Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 354 of 378
Found at i:106219679 original size:13 final size:14
Alignment explanation
Indices: 106219654--106219680 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
106219644 TTGATAAAAC
106219654 TTTTAAAATTTTTT
1 TTTTAAAATTTTTT
106219668 TTTTAAAATTTTT
1 TTTTAAAATTTTT
106219681 AAAATTTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTAAAATTTTTT
Found at i:106220598 original size:21 final size:23
Alignment explanation
Indices: 106220555--106220600 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
106220545 GACTCGAAAG
*
106220555 TTTGATAAAATTTTTGAAGTTTT
1 TTTGATAAAATTTTTGAAATTTT
106220578 TTTG-TAAAATTTTT-AAATTTT
1 TTTGATAAAATTTTTGAAATTTT
106220599 TT
1 TT
106220601 ACATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.36
22 10 0.45
23 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (23 bp):
TTTGATAAAATTTTTGAAATTTT
Found at i:106223712 original size:46 final size:46
Alignment explanation
Indices: 106223601--106224126 Score: 352
Period size: 46 Copynumber: 11.6 Consensus size: 46
106223591 GCTTTCTGAC
*
106223601 ATAAAATGTGTAAGACCATGGTTGAAAGATATCAACATGTGC-ATATGAT
1 ATAAAATGTGTAAGACCATGGTTGAAAGATA-C--CATG-GCAACATGAT
* *
106223650 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
106223696 ATAAAATGTGTAAGACCATGGTTGAAAGATTCCATGGCAACATGAT
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
106223742 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-TTGAC
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** ** * *
106223787 ATGAAAA-GAATAAGACCATGGTTG-AAGATACCAATATGGCAATGTAAC
1 AT-AAAATGTGTAAGACCATGGTTGAAAGATACC---ATGGCAACATGAT
* ***
106223835 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * * *
106223881 A-GAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG-T
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** * * * * * *
106223925 CGAAGAT-AATAAGACCGTGGATG---G-GA-GAT-GC--TATGAC
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * ** *
106223962 AT---CTGTGTAAGACCATGGTTGAAAAATACCATGGCAATGTGAC
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** ** * *
106224005 ATGAAAA-GAATAAGACCATGGTTGAAAGATACCAATATGGCAATGTAAC
1 AT-AAAATGTGTAAGACCATGGTTGAAAGATACC---ATGGCAACATGAT
* ***
106224054 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
106224100 AGAAAATGAGTAAGACCATAGTTGAAA
1 ATAAAATGTGTAAGACCATGGTTGAAA
106224127 ACACTATGGC
Statistics
Matches: 387, Mismatches: 63, Indels: 57
0.76 0.12 0.11
Matches are distributed among these distances:
34 1 0.00
35 12 0.03
36 3 0.01
38 2 0.01
39 3 0.01
40 3 0.01
41 3 0.01
43 7 0.02
44 21 0.05
45 60 0.16
46 160 0.41
47 10 0.03
48 25 0.06
49 77 0.20
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (46 bp):
ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:106223853 original size:48 final size:46
Alignment explanation
Indices: 106223753--106224093 Score: 182
Period size: 49 Copynumber: 7.7 Consensus size: 46
106223743 TAAAATGTGT
* *
106223753 AAGACCATGGTTGAAAGATACC-ATGGCAATTGACATGAAAAGAAT
1 AAGACCATGGTTGAAAGATACCAATGGCAATTAACATGAAAAGAAC
*
106223798 AAGACCATGGTTG-AAGATACCAATATGGCAATGTAACATGAAATGAAC
1 AAGACCATGGTTGAAAGATACC-A-ATGGCAAT-TAACATGAAAAGAAC
* ** * **
106223846 AAGACCATGGTTGAAAGATACC-ATGGCAA-CATGATAGAAATGAGT
1 AAGACCATGGTTGAAAGATACCAATGGCAATTAACAT-GAAAAGAAC
* * * * ** * * *
106223891 AAGACCATAGTTGAAAGACA-CTATGGC-A-TCATGTCGAAGATAAT
1 AAGACCATGGTTGAAAGATACCAATGGCAATTAACAT-GAAAAGAAC
* * ** * * * * *
106223935 AAGACCGTGGATGGGAGAT-GCTATGAC-A-T--C-TG---TG--T
1 AAGACCATGGTTGAAAGATACCAATGGCAATTAACATGAAAAGAAC
* * *
106223970 AAGACCATGGTTGAAAAATACC-ATGGCAATGTGACATGAAAAGAAT
1 AAGACCATGGTTGAAAGATACCAATGGCAAT-TAACATGAAAAGAAC
*
106224016 AAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAAC
1 AAGACCATGGTTGAAAGATACC-A-ATGGCAAT-TAACATGAAAAGAAC
106224065 AAGACCATGGTTGAAAGATACC-ATGGCAA
1 AAGACCATGGTTGAAAGATACCAATGGCAA
106224094 CATGATAGAA
Statistics
Matches: 231, Mismatches: 42, Indels: 45
0.73 0.13 0.14
Matches are distributed among these distances:
35 19 0.08
36 2 0.01
38 1 0.00
40 2 0.01
41 3 0.01
44 41 0.18
45 43 0.19
46 36 0.16
47 8 0.03
48 25 0.11
49 51 0.22
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGATACCAATGGCAATTAACATGAAAAGAAC
Found at i:106223866 original size:93 final size:93
Alignment explanation
Indices: 106223610--106223908 Score: 344
Period size: 93 Copynumber: 3.2 Consensus size: 93
106223600 CATAAAATGT
*
106223610 GTAAGACCATGGTTGAAAGATATCAACATGTGCATATG-ATATGAAATGTGTAAGACCATGGTTG
1 GTAAGACCATGGTTGAAAGATACCAA-ATG-GCA-ATGTATATGAAATGTGTAAGACCATGGTTG
* *
106223674 AAAGATACCATGACAACATGATAT-AAAATGT
63 AAAGATACCATGGCAACATGATATGAAAA-GA
* *
106223705 GTAAGACCATGGTTGAAAGATTCC--ATGGCAACATG-ATATAAAATGTGTAAGACCATGGTTGA
1 GTAAGACCATGGTTGAAAGATACCAAATGGC-A-ATGTATATGAAATGTGTAAGACCATGGTTGA
* *
106223767 AAGATACCATGGCAA-TTGACATGAAAAGA
64 AAGATACCATGGCAACATGATATGAAAAGA
* * ***
106223796 ATAAGACCATGGTTG-AAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGA
1 GTAAGACCATGGTTGAAAGATACCAA-ATGGCAATGT-ATATGAAATGTGTAAGACCATGGTTGA
*
106223860 AAGATACCATGGCAACATGATA-GAAATGA
64 AAGATACCATGGCAACATGATATGAAAAGA
*
106223889 GTAAGACCATAGTTGAAAGA
1 GTAAGACCATGGTTGAAAGA
106223909 CACTATGGCA
Statistics
Matches: 175, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
90 7 0.04
91 25 0.14
92 52 0.30
93 61 0.35
94 8 0.05
95 22 0.13
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (93 bp):
GTAAGACCATGGTTGAAAGATACCAAATGGCAATGTATATGAAATGTGTAAGACCATGGTTGAAA
GATACCATGGCAACATGATATGAAAAGA
Found at i:106224133 original size:219 final size:218
Alignment explanation
Indices: 106223748--106224160 Score: 776
Period size: 219 Copynumber: 1.9 Consensus size: 218
106223738 TGATATAAAA
*
106223748 TGTGTAAGACCATGGTTGAAAGATACCATGGCAATTGACATGAAAAGAATAAGACCATGGTTGAA
1 TGTGTAAGACCATGGTTGAAAAATACCATGGCAATTGACATGAAAAGAATAAGACCATGGTTGAA
106223813 GATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACAT
66 GATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACAT
106223878 GATAGAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCGAAGAT-AATAAGACCG
131 GATAGAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCGAAGATAAATAAGACCG
106223942 TGGATGGGAGATGCTATGACATC
196 TGGATGGGAGATGCTATGACATC
106223965 TGTGTAAGACCATGGTTGAAAAATACCATGGCAATGTGACATGAAAAGAATAAGACCATGGTTGA
1 TGTGTAAGACCATGGTTGAAAAATACCATGGCAAT-TGACATGAAAAGAATAAGACCATGGTTG-
106224030 AAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
64 AAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
106224095 ATGATAGAAAATGAGTAAGACCATAGTTGAAA-ACACTATGGCATCATGTCGAAGATAAATAAGA
129 ATGATAG-AAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCGAAGATAAATAAGA
106224159 CC
193 CC
106224161 ATAGTTGAAA
Statistics
Matches: 191, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
217 34 0.18
218 28 0.15
219 96 0.50
220 33 0.17
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (218 bp):
TGTGTAAGACCATGGTTGAAAAATACCATGGCAATTGACATGAAAAGAATAAGACCATGGTTGAA
GATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACAT
GATAGAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCGAAGATAAATAAGACCG
TGGATGGGAGATGCTATGACATC
Found at i:106224184 original size:43 final size:44
Alignment explanation
Indices: 106224065--106224203 Score: 181
Period size: 43 Copynumber: 3.1 Consensus size: 44
106224055 TGAAATGAAC
* * * * * * * *
106224065 AAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGT
1 AAGACCATAGTTGAAA-ACACTATGGCATCATG-TCGAAGATAAAT
106224111 AAGACCATAGTTGAAAACACTATGGCATCATGTCGAAGATAAAT
1 AAGACCATAGTTGAAAACACTATGGCATCATGTCGAAGATAAAT
106224155 AAGACCATAGTTG-AAACACTATGGCATCATGTCGAAGATAAAT
1 AAGACCATAGTTGAAAACACTATGGCATCATGTCGAAGATAAAT
106224198 AAGACC
1 AAGACC
106224204 GTGGATGGGA
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
43 36 0.42
44 21 0.25
