Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 332 of 362
Found at i:110760100 original size:16 final size:16
Alignment explanation
Indices: 110760079--110760109 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
110760069 ATAAATTTGA
110760079 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
110760095 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
110760110 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:110770059 original size:12 final size:12
Alignment explanation
Indices: 110770033--110770070 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
110770023 TCAATTCGCC
*
110770033 TTTAT-TAAATT
1 TTTATATAATTT
*
110770044 TTTATATGATTT
1 TTTATATAATTT
110770056 TTTATATAATTT
1 TTTATATAATTT
110770068 TTT
1 TTT
110770071 TTAAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 5 0.22
12 18 0.78
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (12 bp):
TTTATATAATTT
Found at i:110774083 original size:12 final size:12
Alignment explanation
Indices: 110774068--110774092 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110774058 AAAATAAAAT
110774068 AAATATTTAACA
1 AAATATTTAACA
110774080 AAATATTTAACA
1 AAATATTTAACA
110774092 A
1 A
110774093 CATAGAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATTTAACA
Found at i:110777218 original size:39 final size:37
Alignment explanation
Indices: 110777151--110777229 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 37
110777141 AGATATAATA
* *
110777151 TTTTTTTTAAAACCAAAATTTATGAAACA-CGAGATT
1 TTTTTTTTAAAACCAAAATTTATAAAACACCGAAATT
110777187 TTTTTTTTGAAAACACGAAAATTT-TCAAAACACCGAAATT
1 TTTTTTTT-AAAAC-C-AAAATTTAT-AAAACACCGAAATT
110777227 TTT
1 TTT
110777230 GAAATCAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
36 8 0.22
37 5 0.14
38 2 0.06
39 12 0.33
40 9 0.25
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.39
Consensus pattern (37 bp):
TTTTTTTTAAAACCAAAATTTATAAAACACCGAAATT
Found at i:110777223 original size:18 final size:17
Alignment explanation
Indices: 110777191--110777281 Score: 92
Period size: 17 Copynumber: 5.2 Consensus size: 17
110777181 GAGATTTTTT
110777191 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* *
110777208 TTTTCAAAACACCGAAAT
1 TTTTGAAAACA-CGAAAA
* * **
110777226 TTTTGAAATCAAGAGGA
1 TTTTGAAAACACGAAAA
* *
110777243 TTTTTAAAATACGAAAAA
1 TTTTGAAAACACG-AAAA
110777261 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
110777278 TTTT
1 TTTT
110777282 TAGAAGACAC
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
17 29 0.52
18 27 0.48
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:110777281 original size:35 final size:35
Alignment explanation
Indices: 110777191--110777302 Score: 118
Period size: 35 Copynumber: 3.1 Consensus size: 35
110777181 GAGATTTTTT
* *
110777191 TTTTGAAAACACGAAAATTTTCAAAACACCG-AAAT
1 TTTTGAAAACACGAAAATTTTTAAAACA-CGAAAAA
* * ** *
110777226 TTTTGAAATCAAGAGGATTTTTAAAATACGAAAAA
1 TTTTGAAAACACGAAAATTTTTAAAACACGAAAAA
*
110777261 TTTTGAAAACACGAAAATTTTTAGAAGACACTAAAAA
1 TTTTGAAAACACGAAAATTTTTA-AA-ACACGAAAAA
110777298 TTTTG
1 TTTTG
110777303 GAAATGGATT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
34 2 0.03
35 44 0.72
36 2 0.03
37 13 0.21
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (35 bp):
TTTTGAAAACACGAAAATTTTTAAAACACGAAAAA
Found at i:110777282 original size:18 final size:18
Alignment explanation
Indices: 110777190--110777302 Score: 97
Period size: 18 Copynumber: 6.3 Consensus size: 18
110777180 CGAGATTTTT
110777190 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
110777208 -TTTTCAAAACACCG-AAA
1 TTTTTGAAAACA-CGAAAA
* * **
110777225 TTTTTGAAATCAAGAGGA
1 TTTTTGAAAACACGAAAA
*
110777243 TTTTT-AAAATACGAAAA
1 TTTTTGAAAACACGAAAA
*
110777260 ATTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
110777278 TTTTTAGAAGACACTAAAA
1 TTTTT-GAAAACACGAAAA
*
110777297 ATTTTG
1 TTTTTG
110777303 GAAATGGATT
Statistics
Matches: 73, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
17 25 0.34
18 33 0.45
19 15 0.21
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:110777515 original size:20 final size:19
Alignment explanation
Indices: 110777477--110777523 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
110777467 GAATATATTT
110777477 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
110777497 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
110777516 -TTTTGAAA
1 TTTTTGAAA
110777524 AATAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:110777899 original size:8 final size:8
Alignment explanation
Indices: 110777886--110777976 Score: 87
Period size: 8 Copynumber: 11.0 Consensus size: 8
110777876 GAAACTCTTT
110777886 TTTTTTTC
1 TTTTTTTC
110777894 TTTTTTTC
1 TTTTTTTC
110777902 TTCTTTTTTCC
1 -T-TTTTTT-C
*
110777913 TTTTTTCC
1 TTTTTTTC
110777921 TTTTTTTC
1 TTTTTTTC
*
110777929 TCTTTTTTT
1 T-TTTTTTC
110777938 TTTTCTTTC
1 TTTT-TTTC
110777947 TTTTTTTC
1 TTTTTTTC
110777955 --TTTTTC
1 TTTTTTTC
* *
110777961 TTTCTCTC
1 TTTTTTTC
110777969 TTTTTTTC
1 TTTTTTTC
110777977 CTGGCCTGCT
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
6 6 0.09
8 34 0.50
9 20 0.29
10 7 0.10
11 1 0.01
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:110777910 original size:18 final size:17
Alignment explanation
Indices: 110777885--110777965 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 17
110777875 TGAAACTCTT
110777885 TTTTTTTTCTTTTTTTC
1 TTTTTTTTCTTTTTTTC
*
110777902 TTCTTTTTTCCTTTTTTCC
1 TT-TTTTTT-CTTTTTTTC
110777921 TTTTTTTCTCTTTTTTT-
1 TTTTTTT-TCTTTTTTTC
*
110777938 TTTTCTTTCTTTTTTTC
1 TTTTTTTTCTTTTTTTC
110777955 TTTTTCTTTCT
1 TTTTT-TTTCT
110777966 CTCTTTTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
16 9 0.16
17 12 0.22
18 23 0.42
19 11 0.20
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTTCTTTTTTTC
Found at i:110777924 original size:26 final size:26
Alignment explanation
Indices: 110777887--110777974 Score: 97
Period size: 26 Copynumber: 3.2 Consensus size: 26
110777877 AAACTCTTTT
110777887 TTTTTTCTTTTTTTCTTCTTTTTTCC
1 TTTTTTCTTTTTTTCTTCTTTTTTCC
**
110777913 TTTTTTCCTTTTTTTC-TCTTTTTTTT
1 TTTTTT-CTTTTTTTCTTCTTTTTTCC
*
110777939 TTTCTTTCTTTTTTTCTTTTTCTTTCTCTC
1 TTT-TTTCTTTTTTTCTTCTT-TTT-TC-C
110777969 TTTTTT
1 TTTTTT
110777975 TCCTGGCCTG
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
26 26 0.51
27 15 0.29
28 3 0.06
29 4 0.08
30 3 0.06
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTTCTTTTTTTCTTCTTTTTTCC
Found at i:110778127 original size:15 final size:15
Alignment explanation
Indices: 110778092--110778159 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
110778082 TTTTTTCTTC
110778092 TTTTTTTGGGC--CTT
1 TTTTTTTGGGCTGC-T
110778106 TTCTTTTTGGGCTGCT
1 TT-TTTTTGGGCTGCT
*** *
110778122 TTTTTTTGCTTTGGT
1 TTTTTTTGGGCTGCT
*
110778137 TTTTTTTGGGCTGAT
1 TTTTTTTGGGCTGCT
110778152 TTGTTTTT
1 TT-TTTTT
110778160 TTTTTTGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
14 2 0.05
15 31 0.74
16 8 0.19
17 1 0.02
ACGTcount: A:0.01, C:0.10, G:0.22, T:0.66
Consensus pattern (15 bp):
TTTTTTTGGGCTGCT
Found at i:110778299 original size:3 final size:3
Alignment explanation
Indices: 110778293--110778327 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
110778283 TTTTTTTTCT
*
110778293 TTC TTC TTC TTTC TTC TTA TTC TTC TTC TTC TTC T
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC T
110778328 CCTCCTACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:110778414 original size:17 final size:17
Alignment explanation
Indices: 110778392--110778442 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
110778382 GACGCCGGTA
110778392 CTCTTTCT-TTTCTTCTC
1 CTCTTTCTCTTT-TTCTC
110778409 CTCTTTCTCTTTTTCT-
1 CTCTTTCTCTTTTTCTC
110778425 CT-TTTCTTCTTTTT-TC
1 CTCTTTC-TCTTTTTCTC
110778441 CT
1 CT
110778443 TCGAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 5 0.16
16 11 0.35
17 12 0.39
18 3 0.10
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CTCTTTCTCTTTTTCTC
Found at i:110778721 original size:29 final size:29
Alignment explanation
Indices: 110778688--110778804 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
110778678 TGTAATTTTT
*
110778688 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
110778717 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
110778747 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
110778776 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
110778805 TTTATTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:110778743 original size:30 final size:30
Alignment explanation
Indices: 110778703--110778804 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
110778693 ATTTAGGATT
*
110778703 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
110778733 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
110778763 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
110778793 AAAATGCAATTT
1 AAAATGAAATTT
110778805 TTTATTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:110778826 original size:14 final size:15
Alignment explanation
Indices: 110778803--110778835 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
110778793 AAAATGCAAT
110778803 TTTTTATTTTTAAAA
1 TTTTTATTTTTAAAA
*
110778818 TTTTT-TTTTTGAAA
1 TTTTTATTTTTAAAA
110778832 TTTT
1 TTTT
110778836 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTTTATTTTTAAAA
