Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 28 of 145
Found at i:10396427 original size:6 final size:6
Alignment explanation
Indices: 10396394--10396447 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
10396384 AAAACAACAA
* * * * * *
10396394 AATAAA AATACT AATAAT AATAAA AATAGT AATAAT AATTAT AATAAC
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
10396442 AATAAT
1 AATAAT
10396448 GAAGTTCACA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (6 bp):
AATAAT
Found at i:10396480 original size:21 final size:21
Alignment explanation
Indices: 10396455--10396505 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
10396445 AATGAAGTTC
10396455 ACAAATAAAAAAG-AAAATAAA
1 ACAAA-AAAAAAGCAAAATAAA
* *
10396476 ACAAAATAAAAGCAAAATTAA
1 ACAAAAAAAAAGCAAAATAAA
*
10396497 ACATAAAAA
1 ACAAAAAAA
10396506 TCACGATGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (21 bp):
ACAAAAAAAAAGCAAAATAAA
Found at i:10396873 original size:3 final size:3
Alignment explanation
Indices: 10396865--10397093 Score: 458
Period size: 3 Copynumber: 76.3 Consensus size: 3
10396855 NNNNNNNNNN
10396865 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10396913 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10396961 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10397009 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10397057 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
10397094 GAAGTTCACG
Statistics
Matches: 226, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 226 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10397440 original size:13 final size:13
Alignment explanation
Indices: 10397422--10397513 Score: 114
Period size: 13 Copynumber: 7.0 Consensus size: 13
10397412 AATTTAAAAG
*
10397422 TTAAAACATTATA
1 TTAAAACAATATA
10397435 TTAAAACAATATAA
1 TTAAAACAATAT-A
* *
10397449 TTATAACAGTATA
1 TTAAAACAATATA
*
10397462 TTATAACAATATA
1 TTAAAACAATATA
*
10397475 TTAAAACCATATA
1 TTAAAACAATATA
10397488 TTAAAA-AAGTATA
1 TTAAAACAA-TATA
10397501 TTAAAACAATATA
1 TTAAAACAATATA
10397514 ACCGAACTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
12 1 0.01
13 55 0.80
14 13 0.19
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (13 bp):
TTAAAACAATATA
Found at i:10398474 original size:22 final size:22
Alignment explanation
Indices: 10398432--10398483 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
10398422 AGTGAAGCAC
*
10398432 CGTGGAGTCATGGAGTCGTGGA
1 CGTGGAGTCATGGAATCGTGGA
*
10398454 CGTGGAGTCGT-GAATCGGTGGA
1 CGTGGAGTCATGGAATC-GTGGA
*
10398476 GGTGGAGT
1 CGTGGAGT
10398484 TGGATCCGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.17, C:0.12, G:0.48, T:0.23
Consensus pattern (22 bp):
CGTGGAGTCATGGAATCGTGGA
Found at i:10403209 original size:43 final size:42
Alignment explanation
Indices: 10403143--10403312 Score: 179
Period size: 43 Copynumber: 4.0 Consensus size: 42
10403133 ATAGGATTTC
10403143 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGAT-TGTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
10403186 CGACTTGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGA-TTGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* *
10403229 CGTATT-TGATT-CGTGTAAGACC-CTGTCTAGGATAG-TGGCAT
1 CG-ATTGTGATTACGTGTAAGACCAC-GTCTGGGA-CGTTGGCAT
* *
10403270 CGATATGTGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 CGAT-TGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
10403313 TGTACAAGCC
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
40 2 0.02
41 27 0.25
42 10 0.09
43 61 0.58
44 6 0.06
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
CGATTGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:10403303 original size:84 final size:84
Alignment explanation
Indices: 10403155--10403312 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 84
10403145 ATATGTGTTA
* * * * *
10403155 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACGTGTAAGACCATGTCTGGGA
1 TCGTGTAAGACCACGTCTAGGAAGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGA
10403220 CATTGGCATCGTATTTGAT
66 CATTGGCATCGTATTTGAT
*
10403239 TCGTGTAAGACC-CTGTCTAGGATAG-TGGCATCGA-TATGTGATTACATGTAAGACCACGTTTG
1 TCGTGTAAGACCAC-GTCTAGGA-AGTTGGCATCGACT-TGTGATTACATGTAAGACCACGTCTG
*
10403301 GGACGTTGGCAT
63 GGACATTGGCAT
10403313 TGTACAAGCC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
83 2 0.03
84 61 0.95
85 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (84 bp):
TCGTGTAAGACCACGTCTAGGAAGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGA
CATTGGCATCGTATTTGAT
Found at i:10403503 original size:16 final size:17
Alignment explanation
Indices: 10403474--10403505 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10403464 TGAATTGATG
10403474 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
10403491 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
10403506 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:10405256 original size:43 final size:43
Alignment explanation
Indices: 10405177--10405324 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
10405167 CAATGTCATA
* * * ** *
10405177 TCCCAGATATAGTCTTACATGTTATCACAA-ATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGAAATCACAATA-CGATGCCAATG
* * *
10405220 TCCCAGACAGGGTCTTATACGAAATCA-TATAACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCACAAT-ACGATGCCAATG
* * *
10405263 TCCCAGACATGGTTTTACACGTAATCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCACAATACGATGCCAATG
10405306 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
10405325 TGTTATAACC
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
42 1 0.01
43 82 0.95
44 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCACAATACGATGCCAATG
Found at i:10407179 original size:5 final size:5
Alignment explanation
Indices: 10407169--10407193 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10407159 ACTACACTTC
10407169 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
10407194 GAATAAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:10410500 original size:28 final size:28
Alignment explanation
Indices: 10410457--10410523 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
10410447 AACACCCACC
* **
10410457 TGATTAAATGGGCTTGCCTGAAAGGGTT
1 TGATTAAATGGACTTGCCCAAAAGGGTT
10410485 TGATTAAATGGACTTGCCCAAAAGGGTT
1 TGATTAAATGGACTTGCCCAAAAGGGTT
10410513 TGATTAAATGG
1 TGATTAAATGG
10410524 GTCGTTGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.10, G:0.28, T:0.31
Consensus pattern (28 bp):
TGATTAAATGGACTTGCCCAAAAGGGTT
Found at i:10418651 original size:22 final size:22
Alignment explanation
Indices: 10418626--10418669 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10418616 ATTTAAAAAA
10418626 TTAATTAATTAAAAATTACAAT
1 TTAATTAATTAAAAATTACAAT
*
10418648 TTAATTAATTAAAAATTGCAAT
1 TTAATTAATTAAAAATTACAAT
10418670 ATCTAAACTG
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:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (22 bp):
TTAATTAATTAAAAATTACAAT
Found at i:10423005 original size:27 final size:26
Alignment explanation
Indices: 10422975--10423035 Score: 81
Period size: 24 Copynumber: 2.4 Consensus size: 26
10422965 CTTATTTTTC
*
10422975 AAAATAAAAAAATACGTATGATAATTA
1 AAAATAAAAAAAT-CGAATGATAATTA
*
10423002 AAAAT--AAAAATTGAATGATAATTA
1 AAAATAAAAAAATCGAATGATAATTA
10423026 AAAATAAAAA
1 AAAATAAAAA
10423036 TTGTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 16 0.53
25 6 0.20
26 3 0.10
27 5 0.17
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (26 bp):
AAAATAAAAAAATCGAATGATAATTA
Found at i:10423019 original size:24 final size:24
Alignment explanation
Indices: 10422992--10423038 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
10422982 AAAAATACGT
10422992 ATGATAATTAAAAATAAAAATTGA
1 ATGATAATTAAAAATAAAAATTGA
10423016 ATGATAATTAAAAATAAAAATTG
1 ATGATAATTAAAAATAAAAATTG
10423039 TTTTTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.30
Consensus pattern (24 bp):
ATGATAATTAAAAATAAAAATTGA
Found at i:10429793 original size:22 final size:19
Alignment explanation
Indices: 10429731--10429793 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 19
10429721 GTTTGATAAA
*
10429731 GATAATAATTGGAATCATATT
1 GATAATAATT-G-ATTATATT
*
10429752 GATAAAAATTGATTATTATT
1 GATAATAATTGATTA-TATT
10429772 GAAATAATAATTAGATTATATT
1 G--ATAATAATT-GATTATATT
10429794 CTCATTATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
19 3 0.09
20 6 0.17
21 9 0.26
22 12 0.34
23 5 0.14
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (19 bp):
GATAATAATTGATTATATT
Found at i:10431212 original size:26 final size:26
Alignment explanation
Indices: 10431142--10431212 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
10431132 CTATAGGGAC
* * *
10431142 TCACAGCTCGTGTAAGCAGGCCCATT
1 TCACAGCTCGTGTGAGCATGACCATT
* *
10431168 TCACAACTCGTATGAGCATGACCATT
1 TCACAGCTCGTGTGAGCATGACCATT
10431194 TCACAGCTCGTGTGAGCAT
1 TCACAGCTCGTGTGAGCAT
10431213 ATATAGTTAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (26 bp):
TCACAGCTCGTGTGAGCATGACCATT
Found at i:10431439 original size:13 final size:13
Alignment explanation
Indices: 10431422--10431495 Score: 85
Period size: 13 Copynumber: 5.7 Consensus size: 13
10431412 ATTAAATATG
10431422 TAAATGAAATGGT
1 TAAATGAAATGGT
* *
10431435 AAAATGAAATGTT
1 TAAATGAAATGGT
*
10431448 TAGATGAAATGGT
1 TAAATGAAATGGT
* *
10431461 TATATGAAATGAT
1 TAAATGAAATGGT
*
10431474 TACATGAAATGGT
1 TAAATGAAATGGT
*
10431487 TATATGAAA
1 TAAATGAAA
10431496 ATAGATGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.46, C:0.01, G:0.20, T:0.32
Consensus pattern (13 bp):
TAAATGAAATGGT
