Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001981.1 Hibiscus syriacus cultivar Beakdansim tig00004035_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1059896
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:11013 original size:17 final size:18
Alignment explanation
Indices: 10966--11016 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
10956 AGTCGAATAT
*
10966 TATTTCAACTATTTAAAA
1 TATTTTAACTATTTAAAA
10984 TATTTTAACTATTTAAAA
1 TATTTTAACTATTTAAAA
*
11002 TA-TTTGACTATTTAA
1 TATTTTAACTATTTAA
11017 TTTAATCAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (18 bp):
TATTTTAACTATTTAAAA
Found at i:11113 original size:72 final size:69
Alignment explanation
Indices: 10977--11123 Score: 163
Period size: 72 Copynumber: 2.1 Consensus size: 69
10967 ATTTCAACTA
* * * *
10977 TTTAAAATATTTTAACTATTTAAAATATTTGACTATTTAATTTAATCAACCCGGATCGAGTTAAA
1 TTTAAAATATTTTAAATATTAAAAATATTCGACTATTTAATTTAATCAACCAGGATCGAGTTAAA
11042 CA-AT
66 -ATAT
* * * *
11046 TTTAAAATATTTTAAATAGTTGAAATAATATTCGACTATTTAATTTATTTGATCCAGG-TCGATT
1 TTTAAAATATTTTAAATA-TT-AAA-AATATTCGACTATTTAATTTA-ATCAACCAGGATCGAGT
11110 TAAAATAT
62 TAAAATAT
11118 TTTAAA
1 TTTAAA
11124 TAGTTGAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
69 17 0.26
70 2 0.03
71 3 0.05
72 37 0.57
73 6 0.09
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (69 bp):
TTTAAAATATTTTAAATATTAAAAATATTCGACTATTTAATTTAATCAACCAGGATCGAGTTAAA
ATAT
Found at i:11117 original size:62 final size:61
Alignment explanation
Indices: 11047--11269 Score: 229
Period size: 62 Copynumber: 3.6 Consensus size: 61
11037 TTAAACAATT
* * *
11047 TTAAAATATTTTAAATAGTTGAAATAATATTCGACTATTTAATTTATTTGATCCAGGTCGAT
1 TTAAAATATTTTAAATAGTTGAAATAATATTCGACTATTTAATTTATTTGAT-TAGATCGAG
* * ** *
11109 TTAAAATATTTTAAATAGTTGAAATAATATACAACTCAGATTGAGTTAAACTATTT--TTAAAT-
1 TTAAAATATTTTAAATAGTTGAAATAATAT-----TC-GACT-ATTTAATTTATTTGATTAGATC
11171 -AG
59 GAG
* *
11173 TTAAAATATTTTAAATAGTTGAAATAATATTTGACTATTTAATTTATTCGATGTAGATCGAG
1 TTAAAATATTTTAAATAGTTGAAATAATATTCGACTATTTAATTTATTTGAT-TAGATCGAG
* *
11235 TTAAAATATTTTAAATAGTTGATATGATATTCGAC
1 TTAAAATATTTTAAATAGTTGAAATAATATTCGAC
11270 CCGGATCAAG
Statistics
Matches: 131, Mismatches: 18, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
57 9 0.07
58 3 0.02
59 2 0.02
60 4 0.03
62 64 0.49
64 31 0.24
66 2 0.02
67 3 0.02
68 3 0.02
69 10 0.08
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.42
Consensus pattern (61 bp):
TTAAAATATTTTAAATAGTTGAAATAATATTCGACTATTTAATTTATTTGATTAGATCGAG
Found at i:11186 original size:18 final size:19
Alignment explanation
Indices: 11152--11198 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
11142 ACTCAGATTG
*
11152 AGTTAAACTATTTTTAAAT
1 AGTTAAAATATTTTTAAAT
11171 AGTTAAAATA-TTTTAAAT
1 AGTTAAAATATTTTTAAAT
*
11189 AGTTGAAATA
1 AGTTAAAATA
11199 ATATTTGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.43
Consensus pattern (19 bp):
AGTTAAAATATTTTTAAAT
Found at i:11209 original size:126 final size:126
Alignment explanation
Indices: 11047--11300 Score: 373
Period size: 126 Copynumber: 2.0 Consensus size: 126
11037 TTAAACAATT
* * *
11047 TTAAAATATTTTAAATAGTTGAAATAATATTCGACTATTTAATTTATTTGATCCAGGTCGATTTA
1 TTAAAATATTTTAAATAGTTGAAATAATATTCGACTATTTAATTTATTCGATCCAGATCGAGTTA
* **
11112 AAATATTTTAAATAGTTGAAATAATATACAACTCAGATTGAGTTAAACTATTTTTAAATAG
66 AAATATTTTAAATAGTTGAAATAATATACAACCCAGATCAAGTTAAACTATTTTTAAATAG
* **
11173 TTAAAATATTTTAAATAGTTGAAATAATATTTGACTATTTAATTTATTCGATGTAGATCGAGTTA
1 TTAAAATATTTTAAATAGTTGAAATAATATTCGACTATTTAATTTATTCGATCCAGATCGAGTTA
* * * * * *
11238 AAATATTTTAAATAGTTGATATGATATTCGACCCGGATCAAGTTAAATTATTTTTAAATAG
66 AAATATTTTAAATAGTTGAAATAATATACAACCCAGATCAAGTTAAACTATTTTTAAATAG
11299 TT
1 TT
11301 TAACTCAATC
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
126 113 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (126 bp):
TTAAAATATTTTAAATAGTTGAAATAATATTCGACTATTTAATTTATTCGATCCAGATCGAGTTA
AAATATTTTAAATAGTTGAAATAATATACAACCCAGATCAAGTTAAACTATTTTTAAATAG
Found at i:13136 original size:15 final size:16
Alignment explanation
Indices: 13107--13147 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
13097 CTTAATAATA
*
13107 TAATATTCT-TAC-TT
1 TAATATTATATACTTT
13121 TAATATTATATACTTT
1 TAATATTATATACTTT
13137 TCAATATTATA
1 T-AATATTATA
13148 ATAATTTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 8 0.35
15 3 0.13
16 3 0.13
17 9 0.39
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATATTATATACTTT
Found at i:13699 original size:21 final size:21
Alignment explanation
Indices: 13644--13701 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
13634 TTTTACTGAT
*
13644 GTGTCTACCTTTAAATTTTTC
1 GTGTCTACCTTAAAATTTTTC
*
13665 GTATC-ATCCTTAAAATTTTTC
1 GTGTCTA-CCTTAAAATTTTTC
*
13686 GTGTCTACCCTAAAAT
1 GTGTCTACCTTAAAAT
13702 CTTCATTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.45
Consensus pattern (21 bp):
GTGTCTACCTTAAAATTTTTC
Found at i:23488 original size:15 final size:15
Alignment explanation
Indices: 23470--23519 Score: 100
Period size: 15 Copynumber: 3.3 Consensus size: 15
23460 CGAGGGTATT
23470 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
23485 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
23500 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
23515 GTAGT
1 GTAGT
23520 GGTCCTACGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.14, C:0.24, G:0.34, T:0.28
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:34097 original size:16 final size:17
Alignment explanation
Indices: 34070--34101 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34060 TAGTATTTTA
34070 TTTAATTATTTTAATTG
1 TTTAATTATTTTAATTG
34087 TTTAA-TATTTTAATT
1 TTTAATTATTTTAATT
34102 AATTTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTAATTATTTTAATTG
Found at i:34215 original size:13 final size:13
Alignment explanation
Indices: 34199--34257 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
34189 TTTTAACGTT
34199 TTAATTTAATTAA
1 TTAATTTAATTAA
* *
34212 TTAATTAAATTAT
1 TTAATTTAATTAA
34225 TTAATGTATAATT-A
1 TTAAT-T-TAATTAA
* *
34239 TTAGTTTAA-AAA
1 TTAATTTAATTAA
34251 TTAATTT
1 TTAATTT
34258 GTGTAATTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
12 10 0.28
13 17 0.47
14 5 0.14
15 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
TTAATTTAATTAA
Found at i:36357 original size:13 final size:13
Alignment explanation
Indices: 36316--36359 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
36306 TATTTAGTAC
*
36316 TTTTTATTGTAGT
1 TTTTTATTGTAAT
* * *
36329 TGTTTATTGGACT
1 TTTTTATTGTAAT
36342 TTTTTATTGTAAT
1 TTTTTATTGTAAT
36355 TTTTT
1 TTTTT
36360 TGTTATTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.68
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:40964 original size:20 final size:20
Alignment explanation
Indices: 40939--40976 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
40929 TCCCACCGAC
40939 CGTGAAACTAGGTCGATCAT
1 CGTGAAACTAGGTCGATCAT
40959 CGTGAAACTAGGTCGATC
1 CGTGAAACTAGGTCGATC
40977 GTCATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (20 bp):
CGTGAAACTAGGTCGATCAT
Found at i:40984 original size:20 final size:20
Alignment explanation
Indices: 40941--40985 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
40931 CCACCGACCG
*
40941 TGAAACTAGGTCGATCATCG
1 TGAAACTAGGTCGATCATCA
*
40961 TGAAACTAGGTCGATCGTCA
1 TGAAACTAGGTCGATCATCA
40981 TGAAA
1 TGAAA
40986 AGTGACATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (20 bp):
TGAAACTAGGTCGATCATCA
Found at i:49047 original size:22 final size:21
Alignment explanation
Indices: 49022--49064 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
49012 TTATTTATTT
*
49022 TATTGATATTGTTCATTTTAAA
1 TATT-ATAGTGTTCATTTTAAA
* *
49044 TATTTTAGTGTTTATTTTAAA
1 TATTATAGTGTTCATTTTAAA
49065 ATTTGAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.58
Consensus pattern (21 bp):
TATTATAGTGTTCATTTTAAA
Found at i:50827 original size:2 final size:2
Alignment explanation
Indices: 50820--50873 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
50810 GCTCACTTTC
50820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50862 AT AT AT AT AT AT
1 AT AT AT AT AT AT
50874 GAATACTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52743 original size:3 final size:3
Alignment explanation
Indices: 52735--52826 Score: 184
Period size: 3 Copynumber: 30.7 Consensus size: 3
52725 GAAACCAATG
52735 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
52783 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
52827 GTGGGCGGGA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:55791 original size:64 final size:65
Alignment explanation
Indices: 55710--55844 Score: 168
Period size: 64 Copynumber: 2.1 Consensus size: 65
55700 GAAGTACATT
* *
55710 GATGCA-CCCATTAAAAATGGAAACATCGAATGTAATTAGTGCATCGATGAATAAGG-AGTGCAT
1 GATGCACCCCATTAAAAATGAAAACATCGAAGGTAATTAGTGCATCGATGAAT-AGGTAGTGCAT
55773 C
65 C
* * * * * *
55774 GATGCACCCCCTT-AAAATGAAAACATCGAAGGTGATTTGTGTATCGATGCATGGGTAGTGCATC
1 GATGCACCCCATTAAAAATGAAAACATCGAAGGTAATTAGTGCATCGATGAATAGGTAGTGCATC
55838 GATGCAC
1 GATGCAC
55845 ATGTTAAAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 2 0.03
64 54 0.89
65 5 0.08
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (65 bp):
GATGCACCCCATTAAAAATGAAAACATCGAAGGTAATTAGTGCATCGATGAATAGGTAGTGCATC
Found at i:56298 original size:22 final size:20
Alignment explanation
Indices: 56277--56314 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56267 CTATGTTATG
56277 ATGAT-ATAAACTATATGAT
1 ATGATAATAAACTATATGAT
*
56296 ATGATAATAAATTATATGA
1 ATGATAATAAACTATATGA
56315 ATATAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGATAATAAACTATATGAT
Found at i:57082 original size:2 final size:2
Alignment explanation
Indices: 57075--57104 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
57065 ATGAACATGA
57075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57105 GATAAGACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57550 original size:23 final size:22
Alignment explanation
Indices: 57494--57550 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
57484 CAACCTTATA
* *
57494 TGGCACTTCGGTGCATTTCTAC
1 TGGCACTTCGGTGCAATTCCAC
* *
57516 CGGCACTACGGTGCAATTCCAC
1 TGGCACTTCGGTGCAATTCCAC
57538 GTGGCACTTCGGT
1 -TGGCACTTCGGT
57551 ACATTTATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (22 bp):