Found at i:110779158 original size:54 final size:55
Alignment explanation
Indices: 110779076--110779187 Score: 181
Period size: 54 Copynumber: 2.1 Consensus size: 55
110779066 CACGTGAGCC
* * *
110779076 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
*
110779130 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
110779185 AAG
1 AAG
110779188 TAGAAATTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 37 0.70
55 16 0.30
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:110779185 original size:14 final size:14
Alignment explanation
Indices: 110779166--110779199 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
110779156 GAGTTGATTT
110779166 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
110779180 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
110779194 TTGAAA
1 TTGAAA
110779200 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.18, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:110779255 original size:142 final size:142
Alignment explanation
Indices: 110778991--110779267 Score: 325
Period size: 142 Copynumber: 1.9 Consensus size: 142
110778981 GTGATCCTGA
** *
110778991 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAGACATTAAAAATAGAAATTGAA
1 GCTCAACTCACCTCTCGCAATATGAATTGACTCTTTAAAACTAGAAATTAAAAATAGAAATTGAA
* *
110779056 AATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAA-A
66 AATACCTCAG-ACGT-AGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACA
110779119 CAGAATTTGCAAAG
129 CAGAATTTGCAAAG
* * * *
110779133 GCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTGAAAAAC-AGAAATTGAAAAGTAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAATTGACTCTTT--AAAACTAGAAATT-AAAAATAGAAATT
* *
110779196 G-AAATACCTCAG-CGT-GCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTG
63 GAAAATACCTCAGACGTAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTG
110779258 AAACACAGAA
124 AAACACAGAA
110779268 ATTAAAAACA
Statistics
Matches: 115, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
138 3 0.03
139 30 0.26
140 3 0.03
141 4 0.03
142 42 0.37
143 27 0.23
144 6 0.05
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (142 bp):
GCTCAACTCACCTCTCGCAATATGAATTGACTCTTTAAAACTAGAAATTAAAAATAGAAATTGAA
AATACCTCAGACGTAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACACA
GAATTTGCAAAG
Found at i:110779415 original size:85 final size:87
Alignment explanation
Indices: 110779131--110779536 Score: 465
Period size: 85 Copynumber: 4.6 Consensus size: 87
110779121 GAATTTGCAA
* **
110779131 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGTAGAAATT
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTGAAAAGCAGAAATTGAAAAACAGAAATT
110779196 G-AAATACCTCAGC-GT-GCCTG
65 GAAAATACCTCAGCTGTGGCCTG
110779216 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTGAAACA-CAGAAATT-AAAAACAG
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGA-----TTTTGAAA-AGCAGAAATTGAAAAACAG
* *
110779279 AATTTGAAAAGACCTCAGCGTGTGGCCTG
60 AAATTGAAAATACCTCAGC-TGTGGCCTG
* * * *
110779308 AGACTCAACTCACCTCTTGCAATATGAGTTGA-TTTGAAAAGTAG-AATTAGTAAAGCAGAAATT
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGAAAAGCAGAAATT-GAAAAACAGAAATT
110779371 GAAAATACCTCAGC-GT-GCCTTG
65 GAAAATACCTCAGCTGTGGCC-TG
* * * * *
110779393 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCATAGATTGAAAAAACATAAAT
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTGAAAAGCAGAAATTG-AAAAACAGAAAT
110779458 TGAAAATACCTCAGCATGTGAGCC-G
64 TGAAAATACCTCAGC-TGTG-GCCTG
* *
110779483 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGAAAAGCAGAAATTGAAAA
110779537 GGCTTAACTC
Statistics
Matches: 276, Mismatches: 24, Indels: 40
0.81 0.07 0.12
Matches are distributed among these distances:
84 3 0.01
85 70 0.25
86 9 0.03
87 38 0.14
88 38 0.14
89 43 0.16
90 34 0.12
91 2 0.01
92 39 0.14
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGAAAAGCAGAAATTGAAAAACAGAAATTG
AAAATACCTCAGCTGTGGCCTG
Found at i:110779492 original size:175 final size:173
Alignment explanation
Indices: 110779131--110779537 Score: 547
Period size: 175 Copynumber: 2.3 Consensus size: 173
110779121 GAATTTGCAA
*
110779131 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGTAGAAATT
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTGAAAAACAGAAATTGAAAAGCAGAAATT
* *
110779196 GAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTGAAA
65 GAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA---TTTTTTGAAA
* *
110779261 CACAGAAATTAAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTG
127 CACAGAAATTAAAAACAGAAATTGAAAAGACCTCAGCATGTGGCCTG
* ** *
110779308 AGACTCAACTCACCTCTTGCAATATGAGTTGA-TTTGAAAAGTAG-AATTAGTAAAGCAGAAATT
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGAAAAACAGAAATT-GAAAAGCAGAAATT
110779371 GAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTGAAA-
65 G-AAATACCTCAGCGTGCC-TGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAC
* * * *
110779434 AGCATAGATTGAAAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-G
128 A-CAGAAATT--AAAAACAGAAATTGAAAAGACCTCAGCATGTG-GCCTG
*
110779483 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAAG
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGAAAAACAGAAATTGAAAAG
110779538 GCTTAACTCA
Statistics
Matches: 203, Mismatches: 18, Indels: 20
0.84 0.07 0.08
Matches are distributed among these distances:
172 1 0.00
173 15 0.07
174 4 0.02
175 87 0.43
176 29 0.14
177 67 0.33
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (173 bp):
AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGAAAAACAGAAATTGAAAAGCAGAAATTG
AAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAACACA
GAAATTAAAAACAGAAATTGAAAAGACCTCAGCATGTGGCCTG
Found at i:110780055 original size:192 final size:191
Alignment explanation
Indices: 110779482--110780281 Score: 1480
Period size: 192 Copynumber: 4.2 Consensus size: 191
110779472 CATGTGAGCC
** *
110779482 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
110779547 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
110779612 ACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
110779673 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTG-AAAAC-AAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
* *
110779736 ACCTCTCGCAACATGAGTCAATTTAAAACATAAACTAAACATACCTCGGCGTG-CCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
110779800 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTT-TAAAATTTAAAAATACCTCAACGTGTCTT
110779862 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
110779927 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
110779992 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTT-AAAATTTAAAAATACCTCAACGTGTCTT
* *
110780054 GAGGCTCAACTCATTTATCGCAATATGAGTTGATTTTGAAAAATAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
110780119 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
110780184 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
110780245 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
110780282 CCTTGGAAAG
Statistics
Matches: 591, Mismatches: 13, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
188 42 0.07
189 137 0.23
190 10 0.02
191 170 0.29
192 232 0.39
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (191 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:110790074 original size:34 final size:34
Alignment explanation
Indices: 110789986--110790096 Score: 109
Period size: 34 Copynumber: 3.2 Consensus size: 34
110789976 ACGAATTTTT
* *
110789986 TTTTGAAAACAC-AAAATTTTCAAAACACCGAAAA
1 TTTTGAAAACACGAAAATTTTTAAAACA-CAAAAA
* * ** *
110790020 TTTTGAAATCAAGAGGATTTTTAAAATACAAAAA
1 TTTTGAAAACACGAAAATTTTTAAAACACAAAAA
110790054 TTTTGAAAACACGAAAA-TTTTAAAGACACTAAAAA
1 TTTTGAAAACACGAAAATTTTTAAA-ACAC-AAAAA
*
110790089 TTTGGAAA
1 TTTTGAAA
110790097 TGGATTTTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
33 7 0.11
34 31 0.51
35 23 0.38
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (34 bp):
TTTTGAAAACACGAAAATTTTTAAAACACAAAAA
Found at i:110790088 original size:18 final size:17
Alignment explanation
Indices: 110789986--110790096 Score: 84
Period size: 17 Copynumber: 6.5 Consensus size: 17
110789976 ACGAATTTTT
110789986 TTTTGAAAACAC-AAAA
1 TTTTGAAAACACAAAAA
* *
110790002 TTTTCAAAACACCGAAAA
1 TTTTGAAAACA-CAAAAA
* **
110790020 TTTTGAAATCA-AGAGGA
1 TTTTGAAAACACA-AAAA
* *
110790037 TTTTTAAAATACAAAAA
1 TTTTGAAAACACAAAAA
*
110790054 TTTTGAAAACACGAAAA
1 TTTTGAAAACACAAAAA
110790071 TTTT-AAAGACACTAAAAA
1 TTTTGAAA-ACAC-AAAAA
*
110790089 TTTGGAAA
1 TTTTGAAA
110790097 TGGATTTTTT
Statistics
Matches: 72, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
16 13 0.18
17 35 0.49
18 21 0.29
19 3 0.04
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (17 bp):
TTTTGAAAACACAAAAA
Found at i:110790654 original size:8 final size:8
Alignment explanation
Indices: 110790641--110790729 Score: 84
Period size: 8 Copynumber: 12.0 Consensus size: 8
110790631 ATTAAACTCT
110790641 TTTTTTTC
1 TTTTTTTC
110790649 TTTTTTTC
1 TTTTTTTC
*
110790657 -TTTTTCC
1 TTTTTTTC
*
110790664 TTTTTTCC
1 TTTTTTTC
110790672 TTTTTTTC
1 TTTTTTTC
*
110790680 --TCTTTC
1 TTTTTTTC
110790686 TTTTTTTC
1 TTTTTTTC
*
110790694 -TTCTTTC
1 TTTTTTTC
110790701 TTTTTTTC
1 TTTTTTTC
110790709 --TTTTTC
1 TTTTTTTC
*
110790715 -TTTCTTC
1 TTTTTTTC
110790722 TTTTTTTC
1 TTTTTTTC
110790730 CTGGCCTGCT