Found at i:10431454 original size:26 final size:26
Alignment explanation
Indices: 10431425--10431495 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
10431415 AAATATGTAA
* * * *
10431425 ATGAAATGGTAAAATGAAATGTTTAG
1 ATGAAATGGTTATATGAAATGATTAC
10431451 ATGAAATGGTTATATGAAATGATTAC
1 ATGAAATGGTTATATGAAATGATTAC
10431477 ATGAAATGGTTATATGAAA
1 ATGAAATGGTTATATGAAA
10431496 ATAGATGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.45, C:0.01, G:0.21, T:0.32
Consensus pattern (26 bp):
ATGAAATGGTTATATGAAATGATTAC
Found at i:10432801 original size:35 final size:35
Alignment explanation
Indices: 10432762--10432848 Score: 131
Period size: 35 Copynumber: 2.5 Consensus size: 35
10432752 ATAGTGTTAC
10432762 CTGGTGTGCTGGATGGCT-CTGCCTCTTATGAGCAT
1 CTGGTGTGCTGGATGG-TACTGCCTCTTATGAGCAT
* *
10432797 CTGGTGTGCTAGATGGTACTGGCTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTACTGCCTCTTATGAGCAT
*
10432832 CTGGTGTGTTGGATGGT
1 CTGGTGTGCTGGATGGT
10432849 TAACCGTGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
34 1 0.02
35 46 0.98
ACGTcount: A:0.13, C:0.17, G:0.34, T:0.36
Consensus pattern (35 bp):
CTGGTGTGCTGGATGGTACTGCCTCTTATGAGCAT
Found at i:10434651 original size:18 final size:18
Alignment explanation
Indices: 10434630--10434872 Score: 121
Period size: 17 Copynumber: 13.3 Consensus size: 18
10434620 CAATTATTTT
10434630 TTTTGAAAACACGAAAAA
1 TTTTGAAAACACGAAAAA
* *
10434648 TTTTTAAAACACG-AGAA
1 TTTTGAAAACACGAAAAA
*
10434665 TTTT-AGAGACACG-AAAA
1 TTTTGA-AAACACGAAAAA
10434682 TTCTT-AAAACACGAAAAA
1 TT-TTGAAAACACGAAAAA
* *
10434700 TTTTGAAAAC-CG-GAAT
1 TTTTGAAAACACGAAAAA
** *
10434716 TTTTGAAAACACGAGGAT
1 TTTTGAAAACACGAAAAA
**
10434734 TTTTG-AAACACGAAATTTTG
1 TTTTGAAAACACGAAA---AA
* *
10434754 TTTGCTGAAAACAAGAAAAT
1 TTT--TGAAAACACGAAAAA
* ** *
10434774 TTTTG-AAATACGGGAAT
1 TTTTGAAAACACGAAAAA
*
10434791 TTTTGAAAACACGAGAAATTT
1 TTTTGAAAACACGA-AAA--A
10434812 TTTTGAAAACACG-AAAA
1 TTTTGAAAACACGAAAAA
*
10434829 TTTTTAAAACAC-AAAATTTTA
1 TTTTGAAAACACGAAAA----A
10434850 TTTTGAAAACA-GAAAAA
1 TTTTGAAAACACGAAAAA
10434867 TTTTGA
1 TTTTGA
10434873 TAAATTACGA
Statistics
Matches: 178, Mismatches: 25, Indels: 45
0.72 0.10 0.18
Matches are distributed among these distances:
16 13 0.07
17 72 0.40
18 42 0.24
19 5 0.03
20 6 0.03
21 29 0.16
22 2 0.01
23 9 0.05
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAA
Found at i:10434721 original size:16 final size:18
Alignment explanation
Indices: 10434629--10434840 Score: 154
Period size: 17 Copynumber: 11.7 Consensus size: 18
10434619 ACAATTATTT
*
10434629 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-AGAA
10434648 TTTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAGAA
* * *
10434665 TTTTAG-AGACACGAAAA
1 TTTTTGAAAACACGAGAA
* *
10434682 TTCTT-AAAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
10434699 ATTTTGAAAAC-CG-GAA
1 TTTTTGAAAACACGAGAA
*
10434715 TTTTTGAAAACACGAGGA
1 TTTTTGAAAACACGAGAA
10434733 TTTTTG-AAACACGA-AA
1 TTTTTGAAAACACGAGAA
* *
10434749 TTTTGTTTGCTGAAAACAAGAAAA
1 ---T-TTT--TGAAAACACGAGAA
* *
10434773 TTTTTG-AAATACGGGAA
1 TTTTTGAAAACACGAGAA
10434790 TTTTTGAAAACACGAGAAA
1 TTTTTGAAAACACGAG-AA
*
10434809 TTTTTTTGAAAACACGAAAA
1 --TTTTTGAAAACACGAGAA
10434829 TTTTT-AAAACAC
1 TTTTTGAAAACAC
10434841 AAAATTTTAT
Statistics
Matches: 155, Mismatches: 21, Indels: 36
0.73 0.10 0.17
Matches are distributed among these distances:
16 13 0.08
17 64 0.41
18 35 0.23
19 8 0.05
20 8 0.05
21 16 0.10
22 2 0.01
23 7 0.05
24 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAA
Found at i:10434869 original size:22 final size:21
Alignment explanation
Indices: 10434828--10434870 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10434818 AAACACGAAA
* *
10434828 ATTTTTAAAACACAAAATTTT
1 ATTTTGAAAACAAAAAATTTT
10434849 ATTTTGAAAACAGAAAAATTTT
1 ATTTTGAAAACA-AAAAATTTT
10434871 GATAAATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (21 bp):
ATTTTGAAAACAAAAAATTTT
Found at i:10434958 original size:17 final size:17
Alignment explanation
Indices: 10434934--10434980 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
10434924 TTTTATTATT
10434934 ATTTTTGAAACAAGAGAA
1 ATTTTTGAAACAAGA-AA
*
10434952 A-TTTTGAAAACATGAAA
1 ATTTTTG-AAACAAGAAA
10434969 ATTTTTGAAACA
1 ATTTTTGAAACA
10434981 CGATTAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (17 bp):
ATTTTTGAAACAAGAAA
Found at i:10434962 original size:18 final size:18
Alignment explanation
Indices: 10434934--10434978 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
10434924 TTTTATTATT
10434934 ATTTTTG-AAACAAGAGAA
1 ATTTTTGAAAACAAGA-AA
*
10434952 A-TTTTGAAAACATGAAA
1 ATTTTTGAAAACAAGAAA
10434969 ATTTTTGAAA
1 ATTTTTGAAA
10434979 CACGATTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.33
Consensus pattern (18 bp):
ATTTTTGAAAACAAGAAA
Found at i:10435476 original size:24 final size:24
Alignment explanation
Indices: 10435443--10435491 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
10435433 AATTTGGGCC
10435443 TTTTCCTTCT-TCTTCTCCTTTTTT
1 TTTTCCTTCTATCTTC-CCTTTTTT
* *
10435467 TTTTCTTTCTATTTTCCCTTTTTT
1 TTTTCCTTCTATCTTCCCTTTTTT
10435491 T
1 T
10435492 GGCTGTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTCCTTCTATCTTCCCTTTTTT
Found at i:10435760 original size:17 final size:17
Alignment explanation
Indices: 10435738--10435783 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
10435728 TGCTGGAGCG
10435738 CGGGTCGGGTCGCAGCC
1 CGGGTCGGGTCGCAGCC
** *
10435755 CGGGTCGGGTTACAGCT
1 CGGGTCGGGTCGCAGCC
10435772 CGGGTCGGGTCG
1 CGGGTCGGGTCG
10435784 GGTCAATCGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.07, C:0.28, G:0.48, T:0.17
Consensus pattern (17 bp):
CGGGTCGGGTCGCAGCC
Found at i:10435822 original size:16 final size:17
Alignment explanation
Indices: 10435810--10435863 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
10435800 TGTTTTTACC
* *
10435810 CTTTTTTTCTTTTTTTT
1 CTTTTTCTCCTTTTTTT
*
10435827 CTTTTTC-CCTTTCTTT
1 CTTTTTCTCCTTTTTTT
10435843 CTTTTTCTCCTTCTTTTT
1 CTTTTTCTCCTT-TTTTT
10435861 CTT
1 CTT
10435864 CTTTTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 14 0.45
17 10 0.32
18 7 0.23
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTTTTCTCCTTTTTTT
Found at i:10435823 original size:9 final size:9
Alignment explanation
Indices: 10435811--10435880 Score: 52
Period size: 9 Copynumber: 7.1 Consensus size: 9
10435801 GTTTTTACCC
10435811 TTTTTTTCT
1 TTTTTTTCT
10435820 TTTTTTTCT
1 TTTTTTTCT
10435829 TTTTCCCTTTCT
1 TTTT---TTTCT
10435841 TTCTTTTTCT
1 TT-TTTTTCT
10435851 CCTTCTTTTTCT
1 --TT-TTTTTCT
*
10435863 TCTTTTT-T
1 TTTTTTTCT
*
10435871 TTTTCTTCT
1 TTTTTTTCT
10435880 T
1 T
10435881 CTTCGGCAGC
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
8 6 0.12
9 20 0.39
10 6 0.12
12 17 0.33
13 2 0.04
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:10435993 original size:14 final size:14
Alignment explanation
Indices: 10435962--10436026 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
10435952 TCCCCTCATT
* *
10435962 TTTCTCCTTTTCTT
1 TTTCTTCTTTTCTC
*
10435976 TTTCTTCTTTGCTC
1 TTTCTTCTTTTCTC
*
10435990 TTTCTTTTTTTCTC
1 TTTCTTCTTTTCTC
*
10436004 TTTTGCTTGCTTTTTTC
1 -TTT-CTT-CTTTTCTC
10436021 TTTCTT
1 TTTCTT
10436027 TGTTTGCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
14 23 0.56
15 6 0.15
16 6 0.15
17 6 0.15
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (14 bp):
TTTCTTCTTTTCTC
Found at i:10436016 original size:20 final size:21
Alignment explanation
Indices: 10435974--10436038 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
10435964 TCTCCTTTTC
*
10435974 TTTTTCT-TCTTTGCTCTTTCTT
1 TTTTTCTCTCTTTG--CTTGCTT
10435996 TTTTTCTCT-TTTGCTTGC-T
1 TTTTTCTCTCTTTGCTTGCTT
* *
10436015 TTTTTCTTTCTTTGTTTGCTT
1 TTTTTCTCTCTTTGCTTGCTT
10436036 TTT
1 TTT
10436039 ATGTTTAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 9 0.24
20 12 0.32
21 4 0.11
22 11 0.30
23 1 0.03
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.74
Consensus pattern (21 bp):
TTTTTCTCTCTTTGCTTGCTT
Found at i:10436082 original size:17 final size:17
Alignment explanation
Indices: 10436062--10436095 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10436052 GACGGTGGAA
*
10436062 CGACGATGGTGGTGGCG
1 CGACGATCGTGGTGGCG
*
10436079 CGACGGTCGTGGTGGCG
1 CGACGATCGTGGTGGCG
10436096 GTGGGGGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.21, G:0.53, T:0.18
Consensus pattern (17 bp):
CGACGATCGTGGTGGCG
Found at i:10436183 original size:26 final size:26
Alignment explanation
Indices: 10436154--10436204 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
10436144 TTGGAATTTC
10436154 TTTTCCTTTTCTTTTTGCTTTCTTTG
1 TTTTCCTTTTCTTTTTGCTTTCTTTG
** *
10436180 TTTTTTTTTTTTTTTTGCTTTCTTT
1 TTTTCCTTTTCTTTTTGCTTTCTTT
10436205 CCTTGGCTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (26 bp):
TTTTCCTTTTCTTTTTGCTTTCTTTG
Found at i:10436421 original size:30 final size:30
Alignment explanation
Indices: 10436366--10436624 Score: 306
Period size: 30 Copynumber: 8.7 Consensus size: 30
10436356 TAAATACAGT
* * ** *
10436366 AAAATTTTTGGGGTTGAAACATAATTTTGA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTAA
* ** *
10436396 GAAAGTTTAGGGGTCAAAATGTAA-TTTAG
1 AAAAGTTTAGGGGTTGAAATGTAATTTTAA
*
10436425 AAAAGTTTAGGGGTTGAAATGTAATTTTGA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTAA
*
10436455 AAAATTTTAGGGGTTGAAATGTAATTTTAA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTAA
* **
10436485 AAAAGTTTAAGGGTCAAAATGTAATTTTAA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTAA
* * *
