Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 98 of 127
Found at i:18437822 original size:18 final size:17
Alignment explanation
Indices: 18437794--18437827 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
18437784 ATTTTATTAT
18437794 ATAAAATTTATTAATAA
1 ATAAAATTTATTAATAA
18437811 ATAAATATTTATTAATA
1 ATAAA-ATTTATTAATA
18437828 TATTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATTAATAA
Found at i:18437827 original size:14 final size:14
Alignment explanation
Indices: 18437769--18437848 Score: 58
Period size: 14 Copynumber: 5.7 Consensus size: 14
18437759 TTAATTATTT
* *
18437769 AATATTTATAAAAA
1 AATATTTATTAATA
18437783 AAT-TTTATTATATA
1 AATATTTATTA-ATA
18437797 AA-ATTTATTAATA
1 AATATTTATTAATA
** * *
18437810 AATAAATATTTATT
1 AATATTTATTAATA
18437824 AATATATTATATAATA
1 AATAT-TTAT-TAATA
18437840 AA-ATTTATT
1 AATATTTATT
18437849 TATTATATTA
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
13 12 0.24
14 29 0.57
15 5 0.10
16 5 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATATTTATTAATA
Found at i:18437831 original size:26 final size:27
Alignment explanation
Indices: 18437802--18437875 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 27
18437792 ATATAAAATT
18437802 TATTAATA-AATAAATATTTA-TTAATA
1 TATTAATATAATAAA-ATTTATTTAATA
*
18437828 TATT-ATATAATAAAATTTATTTATTA
1 TATTAATATAATAAAATTTATTTAATA
*
18437854 TATTAAAATAATAAAA-TTATTT
1 TATTAATATAATAAAATTTATTT
18437876 CATAATAATC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.19
26 25 0.58
27 10 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TATTAATATAATAAAATTTATTTAATA
Found at i:18437848 original size:29 final size:28
Alignment explanation
Indices: 18437748--18437875 Score: 97
Period size: 27 Copynumber: 4.6 Consensus size: 28
18437738 ATTATATATA
* *
18437748 ATAAAAAAATTTTAATTATTTAATATTTAT
1 ATAATAAAA-TTTATTTA-TTAATATTTAT
*
18437778 A-AA-AAAATTT-TATTATATAAAATTTAT
1 ATAATAAAATTTAT-TTAT-TAATATTTAT
**
18437805 -TAATAAATAAATATTTATTAATATATTAT
1 ATAATAAA-ATTTATTTATTAATAT-TTAT
* *
18437834 ATAATAAAATTTATTTATT-ATATTAAA
1 ATAATAAAATTTATTTATTAATATTTAT
18437861 ATAATAAAA-TTATTT
1 ATAATAAAATTTATTT
18437876 CATAATAATC
Statistics
Matches: 81, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
26 7 0.09
27 28 0.35
28 16 0.20
29 21 0.26
30 9 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATAATAAAATTTATTTATTAATATTTAT
Found at i:18438256 original size:11 final size:11
Alignment explanation
Indices: 18438232--18438265 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
18438222 TAAAATTTAG
* *
18438232 TATTATTTAAT
1 TATTAATTATT
18438243 TATTAATTATT
1 TATTAATTATT
18438254 TATTAATTATT
1 TATTAATTATT
18438265 T
1 T
18438266 TTATTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTAATTATT
Found at i:18439308 original size:21 final size:21
Alignment explanation
Indices: 18439279--18439320 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18439269 ACAAATAATA
*
18439279 AATTTTTTATTT-TAATCTATT
1 AATTATTTATTTATAA-CTATT
18439300 AATTATTTATTTATAACTATT
1 AATTATTTATTTATAACTATT
18439321 TAAATTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTATTTATTTATAACTATT
Found at i:18439956 original size:28 final size:28
Alignment explanation
Indices: 18439920--18439980 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
18439910 ATTATTTTAG
* * *
18439920 TTAATAAAA-TTATAATTTAAATATTATA
1 TTAAAAAAATTTA-AATTTAAATATCAAA
18439948 TTAAAAAAATTTAAATTTAAATATCAAA
1 TTAAAAAAATTTAAATTTAAATATCAAA
18439976 TTAAA
1 TTAAA
18439981 TATTTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.90
29 3 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (28 bp):
TTAAAAAAATTTAAATTTAAATATCAAA
Found at i:18445470 original size:20 final size:20
Alignment explanation
Indices: 18445445--18445483 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
18445435 CAATATATCC
18445445 ATCAATATCAAAGCATCATT
1 ATCAATATCAAAGCATCATT
18445465 ATCAATATCAAAGCATCAT
1 ATCAATATCAAAGCATCAT
18445484 CAGATTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (20 bp):
ATCAATATCAAAGCATCATT
Found at i:18445501 original size:18 final size:18
Alignment explanation
Indices: 18445478--18445514 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
18445468 AATATCAAAG
*
18445478 CATCATCAGATTTTCATA
1 CATCATCAAATTTTCATA
18445496 CATCATCAAATTTTCATA
1 CATCATCAAATTTTCATA
18445514 C
1 C
18445515 CAATATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (18 bp):
CATCATCAAATTTTCATA
Found at i:18447368 original size:73 final size:72
Alignment explanation
Indices: 18447267--18447448 Score: 222
Period size: 73 Copynumber: 2.5 Consensus size: 72
18447257 CTAGTTGAAT
* ** * * * * *
18447267 ACCCGATCGATCCTGTCAAAGAAAGGATCGATTGGTT-TTTCCTGGGTTCAGTGAAGTTGGCTAC
1 ACCCGATCGATCCTGTCTAAG-GGGGATCGATCGATTCTTT-CTAGGTTCAATGAAATTGGCTAC
18447331 TGCCTTCAC
64 TGCCTTCAC
*
18447340 ACCCGATCGATCCTGTCTCAAGGGGGATCAATCGATTCTTTCTAGGTTCAATGAAATTGGCTACT
1 ACCCGATCGATCCTGTCT-AAGGGGGATCGATCGATTCTTTCTAGGTTCAATGAAATTGGCTACT
*
18447405 GCCTTTAC
65 GCCTTCAC
* *
18447413 ACCCGATCGATCTTGTCTAAAGGGGATCGATCGATT
1 ACCCGATCGATCCTGTCTAAGGGGGATCGATCGATT
18447449 TCCTATGTTT
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
72 16 0.17
73 72 0.77
74 6 0.06
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (72 bp):
ACCCGATCGATCCTGTCTAAGGGGGATCGATCGATTCTTTCTAGGTTCAATGAAATTGGCTACTG
CCTTCAC
Found at i:18456384 original size:12 final size:12
Alignment explanation
Indices: 18456367--18456413 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
18456357 CTATTTAGAA
*
18456367 ATACCATTCAAC
1 ATACCATTCAGC
18456379 ATACCATTCAGC
1 ATACCATTCAGC
*
18456391 ATACAATTCAGC
1 ATACCATTCAGC
*
18456403 ATACGATTCAG
1 ATACCATTCAG
18456414 TCCCCAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.26
Consensus pattern (12 bp):
ATACCATTCAGC
Found at i:18457492 original size:186 final size:186
Alignment explanation
Indices: 18457220--18457629 Score: 457
Period size: 186 Copynumber: 2.2 Consensus size: 186
18457210 TCAAATATCA
* * * * *
18457220 CCTTCAATAATTATGGAC-AAATATTAAAACGAATTAGTGAAGGCATTTTCTTAGAATAAATGCA
1 CCTTCAATAATTATGTACAAAAT-TTAAAAAGAATTATTAAAGACATTTTCTTAGAATAAATGCA
* * * * * *
18457284 TTCACTAACTGTTTTTAAATTTGAGTACT-GCATATTGAAGGTATTTTTCAGTAAAAAACACTTT
65 TTCACTAACCGTCTTAAAATTTGAGTACTGGCATATTGAAGGCATTTTTCACTAAAAAACACCTT
* ** * ** * * * *
18457348 TAATAATTCTAAAAATTTTTAATAAGAAACTATTAAAGGTATTTGTTAACAAGAAACG
130 TAACAACCCCAAAAA-TTAAAAAAAAAAACTATTAAAGGCATTTATTAACAAGAAACG
* *
18457406 CCTTCAATAATTATGTACAAAATTTAAAAAGAATTATTAAAGACGTTTTCTTGGAATAAATGCAT
1 CCTTCAATAATTATGTACAAAATTTAAAAAGAATTATTAAAGACATTTTCTTAGAATAAATGCAT
* * * * * **
18457471 TTACTAACCGTCTTAAAATTTGAGTACTGGTATATTGAAGGCGTTTTTCACTAGAAGATGCCTTT
66 TCACTAACCGTCTTAAAATTTGAGTACTGGCATATTGAAGGCATTTTTCACTAAAAAACACCTTT
* * *
18457536 AACAACCCCAAAAATTAAAAAAAAAAATTATTAAAGGCGTTTATTATCAAGAAACG
131 AACAACCCCAAAAATTAAAAAAAAAAACTATTAAAGGCATTTATTAACAAGAAACG
* *
18457592 CCTTCATTATTTATGTACAAAATTT-AAAAGAAATTATT
1 CCTTCAATAATTATGTACAAAATTTAAAAAG-AATTATT
18457630 GAAGGTATTT
Statistics
Matches: 186, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
185 5 0.03
186 140 0.75
187 41 0.22
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (186 bp):
CCTTCAATAATTATGTACAAAATTTAAAAAGAATTATTAAAGACATTTTCTTAGAATAAATGCAT
TCACTAACCGTCTTAAAATTTGAGTACTGGCATATTGAAGGCATTTTTCACTAAAAAACACCTTT
AACAACCCCAAAAATTAAAAAAAAAAACTATTAAAGGCATTTATTAACAAGAAACG
Found at i:18457651 original size:123 final size:124
Alignment explanation
Indices: 18457503--18457765 Score: 287
Period size: 124 Copynumber: 2.1 Consensus size: 124
18457493 AGTACTGGTA
**
18457503 TATTGAAGGCGTTTTTCACTAGAAGATGCCTTTAACAACCCCAAAA-ATTAAAAAAAAAAATTAT
1 TATTGAAGGTATTTTTCACTAGAAGATGCCTTTAACAACCCCAAAATATTAAAAAAAAAAATTAT
* * * ** *
18457567 TAAAGGCGTTTATTATCAAGAAACGCCTTCATTATTTATGTACAAAA-TTTAAAAGAAAT
66 TAAAGGCGTTTATTATAAAAAAACGCCTTCAATAACTATGTACAAAACTTAAAAAG-AAT
* * * * * * ** * *
18457626 TATTGAAGGTATTTTTTAGTAGAAGATGCCTTTAATAATCCTAAAATTTTTTAAAGAGAAATTAT
1 TATTGAAGGTATTTTTCACTAGAAGATGCCTTTAACAACCCCAAAATATTAAAAAAAAAAATTAT
* * * * *
18457691 TAAAGGTGTTTGTTATAAAAAAATGCCTTTAATAACTATGTACTAAACTTAAAAAGAAT
66 TAAAGGCGTTTATTATAAAAAAACGCCTTCAATAACTATGTACAAAACTTAAAAAGAAT
*
18457750 TATTAAAGGTATTTTT
1 TATTGAAGGTATTTTT
18457766 ATGGAATAAA
Statistics
Matches: 114, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
123 39 0.34
124 68 0.60
125 7 0.06
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (124 bp):
TATTGAAGGTATTTTTCACTAGAAGATGCCTTTAACAACCCCAAAATATTAAAAAAAAAAATTAT
TAAAGGCGTTTATTATAAAAAAACGCCTTCAATAACTATGTACAAAACTTAAAAAGAAT
Found at i:18457755 original size:310 final size:311
Alignment explanation
Indices: 18457316--18457953 Score: 818
Period size: 310 Copynumber: 2.1 Consensus size: 311
18457306 GAGTACTGCA
* * *
18457316 TATTGAAGGTATTTTTCAGTAAAAAACACTTTTAATAATTCTAAAAATTTTTAATAAGAAACTAT
1 TATTGAAGGTATTTTTTAGTAAAAAACACCTTTAATAATCCTAAAAATTTTTAATAAGAAACTAT
* * *
18457381 TAAAGGTATTTGTTAACAAGAAACGCCTTCAATAATTATGTACAAAATTTAAAAAGAATTATTAA
66 TAAAGGTATTTGTTAACAAAAAACGCCTTCAATAACTATGTACAAAACTTAAAAAGAATTATTAA
*
18457446 AGACGT-TTTCT-TGGAATAAATGCATTTACTAACCGTCTTAAAATTTGAGTACTGGTATATTGA
131 AG--GTATTTCTATGGAATAAATGCATTTACTAACCATCTTAAAATTTGAGTACTGGTATATTGA
*
18457509 AGGCGTTTTTCACTAGAAGATGCCTTTAACAACCCCAAAA-ATTAAAAAAAAAAATTATTAAAGG
194 AGGCGTTTTTCACTAGAAGACGCCTTTAACAACCCCAAAATATTAAAAAAAAAAATTATTAAAGG
* * * *
18457573 CGTTTATTATCAAGAAACGCCTTCATTATTTATGTACAAAATTTAAAAGAAAT
259 CGTTTATTATCAAAAAACGCATTCAATAATTATGTACAAAATTTAAAAGAAAT
* * ** * *
18457626 TATTGAAGGTATTTTTTAGTAGAAGATGCCTTTAATAATCCTAAAATTTTTTAA-AGAGAAATTA
1 TATTGAAGGTATTTTTTAGTAAAAAACACCTTTAATAATCCTAAAAATTTTTAATA-AGAAACTA
* * * *
18457690 TTAAAGGTGTTTGTTATA-AAAAAATGCCTTTAATAACTATGTACTAAACTTAAAAAGAATTATT
65 TTAAAGGTATTTGTTA-ACAAAAAACGCCTTCAATAACTATGTACAAAACTTAAAAAGAATTATT
* ** * * *
18457754 AAAGGTATTTTTATGGAATAAATGCATTTTTTACCCATTTTAAAATTTGAGTATTGGTATATTGA
129 AAAGGTATTTCTATGGAATAAATGCATTTACTAACCATCTTAAAATTTGAGTACTGGTATATTGA
* * * ** * * * ** *
18457819 AGGTGTTTTTCACTCGAATACGTTTTTAATAATCCCAAAATTTTTTAAAAGAAAATTATTAAAGG
194 AGGCGTTTTTCACTAGAAGACGCCTTTAACAACCCCAAAATATTAAAAAAAAAAATTATTAAAGG