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
6 11 0.16
7 17 0.25
8 39 0.58
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:110790674 original size:23 final size:22
Alignment explanation
Indices: 110790641--110790726 Score: 97
Period size: 21 Copynumber: 4.0 Consensus size: 22
110790631 ATTAAACTCT
110790641 TTTTTTTCTTTTTTTCTTTTTCC
1 TTTTTTTCTTTTTTTCTTTTT-C
* *
110790664 TTTTTTCCTTTTTTTCTCTTTC
1 TTTTTTTCTTTTTTTCTTTTTC
*
110790686 TTTTTTTC-TTCTTTCTTTTT-
1 TTTTTTTCTTTTTTTCTTTTTC
*
110790706 TTCTTTTTC-TTTCTTCTTTTT
1 TT-TTTTTCTTTTTTTCTTTTT
110790727 TTCCTGGCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.04
21 26 0.47
22 8 0.15
23 19 0.35
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTTTCTTTTTTTCTTTTTC
Found at i:110790685 original size:29 final size:29
Alignment explanation
Indices: 110790653--110790731 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
110790643 TTTTTCTTTT
110790653 TTTCTTTTTCCTTTTTTCCTTTTTTTCTC
1 TTTCTTTTTCCTTTTTTCCTTTTTTTCTC
* * *
110790682 TTTCTTTTTTTCTTCTTT-CTTTTTTTCTT
1 TTTC-TTTTTCCTTTTTTCCTTTTTTTCTC
*
110790711 TTTCTTTCTTCTTTTTTTCCT
1 TTTCTTT-TTCCTTTTTTCCT
110790732 GGCCTGCTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
28 3 0.07
29 25 0.61
30 13 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (29 bp):
TTTCTTTTTCCTTTTTTCCTTTTTTTCTC
Found at i:110790692 original size:37 final size:37
Alignment explanation
Indices: 110790645--110790729 Score: 122
Period size: 37 Copynumber: 2.3 Consensus size: 37
110790635 AACTCTTTTT
110790645 TTTCTTTTTTTCTT-TTTCCTTTTTTCCTTTTT-TTCTC
1 TTTCTTTTTTTCTTCTTT-CTTTTTTCCTTTTTCTT-TC
*
110790682 TTTCTTTTTTTCTTCTTTCTTTTTTTCTTTTTCTTTC
1 TTTCTTTTTTTCTTCTTTCTTTTTTCCTTTTTCTTTC
110790719 -TTCTTTTTTTC
1 TTTCTTTTTTTC
110790730 CTGGCCTGCT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
36 11 0.24
37 29 0.64
38 5 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (37 bp):
TTTCTTTTTTTCTTCTTTCTTTTTTCCTTTTTCTTTC
Found at i:110790729 original size:15 final size:14
Alignment explanation
Indices: 110790641--110790726 Score: 95
Period size: 14 Copynumber: 5.9 Consensus size: 14
110790631 ATTAAACTCT
110790641 TTTTTTTCTTTTT-
1 TTTTTTTCTTTTTC
110790654 TTCTTTTTCCTTTTTTCC
1 TT-TTTTT-C-TTTTT-C
*
110790672 TTTTTTTCTCTTTC
1 TTTTTTTCTTTTTC
110790686 TTTTTTTCTTCTTTC
1 TTTTTTTCTT-TTTC
110790701 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
*
110790715 -TTTCTTCTTTTT
1 TTTTTTTCTTTTT
110790727 TTCCTGGCCT
Statistics
Matches: 64, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
13 13 0.20
14 19 0.30
15 19 0.30
16 6 0.09
17 5 0.08
18 2 0.03
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:110791003 original size:3 final size:3
Alignment explanation
Indices: 110790997--110791033 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
110790987 TTTTTCTTTT
*
110790997 TTC TTC TTC TTC TTTC TTC TTA TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC
110791034 CTCCTACACG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:110791011 original size:16 final size:16
Alignment explanation
Indices: 110790990--110791032 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
110790980 TAAGTTTTTT
* *
110790990 TTCTTTTTTCTTCTTC
1 TTCTTTCTTCTTATTC
110791006 TTCTTTCTTCTTATTC
1 TTCTTTCTTCTTATTC
110791022 TTC-TTCTTCTT
1 TTCTTTCTTCTT
110791033 CCTCCTACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (16 bp):
TTCTTTCTTCTTATTC
Found at i:110791137 original size:17 final size:19
Alignment explanation
Indices: 110791096--110791140 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
110791086 ACGCCGTACT
110791096 TTCTTTTCTTCTCCTCTTTC
1 TTCTTTT-TTCTCCTCTTTC
110791116 -T-TTTTTTCT-CT-TTTC
1 TTCTTTTTTCTCCTCTTTC
110791131 TTCTTTTTTC
1 TTCTTTTTTC
110791141 CTTCGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 4 0.17
16 3 0.13
17 11 0.48
18 4 0.17
19 1 0.04
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTCTTTTTTCTCCTCTTTC
Found at i:110791463 original size:30 final size:28
Alignment explanation
Indices: 110791355--110791472 Score: 114
Period size: 29 Copynumber: 4.1 Consensus size: 28
110791345 TAAATTAATT
* *
110791355 TTTAGAAAA-TTTAGGATTAAAATGAAA
1 TTTAGAAAAGTTTAGGGTCAAAATGAAA
* *
110791382 TTTA-ATGAAAGTTTAGGGTCTAAGTGAAA
1 TTTAGA--AAAGTTTAGGGTCAAAATGAAA
* *
110791411 TTTAAAGAAAGTTTAAGGTCAAAATGAAA
1 TTTAGA-AAAGTTTAGGGTCAAAATGAAA
*
110791440 TTTAGGAAAAGTTTAGGGGTCAAAATGCAA
1 TTTA-GAAAAGTTTA-GGGTCAAAATGAAA
110791470 TTT
1 TTT
110791473 TTATTTTTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
26 1 0.01
27 4 0.05
28 3 0.04
29 50 0.67
30 17 0.23
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.32
Consensus pattern (28 bp):
TTTAGAAAAGTTTAGGGTCAAAATGAAA
Found at i:110792146 original size:82 final size:83
Alignment explanation
Indices: 110791790--110792150 Score: 424
Period size: 83 Copynumber: 4.3 Consensus size: 83
110791780 GAATTGCAAA
**
110791790 AGCTCAACTCACCTC-TGCAATATGAGTTGATTTTTGAAAAAC-AGAAATTGAAAAGTA-AAATT
1 AGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTG-AAAACTAG-AATT-AAAAACAGAAATT
110791852 GAAAATACCTCAGCGTGCCCTG
63 GAAAATACCTCAGCGTG-CCTG
*
110791874 AGGCTCAACTCACCTCTTGCAATATGAGTT--TTTTTGAAACAC-AAAATTAAAAACAGAAATTG
1 A-GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAA-ACTAGAATTAAAAACAGAAATTG
*
110791936 AAAAGACCTCAGCGTGTGCCTG
64 AAAATACCTCAGC--GTGCCTG
* *
110791958 AGACTCAACTCA-CTCTTGCAATATGAGTTGA--TTTGAAAAGTAGAATTAGAAAGCAGAAATTG
1 AG-CTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAACTAGAATTA-AAAACAGAAATTG
110792020 AAAATACCTCAGCGTGCCTTG
64 AAAATACCTCAGCGTGCC-TG
* * *
110792041 AGCTCAACTCACCTCTCGCAATATAAGTTGATTTTT-AAAGCTAG-ATTGAAAAAAACA-AAATT
1 AGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAACTAGAATT---AAAAACAGAAATT
110792103 GAAAATACCTCAGCGTGCC-G
63 GAAAATACCTCAGCGTGCCTG
110792123 AGCTCAACTCACCTCTTGCAATATGAGT
1 AGCTCAACTCACCTCTTGCAATATGAGT
110792151 CAATTCTTAA
Statistics
Matches: 244, Mismatches: 15, Indels: 38
0.82 0.05 0.13
Matches are distributed among these distances:
82 47 0.19
83 80 0.33
84 78 0.32
85 25 0.10
86 14 0.06
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (83 bp):
AGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAACTAGAATTAAAAACAGAAATTGAA
AATACCTCAGCGTGCCTG
Found at i:110792183 original size:82 final size:82
Alignment explanation
Indices: 110791846--110792234 Score: 266
Period size: 84 Copynumber: 4.7 Consensus size: 82
110791836 ATTGAAAAGT
* * *
110791846 AAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGT--TTTTTT
1 AAAATTGAAAATACCTCAGCGTG-CC-GA-GCTCAACTCACCTCTCGCAATATGAGTCAATTCTT
* * *
110791909 GAAACACAAAATT---AAAAAC
63 -AAA-GCTAGATTGAAAAAAAC
* * **
110791928 AGAAATTGAAAAGACCTCAGCGTGTGCCTGAGACTCAACTCA-CTCTTGCAATATGAGTTGATT-
1 A-AAATTGAAAATACCTCAGC--GTGCC-GAG-CTCAACTCACCTCTCGCAATATGAGTCAATTC
* * *
110791991 TGAAAAG-TAGAATT--AGAAAGC
61 T-TAAAGCTAG-ATTGAAAAAAAC
* ** *
110792012 AGAAATTGAAAATACCTCAGCGTGCCTTGAGCTCAACTCACCTCTCGCAATATAAGTTGATTTTT
1 A-AAATTGAAAATACCTCAGCGTGCC--GAGCTCAACTCACCTCTCGCAATATGAGTCAATTCTT
110792077 AAAGCTAGATTGAAAAAAAC
63 AAAGCTAGATTGAAAAAAAC
* *
110792097 AAAATTGAAAATACCTCAGCGTGCCGAGCTCAACTCACCTCTTGCAATATGAGTCAATTCTTAAC
1 AAAATTGAAAATACCTCAGCGTGCCGAGCTCAACTCACCTCTCGCAATATGAGTCAATTCTTAAA
* * * *
110792162 GCAATATGAGTCATTTAAAAAT
66 GC--TA-GATTGA--AAAAAAC
**
110792184 AAAA---AAAATACCTC-GCGTGCCGAGGCTCAACTCATTTCTCGCAATATGAGT
1 AAAATTGAAAATACCTCAGCGTGCCGA-GCTCAACTCACCTCTCGCAATATGAGT
110792235 TGATTTTTAA
Statistics
Matches: 259, Mismatches: 27, Indels: 40
0.79 0.08 0.12
Matches are distributed among these distances:
82 52 0.20
83 77 0.30
84 106 0.41
85 15 0.06
87 9 0.03
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (82 bp):
AAAATTGAAAATACCTCAGCGTGCCGAGCTCAACTCACCTCTCGCAATATGAGTCAATTCTTAAA
GCTAGATTGAAAAAAAC
Found at i:110792439 original size:66 final size:69
Alignment explanation
Indices: 110792322--110792488 Score: 204
Period size: 66 Copynumber: 2.5 Consensus size: 69
110792312 CAAAAATTAA
* * * * *
110792322 AGGCTTAACTCACCTCTCGCAATATGAGTTCA--ATTTAAAACATAAACAAAATACCTC-GCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAAACATAAACAAAATACCTCAACGTG
110792384 CCCG
66 CCCG
**
110792388 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAAA-ATTTA-AAAATACCTCAACGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAAACATAAACAAAATACCTCAACGTG
**
110792451 CTTG
66 CCCG
110792455 AGGCTCAACTCA-TTCTCGCAATATGAGTTG-TTTT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
110792489 GAAAACAAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
65 4 0.04
66 57 0.64
67 21 0.24
68 7 0.08
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (69 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAAACATAAACAAAATACCTCAACGTG
CCCG
Found at i:110792528 original size:117 final size:121
Alignment explanation
Indices: 110792388--110792609 Score: 292
Period size: 117 Copynumber: 1.9 Consensus size: 121
110792378 CGCGTGCCCG
* * * ** **
110792388 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAA-A-AATTTAAAAATACCTCAACGTG
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAACGTG
**
110792451 -CTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTG-TTTTGAAAACAAAAATTAAA
65 CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
* **
110792505 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