TGGCACTTCGGTGCAATTCCAC
Found at i:78660 original size:21 final size:21
Alignment explanation
Indices: 78634--78708 Score: 87
Period size: 21 Copynumber: 3.4 Consensus size: 21
78624 TTGTGCATAA
78634 TGCATCGATACACTATGAAGG
1 TGCATCGATACACTATGAAGG
* *
78655 TGCATCGATGCATCCCTATGAATG
1 TGCATCGAT--A-CACTATGAAGG
*
78679 TGCATCGATACACCATGAAGG
1 TGCATCGATACACTATGAAGG
*
78700 TGCACCGAT
1 TGCATCGAT
78709 GAAGTCCTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 25 0.56
22 1 0.02
23 1 0.02
24 18 0.40
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (21 bp):
TGCATCGATACACTATGAAGG
Found at i:78681 original size:24 final size:23
Alignment explanation
Indices: 78634--78734 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 23
78624 TTGTGCATAA
*
78634 TGCATCGATACA--CTATGAAGG
1 TGCATCGATGCATCCTATGAAGG
*
78655 TGCATCGATGCATCCCTATGAATG
1 TGCATCGATGCAT-CCTATGAAGG
*
78679 TGCATCGATACA-CC-ATGAAGG
1 TGCATCGATGCATCCTATGAAGG
* * *
78700 TGCACCGATGAAGTCCT-TGAATG
1 TGCATCGATGCA-TCCTATGAAGG
*
78723 TGCATCAATGCA
1 TGCATCGATGCA
78735 GTCAGCAGTG
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
21 26 0.41
22 2 0.03
23 16 0.25
24 19 0.30
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (23 bp):
TGCATCGATGCATCCTATGAAGG
Found at i:78698 original size:45 final size:44
Alignment explanation
Indices: 78634--78728 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 44
78624 TTGTGCATAA
* * *
78634 TGCATCGATACACTATGAAGGTGCATCGATGCA-TCCCTATGAATG
1 TGCATCGATACACCATGAAGGTGCACCGATGAAGT-CCT-TGAATG
78679 TGCATCGATACACCATGAAGGTGCACCGATGAAGTCCTTGAATG
1 TGCATCGATACACCATGAAGGTGCACCGATGAAGTCCTTGAATG
78723 TGCATC
1 TGCATC
78729 AATGCAGTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 12 0.26
45 33 0.72
46 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (44 bp):
TGCATCGATACACCATGAAGGTGCACCGATGAAGTCCTTGAATG
Found at i:78737 original size:23 final size:22
Alignment explanation
Indices: 78649--78734 Score: 75
Period size: 23 Copynumber: 3.8 Consensus size: 22
78639 CGATACACTA
78649 TGAAGGTGCATCGATGCATCCCT
1 TGAAGGTGCATCGATGCAT-CCT
* * *
78672 ATGAATGTGCATCGATACA-CCA
1 -TGAAGGTGCATCGATGCATCCT
* *
78694 TGAAGGTGCACCGATGAAGTCCT
1 TGAAGGTGCATCGATGCA-TCCT
* *
78717 TGAATGTGCATCAATGCA
1 TGAAGGTGCATCGATGCA
78735 GTCAGCAGTG
Statistics
Matches: 48, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
21 14 0.29
22 2 0.04
23 16 0.33
24 16 0.33
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (22 bp):
TGAAGGTGCATCGATGCATCCT
Found at i:80341 original size:27 final size:27
Alignment explanation
Indices: 80287--80341 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
80277 ACTCCGGGAG
* * *
80287 CTAGTTCTTCACGAGCTCCTTCTGCAC
1 CTAGCTCTTCACGAGCTCCTCCTCCAC
* *
80314 CTAGCTCTTCTCGTGCTCCTCCTCCAC
1 CTAGCTCTTCACGAGCTCCTCCTCCAC
80341 C
1 C
80342 GACACCAGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.11, C:0.44, G:0.13, T:0.33
Consensus pattern (27 bp):
CTAGCTCTTCACGAGCTCCTCCTCCAC
Found at i:81411 original size:63 final size:64
Alignment explanation
Indices: 81337--81487 Score: 209
Period size: 64 Copynumber: 2.4 Consensus size: 64
81327 CCCCATTTCA
** * * *
81337 AATGCATTTTATGCATCGATGCAC-TTCTATGCATCGATGCACTCATGATT-TTATGGAAACATC
1 AATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGATTGTT-T-GAAACATA
81400 G
64 G
*
81401 AATGCA-TTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTGTTTGAAACATAG
1 AATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGATTGTTTGAAACATAG
81464 AATGCATTTTATGCATCGATGCAC
1 AATGCATTTTATGCATCGATGCAC
81488 CATTAGTGCA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
63 31 0.40
64 45 0.58
65 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (64 bp):
AATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGATTGTTTGAAACATAG
Found at i:81503 original size:64 final size:64
Alignment explanation
Indices: 81337--81507 Score: 206
Period size: 64 Copynumber: 2.7 Consensus size: 64
81327 CCCCATTTCA
* * *
81337 AATGCATTTTATGCATCGATGCA-CTTCTATGCATCGATGCACTCATGATTTTATGGAAACATCG
1 AATGCATTTTATGCATCGATGCACCAT-TATGCATCGATGCACTCAGGATTTTATGGAAACATAG
* ** *
81401 AATGCA-TTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTGTT-T-GAAACATA
1 AATGCATTTTATGCATCGATGCAC-CATTATGCATCGATGCACTCAGGATT-TTATGGAAACATA
81463 G
64 G
*
81464 AATGCATTTTATGCATCGATGCACCATTAGTGCACCGATGCACT
1 AATGCATTTTATGCATCGATGCACCATTA-TGCATCGATGCACT
81508 AAATGTTCCA
Statistics
Matches: 91, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
63 32 0.35
64 57 0.63
65 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (64 bp):
AATGCATTTTATGCATCGATGCACCATTATGCATCGATGCACTCAGGATTTTATGGAAACATAG
Found at i:81575 original size:21 final size:21
Alignment explanation
Indices: 81550--81604 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
81540 ATACTTGATG
81550 CATCGATGCAC-CTTGACTATA
1 CATCGATGCACAC-TGACTATA
*
81571 CATCGATGCACACTGACTATG
1 CATCGATGCACACTGACTATA
81592 CATCGATGCACAC
1 CATCGATGCACAC
81605 ACGCTCCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (21 bp):
CATCGATGCACACTGACTATA
Found at i:83858 original size:41 final size:41
Alignment explanation
Indices: 83813--83926 Score: 156
Period size: 41 Copynumber: 2.8 Consensus size: 41
83803 ATTTTTTGAT
* * **
83813 CAAACGCCACAAAATACTCTTACTTTAGTGGCGTTTGTATA
1 CAAACACCACAAAAGACTAGTACTTTAGTGGCGTTTGTATA
* *
83854 CAAACACCACAATAGAGTAGTACTTTAGTGGCGTTTGTATA
1 CAAACACCACAAAAGACTAGTACTTTAGTGGCGTTTGTATA
* *
83895 CAAACACCACAATAGAGTAGTACTTTAGTGGC
1 CAAACACCACAAAAGACTAGTACTTTAGTGGC
83927 TTTTTTCAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (41 bp):
CAAACACCACAAAAGACTAGTACTTTAGTGGCGTTTGTATA
Found at i:83940 original size:41 final size:41
Alignment explanation
Indices: 83833--83926 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
83823 AAAATACTCT
83833 TACTTTAGTGGCGTTTGTATACAAACACCACAATAGAGTAG
1 TACTTTAGTGGCGTTTGTATACAAACACCACAATAGAGTAG
83874 TACTTTAGTGGCGTTTGTATACAAACACCACAATAGAGTAG
1 TACTTTAGTGGCGTTTGTATACAAACACCACAATAGAGTAG
83915 TACTTTAGTGGC
1 TACTTTAGTGGC
83927 TTTTTTCAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (41 bp):
TACTTTAGTGGCGTTTGTATACAAACACCACAATAGAGTAG
Found at i:87220 original size:12 final size:12
Alignment explanation
Indices: 87205--87245 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
87195 AAGCTGAAGC
87205 GAGAGAAGCAGA
1 GAGAGAAGCAGA
*
87217 GAGAG-AGCAGC
1 GAGAGAAGCAGA
87228 GAGAGAAGCAGA
1 GAGAGAAGCAGA
87240 GAGAGA
1 GAGAGA
87246 GAAGTAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.46, C:0.10, G:0.44, T:0.00
Consensus pattern (12 bp):
GAGAGAAGCAGA
Found at i:87228 original size:23 final size:23
Alignment explanation
Indices: 87202--87246 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
87192 CCGAAGCTGA
87202 AGCGAGAGAAGCAGAGAGAGAGC
1 AGCGAGAGAAGCAGAGAGAGAGC
87225 AGCGAGAGAAGCAGAGAGAGAG
1 AGCGAGAGAAGCAGAGAGAGAG
87247 AAGTAACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.11, G:0.44, T:0.00
Consensus pattern (23 bp):
AGCGAGAGAAGCAGAGAGAGAGC
Found at i:87231 original size:9 final size:10
Alignment explanation
Indices: 87200--87243 Score: 54
Period size: 10 Copynumber: 4.2 Consensus size: 10
87190 AGCCGAAGCT
87200 GAAGC-GAGA
1 GAAGCAGAGA
87209 GAAGCAGAGA
1 GAAGCAGAGA
87219 GAGAGCAGCGAGA
1 GA-AGCA--GAGA
87232 GAAGCAGAGA
1 GAAGCAGAGA
87242 GA
1 GA
87244 GAGAAGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 5 0.16
10 12 0.39
11 4 0.13
12 4 0.13
13 6 0.19
ACGTcount: A:0.45, C:0.11, G:0.43, T:0.00
Consensus pattern (10 bp):
GAAGCAGAGA
Found at i:89042 original size:30 final size:31
Alignment explanation
Indices: 88986--89047 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
88976 TAATTACATC
* *
88986 AGGGACCATATTGCAAATAGACTAAATGTTG
1 AGGGACCATATTGCAAACAGACTAAATATTG
89017 AGGGACCATATTGCAAACA-ACTAAATATTG
1 AGGGACCATATTGCAAACAGACTAAATATTG
89047 A
1 A
89048 AGATTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 11 0.38
31 18 0.62
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (31 bp):
AGGGACCATATTGCAAACAGACTAAATATTG
Found at i:91400 original size:10 final size:10
Alignment explanation
Indices: 91387--91413 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
91377 AAATTCAAGA
91387 AAATAAAAAT
1 AAATAAAAAT
91397 AAATAAAAAT
1 AAATAAAAAT
91407 AAATAAA
1 AAATAAA
91414 TAAATTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:101853 original size:21 final size:22
Alignment explanation
Indices: 101805--101857 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
101795 TTTCCAAATT
*
101805 CGTTGCGATAGTCGAAGTGTTAG
1 CGTTGCGATAGTCGAAG-GTCAG
*
101828 CGTTGCGATAGTCGAA-GTCCG
1 CGTTGCGATAGTCGAAGGTCAG
101849 CGTTGCGAT
1 CGTTGCGAT
101858 TTTTCAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 12 0.43
23 16 0.57
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (22 bp):
CGTTGCGATAGTCGAAGGTCAG
Found at i:101891 original size:21 final size:21
Alignment explanation
Indices: 101802--101891 Score: 60
Period size: 23 Copynumber: 4.3 Consensus size: 21
101792 GATTTTCCAA
*
101802 ATTCGTTGCGATAGTCGAAGT
1 ATTCGTTGCGATAGTCGAAAT
* *
101823 GTTAGCGTTGCGATAGTCGAAGT
1 ATT--CGTTGCGATAGTCGAAAT
*** **
101846 CCGCGTTGCGATTTTTC--AA-
1 ATTCGTTGCGA-TAGTCGAAAT
101865 ATTCGTTGCGATAGTCGAAAT
1 ATTCGTTGCGATAGTCGAAAT
101886 ATTCGT
1 ATTCGT
101892 GCAGACGTGT
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
18 3 0.06
19 8 0.16
20 3 0.06
21 16 0.31
22 3 0.06
23 18 0.35
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (21 bp):
ATTCGTTGCGATAGTCGAAAT
Found at i:102800 original size:40 final size:40
Alignment explanation
Indices: 102745--102866 Score: 208
Period size: 40 Copynumber: 3.0 Consensus size: 40
102735 CCAGTCGTTG
* *
102745 CGAATTTGGAAAATCGCAACGCGAACTTCGCCTATCGCAA
1 CGAATTTGGAAAATCGCAACGCGGACTTCGACTATCGCAA
102785 CGAATTTGGAAAATCGCAACGCGGACTTCGACTATCGCAA
1 CGAATTTGGAAAATCGCAACGCGGACTTCGACTATCGCAA
* *
102825 TGAATTTGGAAAATCGCAACGCGGACTTGGACTATCGCAA
1 CGAATTTGGAAAATCGCAACGCGGACTTCGACTATCGCAA
102865 CG
1 CG
102867 CGAACACTTC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (40 bp):
CGAATTTGGAAAATCGCAACGCGGACTTCGACTATCGCAA
Found at i:102887 original size:63 final size:61
Alignment explanation
Indices: 102797--103048 Score: 242
Period size: 63 Copynumber: 4.1 Consensus size: 61
102787 AATTTGGAAA
* * *