10436515 AAAATTTTAGGGTTTGAAATGTAATTTTGA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTAA
10436545 AAAAG-TTAGGGGTTGAAATGTAATTTTAA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTAA
* * **
10436574 AAAATTTTAAGGGTCAAAATGTAATTTTAA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTAA
*
10436604 AAAAGTTTAGGGTTTGAAATG
1 AAAAGTTTAGGGGTTGAAATG
10436625 CAAATTTTTT
Statistics
Matches: 189, Mismatches: 38, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
29 50 0.26
30 139 0.74
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (30 bp):
AAAAGTTTAGGGGTTGAAATGTAATTTTAA
Found at i:10436443 original size:59 final size:60
Alignment explanation
Indices: 10436366--10436624 Score: 324
Period size: 59 Copynumber: 4.3 Consensus size: 60
10436356 TAAATACAGT
* * ** * * * *
10436366 AAAATTTTTGGGGTTGAAACATAATTTTGAGAAAGTTTAGGGGTCAAAATGTAA-TTTAG
1 AAAAGTTTAGGGGTTGAAATGTAATTTTAAAAAATTTTAGGGGTCAAAATGTAATTTTAA
* **
10436425 AAAAGTTTAGGGGTTGAAATGTAATTTTGAAAAATTTTAGGGGTTGAAATGTAATTTTAA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTAAAAAATTTTAGGGGTCAAAATGTAATTTTAA
* ** * ** *
10436485 AAAAGTTTAAGGGTCAAAATGTAATTTTAAAAAATTTTAGGGTTTGAAATGTAATTTTGA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTAAAAAATTTTAGGGGTCAAAATGTAATTTTAA
*
10436545 AAAAG-TTAGGGGTTGAAATGTAATTTTAAAAAATTTTAAGGGTCAAAATGTAATTTTAA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTAAAAAATTTTAGGGGTCAAAATGTAATTTTAA
*
10436604 AAAAGTTTAGGGTTTGAAATG
1 AAAAGTTTAGGGGTTGAAATG
10436625 CAAATTTTTT
Statistics
Matches: 174, Mismatches: 24, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
59 97 0.56
60 77 0.44
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (60 bp):
AAAAGTTTAGGGGTTGAAATGTAATTTTAAAAAATTTTAGGGGTCAAAATGTAATTTTAA
Found at i:10436528 original size:89 final size:90
Alignment explanation
Indices: 10436366--10436624 Score: 405
Period size: 89 Copynumber: 2.9 Consensus size: 90
10436356 TAAATACAGT
* ** * * * *
10436366 AAAATTTTTGGGGTTGAAACATAATTTTGAGAAAGTTTAGGGGTCAAAATGTAA-TTTAGAAAAG
1 AAAATTTTAGGGGTTGAAATGTAATTTTAAAAAAGTTTAAGGGTCAAAATGTAATTTTAAAAAAG
*
10436430 TTTAGGGGTTGAAATGTAATTTTGA
66 TTTAGGGTTTGAAATGTAATTTTGA
*
10436455 AAAATTTTAGGGGTTGAAATGTAATTTTAAAAAAGTTTAAGGGTCAAAATGTAATTTTAAAAAAT
1 AAAATTTTAGGGGTTGAAATGTAATTTTAAAAAAGTTTAAGGGTCAAAATGTAATTTTAAAAAAG
10436520 TTTAGGGTTTGAAATGTAATTTTGA
66 TTTAGGGTTTGAAATGTAATTTTGA
* *
10436545 AAAA-GTTAGGGGTTGAAATGTAATTTTAAAAAATTTTAAGGGTCAAAATGTAATTTTAAAAAAG
1 AAAATTTTAGGGGTTGAAATGTAATTTTAAAAAAGTTTAAGGGTCAAAATGTAATTTTAAAAAAG
10436609 TTTAGGGTTTGAAATG
66 TTTAGGGTTTGAAATG
10436625 CAAATTTTTT
Statistics
Matches: 157, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
89 121 0.77
90 36 0.23
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (90 bp):
AAAATTTTAGGGGTTGAAATGTAATTTTAAAAAAGTTTAAGGGTCAAAATGTAATTTTAAAAAAG
TTTAGGGTTTGAAATGTAATTTTGA
Found at i:10437616 original size:42 final size:42
Alignment explanation
Indices: 10437567--10437704 Score: 154
Period size: 42 Copynumber: 3.3 Consensus size: 42
10437557 AAAGCCAGCT
* *
10437567 ATGGTCTTACACAAATCTAATATCGATACCAATGTCTCAAAC
1 ATGGTCTTACACAAATCTAATATCGATGCCAATGTCTCAGAC
* * * *
10437609 ATAGTCTTACACTAATCTTATACCGATGCCAATGT-TCTAGAC
1 ATGGTCTTACACAAATCTAATATCGATGCCAATGTCTC-AGAC
* * * *
10437651 ATGGTCTTACACGAATCTCATAAT-GATGCCAATGTCCCAGGC
1 ATGGTCTTACACAAATCTAAT-ATCGATGCCAATGTCTCAGAC
10437693 ATGGTCTTACAC
1 ATGGTCTTACAC
10437705 GTAATCACAT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.02
42 77 0.95
43 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACACAAATCTAATATCGATGCCAATGTCTCAGAC
Found at i:10447798 original size:18 final size:18
Alignment explanation
Indices: 10447775--10447814 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10447765 CATTTACTAA
* *
10447775 TTTAAAATTTTAAAAAAT
1 TTTAAAAATCTAAAAAAT
*
10447793 TTTAAAAATCTGAAAAAT
1 TTTAAAAATCTAAAAAAT
10447811 TTTA
1 TTTA
10447815 CATTTTAGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
TTTAAAAATCTAAAAAAT
Found at i:10452212 original size:98 final size:98
Alignment explanation
Indices: 10452109--10452325 Score: 242
Period size: 99 Copynumber: 2.2 Consensus size: 98
10452099 CTCTACCCTA
** * *
10452109 AACCCAT-TCTCCCCCCTAATTTTTTTAAAAATATTTTCCCCCCAAAATTTACTCATTTATTTAC
1 AACCCATCTCTCCCCCAAAATTTTATT--AAATATTTTCCCCCCAAAATTTACTCACTTATTTAC
*
10452173 -TTTCCCCCC-AAACTTTTTACTCCTCTCCTATCAC
64 TTTTCCCCCCAAAAC-TTTTACTCATCTCCTATCAC
* * * * * *
10452207 AACCCATCCTCTTCCCCAAAATTTTATTGAATATTTTCTCTCTAAAATTTACTCCCTTATTTACT
1 AACCCAT-CTCTCCCCCAAAATTTTATTAAATATTTTCCCCCCAAAATTTACTCACTTATTTACT
*
10452272 TTTCCCCCCAAAACTTTTACTCATCTCCTATCTC
65 TTTCCCCCCAAAACTTTTACTCATCTCCTATCAC
* *
10452306 AACCCCTCCTCTACCCCAAA
1 AACCCAT-CTCTCCCCCAAA
10452326 CCAATTTTCT
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
98 37 0.37
99 45 0.45
100 19 0.19
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.38
Consensus pattern (98 bp):
AACCCATCTCTCCCCCAAAATTTTATTAAATATTTTCCCCCCAAAATTTACTCACTTATTTACTT
TTCCCCCCAAAACTTTTACTCATCTCCTATCAC
Found at i:10452316 original size:99 final size:98
Alignment explanation
Indices: 10452138--10452325 Score: 270
Period size: 99 Copynumber: 1.9 Consensus size: 98
10452128 TTTTTTTAAA
* *
10452138 AATATTTTCCCCCCAAAATTTACTCATTTATTTACTTTCCCCCCAAACTTTTTACTCCTCTCCTA
1 AATATTTTCCCCCCAAAATTTACTCACTTATTTACTTTCCCCCCAAACTTTTTACTCATCTCCTA
*
10452203 TCACAACCCATCCTCTTCCCCAAAATTTTATTG
66 TCACAACCCATCCTCTACCCCAAAATTTTATTG
* * * *
10452236 AATATTTTCTCTCTAAAATTTACTCCCTTATTTACTTTTCCCCCCAAAAC-TTTTACTCATCTCC
1 AATATTTTCCCCCCAAAATTTACTCACTTATTTAC-TTTCCCCCC-AAACTTTTTACTCATCTCC
* *
10452300 TATCTCAACCCCTCCTCTACCCCAAA
64 TATCACAACCCATCCTCTACCCCAAA
10452326 CCAATTTTCT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
98 30 0.38
99 45 0.57
100 4 0.05
ACGTcount: A:0.26, C:0.36, G:0.01, T:0.38
Consensus pattern (98 bp):
AATATTTTCCCCCCAAAATTTACTCACTTATTTACTTTCCCCCCAAACTTTTTACTCATCTCCTA
TCACAACCCATCCTCTACCCCAAAATTTTATTG
Found at i:10452499 original size:127 final size:122
Alignment explanation
Indices: 10452311--10452544 Score: 351
Period size: 127 Copynumber: 1.9 Consensus size: 122
10452301 ATCTCAACCC
* * *
10452311 CTCCTCTACCCCAAACCAATTTTCTCCCAATTTTTTTTAATATTTTCTTCCCAAAATTTACTTCC
1 CTCCTCTACCCCAAACCAATTTTCTCCCAATTTTTTTTAATATTTTCTCCCCAAAAGTTACTCCC
* *
10452376 CTATTTACTTTTCCTCCAATATTTTTACTCCCTCTCACTTTCCTCACAAATTTTTTTA
66 CTATTTACTTTTCC-CCAAAATTTTTACTCCCTCCCACTTTCCTCACAAATTTTTTTA
* *
10452434 CTCCTCTACCCCCAAACCCATTTTCTCCCTATCTTTTTTTTGAATATTTTCTCCCCAAAAGTTAC
1 CTCCTCTA-CCCCAAACCAATTTTCTCCC-A-ATTTTTTTT-AATATTTTCTCCCCAAAAGTTAC
*
10452499 TCCCCTATTTACTTTTCCCTAAAATTTTTACTCCCTCCCACTTTCC
62 TCCCCTATTTACTTTTCCCCAAAATTTTTACTCCCTCCCACTTTCC
10452545 CCCTAAAACT
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
123 8 0.08
124 19 0.19
125 1 0.01
126 33 0.33
127 38 0.38
ACGTcount: A:0.21, C:0.34, G:0.01, T:0.44
Consensus pattern (122 bp):
CTCCTCTACCCCAAACCAATTTTCTCCCAATTTTTTTTAATATTTTCTCCCCAAAAGTTACTCCC
CTATTTACTTTTCCCCAAAATTTTTACTCCCTCCCACTTTCCTCACAAATTTTTTTA
Found at i:10457367 original size:21 final size:19
Alignment explanation
Indices: 10457343--10457388 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
10457333 TTTAAATAAC
10457343 TAAAAATTATATAAAATTATT
1 TAAAAATTATATAAAA-TA-T
10457364 TAAAAATTATA-AAAATAT
1 TAAAAATTATATAAAATAT
10457382 TAAAAAT
1 TAAAAAT
10457389 AATTAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.32
19 2 0.08
20 4 0.16
21 11 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAAATTATATAAAATAT
Found at i:10457378 original size:9 final size:10
Alignment explanation
Indices: 10457343--10457397 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
10457333 TTTAAATAAC
10457343 TAAAAATTA-
1 TAAAAATTAT
10457352 TATAAAATTATT
1 TA-AAAATTA-T
10457364 TAAAAATTA-
1 TAAAAATTAT
10457373 TAAAAA-TAT
1 TAAAAATTAT
*
10457382 TAAAAATAAT
1 TAAAAATTAT
10457392 TAAAAA
1 TAAAAA
10457398 CAACATCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
8 2 0.05
9 14 0.35
10 15 0.38
11 7 0.17
12 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:10457395 original size:19 final size:20
Alignment explanation
Indices: 10457343--10457397 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
10457333 TTTAAATAAC
*
10457343 TAAAAATTATATAAAATTATT
1 TAAAAATTAT-TAAAAATATT
10457364 TAAAAATTA-TAAAAATA-T
1 TAAAAATTATTAAAAATATT
*
10457382 TAAAAATAATTAAAAA
1 TAAAAATTATTAAAAA
10457398 CAACATCAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 9 0.29
19 13 0.42
21 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAATTATTAAAAATATT
Found at i:10457747 original size:17 final size:17
Alignment explanation
Indices: 10457725--10457794 Score: 79
Period size: 17 Copynumber: 3.9 Consensus size: 17
10457715 ATATTTTTCC
*
10457725 ATAAAATATTATTAAAA
1 ATAAAAAATTATTAAAA
10457742 ATAAAAAAATTA-TAAAA
1 AT-AAAAAATTATTAAAA
*
10457759 ATAAAAGAATTATCAAATA
1 ATAAAA-AATTATTAAA-A
10457778 ATATAAAAATTATTAAA
1 ATA-AAAAATTATTAAA
10457795 TATTAAANNN
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
16 4 0.09
17 14 0.31
18 11 0.24
19 13 0.29
20 3 0.07
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (17 bp):
ATAAAAAATTATTAAAA
Found at i:10457796 original size:19 final size:18
Alignment explanation
Indices: 10457725--10457794 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 18
10457715 ATATTTTTCC
10457725 ATAAAATATTATTAAAAAT
1 ATAAAA-ATTATTAAAAAT
*
10457744 AAAAAAATTA-TAAAAAT
1 ATAAAAATTATTAAAAAT
*
10457761 A-AAAGAATTATCAAATAAT
1 ATAAA-AATTATTAAA-AAT
10457780 ATAAAAATTATTAAA
1 ATAAAAATTATTAAA
10457795 TATTAAANNN
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