110792570 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
110792610 TTTAAAAAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
116 7 0.08
117 27 0.31
118 18 0.20
119 14 0.16
120 18 0.20
121 4 0.05
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (121 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:110792544 original size:50 final size:50
Alignment explanation
Indices: 110792455--110792555 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
110792445 AACGTGCTTG
* *** *
110792455 AGGCTCAACTCATTCTCGCAATATGAGTTGTTTTGAAAACAAAAATTAAA
1 AGGCTCAACTCACTCTCGCAATATGAGTCAATTTGAAAACAAAAACTAAA
* *
110792505 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTT-AAAACATAAACTAAA
1 AGGCTCAACTCA-CTCTCGCAATATGAGTCAATTTGAAAACAAAAACTAAA
110792555 A
1 A
110792556 ATACCTCGGC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 25 0.58
51 18 0.42
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (50 bp):
AGGCTCAACTCACTCTCGCAATATGAGTCAATTTGAAAACAAAAACTAAA
Found at i:110792686 original size:69 final size:68
Alignment explanation
Indices: 110792505--110792687 Score: 206
Period size: 69 Copynumber: 2.6 Consensus size: 68
110792495 AAAAATTAAA
* * * * **
110792505 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAA-A-AAACTAAAAATACCTCAACGTG
110792569 CCCCG
64 CCCCG
** * *
110792574 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTAAAAATACCTCAACGTGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTAAAAAAAACTAAAAATACCTCAACGTGC
**
110792639 CTTG
65 CCCG
*
110792643 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAAAAAA
110792688 AATTAAAAGG
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
68 4 0.04
69 84 0.88
70 3 0.03
71 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (68 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAACTAAAAATACCTCAACGTGCC
CCG
Found at i:110792714 original size:121 final size:121
Alignment explanation
Indices: 110792574--110792799 Score: 303
Period size: 121 Copynumber: 1.9 Consensus size: 121
110792564 GCGTGCCCCG
* * * ** *
110792574 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAA-A-AAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCAACGT
* ** *
110792637 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATTAAA
64 GCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATTAAA
* **
110792695 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
110792760 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
110792800 TTAAAAAATT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
119 5 0.06
120 3 0.03
121 82 0.91
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (121 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATTAAA
Found at i:110792717 original size:190 final size:186
Alignment explanation
Indices: 110792161--110792868 Score: 1215
Period size: 190 Copynumber: 3.8 Consensus size: 186
110792151 CAATTCTTAA
*
110792161 CGCAATATGAGTC-ATTTAAAA-ATAAA-AAAAATACCTCGCGTG-CCGAGGCTCAACTCATTTC
1 CGCAATATGAGTCAATTTAAAACATAAACAAAAATACCTCGCGTGCCCGAGGCTCAACTCACTTC
*
110792222 TCGCAATATGAGTTGA-TTTTT-AAAATTTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCAT
66 TCGCAATATGAGTTGATTTTTTAAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCAT
110792285 TTCTCGCAATATGAGTTGA-TTTGAAAACAAAAATT-AAAGGCTTAACTCACCTCT
131 TTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAGGCTTAACTCACCTCT
110792339 CGCAATATGAGTTCAATTTAAAACATAAAC-AAAATACCTCGCGTGCCCGAGGCTCAACTCACTT
1 CGCAATATGAG-TCAATTTAAAACATAAACAAAAATACCTCGCGTGCCCGAGGCTCAACTCACTT
*
110792403 CTCGCAATATGAGTTGATTTTTTAAAAATTTAAAAATACCTCAACGTG-CTTGAGGCTCAACTCA
65 CTCGCAATATGAGTTGATTTTTTAAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
110792467 -TTCTCGCAATATGAGTTG-TTTTGAAAACAAAAATTAAAAGGCTTAACTCACCTCT
130 TTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAGGCTTAACTCACCTCT
110792522 CGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCAC
1 CGCAATATGAGTCAATTTAAAACATAAAC-AAAAATACCTC-GCGTG-CCCGAGGCTCAACTCAC
110792587 TTCTCGCAATATGAGTTGATTTTTTTAAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAAC
63 TTCTCGCAATATGAGTTGA-TTTTTTAAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAAC
*
110792652 TCATTTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATTAAAAGGCTTAACTCACCTCT
127 TCATTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAGGCTTAACTCACCTCT
110792712 CGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCAC
1 CGCAATATGAGTCAATTTAAAACATAAAC-AAAAATACCTC-GCGTG-CCCGAGGCTCAACTCAC
110792777 TTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAGGCTCAAC
63 TTCTCGCAATATGAGTTGATTTTTTAAAAAA-TTAAAAATACCTCAACGTGTCTTGAGGCTCAAC
110792842 TCATTTCTCGCAATATGAGTTGATTTT
127 TCATTTCTCGCAATATGAGTTGATTTT
110792869 CCTTGGAAAG
Statistics
Matches: 509, Mismatches: 3, Indels: 24
0.95 0.01 0.04
Matches are distributed among these distances:
178 11 0.02
179 2 0.00
180 8 0.02
181 20 0.04
182 86 0.17
183 51 0.10
184 34 0.07
185 5 0.01
186 36 0.07
187 30 0.06
188 16 0.03
189 30 0.06
190 180 0.35
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (186 bp):
CGCAATATGAGTCAATTTAAAACATAAACAAAAATACCTCGCGTGCCCGAGGCTCAACTCACTTC
TCGCAATATGAGTTGATTTTTTAAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCAT
TTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAGGCTTAACTCACCTCT
Found at i:110801076 original size:18 final size:17
Alignment explanation
Indices: 110801044--110801184 Score: 121
Period size: 18 Copynumber: 8.2 Consensus size: 17
110801034 AGATTTTTTT
110801044 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* *
110801061 TTTTCAAAACACCGAAAT
1 TTTTGAAAACA-CGAAAA
* * *
110801079 TTTTGAAAACAAGAGGAT
1 TTTTGAAAACACGA-AAA
*
110801097 TTTTG-AAATACGAAAAA
1 TTTTGAAAACACG-AAAA
110801114 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
*
110801131 TTTTTG-AAACACGGAAAT
1 -TTTTGAAAACAC-GAAAA
110801149 TTTTGAAAACA--AAAA
1 TTTTGAAAACACGAAAA
*
110801164 TTTTTG-AAACACAAAAA
1 -TTTTGAAAACACGAAAA
110801181 TTTT
1 TTTT
110801185 TAGAAGACAC
Statistics
Matches: 102, Mismatches: 12, Indels: 21
0.76 0.09 0.16
Matches are distributed among these distances:
15 8 0.08
16 9 0.09
17 42 0.41
18 43 0.42
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:110801087 original size:35 final size:35
Alignment explanation
Indices: 110801043--110801205 Score: 170
Period size: 35 Copynumber: 4.7 Consensus size: 35
110801033 GAGATTTTTT
**
110801043 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* ** *
110801078 TTTTTGAAAACAAGAGGATTTTTGAAATA-CGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCG-AAA
* *
110801113 ATTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
**
110801148 TTTTTGAAAACA--AAAATTTTTGAAACACAAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* * *
110801181 TTTTTAGAAGACACTAAAAATTTTG
1 TTTTT-GAAAACACGAAAATTTTTG
110801206 GAAAATGGAT
Statistics
Matches: 106, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
33 24 0.23
34 8 0.08
35 64 0.60
36 10 0.09
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
Found at i:110801185 original size:18 final size:17
Alignment explanation
Indices: 110801043--110801209 Score: 142
Period size: 17 Copynumber: 9.5 Consensus size: 17
110801033 GAGATTTTTT
*
110801043 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACAAAAA
** **
110801061 TTTTCAAAACACCGAAA
1 TTTTTGAAACACAAAAA
*
110801078 TTTTTGAAA-ACAAGAGGA
1 TTTTTGAAACACAA-A-AA
*
110801096 TTTTTGAAATACGAAAAA
1 TTTTTGAAACAC-AAAAA
*
110801114 -TTTTGAAAACACGAAAA
1 TTTTTG-AAACACAAAAA
**
110801131 TTTTTGAAACACGGAAA
1 TTTTTGAAACACAAAAA
110801148 TTTTTGAAA-ACAAAAA
1 TTTTTGAAACACAAAAA
110801164 TTTTTGAAACACAAAAA
1 TTTTTGAAACACAAAAA
110801181 TTTTTAGAAGACACTAAAAA
1 TTTTT-GAA-ACAC-AAAAA
*
110801201 TTTTGGAAA
1 TTTTTGAAA
110801210 ATGGATTTTT
Statistics
Matches: 123, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
16 16 0.13
17 57 0.46
18 29 0.24
19 10 0.08
20 11 0.09
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (17 bp):
TTTTTGAAACACAAAAA
Found at i:110801387 original size:217 final size:218
Alignment explanation
Indices: 110801164--110801584 Score: 502
Period size: 217 Copynumber: 1.9 Consensus size: 218
110801154 AAAACAAAAA
* * *
110801164 TTTTTGAAACAC-A-AAAATTTTTAGAAGACACTAAAAATTTTGGAAAAT-G-GATTTTTTTTTG
1 TTTTTGAAACACGAGAAAATTTTTAGAAGACACGAAAAATTTTGAAAAATAGAAATTTTTTTTTG
*
110801225 AAAACACTG-GA-TTTTTTTACACAAAATTTTTTATTTTTTATTAAA-CACGTATCG-TATTTAA
66 AAAACA-TGAGACTTTTTTT---CAAAATTTTTTA--TTTTA-AAAAGCACGTATCGAT-TTTAA
* * *
110801286 CACGAATCGGTGATATTCACTCAATATAGCAATGAAATCAACGA-ATTAGTGTCAAATCGATTCA
123 CACGAACCGGTGATATTCACCCAACATAGCAATGAAATCAACGATATTA-TGTCAAATCGATTCA
*
110801350 TTGTCTTATTT-TTAAAAACACGAATATATAT
187 TTGCCTTATTTATTAAAAACACGAATATATAT
* *
110801381 TTTTTGAAACACGAGAAAATTTTTTGAAGGCACGAAAAATTTTGAAAAATAGAAATTTTTTTTTG
1 TTTTTGAAACACGAGAAAATTTTTAGAAGACACGAAAAATTTTGAAAAATAGAAATTTTTTTTTG
* * * * **
110801446 TAAATATGAGACTTTTTTTTAATATTTTTTATTTTAAAAAGGGCGTATCGATTTTAACACGAACC
66 AAAACATGAGACTTTTTTTCAAAATTTTTTATTTTAAAAAGCACGTATCGATTTTAACACGAACC
* * * * *
110801511 GGTGATATTCACCCAACGTAGCGATGAAATCAACGATTTTATGTTAAATCGATTCGTTGCCTTAT
131 GGTGATATTCACCCAACATAGCAATGAAATCAACGATATTATGTCAAATCGATTCATTGCCTTAT
110801576 TTATTAAAA
196 TTATTAAAA
110801585 TTATCTAAAA
Statistics
Matches: 173, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