102797 ATCGCAACGCGGACTTCGACTATCGCAATGAATTTGGAAAATCGCAACGCGGACTTGGACT
1 ATCGCAACGCGCACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGACT
*
102858 ATCGCAACGCGAACACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGTGAACTTGGACT
1 ATCGCAACGCG--CACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGACT
* * * * ** * * * ** ** * *
102921 ATCG-TA-GCGAATTTGGAAAATTGCAACGCGAACTTCGACTATCGCAATACGAA-TATGTA-A
1 ATCGCAACGCGCACTTCGACTATCGCAA--CGAATTTGGAAAATCGCAACGCGAACT-TGGACT
* *
102981 ATCGCAACGCGAACTTCGACTAACGCAACGAATTTGGAAAATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGCACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGACT
103042 ATCGCAA
1 ATCGCAA
103049 TGCGAATATG
Statistics
Matches: 147, Mismatches: 35, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
59 11 0.07
60 27 0.18
61 44 0.30
62 15 0.10
63 50 0.34
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (61 bp):
ATCGCAACGCGCACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGACT
Found at i:102932 original size:40 final size:40
Alignment explanation
Indices: 102858--103048 Score: 258
Period size: 40 Copynumber: 4.7 Consensus size: 40
102848 GACTTGGACT
102858 ATCGCAACGCGAACACTTCGACTATCGCAACGAATTTGGAAA
1 ATCGCAACGCG-A-ACTTCGACTATCGCAACGAATTTGGAAA
* * * *
102900 ATCGCAACGTGAACTTGGACTATCGTAGCGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
* * *
102940 ATTGCAACGCGAACTTCGACTATCGCAATACGAATAT-GTAA
1 ATCGCAACGCGAACTTCGACTATCGC-A-ACGAATTTGGAAA
*
102981 ATCGCAACGCGAACTTCGACTAACGCAACGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
*
103021 ATCGCAACGCGAACTTGGACTATCGCAA
1 ATCGCAACGCGAACTTCGACTATCGCAA
103049 TGCGAATATG
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 7 0.05
40 77 0.60
41 29 0.22
42 16 0.12
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (40 bp):
ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
Found at i:102933 original size:103 final size:101
Alignment explanation
Indices: 102757--102967 Score: 314
Period size: 103 Copynumber: 2.1 Consensus size: 101
102747 AATTTGGAAA
* *
102757 ATCGCAACGCGAACTTCGCCTATCGCAACGAATTTGGAAAATCGCAACGCGGACTTCGACTATCG
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCG
* * *
102822 CAATGAATTTGGAAAATCGCAACGCGGACTTGGACT
66 CAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
* *
102858 ATCGCAACGCGAACACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGTGAACTTGGACTAT
1 ATCGCAACGCG-A-ACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTAT
* * *
102923 CGTAGCGAATTTGGAAAATTGCAACGCGAACTTCGACT
64 CGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
102961 ATCGCAA
1 ATCGCAA
102968 TACGAATATG
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 11 0.11
102 1 0.01
103 86 0.88
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (101 bp):
ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCG
CAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
Found at i:103002 original size:81 final size:81
Alignment explanation
Indices: 102858--103070 Score: 286
Period size: 81 Copynumber: 2.6 Consensus size: 81
102848 GACTTGGACT
* * * *
102858 ATCGCAACGCGAACACTTCGACTATCGC-A-ACGAATTTGGAAAATCGCAACGTGAACTTGGACT
1 ATCGCAACGCG-A-ACTTCGACTATCGCAATACGAATAT-GTAAATCGCAACGCGAACTTCGACT
* * *
102921 ATCGTAGCGAATTTGGAAA
63 AACGCAACGAATTTGGAAA
*
102940 ATTGCAACGCGAACTTCGACTATCGCAATACGAATATGTAAATCGCAACGCGAACTTCGACTAAC
1 ATCGCAACGCGAACTTCGACTATCGCAATACGAATATGTAAATCGCAACGCGAACTTCGACTAAC
103005 GCAACGAATTTGGAAA
66 GCAACGAATTTGGAAA
* * *
103021 ATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAAATCACAACG
1 ATCGCAACGCGAACTTCGACTATCGCAATACGAATATGTAAATCGCAACG
103071 AGAATTTGGA
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
80 14 0.12
81 86 0.74
82 17 0.15
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (81 bp):
ATCGCAACGCGAACTTCGACTATCGCAATACGAATATGTAAATCGCAACGCGAACTTCGACTAAC
GCAACGAATTTGGAAA
Found at i:103080 original size:41 final size:41
Alignment explanation
Indices: 102858--103094 Score: 216
Period size: 40 Copynumber: 5.8 Consensus size: 41
102848 GACTTGGACT
* * *
102858 ATCGCAACGCGAACACTTCGACTATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCG-A-ACTTGGACTATCGCAATGCGAATAT-GTAA
* * * *
102900 ATCGCAACGTGAACTTGGACTATCG-TA-GCGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAATGCGAATAT-GTAA
* * *
102940 ATTGCAACGCGAACTTCGACTATCGCAATACGAATATGTAA
1 ATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAA
* * * *
102981 ATCGCAACGCGAACTTCGACTAACGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAATGCGAATAT-GTAA
103021 ATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAA
* * * **
103062 ATCACAACGAGAATTTGGAAAATCGCAATGCGA
1 ATCGCAACGCGAACTTGGACTATCGCAATGCGA
103095 TAGTCGAAGT
Statistics
Matches: 166, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
39 7 0.04
40 75 0.45
41 62 0.37
42 22 0.13
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAA
Found at i:103084 original size:21 final size:21
Alignment explanation
Indices: 102744--103094 Score: 179
Period size: 21 Copynumber: 17.2 Consensus size: 21
102734 ACCAGTCGTT
102744 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
* * ***
102765 GCGAACTTCGCCTATCGCAA-
1 GCGAATTTGGAAAATCGCAAC
102785 -CGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
* * * **
102805 GCGGACTTCGACTATCGCAA-
1 GCGAATTTGGAAAATCGCAAC
*
102825 -TGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
* * **
102845 GCGGACTTGGACTATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
* * **
102866 GCGAACACTTCGACTATCGCAA-
1 GCG-A-ATTTGGAAAATCGCAAC
102888 -CGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
* * ** *
102908 GTGAACTTGGACTATCG-TA-
1 GCGAATTTGGAAAATCGCAAC
*
102927 GCGAATTTGGAAAATTGCAAC
1 GCGAATTTGGAAAATCGCAAC
* * ** *
102948 GCGAACTTCGACTATCGCAAT
1 GCGAATTTGGAAAATCGCAAC
* * *
102969 ACGAATAT-GTAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
* * *
102989 GCGAACTTCGACTAA-CGCAA-
1 GCGAATTTGGA-AAATCGCAAC
103009 -CGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
* ** *
103029 GCGAACTTGGACTATCGCAAT
1 GCGAATTTGGAAAATCGCAAC
* * *
103050 GCGAATAT-GTAAATCACAAC
1 GCGAATTTGGAAAATCGCAAC
* *
103070 GAGAATTTGGAAAATCGCAAT
1 GCGAATTTGGAAAATCGCAAC
103091 GCGA
1 GCGA
103095 TAGTCGAAGT
Statistics
Matches: 233, Mismatches: 81, Indels: 32
0.67 0.23 0.09
Matches are distributed among these distances:
18 2 0.01
19 64 0.27
20 29 0.12
21 121 0.52
22 2 0.01
23 15 0.06
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:103089 original size:81 final size:80
Alignment explanation
Indices: 102830--103089 Score: 272
Period size: 81 Copynumber: 3.2 Consensus size: 80
102820 CGCAATGAAT
* * ** *
102830 TTGGAAAATCGCAACGCGGACTTGGACTATCGCAACGCGAACACTTCGACTATCGCAA-CGAATT
1 TTGGAAAATCGCAA--CGAATTTGGAAAATCGCAACGCG-A-ACTTCGACTATCGCAATCGAATA
* *
102894 TGGAAAATCGCAACGTGAAC
62 T-GTAAATCGCAACGAGAAC
** * * *
102914 TTGGACTATCGTAGCGAATTTGGAAAATTGCAACGCGAACTTCGACTATCGCAATACGAATATGT
1 TTGGAAAATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAAT-CGAATATGT
*
102979 AAATCGCAACGCGAAC
65 AAATCGCAACGAGAAC
* * *
102995 TTCGACTAA-CGCAACGAATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAATGCGAATATG
1 TTGGA-AAATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAAT-CGAATATG
* *
103059 TAAATCACAACGAGAAT
64 TAAATCGCAACGAGAAC
103076 TTGGAAAATCGCAA
1 TTGGAAAATCGCAA
103090 TGCGATAGTC
Statistics
Matches: 147, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
80 18 0.12
81 94 0.64
82 25 0.17
84 10 0.07
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (80 bp):
TTGGAAAATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATCGAATATGTA
AATCGCAACGAGAAC
Found at i:104675 original size:15 final size:14
Alignment explanation
Indices: 104655--104704 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
104645 AATAATAGAT
104655 AAAAAATAAATTTA
1 AAAAAATAAATTTA
104669 GAAAAAATAAA-TTA
1 -AAAAAATAAATTTA
* *
104683 AATAATTAAATTTA
1 AAAAAATAAATTTA
104697 CAAAAAAT
1 -AAAAAAT
104705 TAATAGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 8 0.28
14 6 0.21
15 15 0.52
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (14 bp):
AAAAAATAAATTTA
Found at i:106084 original size:20 final size:20
Alignment explanation
Indices: 106048--106101 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
106038 TAACCCTTCA
106048 AAAATACATGT-TTTTAAGG
1 AAAATACATGTCTTTTAAGG
* *
106067 AATATACATGTCTTTTAATG
1 AAAATACATGTCTTTTAAGG
106087 AAAATACATGCTCTT
1 AAAATACATG-TCTT
106102 GGCCGAATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 10 0.33
20 16 0.53
21 4 0.13
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (20 bp):
AAAATACATGTCTTTTAAGG
Found at i:107681 original size:21 final size:21
Alignment explanation
Indices: 107638--107681 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
107628 AATATGGAAC
*
107638 ATTAATTATATCATATTATTT
1 ATTAATTATATCATATTAATT
* *
107659 ATTAATTATATTATGTTAATT
1 ATTAATTATATCATATTAATT
107680 AT
1 AT
107682 ATCTCTCTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTAATTATATCATATTAATT
Found at i:108309 original size:39 final size:38
Alignment explanation
Indices: 108264--108381 Score: 143
Period size: 39 Copynumber: 3.0 Consensus size: 38
108254 TTTTAAAAAT
108264 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAA
1 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAA
108302 GAATTTAGAATGTT-ATGGTGACAA-AATTTAAGAAATTAA
1 -AATTTAGAATGTTAAT-GTGA-AATAATTTAAGAAATTAA
* *
108341 AATTTTAGAATGTTAGA-GTGAATTAATTTGAGAAATATAA
1 AA-TTTAGAATGTTA-ATGTGAAATAATTTAAGAAAT-TAA
108381 A
1 A
108382 TAAAAATTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 13
0.82 0.02 0.15
Matches are distributed among these distances:
38 5 0.07
39 58 0.83
40 6 0.09
41 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.16, T:0.36
Consensus pattern (38 bp):
AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAA
Found at i:108401 original size:24 final size:26
Alignment explanation
Indices: 108373--108422 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
108363 TTAATTTGAG
*
108373 AAATATAAATAAAAATT-TA-ATATA
1 AAATAAAAATAAAAATTATATATATA
*
108397 AAATAAAAATGAAAATTATATATATA
1 AAATAAAAATAAAAATTATATATATA
108423 TATATAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 2 0.09
26 5 0.23
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (26 bp):
AAATAAAAATAAAAATTATATATATA