45 13 0.15
46 15 0.18
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (44 bp):
AAGACCATAGTTGAAAACACTATGGCATCATGTCGAAGATAAAT
Found at i:106224201 original size:263 final size:261
Alignment explanation
Indices: 106223702--106224227 Score: 697
Period size: 263 Copynumber: 2.0 Consensus size: 261
106223692 TGATATAAAA
* * * **
106223702 TGTGTAAGACCATGGTTGAAAGATTCCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGA
1 TGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACATAAAATGAATAAGACCATGGTTGA
* * **
106223767 AAGATACCATGGCAATTGACATGAAAAGAATAAGACCATGGTTGAAGATACCAATATGGCAATGT
66 AAGATACCATGGCAATTAACATGAAAAGAACAAGACCATGGTTGAAGATACC-A-ATGGCAACAT
* * * *
106223832 AACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAATGAGTAAGACC
129 AACATGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACATGATAGAAATAAATAAGACC
106223897 ATAGTTGAAAGACACTATGGCATCATGTCGAAGATAATAAGACCGTGGATGGGAGATGCTATGAC
194 ATAGTTGAAAGACACTATGGCATCATGTCGAAGATAATAAGACCGTGGATGGGAGATGCTATGAC
106223962 ATC
259 ATC
**
106223965 TGTGTAAGACCATGGTTGAAAAATACCATGGCAATGTGACATGAAAA-GAATAAGACCATGGTTG
1 TGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACAT-AAAATGAATAAGACCATGGTTG
*
106224029 AAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGATACC-ATGGCA
65 AAAGATACC---ATGGCAAT-TAACATGAAAAGAACAAGACCATGGTTG-AAGATACCAATGGCA
* * ** * * *
106224093 ACATGATA-GAAAATGAGTAAGACCATAGTTGAAA-ACACTATGGCATCATG-TCGAAGATAAAT
125 ACATAACATG-AAATGAACAAGACCATAGTTGAAAGACACCATGGCAACATGATAGAA-ATAAAT
106224155 AAGACCATAGTTG-AA-ACACTATGGCATCATGTCGAAGATAAATAAGACCGTGGATGGGAGATG
188 AAGACCATAGTTGAAAGACACTATGGCATCATGTCGAAGAT-AATAAGACCGTGGATGGGAGATG
106224218 CTATGACATC
252 CTATGACATC
106224228 AGTTGAACAA
Statistics
Matches: 231, Mismatches: 23, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
262 24 0.10
263 100 0.43
264 35 0.15
265 31 0.13
266 8 0.03
267 25 0.11
268 8 0.03
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (261 bp):
TGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACATAAAATGAATAAGACCATGGTTGA
AAGATACCATGGCAATTAACATGAAAAGAACAAGACCATGGTTGAAGATACCAATGGCAACATAA
CATGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACATGATAGAAATAAATAAGACCAT
AGTTGAAAGACACTATGGCATCATGTCGAAGATAATAAGACCGTGGATGGGAGATGCTATGACAT
C
Found at i:106228480 original size:15 final size:17
Alignment explanation
Indices: 106228445--106228478 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
106228435 AATCTAAAGA
106228445 AAAATTATTAGAAATTAT
1 AAAATTATTAGAAA-TAT
*
106228463 AAAATTATTAAAAATA
1 AAAATTATTAGAAATA
106228479 AATTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 2 0.13
18 13 0.87
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AAAATTATTAGAAATAT
Found at i:106228521 original size:19 final size:19
Alignment explanation
Indices: 106228493--106228575 Score: 86
Period size: 18 Copynumber: 4.5 Consensus size: 19
106228483 TTTTTAGAAC
106228493 ATAT-TAGAAAATTATAAA
1 ATATATAGAAAATTATAAA
106228511 ATATATAGAAAATTATAAA
1 ATATATAGAAAATTATAAA
*
106228530 A-ATATA-AACACTTATAAA
1 ATATATAGAA-AATTATAAA
*
106228548 GATAT-TA-AAAATTCTAAA
1 -ATATATAGAAAATTATAAA
*
106228566 AAATATAGAA
1 ATATATAGAA
106228576 TGAAATCTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
17 5 0.09
18 26 0.47
19 22 0.40
20 2 0.04
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (19 bp):
ATATATAGAAAATTATAAA
Found at i:106228525 original size:27 final size:28
Alignment explanation
Indices: 106228487--106228575 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 28
106228477 TAAATTTTTT
*
106228487 TAGAACATATTAGAAAATTATAAAATATA
1 TAGAAGATATTA-AAAATTATAAAATATA
*
106228516 TAGAA-A-ATTATAAAAATATAAACACT-TA
1 TAGAAGATATTA-AAAATTATAAA-A-TATA
* *
106228544 TA-AAGATATTAAAAATTCTAAAAAATA
1 TAGAAGATATTAAAAATTATAAAATATA
106228571 TAGAA
1 TAGAA
106228576 TGAAATCTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
27 21 0.43
28 18 0.37
29 10 0.20
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (28 bp):
TAGAAGATATTAAAAATTATAAAATATA
Found at i:106228531 original size:9 final size:9
Alignment explanation
Indices: 106228500--106228572 Score: 53
Period size: 9 Copynumber: 8.0 Consensus size: 9
106228490 AACATATTAG
106228500 AAAATTAT-
1 AAAATTATA
106228508 AAAATATATA
1 AAAAT-TATA
106228518 GAAAATTATA
1 -AAAATTATA
106228528 AAAA-TATA
1 AAAATTATA
*
106228536 AACACTTATA
1 AA-AATTATA
*
106228546 AAGA-TATTA
1 AAAATTA-TA
*
106228555 AAAATTCTA
1 AAAATTATA
*
106228564 AAAAATATA
1 AAAATTATA
106228573 GAATGAAATC
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
8 13 0.25
9 22 0.43
10 11 0.22
11 5 0.10
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:106228544 original size:18 final size:18
Alignment explanation
Indices: 106228497--106228575 Score: 81
Period size: 19 Copynumber: 4.3 Consensus size: 18
106228487 TAGAACATAT
106228497 TAGAAAATTATAAAATATA
1 TAGAAAATTATAAAA-ATA
106228516 TAGAAAATTATAAAAATA
1 TAGAAAATTATAAAAATA
* *
106228534 TA-AACACTTATAAAGATA
1 TAGAA-AATTATAAAAATA
*
106228552 TTA-AAAATTCTAAAAAATA
1 -TAGAAAATTAT-AAAAATA
106228571 TAGAA
1 TAGAA
106228576 TGAAATCTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.04
18 22 0.43
19 27 0.53
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (18 bp):
TAGAAAATTATAAAAATA
Found at i:106228678 original size:19 final size:20
Alignment explanation
Indices: 106228628--106228678 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
106228618 AACAAAATAG
106228628 AACTTATAAAAAAGATATAA
1 AACTTATAAAAAAGATATAA
* *
106228648 AA-TTATTAAAAATATA-AA
1 AACTTATAAAAAAGATATAA
*
106228666 AACTAATAAAAAA
1 AACTTATAAAAAA
106228679 ATGTATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.15
19 20 0.77
20 2 0.08
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (20 bp):
AACTTATAAAAAAGATATAA
Found at i:106237600 original size:91 final size:91
Alignment explanation
Indices: 106237431--106237602 Score: 249
Period size: 91 Copynumber: 1.9 Consensus size: 91
106237421 TTCCAAAATA
* * * * *
106237431 ACATTCTATTTCATATTATATGATATGATTTAATTGTTTCGTTAATTTATTTATTTAAATTGATT
1 ACATTCTATTTCATATTATATGATATGATATAATAGCTTCATTAATTTATTTATTCAAATTGATT
106237496 TTTTTTATTTTTTAAACTTCAAATTT
66 TTTTTTATTTTTTAAACTTCAAATTT
* *
106237522 ACATTCTATTTCATA-TAGTATGGTATGATATAATAGCTTCATTAATTTATTTATTCAAATT-TT
1 ACATTCTATTTCATATTA-TATGATATGATATAATAGCTTCATTAATTTATTTATTCAAATTGAT
106237585 TTTTTTTATATTTTTAAA
65 TTTTTTTAT-TTTTTAAA
106237603 GAGAAAGGTT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
90 12 0.17
91 60 0.83
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (91 bp):
ACATTCTATTTCATATTATATGATATGATATAATAGCTTCATTAATTTATTTATTCAAATTGATT
TTTTTTATTTTTTAAACTTCAAATTT
Found at i:106245207 original size:28 final size:28
Alignment explanation
Indices: 106245175--106245238 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
106245165 CGAGCATGTG
106245175 GGCCCATTTGGGCCGAGAATAGGCTTTA
1 GGCCCATTTGGGCCGAGAATAGGCTTTA
106245203 GGCCCATTTGGGCCGAGAATAGGCTTTA
1 GGCCCATTTGGGCCGAGAATAGGCTTTA
106245231 GGCCCATT
1 GGCCCATT
106245239 CGTATTGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.25
Consensus pattern (28 bp):
GGCCCATTTGGGCCGAGAATAGGCTTTA
Found at i:106245371 original size:27 final size:27
Alignment explanation
Indices: 106245303--106245373 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
106245293 CGACTTGTAA
* *
106245303 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
106245330 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
106245357 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
106245374 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:106245380 original size:27 final size:27
Alignment explanation
Indices: 106245357--106245480 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
106245347 CAATTTACAG
*
106245357 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACTAAAATACCCTTGGTTTATAA
* * * *
106245384 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAA
*
106245411 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACTAAAATACCCTTGGTTTATAA
**
106245438 AATTACTAAAATACCAATGGTTTGA-AA
1 AATTACTAAAATACCCTTGGTTT-ATAA
106245465 AATTACTAAAATACCC
1 AATTACTAAAATACCC
106245481 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGGTTTATAA
Found at i:106245399 original size:54 final size:53
Alignment explanation
Indices: 106245341--106245452 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 53
106245331 ATTACCGTTT
106245341 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * * *
106245395 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACTAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
106245449 TACC
1 TACC
106245453 AATGGTTTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
53 2 0.04
54 38 0.78
55 7 0.14
56 2 0.04
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.32
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:106245459 original size:54 final size:54
Alignment explanation
Indices: 106245357--106245480 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 54
106245347 CAATTTACAG
* ** *
106245357 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
* * *
106245411 AATTACTAAAATACCCTTTGTTTATAAAATTACTAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
106245465 AATTACTAAAATACCC
1 AATTACTAAAATACCC
106245481 CTGTAGGGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
Found at i:106245493 original size:27 final size:27
Alignment explanation
Indices: 106245463--106245524 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
106245453 AATGGTTTGA
106245463 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
106245490 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
106245517 AAAATTAC
1 AAAATTAC
106245525 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:106245493 original size:54 final size:54
Alignment explanation
Indices: 106245357--106245506 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
106245347 CAATTTACAG
* ** * * ** *
106245357 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACTAAAATACCAATGGTTTGAAA
* **
106245411 AATTACTAAAATACCCTTTGTTTATAAAATTACTAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACTAAAATACCAATGGTTTGAAA
* *
106245465 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACTAAAATACC
106245507 CTTGTGGGGT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 79 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACTAAAATACCAATGGTTTGAAA
Found at i:106245509 original size:81 final size:81
Alignment explanation
Indices: 106245357--106245509 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
106245347 CAATTTACAG
** **
106245357 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
106245422 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * * *
106245438 AATTACTAAAATACCAATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCAATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
106245501 AATACCCTT
64 AATACCCTT
106245510 GTGGGGTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.03
81 59 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:106246186 original size:25 final size:27
Alignment explanation
Indices: 106246132--106246187 Score: 89
Period size: 25 Copynumber: 2.1 Consensus size: 27
106246122 CTTGTGTAGT
106246132 AGCGTAGATCACGAAATTACCCCTAAAG
1 AGCGTAGATCAC-AAATTACCCCTAAAG
106246160 AGCGTAGATCA-AAATTA-CCCTAAAG
1 AGCGTAGATCACAAATTACCCCTAAAG
106246185 AGC
1 AGC
106246188 AAAATTACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 11 0.39
26 6 0.21
28 11 0.39
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (27 bp):
AGCGTAGATCACAAATTACCCCTAAAG
Found at i:106246192 original size:18 final size:18
Alignment explanation
Indices: 106246169--106246217 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 18
106246159 GAGCGTAGAT
106246169 CAAAATTACCCTAAAGAG
1 CAAAATTACCCTAAAGAG
106246187 CAAAATTACTACCCTAAAGAG
1 CAAAA-T--TACCCTAAAGAG
106246208 CAAAATTACC
1 CAAAATTACC
106246218 GAAATTACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 9 0.32
19 1 0.04
20 1 0.04
21 17 0.61
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.18
Consensus pattern (18 bp):
CAAAATTACCCTAAAGAG
Found at i:106246201 original size:21 final size:21
Alignment explanation
Indices: 106246175--106246216 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
106246165 AGATCAAAAT
106246175 TACCCTAAAGAGCAAAATTAC
1 TACCCTAAAGAGCAAAATTAC
106246196 TACCCTAAAGAGCAAAATTAC
1 TACCCTAAAGAGCAAAATTAC
106246217 CGAAATTACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.10, T:0.19
Consensus pattern (21 bp):
TACCCTAAAGAGCAAAATTAC
Found at i:106249533 original size:27 final size:27
Alignment explanation
Indices: 106249465--106249535 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
106249455 CGACTTGTAA
* *
106249465 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
106249492 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
106249519 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
106249536 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:106249542 original size:27 final size:27
Alignment explanation
Indices: 106249519--106249642 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
106249509 CAATTTACAG
106249519 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
106249546 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
106249573 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
106249600 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
106249627 AATTACTAAAATACCC
1 AATTACCAAAATACCC
106249643 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:106249561 original size:54 final size:53
Alignment explanation
Indices: 106249503--106249642 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
106249493 ATTACCGTTT
106249503 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
106249557 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
106249611 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
106249643 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:106249654 original size:81 final size:81
Alignment explanation
Indices: 106249519--106249671 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
106249509 CAATTTACAG
* **
106249519 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
106249584 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
106249600 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
106249663 AATACCCTT
64 AATACCCTT
106249672 GTGGGGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:106249655 original size:27 final size:27
Alignment explanation
Indices: 106249625--106249686 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
106249615 CATGGTTTGA
106249625 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
106249652 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
106249679 AAAATTAC
1 AAAATTAC
106249687 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:106249655 original size:54 final size:54
Alignment explanation
Indices: 106249519--106249669 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
106249509 CAATTTACAG
* ** * * *
106249519 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
106249573 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
106249627 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
106249670 TTGTGGGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:106250339 original size:28 final size:28
Alignment explanation
Indices: 106250306--106250390 Score: 152
Period size: 28 Copynumber: 3.0 Consensus size: 28
106250296 GCGTAGATCA
106250306 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
106250334 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