216 3 0.02
217 91 0.53
218 11 0.06
219 41 0.24
220 3 0.02
221 17 0.10
222 7 0.04
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.39
Consensus pattern (218 bp):
TTTTTGAAACACGAGAAAATTTTTAGAAGACACGAAAAATTTTGAAAAATAGAAATTTTTTTTTG
AAAACATGAGACTTTTTTTCAAAATTTTTTATTTTAAAAAGCACGTATCGATTTTAACACGAACC
GGTGATATTCACCCAACATAGCAATGAAATCAACGATATTATGTCAAATCGATTCATTGCCTTAT
TTATTAAAAACACGAATATATAT
Found at i:110801404 original size:20 final size:20
Alignment explanation
Indices: 110801379--110801423 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
110801369 ACGAATATAT
110801379 ATTTTTTGAA-ACACGAGAAA
1 ATTTTTTGAAGACACGA-AAA
*
110801399 ATTTTTTGAAGGCACGAAAA
1 ATTTTTTGAAGACACGAAAA
110801419 ATTTT
1 ATTTT
110801424 GAAAAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTTTTTGAAGACACGAAAA
Found at i:110801414 original size:21 final size:19
Alignment explanation
Indices: 110801365--110801423 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 19
110801355 TTATTTTTAA
110801365 AAACACGAATATATATTTTTTG
1 AAACACGAA-A-A-ATTTTTTG
110801387 AAACACGAGAAAATTTTTTG
1 AAACACGA-AAAATTTTTTG
*
110801407 AAGGCACGAAAAATTTT
1 AA-ACACGAAAAATTTT
110801424 GAAAAATAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 18 0.53
21 6 0.18
22 9 0.26
23 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (19 bp):
AAACACGAAAAATTTTTTG
Found at i:110801802 original size:8 final size:8
Alignment explanation
Indices: 110801789--110801883 Score: 97
Period size: 8 Copynumber: 12.0 Consensus size: 8
110801779 TGAAACTCTT
110801789 TTTTTTTC
1 TTTTTTTC
*
110801797 TTTTTTTA
1 TTTTTTTC
110801805 TTCTATTTTC
1 TT-T-TTTTC
*
110801815 CTTTTTTC
1 TTTTTTTC
*
110801823 CTTTTTTC
1 TTTTTTTC
*
110801831 -TCTTTTC
1 TTTTTTTC
110801838 TTTTTTTC
1 TTTTTTTC
110801846 -TTTTTTC
1 TTTTTTTC
110801853 TTTTTTTC
1 TTTTTTTC
110801861 -TTTTTTC
1 TTTTTTTC
* *
110801868 TTTCTCTC
1 TTTTTTTC
110801876 TTTTTTTC
1 TTTTTTTC
110801884 CTGGCCTGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
7 20 0.27
8 46 0.63
9 2 0.03
10 5 0.07
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:110801849 original size:30 final size:30
Alignment explanation
Indices: 110801805--110801881 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
110801795 TCTTTTTTTA
* *
110801805 TTCTATTTTCCTTTTTTCCTTTTTTCTCTT
1 TTCTTTTTTTCTTTTTTCCTTTTTTCTCTT
* *
110801835 TTCTTTTTTTCTTTTTTCTTTTTTTCTTTT
1 TTCTTTTTTTCTTTTTTCCTTTTTTCTCTT
* *
110801865 TTCTTTCTCTCTTTTTT
1 TTCTTTTTTTCTTTTTT
110801882 TCCTGGCCTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.79
Consensus pattern (30 bp):
TTCTTTTTTTCTTTTTTCCTTTTTTCTCTT
Found at i:110801880 original size:15 final size:15
Alignment explanation
Indices: 110801784--110801881 Score: 89
Period size: 15 Copynumber: 6.6 Consensus size: 15
110801774 CGAATTGAAA
110801784 CTCTTTTTT-TTTCTT
1 CTCTTTTTTCTTT-TT
110801799 -T-TTTTATTCTATTTT
1 CTCTTTT-TTCT-TTTT
110801814 C-CTTTTTTCCTTTTT
1 CTCTTTTTT-CTTTTT
*
110801829 -TCTCTTTTCTTTTT
1 CTCTTTTTTCTTTTT
*
110801843 TTCTTTTTTCTTTTT
1 CTCTTTTTTCTTTTT
* *
110801858 TTCTTTTTTCTTTCT
1 CTCTTTTTTCTTTTT
110801873 CTCTTTTTT
1 CTCTTTTTT
110801882 TCCTGGCCTG
Statistics
Matches: 71, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
13 4 0.06
14 9 0.13
15 50 0.70
16 8 0.11
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (15 bp):
CTCTTTTTTCTTTTT
Found at i:110801996 original size:15 final size:14
Alignment explanation
Indices: 110801976--110802028 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
110801966 GGCCTGCTTC
*
110801976 TTTTTTCTGGGCTG
1 TTTTTTTTGGGCTG
110801990 TTTTTTTTTTGGGCCT-
1 --TTTTTTTTGGG-CTG
110802006 TTTCTTTTTGGGCTG
1 TTT-TTTTTGGGCTG
110802021 TTTTTTTT
1 TTTTTTTT
110802029 TGCTTTGGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 10 0.30
15 11 0.33
16 10 0.30
17 2 0.06
ACGTcount: A:0.00, C:0.11, G:0.21, T:0.68
Consensus pattern (14 bp):
TTTTTTTTGGGCTG
Found at i:110802029 original size:15 final size:15
Alignment explanation
Indices: 110801976--110802062 Score: 77
Period size: 16 Copynumber: 5.5 Consensus size: 15
110801966 GGCCTGCTTC
*
110801976 TTTTTTCTGGGCTGTT
1 TTTTTTTTGGGCTG-T
110801992 TTTTTTTTGGGCCT-T
1 TTTTTTTTGGG-CTGT
*
110802007 TTCTTTTTGGGCTGT
1 TTTTTTTTGGGCTGT
***
110802022 TTTTTTTTGCTTTGGT
1 TTTTTTTTGGGCT-GT
110802038 TTTTTTTTGGGCTGAT
1 TTTTTTTTGGGCTG-T
110802054 TTGTTTTTT
1 TT-TTTTTT
110802063 TTTGTGTTGT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
14 2 0.04
15 22 0.39
16 25 0.44
17 8 0.14
ACGTcount: A:0.01, C:0.09, G:0.22, T:0.68
Consensus pattern (15 bp):
TTTTTTTTGGGCTGT
Found at i:110802045 original size:31 final size:29
Alignment explanation
Indices: 110801976--110802078 Score: 100
Period size: 31 Copynumber: 3.3 Consensus size: 29
110801966 GGCCTGCTTC
* *
110801976 TTTTTTCTGGGCTG-TTTTTTTTTTGGGCCT
1 TTTTTTTTGGGCTGTTTTTTTTTTTTGG--T
110802006 TTTCTTTTTGGGCTGTTTTTTTTTGCTTTGGT
1 TTT-TTTTTGGGCTGTTTTTTTTT--TTTGGT
110802038 TTTTTTTTGGGCTGATTTGTTTTTTTTTGTGT
1 TTTTTTTTGGGCTG-TTT-TTTTTTTTTG-GT
110802070 TGTTTTTTT
1 T-TTTTTTT
110802079 TAATTAATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
30 3 0.05
31 25 0.40
32 18 0.29
33 13 0.21
34 4 0.06
ACGTcount: A:0.01, C:0.08, G:0.21, T:0.70
Consensus pattern (29 bp):
TTTTTTTTGGGCTGTTTTTTTTTTTTGGT
Found at i:110802072 original size:15 final size:16
Alignment explanation
Indices: 110802019--110802079 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 16
110802009 CTTTTTGGGC
110802019 TGTTTTTTTTTGCT-T
1 TGTTTTTTTTTGCTGT
110802034 TGGTTTTTTTTTGGGCTGATT
1 T-GTTTTTTTTT--GCTG--T
110802055 TGTTTTTTTTTG-TGT
1 TGTTTTTTTTTGCTGT
110802070 TGTTTTTTTT
1 TGTTTTTTTT
110802080 AATTAATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
15 12 0.30
16 10 0.25
17 2 0.05
18 4 0.10
20 10 0.25
21 2 0.05
ACGTcount: A:0.02, C:0.03, G:0.20, T:0.75
Consensus pattern (16 bp):
TGTTTTTTTTTGCTGT
Found at i:110802203 original size:3 final size:3
Alignment explanation
Indices: 110802197--110802237 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
110802187 TTTTTTTTCT
110802197 TTC TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
110802238 CCTCCTACAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:110802338 original size:10 final size:10
Alignment explanation
Indices: 110802303--110802352 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
110802293 ACGCCGGTAC
110802303 TCTT-TCTTT
1 TCTTCTCTTT
* *
110802312 TCTTCTCCTC
1 TCTTCTCTTT
110802322 T-TTCTCTTT
1 TCTTCTCTTT
110802331 TCTTCTCTTT
1 TCTTCTCTTT
*
110802341 TCTTCTTTTT
1 TCTTCTCTTT
110802351 TC
1 TC
110802353 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:110802350 original size:19 final size:19
Alignment explanation
Indices: 110802307--110802349 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
110802297 CGGTACTCTT
110802307 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
110802326 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
110802343 TTCTTTT
1 -TCTTTT
110802350 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:110802667 original size:30 final size:30
Alignment explanation
Indices: 110802616--110802716 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
110802606 ATTTAGAATT
110802616 AAAATGAAA-TTA-ATAAAAGTTTAGGGGTC
1 AAAATGAAATTTAGA-AAAAGTTTAGGGGTC
* * *
110802645 TAAGTGAAATTTA-AAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAGAA-AAAGTTTAGGGGTC
110802675 AAAATGAAATTTAGAAAAAGTTTAGGGGTC
1 AAAATGAAATTTAGAAAAAGTTTAGGGGTC
*
110802705 AAAATGCAATTT
1 AAAATGAAATTT
110802717 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
29 8 0.13
30 52 0.84
31 2 0.03
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAGAAAAAGTTTAGGGGTC
Found at i:110802737 original size:14 final size:15
Alignment explanation
Indices: 110802712--110802746 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
110802702 GTCAAAATGC
110802712 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
110802727 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
110802741 AATTTT
1 AATTTT
110802747 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:110805334 original size:29 final size:29
Alignment explanation
Indices: 110805301--110805357 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
110805291 CTACGAACCA
110805301 TCTATAATATAAGTGGAAAATAATAATAT
1 TCTATAATATAAGTGGAAAATAATAATAT
110805330 TCTATAATATAAGTGGAAAATAATAATA
1 TCTATAATATAAGTGGAAAATAATAATA
110805358 ATGTAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.33
Consensus pattern (29 bp):
TCTATAATATAAGTGGAAAATAATAATAT
Found at i:110820957 original size:44 final size:43
Alignment explanation
Indices: 110820903--110821001 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 43
110820893 ATTGAATAGA
*
110820903 GTTGTAATGGA-GGAATAGAGCTGTAATCAGTAATTCAACTATTTG
1 GTTG-AATGGATGGAATAGAACTGTAAT-AGT-ATTCAACTATTTG
*** *
110820948 GTTGAATGGAATGGAATAGAACTGTAATAGTATTCTTGTGTTTG
1 GTTGAATGG-ATGGAATAGAACTGTAATAGTATTCAACTATTTG
110820992 GTTGAATGGA
1 GTTGAATGGA
110821002 ATGAGGTTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 8 0.17
46 15 0.32
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.35
Consensus pattern (43 bp):
GTTGAATGGATGGAATAGAACTGTAATAGTATTCAACTATTTG
Found at i:110821171 original size:58 final size:58
Alignment explanation
Indices: 110821108--110821233 Score: 173