Found at i:112050 original size:21 final size:21
Alignment explanation
Indices: 112026--112077 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
112016 TCATGAACAT
*
112026 TGCTACAGTGTATCGATGCAC
1 TGCTACAGTGTACCGATGCAC
112047 TGCTACAGTGTACCGATGCAC
1 TGCTACAGTGTACCGATGCAC
*
112068 TGTTACAGTG
1 TGCTACAGTG
112078 CTGCTACAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (21 bp):
TGCTACAGTGTACCGATGCAC
Found at i:112699 original size:23 final size:23
Alignment explanation
Indices: 112644--112710 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
112634 TTCACAGAAA
112644 TGCCACGTAGAATTTGTC-CCGAAG
1 TGCCACGTAGAA-TTG-CACCGAAG
*
112668 -GACCGCGTAGAATTGCACCGAAG
1 TG-CCACGTAGAATTGCACCGAAG
*
112691 TGCCACGTAGAAATGCACCG
1 TGCCACGTAGAATTGCACCG
112711 TAATGGCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 1 0.03
23 26 0.70
24 10 0.27
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (23 bp):
TGCCACGTAGAATTGCACCGAAG
Found at i:116922 original size:64 final size:64
Alignment explanation
Indices: 116834--116964 Score: 192
Period size: 64 Copynumber: 2.0 Consensus size: 64
116824 CTACTATCTC
* *
116834 TTTTATTATGTTGTTAAGACTTGATACTCTTGTGTGGTA-TTTTATTTTGAACATCTTGTGTTGA
1 TTTTATTATATTGTTAAGACTTGATACT-TTGTGTGGTATTTTTAATTTGAACATCTTGTGTTGA
* * * *
116898 TTTTATTGTATTGTTGAGATTTGATTCTTTGTGTGGTATTTTTAATTTGAACATCTTGTGTTGA
1 TTTTATTATATTGTTAAGACTTGATACTTTGTGTGGTATTTTTAATTTGAACATCTTGTGTTGA
116962 TTT
1 TTT
116965 GAGACTTGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 10 0.17
64 50 0.83
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.56
Consensus pattern (64 bp):
TTTTATTATATTGTTAAGACTTGATACTTTGTGTGGTATTTTTAATTTGAACATCTTGTGTTGA
Found at i:116964 original size:26 final size:26
Alignment explanation
Indices: 116926--117013 Score: 65
Period size: 27 Copynumber: 3.3 Consensus size: 26
116916 ATTTGATTCT
*
116926 TTGTGTGGTATTTTTAATTTGAACATC
1 TTGTGTTG-ATTTTTAATTTGAACATC
* *
116953 TTGTGTTGA-TTTGAGACTTGATAC-TC
1 TTGTGTTGATTTTTA-ATTTGA-ACATC
* *
116979 TTATGTAAT-ATTTTTATTTTGAACATC
1 TTGTGT--TGATTTTTAATTTGAACATC
117006 TTGTGTTG
1 TTGTGTTG
117014 GTTTATTGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 15
0.67 0.12 0.22
Matches are distributed among these distances:
25 5 0.11
26 15 0.33
27 21 0.46
28 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.18, T:0.52
Consensus pattern (26 bp):
TTGTGTTGATTTTTAATTTGAACATC
Found at i:128908 original size:22 final size:22
Alignment explanation
Indices: 128841--128910 Score: 104
Period size: 22 Copynumber: 3.2 Consensus size: 22
128831 ACCGATACTG
*
128841 CTATGAATGGGTATCAATTCCC
1 CTATGAATGGGTATCAATACCC
* * *
128863 CCATGAATGGGTACCGATACCC
1 CTATGAATGGGTATCAATACCC
128885 CTATGAATGGGTATCAATACCC
1 CTATGAATGGGTATCAATACCC
128907 CTAT
1 CTAT
128911 AAAGGCTCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (22 bp):
CTATGAATGGGTATCAATACCC
Found at i:128959 original size:19 final size:19
Alignment explanation
Indices: 128935--128989 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
128925 CGAATGAAAA
128935 AAGGGTATCGATACCATGC
1 AAGGGTATCGATACCATGC
128954 AAGGGTATCGATACCATGC
1 AAGGGTATCGATACCATGC
*
128973 AAGGGTATCAATACCAT
1 AAGGGTATCGATACCAT
128990 AGTGCAAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (19 bp):
AAGGGTATCGATACCATGC
Found at i:130521 original size:2 final size:2
Alignment explanation
Indices: 130516--130541 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
130506 TCTCACACAC
130516 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
130542 TAATGAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:136514 original size:36 final size:36
Alignment explanation
Indices: 136473--136786 Score: 134
Period size: 38 Copynumber: 8.5 Consensus size: 36
136463 TTTTTTTTAG
*
136473 TATATATTATATATAGTTTG-AAATCATTTTAGAAAT
1 TATATATTATATATAGTTTGAAAAGCATTTT-GAAAT
* * *
136509 TATATA--ATATATGGATTTTAGAAA-TATTTTTCGAAAACT
1 TATATATTATATATAG-TTTGA-AAAGCA-TTTT-G-AAA-T
* *
136548 TATGTA-TATATATAGTTTTTGAAAAGCATTTTGAAAAA
1 TATATATTATATATAG--TTTGAAAAGCATTTTG-AAAT
* * * *
136586 TATATATAATATATAGTTTTTGAAAAACGTTTTGAAAA
1 TATATATTATATATAG--TTTGAAAAGCATTTTGAAAT
* *
136624 TATATATTATATAGT-TTTTGAAAAGCATTTTAAAAAT
1 TATATATTATATA-TAGTTTGAAAAGCATTTT-GAAAT
* * *
136661 ATATATATTATATGGT-TTTTGAAAAACATTTTGAAA-
1 -TATATATTATAT-ATAGTTTGAAAAGCATTTTGAAAT
* ** *
136697 -ATATA--ATATATAGTTTTTAAAAATTATTTTGAAAG
1 TATATATTATATATAG--TTTGAAAAGCATTTTGAAAT
* * * *
136732 TATATAATATATA-ATTTTTAAAA-CATTTTTTGAAAA
1 TATATATTATATATAGTTTGAAAAGCA--TTTTGAAAT
136768 TATATA-TATTATATAGTTT
1 TATATATTA-TATATAGTTT
136787 TAAATTTTTT
Statistics
Matches: 220, Mismatches: 33, Indels: 49
0.73 0.11 0.16
Matches are distributed among these distances:
31 1 0.00
32 4 0.02
34 29 0.13
35 12 0.05
36 43 0.20
37 19 0.09
38 57 0.26
39 36 0.16
40 14 0.06
41 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (36 bp):
TATATATTATATATAGTTTGAAAAGCATTTTGAAAT
Found at i:136636 original size:38 final size:37
Alignment explanation
Indices: 136473--136787 Score: 287
Period size: 36 Copynumber: 8.5 Consensus size: 37
136463 TTTTTTTTAG
* *
136473 TATATATTATATATAG--TTTG-AAATCATTTTAGAAAT
1 TATATA-TATATATAGTTTTTGAAAAACATTTT-GAAAA
* * * *
136509 TATATA-ATATATGGATTTTAGAAATA-TTTTTCGAAAA
1 TATATATATATATAG-TTTTTGAAAAACATTTT-GAAAA
* *
136546 CTTATGTATATATATAGTTTTTGAAAAGCATTTTGAAAAA
1 --TATATATATATATAGTTTTTGAAAAACATTTTG-AAAA
*
136586 TATATATAATATATAGTTTTTGAAAAACGTTTTGAAAA
1 TATATAT-ATATATAGTTTTTGAAAAACATTTTGAAAA
* *
136624 TATATAT-TATATAGTTTTTGAAAAGCATTTTAAAAA
1 TATATATATATATAGTTTTTGAAAAACATTTTGAAAA
*
136660 TATATATATTATATGGTTTTTGAAAAACATTTTG-AAA
1 TATATATA-TATATAGTTTTTGAAAAACATTTTGAAAA
* *
136697 -ATATA-ATATATAGTTTTT-AAAAATTATTTTGAAAG
1 TATATATATATATAGTTTTTGAAAAA-CATTTTGAAAA
*
136732 TATATA-ATATATAATTTTT--AAAACATTTTTTGAAAA
1 TATATATATATATAGTTTTTGAAAAACA--TTTTGAAAA
136768 TATATATATTATATAGTTTT
1 TATATATA-TATATAGTTTT
136788 AAATTTTTTT
Statistics
Matches: 231, Mismatches: 29, Indels: 36
0.78 0.10 0.12
Matches are distributed among these distances:
33 5 0.02
34 25 0.11
35 7 0.03
36 75 0.32
37 15 0.06
38 51 0.22
39 38 0.16
40 15 0.06
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (37 bp):
TATATATATATATAGTTTTTGAAAAACATTTTGAAAA
Found at i:136809 original size:36 final size:36
Alignment explanation
Indices: 136499--136837 Score: 147
Period size: 36 Copynumber: 9.1 Consensus size: 36
136489 TTTGAAATCA
* * * * * *
136499 TTTTAGAAATTATATAATATATGGATTTTAGAAATAT
1 TTTTGGAAAATATATATTATATAG-TTTTAAAAATTT
* * * ***
136536 TTTTCGAAAACTTATGTATATATATAGTTTTTGAAAAGCA
1 TTTTGGAAAA--TATATAT-TATATAG-TTTTAAAAATTT
* **
136576 TTTTGAAAAATATATATAATATATAGTTTTTGAAAAA-CG
1 TTTTGGAAAATATATAT--TATATAG-TTTT-AAAAATTT
* ***
136615 TTTT-GAAAATATATATTATATAGTTTTTGAAAAGCA
1 TTTTGGAAAATATATATTATATAG-TTTTAAAAATTT
** * **
136651 TTTTAAAAATATATATATTATATGGTTTTTGAAAAA-CA
1 TTTTGGAAA-ATATATATTATATAG-TTTT-AAAAATTT
*
136689 TTTT-GAAAATATA-A-TATATAGTTTTTAAAAATTA
1 TTTTGGAAAATATATATTATATAG-TTTTAAAAATTT
* * *
136723 TTTT-GAAAGTATATAATATATAATTTTTAAAACA-TT
1 TTTTGGAAAATATATATTATAT-AGTTTTAAAA-ATTT
* *
136759 TTTTGAAAATATATATATTATATAGTTTT-AAATTTT
1 TTTTGGAAA-ATATATATTATATAGTTTTAAAAATTT
* *
136795 TTTTGGGAAAATATATATTATATGATTTTTGAAAATATT
1 TTTT-GGAAAATATATATTATAT-AGTTTTAAAAAT-TT
136834 TTTT
1 TTTT
136838 ATTTTTTATT
Statistics
Matches: 245, Mismatches: 36, Indels: 40
0.76 0.11 0.12
Matches are distributed among these distances:
33 5 0.02
34 24 0.10
35 6 0.02
36 62 0.25
37 33 0.13
38 57 0.23
39 33 0.13
40 25 0.10
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (36 bp):
TTTTGGAAAATATATATTATATAGTTTTAAAAATTT
Found at i:136857 original size:8 final size:7
Alignment explanation
Indices: 136830--136870 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
136820 TTTTTGAAAA
136830 TATTTTT
1 TATTTTT
136837 TATTTTT
1 TATTTTT
*
136844 TATTATT
1 TATTTTT
136851 TATTTATT
1 TATTT-TT
136859 TATTTTCT
1 TATTTT-T
136867 TATT
1 TATT
136871 ATTATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
7 18 0.60
8 12 0.40
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (7 bp):
TATTTTT
Found at i:137900 original size:27 final size:29
Alignment explanation
Indices: 137865--137923 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
137855 ATTCAGTCCC
137865 TTTCATTATTATT-GTA-TATATA-TATTT
1 TTTCATTATTATTAGTATTAT-TAGTATTT
*
137892 TTTCTTTATTATTAGTATTATTAGTATTT
1 TTTCATTATTATTAGTATTATTAGTATTT
137921 TTT
1 TTT
137924 ATTTGTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 12 0.43
28 5 0.18
29 11 0.39
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.66
Consensus pattern (29 bp):
TTTCATTATTATTAGTATTATTAGTATTT
Found at i:137973 original size:27 final size:28
Alignment explanation
Indices: 137943--138000 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
137933 CTTAATCTCA
*
137943 TTTTATATCTTTGATT-TATTTTTATTT
1 TTTTATATCTTTGATTGTATTATTATTT
* *
137970 TTTTCTCTCTTTGATTGTATTATTATTT
1 TTTTATATCTTTGATTGTATTATTATTT
137998 TTT
1 TTT
138001 AGTTTATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (28 bp):
TTTTATATCTTTGATTGTATTATTATTT
Found at i:138028 original size:14 final size:14
Alignment explanation
Indices: 138011--138037 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
138001 AGTTTATTAT
138011 TTTTTTCTTCTTTG
1 TTTTTTCTTCTTTG
138025 TTTTTTCTTCTTT
1 TTTTTTCTTCTTT
138038 AACATTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTCTTTG
Found at i:148022 original size:202 final size:199
Alignment explanation
Indices: 147584--148094 Score: 598
Period size: 202 Copynumber: 2.6 Consensus size: 199
147574 TTTTTTTTGC
* * * *
147584 AATTTATAAGATTAGA-GATAGTATTGGAATTTATCTTTCAGTTGATGCTAATATCGACACATAT
1 AATTTATAAGATTAGAGGGTAGTATTGGAACTTATCTTTCAGTTGAGGCTAATATCGACACATAC
* * * *
147648 GAGACATTGT-AGTGGGGCAAAAATCGCGTTGAAAATTATTCCAAAGCTTGGTTTTGTGAATGAA
66 GAGACATTGTAAGCGGGGTAAAAATCGCATTGAAAATGATTCCAAAGCTTGGTTTTGTGAATGAA
* * * * * * * * * *
147712 GAACAAGTTAAAATGGCTTGTTAGGCATGTTCGAGGGGTATTTTCGAGAAGTTAATTGAGATTTT
131 AAAAAACTAAAAATGGCTTGATAGACATGTTCGAAGGGTATTTACGAGAAGTTAATCGAAATTTT
147777 TCAT
196 TCAT
* * * **
147781 AATTTATAAGATTAGAGACGTAGAATTTGAACTTATCTTTCAGTTGAGGCTAATATC-AGTGCAT
1 AATTTATAAGATTAGAG-GGTAGTATTGGAACTTATCTTTCAGTTGAGGCTAATATCGA-CACAT
* * * **
147845 ACGAGACATTGTAAGCGGCGTAAAAATCGCATTGAAAATGGTTCCAAAGTTTGGTTTTGTGCTTG