* *
18457884 CGTTTGTTATTAAAAAACGCATTCAATAATTATGTACAAAATTTAAAAGAAAT
259 CGTTTATTATCAAAAAACGCATTCAATAATTATGTACAAAATTTAAAAGAAAT
* *
18457937 TATTAAAGGTACTTTTT
1 TATTGAAGGTATTTTTT
18457954 GGAATAAACG
Statistics
Matches: 280, Mismatches: 43, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
308 2 0.01
309 5 0.02
310 190 0.68
311 83 0.30
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (311 bp):
TATTGAAGGTATTTTTTAGTAAAAAACACCTTTAATAATCCTAAAAATTTTTAATAAGAAACTAT
TAAAGGTATTTGTTAACAAAAAACGCCTTCAATAACTATGTACAAAACTTAAAAAGAATTATTAA
AGGTATTTCTATGGAATAAATGCATTTACTAACCATCTTAAAATTTGAGTACTGGTATATTGAAG
GCGTTTTTCACTAGAAGACGCCTTTAACAACCCCAAAATATTAAAAAAAAAAATTATTAAAGGCG
TTTATTATCAAAAAACGCATTCAATAATTATGTACAAAATTTAAAAGAAAT
Found at i:18458054 original size:186 final size:185
Alignment explanation
Indices: 18457638--18458113 Score: 562
Period size: 186 Copynumber: 2.5 Consensus size: 185
18457628 TTGAAGGTAT
* *
18457638 TTTTTAGTAGAAGATGCCTTTAATAATCCTAAAATTTTTT-AAAGAGAAATTATTAAAGGTGTTT
1 TTTTTAGTAGAAGACGCTTTTAATAATCC-AAAATTTTTTAAAAGA-AAATTATTAAAGGTGTTT
* * * * *
18457702 GTTATAAAAAAATGCCTTTAATAACTATGTACTAAACTTAAAAAGAATTATTAAAGGTATTTTTA
64 GTTATAAAAAAATGCCTTCAATAATTATGTACAAAATTTAAAAAGAATTATTAAAGGTACTTTTA
* *** * * * * * * **
18457767 TGGAATAAATGCATTTTTTACCCATTTTAAAATTTGAGTATTGGTATATTGAAGGTG
129 TGGAATAAACGCATTCACTAACCATCTTAAAATTTGAGTACTAGAATATTAAAGGCA
* * * * *
18457824 TTTTTCACTCGAATACGTTTTTAATAATCCCAAAATTTTTTAAAAGAAAATTATTAAAGGCGTTT
1 TTTTT-AGTAGAAGACGCTTTTAATAAT-CCAAAATTTTTTAAAAGAAAATTATTAAAGGTGTTT
* * *
18457889 GTTATTAAAAAACGCATTCAATAATTATGTACAAAATTT-AAAAGAAATTATTAAAGGTACTTTT
64 GTTATAAAAAAATGCCTTCAATAATTATGTACAAAATTTAAAAAG-AATTATTAAAGGTACTTTT
18457953 -TGGAATAAACGCATTCACTAACCATCTTAAAATTTGAGTACTAGAATATTAAAGGCA
128 ATGGAATAAACGCATTCACTAACCATCTTAAAATTTGAGTACTAGAATATTAAAGGCA
* * **
18458010 TATTTTAGTGGAAGACGCTTTTAATAATCTCAAAATTTTTTAAAAGAAAATTATTTAAGGTGGAT
1 T-TTTTAGTAGAAGACGCTTTTAATAATC-CAAAATTTTTTAAAAGAAAATTATTAAAGGTGTTT
* *
18458075 GTTATCAAAAAATGCCTTCAATAATTAAGTACATAAATT
64 GTTATAAAAAAATGCCTTCAATAATTATGTACA-AAATT
18458114 AAATGTAATC
Statistics
Matches: 244, Mismatches: 39, Indels: 13
0.82 0.13 0.04
Matches are distributed among these distances:
185 1 0.00
186 134 0.55
187 102 0.42
188 7 0.03
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (185 bp):
TTTTTAGTAGAAGACGCTTTTAATAATCCAAAATTTTTTAAAAGAAAATTATTAAAGGTGTTTGT
TATAAAAAAATGCCTTCAATAATTATGTACAAAATTTAAAAAGAATTATTAAAGGTACTTTTATG
GAATAAACGCATTCACTAACCATCTTAAAATTTGAGTACTAGAATATTAAAGGCA
Found at i:18466402 original size:33 final size:33
Alignment explanation
Indices: 18466340--18466414 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
18466330 GGCACCTCAA
*
18466340 AGATACAAATGCCGTTAATATAGCGGTGTTTTC
1 AGATACAAATGCCGTTAATATAGCAGTGTTTTC
* * * *
18466373 ATATACAAATGCTGTTAATATTA-TAGTGTTTTT
1 AGATACAAATGCCGTTAATA-TAGCAGTGTTTTC
18466406 AGATACAAA
1 AGATACAAA
18466415 CACCGCTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 33 0.94
34 2 0.06
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (33 bp):
AGATACAAATGCCGTTAATATAGCAGTGTTTTC
Found at i:18467021 original size:135 final size:135
Alignment explanation
Indices: 18466799--18467042 Score: 373
Period size: 135 Copynumber: 1.8 Consensus size: 135
18466789 TTTGGCAGGT
* * *
18466799 GGAGAAGGTGATACTTTTGGCCAGCTCTTTGGAAATCCAGTCTTCGGATCTGTTGATGAAGAAAT
1 GGAGAAGGTAATACTTTTGGCCAGCTCTTTGGAAATCCAGTCTTAGGATCTATTGATGAAGAAAT
* **
18466864 TTGTTTATCCTCAGCTGCAATGAATTCCTCATAACTAACATTCCTGGGAGGAGAAGCAACCTTTG
66 TTGTGTATCCTCAGCTAAAATGAATTCCTCATAACTAACATTCCTGGGAGGAGAAGCAACCTTTG
18466929 CTGGA
131 CTGGA
* * * *
18466934 GGAGGAGGTAATACTTTTGGCCAGCTCTTTGGCAATGCAGTCTTAGGATCTATTGATGAAGAACT
1 GGAGAAGGTAATACTTTTGGCCAGCTCTTTGGAAATCCAGTCTTAGGATCTATTGATGAAGAAAT
*
18466999 TTGTCGT-TCCTCTGCTAAAATGAATTCCTCATAACTAACATTCC
66 TTGT-GTATCCTCAGCTAAAATGAATTCCTCATAACTAACATTCC
18467043 CTGATGGAAC
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
135 96 0.99
136 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (135 bp):
GGAGAAGGTAATACTTTTGGCCAGCTCTTTGGAAATCCAGTCTTAGGATCTATTGATGAAGAAAT
TTGTGTATCCTCAGCTAAAATGAATTCCTCATAACTAACATTCCTGGGAGGAGAAGCAACCTTTG
CTGGA
Found at i:18468737 original size:22 final size:22
Alignment explanation
Indices: 18468695--18468737 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18468685 TATTTATTTA
*
18468695 TTTATTTATTTTTAATCTTTTC
1 TTTATTTATTTTTAATATTTTC
18468717 TTTATTTGATTTTTAA-ATTTT
1 TTTATTT-ATTTTTAATATTTT
18468738 TATTATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTATTTATTTTTAATATTTTC
Found at i:18468743 original size:22 final size:21
Alignment explanation
Indices: 18468691--18468743 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
18468681 ATTTTATTTA
18468691 TTTATTTATTTATTTTTAATCT
1 TTTA-TTATTTATTTTTAATCT
*
18468713 TTTCTTTATTTGATTTTTAAAT-T
1 TTT-ATTATTT-ATTTTT-AATCT
18468736 TTTATTAT
1 TTTATTAT
18468744 GGTTTATCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 13 0.50
23 10 0.38
24 3 0.12
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTATTATTTATTTTTAATCT
Found at i:18468777 original size:15 final size:16
Alignment explanation
Indices: 18468754--18468804 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
18468744 GGTTTATCTC
*
18468754 TTATTTTTATTTTA-T
1 TTATCTTTATTTTATT
**
18468769 TTATCTTTA-AATATT
1 TTATCTTTATTTTATT
18468784 TTATC-TTATTTTATT
1 TTATCTTTATTTTATT
18468799 TTATCT
1 TTATCT
18468805 CATTAGCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 5 0.18
15 23 0.82
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATCTTTATTTTATT
Found at i:18469500 original size:16 final size:17
Alignment explanation
Indices: 18469479--18469518 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
18469469 ACTTAGAAAG
18469479 AGAAAAAGA-AAAAAAA
1 AGAAAAAGAGAAAAAAA
*
18469495 AGAAAAAGAGAGAAAAA
1 AGAAAAAGAGAAAAAAA
18469512 AGAAAAA
1 AGAAAAA
18469519 TCTAGCGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AGAAAAAGAGAAAAAAA
Found at i:18470005 original size:102 final size:100
Alignment explanation
Indices: 18469899--18470199 Score: 234
Period size: 102 Copynumber: 2.9 Consensus size: 100
18469889 GAGAAAATGG
*
18469899 AAATATCAATTTTTCCTTTAAAAAAATCATTTTAAAAAAATGAGGAAAAAGTTAGAATATCAATT
1 AAATATCAATTTTTCCTTTAAAAAAAT-ATTTTAAAAAAATGAGGAAAAAGTTA-AATATTAATT
18469964 TTTCCTTAAAATAAATAAATTTTTGAAGAAAAAGTTA
64 TTTCCTTAAAATAAATAAATTTTTGAAGAAAAAGTTA
* * * * *
18470001 AAATATTAA-TTTT-CTCTTAAATGAAAT-TTTCAAGAAAATTTAAGGAAAAAGTTAAAGTATTA
1 AAATATCAATTTTTCCT-TTAAA-AAAATATTTTAA-AAAA-ATGAGGAAAAAGTTAAA-TATTA
* * ** * *
18470063 ATTTTTCCTTAAACAAAAATAATTTTAAAATTTTTATAAAAAGTTT
61 ATTTTTCCTTAAA-ATAAATAA-ATT----TTTGAAGAAAAAGTTA
* * * *
18470109 AAATATCAATTTTTCCTTAAACAAAAAAATAATTTTCAAAAAATGGGAGGAAAAATTTTAAGTAT
1 AAATATCAATTTTTCCTT---TAAAAAAAT-ATTTTAAAAAAAT--GAGGAAAAA-GTTAAATAT
*
18470174 TAATTTTTCCTT-ACATAAA-AAATTTT
59 TAATTTTTCCTTAAAATAAATAAATTTT
18470200 AATTTTTCCT
Statistics
Matches: 154, Mismatches: 24, Indels: 39
0.71 0.11 0.18
Matches are distributed among these distances:
100 7 0.05
101 15 0.10
102 42 0.27
103 7 0.05
104 2 0.01
105 2 0.01
108 20 0.13
109 7 0.05
110 4 0.03
111 9 0.06
112 8 0.05
113 27 0.18
114 4 0.03
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (100 bp):
AAATATCAATTTTTCCTTTAAAAAAATATTTTAAAAAAATGAGGAAAAAGTTAAATATTAATTTT
TCCTTAAAATAAATAAATTTTTGAAGAAAAAGTTA
Found at i:18470093 original size:54 final size:54
Alignment explanation
Indices: 18470035--18470201 Score: 155
Period size: 54 Copynumber: 3.0 Consensus size: 54
18470025 AATTTTCAAG
18470035 AAAATTTAAGGAAAAAGTTAAAGTATTAATTTTTCCTTAAACAAAAATAATTTT
1 AAAATTTAAGGAAAAAGTTAAAGTATTAATTTTTCCTTAAACAAAAATAATTTT
* * *
18470089 AAAATTTTTA-TAAAAAGTTTAAA-TATCAATTTTTCCTTAAACAAAAAAATAATTTT
1 AAAA-TTTAAGGAAAAAG-TTAAAGTATTAATTTTTCCTTAAAC--AAAAATAATTTT
*** * *
18470145 CAAAAAATGGGAGGAAAAATTTTAAGTATTAATTTTTCCTT--ACATAAAA-AATTTT
1 ---AAAATTTAAGGAAAAAGTTAAAGTATTAATTTTTCCTTAAACA-AAAATAATTTT
18470200 AA
1 AA
18470202 TTTTTCCTTG
Statistics
Matches: 93, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
52 2 0.02
54 28 0.30
55 16 0.17
56 16 0.17
57 2 0.02
58 6 0.06
59 23 0.25
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (54 bp):
AAAATTTAAGGAAAAAGTTAAAGTATTAATTTTTCCTTAAACAAAAATAATTTT
Found at i:18470179 original size:59 final size:59
Alignment explanation
Indices: 18470025--18470195 Score: 190
Period size: 59 Copynumber: 3.0 Consensus size: 59
18470015 TCTTAAATGA
*
18470025 AATTTTCAAGAAAATTTAAGGAAAAAGTTAAAGTATTAATTTTTCCTTAAAC--AAAAAT
1 AATTTTCAA-AAAATTTAAGGAAAAAGTTTAAGTATTAATTTTTCCTTAAACAAAAAAAT
* * * * *
18470083 AATTTT--AAAATTTTTA-TAAAAAGTTTAAATATCAATTTTTCCTTAAACAAAAAAAT
1 AATTTTCAAAAAATTTAAGGAAAAAGTTTAAGTATTAATTTTTCCTTAAACAAAAAAAT
*** * * *
18470139 AATTTTCAAAAAATGGGAGGAAAAATTTTAAGTATTAATTTTTCCTTACATAAAAAA
1 AATTTTCAAAAAATTTAAGGAAAAAGTTTAAGTATTAATTTTTCCTTAAACAAAAAA
18470196 TTTTAATTTT
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
54 28 0.30
55 7 0.08
56 13 0.14
58 12 0.13
59 32 0.35
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (59 bp):
AATTTTCAAAAAATTTAAGGAAAAAGTTTAAGTATTAATTTTTCCTTAAACAAAAAAAT
Found at i:18479900 original size:25 final size:25
Alignment explanation
Indices: 18479866--18479913 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
18479856 AATGAAGCAC
*
18479866 AAAAAAAATGAAAATTGAAAAAATG
1 AAAAAAAATGAAAAGTGAAAAAATG
*
18479891 AAAAATAATGAAAAGTGAAAAAA
1 AAAAAAAATGAAAAGTGAAAAAA
18479914 AAAGAAGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (25 bp):
AAAAAAAATGAAAAGTGAAAAAATG
Found at i:18481086 original size:32 final size:32
Alignment explanation
Indices: 18480995--18481088 Score: 80
Period size: 32 Copynumber: 2.9 Consensus size: 32
18480985 TTCAATTTGG
* ***
18480995 TCATTTTTATTTTTGACATTGGCTCAGTCTGG
1 TCATTTTTATTTTTGACATTGGCTCAATCCAA
* * ** * ***
18481027 TCACTTTTATCTTCAACCTTAATTCAATCCAA
1 TCATTTTTATTTTTGACATTGGCTCAATCCAA
18481059 TCATTTTTATTTTTGACATTGGCTCAATCC
1 TCATTTTTATTTTTGACATTGGCTCAATCC
18481089 GGTTACTTTA
Statistics
Matches: 42, Mismatches: 20, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (32 bp):
TCATTTTTATTTTTGACATTGGCTCAATCCAA