16 3 0.07
17 13 0.30
18 7 0.16
19 18 0.41
20 3 0.07
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (18 bp):
ATAAAAATTATTAAAAAT
Found at i:10458753 original size:21 final size:22
Alignment explanation
Indices: 10458720--10458762 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
10458710 NNNNNNNCAT
*
10458720 TTAAAATTTTATAAAAA-CATA
1 TTAAAATTCTATAAAAATCATA
*
10458741 TTAAGATTCTATAAAAATCATA
1 TTAAAATTCTATAAAAATCATA
10458763 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAAATTCTATAAAAATCATA
Found at i:10460988 original size:19 final size:19
Alignment explanation
Indices: 10460951--10460989 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10460941 TAAGAACTTA
*
10460951 TAAATAATTATTAAATTAT
1 TAAATAATTAATAAATTAT
10460970 TAAATAA-TAATAAAGTTAT
1 TAAATAATTAATAAA-TTAT
10460989 T
1 T
10460990 GTGAAAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
TAAATAATTAATAAATTAT
Found at i:10462095 original size:22 final size:20
Alignment explanation
Indices: 10462062--10462110 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
10462052 TTAAAAAAAC
10462062 AAATAAACTAATAATGGAATA
1 AAATAAACTAATAATGGAA-A
*
10462083 AAATAACACTAATAATGGCAA
1 AAATAA-ACTAATAATGGAAA
10462104 AAATAAA
1 AAATAAA
10462111 ATAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 13 0.50
22 12 0.46
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.20
Consensus pattern (20 bp):
AAATAAACTAATAATGGAAA
Found at i:10462429 original size:25 final size:24
Alignment explanation
Indices: 10462395--10462450 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 24
10462385 TAAATATATA
*
10462395 AAAAAGATAAATAATGAATA-TAATTT
1 AAAAA-ATAAA-AAT-AATATTAACTT
10462421 AAAAAATAAAAATAATATTAACTT
1 AAAAAATAAAAATAATATTAACTT
10462445 AAAAAA
1 AAAAAA
10462451 ATGAAGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 4 0.14
24 14 0.50
25 5 0.18
26 5 0.18
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAAAATAAAAATAATATTAACTT
Found at i:10462451 original size:25 final size:25
Alignment explanation
Indices: 10462393--10462452 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
10462383 CTTAAATATA
10462393 TAAAAAAGATAAATAATGAATATAAT
1 TAAAAAA-ATAAATAATGAATATAAT
*
10462419 TTAAAAAATAAA-AAT-AATATTAACT
1 TAAAAAAATAAATAATGAATA-TAA-T
10462444 TAAAAAAAT
1 TAAAAAAAT
10462453 GAAGAATACT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.13
24 6 0.20
25 14 0.47
26 6 0.20
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (25 bp):
TAAAAAAATAAATAATGAATATAAT
Found at i:10465182 original size:24 final size:24
Alignment explanation
Indices: 10465151--10465252 Score: 68
Period size: 24 Copynumber: 4.2 Consensus size: 24
10465141 TTTTATAACA
10465151 GGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCATAATCG
**
10465175 GGAAGCTCATGCGAGCCAATAAT-G
1 GGAAGCTCATAAGAGCC-ATAATCG
** *
10465199 GGTAA-CTCCGAAGAGCCATTAA-AG
1 GG-AAGCTCATAAGAGCCA-TAATCG
*
10465223 GGAAGCTCCA-AATAGCCATATATCG
1 GGAAGCT-CATAAGAGCCATA-ATCG
*
10465248 AGAAG
1 GGAAG
10465253 TTCAAGCGAG
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
23 5 0.08
24 42 0.70
25 13 0.22
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCG
Found at i:10465440 original size:24 final size:23
Alignment explanation
Indices: 10465403--10465484 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 23
10465393 ACAACTGATC
* *
10465403 GGGATGCTCCAAAGAGCTATTAAT
1 GGGAAGCTCGAAAGA-CTATTAAT
* *
10465427 GGGAAGCTGGAAAGAACCATATAAT
1 GGGAAGCTCGAAAG-ACTAT-TAAT
* *
10465452 GGGAAGCTCGAGATGACTATTAAC
1 GGGAAGCTCGA-AAGACTATTAAT
10465476 GGGAAGCTC
1 GGGAAGCTC
10465485 TTCCGAGCTA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
24 26 0.55
25 19 0.40
26 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (23 bp):
GGGAAGCTCGAAAGACTATTAAT
Found at i:10465819 original size:10 final size:10
Alignment explanation
Indices: 10465796--10465847 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
10465786 TATATGAATA
10465796 AATTTAACTT-
1 AATTTAA-TTC
*
10465806 AATTTAATAC
1 AATTTAATTC
*
10465816 AATTCATATTC
1 AATTTA-ATTC
10465827 AATTTAATTC
1 AATTTAATTC
*
10465837 AATTCAATTC
1 AATTTAATTC
10465847 A
1 A
10465848 CATCCTAGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 1 0.03
10 26 0.74
11 8 0.23
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (10 bp):
AATTTAATTC
Found at i:10465830 original size:21 final size:20
Alignment explanation
Indices: 10465806--10465847 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
10465796 AATTTAACTT
10465806 AATTTAATACAATTCATATTC
1 AATTTAATACAATTCA-ATTC
*
10465827 AATTTAATTCAATTCAATTC
1 AATTTAATACAATTCAATTC
10465847 A
1 A
10465848 CATCCTAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTTAATACAATTCAATTC
Found at i:10465843 original size:15 final size:16
Alignment explanation
Indices: 10465816--10465845 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10465806 AATTTAATAC
10465816 AATTCATATTCAATTT
1 AATTCATATTCAATTT
10465832 AATTCA-ATTCAATT
1 AATTCATATTCAATT
10465846 CACATCCTAG
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:0.13, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTCATATTCAATTT
Found at i:10467118 original size:12 final size:12
Alignment explanation
Indices: 10467101--10467140 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
10467091 AATTATAAAA
10467101 AAATATTTTTTT
1 AAATATTTTTTT
10467113 AAATA--TTTTT
1 AAATATTTTTTT
*
10467123 -AATTTTTTTTT
1 AAATATTTTTTT
10467134 AAATATT
1 AAATATT
10467141 AACATGTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
9 3 0.13
10 5 0.22
11 5 0.22
12 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
AAATATTTTTTT
Found at i:10470796 original size:19 final size:19
Alignment explanation
Indices: 10470772--10470815 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10470762 TAAAAGCAAC
10470772 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
10470791 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
10470810 ACAACA
1 ACAACA
10470816 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:10473554 original size:90 final size:90
Alignment explanation
Indices: 10473450--10473854 Score: 569
Period size: 90 Copynumber: 4.4 Consensus size: 90
10473440 ATTAAAAATT
* *
10473450 AATTAATATAATAGTAGTACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACATTTTAAAC
1 AATTAATATAATAGTACTACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTTAAAC
10473515 TTTAAAGTTAGTTAATTGAAGCCTA
66 TTTAAAGTTAGTTAATTGAAGCCTA
* * * * * *
10473540 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAATTCTGTTAAGCTATCA-TTTAAA
1 AATTAATATAATAGTACTACAACATAAATTAAACAAAAAAAAGTATGTTAAACTA-CAGTTTAAA
10473604 CTTTAAAGTTAGTTAATTGAAGCCTA
65 CTTTAAAGTTAGTTAATTGAAGCCTA
10473630 AATTAATATAATAGTACGAGTACAACATCATAAATTAAACAAAAAAAAAGAGTATGTTAAACTAC
1 AATTAATATAATAGTAC---TAC-A-A-CATAAATTAAAC--AAAAAAA-AGTATGTTAAACTAC
10473695 AGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
57 AGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
* *
10473729 AATTAATATAATAGTACATACAATAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAGTTT
1 AATTAATATAATAGTAC-TAC-A-A-CATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTT
10473794 AAACTTTAAAGTTAGTTAATTGAAGCCTA
62 AAACTTTAAAGTTAGTTAATTGAAGCCTA
* *
10473823 AATTAATATAATAGTACAACAGCATAAATTAA
1 AATTAATATAATAGTACTACAACATAAATTAA
10473855 TTAATTGAAG
Statistics
Matches: 284, Mismatches: 20, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
90 107 0.38
91 2 0.01
92 1 0.00
93 3 0.01
94 65 0.23
95 7 0.02
96 12 0.04
97 18 0.06
98 9 0.03
99 60 0.21
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (90 bp):
AATTAATATAATAGTACTACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTTAAAC
TTTAAAGTTAGTTAATTGAAGCCTA
Found at i:10473820 original size:193 final size:182
Alignment explanation
Indices: 10473450--10473854 Score: 622
Period size: 193 Copynumber: 2.2 Consensus size: 182
10473440 ATTAAAAATT
*
10473450 AATTAATATAATAGT--AGTACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACATTTTAA
1 AATTAATATAATAGTACAGTACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTTAA
10473513 ACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAACAAAA
66 ACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAACAAAA
* * *
10473578 AAAATTCTGTTAAGCTATCATTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
131 AAAAGTCTGTTAAACCATCATTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
10473630 AATTAATATAATAGTACGAGTACAACATCATAAATTAAACAAAAAAAAAGAGTATGTTAAACTAC
1 AATTAATATAATAGTAC-AGTAC-A-A-CATAAATTAAAC--AAAAAAA-AGTATGTTAAACTAC
10473695 AGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACATACAATAGCATAA
59 AGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAG----TACAATAGCATAA
10473760 ATTAAACAAAAAAAAGTCTGTTAAACCA-CAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
120 ATTAAACAAAAAAAAGTCTGTTAAACCATCA-TTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
*
10473823 AATTAATATAATAGTACA--ACAGCATAAATTAA
1 AATTAATATAATAGTACAGTACAACATAAATTAA
10473855 TTAATTGAAG
Statistics
Matches: 206, Mismatches: 5, Indels: 21
0.89 0.02 0.09
Matches are distributed among these distances:
180 15 0.07
183 5 0.02
184 1 0.00
185 1 0.00
186 12 0.06
187 10 0.05
188 7 0.03
189 63 0.31
190 2 0.01
192 3 0.01
193 87 0.42
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (182 bp):
AATTAATATAATAGTACAGTACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTTAA
ACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAACAAAA
AAAAGTCTGTTAAACCATCATTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