106250362 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
106250390 C
1 C
106250391 AATATACCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.46, C:0.25, G:0.09, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:106253667 original size:27 final size:27
Alignment explanation
Indices: 106253599--106253669 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
106253589 CGACTTGTAA
* *
106253599 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
106253626 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
106253653 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
106253670 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:106253676 original size:27 final size:27
Alignment explanation
Indices: 106253653--106253776 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
106253643 CAATTTACAG
106253653 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
106253680 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
106253707 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
106253734 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
106253761 AATTACTAAAATACCC
1 AATTACCAAAATACCC
106253777 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:106253695 original size:54 final size:53
Alignment explanation
Indices: 106253637--106253776 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
106253627 ATTACCGTTT
106253637 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
106253691 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
106253745 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
106253777 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:106253788 original size:81 final size:81
Alignment explanation
Indices: 106253653--106253805 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
106253643 CAATTTACAG
* **
106253653 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
106253718 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
106253734 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
106253797 AATACCCTT
64 AATACCCTT
106253806 GTGGGGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:106253789 original size:27 final size:27
Alignment explanation
Indices: 106253759--106253820 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
106253749 CATGGTTTGA
106253759 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
106253786 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
106253813 AAAATTAC
1 AAAATTAC
106253821 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:106253789 original size:54 final size:54
Alignment explanation
Indices: 106253653--106253803 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
106253643 CAATTTACAG
* ** * * *
106253653 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
106253707 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
106253761 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
106253804 TTGTGGGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:106254516 original size:27 final size:28
Alignment explanation
Indices: 106254441--106254536 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
106254431 GCGTAGATCA
106254441 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
106254469 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
106254497 CGAAATTA-CCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
106254524 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
106254537 GGGTTTAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.05
26 2 0.03
27 24 0.38
28 34 0.54
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:106257188 original size:19 final size:19
Alignment explanation
Indices: 106257166--106257212 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
106257156 CTTCCTTTCT
106257166 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
106257185 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
106257204 TTTGCATTA
1 TTTGCATTA
106257213 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:106260002 original size:6 final size:6
Alignment explanation
Indices: 106259991--106260020 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
106259981 GGCGTTATAT
106259991 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
106260021 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.33, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:106261312 original size:66 final size:66
Alignment explanation
Indices: 106261212--106261338 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
106261202 CATTCATATA
*
106261212 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACACATT
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
106261277 C
66 C
*
106261278 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
106261339 TAAGCATAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (66 bp):
ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:106261587 original size:43 final size:44
Alignment explanation
Indices: 106261402--106261953 Score: 407
Period size: 43 Copynumber: 12.6 Consensus size: 44
106261392 ATTCACAAGC
* * * *
106261402 CTTAAGCCCCTAAGCAATAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * *
106261447 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACA-GAT
* * * * *
106261491 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTG-CAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * *
106261533 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * **
106261576 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * *
106261619 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGACAGA-T
* *
106261663 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * **
106261708 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * * *
106261750 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAAC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGACAGAT
* * * *
106261794 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * * * *
106261839 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * * ** **
106261882 CTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* *
106261926 CTTAAACCCCTAAGTAGTAGGGTAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
106261954 GCTAGAAATT
Statistics
Matches: 403, Mismatches: 80, Indels: 49
0.76 0.15 0.09
Matches are distributed among these distances:
42 33 0.08
43 153 0.38
44 136 0.34
45 79 0.20
46 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (44 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
Found at i:106261698 original size:87 final size:86
Alignment explanation
Indices: 106261396--106261956 Score: 286
Period size: 87 Copynumber: 6.4 Consensus size: 86
106261386 CAGTGAATTC
* * * *
106261396 ACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATATA-AGCT-TTAA-CCCCTAAG
* * **
106261461 CAGTAGGGAAACAGATCGAAGA-CG
63 CAGTAGGGTAACA-AGCGAAGATTT
* * * * * * * * * *
106261485 A-AGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-AT-TGCAGATCTTATCTCCCTAA
1 ACA-AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATAT-AAGCT-TTAAC-CCCTAA
* *
106261546 GCAGTAGGGAAACAGATCGAAGA--T
62 GCAGTAGGGTAACA-AGCGAAGATTT
* * * * **
106261570 -GAAGATCTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGATGATGGGCTTTAACCCCCTAA
1 ACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGAT-ATAAGCTTTAA-CCCCTAA
*
106261633 GCAGTAGGGTAACAAGCCAA-ATTT
62 GCAGTAGGGTAACAAGCGAAGATTT
* *
106261657 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCTAAGC
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATATA-AGCT-TTAACCCCTAAGC
* * *
106261722 AGTAGGGAAACAGATCGAAGA-TG
64 AGTAGGGTAACA-AGCGAAGATTT
*** * * * ** * * *
106261745 ATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCA
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATA-TAAGCTTTAACCCCTAAGCA
*
106261810 GTAGGGTAACAGGCTGAAGATTT
65 GTAGGGTAACAAGC-GAAGATTT