Found at i:18481192 original size:95 final size:96
Alignment explanation
Indices: 18481020--18481198 Score: 243
Period size: 95 Copynumber: 1.9 Consensus size: 96
18481010 ACATTGGCTC
* **
18481020 AGTCTGGTCACTTTTATCTTCAACCTTAATTCAATCCAATCATTTTTATTTTTGACATTGGCTCA
1 AGTCTGGTCACTTTAATCTTCAACCTTAATTCAATCCAATCATTTTTATTTTTGACATTAACTCA
* *
18481085 ATCCGGTTAC-TTTATCTTTTACCTTGGTTT
66 ATCCGATCACTTTTATCTTTTACCTTGGTTT
* * * * * *
18481115 AGTCTGGTCACTTTAATCTTCAACCTTAGTTCAATCTAGTTATTTTTATTTTTGACCTTAACTTA
1 AGTCTGGTCACTTTAATCTTCAACCTTAATTCAATCCAATCATTTTTATTTTTGACATTAACTCA
*
18481180 GTCCGATCACTTTTATCTT
66 ATCCGATCACTTTTATCTT
18481199 CGATCTTGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
95 63 0.89
96 8 0.11
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (96 bp):
AGTCTGGTCACTTTAATCTTCAACCTTAATTCAATCCAATCATTTTTATTTTTGACATTAACTCA
ATCCGATCACTTTTATCTTTTACCTTGGTTT
Found at i:18481407 original size:33 final size:33
Alignment explanation
Indices: 18481366--18481465 Score: 114
Period size: 33 Copynumber: 3.1 Consensus size: 33
18481356 TATTTTTTCA
18481366 TTTC-GACTTTGGCTAAGA-CTAAGTCATTTTAT
1 TTTCTGACTTTGGCTAAGATC-AAGTCATTTTAT
* ***
18481398 TTTCTGACTTTGGCTAAGTTCAAGTCATACCAT
1 TTTCTGACTTTGGCTAAGATCAAGTCATTTTAT
* * *
18481431 TTTGTAACTTTGGCTAAGATCAAGTTATTTTAT
1 TTTCTGACTTTGGCTAAGATCAAGTCATTTTAT
18481464 TT
1 TT
18481466 CCAACTTCAG
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
32 4 0.07
33 50 0.91
34 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (33 bp):
TTTCTGACTTTGGCTAAGATCAAGTCATTTTAT
Found at i:18481774 original size:15 final size:15
Alignment explanation
Indices: 18481728--18481774 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
18481718 TGGTTTGACA
*
18481728 CCCAAACCAATTGGG
1 CCCAAACCAATTGTG
*
18481743 CCCAAACCAATTATG
1 CCCAAACCAATTGTG
*
18481758 CCCAAATCAATTGTG
1 CCCAAACCAATTGTG
18481773 CC
1 CC
18481775 GAGACCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.34, C:0.34, G:0.13, T:0.19
Consensus pattern (15 bp):
CCCAAACCAATTGTG
Found at i:18481815 original size:17 final size:18
Alignment explanation
Indices: 18481793--18481833 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
18481783 ATCTAAACCT
18481793 AATTTTCTAA-TTTTCTA
1 AATTTTCTAATTTTTCTA
* *
18481810 AATTTTTTAATTTTTTTA
1 AATTTTCTAATTTTTCTA
18481828 AATTTT
1 AATTTT
18481834 TATGTCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (18 bp):
AATTTTCTAATTTTTCTA
Found at i:18481834 original size:9 final size:9
Alignment explanation
Indices: 18481801--18481834 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
18481791 CTAATTTTCT
*
18481801 AATTTTCTA
1 AATTTTTTA
18481810 AATTTTTTA
1 AATTTTTTA
*
18481819 ATTTTTTTA
1 AATTTTTTA
18481828 AATTTTT
1 AATTTTT
18481835 ATGTCTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (9 bp):
AATTTTTTA
Found at i:18483349 original size:55 final size:55
Alignment explanation
Indices: 18483280--18483443 Score: 152
Period size: 55 Copynumber: 2.9 Consensus size: 55
18483270 AATTTTCAAG
18483280 AAATTTTGAGGAAAAAAATTAAAGTATTAATTTTTCCTTAAACAAAAATAA-TTTC
1 AAATTTTGA-GAAAAAAATTAAAGTATTAATTTTTCCTTAAACAAAAATAATTTTC
* * * * * *
18483335 AAAGTTTTGAGAAAAATACTAAAATATCAATTTTTTCTTAAACAAAAAAATAATTTTT
1 AAA-TTTTGAGAAAAAAATTAAAGTATTAATTTTTCCTTAAAC--AAAAATAATTTTC
*** *
18483393 AAAAAATG-GAAAGAAAAGGTTAAAGTATTAATTTTTTCCTTAAATAAAAAT
1 AAATTTTGAGAAA-AAAA--TTAAAGTATTAA-TTTTTCCTTAAACAAAAAT
18483444 GTTCAAATTT
Statistics
Matches: 86, Mismatches: 15, Indels: 13
0.75 0.13 0.11
Matches are distributed among these distances:
55 31 0.36
56 10 0.12
57 13 0.15
58 12 0.14
59 9 0.10
60 11 0.13
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (55 bp):
AAATTTTGAGAAAAAAATTAAAGTATTAATTTTTCCTTAAACAAAAATAATTTTC
Found at i:18485979 original size:30 final size:29
Alignment explanation
Indices: 18485944--18486008 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
18485934 TATTACAATA
* *
18485944 AATTGAGATCTCAAATATTTATTTTTATTT
1 AATTGAGACCT-AAATATTTATATTTATTT
* *
18485974 AATTGAGCCCTAAATGTTTATATTTATTT
1 AATTGAGACCTAAATATTTATATTTATTT
18486003 AATTGA
1 AATTGA
18486009 ATTCTTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (29 bp):
AATTGAGACCTAAATATTTATATTTATTT
Found at i:18486960 original size:74 final size:74
Alignment explanation
Indices: 18486881--18487109 Score: 395
Period size: 74 Copynumber: 3.0 Consensus size: 74
18486871 TCATATATAT
18486881 ATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAAACTTTT
1 ATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAAACTTTT
18486946 AACTTAAAAATATA
66 AACTT---AA-A-A
18486960 TATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAAACTTT
1 -ATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAAACTTT
*
18487025 TAACTTAAAT
65 TAACTTAAAA
18487035 ATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAAACTTTT
1 ATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAAACTTTT
18487100 AACTTAAAA
66 AACTTAAAA
18487109 A
1 A
18487110 ATTTATCCTT
Statistics
Matches: 147, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
74 74 0.50
76 1 0.01
77 2 0.01
80 70 0.48
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (74 bp):
ATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAAACTTTT
AACTTAAAA
Found at i:18486960 original size:80 final size:80
Alignment explanation
Indices: 18486875--18487109 Score: 428
Period size: 80 Copynumber: 3.0 Consensus size: 80
18486865 TCTATCTCAT
18486875 ATATATATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAA
1 ATATATATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAA
18486940 ACTTTTAACTTAAAA
66 ACTTTTAACTTAAAA
18486955 ATATATATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAA
1 ATATATATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAA
18487020 ACTTTTAACTT----
66 ACTTTTAACTTAAAA
18487031 A-A-ATATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAA
1 ATATATATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAA
18487094 ACTTTTAACTTAAAA
66 ACTTTTAACTTAAAA
18487109 A
1 A
18487110 ATTTATCCTT
Statistics
Matches: 151, Mismatches: 0, Indels: 10
0.94 0.00 0.06
Matches are distributed among these distances:
74 72 0.48
75 1 0.01
76 1 0.01
78 1 0.01
80 76 0.50
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (80 bp):
ATATATATATATATATATGTAAATTTCAAAATTGTTAAAAGAGATTAACCTAAATACCCTTATAA
ACTTTTAACTTAAAA
Found at i:18487734 original size:2 final size:2
Alignment explanation
Indices: 18487727--18487758 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18487717 ATTTGTTAAC
18487727 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18487759 CACACACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18487860 original size:28 final size:28
Alignment explanation
Indices: 18487829--18487892 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
18487819 TTTTTGTCAT
* *
18487829 ATTGGTACCTAAAAAATTTTATAACCAC
1 ATTGGTACCGAAAAAATTTTACAACCAC
* *
18487857 ATTGGTACCGAAAGAATTTTACAACCCC
1 ATTGGTACCGAAAAAATTTTACAACCAC
18487885 ATTGGTAC
1 ATTGGTAC
18487893 TTGAACTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (28 bp):
ATTGGTACCGAAAAAATTTTACAACCAC
Found at i:18488115 original size:20 final size:19
Alignment explanation
Indices: 18488092--18488202 Score: 73
Period size: 20 Copynumber: 5.7 Consensus size: 19
18488082 TTCTTCATTA
18488092 TAAAAAATTCAAAAAAATTT
1 TAAAAAATTCAAAAAAA-TT
* *
18488112 TAAAAATTTCAAAAAAAATC
1 TAAAAAATTC-AAAAAAATT
* * ***
18488132 TAAAAATTTCTAAACCTTT
1 TAAAAAATTCAAAAAAATT
*
18488151 TTAAAAATT-ATAAAACAATT
1 TAAAAAATTCA-AAAA-AATT
* *
18488171 TATAGAATTCAAAAACAATT
1 TAAAAAATTCAAAAA-AATT
18488191 T-AAAAATTCAAA
1 TAAAAAATTCAAA
18488203 TTAAAATCTA
Statistics
Matches: 69, Mismatches: 18, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
19 23 0.33
20 38 0.55
21 8 0.12
ACGTcount: A:0.59, C:0.09, G:0.01, T:0.32
Consensus pattern (19 bp):
TAAAAAATTCAAAAAAATT
Found at i:18488143 original size:10 final size:10
Alignment explanation
Indices: 18488104--18488159 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 10
18488094 AAAAATTCAA
18488104 AAAAATTT-T
1 AAAAATTTCT
*
18488113 AAAAATTTCA
1 AAAAATTTCT
**
18488123 AAAAAAATCT
1 AAAAATTTCT
18488133 AAAAATTTCT
1 AAAAATTTCT
** *
18488143 AAACCTTTTT
1 AAAAATTTCT
18488153 AAAAATT
1 AAAAATT
18488160 ATAAAACAAT
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
9 8 0.23
10 27 0.77
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAATTTCT
Found at i:18488243 original size:79 final size:78
Alignment explanation
Indices: 18488097--18488244 Score: 185
Period size: 79 Copynumber: 1.9 Consensus size: 78
18488087 CATTATAAAA
*
18488097 AATTCAAAAAAATTTTAAAAATTTCAAAAAAAATCTAAAAATTTCTAAACCTTTTTAAAAATTAT
1 AATTCAAAAAAATTTTAAAAATTTCAAAAAAAATCTAAAAATTTCTAAA-CTTTTTAAAAATAAT
18488162 AAAACAATTTATAG
65 AAAACAATTTATAG
* * * *
18488176 AATTCAAAAACAA-TTTAAAAA-TTCAAATTAAAATCTAAAATATTCTTTAAA-TTTTTCAAAGT
1 AATTCAAAAA-AATTTTAAAAATTTCAAA-AAAAATCTAAAA-ATT-TCTAAACTTTTTAAAAAT
18488238 AATAAAA
62 AATAAAA
18488245 AAAATTCAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
78 6 0.10
79 44 0.73
80 5 0.08
81 5 0.08
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.34
Consensus pattern (78 bp):
AATTCAAAAAAATTTTAAAAATTTCAAAAAAAATCTAAAAATTTCTAAACTTTTTAAAAATAATA
AAACAATTTATAG
Found at i:18488298 original size:20 final size:20
Alignment explanation
Indices: 18488275--18488329 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
18488265 AAAATTTTCA
18488275 AAAAAATTTTAAAAAACTCT
1 AAAAAATTTTAAAAAACTCT
* *
18488295 -AAAAATTGTTTAAAAATTCT
1 AAAAAATT-TTAAAAAACTCT
*
18488315 AAAATAATTTCAAAA
1 AAAA-AATTTTAAAA
18488330 GATTTTAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 7 0.25
20 10 0.36
21 7 0.25
22 4 0.14
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAAATTTTAAAAAACTCT
Found at i:18488310 original size:32 final size:32
Alignment explanation
Indices: 18488242--18488310 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
18488232 CAAAGTAATA
*
18488242 AAAAAAATTCAAAAAAACACTTTAAAATTTTC
1 AAAAAAATTCAAAAAAACACTTAAAAATTTTC
** * *
18488274 AAAAAAATTTTAAAAAACTC-TAAAAATTGTTT
1 AAAAAAATTCAAAAAAACACTTAAAAATT-TTC
18488306 AAAAA
1 AAAAA