Found at i:10474180 original size:17 final size:17
Alignment explanation
Indices: 10474158--10474207 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
10474148 TTTTCTCTAT
*
10474158 TAATATTATGTTATTAC
1 TAATATTATATTATTAC
10474175 TAATATTATATTATTAC
1 TAATATTATATTATTAC
*
10474192 TAATATTACATTATTA
1 TAATATTATATTATTA
10474208 ATTTGGGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (17 bp):
TAATATTATATTATTAC
Found at i:10474549 original size:19 final size:19
Alignment explanation
Indices: 10474525--10474586 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
10474515 GGAGAAGGAA
10474525 AATAGAGCGAAAATCATTC
1 AATAGAGCGAAAATCATTC
* *
10474544 AATAGAGCGAAACA-GATGC
1 AATAGAGCGAAA-ATCATTC
*
10474563 AAATAGAGCTAAAATCATTC
1 -AATAGAGCGAAAATCATTC
10474583 AATA
1 AATA
10474587 ATTCAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (19 bp):
AATAGAGCGAAAATCATTC
Found at i:10474729 original size:3 final size:3
Alignment explanation
Indices: 10474721--10474757 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
10474711 GGTTTATTTT
10474721 AAG AAG AAG AAG AAG AAGG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG
10474758 GGTTTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10474744 original size:16 final size:16
Alignment explanation
Indices: 10474723--10474754 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10474713 TTTATTTTAA
10474723 GAAGAAGAAGAAGAAG
1 GAAGAAGAAGAAGAAG
10474739 GAAGAAGAAGAAGAAG
1 GAAGAAGAAGAAGAAG
10474755 AAGGGTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
GAAGAAGAAGAAGAAG
Found at i:10474745 original size:19 final size:19
Alignment explanation
Indices: 10474721--10474758 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10474711 GGTTTATTTT
10474721 AAGAAGAAGAAGAAGAAGG
1 AAGAAGAAGAAGAAGAAGG
10474740 AAGAAGAAGAAGAAGAAGG
1 AAGAAGAAGAAGAAGAAGG
10474759 GTTTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (19 bp):
AAGAAGAAGAAGAAGAAGG
Found at i:10483857 original size:40 final size:40
Alignment explanation
Indices: 10483808--10483948 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 40
10483798 AACACACCAG
* *
10483808 TTTGGCACCCAGTGCCTCATCGAATAATCCAAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGAATAATCCGAAGTAATAA
* ** *
10483848 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGAATAATCCGAAGTAATAA
* * *
10483886 -TTGGCACCTAGTGCCTCATTGAATTAATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGAA-TAATCCGAAGTAATAA
* *
10483926 ATTGACACCCAGTGTCTCATCGA
1 TTTGACACCCAGTGCCTCATCGA
10483949 CTCAAAGTCG
Statistics
Matches: 80, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 17 0.21
38 12 0.15
39 2 0.03
40 31 0.39
41 18 0.22
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGAATAATCCGAAGTAATAA
Found at i:10484157 original size:24 final size:24
Alignment explanation
Indices: 10484105--10484162 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 24
10484095 ATATATATAC
*
10484105 CAATTCAATCAATATAAATTTAAT
1 CAATTCAATCAATATAAATTCAAT
*
10484129 AAATTC-ATCACATATTAAA-TCAAT
1 CAATTCAATCA-ATA-TAAATTCAAT
10484153 CAATTTCAAT
1 CAA-TTCAAT
10484163 TGCAAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
23 4 0.15
24 14 0.52
25 7 0.26
26 2 0.07
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (24 bp):
CAATTCAATCAATATAAATTCAAT
Found at i:10485006 original size:19 final size:20
Alignment explanation
Indices: 10484963--10485001 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10484953 ATTAATAAGC
*
10484963 AATACATAT-TTTATTATTA
1 AATACATATGTTTATGATTA
10484982 AATACATATGTTTATGATTA
1 AATACATATGTTTATGATTA
10485002 TTACACATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
AATACATATGTTTATGATTA
Found at i:10485384 original size:22 final size:23
Alignment explanation
Indices: 10485359--10485401 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
10485349 TTGTTTTATA
10485359 TTTTTATAT-TAATTTTTTTAAT
1 TTTTTATATATAATTTTTTTAAT
10485381 TTTTTATATATAATTTTTTTA
1 TTTTTATATATAATTTTTTTA
10485402 TAATTTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTATATATAATTTTTTTAAT
Found at i:10486786 original size:13 final size:13
Alignment explanation
Indices: 10486768--10486797 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
10486758 ATTTTTTTAA
10486768 TTTTAAAATAATT
1 TTTTAAAATAATT
10486781 TTTTAAAATAATT
1 TTTTAAAATAATT
10486794 TTTT
1 TTTT
10486798 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAAATAATT
Found at i:10490873 original size:2 final size:2
Alignment explanation
Indices: 10490866--10490894 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10490856 AGATGAAAGC
10490866 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10490895 GCACCTTCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10493697 original size:20 final size:20
Alignment explanation
Indices: 10493658--10493697 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10493648 ATATCATTCC
*
10493658 TTGCATTTAGATTAATTCAA
1 TTGCATTTAGATTAAATCAA
10493678 TTGCATTTAG-TTAAAATCAA
1 TTGCATTTAGATT-AAATCAA
10493698 ATTTATCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (20 bp):
TTGCATTTAGATTAAATCAA
Found at i:10494163 original size:14 final size:14
Alignment explanation
Indices: 10494129--10494163 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10494119 CTACCATTTC
*
10494129 ACTATTATATTGTT
1 ACTATTTTATTGTT
10494143 ACTATTTTATTGTT
1 ACTATTTTATTGTT
*
10494157 ATTATTT
1 ACTATTT
10494164 GGATATTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (14 bp):
ACTATTTTATTGTT
Found at i:10496633 original size:60 final size:60
Alignment explanation
Indices: 10496531--10496689 Score: 189
Period size: 60 Copynumber: 2.6 Consensus size: 60
10496521 CACCTAAATT
*
10496531 TGACATTTTTTCCTAATTTGGTACCTAAACTTTGTTTTGGCCCAATTCAGTACTTGAACG
1 TGACATTTTTTCCTAATTTGGTACCTAAACTTTGTTTTGGCCCAATTCAGTACCTGAACG
** *
10496591 TGACATATTTTT-CTAATTTGGTACCTAAA-TGTT-TTTTGGGCCCAATTTGGTACCTGAACT
1 TGACAT-TTTTTCCTAATTTGGTACCTAAACT-TTGTTTT-GGCCCAATTCAGTACCTGAACG
* * * *
10496651 TGACATTTTTTTCCTAGTTTGGCACCTAAGCTTTCTTTT
1 TGACA-TTTTTTCCTAATTTGGTACCTAAACTTTGTTTT
10496690 TGATTTAATT
Statistics
Matches: 85, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
59 5 0.06
60 53 0.62
61 22 0.26
62 5 0.06
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (60 bp):
TGACATTTTTTCCTAATTTGGTACCTAAACTTTGTTTTGGCCCAATTCAGTACCTGAACG
Found at i:10497171 original size:31 final size:31
Alignment explanation
Indices: 10497134--10497212 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
10497124 GGACCTCAAA
*
10497134 AAATTTAAGTACCAACTTAAGAAAAAGTGTC
1 AAATTTAAGTACCAAATTAAGAAAAAGTGTC
*
10497165 AAATTTAGGTACCAAATTAAGAAAAAGTGTC
1 AAATTTAAGTACCAAATTAAGAAAAAGTGTC
* * *
10497196 AAGTTCAAATACCAAAT
1 AAATTTAAGTACCAAAT
10497213 ATTATATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (31 bp):
AAATTTAAGTACCAAATTAAGAAAAAGTGTC
Found at i:10500505 original size:15 final size:15
Alignment explanation
Indices: 10500485--10500567 Score: 69
Period size: 15 Copynumber: 5.3 Consensus size: 15
10500475 GAGAAGGAGG
10500485 AGGAGAAGATAG-AGA
1 AGGAGAAGA-AGAAGA
10500500 AGGAGAAGAAGAAGA
1 AGGAGAAGAAGAAGA
* *
10500515 AGGAGGAGGAGGAGGAGA
1 AGGA-GA--AGAAGAAGA
10500533 AGGAGAAGAAGAAGA
1 AGGAGAAGAAGAAGA
* * * *
10500548 AAGAGGAGGAGGAGA
1 AGGAGAAGAAGAAGA
10500563 AGGAG
1 AGGAG
10500568 GAGGAGGAGG
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
14 2 0.04
15 38 0.69
16 2 0.04
17 2 0.04
18 11 0.20
ACGTcount: A:0.51, C:0.00, G:0.48, T:0.01
Consensus pattern (15 bp):
AGGAGAAGAAGAAGA
Found at i:10500519 original size:33 final size:32
Alignment explanation
Indices: 10500471--10500645 Score: 111
Period size: 33 Copynumber: 5.7 Consensus size: 32
10500461 CCACCATCTT
* *
10500471 GAAGGAGAAGGAGGAGGAGAAGATAGAGAAGGA
1 GAAGAAGAAGAAGGAGGAGAAGA-AGAGAAGGA
* *
10500504 GAAGAAGAAGAAGGAGGAGGAGGAGGAGAAGGA
1 GAAGAAGAAGAAGGAGGA-GAAGAAGAGAAGGA
* *
10500537 GAAGAAGAAGAAAGAGGAG--GAGGAGAAGGA
1 GAAGAAGAAGAAGGAGGAGAAGAAGAGAAGGA
* * * *
10500567 G--G-AGGAGGAGGAGGAGAACGAGGAGGAGGA
1 GAAGAAGAAGAAGGAGGAGAA-GAAGAGAAGGA
** *
10500597 GGGGAAGGAGAAGGAGGAG--GAAG-GAAAGGA
1 GAAGAAGAAGAAGGAGGAGAAGAAGAG-AAGGA
*
10500627 G--GAGGAA-AAGGAGGAGAAG
1 GAAGAAGAAGAAGGAGGAGAAG
10500646 GAAAAGGAGG
Statistics
Matches: 118, Mismatches: 14, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
27 20 0.17
28 5 0.04
29 2 0.02
30 31 0.26
32 2 0.02
33 54 0.46
34 4 0.03
ACGTcount: A:0.46, C:0.01, G:0.53, T:0.01
Consensus pattern (32 bp):
GAAGAAGAAGAAGGAGGAGAAGAAGAGAAGGA
Found at i:10500556 original size:3 final size:3
Alignment explanation
Indices: 10500515--10500658 Score: 112
Period size: 3 Copynumber: 48.0 Consensus size: 3
10500505 AAGAAGAAGA
* * * * * * *
10500515 AGG AGG AGG AGG AGG AGA AGG AGA AGA AGA AGA AAG AGG AGG AGG AGA
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
* * *
10500563 AGG AGG AGG AGG AGG AGG AGA ACG AGG AGG AGG AGG -GG AAGG AGA
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG -AGG AGG
* ** * **
10500608 AGG AGG AGG AAGG A-A AGG AGG AGG AAA AGG AGG AGA AGG AAA AGG
1 AGG AGG AGG -AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
10500653 AGG AGG
1 AGG AGG
10500659 TTGAAGATGA
Statistics
Matches: 111, Mismatches: 26, Indels: 8
0.77 0.18 0.06
Matches are distributed among these distances:
2 3 0.03
3 103 0.93
4 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.55, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:10500568 original size:15 final size:15
Alignment explanation
Indices: 10500518--10500658 Score: 139
Period size: 15 Copynumber: 9.6 Consensus size: 15