64 ACGAGACATTGTAAGCGGGGTAAAAATCGCATTGAAAATGATTCCAAAGCTTGGTTTTGTGAATG
* * * *
147910 AAAAAGAAACTAAAAATGGTTTGATAGACATGTTTGAAGGGTATTTAGGGGAAGTTAATCGAAAT
129 AAAAA-AAACTAAAAATGGCTTGATAGACATGTTCGAAGGGTATTTACGAGAAGTTAATCGAAAT
147975 GTTTTCAT
193 -TTTTCAT
* *
147983 AATTTATAAGATTAGAGGTGTTGTATTGGAACTTATCTTTCAGTTGAGGTTAATATCGACACATA
1 AATTTATAAGATTAGAGG-GTAGTATTGGAACTTATCTTTCAGTTGAGGCTAATATCGACACATA
* * * *
148048 CGAGACATAGTAAGCGGGGTTAAATTC-CAGTTGAAAATGATTTCAAA
65 CGAGACATTGTAAGCGGGGTAAAAATCGCA-TTGAAAATGATTCCAAA
148095 CCAAAAGAAA
Statistics
Matches: 260, Mismatches: 45, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
197 16 0.06
198 1 0.00
199 47 0.18
200 47 0.18
201 48 0.18
202 100 0.38
203 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.34
Consensus pattern (199 bp):
AATTTATAAGATTAGAGGGTAGTATTGGAACTTATCTTTCAGTTGAGGCTAATATCGACACATAC
GAGACATTGTAAGCGGGGTAAAAATCGCATTGAAAATGATTCCAAAGCTTGGTTTTGTGAATGAA
AAAAAACTAAAAATGGCTTGATAGACATGTTCGAAGGGTATTTACGAGAAGTTAATCGAAATTTT
TCAT
Found at i:155215 original size:15 final size:15
Alignment explanation
Indices: 155195--155231 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
155185 AAAATCAGAA
155195 ATTTTTTAAATAAGG
1 ATTTTTTAAATAAGG
155210 ATTTTTT-AATAAGG
1 ATTTTTTAAATAAGG
155224 ATTTTTTA
1 ATTTTTTA
155232 TAGTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (15 bp):
ATTTTTTAAATAAGG
Found at i:158498 original size:10 final size:10
Alignment explanation
Indices: 158485--158532 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
158475 CCCGTTGATC
158485 GTCGTTGACT
1 GTCGTTGACT
*
158495 GTCGTTAACT
1 GTCGTTGACT
* *
158505 GCCGTTGACC
1 GTCGTTGACT
158515 GTCG-TGACT
1 GTCGTTGACT
*
158524 GCCGTTGAC
1 GTCGTTGAC
158533 CAGAACTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.12, C:0.27, G:0.29, T:0.31
Consensus pattern (10 bp):
GTCGTTGACT
Found at i:158526 original size:19 final size:20
Alignment explanation
Indices: 158487--158533 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
158477 CGTTGATCGT
*
158487 CGTTGACTGTCGTTAACTGC
1 CGTTGACCGTCGTTAACTGC
*
158507 CGTTGACCGTCG-TGACTGC
1 CGTTGACCGTCGTTAACTGC
158526 CGTTGACC
1 CGTTGACC
158534 AGAACTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.13, C:0.30, G:0.28, T:0.30
Consensus pattern (20 bp):
CGTTGACCGTCGTTAACTGC
Found at i:160224 original size:350 final size:350
Alignment explanation
Indices: 159582--160282 Score: 1199
Period size: 350 Copynumber: 2.0 Consensus size: 350
159572 GCATCAGGGG
*
159582 AGATCAACTACTTTTATTTTGTATGAACATATATCTATATATGCTTTCAGTTGTATTTGGTGACA
1 AGATCAACTACTTTTATTTTGTACGAACATATATCTATATATGCTTTCAGTTGTATTTGGTGACA
* * * *
159647 TATTTTTCTATCGTATTTGATATAATCTTATTACTGATATTTTGTTCTGTAAATGTTTTATAAGG
66 TATTTTGCTATCGTATTTGATATAATCGTATTACTAATATTTTGTTCCGTAAATGTTTTATAAGG
159712 TTTTCTGTGATATTTTGATATGTATGTGTTTTACATGATTTTCAAAAATATGTATTAATATATGT
131 -TTTCTGTGATATTTTGATATGTATGTGTTTTACATGATTTTCAAAAATATGTATTAATATATGT
*
159777 TTATCGTATAAATACTTATTATGGATAAATTTCACATATTACTGAGAAATGGATTTCAACGTTGT
195 TTATCGTATAAATACTTATTATGGATAAATTTCACATATTACTGAGAAATGGATTTCAACATTGT
*
159842 TTTAAATATAAAAAGGAATCTCTGAATGGGATACGTGGCTGCTTAGGTTTTGGTCTAGCGTTCAG
260 TTTAAATATAAAAAGGAATCTCTGAATGGGATACGTGCCTGCTTAGGTTTTGGTCTAGCGTTCAG
*
159907 GCCGGGTCTAGGGGGTTACATTTGGT
325 GCCGAGTCTAGGGGGTTACATTTGGT
* *
159933 AGATCAACTACTTTTATTTTGTACGAACATATATCTCTATATGCTTTCAGTTTTATTTGGTGACA
1 AGATCAACTACTTTTATTTTGTACGAACATATATCTATATATGCTTTCAGTTGTATTTGGTGACA
159998 TGTATTTTGCTATCGTATTTGATATAATCGTATTACTAATATTTTGTTCCGTAAATGTTTTATAA
66 --TATTTTGCTATCGTATTTGATATAATCGTATTACTAATATTTTGTTCCGTAAATGTTTTATAA
* *
160063 GG-TT-TGTGATATTTTGATATGTATGTGTTTTACATGATTTTCTAAAATATGTATTAATATATT
129 GGTTTCTGTGATATTTTGATATGTATGTGTTTTACATGATTTTCAAAAATATGTATTAATATATG
* * *
160126 TTTATGGTATGAATACTTATTATGGATAAATTTCACATATTACTGAGACATGGATTTCAACATTG
194 TTTATCGTATAAATACTTATTATGGATAAATTTCACATATTACTGAGAAATGGATTTCAACATTG
* *
160191 TTTTAAATATAAACAGGAATCTCTGAATGGGATATGTGCCTGCTTAGGTTTTGGTCTAGCGTTCA
259 TTTTAAATATAAAAAGGAATCTCTGAATGGGATACGTGCCTGCTTAGGTTTTGGTCTAGCGTTCA
*
160256 GGCCGAGTCTATGGGGTTACATTTGGT
324 GGCCGAGTCTAGGGGGTTACATTTGGT
160283 GGCATCGGAG
Statistics
Matches: 330, Mismatches: 18, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
350 205 0.62
351 64 0.19
353 61 0.18
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (350 bp):
AGATCAACTACTTTTATTTTGTACGAACATATATCTATATATGCTTTCAGTTGTATTTGGTGACA
TATTTTGCTATCGTATTTGATATAATCGTATTACTAATATTTTGTTCCGTAAATGTTTTATAAGG
TTTCTGTGATATTTTGATATGTATGTGTTTTACATGATTTTCAAAAATATGTATTAATATATGTT
TATCGTATAAATACTTATTATGGATAAATTTCACATATTACTGAGAAATGGATTTCAACATTGTT
TTAAATATAAAAAGGAATCTCTGAATGGGATACGTGCCTGCTTAGGTTTTGGTCTAGCGTTCAGG
CCGAGTCTAGGGGGTTACATTTGGT
Found at i:174158 original size:23 final size:23
Alignment explanation
Indices: 174123--174166 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
174113 TAATATATAT
*
174123 ATATATATATATTTATAAATAAG
1 ATATATATATATTTAGAAATAAG
* *
174146 ATATTTATTTATTTAGAAATA
1 ATATATATATATTTAGAAATA
174167 TCAGAAAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATATATATATATTTAGAAATAAG
Found at i:174517 original size:22 final size:21
Alignment explanation
Indices: 174490--174542 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
174480 ATTATATGAC
174490 TATATAAATAATAATAATTAAA
1 TATATAAATAATAA-AATTAAA
*
174512 TATATAACAT-GTAAAATTAAA
1 TATATAA-ATAATAAAATTAAA
174533 -ATATAAATAA
1 TATATAAATAA
174543 CAATGACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.07
20 6 0.22
21 7 0.26
22 10 0.37
23 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
TATATAAATAATAAAATTAAA
Found at i:175855 original size:3 final size:3
Alignment explanation
Indices: 175847--175912 Score: 80
Period size: 3 Copynumber: 22.0 Consensus size: 3
175837 TTTTTATTAG
* *
175847 TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA GAA TAA -ATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* *
175892 TAA TAA TAT TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
175913 AAGCAAATGG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 53 0.96
4 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:176646 original size:119 final size:118
Alignment explanation
Indices: 176323--177002 Score: 823
Period size: 118 Copynumber: 5.7 Consensus size: 118
176313 TTAAATTAAA
*
176323 GTTGAACAAGTTCTTCTTATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* ** * * *** ** ** * *
176387 ACACTT-TTGAAAATATTGATGTTGATCTATCTCCTTCTCTGATAGAGTCATGTAAAAG
66 ACTCTTCCGGAAAA-GTTGATGTTGATCCATC-GAGT-GATGA-A-TTTGA-GCAAAAG
* * * * * *
176445 ATTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTTAGATAAGTTATTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
** *
176509 ACT-TTCTTTTGAAAAGTTGATGTTGATCCATCGAGTGATGAATTTGAGAAAAAG
66 ACTCTTC--CGGAAAAGTTGATGTTGATCCATCGAGTGATGAATTTGAGCAAAAG
* *
176563 GTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATAAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
*** *
176628 ACT-TTCTCTGGAAAAGTTGATGCAAATCCATCGAGTGATGAATTCGAGCAAAAG
66 ACTCTTC-C-GGAAAAGTTGATGTTGATCCATCGAGTGATGAATTTGAGCAAAAG
* * *
176682 GTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCATTCTTCATATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* *
176747 ACTCTTCCGGAAATGTTGATGTTGATCCATCGAGTGATGAATTTGGGCAAAAG
66 ACTCTTCCGGAAAAGTTGATGTTGATCCATCGAGTGATGAATTTGAGCAAAAG
*
176800 GTTGAACGAGTTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
1 GTTGAACAAGTTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
* * * ** *
176864 AACTCTTCCAGAAATGTTTATACTGATCCATCGAGTGATGAATTAGAGCAAAAG
65 AACTCTTCCGGAAAAGTTGATGTTGATCCATCGAGTGATGAATTTGAGCAAAAG
*
176918 GTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
*
176983 ACTCTTCCGGAAATGTTGAT
66 ACTCTTCCGGAAAAGTTGAT
177003 CCATTGAGTG
Statistics
Matches: 492, Mismatches: 57, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
117 1 0.00
118 264 0.54
119 137 0.28
120 4 0.01
121 5 0.01
122 56 0.11
123 18 0.04
124 7 0.01
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (118 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTCTTCCGGAAAAGTTGATGTTGATCCATCGAGTGATGAATTTGAGCAAAAG
Found at i:176774 original size:237 final size:235
Alignment explanation
Indices: 176440--177002 Score: 817
Period size: 237 Copynumber: 2.4 Consensus size: 235
176430 AGAGTCATGT
* * * * * * *
176440 AAAAGATTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTTAGATAAGTTATTCTCATT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATT
** *
176505 ATGAACT-TTCTTTTGAAAAGTTGATGTTGATCCATCGAGTGATGAATTTGAGAAAAAGGTTGAA
66 ATGAACTCTTC--CGGAAATGTTGATGTTGATCCATCGAGTGATGAATTTGAGAAAAAGGTTGAA
176569 CAAGTTCTTCTCATTATGAAC-TTCTTATTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT-T
129 CAAGTTCTTCTCATTATGAACTTTC-TATTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCT
* * *
176632 TCTCTGGAAAAGTTGATGCAAATCCATCGAGTGATGAATTCGAGC
193 TC-C-AGAAAAGTTGATACAAATCCATCGAGTGATGAATTAGAGC
* *
176677 AAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCATTCTTCATATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCAT
* *
176742 TATGAACTCTTCCGGAAATGTTGATGTTGATCCATCGAGTGATGAATTTGGGCAAAAGGTTGAAC
65 TATGAACTCTTCCGGAAATGTTGATGTTGATCCATCGAGTGATGAATTTGAGAAAAAGGTTGAAC
* * *
176807 GAGTTCTTCTCATTATGAACTTTCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTC
130 AAGTTCTTCTCATTATGAACTTTCTATTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTTC
* * **
176872 CAGAAATGTTTATACTGATCCATCGAGTGATGAATTAGAGC
195 CAGAAAAGTTGATACAAATCCATCGAGTGATGAATTAGAGC
*
176913 AAAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
176978 TATGAACTCTTCCGGAAATGTTGAT
65 TATGAACTCTTCCGGAAATGTTGAT
177003 CCATTGAGTG
Statistics
Matches: 294, Mismatches: 27, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
236 118 0.40
237 141 0.48
238 32 0.11
239 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (235 bp):
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTTCCGGAAATGTTGATGTTGATCCATCGAGTGATGAATTTGAGAAAAAGGTTGAACA
AGTTCTTCTCATTATGAACTTTCTATTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTTCC
AGAAAAGTTGATACAAATCCATCGAGTGATGAATTAGAGC
Found at i:177255 original size:22 final size:22
Alignment explanation
Indices: 177193--177255 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
177183 AAATATAATA
* * *
177193 AATCTTTCTTCTTTGAAAAGAG
1 AATCTATCATCTTTGAAGAGAG
* *