18488311 TTCTAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 7 0.23
32 24 0.77
ACGTcount: A:0.61, C:0.09, G:0.01, T:0.29
Consensus pattern (32 bp):
AAAAAAATTCAAAAAAACACTTAAAAATTTTC
Found at i:18488319 original size:19 final size:19
Alignment explanation
Indices: 18488276--18488318 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
18488266 AAATTTTCAA
18488276 AAAAATTTTAAAAAACTCT
1 AAAAATTTTAAAAAACTCT
* *
18488295 AAAAATTGTTTAAAAATTCT
1 AAAAATT-TTAAAAAACTCT
18488315 AAAA
1 AAAA
18488319 TAATTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAATTTTAAAAAACTCT
Found at i:18488394 original size:19 final size:20
Alignment explanation
Indices: 18488361--18488406 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
18488351 TGAAGAAATA
*
18488361 AAAAATTCATAAAAATATTT
1 AAAAATTCATAAAAACATTT
*
18488381 ACAAATTC-TAAAAACATTT
1 AAAAATTCATAAAAACATTT
18488400 AAAAATT
1 AAAAATT
18488407 TTCAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTCATAAAAACATTT
Found at i:18488443 original size:21 final size:22
Alignment explanation
Indices: 18488419--18488460 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18488409 CAAATTTTCA
18488419 AAAAAATAAAAAACT-TTAAAT
1 AAAAAATAAAAAACTCTTAAAT
**
18488440 AAAATTTAAAAAACTCTTAAA
1 AAAAAATAAAAAACTCTTAAA
18488461 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAAATAAAAAACTCTTAAAT
Found at i:18488495 original size:29 final size:28
Alignment explanation
Indices: 18488359--18488499 Score: 110
Period size: 29 Copynumber: 4.9 Consensus size: 28
18488349 AATGAAGAAA
*
18488359 TAAAAAATTCATAAAAATATTTACAAA-TTC
1 TAAAAAATT--TAAAAAT-TTTAAAAATTTC
* *
18488389 TAAAAACATTTAAAAATTTTCAAATTTTC
1 TAAAAA-ATTTAAAAATTTTAAAAATTTC
* * * *
18488418 -AAAAAAATAAAAAACTTTAAATAAAATT-
1 TAAAAAATTTAAAAA-TTTTAA-AAATTTC
18488446 TAAAAAACTCTT-AAAATTTTAAAAATTTC
1 TAAAAAA-T-TTAAAAATTTTAAAAATTTC
18488475 TAAAAATATTTAAAAATTTTAAAAA
1 TAAAAA-ATTTAAAAATTTTAAAAA
18488500 AAATTAAAAG
Statistics
Matches: 88, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
27 7 0.08
28 21 0.24
29 45 0.51
30 11 0.12
31 4 0.05
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (28 bp):
TAAAAAATTTAAAAATTTTAAAAATTTC
Found at i:18488497 original size:19 final size:18
Alignment explanation
Indices: 18488370--18488499 Score: 75
Period size: 19 Copynumber: 6.8 Consensus size: 18
18488360 AAAAAATTCA
* *
18488370 TAAAAATATTTACAAATTC
1 TAAAAAT-TTTAAAAATTT
*
18488389 TAAAAACATTTAAAAATTT
1 TAAAAA-TTTTAAAAATTT
* **
18488408 T-CAAATTTTCAAAAAAAT
1 TAAAAATTTT-AAAAATTT
* *
18488426 AAAAAACTTTAAATAAAATTT
1 TAAAAA-TTT-TA-AAAATTT
* *
18488447 AAAAAACTCTT-AAAATTT
1 TAAAAA-TTTTAAAAATTT
18488465 TAAAAATTTCTAAAAATATT
1 TAAAAATTT-TAAAAAT-TT
18488485 TAAAAATTTTAAAAA
1 TAAAAATTTTAAAAA
18488500 AAATTAAAAG
Statistics
Matches: 86, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
17 5 0.06
18 22 0.26
19 30 0.35
20 15 0.17
21 14 0.16
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAAATTTTAAAAATTT
Found at i:18488500 original size:10 final size:9
Alignment explanation
Indices: 18488370--18488499 Score: 75
Period size: 9 Copynumber: 13.7 Consensus size: 9
18488360 AAAAAATTCA
18488370 TAAAAATATT
1 TAAAAAT-TT
* *
18488380 TACAAATTC
1 TAAAAATTT
*
18488389 TAAAAACATT
1 TAAAAA-TTT
18488399 TAAAAATTT
1 TAAAAATTT
*
18488408 T-CAAATTT
1 TAAAAATTT
**
18488416 TCAAAAAAAT
1 T-AAAAATTT
*
18488426 AAAAAACTTT
1 TAAAAA-TTT
*
18488436 AAATAAAATTT
1 -TA-AAAATTT
* *
18488447 AAAAAACTCT
1 TAAAAA-TTT
18488457 T-AAAATTT
1 TAAAAATTT
18488465 TAAAAATTT
1 TAAAAATTT
18488474 CTAAAAATATT
1 -TAAAAAT-TT
18488485 TAAAAATTT
1 TAAAAATTT
18488494 TAAAAA
1 TAAAAA
18488500 AAATTAAAAG
Statistics
Matches: 94, Mismatches: 16, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
8 10 0.11
9 37 0.39
10 36 0.38
11 7 0.07
12 4 0.04
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAAATTT
Found at i:18488506 original size:19 final size:19
Alignment explanation
Indices: 18488400--18488508 Score: 80
Period size: 19 Copynumber: 5.6 Consensus size: 19
18488390 AAAAACATTT
**
18488400 AAAAATTTTCAAATTTTCAA
1 AAAAATTTAAAAATTTT-AA
* *
18488420 AAAAA-TAAAAAACTTTAA
1 AAAAATTTAAAAATTTTAA
*
18488438 ATAAAATTTAAAAAACTCTT--
1 A-AAAATTT-AAAAA-TTTTAA
*
18488458 AAAATTTTAAAAATTTCTAA
1 AAAAATTTAAAAATTT-TAA
*
18488478 AAATATTTAAAAATTTTAA
1 AAAAATTTAAAAATTTTAA
*
18488497 AAAAAATTAAAA
1 AAAAATTTAAAA
18488509 GTACAAAAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
17 2 0.03
18 9 0.13
19 30 0.43
20 21 0.30
21 5 0.07
22 2 0.03
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTTAAAAATTTTAA
Found at i:18488807 original size:19 final size:20
Alignment explanation
Indices: 18488785--18488830 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
18488775 TTACAATTTC
*
18488785 AATTTTTATATATT-TTTTG-
1 AATTTTTAAAT-TTATTTTGA
*
18488804 AATTTATAAATTTATTTTGA
1 AATTTTTAAATTTATTTTGA
18488824 AATTTTT
1 AATTTTT
18488831 TGTACTTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 2 0.09
19 14 0.64
20 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
AATTTTTAAATTTATTTTGA
Found at i:18489117 original size:37 final size:38
Alignment explanation
Indices: 18489076--18489155 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 38
18489066 TAATTTATAT
*
18489076 AATTTAAAAAAATATTTA-ATTTTTT-TAATTTTTTAGA
1 AATTTAAAAAAAT-TTTATATTTTTTATAATTTTTCAGA
* * * *
18489113 AATTTATAAATATTTTATATTTTTTATTATTTTTCATA
1 AATTTAAAAAAATTTTATATTTTTTATAATTTTTCAGA
18489151 AATTT
1 AATTT
18489156 GTAGAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 4 0.11
37 18 0.50
38 14 0.39
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (38 bp):
AATTTAAAAAAATTTTATATTTTTTATAATTTTTCAGA
Found at i:18489202 original size:9 final size:9
Alignment explanation
Indices: 18489093--18489206 Score: 68
Period size: 10 Copynumber: 11.9 Consensus size: 9
18489083 AAAAATATTT
*
18489093 AATTTTTTT
1 AATTTTTTA
18489102 AATTTTTTA
1 AATTTTTTA
* *
18489111 GAAATTTATA
1 -AATTTTTTA
*
18489121 AATATTTTA
1 AATTTTTTA
*
18489130 TATTTTTTA
1 AATTTTTTA
*
18489139 TTATTTTTCATA
1 -AATTTTT--TA
*
18489151 AA-TTTGTA
1 AATTTTTTA
*
18489159 GAATTTTTCTG
1 -AATTTTT-TA
18489170 AATTGTTTTA
1 AATT-TTTTA
*
18489180 AATTATTTA
1 AATTTTTTA
18489189 GAATTTTTTA
1 -AATTTTTTA
18489199 AATTTTTT
1 AATTTTTT
18489207 GAGAAATTTA
Statistics
Matches: 81, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
8 2 0.02
9 35 0.43
10 37 0.46
11 5 0.06
12 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (9 bp):
AATTTTTTA
Found at i:18489211 original size:20 final size:19
Alignment explanation
Indices: 18489097--18489238 Score: 78
Period size: 19 Copynumber: 7.4 Consensus size: 19
18489087 ATATTTAATT
*
18489097 TTTTTAATTTTTTAGAA-A
1 TTTTAAATTTTTTAGAATA
* * *
18489115 TTTATAAATATTTTA-TATT
1 TTT-TAAATTTTTTAGAATA
* * *
18489134 TTTTATTATTTTTCATAA-A
1 TTTTA-AATTTTTTAGAATA
*
18489153 TTTGTAGAATTTTTCT-GAATTG
1 TTT-TA-AATTTTT-TAGAA-TA
* *
18489175 TTTTAAATTATTTAGAATT
1 TTTTAAATTTTTTAGAATA
18489194 TTTTAAATTTTTTGAGAA-A
1 TTTTAAATTTTTT-AGAATA
* *
18489213 TTTAAAATTTTTTTGAATA
1 TTTTAAATTTTTTAGAATA
18489232 TTTTAAA
1 TTTTAAA
18489239 ACTTTTGTAA
Statistics
Matches: 92, Mismatches: 21, Indels: 21
0.69 0.16 0.16
Matches are distributed among these distances:
18 9 0.10
19 54 0.59
20 24 0.26
21 2 0.02
22 3 0.03
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.58
Consensus pattern (19 bp):
TTTTAAATTTTTTAGAATA
Found at i:18489239 original size:20 final size:19
Alignment explanation
Indices: 18489160--18489244 Score: 64
Period size: 20 Copynumber: 4.3 Consensus size: 19
18489150 AAATTTGTAG
* *
18489160 AATTTTTCTGAATTGTTTTA
1 AATTTTTTTGAATT-TTTAA
* * *
18489180 AATTATTTAGAATTTTTTA
1 AATTTTTTTGAATTTTTAA
**
18489199 AA-TTTTTTGAGAAATTTAA
1 AATTTTTTTGA-ATTTTTAA
18489218 AATTTTTTTGAATATTTTAA
1 AATTTTTTTGAAT-TTTTAA
18489238 AACTTTT
1 AA-TTTT
18489245 GTAAAAATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
18 6 0.12
19 15 0.29
20 26 0.51
21 4 0.08
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (19 bp):
AATTTTTTTGAATTTTTAA
Found at i:18489343 original size:22 final size:20
Alignment explanation
Indices: 18489318--18489363 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
18489308 TTTTTCTAAA
*
18489318 TTTTAAAAATTCTTATAATATT
1 TTTTAAAAATT-TTA-AAAATT
*
18489340 TTTTAGAAATTTTAAAAATT
1 TTTTAAAAATTTTAAAAATT
18489360 TTTT
1 TTTT
18489364 TGAGTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 3 0.14
22 10 0.45
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTAAAAATTTTAAAAATT
Found at i:18489385 original size:9 final size:9
Alignment explanation
Indices: 18489371--18489669 Score: 107
Period size: 10 Copynumber: 31.8 Consensus size: 9
18489361 TTTTGAGTTG
18489371 TTTTAAATT
1 TTTTAAATT
18489380 TTTT-AATT
1 TTTTAAATT
*
18489388 TTGTAAAAAATT
1 TT-T--TAAATT
*
18489400 TTTT-CA-T
1 TTTTAAATT
*
18489407 TTTTAGAAAT
1 TTTTA-AATT
**
18489417 TTTTAAACA
1 TTTTAAATT
* *
18489426 TTCTAGATT
1 TTTTAAATT
18489435 TTTTTGAAA-T
1 -TTTT-AAATT
18489445 TTTTAATATT
1 TTTTAA-ATT
18489455 TTTTAACAATT
1 TTTT-A-AATT
*
18489466 TTTTGAA-T
1 TTTTAAATT
18489474 TTTTAAATTT
1 TTTTAAA-TT
18489484 TTTTAAACTT
1 TTTTAAA-TT
*
18489494 TTTGAGAATT
1 TTTTA-AATT
18489504 TTTTAAAATT
1 TTTT-AAATT
*
18489514 TTTAAAATT
1 TTTTAAATT
* *
18489523 TTATAATTT
1 TTTTAAATT
18489532 TTTTAAA--
1 TTTTAAATT
18489539 --TTAAATT
1 TTTTAAATT
*
18489546 TTTTATAA-A
1 TTTTA-AATT
18489555 TTTTAAATAT
1 TTTTAAAT-T
*
18489565 TTTAAAATAT
1 TTTTAAAT-T
*
18489575 TTTAAGAATTT
1 TTTTA-AA-TT
18489586 TTTTCAAAATT
1 TTTT--AAATT
*
18489597 ATTTAAAATTT
1 -TTTTAAA-TT
*
18489608 TTTTGAATT
1 TTTTAAATT
* *
18489617 TTTTCAAGT
1 TTTTAAATT
**
18489626 TTTTAAAAA
1 TTTTAAATT
*
18489635 TTTTAGAAAT
1 TTTTA-AATT
18489645 TTTTAAA-T
1 TTTTAAATT
18489653 TTTTAGAATT
1 TTTTA-AATT
18489663 TTTTAAA
1 TTTTAAA
18489670 AATTTTAGAA
Statistics
Matches: 221, Mismatches: 36, Indels: 66
0.68 0.11 0.20
Matches are distributed among these distances:
5 5 0.02
7 5 0.02
8 24 0.11
9 70 0.32
10 79 0.36
11 24 0.11
12 13 0.06
13 1 0.00
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (9 bp):
TTTTAAATT
Found at i:18489420 original size:10 final size:9
