACATTGACTGTTACTGTATTGGGCTAAGGCCC
*
46755841 AC----ACTGTTACTGTATCGGGCTAAGGCCC
1 ACATTGACTGTTACTGTATTGGGCTAAGGCCC
* * *
46755869 ACATTGTACTGTTACTGAATAGGGCTCAGGCCC
1 ACATTG-ACTGTTACTGTATTGGGCTAAGGCCC
46755902 A
1 A
46755903 GGTTGTTACT
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
26 1 0.01
27 3 0.04
28 37 0.50
29 3 0.04
30 1 0.01
33 29 0.39
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (32 bp):
ACATTGACTGTTACTGTATTGGGCTAAGGCCC
Found at i:46758194 original size:53 final size:54
Alignment explanation
Indices: 46758056--46758197 Score: 187
Period size: 53 Copynumber: 2.6 Consensus size: 54
46758046 GAGAGGTCAA
* * *
46758056 AAAATAACCGAATTACCCCCGAAAGGGTAAAATGACCGAATTACCCTCGAAAGGT
1 AAAATGACTGAATTACCCCC-AAAGGGTAAAATGACCAAATTACCCTCGAAAGGT
* *
46758111 AAAATGACTGAATTACCCCCAAAGGTTAAAATGACCAAATTACCC-CGAAGGGT
1 AAAATGACTGAATTACCCCCAAAGGGTAAAATGACCAAATTACCCTCGAAAGGT
* ***
46758164 AAAATGACTGAATTACTCTTTAAGGGTAAAATGA
1 AAAATGACTGAATTACCCCCAAAGGGTAAAATGA
46758198 TTGTTATACC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 36 0.47
54 23 0.30
55 18 0.23
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (54 bp):
AAAATGACTGAATTACCCCCAAAGGGTAAAATGACCAAATTACCCTCGAAAGGT
Found at i:46758196 original size:27 final size:27
Alignment explanation
Indices: 46758056--46758197 Score: 160
Period size: 27 Copynumber: 5.3 Consensus size: 27
46758046 GAGAGGTCAA
*
46758056 AAAATAACCGAATTACCCCCGAAAGGGT
1 AAAATGACCGAATTACCCCCG-AAGGGT
* *
46758084 AAAATGACCGAATTACCCTCGAAAGGT
1 AAAATGACCGAATTACCCCCGAAGGGT
* * *
46758111 AAAATGACTGAATTACCCCCAAAGGTT
1 AAAATGACCGAATTACCCCCGAAGGGT
*
46758138 AAAATGACCAAATTA-CCCCGAAGGGT
1 AAAATGACCGAATTACCCCCGAAGGGT
* * ***
46758164 AAAATGACTGAATTACTCTTTAAGGGT
1 AAAATGACCGAATTACCCCCGAAGGGT
46758191 AAAATGA
1 AAAATGA
46758198 TTGTTATACC
Statistics
Matches: 95, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
26 22 0.23
27 54 0.57
28 19 0.20
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
AAAATGACCGAATTACCCCCGAAGGGT
Found at i:46758208 original size:80 final size:82
Alignment explanation
Indices: 46758056--46758223 Score: 200
Period size: 80 Copynumber: 2.1 Consensus size: 82
46758046 GAGAGGTCAA
* *
46758056 AAAATAACCGAATTACCCCCGAAAGGGTAAAATGACCGAATTACCCTCGAAAGGTAAAATGACTG
1 AAAATGACCAAATTACCCCCGAAAGGGTAAAATGACCGAATTACCCTCGAAAGGTAAAATGACTG
46758121 AATTACCCCCAAAG-GTT
66 AATTA-CCCCAAAGAGTT
* * ** * *
46758138 AAAATGACCAAATTA-CCCCG-AAGGGTAAAATGACTGAATTACTCTTTAAGGGTAAAATGATTG
1 AAAATGACCAAATTACCCCCGAAAGGGTAAAATGACCGAATTACCCTCGAAAGGTAAAATGACTG
*
46758201 -TTATACCCCAAAGAGTT
66 AAT-TACCCCAAAGAGTT
*
46758218 GAAATG
1 AAAATG
46758224 TATGTATGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 9 0.12
80 47 0.64
81 5 0.07
82 13 0.18
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (82 bp):
AAAATGACCAAATTACCCCCGAAAGGGTAAAATGACCGAATTACCCTCGAAAGGTAAAATGACTG
AATTACCCCAAAGAGTT
Found at i:46758402 original size:26 final size:27
Alignment explanation
Indices: 46758345--46758410 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
46758335 ATAGAGGAAG
*
46758345 TATACTG-TACTGGTGGCTTTGCCACA
1 TATACTGTTACTGGTAGCTTTGCCACA
**
46758371 TATACTGTTACTGGTAGCTTTGCTGCA
1 TATACTGTTACTGGTAGCTTTGCCACA
*
46758398 T-TACTATTACTGG
1 TATACTGTTACTGG
46758411 AAACTTTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 18 0.51
27 17 0.49
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (27 bp):
TATACTGTTACTGGTAGCTTTGCCACA
Found at i:46758572 original size:28 final size:29
Alignment explanation
Indices: 46758541--46758617 Score: 113
Period size: 28 Copynumber: 2.7 Consensus size: 29