10500508 AAGAAGAAGG
10500518 AGGAGGAGGAGGAGA
1 AGGAGGAGGAGGAGA
* * *
10500533 AGGAGAAGAAGAAGA
1 AGGAGGAGGAGGAGA
*
10500548 AAGAGGAGGAGGAGA
1 AGGAGGAGGAGGAGA
*
10500563 AGGAGGAGGAGGAGG
1 AGGAGGAGGAGGAGA
* * *
10500578 AGGAGAACGAGGAGG
1 AGGAGGAGGAGGAGA
10500593 AGGAGG-GGAAGGAGA
1 AGGAGGAGG-AGGAGA
10500608 AGGAGGAGGAAGGA-A
1 AGGAGGAGG-AGGAGA
10500623 AGGAGGAGGA--A-A
1 AGGAGGAGGAGGAGA
* *
10500635 AGGAGGAGAAGGAAA
1 AGGAGGAGGAGGAGA
10500650 AGGAGGAGG
1 AGGAGGAGG
10500659 TTGAAGATGA
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
12 11 0.10
14 3 0.03
15 84 0.80
16 7 0.07
ACGTcount: A:0.45, C:0.01, G:0.55, T:0.00
Consensus pattern (15 bp):
AGGAGGAGGAGGAGA
Found at i:10500595 original size:36 final size:35
Alignment explanation
Indices: 10500479--10500647 Score: 155
Period size: 36 Copynumber: 4.7 Consensus size: 35
10500469 TTGAAGGAGA
*
10500479 AGGAGGAGGAGAA-GATAGAGAAGGAGAAGAAGAAG
1 AGGAGGAGGAGAAGGA-GGAGAAGGAGAAGAAGAAG
* * * *
10500514 AAGGAGGAGGAGGAGGAGAAGGAGAAGAAGAAGAAAG
1 -AGGAGGAGGAGAAGGAGGAGAAGGAGAAGAAG-AAG
* * *
10500551 AGGAGGAGGAGAAGGAGGAGGAGGAGGAGGAGAACG
1 AGGAGGAGGAGAAGGAGGAGAAGGAGAAGAAGAA-G
* *
10500587 AGGAGGAGGAG-GGGAAGGAGAAGGAGGAGGAAGGAA-
1 AGGAGGAGGAGAAGG-AGGAGAAGGA-GAAGAA-GAAG
*
10500623 AGGAGGAGGAAAAGGAGGAGAAGGA
1 AGGAGGAGGAGAAGGAGGAGAAGGA
10500648 AAAGGAGGAG
Statistics
Matches: 109, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
35 4 0.04
36 92 0.84
37 10 0.09
38 3 0.03
ACGTcount: A:0.46, C:0.01, G:0.53, T:0.01
Consensus pattern (35 bp):
AGGAGGAGGAGAAGGAGGAGAAGGAGAAGAAGAAG
Found at i:10500647 original size:6 final size:6
Alignment explanation
Indices: 10500471--10500639 Score: 94
Period size: 6 Copynumber: 27.2 Consensus size: 6
10500461 CCACCATCTT
*
10500471 GAAGGA GAAGGA GGAGGA GAAGATAGA GAAGGA GAAGAAGAA GAAGGA
1 GAAGGA GAAGGA GAAGGA GAAG---GA GAAGGA GAAG--G-A GAAGGA
* * * * *
10500519 GGAGGA GGAGGA GAAGGA GAAGAA GAA-GA AAGAGGA GGAGGA GAAGGA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GA-AGGA GAAGGA GAAGGA
* * * * * *
10500567 GGAGGAGGA GGAGGA GAACGA GGAGGA GGAGGG GAAGGA GAAGGA GGA-G-
1 -GA--AGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA
* *
10500616 GAAGGA -AAGGA GGAGGA AAAGGA G
1 GAAGGA GAAGGA GAAGGA GAAGGA G
10500640 GAGAAGGAAA
Statistics
Matches: 125, Mismatches: 24, Indels: 28
0.71 0.14 0.16
Matches are distributed among these distances:
4 2 0.02
5 9 0.07
6 92 0.74
7 5 0.04
8 2 0.02
9 15 0.12
ACGTcount: A:0.46, C:0.01, G:0.53, T:0.01
Consensus pattern (6 bp):
GAAGGA
Found at i:10505251 original size:29 final size:29
Alignment explanation
Indices: 10505219--10505274 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
10505209 TACCTAAATA
10505219 ATATA-AAAAAATAATTAATTACGAAAAAG
1 ATATAGAAAAAA-AATTAATTACGAAAAAG
* *
10505248 ATATAGAAAACAAGTTAATTACGAAAA
1 ATATAGAAAAAAAATTAATTACGAAAA
10505275 TAGGCATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.62, C:0.05, G:0.09, T:0.23
Consensus pattern (29 bp):
ATATAGAAAAAAAATTAATTACGAAAAAG
Found at i:10505495 original size:27 final size:28
Alignment explanation
Indices: 10505440--10505503 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
10505430 AATGGATAAA
*
10505440 TTCTTCATAAGCCCCCTTATTTATTATT
1 TTCTTCATAAGACCCCTTATTTATTATT
* *
10505468 TTCTTCATAA-ACCCTTTGTTTATTATT
1 TTCTTCATAAGACCCCTTATTTATTATT
*
10505495 TGCTTCATA
1 TTCTTCATA
10505504 TATAATTCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 22 0.69
28 10 0.31
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.52
Consensus pattern (28 bp):
TTCTTCATAAGACCCCTTATTTATTATT
Found at i:10510957 original size:20 final size:20
Alignment explanation
Indices: 10510934--10510971 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10510924 AGTTAATTTA
* *
10510934 ATTTTTTTTTAAGTTTTAAG
1 ATTTTTTTATAAATTTTAAG
10510954 ATTTTTTTATAAATTTTA
1 ATTTTTTTATAAATTTTA
10510972 GTTATAGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTTTTTTATAAATTTTAAG
Found at i:10511335 original size:46 final size:46
Alignment explanation
Indices: 10511285--10511429 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 46
10511275 AAAAAATAAT
10511285 ATTTTATTTAAATTTAAGTAATTCTTTCATCATTATAGGTTAAATC
1 ATTTTATTTAAATTTAAGTAATTCTTTCATCATTATAGGTTAAATC
**** * ** * * ****
10511331 ATTTTTATGTTCGGGTTAAGTGATT-TACTAAAT-TTTTTAAAAAATAAT-
1 A-TTTTAT-TTAAATTTAAGTAATTCT--TTCATCATTATAGGTTA-AATC
10511379 ATTTTATTTAAATTTAAGTAATTCTTTCATCATTATAGGTTAAATC
1 ATTTTATTTAAATTTAAGTAATTCTTTCATCATTATAGGTTAAATC
10511425 ATTTT
1 ATTTT
10511430 TATGTTCGGG
Statistics
Matches: 65, Mismatches: 26, Indels: 16
0.61 0.24 0.15
Matches are distributed among these distances:
45 6 0.09
46 22 0.34
47 14 0.22
48 17 0.26
49 6 0.09
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.50
Consensus pattern (46 bp):
ATTTTATTTAAATTTAAGTAATTCTTTCATCATTATAGGTTAAATC
Found at i:10511351 original size:48 final size:48
Alignment explanation
Indices: 10511298--10511445 Score: 126
Period size: 48 Copynumber: 3.1 Consensus size: 48
10511288 TTATTTAAAT
10511298 TTAAGTAATTCTTTCATCATTATAGGTTAAATCATTTTTATGTTCGGG
1 TTAAGTAATTCTTTCATCATTATAGGTTAAATCATTTTTATGTTCGGG
* ** * * ** * ****
10511346 TTAAGTGATT-TACTAAAT-TTTTTA--AAAAATAATATTTTAT-TTAAAT
1 TTAAGTAATTCT--TTCATCATTATAGGTTAAATCAT-TTTTATGTTCGGG
10511392 TTAAGTAATTCTTTCATCATTATAGGTTAAATCATTTTTATGTTCGGG
1 TTAAGTAATTCTTTCATCATTATAGGTTAAATCATTTTTATGTTCGGG
10511440 TTAAGT
1 TTAAGT
10511446 GATTTTAAGT
Statistics
Matches: 68, Mismatches: 24, Indels: 16
0.63 0.22 0.15
Matches are distributed among these distances:
45 3 0.04
46 21 0.31
47 14 0.21
48 27 0.40
49 3 0.04
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.49
Consensus pattern (48 bp):
TTAAGTAATTCTTTCATCATTATAGGTTAAATCATTTTTATGTTCGGG
Found at i:10511369 original size:94 final size:96
Alignment explanation
Indices: 10511257--10511450 Score: 374
Period size: 94 Copynumber: 2.0 Consensus size: 96
10511247 TATAGGTATT
10511257 ATTTACTAAATTATTTTTAAAAAATAATATTTTATTTAAATTTAAGTAATTCTTTCATCATTATA
1 ATTTACTAAATTATTTTTAAAAAATAATATTTTATTTAAATTTAAGTAATTCTTTCATCATTATA
10511322 GGTTAAATCATTTTTATGTTCGGGTTAAGTG
66 GGTTAAATCATTTTTATGTTCGGGTTAAGTG
10511353 ATTTACTAAA-T-TTTTTAAAAAATAATATTTTATTTAAATTTAAGTAATTCTTTCATCATTATA
1 ATTTACTAAATTATTTTTAAAAAATAATATTTTATTTAAATTTAAGTAATTCTTTCATCATTATA
10511416 GGTTAAATCATTTTTATGTTCGGGTTAAGTG
66 GGTTAAATCATTTTTATGTTCGGGTTAAGTG
10511447 ATTT
1 ATTT
10511451 TAAGTTGTTG
Statistics
Matches: 98, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
94 87 0.89
95 1 0.01
96 10 0.10
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.49
Consensus pattern (96 bp):
ATTTACTAAATTATTTTTAAAAAATAATATTTTATTTAAATTTAAGTAATTCTTTCATCATTATA
GGTTAAATCATTTTTATGTTCGGGTTAAGTG
Found at i:10515669 original size:22 final size:22
Alignment explanation
Indices: 10515639--10515680 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10515629 ACACCAAAAC
* *
10515639 AGGCTTTTAGCGGCGTTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
10515661 AGGCCTTTAGCGGCGCTTTT
1 AGGCCTTTAGCGGCGCTTTT
10515681 ACTAGCGCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.10, C:0.19, G:0.29, T:0.43
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:10515795 original size:43 final size:43
Alignment explanation
Indices: 10515742--10515909 Score: 255
Period size: 43 Copynumber: 3.9 Consensus size: 43
10515732 GTTTATGATA
*
10515742 AAAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTACCC
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCC
10515785 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCC
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCC
**
10515828 TCAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCC
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCC
* * * * * *
10515871 ACAAACGCCGCTATAGATCACGACCTTTAGCGACGCTTT
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTT
10515910 TCCACAAACG
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 116 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCC
Found at i:10515943 original size:43 final size:43
Alignment explanation
Indices: 10515766--10515952 Score: 155
Period size: 43 Copynumber: 4.3 Consensus size: 43
10515756 AGAACATGGT
* * * * * *
10515766 CTTTAGCGGCGCTTTACCCAAAAACGCCGCTAA-AGAACATGAT
1 CTTTAGCGACGCTTTACCCACAAACGCCAC-AAGAGATCAAGAC
* * * * * *
10515809 CTTTAGCGGCGCTTTACCCTCAAACGCCGCTAA-AGAACATGAT
1 CTTTAGCGACGCTTTACCCACAAACGCCAC-AAGAGATCAAGAC
* * * * *
10515852 CTTTAGCGGCGCTTTACCCACAAACGCCGCTATAGATCACGAC
1 CTTTAGCGACGCTTTACCCACAAACGCCACAAGAGATCAAGAC
* *
10515895 CTTTAGCGACGCTTT-TCCACAAACGCCACAAGAGCTCAAGAC
1 CTTTAGCGACGCTTTACCCACAAACGCCACAAGAGATCAAGAC
10515937 CTTTTAGCGACGCTTT
1 C-TTTAGCGACGCTTT
10515953 GATTACAAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
42 23 0.18
43 105 0.82
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
CTTTAGCGACGCTTTACCCACAAACGCCACAAGAGATCAAGAC
Found at i:10515943 original size:86 final size:86
Alignment explanation
Indices: 10515744--10515952 Score: 224
Period size: 86 Copynumber: 2.4 Consensus size: 86
10515734 TTATGATAAA
* * ** * *
10515744 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTACCCAAAAACGCCGCTAAAGAACATGAT
1 AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTTACCCAAAAACGCCGCTAAAGAACACGAC
* *
10515809 CTTTAGCGGCGCTTTACCCTC
66 CTTTAGCGACGCTTTACCCAC
* * * * * *
10515830 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCGCTATAGATCACGAC
1 AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTTACCCAAAAACGCCGCTAAAGAACACGAC
*
10515895 CTTTAGCGACGCTTT-TCCAC
66 CTTTAGCGACGCTTTACCCAC