** * * * *
106261833 ACAAATCTTAACCCCCTAACCAGTAGGGTAACAGGTTG-A-ATTTACAGATCTTAACCCCTTAAG
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATATA-AGCT-TTAACCCC-TAAG
* * * * *
106261896 CAGTTGGGAAATAGATCGAAGA-TG
63 CAGTAGGGTAACA-AGCGAAGATTT
*** * *
106261920 ATGGGCCTTAAACCCCTAAGTAGTAGGGTAACAGGCT
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT
106261957 AGAAATTACA
Statistics
Matches: 360, Mismatches: 86, Indels: 54
0.72 0.17 0.11
Matches are distributed among these distances:
84 1 0.00
85 29 0.08
86 48 0.13
87 146 0.41
88 104 0.29
89 32 0.09
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (86 bp):
ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATATAAGCTTTAACCCCTAAGCAG
TAGGGTAACAAGCGAAGATTT
Found at i:106261740 original size:131 final size:132
Alignment explanation
Indices: 106261390--106261866 Score: 673
Period size: 131 Copynumber: 3.6 Consensus size: 132
106261380 TAGAATCAGT
* * *
106261390 GAATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * *
106261455 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-A
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAA
106261518 GACC
130 G-CC
* * * * * * *
106261522 GAA-TTGC-AGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAAC
1 GAATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAAC
106261582 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
64 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
106261647 AGCC
129 AGCC
*
106261651 AAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAA-CC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
106261715 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
106261780 CC
131 CC
* * *
106261782 GAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
106261847 CCTAACCAGTAGGGTAACAG
66 CCTAAGCAGTAGGGAAACAG
106261867 GTTGAATTTA
Statistics
Matches: 306, Mismatches: 29, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
129 71 0.23
130 41 0.13
131 162 0.53
132 32 0.10
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (132 bp):
GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
CC
Found at i:106262087 original size:68 final size:68
Alignment explanation
Indices: 106261978--106262168 Score: 303
Period size: 68 Copynumber: 2.8 Consensus size: 68
106261968 ATTTTTTTTC
* * *
106261978 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-AGGATCTTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCA-AACCTCT
106262042 TCTT
65 TCTT
* *
106262046 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCAAACCTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAACCTCTT
106262111 CTT
66 CTT
* *
106262114 CCAGAAATGGCATTGGAGAGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
106262169 TGGAAGAAGA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
68 112 0.99
69 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (68 bp):
CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAACCTCTT
CTT
Found at i:106262336 original size:44 final size:44
Alignment explanation
Indices: 106262283--106263044 Score: 568
Period size: 44 Copynumber: 17.3 Consensus size: 44
106262273 TTCAGCATGA
*
106262283 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * * * *
106262327 CATCTCTGTGCTTATAGTGAACAAATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * * **
106262371 CATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--TGG
1 CATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATAGCAG-ATTTGG
*
106262415 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * *
106262459 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * * **
106262503 CATTCCTGTGCTTAGAGTGAAGC-AGATCGAAGATTTCAGCA--TGG
1 CATCCCTGTGCTTATAGGGAA-CAAG-TTGAAAATAGCAG-ATTTGG
*
106262547 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * *
106262591 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * * **
106262635 CATTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTCAGCA--TGG
1 CATCCCTGTGCTTATAGGGAA-CAAG-TTGAAAATAGCAG-ATTTGG
*
106262679 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * *
106262723 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * * **
106262767 CATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--TGG
1 CATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATAGCAG-ATTTGG
* *
106262811 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * *
106262855 CATCCCTGTGCTTATAGGGAACAA-ATCAAAGATAACAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAA-ATAGCAGATTTGG
* * * * * **
106262899 CATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--TGG
1 CATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATAGCAG-ATTTGG
* *
106262943 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * *
106262987 CATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAAATCTGA
1 CATCCCTGTGCTTATAGGGAACAAG-TTGAAAATAGCAGATTTGG
*
106263031 CATTCCTGTGCTTA
1 CATCCCTGTGCTTA
106263045 CAGTGAAGCA
Statistics
Matches: 566, Mismatches: 120, Indels: 64
0.75 0.16 0.09
Matches are distributed among these distances:
42 5 0.01
43 41 0.07
44 466 0.82
45 49 0.09
46 5 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
Found at i:106262384 original size:132 final size:132
Alignment explanation
Indices: 106262221--106263064 Score: 1562
Period size: 132 Copynumber: 6.4 Consensus size: 132
106262211 AGGAGCAGAC
* *
106262221 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGACAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
* *
106262286 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCTCTGTGCTTATAGTGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
106262351 AT
131 AT
106262353 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
106262418 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
106262483 AT
131 AT
* *
106262485 CGAAGATAGCAGATCTGACATTCCTGTGCTTAGAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
106262550 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
106262615 AT
131 AT
*
106262617 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
106262682 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
106262747 AT
131 AT
106262749 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
*
106262814 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
106262879 AT
131 AT
* *
106262881 CAAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
* *
106262946 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAG
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
106263011 AT
131 AT
* *
106263013 CGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAAATCAAAGAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
106263065 AGCGGATATC
Statistics
Matches: 696, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 696 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (132 bp):
CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
AT
Found at i:106263449 original size:22 final size:22
Alignment explanation
Indices: 106263409--106263450 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
106263399 TGGCCACCCA
*
106263409 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
106263431 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
106263451 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:106263564 original size:20 final size:23
Alignment explanation
Indices: 106263522--106263568 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
106263512 GTTTTTGGTT
106263522 TTTTGGAGGAGGATTGTTCTTTG
1 TTTTGGAGGAGGATTGTTCTTTG
106263545 TTTTGGAGGAGG-TT-TT-TTTG
1 TTTTGGAGGAGGATTGTTCTTTG
106263565 TTTT
1 TTTT
106263569 TTAGAGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.33
21 2 0.08
22 2 0.08
23 12 0.50
ACGTcount: A:0.11, C:0.02, G:0.32, T:0.55
Consensus pattern (23 bp):
TTTTGGAGGAGGATTGTTCTTTG
Found at i:106263589 original size:19 final size:20
Alignment explanation