177215 AATCTATCATATTTTAAGAGAG
1 AATCTATCATCTTTGAAGAGAG
177237 AATCTATCATCTTTGAAGA
1 AATCTATCATCTTTGAAGA
177256 ATGTAGATGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (22 bp):
AATCTATCATCTTTGAAGAGAG
Found at i:177637 original size:20 final size:20
Alignment explanation
Indices: 177593--177637 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
177583 ATCGCAACAT
* *
177593 TGGTTTAACACCATAATTGC
1 TGGTTCAACACCATAATTAC
*
177613 CGGTTCAACACCATAATTAC
1 TGGTTCAACACCATAATTAC
177633 TGGTT
1 TGGTT
177638 TGTAAAACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (20 bp):
TGGTTCAACACCATAATTAC
Found at i:177940 original size:21 final size:22
Alignment explanation
Indices: 177890--177940 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
177880 TGTTTATATG
177890 AATGAATAAATTGAATTTAAAA
1 AATGAATAAATTGAATTTAAAA
*
177912 AATAAATAAATTGAATTTAAAA
1 AATGAATAAATTGAATTTAAAA
177934 AA-GAATA
1 AATGAATA
177941 CTTGGAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (22 bp):
AATGAATAAATTGAATTTAAAA
Found at i:188937 original size:20 final size:20
Alignment explanation
Indices: 188909--188953 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
188899 TTGAAAATAA
188909 AATAAAAATATTAAT-AAAAT
1 AATAAAAATATT-ATGAAAAT
*
188929 AATATAAATATTATGAAAAT
1 AATAAAAATATTATGAAAAT
188949 AATAA
1 AATAA
188954 GTATATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AATAAAAATATTATGAAAAT
Found at i:189476 original size:2 final size:2
Alignment explanation
Indices: 189463--189502 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
189453 TTTTAAGAAA
189463 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
189503 TATTTTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:189800 original size:2 final size:2
Alignment explanation
Indices: 189793--189834 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
189783 ATAGGATTTA
189793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
189834 A
1 A
189835 AAAATGAGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:191702 original size:38 final size:38
Alignment explanation
Indices: 191622--191757 Score: 168
Period size: 38 Copynumber: 3.5 Consensus size: 38
191612 ATTTAATTTA
191622 AAGAGGTTTAATTGTTGAA-TT-GAACAGTTATAAAAGTTG
1 AAGAGGTTTAATTGTTGAATTTAGAA-AG--ATAAAAGTTG
*
191661 AAGAGGCTTAATTGTTGAATTTAGAAAGATAAAAGTTG
1 AAGAGGTTTAATTGTTGAATTTAGAAAGATAAAAGTTG
* * * *
191699 AAGAGGTTTAATTTTTGAATTAAAAAAGATAAAAATTG
1 AAGAGGTTTAATTGTTGAATTTAGAAAGATAAAAGTTG
191737 AAGAGGTGTGTAATTGTTGAA
1 AAGAGGT-T-TAATTGTTGAA
191758 AAGGTTTAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
38 50 0.58
39 19 0.22
40 14 0.16
41 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.23, T:0.34
Consensus pattern (38 bp):
AAGAGGTTTAATTGTTGAATTTAGAAAGATAAAAGTTG
Found at i:201978 original size:19 final size:19
Alignment explanation
Indices: 201950--201992 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
201940 TCTGGTCAAA
*
201950 GTCAACGGGCATGTCAACG
1 GTCAACGGGCAGGTCAACG
*
201969 GTCAATGGGCAGGTCAACG
1 GTCAACGGGCAGGTCAACG
201988 GTCAA
1 GTCAA
201993 GTCAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.33, T:0.16
Consensus pattern (19 bp):
GTCAACGGGCAGGTCAACG
Found at i:202021 original size:19 final size:19
Alignment explanation
Indices: 201994--202030 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
201984 AACGGTCAAG
*
201994 TCAAAGTCAATGATTCAGT
1 TCAAAGTCAATGAATCAGT
*
202013 TCAAGGTCAATGAATCAG
1 TCAAAGTCAATGAATCAG
202031 ATAGATTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (19 bp):
TCAAAGTCAATGAATCAGT
Found at i:203471 original size:21 final size:22
Alignment explanation
Indices: 203425--203479 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
203415 TGTATGAACA
203425 GTATCGATACCATTAGGAAGGG
1 GTATCGATACCATTAGGAAGGG
*
203447 GTATCGATACCATT-GTGGA-GG
1 GTATCGATACCATTAG-GAAGGG
203468 GTATCGATACCA
1 GTATCGATACCA
203480 AGGAACATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (22 bp):
GTATCGATACCATTAGGAAGGG
Found at i:204745 original size:3 final size:3
Alignment explanation
Indices: 204739--204801 Score: 65
Period size: 3 Copynumber: 20.7 Consensus size: 3
204729 TTTCATTTTT
** * *
204739 TTA TTA TTA TTA TTA AAA TTA TCA TTA TTA TTA TATA TCA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA
204785 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
204802 TAAATAAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
2 1 0.02
3 42 0.86
4 6 0.12
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:208950 original size:6 final size:7
Alignment explanation
Indices: 208909--208949 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
208899 TTTTCATACA
208909 TGCA-TT
1 TGCATTT
208915 TGCATTT
1 TGCATTT
208922 TGCATCTT
1 TGCAT-TT
208930 TGCATTT
1 TGCATTT
208937 T-CATTT
1 TGCATTT
208943 TGCATTT
1 TGCATTT
208950 GTACTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 10 0.31
7 15 0.47
8 7 0.22
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.56
Consensus pattern (7 bp):
TGCATTT
Found at i:209070 original size:20 final size:20
Alignment explanation
Indices: 209045--209084 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
209035 TGCATCTTTG
* *
209045 CATTTTTATGTTTGTATTTA
1 CATTTTCATGTTTGCATTTA
*
209065 CATTTTCATTTTTGCATTTA
1 CATTTTCATGTTTGCATTTA
209085 TATCTTTGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.62
Consensus pattern (20 bp):
CATTTTCATGTTTGCATTTA
Found at i:209083 original size:34 final size:35
Alignment explanation
Indices: 209020--209092 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
209010 CATATTTACA
* * * *
209020 TTTGTATTTGCTTTTTGCATCTTTGCATTTTTATG
1 TTTGTATTTACATTTTGCATCTTTGCATTTATATC
*
209055 TTTGTATTTACATTTT-CATTTTTGCATTTATATC
1 TTTGTATTTACATTTTGCATCTTTGCATTTATATC
209089 TTTG
1 TTTG
209093 CATAATTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
34 19 0.58
35 14 0.42
ACGTcount: A:0.15, C:0.11, G:0.11, T:0.63
Consensus pattern (35 bp):
TTTGTATTTACATTTTGCATCTTTGCATTTATATC
Found at i:214916 original size:75 final size:72
Alignment explanation
Indices: 214742--214934 Score: 232
Period size: 71 Copynumber: 2.7 Consensus size: 72
214732 AACAAAAAGA
* * * *
214742 AAATGTTGGGGCATACTGAAAGCTCATTTCAATTAG-AATCAGGAATATTGATGCATTTTGAATC
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATC-GGAATATTGATACATTTTGAATC
214806 ACGTCAAC
65 ACGTCAAC
* *
214814 AAATGTT-GGGCATGCTGAAAGGCCATTTCAATCAGAAATCGGAATATTGGTACATTTTGAACGT
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATCGGAATATTGATACATTTTGAA--T
*
214878 C-TGT-ATTAGC
64 CACGTCA--A-C
*
214888 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATA
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATCGGAATA
214935 ACATTTTGAA
Statistics
Matches: 105, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
71 44 0.42
72 13 0.12
73 3 0.03
74 8 0.08
75 37 0.35
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (72 bp):
AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATCGGAATATTGATACATTTTGAATCA
CGTCAAC
Found at i:216298 original size:22 final size:22
Alignment explanation
Indices: 216268--216346 Score: 140
Period size: 22 Copynumber: 3.6 Consensus size: 22
216258 ACATCTACAT
216268 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
216290 TCTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
216312 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
216334 TTTTCAAAGATGA
1 TCTTCAAAGATGA
216347 AAGCTTTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:217138 original size:45 final size:45
Alignment explanation
Indices: 217005--217272 Score: 443
Period size: 45 Copynumber: 6.0 Consensus size: 45
216995 CTATTTCCCA
217005 CATCTGTAAGCCCTTCAGTGCATGATGTTTT-AAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
217049 CATCTATAAGCCCTTCAGTGCATGA-GTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
217093 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
217138 CATATGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
217183 CATCTGTAAGCCTTTCAGTGCATGATGTTTTCAAAACATTC-GGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
217227 CATCTGCAAGCCCTTCAGTGTATGATGTTTTCAAAATGCCTTCGGG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA--CCTTCGGG
217273 AGCTTATTGA
Statistics
Matches: 209, Mismatches: 10, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
43 5 0.02
44 97 0.46
45 101 0.48
46 4 0.02
47 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:217158 original size:89 final size:90
Alignment explanation
Indices: 217005--217272 Score: 443
Period size: 89 Copynumber: 3.0 Consensus size: 90
216995 CTATTTCCCA
*
217005 CATCTGTAAGCCCTTCAGTGCATGATGTTTT-AAAACCTTCGGGTCATCTATAAGCCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
217069 CATGA-GTTTTCAAAACCTTCGGGT
66 CATGATGTTTTCAAAACCTTCGGGT
*
217093 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
217158 CATGATGTTTTCAAAACCTTCGGGT
66 CATGATGTTTTCAAAACCTTCGGGT
* * *
217183 CATCTGTAAGCCTTTCAGTGCATGATGTTTTCAAAACATTC-GGTCATCTGCAAGCCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
*
217247 TATGATGTTTTCAAAATGCCTTCGGG
66 CATGATGTTTTCAAAA--CCTTCGGG
217273 AGCTTATTGA
Statistics
Matches: 169, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
88 31 0.18
89 72 0.43
90 58 0.34
91 8 0.05
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (90 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
CATGATGTTTTCAAAACCTTCGGGT
Found at i:217337 original size:76 final size:74
Alignment explanation
Indices: 217250--217421 Score: 220
Period size: 76 Copynumber: 2.3 Consensus size: 74
217240 TTCAGTGTAT
*
217250 GATGTTTTCAAAATGCCTTCGGGAGCTTATTGATGTTTGCAAAACCTTCGGGTCATCCATAAGAC
1 GATGTTTTCAAAA-GCCTTCGGGAGCTTATTGATGTTTGCAAAACCTT-GGCTCATCCATAAGAC
217315 CTGCAGTACAG
64 CTGCAGTACAG
* * * ** *
217326 GATGTTTTCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAACCTTGGCTCATCTGTAAGTCC
1 GATGTTTTC-AAAAGCCTTCGGGAGCTTATTGATGTTTGCAAAACCTTGGCTCATCCATAAGACC
* * *
217391 TTCAGTGCAT
65 TGCAGTACAG
217401 GATGTTTTCAAAA-CCTTCGGG
1 GATGTTTTCAAAAGCCTTCGGG
217422 TCATCTGTAA
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
73 7 0.08
74 4 0.05
75 29 0.35
76 40 0.48
77 4 0.05
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (74 bp):
GATGTTTTCAAAAGCCTTCGGGAGCTTATTGATGTTTGCAAAACCTTGGCTCATCCATAAGACCT
GCAGTACAG
Found at i:217404 original size:120 final size:121