Period size: 58 Copynumber: 2.2 Consensus size: 58
110821098 TTTTAATAAG
* *
110821108 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAATAAAATTCTTAACATA
** * * *
110821166 ATTATTGCTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
110821224 ATTATTATTA
1 ATTATTATTA
110821234 TATGAATTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 23 0.40
58 35 0.60
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
Found at i:110824744 original size:50 final size:50
Alignment explanation
Indices: 110824669--110824767 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
110824659 ACCTTATTCT
* * * * *
110824669 AATCAATATCAAATAGAAGAAGAGTAGTTCTATATTGATTCTACTTGTGC
1 AATCAATATCAAATAAAAAAAGAGTAATTCTAGATGGATTCTACTTGTGC
*
110824719 AATCAATGTCAAATAAAAAAAGAGTAATTCTAGATGGATTCTACTTGTG
1 AATCAATATCAAATAAAAAAAGAGTAATTCTAGATGGATTCTACTTGTG
110824768 TAGCCTGGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.32
Consensus pattern (50 bp):
AATCAATATCAAATAAAAAAAGAGTAATTCTAGATGGATTCTACTTGTGC
Found at i:110832182 original size:44 final size:44
Alignment explanation
Indices: 110832132--110832219 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
110832122 GCAATTCATG
110832132 CATATACATGTATTCATAATCAAATAGAAAAACTTACGCTGAAT
1 CATATACATGTATTCATAATCAAATAGAAAAACTTACGCTGAAT
110832176 CATATACATGTATTCATAATCAAATAGAAAAACTTACGCTGAAT
1 CATATACATGTATTCATAATCAAATAGAAAAACTTACGCTGAAT
110832220 TTACCATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (44 bp):
CATATACATGTATTCATAATCAAATAGAAAAACTTACGCTGAAT
Found at i:110833709 original size:38 final size:38
Alignment explanation
Indices: 110833658--110833735 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
110833648 GATCTTAGGG
110833658 ATTTAATCTTCCAAATTAGCACACAAGAAATTCAGAGA
1 ATTTAATCTTCCAAATTAGCACACAAGAAATTCAGAGA
* *
110833696 ATTTAATCTTCCAAATTAGCACATAAGAAATTTAGAGA
1 ATTTAATCTTCCAAATTAGCACACAAGAAATTCAGAGA
110833734 AT
1 AT
110833736 ATCTACTCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.29
Consensus pattern (38 bp):
ATTTAATCTTCCAAATTAGCACACAAGAAATTCAGAGA
Found at i:110839050 original size:37 final size:37
Alignment explanation
Indices: 110838975--110839066 Score: 132
Period size: 37 Copynumber: 2.5 Consensus size: 37
110838965 TAAATATAAA
* *
110838975 AATAATTATATTAAGAATGTTATTAAATTATATGTAAT
1 AATAATTATATTAA-AATATGATTAAATTATATGTAAT
*
110839013 AATAATTATATTAAAATATGATTAAATTATATTTAAT
1 AATAATTATATTAAAATATGATTAAATTATATGTAAT
110839050 AATAATCT-TATTAAAAT
1 AATAAT-TATATTAAAAT
110839067 TTAATAACAA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
37 35 0.70
38 15 0.30
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (37 bp):
AATAATTATATTAAAATATGATTAAATTATATGTAAT
Found at i:110841664 original size:21 final size:21
Alignment explanation
Indices: 110841622--110841674 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
110841612 TGCAGGGGTC
*
110841622 ACACGCCCATGTGGACAGGGG
1 ACACGCCCGTGTGGACAGGGG
*
110841643 ACACGCCCGTGTGG-CTATGGG
1 ACACGCCCGTGTGGAC-AGGGG
*
110841664 ACACACCCGTG
1 ACACGCCCGTG
110841675 CTTCAGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.21, C:0.32, G:0.34, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGGACAGGGG
Found at i:110842775 original size:25 final size:25
Alignment explanation
Indices: 110842747--110842813 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
110842737 AGAATATTAA
* *
110842747 TAAGCTCCTACGAGCTGA-ATAACGG
1 TAAGCTCATACGAGCTGAGA-AACAG
* *
110842772 TAAGCTCTTACGAGCTGAGAATCAG
1 TAAGCTCATACGAGCTGAGAAACAG
110842797 TAAGCTCATACGAGCTG
1 TAAGCTCATACGAGCTG
110842814 CGGTGAGCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAGAAACAG
Found at i:110843926 original size:11 final size:11
Alignment explanation
Indices: 110843910--110843934 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
110843900 ATACAAACGG
110843910 TAATATTAAAA
1 TAATATTAAAA
110843921 TAATATTAAAA
1 TAATATTAAAA
110843932 TAA
1 TAA
110843935 ATTTTATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:110844494 original size:11 final size:11
Alignment explanation
Indices: 110844478--110844502 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
110844468 ATATGATATT
110844478 TTATTATTTTA
1 TTATTATTTTA
110844489 TTATTATTTTA
1 TTATTATTTTA
110844500 TTA
1 TTA
110844503 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:110852433 original size:27 final size:27
Alignment explanation
Indices: 110852403--110852455 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
110852393 AAACACTACT
110852403 ATGAGTCATAATAAAAAAACATCATCA
1 ATGAGTCATAATAAAAAAACATCATCA
*
110852430 ATGAGTCATAATAAAACAACATCATC
1 ATGAGTCATAATAAAAAAACATCATC
110852456 CATCTCCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.23
Consensus pattern (27 bp):
ATGAGTCATAATAAAAAAACATCATCA
Found at i:110856815 original size:63 final size:63
Alignment explanation
Indices: 110856745--110856868 Score: 239
Period size: 63 Copynumber: 2.0 Consensus size: 63
110856735 TCATTTCATT
*
110856745 ATTTATTTAATTATTTTATATTATTTGGATAAAAATTCTAATACTTTACTTTTTTTAAAAAGA
1 ATTTATTTAATTATTTTATATTATTTAGATAAAAATTCTAATACTTTACTTTTTTTAAAAAGA
110856808 ATTTATTTAATTATTTTATATTATTTAGATAAAAATTCTAATACTTTACTTTTTTTAAAAA
1 ATTTATTTAATTATTTTATATTATTTAGATAAAAATTCTAATACTTTACTTTTTTTAAAAA
110856869 AAAGAATTTC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (63 bp):
ATTTATTTAATTATTTTATATTATTTAGATAAAAATTCTAATACTTTACTTTTTTTAAAAAGA
Found at i:110864158 original size:21 final size:22
Alignment explanation
Indices: 110864132--110864178 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
110864122 ATCTGCTCAA
* *
110864132 ACTCCACCTGTTTTGGAGTA-C
1 ACTCCACCTGCTGTGGAGTATC
110864153 ACTCCACCTGCTGTGGAGTATC
1 ACTCCACCTGCTGTGGAGTATC
110864175 ACTC
1 ACTC
110864179 GTCTGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGTGGAGTATC
Found at i:110868822 original size:13 final size:13
Alignment explanation
Indices: 110868804--110868828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110868794 TCACTCAACG
110868804 TAATCAAATTTGT
1 TAATCAAATTTGT
110868817 TAATCAAATTTG
1 TAATCAAATTTG
110868829 CTATTAACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TAATCAAATTTGT
Found at i:110869138 original size:18 final size:17
Alignment explanation
Indices: 110869115--110869149 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
110869105 ATTTATAAAG
*
110869115 ATTCAATAGTATTAAATA
1 ATTCAATAATA-TAAATA
110869133 ATTCAATAATATAAATA
1 ATTCAATAATATAAATA
110869150 GTGTAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (17 bp):
ATTCAATAATATAAATA
Found at i:110869386 original size:20 final size:21
Alignment explanation
Indices: 110869361--110869407 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
110869351 GGGGGTGGGA
*
110869361 TGGGAGGAGAA-TAAA-AGTTT
1 TGGGAGGA-AAGTAAATAGGTT
110869381 TGGGAGGAAAGTAAATAGGTT
1 TGGGAGGAAAGTAAATAGGTT
110869402 TGGGAG
1 TGGGAG
110869408 TTTGAGGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.23
Consensus pattern (21 bp):
TGGGAGGAAAGTAAATAGGTT
Found at i:110873320 original size:14 final size:14
Alignment explanation
Indices: 110873312--110873379 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
110873302 CAATATTCAA
110873312 ATAATAATAACAAT
1 ATAATAATAACAAT
110873326 ATAATAATAA-AAT
1 ATAATAATAACAAT
* *
110873339 GACAATAA-AATAAT
1 -ATAATAATAACAAT
* *
110873353 A-AGAAAATAACAAG
1 ATA-ATAATAACAAT
*
110873367 AAAATAATAACAA
1 ATAATAATAACAA
110873380 AACAGTGAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
12 1 0.02
13 9 0.20
14 33 0.75
15 1 0.02
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (14 bp):
ATAATAATAACAAT
Found at i:110873354 original size:22 final size:22
Alignment explanation
Indices: 110873326--110873381 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
110873316 TAATAACAAT
* * *
110873326 ATAATAATAAAATGACAATAAA
1 ATAATAACAAAATAACAAGAAA
*
110873348 ATAATAAGAAAATAACAAGAAA
1 ATAATAACAAAATAACAAGAAA
110873370 ATAATAACAAAA
1 ATAATAACAAAA
110873382 CAGTGAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (22 bp):
ATAATAACAAAATAACAAGAAA
Found at i:110873359 original size:11 final size:11
Alignment explanation
Indices: 110873314--110873381 Score: 64
Period size: 11 Copynumber: 6.2 Consensus size: 11
110873304 ATATTCAAAT
110873314 AATAATAACAA
1 AATAATAACAA
* *
110873325 TATAATAATAA
1 AATAATAACAA
* * *
110873336 AATGACAATAA
1 AATAATAACAA
*
110873347 AATAATAAGAA
1 AATAATAACAA
* *
110873358 AATAACAAGAA
1 AATAATAACAA
110873369 AATAATAACAA
1 AATAATAACAA
110873380 AA
1 AA
110873382 CAGTGAGAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 46 1.00
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (11 bp):
AATAATAACAA
Found at i:110876596 original size:21 final size:20
Alignment explanation
Indices: 110876560--110876598 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
110876550 CCAAAACAAA
*
110876560 AAGAAAATAGAAGAAAGAAC
1 AAGAAAATAAAAGAAAGAAC
110876580 AAGAAAAGTAAAAGAAAGA
1 AAGAAAA-TAAAAGAAAGA
110876599 CGAAACAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (20 bp):
AAGAAAATAAAAGAAAGAAC
Found at i:110884909 original size:8 final size:8
Alignment explanation
Indices: 110884898--110884926 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
110884888 TAACTAATTA
110884898 ATAAAAAT
1 ATAAAAAT
110884906 ATAAAAAT