46758531 TGTTACTATT
*
46758541 TTGGGCTAGGGCCCACACTGTTTA-TGTA
1 TTGGGCTAAGGCCCACACTGTTTACTGTA
*
46758569 TTGGGCTAAGGCCTACACTG-TTACTGTA
1 TTGGGCTAAGGCCCACACTGTTTACTGTA
*
46758597 TCGGGCTAAGGCCCACACTGT
1 TTGGGCTAAGGCCCACACTGT
46758618 ACTGTTACTG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 3 0.07
28 40 0.93
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (29 bp):
TTGGGCTAAGGCCCACACTGTTTACTGTA
Found at i:46758650 original size:33 final size:34
Alignment explanation
Indices: 46758585--46758655 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
46758575 TAAGGCCTAC
* *
46758585 ACTGTTACTGTATCGGGCTAAGGCCCACACTG-T
1 ACTGTTACTGAATAGGGCTAAGGCCCACACTGTT
* * *
46758618 ACTGTTACTGAATAGGGCTCAGGCCTAGACTGTT
1 ACTGTTACTGAATAGGGCTAAGGCCCACACTGTT
46758652 ACTG
1 ACTG
46758656 CATGTTGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (34 bp):
ACTGTTACTGAATAGGGCTAAGGCCCACACTGTT
Found at i:46770408 original size:29 final size:27
Alignment explanation
Indices: 46770359--46770442 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
46770349 TGACCATGCA
* *
46770359 CCACCATTTTAAAGATTTTACAATTTTG
1 CCACTATTTTTAA-ATTTTACAATTTTG
* *
46770387 CCACTGTATTTTTAAATTTTACAGTTCTG
1 CCAC--TATTTTTAAATTTTACAATTTTG
*
46770416 CCACTATTTTCTAGATTTTACAATTTT
1 CCACTATTTT-TAAATTTTACAATTTT
46770443 ACCATTGGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 6 0.13
28 17 0.37
29 16 0.35
30 7 0.15
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.48
Consensus pattern (27 bp):
CCACTATTTTTAAATTTTACAATTTTG
Found at i:46772403 original size:236 final size:237
Alignment explanation
Indices: 46771990--46772464 Score: 907
Period size: 236 Copynumber: 2.0 Consensus size: 237
46771980 TTAATCTCTC
46771990 TAGCTCGAGTCTACCGTCTAGATCGTGTTGGGGAGGTTGCATTATTCTTATTCAACCAAGGTTCA
1 TAGCTCGAGTCTACCGTCTAGATCGTGTTGGGGAGGTTGCATTATTCTTATTCAACCAAGGTTCA
46772055 CCTATCTCTTCCTATAAATAAATGTCACTGGTAAAGCTATTTACATACAAATTTCATATATTGTT
66 CCTATCTCTTCCTATAAATAAATGTCACTGGTAAAGCTATTTACATACAAATTTCATATATTGTT
*
46772120 ATTCTGCTAGAAAATAATGAGATTTACTTTTTAGGAATAAATTCTA-TTTTTAGGAATTACAATT
131 ATTCTGCTAGAAAATAATGAGATTTACTTTTTAGGAATAAATTCTATTTTTTAGGAATTACAATC
46772184 TCTACTGATTTCTATACCAGAGAATTACTTTCCTACTGAAAG
196 TCTACTGATTTCTATACCAGAGAATTACTTTCCTACTGAAAG
* * *
46772226 TAGCTCGGGTTTACCGTCTAGGTCGTGTTGGGGAGGTTGCATTATTCTTATTCAACCAAGGTTCA
1 TAGCTCGAGTCTACCGTCTAGATCGTGTTGGGGAGGTTGCATTATTCTTATTCAACCAAGGTTCA
46772291 CCTATCTCTTCCTATAAATAAATGTCACTGGTAAAGCTATTTACATACAAATTTCATATATTGTT
66 CCTATCTCTTCCTATAAATAAATGTCACTGGTAAAGCTATTTACATACAAATTTCATATATTGTT
46772356 ATTCTGCTAGAAAATAATGAGATTTACTTTTTAGGAATAAATTCTATTTTTTAGGAATTACAATC
131 ATTCTGCTAGAAAATAATGAGATTTACTTTTTAGGAATAAATTCTATTTTTTAGGAATTACAATC
46772421 TCTACTGATTTCTATACCAGAGAATTACTTTCCTACTGAAAG
196 TCTACTGATTTCTATACCAGAGAATTACTTTCCTACTGAAAG
46772463 TA
1 TA
46772465 ATTAAATCAT
Statistics
Matches: 234, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
236 173 0.74
237 61 0.26
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (237 bp):
TAGCTCGAGTCTACCGTCTAGATCGTGTTGGGGAGGTTGCATTATTCTTATTCAACCAAGGTTCA
CCTATCTCTTCCTATAAATAAATGTCACTGGTAAAGCTATTTACATACAAATTTCATATATTGTT
ATTCTGCTAGAAAATAATGAGATTTACTTTTTAGGAATAAATTCTATTTTTTAGGAATTACAATC
TCTACTGATTTCTATACCAGAGAATTACTTTCCTACTGAAAG
Found at i:46778041 original size:50 final size:50
Alignment explanation
Indices: 46777933--46778179 Score: 228
Period size: 50 Copynumber: 4.8 Consensus size: 50
46777923 ATTTGGGTAA
* *
46777933 AGAGATCCCATGTAAGACCATGTTTAGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
* *