Alignment explanation
Indices: 217280--217528 Score: 401
Period size: 120 Copynumber: 2.1 Consensus size: 121
217270 GGGAGCTTAT
217280 TGATGTTTGCAAAACCTTCGGGTCATCCATAAGACCTGCAGTACAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTGCAAAACCTTCGGGTCATCCATAAGACCTGCAGTACAGGATGTTTTCAAAAAGCCTT
*
217345 CGAGAGCTTTTTGATGTTTTCAAAACCTT-GGCTCATCTGTAAGTCCTTCAGTGCA
66 CGAGAGCTTTTTGATGTTTTCAAAACCTTCGGCTCATCTGTAAGCCCTTCAGTGCA
* ** * * * *
217400 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATGTTTGCAAAACCTTCGGGTCATCCATAAGACCTGCAGTACAGGATGTTTTCAAAAAGCCTT
* *
217465 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
66 CGAGAGCTTTTTGATGTTTTCAAAACCTTCGGCTCATCTGTAAGCCCTTCAGTGCA
217521 TGATGTTT
1 TGATGTTT
217529 TCAACATTTC
Statistics
Matches: 118, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
120 86 0.73
121 32 0.27
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (121 bp):
TGATGTTTGCAAAACCTTCGGGTCATCCATAAGACCTGCAGTACAGGATGTTTTCAAAAAGCCTT
CGAGAGCTTTTTGATGTTTTCAAAACCTTCGGCTCATCTGTAAGCCCTTCAGTGCA
Found at i:217440 original size:45 final size:45
Alignment explanation
Indices: 217356--217468 Score: 183
Period size: 45 Copynumber: 2.5 Consensus size: 45
217346 GAGAGCTTTT
* *
217356 TGATGTTTTCAAAACCTT-GGCTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
217400 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
217445 TGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
217469 AGCTTTTTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
44 18 0.28
45 34 0.53
46 4 0.06
47 8 0.12
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:217494 original size:196 final size:196
Alignment explanation
Indices: 217160--217532 Score: 597
Period size: 196 Copynumber: 1.9 Consensus size: 196
217150 CTTCAGTGCA
*
217160 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCTTTCAGTGCATGATGTTTTCAAAACATTCG
1 TGATGTTTTCAAAACCTTCGGCTCATCTGTAAGCCTTTCAGTGCATGATGTTTTCAAAACATTCG
* *
217225 GTCATCTGCAAGCCCTTCAGTGTATGATGTTTTCAAAATGCCTTCGGGAGCTTATTGATGTTTGC
66 GTCATCTGCAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTATTGATGTTTGC
217290 AAAACCTTCGGGTCATCCATAAGACCTGCAGTACAGGATGTTTTCAAAAAGCCTTCGAGAGCTTT
131 AAAACCTTCGGGTCATCCATAAGACCTGCAGTACAGGATGTTTTCAAAAAGCCTTCGAGAGCTTT
217355 T
196 T
*
217356 TGATGTTTTCAAAACCTT-GGCTCATCTGTAAGTCC-TTCAGTGCATGATGTTTTCAAAACCTTC
1 TGATGTTTTCAAAACCTTCGGCTCATCTGTAAG-CCTTTCAGTGCATGATGTTTTCAAAACATTC
* *
217419 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTT
65 -GGTCATCTGCAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTATTGATGTTT
* ** * * * *
217484 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
129 GCAAAACCTTCGGGTCATCCATAAGACCTGCAGTACAGGATGTTTTCAA
217533 CATTTCCAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
195 40 0.25
196 122 0.75
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (196 bp):
TGATGTTTTCAAAACCTTCGGCTCATCTGTAAGCCTTTCAGTGCATGATGTTTTCAAAACATTCG
GTCATCTGCAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTATTGATGTTTGC
AAAACCTTCGGGTCATCCATAAGACCTGCAGTACAGGATGTTTTCAAAAAGCCTTCGAGAGCTTT
T
Found at i:217666 original size:3 final size:3
Alignment explanation
Indices: 217658--217723 Score: 80
Period size: 3 Copynumber: 21.7 Consensus size: 3
217648 TCATTTCATT
** *
217658 TTA TTA TTA TTA TTA TTA TTA AAA TTA TCA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
217704 -TA TATA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TT
217724 TAAATAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 46 0.85
4 6 0.11
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:219140 original size:3 final size:3
Alignment explanation
Indices: 219132--219158 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
219122 TTTTTAATTA
219132 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
219159 TAGTCATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:219250 original size:13 final size:13
Alignment explanation
Indices: 219234--219263 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
219224 TAAAATCCTA
219234 TTTATAAATTAAT
1 TTTATAAATTAAT
*
219247 TTTATAAATTACT
1 TTTATAAATTAAT
219260 TTTA
1 TTTA
219264 AATTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTATAAATTAAT
Found at i:219396 original size:21 final size:21
Alignment explanation
Indices: 219354--219396 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
219344 ATATTCTTAA
* *
219354 ATAAATAAATATCTTATTTTT
1 ATAAATAAATATATTATATTT
219375 ATAAATTAAATATATTA-ATTT
1 ATAAA-TAAATATATTATATTT
219396 A
1 A
219397 ATTTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAATAAATATATTATATTT
Found at i:222884 original size:22 final size:21
Alignment explanation
Indices: 222841--222895 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
222831 TGTATGAATA
222841 GTATCGATACCATTAGGAAGGG
1 GTATCGATACCATTAGGAA-GG
*
222863 GTATCGATACCATT-GTGGAGG
1 GTATCGATACCATTAG-GAAGG
*
222884 GTATTGATACCA
1 GTATCGATACCA
222896 GGGAACATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (21 bp):
GTATCGATACCATTAGGAAGG
Found at i:223859 original size:28 final size:28
Alignment explanation
Indices: 223824--223888 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
223814 AGAGTAGTCA
*
223824 TTCGGGACATATGTGCTATATGTGGTCC
1 TTCGGGACATATGTGCTATATATGGTCC
* *
223852 TTTGGGACATATGTGTTATATATGGTCC
1 TTCGGGACATATGTGCTATATATGGTCC
223880 TTCGGGACA
1 TTCGGGACA
223889 AATTTCTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.37
Consensus pattern (28 bp):
TTCGGGACATATGTGCTATATATGGTCC
Found at i:229446 original size:16 final size:15
Alignment explanation
Indices: 229420--229449 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
229410 GCCATAGTTT
229420 ATAAACAGTAAATCA
1 ATAAACAGTAAATCA
229435 ATAAATCAGTAAATC
1 ATAAA-CAGTAAATC
229450 TGTAATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (15 bp):
ATAAACAGTAAATCA
Found at i:230319 original size:27 final size:27
Alignment explanation
Indices: 230268--230327 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
230258 AGGGCTTAGA
*
230268 GGTATTTGGGTCATTTTACACTTC-AG
1 GGTATTTAGGTCATTTTACACTTCAAG
230294 TGGTATTTAGGTCATTTTACGA-TTCAAG
1 -GGTATTTAGGTCATTTTAC-ACTTCAAG
230322 GGTATT
1 GGTATT
230328 ACAGTCCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.22, C:0.12, G:0.23, T:0.43
Consensus pattern (27 bp):
GGTATTTAGGTCATTTTACACTTCAAG
Found at i:233576 original size:31 final size:31
Alignment explanation
Indices: 233540--233635 Score: 90
Period size: 32 Copynumber: 3.1 Consensus size: 31
233530 AAATTTTTGG
* *
233540 TTTCAATTAGACACTTGAATTTGA-TTTTAA
1 TTTCAATTAGATACTTGAATTTAACTTTTAA
* *
233570 TGTTCAATGT-GATACTT-AATTTTCATTTTTAA
1 T-TTCAAT-TAGATACTTGAA-TTTAACTTTTAA
*
233602 TCTCTAATTAGATACTTGAATTTAACTTTTAA
1 TTTC-AATTAGATACTTGAATTTAACTTTTAA
233634 TT
1 TT
233636 CAAAACATAG
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
30 3 0.06
31 19 0.36
32 29 0.55
33 2 0.04
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.50
Consensus pattern (31 bp):
TTTCAATTAGATACTTGAATTTAACTTTTAA
Found at i:250013 original size:30 final size:30
Alignment explanation
Indices: 249957--250108 Score: 134
Period size: 30 Copynumber: 5.1 Consensus size: 30
249947 TTAACACTAG
*
249957 GTTGAACC-ACCTGAAACT-AAATTTAATGAT
1 GTTG-ACCAACCTGAACCTGAAA-TTAATGAT
249987 GTTGACCAACCT-AAGCCTGAAATTAATGAT
1 GTTGACCAACCTGAA-CCTGAAATTAATGAT
* * *
250017 AG-TGAACC-ACCTGAACATGAATTTAATGAG
1 -GTTG-ACCAACCTGAACCTGAAATTAATGAT
* * *
250047 GCTAACCAGCCTGAACCTGAAATTAATGAT
1 GTTGACCAACCTGAACCTGAAATTAATGAT
* * *
250077 GGTGAACAACCTAAACCTGAAATTAATGAT
1 GTTGACCAACCTGAACCTGAAATTAATGAT
250107 GT
1 GT
250109 CGAACTTGAA
Statistics
Matches: 99, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
29 9 0.09
30 81 0.82
31 9 0.09
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (30 bp):
GTTGACCAACCTGAACCTGAAATTAATGAT
Found at i:250040 original size:60 final size:60
Alignment explanation
Indices: 249959--250108 Score: 178
Period size: 60 Copynumber: 2.5 Consensus size: 60
249949 AACACTAGGT
* *
249959 TGAACCACCTGAA-ACTAAATTTAATGATGTTGACCAACCT-AAGCCTGAAATTAATGATAG
1 TGAACCACCTGAACA-TGAATTTAATGATGTTAACCAACCTGAA-CCTGAAATTAATGATAG
* * * *
250019 TGAACCACCTGAACATGAATTTAATGAGGCTAACCAGCCTGAACCTGAAATTAATGATGG
1 TGAACCACCTGAACATGAATTTAATGATGTTAACCAACCTGAACCTGAAATTAATGATAG
* * * *
250079 TGAACAACCTAAACCTGAAATTAATGATGT
1 TGAACCACCTGAACATGAATTTAATGATGT
250109 CGAACTTGAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
60 73 0.96
61 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (60 bp):
TGAACCACCTGAACATGAATTTAATGATGTTAACCAACCTGAACCTGAAATTAATGATAG
Found at i:250621 original size:25 final size:25
Alignment explanation
Indices: 250587--250638 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
250577 TGGACTCAAG
*
250587 CCTACAGACTCATGTGTACCTTATA
1 CCTACAGACTCATGTGTACCTCATA
*
250612 CCTACAGACTCATGTGTGCCTCATA
1 CCTACAGACTCATGTGTACCTCATA
250637 CC
1 CC
250639 ATAAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (25 bp):
CCTACAGACTCATGTGTACCTCATA
Found at i:256885 original size:3 final size:3
Alignment explanation
Indices: 256877--256906 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
256867 GGAAACTAAT
*
256877 AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
256907 GTGGGTGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:257466 original size:24 final size:23
Alignment explanation
Indices: 257421--257470 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
257411 AATAATGAAG
257421 TAAATAAAATAGATAAACAAAAA
1 TAAATAAAATAGATAAACAAAAA
*
257444 TAAATAAAAGTTAG-TAAAGAAAAA
1 TAAATAAAA--TAGATAAACAAAAA
257468 TAA
1 TAA
257471 TGAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 12 0.50
25 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (23 bp):
TAAATAAAATAGATAAACAAAAA
Found at i:258821 original size:3 final size:3
Alignment explanation
Indices: 258788--258849 Score: 72
Period size: 3 Copynumber: 20.3 Consensus size: 3
258778 GCAAAATCAT
* * *
258788 TAA T-A TAA TTAA TAA AAA TAT TAA CAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
258833 TAA TAA TAA TAAA TAA T
1 TAA TAA TAA T-AA TAA T
258850 TATACGATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:259312 original size:106 final size:106
Alignment explanation
Indices: 259110--259988 Score: 1389
Period size: 106 Copynumber: 8.4 Consensus size: 106
259100 GTGCTGTTTC
* * * *