Indices: 106263522--106263589 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 20
106263512 GTTTTTGGTT
*
106263522 TTTTGGAGGAGGATTGTTCTTTG
1 TTTTAGAGGAGG-TT-TT-TTTG
*
106263545 TTTTGGAGGAGGTTTTTTTG
1 TTTTAGAGGAGGTTTTTTTG
*
106263565 TTTTTTAGAGG-TGTTTTTTTG
1 --TTTTAGAGGAGGTTTTTTTG
106263586 TTTT
1 TTTT
106263590 TTTGGAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 4 0.10
20 4 0.10
21 11 0.27
22 10 0.24
23 12 0.29
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.59
Consensus pattern (20 bp):
TTTTAGAGGAGGTTTTTTTG
Found at i:106263940 original size:3 final size:3
Alignment explanation
Indices: 106263926--106264007 Score: 55
Period size: 3 Copynumber: 27.3 Consensus size: 3
106263916 GAGCTTTGTT
* * *
106263926 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* *
106263970 TTC TCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 TTA TTA T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
106264008 ATATGCCCTC
Statistics
Matches: 61, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
2 6 0.10
3 48 0.79
4 7 0.11
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:106273244 original size:28 final size:28
Alignment explanation
Indices: 106273213--106273269 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
106273203 ATTGGTTTTC
*
106273213 TCAAAATTCTATATTTTTATTTTTTAGT
1 TCAAAATTCTATATTTTCATTTTTTAGT
106273241 TCAAAATTCTATATTTTCATTTTTTAGT
1 TCAAAATTCTATATTTTCATTTTTTAGT
106273269 T
1 T
106273270 TTTGATATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (28 bp):
TCAAAATTCTATATTTTCATTTTTTAGT
Found at i:106276770 original size:43 final size:42
Alignment explanation
Indices: 106276721--106276887 Score: 183
Period size: 43 Copynumber: 3.9 Consensus size: 42
106276711 GGTTATCGAG
* *
106276721 ATGTGATGACATGTAAGACCATGTCTGGGACATTGGCATTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATGAT
* *
106276763 ACTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATGGT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATGAT
* * * * * *
106276806 ATTATGATTTCGTGTAAGACCCTGTCTGGAACAGTGGCATCGAT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT-GAT
* * *
106276850 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
106276888 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 7 0.07
43 94 0.90
44 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATGAT
Found at i:106277873 original size:20 final size:20
Alignment explanation
Indices: 106277833--106277874 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
106277823 TTTGCAATTA
* *
106277833 GCCTATTTTTGTCTACGCGG
1 GCCTATTTTTGTCCACACGG
106277853 GCCTATTTTTGTCCACACGG
1 GCCTATTTTTGTCCACACGG
106277873 GC
1 GC
106277875 GTGTGTCCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.29, G:0.24, T:0.36
Consensus pattern (20 bp):
GCCTATTTTTGTCCACACGG
Found at i:106280682 original size:18 final size:18
Alignment explanation
Indices: 106280628--106280685 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 18
106280618 CTTTACACCA
*
106280628 CATTGTGGATAAAACCATT
1 CATTGTGGAT-AAACCACT
**
106280647 CATTGTTATGGACGAACCACT
1 CATTG---TGGATAAACCACT
106280668 CATTGTGGATAAACCACT
1 CATTGTGGATAAACCACT
106280686 AGTAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
18 11 0.35
19 5 0.16
21 11 0.35
22 4 0.13
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (18 bp):
CATTGTGGATAAACCACT
Found at i:106281336 original size:28 final size:28
Alignment explanation
Indices: 106281305--106281373 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
106281295 AATTTTGGGT
* ** *
106281305 AAAACTATAAAATTTGGAAAATAGGGGC
1 AAAACTATAAAATCTAAAAAATAAGGGC
* * *
106281333 AAAATTGTAATATCTAAAAAATAAGGGC
1 AAAACTATAAAATCTAAAAAATAAGGGC
106281361 AAAACTATAAAAT
1 AAAACTATAAAAT
106281374 AAAAAAGGGA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.23
Consensus pattern (28 bp):
AAAACTATAAAATCTAAAAAATAAGGGC
Found at i:106281391 original size:22 final size:24
Alignment explanation
Indices: 106281350--106281393 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
106281340 TAATATCTAA
106281350 AAAATAAGGGCAAAACTATAAAAT
1 AAAATAAGGGCAAAACTATAAAAT
*
106281374 AAAA-AAGGG-AAAATTATAAA
1 AAAATAAGGGCAAAACTATAAA
106281394 TTTGAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 5 0.26
24 4 0.21
ACGTcount: A:0.66, C:0.05, G:0.14, T:0.16
Consensus pattern (24 bp):
AAAATAAGGGCAAAACTATAAAAT
Found at i:106292578 original size:15 final size:16
Alignment explanation
Indices: 106292552--106292593 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
106292542 TTTCCTAATC
106292552 ACTCTTAATTAAATTAA
1 ACTC-TAATTAAATTAA
*
106292569 ATTC-AATT-AATTAA
1 ACTCTAATTAAATTAA
106292583 ACTCTAATTAA
1 ACTCTAATTAA
106292594 CAACTCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
14 9 0.43
15 8 0.38
16 1 0.05
17 3 0.14
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (16 bp):
ACTCTAATTAAATTAA
Found at i:106297865 original size:58 final size:58
Alignment explanation
Indices: 106297789--106297900 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
106297779 CACATTTATC
* *
106297789 ACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACCTATCACTTGTCACTTGTT
1 ACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACCTATCACTTATCACTTGTT
* * * * *
106297847 ACTTATCACTGATTAGATAAGTGTAGCTGAGGCTACTACTTATCACTTATCACT
1 ACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACCTATCACTTATCACT
106297901 GATCAGAAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 47 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (58 bp):
ACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACCTATCACTTATCACTTGTT
Found at i:106301229 original size:2 final size:2
Alignment explanation
Indices: 106301222--106301252 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
106301212 ATTAAACCAT
106301222 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
106301253 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:106305704 original size:21 final size:21
Alignment explanation
Indices: 106305665--106305706 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
106305655 ATTTCATTTT
106305665 AGTATTTTTTTTTGATACATAG
1 AGTATTTTTTTTT-ATACATAG
106305687 AGTATTTTTTTATT-TACATA
1 AGTATTTTTTT-TTATACATA
106305707 TTTACATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 11 0.58
23 2 0.11
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.57
Consensus pattern (21 bp):
AGTATTTTTTTTTATACATAG
Found at i:106307434 original size:12 final size:12
Alignment explanation
Indices: 106307417--106307451 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
106307407 TTTAACTGTC
106307417 TCTTCTTTTTCT
1 TCTTCTTTTTCT
106307429 TCTTCTTTTTCT
1 TCTTCTTTTTCT
*
106307441 TTTTGCTTTTT
1 TCTT-CTTTTT
106307452 TTCCTCCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (12 bp):
TCTTCTTTTTCT
Found at i:106315063 original size:14 final size:14
Alignment explanation
Indices: 106315014--106315054 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
106315004 GAATTATCCC
106315014 CAAAAAAAA-AAAA
1 CAAAAAAAACAAAA
106315027 -AAAACAAAACAAAA
1 CAAAA-AAAACAAAA
106315041 CAAAAAAAACAAAA
1 CAAAAAAAACAAAA
106315055 GAAGGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.16
13 4 0.16
14 13 0.52
15 4 0.16
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (14 bp):
CAAAAAAAACAAAA
Found at i:106315064 original size:19 final size:18
Alignment explanation
Indices: 106315014--106315054 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
106315004 GAATTATCCC
106315014 CAAAA-AAAAAAAAAAAA
1 CAAAACAAAAAAAAAAAA
106315031 CAAAACAAAACAAAAAAAA
1 CAAAACAAAA-AAAAAAAA
106315050 CAAAA
1 CAAAA
106315055 GAAGGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 13 0.59
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (18 bp):
CAAAACAAAAAAAAAAAA
Found at i:106318037 original size:47 final size:47