Alignment explanation
Indices: 18489405--18489691 Score: 122
Period size: 10 Copynumber: 30.3 Consensus size: 9
18489395 AAATTTTTTC
18489405 ATTTTTAGAA
1 ATTTTTA-AA
18489415 ATTTTTAAA
1 ATTTTTAAA
* *
18489424 CA-TTCTAGA
1 -ATTTTTAAA
* *
18489433 TTTTTTTGAA
1 AT-TTTTAAA
18489443 ATTTTTAATA
1 ATTTTTAA-A
*
18489453 TTTTTTAACA
1 ATTTTTAA-A
**
18489463 ATTTTTTGA
1 ATTTTTAAA
18489472 ATTTTTAAA
1 ATTTTTAAA
*
18489481 TTTTTTTAAA
1 -ATTTTTAAA
*
18489491 CTTTTTGAGAA
1 ATTTTT-A-AA
*
18489502 TTTTTTAAA
1 ATTTTTAAA
18489511 ATTTTTAAA
1 ATTTTTAAA
18489520 A-TTTTATAA
1 ATTTTTA-AA
* *
18489529 TTTTTTTAA
1 ATTTTTAAA
18489538 A---TTAAA
1 ATTTTTAAA
*
18489544 TTTTTTATAA
1 ATTTTTA-AA
18489554 A-TTTT-AA
1 ATTTTTAAA
18489561 ATATTTTAAA
1 AT-TTTTAAA
18489571 ATATTTTAAGA
1 AT-TTTTAA-A
18489582 ATTTTTTTCAAA
1 A--TTTTT-AAA
18489594 ATTATTTAAA
1 ATT-TTTAAA
*
18489604 ATTTTTTTGAA
1 A--TTTTTAAA
* *
18489615 TTTTTTCAA
1 ATTTTTAAA
*
18489624 GTTTTTAAA
1 ATTTTTAAA
*
18489633 AATTTTAGAA
1 ATTTTTA-AA
18489643 ATTTTT-AA
1 ATTTTTAAA
18489651 ATTTTTAGAA
1 ATTTTTA-AA
*
18489661 TTTTTTAAA
1 ATTTTTAAA
* *
18489670 AATTTTAGA
1 ATTTTTAAA
*
18489679 ATATTTTAGA
1 AT-TTTTAAA
18489689 ATT
1 ATT
18489692 CTTTTTTAAT
Statistics
Matches: 212, Mismatches: 38, Indels: 55
0.70 0.12 0.18
Matches are distributed among these distances:
6 4 0.02
7 3 0.01
8 13 0.06
9 80 0.38
10 84 0.40
11 17 0.08
12 8 0.04
13 3 0.01
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:18489467 original size:29 final size:27
Alignment explanation
Indices: 18489435--18489665 Score: 111
Period size: 29 Copynumber: 8.2 Consensus size: 27
18489425 ATTCTAGATT
18489435 TTTTTGAAATTTTTAATATTTTTTAACAA
1 TTTTTGAAATTTTTAA-ATTTTTTAA-AA
*
18489464 TTTTTTG-AATTTTTAAATTTTTTTAAAC
1 -TTTTTGAAATTTTTAAA-TTTTTTAAAA
*
18489492 TTTTTGAGAATTTTTTAAAATTTTTAAAA
1 TTTTTGA-AA-TTTTTAAATTTTTTAAAA
* *
18489521 TTTTAT-AATTTTTTTAAA----TTAAAT
1 TTTT-TGAA-ATTTTTAAATTTTTTAAAA
* *
18489545 TTTTTATAAATTTTAAATA-TTTT-AAAA
1 TTTTT-GAAATTTTTAA-ATTTTTTAAAA
* *
18489572 TATTTTAAGAATTTTTTTCAAAATTATTTAAAA
1 T-TTTT--GAA-ATTTTT--AAATTTTTTAAAA
* * *
18489605 TTTTTTTGAATTTTTTCAAGTTTTTAAAAA
1 --TTTTTGAAATTTTT-AAATTTTTTAAAA
* *
18489635 TTTTAGAAATTTTTAAA-TTTTTAGAA
1 TTTTTGAAATTTTTAAATTTTTTAAAA
18489661 TTTTT
1 TTTTT
18489666 TAAAAATTTT
Statistics
Matches: 158, Mismatches: 22, Indels: 46
0.70 0.10 0.20
Matches are distributed among these distances:
23 1 0.01
24 15 0.09
25 3 0.02
26 11 0.07
27 12 0.08
28 28 0.18
29 35 0.22
30 29 0.18
31 7 0.04
32 8 0.05
33 4 0.03
34 4 0.03
35 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTTGAAATTTTTAAATTTTTTAAAA
Found at i:18489547 original size:15 final size:16
Alignment explanation
Indices: 18489527--18489556 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18489517 AAAATTTTAT
18489527 AATTTTTT-TAAATTA
1 AATTTTTTATAAATTA
18489542 AATTTTTTATAAATT
1 AATTTTTTATAAATT
18489557 TTAAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTTTTTATAAATTA
Found at i:18489549 original size:33 final size:33
Alignment explanation
Indices: 18489506--18489572 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
18489496 TGAGAATTTT
* *
18489506 TTAAAATTTTTA-AAATTTTATAATTTTTTTAAA
1 TTAAAATTTTTATAAATTTTA-AATATTTTAAAA
*
18489539 TTAAATTTTTTATAAATTTTAAATATTTTAAAA
1 TTAAAATTTTTATAAATTTTAAATATTTTAAAA
18489572 T
1 T
18489573 ATTTTAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 22 0.73
34 8 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
TTAAAATTTTTATAAATTTTAAATATTTTAAAA
Found at i:18489576 original size:19 final size:20
Alignment explanation
Indices: 18489407--18489686 Score: 127
Period size: 19 Copynumber: 14.8 Consensus size: 20
18489397 ATTTTTTCAT
* *
18489407 TTTTAGAAATTTTT-AAACA
1 TTTTAGAATTTTTTAAAATA
* * *
18489426 TTCTAGATTTTTTTGAAAT-
1 TTTTAGAATTTTTTAAAATA
18489445 TTTTA-ATATTTTTTAACAAT-
1 TTTTAGA-ATTTTTTAA-AATA
* * *
18489465 TTTTTGAA-TTTTTAAATTT
1 TTTTAGAATTTTTTAAAATA
* * *
18489484 TTTTA-AACTTTTTGAGAATT
1 TTTTAGAA-TTTTTTAAAATA
*
18489504 TTTTA-AAATTTTT-AAA-A
1 TTTTAGAATTTTTTAAAATA
* *
18489521 TTTTATAATTTTTT-TAA-A
1 TTTTAGAATTTTTTAAAATA
*
18489539 --TTA-AATTTTTTATAA-A
1 TTTTAGAATTTTTTAAAATA
*
18489555 TTTTA-AATATTTTAAAATA
1 TTTTAGAATTTTTTAAAATA
18489574 TTTTAAGAATTTTTTTCAAAAT-
1 TTTT-AGAA-TTTTTT-AAAATA
* **
18489596 TATTTAAAATTTTTTTGAAT-
1 T-TTTAGAATTTTTTAAAATA
** *
18489616 TTTTTCAAGTTTTTAAAA-A
1 TTTTAGAATTTTTTAAAATA
*
18489635 TTTTAGAAATTTTT-AAAT-
1 TTTTAGAATTTTTTAAAATA
18489653 TTTTAGAATTTTTTAAAA-A
1 TTTTAGAATTTTTTAAAATA
*
18489672 TTTTAGAATATTTTA
1 TTTTAGAATTTTTTA
18489687 GAATTCTTTT
Statistics
Matches: 205, Mismatches: 35, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
15 8 0.04
16 7 0.03
17 5 0.02
18 46 0.22
19 82 0.40
20 31 0.15
21 9 0.04
22 9 0.04
23 8 0.04
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTAGAATTTTTTAAAATA
Found at i:18489578 original size:42 final size:42
Alignment explanation
Indices: 18489500--18489608 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
18489490 ACTTTTTGAG
* *
18489500 AATTTTTTAAAATTTTTAAAATTTTATAATTTTTTTAAATTA
1 AATTTTTTAAAATTTTTAAAATTTTATAAATATTTTAAATTA
*
18489542 AATTTTTTATAAA-TTTTAAATATTTTA-AAATATTTT-AA-GA
1 AATTTTTTA-AAATTTTTAAA-ATTTTATAAATATTTTAAATTA
*
18489582 ATTTTTTTCAAAATTATTTAAAATTTT
1 AATTTTTT-AAAATT-TTTAAAATTTT
18489609 TTTGAATTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
40 11 0.19
41 9 0.16
42 29 0.50
43 9 0.16
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (42 bp):
AATTTTTTAAAATTTTTAAAATTTTATAAATATTTTAAATTA
Found at i:18489594 original size:23 final size:21
Alignment explanation
Indices: 18489564--18489611 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
18489554 ATTTTAAATA
18489564 TTTTAAAA-TATTTTAAGAATTT
1 TTTTAAAATTA-TTTAA-AATTT
18489586 TTTTCAAAATTATTTAAAATTT
1 TTTT-AAAATTATTTAAAATTT
18489608 TTTT
1 TTTT
18489612 GAATTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 13 0.54
23 9 0.38
24 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTAAAATTATTTAAAATTT
Found at i:18489655 original size:37 final size:38
Alignment explanation
Indices: 18489503--18489685 Score: 130
Period size: 37 Copynumber: 4.9 Consensus size: 38
18489493 TTTTGAGAAT
* * *
18489503 TTTTTA-AAATTTTT-AAAATTTTATAATTTTTTTAAA
1 TTTTTACAAGTTTTTAAAAATTTTAGAATATTTTTAAA
* * *
18489539 ---TTA-AATTTTTTATAAATTTTA-AATATTTTAAAA
1 TTTTTACAAGTTTTTAAAAATTTTAGAATATTTTTAAA
* * * * * *
18489572 TATTTTAAGAATTTTTTTCAAAATTATTTAAAATTTTTTTGAA
1 T-TTTT-ACAA-GTTTTT-AAAAAT-TTTAGAATATTTTTAAA
*
18489615 TTTTTTCAAGTTTTTAAAAATTTTAGAA-ATTTTTAAA
1 TTTTTACAAGTTTTTAAAAATTTTAGAATATTTTTAAA
* *
18489652 TTTTTAGAATTTTTTAAAAATTTTAGAATATTTT
1 TTTTTACAAGTTTTTAAAAATTTTAGAATATTTT
18489686 AGAATTCTTT
Statistics
Matches: 116, Mismatches: 19, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
33 20 0.17
34 8 0.07
37 34 0.29
38 12 0.10
39 7 0.06
40 11 0.09
41 6 0.05
42 8 0.07
43 10 0.09
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (38 bp):
TTTTTACAAGTTTTTAAAAATTTTAGAATATTTTTAAA
Found at i:18489675 original size:9 final size:9
Alignment explanation
Indices: 18489626--18489686 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
18489616 TTTTTCAAGT
18489626 TTTTAAAAA
1 TTTTAAAAA
*
18489635 TTTTAGAAA
1 TTTTAAAAA
* *
18489644 TTTTTAAAT
1 TTTTAAAAA
**
18489653 TTTTAGAATT
1 TTTTA-AAAA
18489663 TTTTAAAAA
1 TTTTAAAAA
*
18489672 TTTTAGAATA
1 TTTTA-AAAA
18489682 TTTTA
1 TTTTA
18489687 GAATTCTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
9 25 0.61
10 16 0.39
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:18489704 original size:29 final size:27
Alignment explanation
Indices: 18489635--18489696 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 27
18489625 TTTTTAAAAA
*
18489635 TTTTAGAAATTTTTAAATTTTTAGAATT
1 TTTTA-AAAATTTTAAATTTTTAGAATT
18489663 TTTTAAAAATTTTAGAATATTTTAGAATT
1 TTTTAAAAATTTTA-AAT-TTTTAGAATT
18489692 CTTTT
1 -TTTT
18489697 TTAATTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 8 0.27
28 8 0.27
29 10 0.33
30 4 0.13
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.56
Consensus pattern (27 bp):
TTTTAAAAATTTTAAATTTTTAGAATT
Found at i:18489928 original size:3 final size:3
Alignment explanation
Indices: 18489920--18489952 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
18489910 ATTTCTTTTG
18489920 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18489953 ATTTTCGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18489981 original size:18 final size:17
Alignment explanation
Indices: 18489954--18490004 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 17
18489944 TATTATTATA
18489954 TTTTCGTTTTTTTTTCTC
1 TTTTC-TTTTTTTTTCTC
*
18489972 TTTTCTTTTTTTTTCTT
1 TTTTCTTTTTTTTTCTC
18489989 TTCTTCCTTTTTTTTT
1 TT-TT-CTTTTTTTTT
18490005 TGTTCCAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 13 0.43
18 7 0.23
19 10 0.33
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTTTTTTCTC
Found at i:18489982 original size:15 final size:15
Alignment explanation
Indices: 18489962--18489993 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18489952 TATTTTCGTT
18489962 TTTTTTTCTCTTTTC
1 TTTTTTTCTCTTTTC
*
18489977 TTTTTTTTTCTTTTC
1 TTTTTTTCTCTTTTC
18489992 TT
1 TT
18489994 CCTTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTCTCTTTTC
Found at i:18489985 original size:20 final size:18
Alignment explanation
Indices: 18489960--18490005 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
18489950 TATATTTTCG
* *
18489960 TTTTTTTTTCTCTTTTCTT
1 TTTTTTTTTTTC-TTCCTT
18489979 TTTTTTTCTTTTCTTCCTT
1 TTTTTTT-TTTTCTTCCTT
18489998 TTTTTTTT
1 TTTTTTTT
18490006 GTTCCAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 19 0.79
20 4 0.17
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTTTCTTCCTT
Found at i:18490844 original size:5 final size:5
Alignment explanation
Indices: 18490823--18490889 Score: 52
Period size: 5 Copynumber: 13.8 Consensus size: 5
18490813 CAATCACAAG
* * * *
18490823 TTTTC TTTT- TTTCA TTTTA TTTT- TATTT- TTTGA TTTTA TTTTA CTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA
18490871 TTTTTA TTTT- TTTTA TTTT
1 -TTTTA TTTTA TTTTA TTTT