259110 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-TGA-AA--T-TTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* * * * *
259169 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * * *
259211 G-GTCCAAGATCCTTCGCTGAGAAGTCGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
259275 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
259316 GAGTCCAATATCCTTCGCTGAGAAGTTGAAATTGGCTCTAAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
259381 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
259422 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGGTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
259487 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
259528 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAA-ATGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
259592 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
259633 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
259698 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
259739 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAA-ATGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
259803 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
259844 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
259909 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
259950 GAGTCCAATATCCTTCGTTGTGAAGTTGAATTTGGCTCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
259989 AAAGACTGTA
Statistics
Matches: 728, Mismatches: 41, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
100 33 0.05
101 3 0.00
102 2 0.00
103 2 0.00
105 206 0.28
106 482 0.66
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:259681 original size:211 final size:211
Alignment explanation
Indices: 259110--259988 Score: 1437
Period size: 211 Copynumber: 4.2 Consensus size: 211
259100 GTGCTGTTTC
* * * *
259110 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAAT-TTTGTTGACAAT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATGTTTATTGACAAC
* * * * * *
259170 CAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG-GTCCAAGATCCTTCGCTGAGAA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCGCTGTGAA
* * *
259234 GTCGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
130 GTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
259299 TGAACTTGCGTTGTCTG
195 TGAACTTGCGTTGTCTG
* * * * *
259316 GAGTCCAATATCCTTCGCTGAGAAGTTGAAATTGGCTCTAAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAA-TGTTTATTGACAA
259381 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* *
259446 GTTGAAATTGGCTCTGAGATTGAGAAGTTGGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
130 GTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
259511 TGAACTTGCGTTGTCTA
195 TGAACTTGCGTTGTCTG
259528 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATGTTTATTGACAAC
*
259593 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* *
259658 TTGAAATTGACTCTGAAATTGAGAAGTTGGTTATTGACAACCAGTGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
259723 GAACTTGCGTTGTCTG
196 GAACTTGCGTTGTCTG
259739 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATGTTTATTGACAAC
*
259804 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
* *
259869 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
259934 GAACTTGCGTTGTCTG
196 GAACTTGCGTTGTCTG
* *
259950 GAGTCCAATATCCTTCGTTGTGAAGTTGAATTTGGCTCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCT
259989 AAAGACTGTA
Statistics
Matches: 631, Mismatches: 35, Indels: 9
0.93 0.05 0.01
Matches are distributed among these distances:
206 36 0.06
207 2 0.00
208 1 0.00
210 4 0.01
211 402 0.64
212 186 0.29
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (211 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
TTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTGCGTTGTCTG
Found at i:259735 original size:317 final size:315
Alignment explanation
Indices: 259110--259991 Score: 1421
Period size: 317 Copynumber: 2.8 Consensus size: 315
259100 GTGCTGTTTC
* *
259110 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA-TGA-AATT-TTGTTGACAATCA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATTGAGAATTGTTGTTGACAACCA
* * * * * * * * * *
259172 GCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGGGTCCAAGATCCTTCGCTGAGAAGTC
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTT
*
259237 GAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
* * *
259302 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGAGAAGTTGAAATTGGCTCTAAAATTGGGAAA
196 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAA
*
259367 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
261 TTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
259422 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGGTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-ATTGAGAA-TT-GTTGTTGACAA
259487 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAA
63 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAA
* *
259552 GTTGAAATTGACTCTGAAATTGAGAA-ATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
128 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
259616 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAG
193 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAG
* *
259681 AAGTTGGTTATTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
258 AAATTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
259739 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AATTGAGAATTG-TTGTTGACAAC
*
259804 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAG
*
259869 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
129 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
259934 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAATTTGGCTCTAAA
194 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAA
259992 GACTGTAACA
Statistics
Matches: 526, Mismatches: 35, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
312 39 0.07
313 1 0.00
314 3 0.01
315 3 0.01
316 101 0.19
317 290 0.55
318 89 0.17
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (315 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATTGAGAATTGTTGTTGACAACCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAA
TTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:263575 original size:24 final size:23
Alignment explanation
Indices: 263530--263579 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
263520 AATAATGAAG
263530 TAAATAAAATAGATAAACAAAAA
1 TAAATAAAATAGATAAACAAAAA
*
263553 TAAATAAAAGTTAG-TAAAGAAAAA
1 TAAATAAAA--TAGATAAACAAAAA
263577 TAA
1 TAA
263580 TGAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 12 0.50
25 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (23 bp):
TAAATAAAATAGATAAACAAAAA
Found at i:264934 original size:3 final size:3
Alignment explanation
Indices: 264901--264954 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
264891 GCAAAATCAT
* * *
264901 TAA T-A TAA TTAA TAA AAA TAT TAA CAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
264946 TAA TAA TAA
1 TAA TAA TAA
264955 ATAAATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:270135 original size:20 final size:20
Alignment explanation
Indices: 270110--270147 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
270100 TTTTGCCTCA
*
270110 ATTCATCTAATATCGATATT
1 ATTCATCCAATATCGATATT
*
270130 ATTCATCCAGTATCGATA
1 ATTCATCCAATATCGATA
270148 CATAAACCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (20 bp):
ATTCATCCAATATCGATATT
Found at i:276454 original size:31 final size:31
Alignment explanation
Indices: 276416--276484 Score: 138
Period size: 31 Copynumber: 2.2 Consensus size: 31
276406 ATGAATTTTG
276416 ATAAGTTTAGAGATCATTTTGTAATAATTCA
1 ATAAGTTTAGAGATCATTTTGTAATAATTCA
276447 ATAAGTTTAGAGATCATTTTGTAATAATTCA
1 ATAAGTTTAGAGATCATTTTGTAATAATTCA
276478 ATAAGTT
1 ATAAGTT
276485 AATGATAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (31 bp):
ATAAGTTTAGAGATCATTTTGTAATAATTCA
Found at i:276511 original size:30 final size:31
Alignment explanation
Indices: 276416--276511 Score: 124
Period size: 31 Copynumber: 3.1 Consensus size: 31
276406 ATGAATTTTG
*
276416 ATAAGTTTAGAGATCATTTTGTAATAATTCA
1 ATAAGTTTAGAGATAATTTTGTAATAATTCA
*
276447 ATAAGTTTAGAGATCATTTTGTAATAATTCA
1 ATAAGTTTAGAGATAATTTTGTAATAATTCA
* * *
276478 ATAAG-TTA-ATGATAATTTTGCAATAGTTTA
1 ATAAGTTTAGA-GATAATTTTGTAATAATTCA
276508 ATAA
1 ATAA
276512 AATTTAACCA
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
29 1 0.02
30 23 0.38
31 36 0.60
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (31 bp):
ATAAGTTTAGAGATAATTTTGTAATAATTCA
Found at i:277191 original size:118 final size:118
Alignment explanation
Indices: 276987--277441 Score: 420
Period size: 118 Copynumber: 3.9 Consensus size: 118
276977 TAAATAACTG
* * * *
276987 GTTAATTACTGGAAACATTATCAAGCATAATAATATATTATGTAGCGCTTATATAATGTAATAGG
1 GTTAATTACTGGAAACATTATCAAGCATAATAACATAATAGGTAACGCTTATATAATGTAATAGG
**
277052 TAGTTCCTTTTTAAAGATGATGGGGCTTTGGAAATCCGACGATAACATAACCA
66 TAGCGCCTTTTTAAAGATGATGGGGCTTTGGAAATCCGACGATAACATAACCA
* *
277105 GTTAATTACTGGAAACATTATCAAGCATAATAGCATAATAGGTAATGCTTATATAACT-TAATAG
1 GTTAATTACTGGAAACATTATCAAGCATAATAACATAATAGGTAACGCTTATATAA-TGTAATAG
* ** **
277169 GTAGCGCCTTTTTAAAGTTGATGGGGCTTTGGAAATTTGACGATAACA-AAATA
65 GTAGCGCCTTTTTAAAGATGATGGGGCTTTGGAAATCCGACGATAACATAACCA
* *** * * * * *
277222 GGTTAATTACT-TAATTTGTTAT-TAGTATTATCAACATATTAGGTAACGCCTA-A-AATGT--T
1 -GTTAATTACTGGAA-ACATTATCAAGCATAAT-AACATAATAGGTAACGCTTATATAATGTAAT
** ** * * * * * *
277281 A-CCAAAG----TTTAAA-TTGATAGAGCCTTAGAAATCCGACGATAACATAACCG
63 AGGTAGCGCCTTTTTAAAGATGATGGGGCTTTGGAAATCCGACGATAACATAACCA
* * *
277331 GTTAATTACTGGAAATATTATCAAGCATAATAACATATTAGGTAGA-GCTTATATAACGTAATAG
1 GTTAATTACTGGAAACATTATCAAGCATAATAACATAATAGGTA-ACGCTTATATAATGTAATAG
* *
277395 GTAGCGCCTTTTTAAAGCTGAT-GGGCTTTGGAAATCCGACGACAACA
65 GTAGCGCCTTTTTAAAGATGATGGGGCTTTGGAAATCCGACGATAACA
277442 AAATAGGTTA
Statistics
Matches: 264, Mismatches: 54, Indels: 39
0.74 0.15 0.11
Matches are distributed among these distances:
108 57 0.22
109 18 0.07
110 4 0.02
112 2 0.01
113 4 0.02
114 2 0.01
115 1 0.00
116 3 0.01
117 39 0.15
118 133 0.50
119 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (118 bp):
GTTAATTACTGGAAACATTATCAAGCATAATAACATAATAGGTAACGCTTATATAATGTAATAGG
TAGCGCCTTTTTAAAGATGATGGGGCTTTGGAAATCCGACGATAACATAACCA
Done.