46777989 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** * * *
46778039 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * * *
46778089 AGA-ACTCCCATGTAAGACCATACCTGGGATATGGCATTGGCAGT-ACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * * *
46778138 AAACATCCCATGTAAGACCATGTCTAGGATATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
46778180 TGTTATTATC
Statistics
Matches: 163, Mismatches: 26, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
49 38 0.23
50 82 0.50
53 4 0.02
55 1 0.01
56 38 0.23
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:46784057 original size:39 final size:39
Alignment explanation
Indices: 46783972--46784049 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
46783962 GTATCGGATA
46783972 CAAATGTCATGACATTTGGGTAAAGAGATCCCATGTAAG
1 CAAATGTCATGACATTTGGGTAAAGAGATCCCATGTAAG
46784011 CAAATGTCATGACATTTGGGTAAAGAGATCCCATGTAAG
1 CAAATGTCATGACATTTGGGTAAAGAGATCCCATGTAAG
46784050 ACCATGTCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGTCATGACATTTGGGTAAAGAGATCCCATGTAAG
Found at i:46784145 original size:50 final size:50
Alignment explanation
Indices: 46784034--46784330 Score: 330
Period size: 50 Copynumber: 5.8 Consensus size: 50
46784024 ATTTGGGTAA
*
46784034 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-C-GAG---ATG
* *
46784090 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
46784140 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
46784190 AGAGGTCCCCTGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * *
46784240 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATT-G-ACAGTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * *
46784289 A-AGCATCCCATGTAAGACCATGTCTGGGATATGGCTTTGGCA
1 AGAG-GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
46784331 TGTTATTATC
Statistics
Matches: 213, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
48 4 0.02
49 36 0.17
50 128 0.60
51 1 0.00
53 3 0.01
54 1 0.00
55 1 0.00
56 39 0.18
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:46795434 original size:18 final size:18
Alignment explanation
Indices: 46795407--46795441 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46795397 GGGCAGTGTG
*
46795407 GGAGTGAATTTAGGGATA
1 GGAGTGAATTAAGGGATA
*
46795425 GGAGTTAATTAAGGGAT
1 GGAGTGAATTAAGGGAT
46795442 TTAAGGGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (18 bp):
GGAGTGAATTAAGGGATA
Found at i:46796758 original size:27 final size:27
Alignment explanation
Indices: 46796698--46796770 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
46796688 CCCAAACTGA
46796698 TATAAAATGACTGTTATGCCCCCCACGT
1 TATAAAATGACTGTTATG-CCCCCACGT
** * *
46796726 GGTAAAATGACTGTTATGCCCCTATGT
1 TATAAAATGACTGTTATGCCCCCACGT
*
46796753 TATAAAATGATTG-TATGC
1 TATAAAATGACTGTTATGC
46796771 TCTATGTATG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 5 0.13
27 17 0.45
28 16 0.42
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (27 bp):
TATAAAATGACTGTTATGCCCCCACGT
Found at i:46799031 original size:31 final size:32
Alignment explanation
Indices: 46798985--46799065 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
46798975 ATTATTTTTA
* *
46798985 AAATATAATTTAAATATAAAATCTA-AAATTT
1 AAATATTATTAAAATATAAAATCTATAAATTT
* * *
46799016 GAATATTATTAAAATATAACATTTATAAATTT
1 AAATATTATTAAAATATAAAATCTATAAATTT
46799048 AAATATATATTTAAAATA
1 AAATAT-TA-TTAAAATA
46799066 ATTTAATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
31 20 0.49
32 11 0.27
33 2 0.05
34 8 0.20
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (32 bp):
AAATATTATTAAAATATAAAATCTATAAATTT
Found at i:46799068 original size:22 final size:22