18490890 TTTGGCTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
4 10 0.20
5 37 0.73
6 4 0.08
ACGTcount: A:0.13, C:0.04, G:0.01, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:18490874 original size:29 final size:29
Alignment explanation
Indices: 18490828--18490904 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
18490818 ACAAGTTTTC
* *
18490828 TTTTTTTCATTTTATTTTTA-TTTTTTGA
1 TTTTTTTGACTTTATTTTTATTTTTTTGA
* *
18490856 TTTTATTTTACTTTATTTTTATTTTTTTTA
1 TTTT-TTTGACTTTATTTTTATTTTTTTGA
*
18490886 TTTTTTTGGCTTTATTTTT
1 TTTTTTTGACTTTATTTTT
18490905 GTCATTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.10
29 27 0.64
30 11 0.26
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (29 bp):
TTTTTTTGACTTTATTTTTATTTTTTTGA
Found at i:18501324 original size:115 final size:114
Alignment explanation
Indices: 18501122--18501495 Score: 425
Period size: 115 Copynumber: 3.3 Consensus size: 114
18501112 CTTACATCAT
* *
18501122 TCACTTGATCTTAGCTCAGTCCAGATCATTTCTTATGATTTGTGATTTTATTCTAGTCATTCTCT
1 TCACTTGATCTTAGCTCAGTCCAGATCATTTCTTATGATTCGTGATTTTATCCTAGTCATTCT-T
* * * *
18501187 ACCTTGACTC-GATCATGGTCACTTTATTTTGACTCGTGCTTTCATCCTGA
65 ACCTCGACTCAG-TCATAGTCACTTCATTTTGACTCGTGATTTCATCCTGA
* * * * * *
18501237 TCACTTGATCTTGGCTCAGTTCAAATCATTTCTTATGATTCGTGGTTTCATGCTAGTCATTCTTG
1 TCACTTGATCTTAGCTCAGTCCAGATCATTTCTTATGATTCGTGATTTTATCCTAGTCATTCTT-
* * *
18501302 ACCTCGACTCAGTCTTAGTCACTTCATTTTGACTCATGATTTCAT-TTCGA
65 ACCTCGACTCAGTCATAGTCACTTCATTTTGACTCGTGATTTCATCCT-GA
* * * *
18501352 TCACTTGATCTTAGCTTAGTCCAGATCATTTTTTATTATTCGTGATTTTATCCTAGTCATTTTTT
1 TCACTTGATCTTAGCTCAGTCCAGATCATTTCTTATGATTCGTGATTTTATCCTAGTCA-TTCTT
* * * * *
18501417 ACATCGACTCA-TCCTAGTCGCTTCATTTTGACTCGTGGTTTCATCC-CA
65 ACCTCGACTCAGTCATAGTCACTTCATTTTGACTCGTGATTTCATCCTGA
*
18501465 GTCACTTAATCTT-GACTCAGTCCAGATCATT
1 -TCACTTGATCTTAG-CTCAGTCCAGATCATT
18501496 CTTTACGACT
Statistics
Matches: 219, Mismatches: 33, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
113 2 0.01
114 57 0.26
115 155 0.71
116 5 0.02
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (114 bp):
TCACTTGATCTTAGCTCAGTCCAGATCATTTCTTATGATTCGTGATTTTATCCTAGTCATTCTTA
CCTCGACTCAGTCATAGTCACTTCATTTTGACTCGTGATTTCATCCTGA
Found at i:18501581 original size:56 final size:56
Alignment explanation
Indices: 18501446--18501583 Score: 168
Period size: 56 Copynumber: 2.5 Consensus size: 56
18501436 GCTTCATTTT
* * * *
18501446 GACTCGTGGTTTCATCCCAGTCACTTAATCTTGACTCAGTCCAGATCATTCTTTAC
1 GACTCGTGGTTTTATCCCAGTCATTTAATCTTGACTCAATCCAGATCATTCCTTAC
* * * * *
18501502 GACTCATGGTTTTGTCCCAGTCATTTGATCTTGGCTCAATCCAGATCATTCCTTAT
1 GACTCGTGGTTTTATCCCAGTCATTTAATCTTGACTCAATCCAGATCATTCCTTAC
* **
18501558 GATTCGTGGTTTTATCCTGGTCATTT
1 GACTCGTGGTTTTATCCCAGTCATTT
18501584 TTTACCTCGA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.40
Consensus pattern (56 bp):
GACTCGTGGTTTTATCCCAGTCATTTAATCTTGACTCAATCCAGATCATTCCTTAC
Found at i:18501692 original size:56 final size:56
Alignment explanation
Indices: 18501605--18501747 Score: 182
Period size: 56 Copynumber: 2.5 Consensus size: 56
18501595 TCGGTCATAG
* * * *
18501605 TCATCTCATTTTGACTT-GTGGTTTCATCCCAATCA-CTTGATCTTGGCTCAATTTAGA
1 TCATCT-ATTATGA-TTCGTGGTTTCATCCCAACCATC-TGATCTTGGCACAATCTAGA
* *
18501662 TCATTTATTATGATTCGTGGTTTCCTCCCAACCATCTGATCTTGGCACAATCTAGA
1 TCATCTATTATGATTCGTGGTTTCATCCCAACCATCTGATCTTGGCACAATCTAGA
*
18501718 TCATCTCTTATGATTCGTGGTTTCATCCCA
1 TCATCTATTATGATTCGTGGTTTCATCCCA
18501748 GTCATTTTCG
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
55 2 0.03
56 67 0.89
57 6 0.08
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (56 bp):
TCATCTATTATGATTCGTGGTTTCATCCCAACCATCTGATCTTGGCACAATCTAGA
Found at i:18501721 original size:171 final size:170
Alignment explanation
Indices: 18501371--18501755 Score: 461
Period size: 171 Copynumber: 2.3 Consensus size: 170
18501361 CTTAGCTTAG
** * * *
18501371 TCCAGATCATTTTTTATTATTCGTGATTTTATCCTAGTCATTTTTTACATCGACTCATCCTAGTC
1 TCCAGATCATTCCTTATGATTCGTGGTTTTATCCTAGTCATTTTTTACATCGACTCATCATAGTC
* *
18501436 GCTTCATTTTGACTCGTGGTTTCATCCCAGTCACTTAATCTTGACTCAGTCCAGATCATTCTTTA
66 GCTTCATTTTGACTCGTGGTTTCATCCCAATCACTTAATCTTGACTCAATCCAGATCATTCTTTA
** ** * *
18501501 CGACTCATGGTTTTGTCCCAGTCATTTGATCTTGGCTCAA
131 CGACTCATGGTTTCCTCCCAACCATCTGATCTTGGCACAA
* * *
18501541 TCCAGATCATTCCTTATGATTCGTGGTTTTATCCTGGTCATTTTTTACCTCGACTCGGTCATAGT
1 TCCAGATCATTCCTTATGATTCGTGGTTTTATCCTAGTCATTTTTTACATCGACTC-ATCATAGT
* * * * **
18501606 C-ATCTCATTTTGACTTGTGGTTTCATCCCAATCACTTGATCTTGGCTCAATTTAGATCATT-TA
65 CGCT-TCATTTTGACTCGTGGTTTCATCCCAATCACTTAATCTTGACTCAATCCAGATCATTCT-
* * *
18501669 TTATGATTCGTGGTTTCCTCCCAACCATCTGATCTTGGCACAA
128 TTACGACTCATGGTTTCCTCCCAACCATCTGATCTTGGCACAA
* * *
18501712 TCTAGATCA-TCTCTTATGATTCGTGGTTTCATCCCAGTCATTTT
1 TCCAGATCATTC-CTTATGATTCGTGGTTTTATCCTAGTCATTTT
18501756 CGACCTTGAC
Statistics
Matches: 182, Mismatches: 29, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
170 54 0.30
171 128 0.70
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (170 bp):
TCCAGATCATTCCTTATGATTCGTGGTTTTATCCTAGTCATTTTTTACATCGACTCATCATAGTC
GCTTCATTTTGACTCGTGGTTTCATCCCAATCACTTAATCTTGACTCAATCCAGATCATTCTTTA
CGACTCATGGTTTCCTCCCAACCATCTGATCTTGGCACAA
Found at i:18502047 original size:3 final size:3
Alignment explanation
Indices: 18502041--18502196 Score: 110
Period size: 3 Copynumber: 52.3 Consensus size: 3
18502031 TTAATGTCAC
18502041 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
18502089 T-T TAT T-T TCCT T-T T-T TTT TCT T-T GGTAT GT-T T-T TAT ACAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT --TAT -TAT TAT TAT -TAT
* * * * * * *
18502129 TAT AAT ATAG TAT TAT TAA TGT CAC CAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18502175 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
18502197 TGTTTCTTTT
Statistics
Matches: 128, Mismatches: 15, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
2 12 0.09
3 107 0.84
4 8 0.06
5 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:18502216 original size:5 final size:5
Alignment explanation
Indices: 18502199--18502231 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
18502189 TTATTATTTG
*
18502199 TTTCT TTTTT TTTCT TTTCT TTTC- TTTCT TTTC
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTC
18502232 ATCTTTCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:18502226 original size:14 final size:15
Alignment explanation
Indices: 18502199--18502231 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18502189 TTATTATTTG
*
18502199 TTTCTTTTTTTTTCT
1 TTTCTTTTTCTTTCT
18502214 TTTC-TTTTCTTTCT
1 TTTCTTTTTCTTTCT
18502228 TTTC
1 TTTC
18502232 ATCTTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCTTTTTCTTTCT
Found at i:18503067 original size:11 final size:11
Alignment explanation
Indices: 18503051--18503100 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
18503041 CGATCGCAAG
18503051 TTTTTTTTTTA
1 TTTTTTTTTTA
*
18503062 TTTTTTATTTA
1 TTTTTTTTTTA
*
18503073 TTTTATTTTTA
1 TTTTTTTTTTA
18503084 TTTTTTGATTTTA
1 TTTTTT--TTTTA
18503097 TTTT
1 TTTT
18503101 ACTTTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 24 0.73
13 9 0.27
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:18503123 original size:14 final size:15
Alignment explanation
Indices: 18503091--18503128 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
18503081 TTATTTTTTG
* *
18503091 ATTTTATTTTACTTT
1 ATTTTATTTAACTTC
18503106 ATTTTATTTAAC-TC
1 ATTTTATTTAACTTC
18503120 ATTTTATTT
1 ATTTTATTT
18503129 TTAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTATTTAACTTC
Found at i:18503129 original size:5 final size:5
Alignment explanation
Indices: 18503052--18503114 Score: 58
Period size: 5 Copynumber: 12.6 Consensus size: 5
18503042 GATCGCAAGT
* * *
18503052 TTTTT TTTTA TTTTT TATTTA TTTTA TTTT- TATTT- TTTGA TTTTA TTTTA
1 TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA
*
18503102 CTTTA TTTTA TTT
1 TTTTA TTTTA TTT
18503115 AACTCATTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
4 3 0.06
5 41 0.85
6 4 0.08
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:18503218 original size:13 final size:13
Alignment explanation
Indices: 18503183--18503247 Score: 51
Period size: 13 Copynumber: 4.7 Consensus size: 13
18503173 AATGAGGTTT
18503183 TTTTAAAAAAATAA
1 TTTTAAAAAAAT-A
*
18503197 TTCTATAAAAAAATC
1 TT-T-TAAAAAAATA
*
18503212 TTTTAAAATAAA-G
1 TTTTAAAA-AAATA
*
18503225 TTTTCAAAAAATA
1 TTTTAAAAAAATA
18503238 TTTATAAAAA
1 TTT-TAAAAA
18503248 TAAAAAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
12 3 0.07
13 15 0.37
14 11 0.27
15 3 0.07
16 9 0.22
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (13 bp):
TTTTAAAAAAATA
Found at i:18503407 original size:15 final size:15
Alignment explanation
Indices: 18503387--18503418 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18503377 CAATTTTTTA
*
18503387 AAAAAAATAAATAAT
1 AAAAAAATAAAAAAT
18503402 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
18503417 AA
1 AA
18503419 TTTTTATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:18504594 original size:13 final size:13
Alignment explanation
Indices: 18504576--18504600 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18504566 GGAATCACTT
18504576 TATATATAACATA
1 TATATATAACATA
18504589 TATATATAACAT
1 TATATATAACAT
18504601 CAGACATGGA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATATAACATA
Found at i:18505429 original size:4 final size:4
Alignment explanation
Indices: 18505420--18505454 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
18505410 AATAATACTA
* *
18505420 AAAT AAAT AAAT AAAT AAAT GAAT AAGT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
18505455 ATAGCATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:18505576 original size:17 final size:17
Alignment explanation
Indices: 18505550--18505588 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
18505540 GTGGCTTCAA
*
18505550 ACTCGGCTTCCAATGCT
1 ACTCGACTTCCAATGCT
18505567 ACTCGACTTCCAATGCT
1 ACTCGACTTCCAATGCT
18505584 ACTCG
1 ACTCG
18505589 GCTCAATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.36, G:0.15, T:0.28
Consensus pattern (17 bp):
ACTCGACTTCCAATGCT