** *
10515915 AAACGCCAC-AAGAGCTCAAGACCTTTTAGCGACGCTTT
1 AAACGCCACTAA-AGAACAAGACC-TTTAGCGGCGCTTT
10515953 GATTACAAAC
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
84 2 0.02
85 18 0.17
86 86 0.81
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (86 bp):
AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTTACCCAAAAACGCCGCTAAAGAACACGAC
CTTTAGCGACGCTTTACCCAC
Found at i:10516020 original size:16 final size:16
Alignment explanation
Indices: 10515999--10516034 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10515989 AAATATTAAA
*
10515999 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
10516015 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
10516031 TATT
1 TATT
10516035 TAGTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:10517251 original size:16 final size:15
Alignment explanation
Indices: 10517230--10517269 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
10517220 TTATGTGTAT
10517230 GGTAAGTAAATAATAA
1 GGTAAGTAAAT-ATAA
10517246 GGTAAGTGAAATATAA
1 GGTAAGT-AAATATAA
*
10517262 GATAAGTA
1 GGTAAGTA
10517270 TTATTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 17 0.77
17 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.25
Consensus pattern (15 bp):
GGTAAGTAAATATAA
Found at i:10517590 original size:23 final size:23
Alignment explanation
Indices: 10517564--10517609 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
10517554 CATATTTGCC
10517564 GATTAGGCACTTTATGTGTCGTA
1 GATTAGGCACTTTATGTGTCGTA
10517587 GATTAGGCACTTTATGTGTCGTA
1 GATTAGGCACTTTATGTGTCGTA
10517610 TCAGGCACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (23 bp):
GATTAGGCACTTTATGTGTCGTA
Found at i:10517617 original size:21 final size:22
Alignment explanation
Indices: 10517568--10517617 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
10517558 TTTGCCGATT
*
10517568 AGGCACTTTATGTGTCGTAGATT
1 AGGCACTTTATGTGTCGTA-ATC
10517591 AGGCACTTTATGTGTCGT-ATC
1 AGGCACTTTATGTGTCGTAATC
10517612 AGGCAC
1 AGGCAC
10517618 CTCGTGTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 8 0.31
23 18 0.69
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (22 bp):
AGGCACTTTATGTGTCGTAATC
Found at i:10522293 original size:18 final size:18
Alignment explanation
Indices: 10522258--10522316 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
10522248 GCAATAAGTG
*
10522258 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
10522276 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
* * *
10522294 AC-TTTGGAATATGAATC
1 ACGTTTTGAAAATGAATA
10522311 ACGTTT
1 ACGTTT
10522317 GAATTTGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 1 0.03
17 12 0.35
18 20 0.59
19 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:10526585 original size:26 final size:24
Alignment explanation
Indices: 10526504--10526587 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 24
10526494 ATAATTAAAC
* *
10526504 TTATTATTATAAA-TTTATTGTTGTA
1 TTATTATTTTAAAGTTT-TT-TTATA
10526529 TTATTATTTTAAAAGTTTTTTTATA
1 TTATTATTTT-AAAGTTTTTTTATA
* * *
10526554 TGTATTATTTT-ATGTTTTCTTGTA
1 T-TATTATTTTAAAGTTTTTTTATA
10526578 TTATTATTTT
1 TTATTATTTT
10526588 TAGTTTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
23 9 0.18
24 11 0.22
25 14 0.27
26 14 0.27
27 3 0.06
ACGTcount: A:0.26, C:0.01, G:0.07, T:0.65
Consensus pattern (24 bp):
TTATTATTTTAAAGTTTTTTTATA
Found at i:10526593 original size:23 final size:23
Alignment explanation
Indices: 10526524--10526593 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 23
10526514 AAATTTATTG
* *
10526524 TTGTATTATTATTTTAAAAGTTTTT
1 TTGTATTATTATTTT--TAGTTTTC
*
10526549 TTATATGTATTA-TTTTATGTTTTC
1 TTGTAT-TATTATTTTTA-GTTTTC
10526573 TTGTATTATTATTTTTAGTTT
1 TTGTATTATTATTTTTAGTTT
10526594 ATCATCATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 10 0.26
24 15 0.39
25 8 0.21
26 5 0.13
ACGTcount: A:0.23, C:0.01, G:0.09, T:0.67
Consensus pattern (23 bp):
TTGTATTATTATTTTTAGTTTTC
Found at i:10526677 original size:71 final size:72
Alignment explanation
Indices: 10526575--10526725 Score: 286
Period size: 71 Copynumber: 2.1 Consensus size: 72
10526565 ATGTTTTCTT
10526575 GTATTATTATTTTTAGTTTATCATCATAATTACTCTAAATTTATTATTAATATTATTTTAAATTT
1 GTATTATTATTTTTAGTTTATCATCATAATTACTCTAAATTTATTATTAATATTATTTTAAATTT
10526640 TCGCATA
66 TCGCATA
10526647 GTATTATTA-TTTTAGTTTATCATCATAATTACTCTAAATTTATTATTAATATTATTTTAAATTT
1 GTATTATTATTTTTAGTTTATCATCATAATTACTCTAAATTTATTATTAATATTATTTTAAATTT
10526711 TCGCATA
66 TCGCATA
*
10526718 CTATTATT
1 GTATTATT
10526726 TTAATTTTTT
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
71 69 0.88
72 9 0.12
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (72 bp):
GTATTATTATTTTTAGTTTATCATCATAATTACTCTAAATTTATTATTAATATTATTTTAAATTT
TCGCATA
Found at i:10526866 original size:43 final size:43
Alignment explanation
Indices: 10526805--10527065 Score: 364
Period size: 43 Copynumber: 6.1 Consensus size: 43
10526795 TTATGATAAA
10526805 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
* *
10526848 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTACCCTC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
*
10526891 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCTC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
*
10526934 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACTCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
* * * * * *
10526977 AAACACCGCTAAAGATCAAGACCTTTAGCGACGCTTT-CTCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
* * * * * *
10527019 AAACGCTGCTATAGATCACGACCTTTAGCGGCGCTTT-TCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
10527061 AAACG
1 AAACG
10527066 GCACAAGAGC
Statistics
Matches: 201, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 0.22
43 156 0.78
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
Found at i:10527084 original size:42 final size:41
Alignment explanation
Indices: 10526827--10527098 Score: 154
Period size: 43 Copynumber: 6.4 Consensus size: 41
10526817 AGAACATGAT
* * * * * **
10526827 CTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGGT
1 CTTTAGCGACGCTTTTCTCACAAACG-CGC-AAAGATCAAGAC
* * * * * * *
10526870 CTTTAGCGGCGCTTTACCCTCAAACGCCGCTAAAGAACATGAT
1 CTTTAGCGACGCTTTTCTCACAAACG-CGC-AAAGATCAAGAC
* * * * * * *
10526913 CTTTAGCGGCGCTTTACCCTCAAACGCCGCTAAAGAACATGAT
1 CTTTAGCGACGCTTTTCTCACAAACG-CGC-AAAGATCAAGAC
* * *
10526956 CTTTAGCGGCGCTTTACTCACAAACACCGCTAAAGATCAAGAC
1 CTTTAGCGACGCTTTTCTCACAAAC-GCGC-AAAGATCAAGAC
* *
10526999 CTTTAGCGACGC-TTTCTCACAAACGCTGCTATAGATCACGAC
1 CTTTAGCGACGCTTTTCTCACAAACGC-GC-AAAGATCAAGAC
*
10527041 CTTTAGCGGCGCTTTTC-CACAAACG-GCACAAGAGCTCAAGAC
1 CTTTAGCGACGCTTTTCTCACAAACGCGCA-AAGA--TCAAGAC
10527083 CTTTTAGCGACGCTTT
1 C-TTTAGCGACGCTTT
10527099 GGTTACAAAC
Statistics
Matches: 205, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
39 1 0.00
40 5 0.02
41 1 0.00
42 50 0.24
43 148 0.72
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.24
Consensus pattern (41 bp):
CTTTAGCGACGCTTTTCTCACAAACGCGCAAAGATCAAGAC
Found at i:10527089 original size:85 final size:86
Alignment explanation
Indices: 10526813--10527098 Score: 290
Period size: 86 Copynumber: 3.3 Consensus size: 86
10526803 AAAAACGCCG
* * * * * **
10526813 CTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGGTCTTTAGCG
1 CTAAAGATCAAGACCTTTAGCGACGCTTTACCCACAAACGCCGCTAAAGAACACGACCTTTAGCG
* * * *
10526878 GCGCTTTACCCTCAAACGCCG
66 GCGCTTTACTCACAAACACCA
* * * * * * *
10526899 CTAAAGAACATGATCTTTAGCGGCGCTTTACCCTCAAACGCCGCTAAAGAACATGATCTTTAGCG
1 CTAAAGATCAAGACCTTTAGCGACGCTTTACCCACAAACGCCGCTAAAGAACACGACCTTTAGCG
*
10526964 GCGCTTTACTCACAAACACCG
66 GCGCTTTACTCACAAACACCA
* * * *
10526985 CTAAAGATCAAGACCTTTAGCGACGCTTT-CTCACAAACGCTGCTATAGATCACGACCTTTAGCG
1 CTAAAGATCAAGACCTTTAGCGACGCTTTACCCACAAACGCCGCTAAAGAACACGACCTTTAGCG
* **
10527049 GCGCTTTTC-CACAAACGGCA
66 GCGCTTTACTCACAAACACCA
*
10527069 C-AAGAGCTCAAGACCTTTTAGCGACGCTTT
1 CTAA-AGATCAAGACC-TTTAGCGACGCTTT
10527099 GGTTACAAAC
Statistics
Matches: 177, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
83 2 0.01
84 19 0.11
85 50 0.28
86 106 0.60
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (86 bp):
CTAAAGATCAAGACCTTTAGCGACGCTTTACCCACAAACGCCGCTAAAGAACACGACCTTTAGCG
GCGCTTTACTCACAAACACCA
Found at i:10527155 original size:16 final size:16
Alignment explanation
Indices: 10527134--10527169 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10527124 AAATATTAAA
*
10527134 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
10527150 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
10527166 TATT
1 TATT
10527170 TAGTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:10532400 original size:7 final size:7
Alignment explanation
Indices: 10532388--10532486 Score: 51
Period size: 7 Copynumber: 14.0 Consensus size: 7
10532378 ACCAATTAAT
10532388 CTAAACC
1 CTAAACC
10532395 CTAAACCC
1 CTAAA-CC
*
10532403 CTAACCC
1 CTAAACC
* *
10532410 CT-ATCTT
1 CTAAAC-C
10532417 CTAAACC
1 CTAAACC
*
10532424 CTAAATC
1 CTAAACC
* *
10532431 ATAAAAC
1 CTAAACC
*
10532438 ATAAACC
1 CTAAACC
*
10532445 CTAACCC
1 CTAAACC
*
10532452 CTAACCC
1 CTAAACC
10532459 CT-AACC
1 CTAAACC
10532465 CTTAAACC
1 C-TAAACC
*
10532473 C-CAACC
1 CTAAACC
10532479 CTTAAACC
1 C-TAAACC
10532487 TATCCCCTAT
Statistics
Matches: 71, Mismatches: 14, Indels: 13
0.72 0.14 0.13
Matches are distributed among these distances:
6 11 0.15
7 43 0.61
8 17 0.24
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:10532460 original size:14 final size:14
Alignment explanation
Indices: 10532443--10532510 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