1 ATAAAAAT
110884914 ATAAAAAT
1 ATAAAAAT
110884922 -TAAAA
1 ATAAAA
110884927 TATGTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAAAAAT
Found at i:110892138 original size:44 final size:44
Alignment explanation
Indices: 110892039--110892130 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
110892029 TGTTCAGGGA
* * *
110892039 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGACTTTAAGTCGATGAGGCACTATAAGTGTCGTACTAT
**
110892083 TACTTCGACTTTAAGTCGATGAGGCATCT-TGTGTGTCGTACTAT
1 TACTTCGACTTTAAGTCGATGAGGCA-CTATAAGTGTCGTACTAT
110892127 TACT
1 TACT
110892131 ATTACTTTGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (44 bp):
TACTTCGACTTTAAGTCGATGAGGCACTATAAGTGTCGTACTAT
Found at i:110893480 original size:29 final size:28
Alignment explanation
Indices: 110893423--110893508 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
110893413 TACCTGTATC
* *
110893423 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
110893451 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* * *
110893480 TGGCCCGTTAGGTCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
110893508 T
1 T
110893509 TCATGCTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 26 0.52
29 24 0.48
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:110894936 original size:16 final size:16
Alignment explanation
Indices: 110894915--110894946 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
110894905 AAAAATTCAA
*
110894915 GATTTCGGGATTTTTG
1 GATTTCGAGATTTTTG
110894931 GATTTCGAGATTTTTG
1 GATTTCGAGATTTTTG
110894947 AGGCGTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.28, T:0.50
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:110895011 original size:18 final size:18
Alignment explanation
Indices: 110894974--110895085 Score: 107
Period size: 18 Copynumber: 6.2 Consensus size: 18
110894964 TAAATAAAAG
* *
110894974 TACTGAATGACTGACTGT
1 TACTGAATAACTGATTGT
* *
110894992 TACTGAATAATTGATCGT
1 TACTGAATAACTGATTGT
* *
110895010 TACTGCATAACTGATTGC
1 TACTGAATAACTGATTGT
** *
110895028 TACTGAGCAAATGATTGT
1 TACTGAATAACTGATTGT
* *
110895046 TACTGAATAACTAATTGC
1 TACTGAATAACTGATTGT
* *
110895064 TACTGAATAATTGAATGT
1 TACTGAATAACTGATTGT
110895082 TACT
1 TACT
110895086 AAATGAAACT
Statistics
Matches: 72, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 72 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:110895023 original size:36 final size:35
Alignment explanation
Indices: 110894974--110895085 Score: 125
Period size: 36 Copynumber: 3.1 Consensus size: 35
110894964 TAAATAAAAG
* * *
110894974 TACTGAATGACTGACTGTTACTGAATAATTGATCGT
1 TACTGAATAACTGATTGCTACTGAATAATTGAT-GT
* ** *
110895010 TACTGCATAACTGATTGCTACTGAGCAAATGATTGT
1 TACTGAATAACTGATTGCTACTGAATAATTGA-TGT
*
110895046 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
1 TACTGAATAACTGATTGCTACTGAATAATTG-ATGT
110895082 TACT
1 TACT
110895086 AAATGAAACT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
36 60 0.97
37 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (35 bp):
TACTGAATAACTGATTGCTACTGAATAATTGATGT
Found at i:110901798 original size:18 final size:18
Alignment explanation
Indices: 110901749--110901799 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 18
110901739 AAAATTGTGC
*
110901749 GCAATTTTATTTCTTTAT
1 GCAATTTTATTTCTTTAG
*
110901767 GTAATTTATATTTCTTTAG
1 GCAATTT-TATTTCTTTAG
110901786 GCAATTTTATTTCT
1 GCAATTTTATTTCT
110901800 CTGTCATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.59
Consensus pattern (18 bp):
GCAATTTTATTTCTTTAG
Found at i:110910749 original size:26 final size:26
Alignment explanation
Indices: 110910712--110910769 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
110910702 TGATACAAAT
110910712 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
110910738 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
110910764 TGATAA
1 TGATAA
110910770 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:110916843 original size:13 final size:13
Alignment explanation
Indices: 110916825--110916852 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
110916815 ACCTTTATCA
110916825 TTATTATTATTTT
1 TTATTATTATTTT
110916838 TTATTATTATTTT
1 TTATTATTATTTT
110916851 TT
1 TT
110916853 TTTACCTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:110916845 original size:16 final size:16
Alignment explanation
Indices: 110916824--110916856 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
110916814 AACCTTTATC
110916824 ATTATTATTATTTTTT
1 ATTATTATTATTTTTT
*
110916840 ATTATTATTTTTTTTT
1 ATTATTATTATTTTTT
110916856 A
1 A
110916857 CCTTGCAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTATTATTATTTTTT
Found at i:110918842 original size:29 final size:28
Alignment explanation
Indices: 110918809--110918871 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
110918799 ACTATTGGAT
110918809 TTAAATTT-GAAATATAAAAA-ATAGAATAA
1 TTAAATTTAGAAA-ATAAAAATATA-AA-AA
110918838 TTAAATTTCAGAAAATAAAAATATAAAAA
1 TTAAATTT-AGAAAATAAAAATATAAAAA
110918867 TTAAA
1 TTAAA
110918872 ATTAAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
29 15 0.48
30 9 0.29
31 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (28 bp):
TTAAATTTAGAAAATAAAAATATAAAAA
Found at i:110920446 original size:14 final size:14
Alignment explanation
Indices: 110920427--110920457 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
110920417 ATATTTTTTA
*
110920427 TTTTTTAAATGAAT
1 TTTTTTAAATAAAT
110920441 TTTTTTAAATAAAT
1 TTTTTTAAATAAAT
110920455 TTT
1 TTT
110920458 CAATTGAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TTTTTTAAATAAAT
Found at i:110920566 original size:15 final size:14
Alignment explanation
Indices: 110920548--110920584 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
110920538 AATTATTTTT
110920548 ATATAAAAATATAAA
1 ATATAAAAA-ATAAA
110920563 ATATAAAAAATAAA
1 ATATAAAAAATAAA
110920577 A-ATAAAAA
1 ATATAAAAA
110920585 CATTATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 7 0.32
14 6 0.27
15 9 0.41
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
ATATAAAAAATAAA
Found at i:110928996 original size:2 final size:2
Alignment explanation
Indices: 110928991--110929016 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
110928981 ATATATCCAC
110928991 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
110929017 GTATGCAGGT
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:110938188 original size:30 final size:30
Alignment explanation
Indices: 110938154--110938215 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
110938144 AAGTTACAAG
110938154 ATAATGCTTTAGAATAACGTATTTTTATGT
1 ATAATGCTTTAGAATAACGTATTTTTATGT
110938184 ATAATGCTTTAGAATAACGTATTTTTATGT
1 ATAATGCTTTAGAATAACGTATTTTTATGT
110938214 AT
1 AT
110938216 TAATCATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (30 bp):
ATAATGCTTTAGAATAACGTATTTTTATGT
Found at i:110938527 original size:20 final size:20
Alignment explanation
Indices: 110938487--110938534 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
110938477 ATTTTAGGAT
110938487 TTTAT-TTTAATTATCTCTA
1 TTTATCTTTAATTATCTCTA
*
110938506 TTTATCTTTAATTA-CATGTA
1 TTTATCTTTAATTATC-TCTA
110938526 TTTATCTTT
1 TTTATCTTT
110938535 TTAGAACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTATCTTTAATTATCTCTA
Found at i:110946563 original size:22 final size:21
Alignment explanation
Indices: 110946538--110946579 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
110946528 AATTAATAAA
110946538 TTAAATATAACATATAT-TATTT
1 TTAAATA-AACA-ATATGTATTT
*
110946560 TTAAGTAAACAATATGTATT
1 TTAAATAAACAATATGTATT
110946580 GAATTAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
TTAAATAAACAATATGTATTT
Found at i:110953360 original size:21 final size:21
Alignment explanation
Indices: 110953336--110953375 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
110953326 ATTAATAAAT
110953336 AATGAAATTACATTTTGACCC
1 AATGAAATTACATTTTGACCC
110953357 AATGAAATTACATTTTGAC
1 AATGAAATTACATTTTGAC
110953376 ACATTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (21 bp):
AATGAAATTACATTTTGACCC
Found at i:110953509 original size:23 final size:24
Alignment explanation
Indices: 110953476--110953535 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
110953466 TCCCTTCAAA
110953476 ATAATCAAATTATA-AAATTAATAT
1 ATAAT-AAATTATATAAATTAATAT
** *
110953500 ATAATAAATT-TATATTTTAATCT
1 ATAATAAATTATATAAATTAATAT
*
110953523 ATAAAAAATTATA
1 ATAATAAATTATA
110953536 GTTAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 2 0.07
23 21 0.70
24 7 0.23
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (24 bp):
ATAATAAATTATATAAATTAATAT
Found at i:110956745 original size:20 final size:20
Alignment explanation
Indices: 110956705--110956745 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
110956695 TCCCTTGTAG
*
110956705 TTTGGAAAAATTTTCTAAGT
1 TTTGGAAAAATTTCCTAAGT
* *
110956725 TTTGTAAAAATTTCCTGAGT
1 TTTGGAAAAATTTCCTAAGT
110956745 T
1 T
110956746 GTCAGTTTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (20 bp):
TTTGGAAAAATTTCCTAAGT
Found at i:110959523 original size:18 final size:18
Alignment explanation
Indices: 110959462--110959533 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 18
110959452 CCTTAATAGT
*
110959462 TCAC-ACTTTA-ATGTGC
1 TCACAACTTTAGATGAGC
* * *
110959478 TCGCAACTTCAGTTGAGC
1 TCACAACTTTAGATGAGC