Found at i:18509335 original size:22 final size:22
Alignment explanation
Indices: 18509289--18509356 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
18509279 TAATTATCCG
18509289 TAACTTAGTAGTAAATTAGAA--A
1 TAACTTAGTAGTAAA-TA-AATGA
*
18509311 TAACTTAATAGTAAATAAATGA
1 TAACTTAGTAGTAAATAAATGA
* * *
18509333 TAATTTAGTAGTTAATAATTGA
1 TAACTTAGTAGTAAATAAATGA
18509355 TA
1 TA
18509357 GCCTTTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
20 2 0.05
21 2 0.05
22 35 0.90
ACGTcount: A:0.49, C:0.03, G:0.12, T:0.37
Consensus pattern (22 bp):
TAACTTAGTAGTAAATAAATGA
Found at i:18509671 original size:22 final size:22
Alignment explanation
Indices: 18509624--18509673 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
18509614 AATCAATTAT
* *
18509624 AATTTAGTAGTAAAATTTTGAT
1 AATTTAGTAGTAAAATTTTAAA
*
18509646 AATTTAGTAGT-TAATTATTAAA
1 AATTTAGTAGTAAAATT-TTAAA
18509668 AATTTA
1 AATTTA
18509674 AATGTCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (22 bp):
AATTTAGTAGTAAAATTTTAAA
Found at i:18509832 original size:32 final size:32
Alignment explanation
Indices: 18509765--18509838 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
18509755 AATTTAATAT
* * * **
18509765 AAATAAGTAATAATTTGATAGTGAATCATTGA
1 AAATTAGTAATAATTTGATAGTAAATAATCAA
*
18509797 AAATTAGTGATAATTTGATAGTAAATAATCAA
1 AAATTAGTAATAATTTGATAGTAAATAATCAA
18509829 AAATTGAGTA
1 AAATT-AGTA
18509839 GTAAATTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 31 0.91
33 3 0.09
ACGTcount: A:0.49, C:0.03, G:0.15, T:0.34
Consensus pattern (32 bp):
AAATTAGTAATAATTTGATAGTAAATAATCAA
Found at i:18509860 original size:22 final size:23
Alignment explanation
Indices: 18509835--18509891 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
18509825 TCAAAAATTG
*
18509835 AGTAGTAAATTA-ATAATAACAT
1 AGTAGTAAATTATATAAAAACAT
* *
18509857 AGTAATAAA-TATATAAAAATAT
1 AGTAGTAAATTATATAAAAACAT
*
18509879 AATAGTAAATTAT
1 AGTAGTAAATTAT
18509892 TGATAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.07
22 23 0.82
23 3 0.11
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (23 bp):
AGTAGTAAATTATATAAAAACAT
Found at i:18510055 original size:22 final size:22
Alignment explanation
Indices: 18510030--18510093 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
18510020 TAAATTATTG
*
18510030 ATAAATTAGTAGTAAATCAATT
1 ATAAATTAGTAATAAATCAATT
*
18510052 ATAAATGTA-TAATAAATC-ATCA
1 ATAAAT-TAGTAATAAATCAAT-T
*
18510074 ATAACTTAGTAATAAATCAA
1 ATAAATTAGTAATAAATCAA
18510094 CAACAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 4 0.11
22 28 0.80
23 3 0.09
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (22 bp):
ATAAATTAGTAATAAATCAATT
Found at i:18510139 original size:22 final size:22
Alignment explanation
Indices: 18510113--18510177 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
18510103 AATAAATATC
18510113 ATTCATAATTAAATGGTAAATT
1 ATTCATAATTAAATGGTAAATT
*
18510135 ATTC---A-TAAATGGCAAATT
1 ATTCATAATTAAATGGTAAATT
*
18510153 ATTCATAAATT-AATAGTAAATT
1 ATTCAT-AATTAAATGGTAAATT
18510175 ATT
1 ATT
18510178 GGTAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
18 16 0.46
19 1 0.03
22 17 0.49
23 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (22 bp):
ATTCATAATTAAATGGTAAATT
Found at i:18510145 original size:18 final size:18
Alignment explanation
Indices: 18510122--18510162 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
18510112 CATTCATAAT
*
18510122 TAAATGGTAAATTATTCA
1 TAAATGGCAAATTATTCA
18510140 TAAATGGCAAATTATTCA
1 TAAATGGCAAATTATTCA
18510158 TAAAT
1 TAAAT
18510163 TAATAGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (18 bp):
TAAATGGCAAATTATTCA
Found at i:18510187 original size:22 final size:22
Alignment explanation
Indices: 18510148--18510194 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
18510138 CATAAATGGC
18510148 AAATTATTCATAAATTAATAGT
1 AAATTATTCATAAATTAATAGT
** *
18510170 AAATTATTGGTAATTTAATAGT
1 AAATTATTCATAAATTAATAGT
18510192 AAA
1 AAA
18510195 GCATTGATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (22 bp):
AAATTATTCATAAATTAATAGT
Found at i:18510555 original size:22 final size:22
Alignment explanation
Indices: 18510506--18510804 Score: 132
Period size: 22 Copynumber: 13.5 Consensus size: 22
18510496 TTAAAAAACA
**
18510506 AATGATAACTTAATAGCT-AGCC
1 AATGATAACTTAATAG-TAAATC
* *
18510528 ATTGATAACTTAATAATAAATC
1 AATGATAACTTAATAGTAAATC
* *
18510550 AATGATAATTTAATAGTAAATT
1 AATGATAACTTAATAGTAAATC
*
18510572 AATGATGACTTAATAGTAAATC
1 AATGATAACTTAATAGTAAATC
* * * * *
18510594 AGT-TTCAATTTAATTGT-AATT
1 AATGAT-AACTTAATAGTAAATC
* **
18510615 AATAAATAAACTCCATAGTAAATC
1 AAT-GAT-AACTTAATAGTAAATC
*
18510639 -ATAAATAACTTAATAGTAAATC
1 AAT-GATAACTTAATAGTAAATC
* * *
18510661 AATGATAATTTAGTAGTTAATTC
1 AATGATAACTTAATAG-TAAATC
* * *
18510684 -TTAGA-AACTTAAAAGTAAATT
1 AAT-GATAACTTAATAGTAAATC
* *
18510705 AATACGAGTTA-TTAGTAGTAAAT-
1 AAT--GA-TAACTTAATAGTAAATC
* *
18510728 AATCGATAACTTAATAGTTAATT
1 AAT-GATAACTTAATAGTAAATC
* * *
18510751 AGTAATAACTTAATAATAAAT-
1 AATGATAACTTAATAGTAAATC
* *
18510772 TATGGATAACTTAATA-TAAATT
1 AAT-GATAACTTAATAGTAAATC
*
18510794 AGTGATAACTT
1 AATGATAACTT
18510805 GGTAATAAAT
Statistics
Matches: 207, Mismatches: 54, Indels: 33
0.70 0.18 0.11
Matches are distributed among these distances:
21 27 0.13
22 136 0.66
23 30 0.14
24 13 0.06
25 1 0.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (22 bp):
AATGATAACTTAATAGTAAATC
Found at i:18510811 original size:43 final size:44
Alignment explanation
Indices: 18510723--18510814 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 44
18510713 TTATTAGTAG
*
18510723 TAAATAATCGATAACTTAATAGTTAATTAGTAATAACTTAATAA
1 TAAATAATCGATAACTTAATAGTAAATTAGTAATAACTTAATAA
* * * **
18510767 TAAATTATGGATAACTTAATA-TAAATTAGTGATAACTTGGTAA
1 TAAATAATCGATAACTTAATAGTAAATTAGTAATAACTTAATAA
18510810 TAAAT
1 TAAAT
18510815 CATAGTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 23 0.55
44 19 0.45
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (44 bp):
TAAATAATCGATAACTTAATAGTAAATTAGTAATAACTTAATAA
Found at i:18510880 original size:44 final size:44
Alignment explanation
Indices: 18510832--18510926 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
18510822 AATTTGGTAA
* * * *
18510832 TAAATCTATAATGATTTTGTAGTAAATA-ATCAAAAAC-TAAGTAG
1 TAAATCAATAATAATATAGTAGTAAATACAT-AAAAACATAA-TAG
* *
18510876 TAAATCAATGATAATATAGTAGTAAATACATAATAACATAATAG
1 TAAATCAATAATAATATAGTAGTAAATACATAAAAACATAATAG
18510920 TAAATCA
1 TAAATCA
18510927 GTACAACTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
44 38 0.88
45 5 0.12
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (44 bp):
TAAATCAATAATAATATAGTAGTAAATACATAAAAACATAATAG
Found at i:18510896 original size:22 final size:22
Alignment explanation
Indices: 18510832--18510989 Score: 76
Period size: 22 Copynumber: 7.2 Consensus size: 22
18510822 AATTTGGTAA
* * * *
18510832 TAAATCTATAATGATTTTGTAG
1 TAAATCAATAATAATATAGTAG
*
18510854 TAAAT-AATCAAAAACTA-AGTAG
1 TAAATCAAT-AATAA-TATAGTAG
*
18510876 TAAATCAATGATAATATAGTAG
1 TAAATCAATAATAATATAGTAG
* *
18510898 TAAAT-ACATAATAACATAATAG
1 TAAATCA-ATAATAATATAGTAG
* * *
18510920 TAAATCAGTACA-ACT-TAGTTG
1 TAAATCAATA-ATAATATAGTAG
* ** *
18510941 CAAATCAATGCTAATTTAGTTA-
1 TAAATCAATAATAATATAG-TAG
* *
18510963 TAAATCAATAATAATTTTGTAG
1 TAAATCAATAATAATATAGTAG
18510985 TAAAT
1 TAAAT
18510990 TAGTTAATCA
Statistics
Matches: 100, Mismatches: 25, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
21 20 0.20
22 73 0.73
23 7 0.07
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.34
Consensus pattern (22 bp):
TAAATCAATAATAATATAGTAG
Found at i:18510986 original size:65 final size:65
Alignment explanation
Indices: 18510821--18510989 Score: 146
Period size: 65 Copynumber: 2.6 Consensus size: 65
18510811 AAATCATAGT
* * * * *
18510821 TAATTTGGTAATAAATCTATAATGATTTTGTAGTAAATAATCAAAAACTAAGTAGTAAATCAATG
1 TAATTTAGTTATAAATCAATAATAATTTTGTAGTAAATAAT-AAAAACTAAGTAGCAAATCAATG
18510886 A
65 A
* ** ** * * * *
18510887 TAATATAG-TAGTAAAT-ACATAATAACATAATAGTAAATCAGT-ACAACTTAGTTGCAAATCAA
1 TAATTTAGTTA-TAAATCA-ATAATAATTTTGTAGTAAAT-AATAAAAACTAAGTAGCAAATCAA
*
18510949 TGC
63 TGA
18510952 TAATTTAGTTATAAATCAATAATAATTTTGTAGTAAAT
1 TAATTTAGTTATAAATCAATAATAATTTTGTAGTAAAT
18510990 TAGTTAATCA
Statistics
Matches: 78, Mismatches: 20, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
65 47 0.60
66 29 0.37
67 2 0.03
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.35
Consensus pattern (65 bp):
TAATTTAGTTATAAATCAATAATAATTTTGTAGTAAATAATAAAAACTAAGTAGCAAATCAATGA
Found at i:18511039 original size:11 final size:11
Alignment explanation
Indices: 18511025--18511142 Score: 58
Period size: 11 Copynumber: 10.7 Consensus size: 11
18511015 TAAATTATCG
18511025 ATAAATTAATA
1 ATAAATTAATA
* *
18511036 ATAAATCAATT
1 ATAAATTAATA
* * *
18511047 GTAACTTTATA
1 ATAAATTAATA
* *
18511058 ATAAATCATTA
1 ATAAATTAATA
* *
18511069 ATAACTTAGTA
1 ATAAATTAATA
*
18511080 ATAAATTATTA
1 ATAAATTAATA
* *
18511091 ATAATTTATTA
1 ATAAATTAATA
* *
18511102 GT-AATTCATTA
1 ATAAATT-AATA
*
18511113 ATAACTTAATA
1 ATAAATTAATA
* * *
18511124 GTAAATCAATG
1 ATAAATTAATA
18511135 ATAAATTA
1 ATAAATTA
18511143 GTACTAAATC
Statistics
Matches: 76, Mismatches: 29, Indels: 4
0.70 0.27 0.04
Matches are distributed among these distances:
10 3 0.04
11 70 0.92
12 3 0.04
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:18511073 original size:22 final size:22
Alignment explanation
Indices: 18510995--18511131 Score: 100
Period size: 22 Copynumber: 6.2 Consensus size: 22
18510985 TAAATTAGTT
* **
18510995 AATCATTGATAACTTTATGGTA
1 AATCATTAATAACTTTATAATA
* ** * *
18511017 AATTATCGATAAATTAATAATA
1 AATCATTAATAACTTTATAATA
*
18511039 AATCAATT-GTAACTTTATAATA
1 AATC-ATTAATAACTTTATAATA
18511061 AATCATTAATAAC-TTAGTAATA
1 AATCATTAATAACTTTA-TAATA
* *
18511083 AATTATTAATAA-TTTATTAGTA
1 AATCATTAATAACTTTA-TAATA
* * *
18511105 ATTCATTAATAACTTAATAGTA
1 AATCATTAATAACTTTATAATA
18511127 AATCA
1 AATCA
18511132 ATGATAAATT
Statistics
Matches: 91, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
21 6 0.07
22 80 0.88
23 5 0.05
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (22 bp):