10532433 AAAACATAAA
10532443 CCCTAACCCCTAAC
1 CCCTAACCCCTAAC
*
10532457 CCCTAACCCTTAAAC
1 CCCTAACCCCT-AAC
*
10532472 CCC-AACCCTTAA-
1 CCCTAACCCCTAAC
* * *
10532484 ACCTATCCCCTATC
1 CCCTAACCCCTAAC
*
10532498 CCCTATCCCCTAA
1 CCCTAACCCCTAA
10532511 ACCTTGAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
12 2 0.05
13 8 0.18
14 28 0.64
15 6 0.14
ACGTcount: A:0.28, C:0.51, G:0.00, T:0.21
Consensus pattern (14 bp):
CCCTAACCCCTAAC
Found at i:10532497 original size:7 final size:7
Alignment explanation
Indices: 10532485--10532509 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10532475 AACCCTTAAA
10532485 CCTATCC
1 CCTATCC
10532492 CCTATCC
1 CCTATCC
10532499 CCTATCC
1 CCTATCC
10532506 CCTA
1 CCTA
10532510 AACCTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.56, G:0.00, T:0.28
Consensus pattern (7 bp):
CCTATCC
Found at i:10532620 original size:57 final size:57
Alignment explanation
Indices: 10532512--10532620 Score: 130
Period size: 57 Copynumber: 1.9 Consensus size: 57
10532502 ATCCCCTAAA
* * * * * *
10532512 CCTTGAATTATAAACCATAAACTATAAACCGTAAATCCCTAACCCTTAAACCCCAAC
1 CCTTAAATAATAAACAATAAACTATAAACCCTAAATCCATAACCCTAAAACCCCAAC
* *
10532569 CCTTAAATAATAAACAATAAATTATAATCCCTAAA-CCATAATCCCTAAAACC
1 CCTTAAATAATAAACAATAAACTATAAACCCTAAATCCATAA-CCCTAAAACC
10532621 ATAATCCCTA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
56 5 0.12
57 38 0.88
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.24
Consensus pattern (57 bp):
CCTTAAATAATAAACAATAAACTATAAACCCTAAATCCATAACCCTAAAACCCCAAC
Found at i:10532640 original size:15 final size:14
Alignment explanation
Indices: 10532592--10532633 Score: 75
Period size: 15 Copynumber: 2.9 Consensus size: 14
10532582 ACAATAAATT
10532592 ATAATCCCTAAACC
1 ATAATCCCTAAACC
10532606 ATAATCCCTAAAACC
1 ATAATCCCT-AAACC
10532621 ATAATCCCTAAAC
1 ATAATCCCTAAAC
10532634 TGCTAATGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAATCCCTAAACC
Found at i:10532708 original size:22 final size:22
Alignment explanation
Indices: 10532678--10532720 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10532668 ACAGCAGAAC
* *
10532678 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
10532700 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
10532721 AATGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.28, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:10533533 original size:40 final size:40
Alignment explanation
Indices: 10533474--10533592 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 40
10533464 TTAAATCCCT
*
10533474 GAGCATTAGTGGCGCTTTTTAGAAAAACGCCGCTAAAAACA
1 GAGCATTAGCGGCGCTTTTT-GAAAAACGCCGCTAAAAACA
* * ** *
10533515 GAGCATTAGCGGCG-TTTTTGTGAAAGCGCCGCTAAAGCCCC
1 GAGCATTAGCGGCGCTTTTTG-AAAAACGCCGCTAAA-AACA
* *
10533556 GACCATTAGCGGCGCTTTCTGAAAAACGCCGCTAAAA
1 GAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTAAAA
10533593 CCCTGAAAGC
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.02
40 18 0.28
41 40 0.62
42 5 0.08
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTAAAAACA
Found at i:10533725 original size:40 final size:40
Alignment explanation
Indices: 10533651--10533765 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
10533641 CGCTTTTTGG
* * *
10533651 AAAA-CGCCGCTAGTGCT-TATTTTTAGCGGTGTTTTCCA
1 AAAAGCGCCGCTAATGCTCGATCTTTAGCGGTGTTTTCCA
* * * * *
10533689 TAAGGCGCCGCTAATGTTCGATCTTTAGTGGCGTTTTCCA
1 AAAAGCGCCGCTAATGCTCGATCTTTAGCGGTGTTTTCCA
10533729 AAAAGCGCCGCTAATGCTCGATCTTTAGCGGTGTTTT
1 AAAAGCGCCGCTAATGCTCGATCTTTAGCGGTGTTTT
10533766 TTTATCCAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
38 2 0.03
39 11 0.18
40 49 0.79
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATCTTTAGCGGTGTTTTCCA
Found at i:10539681 original size:15 final size:15
Alignment explanation
Indices: 10539657--10539691 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
10539647 AACACATTGA
*
10539657 TGTTCGGTATCATTT
1 TGTTCAGTATCATTT
10539672 TGTTCAGTATCATTT
1 TGTTCAGTATCATTT
10539687 TGTTC
1 TGTTC
10539692 GTGATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.17, T:0.54
Consensus pattern (15 bp):
TGTTCAGTATCATTT
Found at i:10550172 original size:20 final size:20
Alignment explanation
Indices: 10550147--10550186 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10550137 AATTCTCACT
*
10550147 ACTTTCTGGTAGAATAACAA
1 ACTTTCTGATAGAATAACAA
10550167 ACTTTCTGATAGAATAACAA
1 ACTTTCTGATAGAATAACAA
10550187 TATATGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (20 bp):
ACTTTCTGATAGAATAACAA
Found at i:10553315 original size:8 final size:7
Alignment explanation
Indices: 10553288--10553344 Score: 55
Period size: 8 Copynumber: 7.9 Consensus size: 7
10553278 GTTTGCTTTC
10553288 AAAATAA
1 AAAATAA
*
10553295 AAGAA-AC
1 AA-AATAA
10553302 AAAATAA
1 AAAATAA
10553309 GAAAATAA
1 -AAAATAA
10553317 AAAAT-A
1 AAAATAA
10553323 AAAATAA
1 AAAATAA
10553330 ATAAATAA
1 A-AAATAA
10553338 ACAAATA
1 A-AAATA
10553345 GGCCGAGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
6 8 0.19
7 13 0.31
8 21 0.50
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:10562678 original size:15 final size:17
Alignment explanation
Indices: 10562658--10562697 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10562648 TAGAGTGTGC
*
10562658 AGGAGAG-GAGAGGAG-
1 AGGAGAGCGACAGGAGT
10562673 AGGAGAGCGACAGGAGT
1 AGGAGAGCGACAGGAGT
10562690 AGGA-AGCG
1 AGGAGAGCG
10562698 GCTAGAGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 11 0.50
17 4 0.18
ACGTcount: A:0.38, C:0.07, G:0.53, T:0.03
Consensus pattern (17 bp):
AGGAGAGCGACAGGAGT
Found at i:10569282 original size:110 final size:111
Alignment explanation
Indices: 10569081--10569298 Score: 420
Period size: 110 Copynumber: 2.0 Consensus size: 111
10569071 CATTAAACAA
*
10569081 TGATAAATTTTGATTTAGATGGGAAGTAACTATTAATTTGCGATTCTATTTTTAGTTTGTTAGCT
1 TGATAAATTTTGATTTAGATGGGAAGTAACTATTAATTTGCGATTCTATTTATAGTTTGTTAGCT
10569146 CCCTTCATTGCTTAGCTATTAATTACTTGACGATAATATTTTTAAT
66 CCCTTCATTGCTTAGCTATTAATTACTTGACGATAATATTTTTAAT
10569192 TGATAAA-TTTGATTTAGATGGGAAGTAACTATTAATTTGCGATTCTATTTATAGTTTGTTAGCT
1 TGATAAATTTTGATTTAGATGGGAAGTAACTATTAATTTGCGATTCTATTTATAGTTTGTTAGCT
10569256 CCCTTCATTGCTTAGCTATTAATTACTTGACGATAATATTTTT
66 CCCTTCATTGCTTAGCTATTAATTACTTGACGATAATATTTTT
10569299 CTCTTTTCGA
Statistics
Matches: 106, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 99 0.93
111 7 0.07
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (111 bp):
TGATAAATTTTGATTTAGATGGGAAGTAACTATTAATTTGCGATTCTATTTATAGTTTGTTAGCT
CCCTTCATTGCTTAGCTATTAATTACTTGACGATAATATTTTTAAT
Found at i:10570107 original size:67 final size:67
Alignment explanation
Indices: 10570024--10570158 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
10570014 AGAAATTTTC
*
10570024 AACTGATTCTATAGTACTTGTTGCATTATTAATAGGATTGAGCTCATAAGCTCACGACAATGGAA
1 AACTGATTCTATAGTACTTGTTGCATTAGTAATAGGATTGAGCTCATAAGCTCACGACAATGGAA
10570089 GG
66 GG
*
10570091 AACTGATTCTATAGTACTTGTTGCATTAGTAGTAGGATTGAGCTCATAAGCTCACGACAATGGAA
1 AACTGATTCTATAGTACTTGTTGCATTAGTAATAGGATTGAGCTCATAAGCTCACGACAATGGAA
10570156 GG
66 GG
10570158 A
1 A
10570159 TGAGTCAGCA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (67 bp):
AACTGATTCTATAGTACTTGTTGCATTAGTAATAGGATTGAGCTCATAAGCTCACGACAATGGAA
GG
Found at i:10576497 original size:38 final size:38
Alignment explanation
Indices: 10576446--10576601 Score: 312
Period size: 38 Copynumber: 4.1 Consensus size: 38
10576436 AAGGAAGAGA
10576446 TAGTCAACGATGAATGTCATCTGACATTGGGAGTATCT
1 TAGTCAACGATGAATGTCATCTGACATTGGGAGTATCT
10576484 TAGTCAACGATGAATGTCATCTGACATTGGGAGTATCT
1 TAGTCAACGATGAATGTCATCTGACATTGGGAGTATCT
10576522 TAGTCAACGATGAATGTCATCTGACATTGGGAGTATCT
1 TAGTCAACGATGAATGTCATCTGACATTGGGAGTATCT
10576560 TAGTCAACGATGAATGTCATCTGACATTGGGAGTATCT
1 TAGTCAACGATGAATGTCATCTGACATTGGGAGTATCT
10576598 TAGT
1 TAGT
10576602 AGAATAGACT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 118 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (38 bp):
TAGTCAACGATGAATGTCATCTGACATTGGGAGTATCT
Found at i:10580580 original size:42 final size:42
Alignment explanation
Indices: 10580513--10580671 Score: 132
Period size: 42 Copynumber: 3.7 Consensus size: 42
10580503 AACTCGTACA
* * *
10580513 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATC-AATATC
1 ATGCCAACTGTCCCAGAC-AGGTCTTACACGAAATCAAATATC
10580554 GATGCC-ACTGTCCCAGACAGGATCTTACACGAAATCAAATATC
1 -ATGCCAACTGTCCCAGACAGG-TCTTACACGAAATCAAATATC
* * * *
10580597 ATGCCGA-TGTCCCAGACATGGTCTTATACATAAATCTCAA-ATC
1 ATGCCAACTGTCCCAGACA-GGTCTTACAC-GAAATC-AAATATC
*
10580640 GATGCCAAC-GTCCCAGACGTGGTCTTACACGA
1 -ATGCCAACTGTCCCAGAC-AGGTCTTACACGA
10580672 TAACATATAT
Statistics
Matches: 97, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
41 4 0.04
42 49 0.51
43 18 0.19
44 26 0.27
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACTGTCCCAGACAGGTCTTACACGAAATCAAATATC
Found at i:10581882 original size:14 final size:15
Alignment explanation
Indices: 10581863--10581891 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10581853 TCACGAAACT
10581863 TTCACACAT-ATAAA
1 TTCACACATAATAAA
10581877 TTCACACATAATAAA
1 TTCACACATAATAAA
10581892 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:10590120 original size:15 final size:14
Alignment explanation
Indices: 10590099--10590134 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
10590089 ATAATCCTTA
*
10590099 ATAATTATCTTAAT
1 ATAATTATCCTAAT
10590113 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
10590128 ATAATTA
1 ATAATTA
10590135 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Done.