**
110959496 TCACGTCTTTATG-TGAGC
1 TCACAACTTTA-GATGAGC
110959514 TCACAACTTTAGATGAGC
1 TCACAACTTTAGATGAGC
110959532 TC
1 TC
110959534 GTAGCTTCAA
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
16 3 0.07
17 6 0.14
18 32 0.76
19 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (18 bp):
TCACAACTTTAGATGAGC
Found at i:110962345 original size:6 final size:6
Alignment explanation
Indices: 110962334--110962373 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
110962324 TCAGTCTCTA
*
110962334 TCAGTT TCAGTT TCAGTT TCAGTT TCA-CT TCAGTT TCAGT
1 TCAGTT TCAGTT TCAGTT TCAGTT TCAGTT TCAGTT TCAGT
110962374 ATACATTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.47
Consensus pattern (6 bp):
TCAGTT
Found at i:110962367 original size:17 final size:18
Alignment explanation
Indices: 110962334--110962373 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
110962324 TCAGTCTCTA
*
110962334 TCAGTTTCAGTTTCAGTT
1 TCAGTTTCAGCTTCAGTT
110962352 TCAGTTTCA-CTTCAGTT
1 TCAGTTTCAGCTTCAGTT
110962369 TCAGT
1 TCAGT
110962374 ATACATTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.47
Consensus pattern (18 bp):
TCAGTTTCAGCTTCAGTT
Found at i:110971669 original size:46 final size:46
Alignment explanation
Indices: 110971619--110971794 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
110971609 TGGTTGAGCA
110971619 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110971665 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
110971710 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110971758 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
110971795 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:110971775 original size:93 final size:93
Alignment explanation
Indices: 110971616--110971787 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
110971606 GGATGGTTGA
* *
110971616 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110971681 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
110971709 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110971774 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
110971788 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:110979223 original size:46 final size:46
Alignment explanation
Indices: 110979173--110979348 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
110979163 TGGTTGAGCA
110979173 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110979219 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
110979264 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110979312 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
110979349 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:110979329 original size:93 final size:93
Alignment explanation
Indices: 110979170--110979341 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
110979160 GGATGGTTGA
* *
110979170 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110979235 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
110979263 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110979328 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
110979342 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:110989189 original size:25 final size:25
Alignment explanation
Indices: 110989113--110989190 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
110989103 CTCTCCCATC
*
110989113 CCTCACCCTCTTCCCCACCATCCCT
1 CCTCCCCCTCTTCCCCACCATCCCT
* *
110989138 CC-CCCCACTCTGATTCCC-TC-T-CC-
1 CCTCCCC-CTCT--TCCCCACCATCCCT
110989161 CCTCCCCCTCTTCCCCACCATCCCT
1 CCTCCCCCTCTTCCCCACCATCCCT
110989186 CCTCC
1 CCTCC
110989191 TACTCTGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
21 4 0.10
22 1 0.03
23 7 0.17
24 11 0.28
25 12 0.30
26 1 0.03
27 4 0.10
ACGTcount: A:0.09, C:0.65, G:0.01, T:0.24
Consensus pattern (25 bp):
CCTCCCCCTCTTCCCCACCATCCCT
Found at i:110997884 original size:13 final size:12
Alignment explanation
Indices: 110997855--110997906 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
110997845 CTTTTTTGTC
*
110997855 TTTTTTTATT-T
1 TTTTTTTCTTAT
* *
110997866 TGTTTTTCATAT
1 TTTTTTTCTTAT
110997878 TTATTTTTCTTAT
1 TT-TTTTTCTTAT
110997891 TTTTTTTCTTAT
1 TTTTTTTCTTAT
110997903 TTTT
1 TTTT
110997907 ATTATATTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
11 7 0.21
12 16 0.47
13 11 0.32
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.81
Consensus pattern (12 bp):
TTTTTTTCTTAT
Found at i:111000229 original size:15 final size:15
Alignment explanation
Indices: 111000211--111000267 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
111000201 TATCTGTTTT
*
111000211 ATTGAATTTATCTTG
1 ATTGAATTTATATTG
* *
111000226 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
111000241 ATTGAATTTATATTG
1 ATTGAATTTATATTG
111000256 ATTGAA-TTATAT
1 ATTGAATTTATAT
111000268 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:111000246 original size:30 final size:28
Alignment explanation
Indices: 111000207--111000265 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 28
111000197 TGAATATCTG
*
111000207 TTTTATTGAATTTATCTTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
111000236 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
111000265 T
1 T
111000266 ATAATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:111000666 original size:23 final size:23
Alignment explanation
Indices: 111000639--111000725 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
111000629 GCTTTATCGA
* *
111000639 TCAGGCACTTTATGTATCGTATT
1 TCAGGCACCTTATGTGTCGTATT
*
111000662 TCAGGCACCTTGTGTGTCGTA--
1 TCAGGCACCTTATGTGTCGTATT
**
111000683 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTTATGTGTCGTATT
*
111000705 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTTATGTGTCGTAT
111000726 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 34 0.63
22 2 0.04
23 18 0.33
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:111000908 original size:18 final size:19
Alignment explanation
Indices: 111000887--111000927 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
111000877 AATGAAATGA
111000887 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
111000905 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
111000924 GAAA
1 GAAA
111000928 ACATGAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:111009603 original size:30 final size:30
Alignment explanation
Indices: 111009564--111009625 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
111009554 TACATGAAAT
111009564 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
111009595 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
111009624 AC
1 AC
111009626 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:111011982 original size:25 final size:25
Alignment explanation
Indices: 111011953--111012000 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
111011943 TTATAATATG
* * *
111011953 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
111011978 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
111012001 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:111012067 original size:20 final size:20
Alignment explanation
Indices: 111012044--111012102 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
111012034 TAAACATGGT
111012044 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
111012064 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
111012084 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
111012103 GGTATTCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:111012084 original size:11 final size:11
Alignment explanation
Indices: 111012048--111012102 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
111012038 CATGGTATGT
111012048 ATGATATGCAC
1 ATGATATGCAC
* *
111012059 ATGACATG--T
1 ATGATATGCAC
111012068 ATGATATGCAC
1 ATGATATGCAC
*
111012079 ATGATATG--T
1 ATGATATGCAC
111012088 ATGATATGCAC
1 ATGATATGCAC
111012099 ATGA
1 ATGA
111012103 GGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:111012327 original size:23 final size:24
Alignment explanation
Indices: 111012153--111012321 Score: 261
Period size: 24 Copynumber: 7.1 Consensus size: 24
111012143 GACGAAGTGC
*
111012153 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
111012177 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
111012201 GAAATGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
111012225 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
111012249 GAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
111012273 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
111012296 AAAAGGGCTT-TGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
111012319 AAA
1 AAA
111012322 GAGGCTAGGC
Statistics
Matches: 133, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
23 37 0.28
24 96 0.72
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:111014098 original size:33 final size:33
Alignment explanation
Indices: 111014056--111014129 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
111014046 CTGTTTTCTT
* * *
111014056 TTGGAAATCAACAATTTGTCGTTATATTTGTTG
1 TTGGAAATCAACAATTTGCCATTATATTTGCTG
* * *
111014089 TTGGAAATCAATAGTTTGCCATTGTATTTGCTG
1 TTGGAAATCAACAATTTGCCATTATATTTGCTG
111014122 TTGGAAAT
1 TTGGAAAT
111014130 TAAGCATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.43
Consensus pattern (33 bp):
TTGGAAATCAACAATTTGCCATTATATTTGCTG
Done.