AATCATTAATAACTTTATAATA
Found at i:18511082 original size:44 final size:45
Alignment explanation
Indices: 18511025--18511133 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 45
18511015 TAAATTATCG
* *
18511025 ATAAATTAATAATAAATCAATT-GTAACTTTA-TAATAAATCATTA
1 ATAACTTAATAATAAATCAATTAATAA-TTTATTAATAAATCATTA
* * * *
18511069 ATAACTTAGTAATAAAT-TATTAATAATTTATTAGTAATTCATTA
1 ATAACTTAATAATAAATCAATTAATAATTTATTAATAAATCATTA
*
18511113 ATAACTTAATAGTAAATCAAT
1 ATAACTTAATAATAAATCAAT
18511134 GATAAATTAG
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
43 7 0.13
44 44 0.83
45 2 0.04
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (45 bp):
ATAACTTAATAATAAATCAATTAATAATTTATTAATAAATCATTA
Found at i:18511138 original size:22 final size:22
Alignment explanation
Indices: 18510990--18511166 Score: 97
Period size: 22 Copynumber: 8.0 Consensus size: 22
18510980 TGTAGTAAAT
* * *
18510990 TAGTTAATCATTGATAACTTTA
1 TAGTAAATCAATGATAACTTAA
* * *
18511012 TGGTAAAT-TATCGATAAATTAA
1 TAGTAAATCAAT-GATAACTTAA
* *
18511034 TAATAAATCAATTG-TAACTTTA
1 TAGTAAATCAA-TGATAACTTAA
* * * *
18511056 TAATAAATCATTAATAACTTAG
1 TAGTAAATCAATGATAACTTAA
* * * * * *
18511078 TAATAAATTATTAATAATTTAT
1 TAGTAAATCAATGATAACTTAA
* * *
18511100 TAGTAATTCATTAATAACTTAA
1 TAGTAAATCAATGATAACTTAA
* *
18511122 TAGTAAATCAATGATAAATTAG
1 TAGTAAATCAATGATAACTTAA
* *
18511144 TACTAAATCAATGACAACTTAA
1 TAGTAAATCAATGATAACTTAA
18511166 T
1 T
18511167 TATCAATTAT
Statistics
Matches: 119, Mismatches: 32, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
21 2 0.02
22 114 0.96
23 2 0.02
24 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (22 bp):
TAGTAAATCAATGATAACTTAA
Found at i:18511659 original size:13 final size:13
Alignment explanation
Indices: 18511631--18511669 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
18511621 TGATGAGATT
18511631 TTTTAATTTATTAA
1 TTTTAATTT-TTAA
*
18511645 TTTTGATTTTTAA
1 TTTTAATTTTTAA
18511658 TTTTAATTTTTA
1 TTTTAATTTTTA
18511670 TTTAATCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:18511831 original size:19 final size:20
Alignment explanation
Indices: 18511804--18511842 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
18511794 AAGATAACTG
* *
18511804 TTAATAAATA-ATTATCTTT
1 TTAAAAAATATATAATCTTT
18511823 TTAAAAAATATATAATCTTT
1 TTAAAAAATATATAATCTTT
18511843 CACTATCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAAAAATATATAATCTTT
Found at i:18516824 original size:28 final size:29
Alignment explanation
Indices: 18516770--18516834 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
18516760 TTAATTTGTG
***
18516770 CACTTCAATATATATTCCTTTGTCATTAT
1 CACTTCAATATATATTCCTTCAACATTAT
* *
18516799 CACTTTAA-ATATATTCCTTCAACATTTT
1 CACTTCAATATATATTCCTTCAACATTAT
*
18516827 CTCTTCAA
1 CACTTCAA
18516835 CTCATCAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.29, C:0.23, G:0.02, T:0.46
Consensus pattern (29 bp):
CACTTCAATATATATTCCTTCAACATTAT
Found at i:18523184 original size:17 final size:15
Alignment explanation
Indices: 18523162--18523200 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
18523152 AGTCTTCGTC
18523162 TTCTTTTTTCTTTTCTT
1 TTCTTTTTT-TTTT-TT
18523179 TTCTTTTTTTTTTTT
1 TTCTTTTTTTTTTTT
18523194 TT-TTTTT
1 TTCTTTTT
18523201 GGGGGGGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.23
15 4 0.18
16 4 0.18
17 9 0.41
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTCTTTTTTTTTTTT
Found at i:18523200 original size:10 final size:10
Alignment explanation
Indices: 18523160--18523199 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
18523150 CAAGTCTTCG
*
18523160 TCTTCTTTTT
1 TCTTTTTTTT
*
18523170 TCTTTTCTTT
1 TCTTTTTTTT
18523180 TCTTTTTTTT
1 TCTTTTTTTT
18523190 T-TTTTTTTT
1 TCTTTTTTTT
18523199 T
1 T
18523200 TGGGGGGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 9 0.33
10 18 0.67
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:18523200 original size:20 final size:20
Alignment explanation
Indices: 18523160--18523197 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
18523150 CAAGTCTTCG
18523160 TCTTCTTTTTTCTTTTCTTT
1 TCTTCTTTTTTCTTTTCTTT
18523180 TCTT-TTTTTT-TTTT-TTT
1 TCTTCTTTTTTCTTTTCTTT
18523197 T
1 T
18523198 TTTGGGGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 4 0.22
19 6 0.33
20 4 0.22
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (20 bp):
TCTTCTTTTTTCTTTTCTTT
Found at i:18526474 original size:22 final size:22
Alignment explanation
Indices: 18526448--18526491 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
18526438 TGTATATTTA
*
18526448 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
18526470 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
18526492 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:18528686 original size:56 final size:56
Alignment explanation
Indices: 18528600--18528712 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
18528590 AACATGGCTT
* * *
18528600 AACATATTGCCATACAGTCGAAATCTAGGCCAGTAAAACACCATCTAACTAAAAAA
1 AACATATAGCCATACAGTAGAAATCGAGGCCAGTAAAACACCATCTAACTAAAAAA
* * *
18528656 AACATATAGCCATACAGTAGAAATCGAGGCCATTAAAACAGCATCTGACTAAAAAA
1 AACATATAGCCATACAGTAGAAATCGAGGCCAGTAAAACACCATCTAACTAAAAAA
18528712 A
1 A
18528713 CTCAAAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.19
Consensus pattern (56 bp):
AACATATAGCCATACAGTAGAAATCGAGGCCAGTAAAACACCATCTAACTAAAAAA
Found at i:18532512 original size:27 final size:26
Alignment explanation
Indices: 18532462--18532513 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18532452 TAACATTAAA
*
18532462 TAATTTAATAAATACTAATTATTTAT
1 TAATTTAATAAATACTAATAATTTAT
* *
18532488 TAATTTTATAAATATTAAATAATTTA
1 TAATTTAATAAATACT-AATAATTTA
18532514 AAATTTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
TAATTTAATAAATACTAATAATTTAT
Found at i:18532518 original size:26 final size:26
Alignment explanation
Indices: 18532463--18532524 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
18532453 AACATTAAAT
* *
18532463 AATTTAATAAATACTAATTATTTATT
1 AATTTAATAAATACTAATAATTTATA
* *
18532489 AATTTTATAAATATTAAATAATTTA-A
1 AATTTAATAAATACT-AATAATTTATA
18532515 AATTTGAATA
1 AATTT-AATA
18532525 CAAATAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
AATTTAATAAATACTAATAATTTATA
Found at i:18535285 original size:20 final size:20
Alignment explanation
Indices: 18535260--18535329 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
18535250 CGTAAGTCAT
18535260 TGGTTAATTTGATCTTTCAG
1 TGGTTAATTTGATCTTTCAG
* * *
18535280 TGGTTAATCTAATGGTGTATT--T
1 TGGTTAAT-T--TGATCT-TTCAG
18535302 TGGTTAATTTGATCTTTCAG
1 TGGTTAATTTGATCTTTCAG
18535322 TGGTTAAT
1 TGGTTAAT
18535330 CTAATGGTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 2 0.05
19 4 0.11
20 16 0.42
21 2 0.05
22 8 0.21
23 4 0.11
24 2 0.05
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (20 bp):
TGGTTAATTTGATCTTTCAG
Found at i:18535318 original size:42 final size:42
Alignment explanation
Indices: 18535259--18535343 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
18535249 ACGTAAGTCA
18535259 TTGGTTAATTTGATCTTTCAGTGGTTAATCTAATGGTGTATT
1 TTGGTTAATTTGATCTTTCAGTGGTTAATCTAATGGTGTATT
18535301 TTGGTTAATTTGATCTTTCAGTGGTTAATCTAATGGTGTATT
1 TTGGTTAATTTGATCTTTCAGTGGTTAATCTAATGGTGTATT
18535343 T
1 T
18535344 GTATCCTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.51
Consensus pattern (42 bp):
TTGGTTAATTTGATCTTTCAGTGGTTAATCTAATGGTGTATT
Found at i:18538501 original size:2 final size:2
Alignment explanation
Indices: 18538494--18538530 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18538484 ATAAAGCATG
18538494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18538531 AAGGGGGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18558994 original size:217 final size:217
Alignment explanation
Indices: 18558596--18558997 Score: 531
Period size: 217 Copynumber: 1.9 Consensus size: 217
18558586 TTTATGTTTT
* * * *
18558596 TGCAGGTTTCTTTCATTTGCTTAAATTTGGAAAATATTGTTTCGAGTGTTAAGGCTTGAAATGAA
1 TGCAGATTTCTTTCATCTGCTTAAATTTGGAAAATATTGTTTCGAGTATTAAGACTTGAAATGAA
* *
18558661 TTTTTGTTATTTTGATTCTTGCTAGAGATTTGGAGAAAGGAATTTCAATGAAATGATATTGAATT
66 TTTTTGCTATTTTGATTCTTGCTAGAGATTTGGAGAAAGGAATTTCAATGAAATGAGATTGAATT
* * * * *
18558726 GACAAGAAAAAGAGGGAGAATTTTGCATTGTAGGATGTTTGGTTTGTGAGAAAATCTGCGTTTGG
131 GACAAGAAAAAGAAGAAGAATTTTGCATTGTAAGATGTTTCGTTAGTGAGAAAATCTGCGTTTGG
18558791 TCAGTAGGAAAATGAGGAAAAA
196 TCAGTAGGAAAATGAGGAAAAA
* *
18558813 TGCAGATTTCTTTCATCTGCTTAAATTTGGAAAATA-TGATTTCGGGTATTAAGACTTGAGAT-A
1 TGCAGATTTCTTTCATCTGCTTAAATTTGGAAAATATTG-TTTCGAGTATTAAGACTTGAAATGA
* * * * * * *
18558876 GGTTTTTGCTGTTTTGATTTTTGCTAGAGATTTGGGGAAGGGAATTTCAGTGAATTGAGATT-AA
65 -ATTTTTGCTATTTTGATTCTTGCTAGAGATTTGGAGAAAGGAATTTCAATGAAATGAGATTGAA
* * * * *
18558940 TTTGCCGAGCAAAAGAAGAAGGATTTTGCATTGTAAGTTGTTTCGTTAGTGAGAAAAT
129 -TTGACAAGAAAAAGAAGAAGAATTTTGCATTGTAAGATGTTTCGTTAGTGAGAAAAT
18558998 AAGGGAAAAC
Statistics
Matches: 157, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
216 5 0.03
217 152 0.97
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.37
Consensus pattern (217 bp):
TGCAGATTTCTTTCATCTGCTTAAATTTGGAAAATATTGTTTCGAGTATTAAGACTTGAAATGAA
TTTTTGCTATTTTGATTCTTGCTAGAGATTTGGAGAAAGGAATTTCAATGAAATGAGATTGAATT
GACAAGAAAAAGAAGAAGAATTTTGCATTGTAAGATGTTTCGTTAGTGAGAAAATCTGCGTTTGG
TCAGTAGGAAAATGAGGAAAAA
Found at i:18559288 original size:21 final size:22
Alignment explanation
Indices: 18559263--18559318 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
18559253 ATATCAAAAA
18559263 TAAAAAATAAAAAT-ATAATTT
1 TAAAAAATAAAAATAATAATTT
*
18559284 TAAAATATAAAAATAATAATTT
1 TAAAAAATAAAAATAATAATTT
* *
18559306 TAAATATTAAAAA
1 TAAAAAATAAAAA
18559319 AATTAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAAAAATAAAAATAATAATTT
Found at i:18559296 original size:22 final size:22
Alignment explanation
Indices: 18559263--18559318 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
18559253 ATATCAAAAA
*
18559263 TAAAAAATAAAAAT-ATAATTT
1 TAAAATATAAAAATAATAATTT
18559284 TAAAATATAAAAATAATAATTT
1 TAAAATATAAAAATAATAATTT
18559306 T-AAATATTAAAAA
1 TAAAATA-TAAAAA
18559319 AATTAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAAATATAAAAATAATAATTT
Done.