Alignment explanation
Indices: 46799043--46799088 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
46799033 AACATTTATA
*
46799043 AATTTAAATATATATTTAAAAT
1 AATTTAAATATATACTTAAAAT
* *
46799065 AATTTAATTATATACTTAATAT
1 AATTTAAATATATACTTAAAAT
46799087 AA
1 AA
46799089 ATATTATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTTAAATATATACTTAAAAT
Found at i:46799962 original size:27 final size:27
Alignment explanation
Indices: 46799932--46799986 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
46799922 GAATAAAAAG
* *
46799932 AATATTTTATGCATTTCCAATGCATTA
1 AATATTTAATCCATTTCCAATGCATTA
46799959 AATATTTAATCCATTTCCAATGCATTA
1 AATATTTAATCCATTTCCAATGCATTA
46799986 A
1 A
46799987 TTTCATGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.42
Consensus pattern (27 bp):
AATATTTAATCCATTTCCAATGCATTA
Found at i:46800502 original size:6 final size:6
Alignment explanation
Indices: 46800472--46800496 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46800462 AATTAAAAGT
46800472 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
46800497 ACAAAATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:46801794 original size:21 final size:21
Alignment explanation
Indices: 46801756--46801796 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46801746 GTAGGAATTA
*
46801756 ATTTAATTTTTTTGAATTAAT
1 ATTTAATTTTTGTGAATTAAT
46801777 ATTTAATTTATTGT-AATTAA
1 ATTTAATTT-TTGTGAATTAA
46801797 ATAAATGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTAATTTTTGTGAATTAAT
Found at i:46807850 original size:30 final size:29
Alignment explanation
Indices: 46807804--46807931 Score: 168
Period size: 30 Copynumber: 4.3 Consensus size: 29
46807794 TTTAATTTTT
* *
46807804 TTACATTTTGACCCCTAATCTTTTCTAAAA
1 TTACATTTTAACCCCTAAAC-TTTCTAAAA
*
46807834 TTACCTTTTAACCCCTAAACTTTCTCAAAA
1 TTACATTTTAACCCCTAAACTTTCT-AAAA
*
46807864 TTACATTTTAACCCTTAAACTTTTCT-AAA
1 TTACATTTTAACCCCTAAAC-TTTCTAAAA
46807893 TTACATTTTAACCCCTAAACTTTCTAAAAA
1 TTACATTTTAACCCCTAAACTTTCT-AAAA
*
46807923 TTATATTTT
1 TTACATTTT
46807932 GACCTTGACA
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
28 5 0.06
29 27 0.31
30 50 0.57
31 5 0.06
ACGTcount: A:0.34, C:0.23, G:0.01, T:0.43
Consensus pattern (29 bp):
TTACATTTTAACCCCTAAACTTTCTAAAA
Found at i:46807909 original size:59 final size:60
Alignment explanation
Indices: 46807804--46807931 Score: 195
Period size: 59 Copynumber: 2.1 Consensus size: 60
46807794 TTTAATTTTT
* * * *
46807804 TTACATTTTGACCCCTAATCTTTTCTAAAATTACCTTTTAACCCCTAAACTTTCTCAAAA
1 TTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTCTAAAAA
*
46807864 TTACATTTTAACCCTTAAACTTTTCT-AAATTACATTTTAACCCCTAAACTTTCTAAAAA
1 TTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTCTAAAAA
*
46807923 TTATATTTT
1 TTACATTTT
46807932 GACCTTGACA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
59 39 0.63
60 23 0.37
ACGTcount: A:0.34, C:0.23, G:0.01, T:0.43
Consensus pattern (60 bp):
TTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTCTAAAAA
Found at i:46808475 original size:4 final size:4
Alignment explanation
Indices: 46808466--46808537 Score: 70
Period size: 4 Copynumber: 19.5 Consensus size: 4
46808456 ATCAGGGAGG
46808466 AAGA AAGA AA-A GAAGA AAGA AA-A AAG- AAGA AA-A AGAGA AAGA AAG-
1 AAGA AAGA AAGA -AAGA AAGA AAGA AAGA AAGA AAGA A-AGA AAGA AAGA
46808511 AAGA AAG- AAG- AAG- AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
46808538 AAGGAAAAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
3 21 0.35
4 36 0.60
5 3 0.05
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Done.