Alignment explanation
Indices: 106317968--106318062 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
106317958 GAAATGGGAC
106317968 ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
1 ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
106318015 ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
1 ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
106318062 A
1 A
106318063 GGTGATTCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.27
Consensus pattern (47 bp):
ATAGTTCATTTGTATAATGGGAAAGAATTAGCAATGAAAAGCTCAGA
Found at i:106321591 original size:29 final size:25
Alignment explanation
Indices: 106321558--106321610 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
106321548 ATCGTATGAG
106321558 TTAAAATTTAAATAATATAAAGATTAAAA
1 TTAAAA-TTAAA-AATAT--AGATTAAAA
106321587 TTAAAATTAAAAATATAGATTAAA
1 TTAAAATTAAAAATATAGATTAAA
106321611 TTCACAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 8 0.33
27 5 0.21
28 5 0.21
29 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (25 bp):
TTAAAATTAAAAATATAGATTAAAA
Found at i:106321717 original size:19 final size:18
Alignment explanation
Indices: 106321690--106321726 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
106321680 AGTCAAGATT
106321690 AAAAATTAAAAATTAAAA
1 AAAAATTAAAAATTAAAA
*
106321708 AAAAATTTAAAGATTAAAA
1 AAAAA-TTAAAAATTAAAA
106321727 TAGATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAAATTAAAAATTAAAA
Found at i:106321932 original size:19 final size:19
Alignment explanation
Indices: 106321908--106321994 Score: 82
Period size: 15 Copynumber: 5.0 Consensus size: 19
106321898 AATTTATGTC
106321908 ATTTAAATATCATACGAAA
1 ATTTAAATATCATACGAAA
* *
106321927 ATTTAAAT-TTATAC---C
1 ATTTAAATATCATACGAAA
106321942 ATTTAAATATCATACGAAA
1 ATTTAAATATCATACGAAA
* *
106321961 ATTTAAAT-TTATAC---C
1 ATTTAAATATCATACGAAA
106321976 ATTTAAATATCATACGAAA
1 ATTTAAATATCATACGAAA
106321995 GCTCTAACTA
Statistics
Matches: 52, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
15 16 0.31
16 10 0.19
18 10 0.19
19 16 0.31
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.37
Consensus pattern (19 bp):
ATTTAAATATCATACGAAA
Found at i:106321933 original size:34 final size:34
Alignment explanation
Indices: 106321890--106321994 Score: 192
Period size: 34 Copynumber: 3.1 Consensus size: 34
106321880 GCAGAATGAT
**
106321890 AAAATTTAAATTTATGTCATTTAAATATCATACG
1 AAAATTTAAATTTATACCATTTAAATATCATACG
106321924 AAAATTTAAATTTATACCATTTAAATATCATACG
1 AAAATTTAAATTTATACCATTTAAATATCATACG
106321958 AAAATTTAAATTTATACCATTTAAATATCATACG
1 AAAATTTAAATTTATACCATTTAAATATCATACG
106321992 AAA
1 AAA
106321995 GCTCTAACTA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 69 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (34 bp):
AAAATTTAAATTTATACCATTTAAATATCATACG
Found at i:106324261 original size:2 final size:2
Alignment explanation
Indices: 106324254--106324279 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
106324244 ACACCATTTA
106324254 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
106324280 TTGGACACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:106329869 original size:30 final size:29
Alignment explanation
Indices: 106329829--106329887 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
106329819 CTTAATTATT
*
106329829 TTTTTATTATTTTATG-ATGGCTTAATTGA
1 TTTTTATTATTTTA-GAAGGGCTTAATTGA
106329858 TTTTTAGTTATTTTAGAAGGGCTTAATTGA
1 TTTTTA-TTATTTTAGAAGGGCTTAATTGA
106329888 GTTAGGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.54
Consensus pattern (29 bp):
TTTTTATTATTTTAGAAGGGCTTAATTGA
Found at i:106329970 original size:30 final size:30
Alignment explanation
Indices: 106329935--106329994 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
106329925 ATAAGTAGTA
106329935 ATCTTAAATTTTTATAACATTTAATACTTT
1 ATCTTAAATTTTTATAACATTTAATACTTT
* **
106329965 ATCTTAATTTTTTATATTATTTAATACTTT
1 ATCTTAAATTTTTATAACATTTAATACTTT
106329995 TTAATAACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (30 bp):
ATCTTAAATTTTTATAACATTTAATACTTT
Found at i:106330422 original size:22 final size:22
Alignment explanation
Indices: 106330363--106330423 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
106330353 TTTTTACATC
*
106330363 TTTTTAT-ACTTTTA--ATAAA
1 TTTTTATAACTTTTATTATTAA
*
106330382 TTTTTATAACTTTTTTTATTAA
1 TTTTTATAACTTTTATTATTAA
*
106330404 TTTTTATCA-TTTTAATTATT
1 TTTTTATAACTTTT-ATTATT
106330424 CTTATATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 7 0.21
20 6 0.18
21 4 0.12
22 17 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTTATAACTTTTATTATTAA
Found at i:106330962 original size:2 final size:2
Alignment explanation
Indices: 106330955--106330985 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
106330945 TTGAAAACTT
106330955 TA 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 TA T
106330986 CACTTTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:106334009 original size:14 final size:13
Alignment explanation
Indices: 106333989--106334025 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
106333979 AATATTTGAC
106333989 TTGTTCTTAATTA
1 TTGTTCTTAATTA
106334002 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
106334016 TTGTT-TTAAT
1 TTGTTCTTAAT
106334026 ATTCCAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:106348040 original size:12 final size:12
Alignment explanation
Indices: 106348025--106348074 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
106348015 GAGCTGAAGC
106348025 CGAAGCCGGACT
1 CGAAGCCGGACT
*
106348037 CGAAGCCAGACT
1 CGAAGCCGGACT
*
106348049 C-AGAGTCGGAGC-
1 CGA-AGCCGGA-CT
106348061 CGAAGCCGGACT
1 CGAAGCCGGACT
106348073 CG
1 CG
106348075 GAGTCAGAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.07
12 26 0.87
13 2 0.07
ACGTcount: A:0.26, C:0.32, G:0.34, T:0.08
Consensus pattern (12 bp):
CGAAGCCGGACT
Found at i:106348092 original size:24 final size:24
Alignment explanation
Indices: 106348037--106348095 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
106348027 AAGCCGGACT
* *
106348037 CGAAGCCAGACTCAGAGTCGGAGC
1 CGAAGCCGGACTCAGAGTCAGAGC
*
106348061 CGAAGCCGGACTCGGAGTCAGAGC
1 CGAAGCCGGACTCAGAGTCAGAGC
106348085 CGAAGCCGGAC
1 CGAAGCCGGAC
106348096 GTGGATCCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.27, C:0.31, G:0.36, T:0.07
Consensus pattern (24 bp):
CGAAGCCGGACTCAGAGTCAGAGC
Found at i:106359173 original size:43 final size:43
Alignment explanation
Indices: 106359126--106359230 Score: 151
Period size: 43 Copynumber: 2.4 Consensus size: 43
106359116 GAAGCCACCA
* * *
106359126 TCCCAGACAGGGTCTTACACGA-AATC-GATTAACGATGCCAATG
1 TCCCAGACATGGTCTTACAC-ATAATCTCAAT-ACGATGCCAATG
106359169 TCCCAGACATGGTCTTACACATAATCTCAATACGATGCCAATG
1 TCCCAGACATGGTCTTACACATAATCTCAATACGATGCCAATG
106359212 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
106359231 TGTAATCACA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
42 1 0.02
43 54 0.95
44 2 0.04
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACATAATCTCAATACGATGCCAATG
Found at i:106359237 original size:43 final size:42
Alignment explanation
Indices: 106359075--106359237 Score: 150
Period size: 43 Copynumber: 3.8 Consensus size: 42
106359065 AGCTCGTACA
* * *
106359075 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACAGAT-CG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATC-CA-ATACG
* ** * * * *
106359117 AAGCCACCATCCCAGACAGGGTCTTACACGAAATCGATTAACG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCCAAT-ACG
* *
106359160 ATGCCAATGTCCCAGACATGGTCTTACACATAATCTCAATACG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATC-CAATACG
* *
106359203 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATC
106359238 ACATCTCAAC
Statistics
Matches: 96, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 5 0.05
43 88 0.92
44 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAATCCAATACG
Found at i:106366133 original size:23 final size:24
Alignment explanation
Indices: 106366083--106366137 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
106366073 GCACCTTTCT
*
106366083 ATCA-ACCAATTCATACTTCTCAA
1 ATCATACCAATTCATACATCTCAA
106366106 A-CATACCAATTCAT-CATCT-ATA
1 ATCATACCAATTCATACATCTCA-A
106366128 ATCATACCAA
1 ATCATACCAA
106366138 AATATAGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 8 0.29
23 19 0.68
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (24 bp):
ATCATACCAATTCATACATCTCAA
Found at i:106369341 original size:2 final size:2
Alignment explanation
Indices: 106369334--106369366 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
106369324 GGCTAGCTTT
*
106369334 TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
106369367 TTATTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:106372073 original size:21 final size:20
Alignment explanation
Indices: 106372049--106372088 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
106372039 CATGTATTTT
106372049 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
106372070 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
106372089 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:106372096 original size:20 final size:21
Alignment explanation
Indices: 106372054--106372096 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
106372044 ATTTTAATGA
*
106372054 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
106372075 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
106372095 TT
1 TT
106372097 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:106384284 original size:6 final size:6
Alignment explanation
Indices: 106384275--106384313 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
106384265 AATAAAATTG
106384275 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
106384314 GATAAAAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:106389700 original size:13 final size:13
Alignment explanation
Indices: 106389682--106389710 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
106389672 GGTCATTTGT
106389682 TAAACTAATTAAC
1 TAAACTAATTAAC
106389695 TAAACTAATTAAC
1 TAAACTAATTAAC
106389708 TAA
1 TAA
106389711 TTAAACTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:106395227 original size:2 final size:2
Alignment explanation
Indices: 106395220--106395255 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
106395210 GTGTATCAAT
106395220 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
106395256 CCTATATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:106395363 original size:13 final size:13
Alignment explanation
Indices: 106395345--106395370 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106395335 ATGAAGTGTT
106395345 GAAGATCAAGCTG
1 GAAGATCAAGCTG
106395358 GAAGATCAAGCTG
1 GAAGATCAAGCTG
106395371 CTATATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.15
Consensus pattern (13 bp):
GAAGATCAAGCTG
Found at i:106396550 original size:16 final size:17
Alignment explanation
Indices: 106396519--106396552 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
106396509 GTATTCTCTC
106396519 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
106396536 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
106396552 T
1 T
106396553 TTCTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:106401553 original size:28 final size:29
Alignment explanation
Indices: 106401486--106401586 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
106401476 ATAGTGAATC
*
106401486 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
106401515 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
106401543 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
106401573 CGCACACTTAGTGC
1 CGCACACTTAGTGC
106401587 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:106405206 original size:18 final size:18
Alignment explanation
Indices: 106405183--106405235 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
106405173 GATAAATCCT
106405183 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
106405201 AATCAAGGATTGACTCCC
1 AATCAAGGATTTACTCCC
*
106405219 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
106405236 TATATTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:106409298 original size:38 final size:38
Alignment explanation
Indices: 106409247--106409516 Score: 434
Period size: 38 Copynumber: 7.1 Consensus size: 38
106409237 AAAGGCCCAA
* *
106409247 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
106409285 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
106409323 ATATATTACCAACACGAAACCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
106409361 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
106409399 ATACAATACCAGCACGAAACCTGCTGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
106409437 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCC-G
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
106409474 ATATATTACTAGTACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
106409512 ATATA
1 ATATA
106409517 CATCGAATAT
Statistics
Matches: 214, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
37 34 0.16
38 180 0.84
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:106414100 original size:39 final size:39
Alignment explanation
Indices: 106414046--106414142 Score: 132
Period size: 34 Copynumber: 2.6 Consensus size: 39
106414036 CTCTTCATAG
*
106414046 AAGTACACAATCACCCAAAATACATTTCTTTTTGTAATC
1 AAGTACACAATCACCCAAAATACATTTCTTTCTGTAATC
*
106414085 AAGTACGCAATCACCC---A-A-ATTTCTTTCTGTAATC
1 AAGTACACAATCACCCAAAATACATTTCTTTCTGTAATC
*
106414119 AAGTACACAATCACCCAAATTACA
1 AAGTACACAATCACCCAAAATACA
106414143 ATTTAATCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
34 30 0.61
35 1 0.02
36 1 0.02
38 1 0.02
39 16 0.33
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (39 bp):
AAGTACACAATCACCCAAAATACATTTCTTTCTGTAATC
Found at i:106417434 original size:76 final size:77
Alignment explanation
Indices: 106417301--106417449 Score: 221
Period size: 76 Copynumber: 1.9 Consensus size: 77
106417291 TTGCTAGTCT
* * *
106417301 GTTGAAGACACCTGTTGAAAACAGTAAGAAAAAATGTGAGCCTATCAAAGGTGCAAGCTCAGCCT
1 GTTGAAGACACCTGTTGAAAACAGTAAGAAAAAATGCGAACCTATCAAAGCTGCAAGCTCAGCCT
106417366 AGTGCGAGTAGA
66 AGTGCGAGTAGA
* * *
106417378 GTTGAAGACACCTGTT-AAAGA-AGTAAGAAAAAATGCGAACCTGTTAAATCTGCAAGCTCAGCC
1 GTTGAAGACACCTGTTGAAA-ACAGTAAGAAAAAATGCGAACCTATCAAAGCTGCAAGCTCAGCC
106417441 TAGTGCGAG
65 TAGTGCGAG
106417450 CAGAAAAGTG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
76 48 0.74
77 17 0.26
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (77 bp):
GTTGAAGACACCTGTTGAAAACAGTAAGAAAAAATGCGAACCTATCAAAGCTGCAAGCTCAGCCT
AGTGCGAGTAGA
Found at i:106427775 original size:30 final size:30
Alignment explanation
Indices: 106427720--106427850 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
106427710 ATAGTGAATC
*
106427720 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
106427749 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
106427779 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
106427807 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
106427837 CGCACACTTAGTGC
1 CGCACACTTAGTGC
106427851 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:106427830 original size:58 final size:58
Alignment explanation
Indices: 106427719--106427850 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
106427709 TATAGTGAAT
* * * * *
106427719 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
106427778 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
106427836 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
106427851 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:106435731 original size:30 final size:30
Alignment explanation
Indices: 106435676--106435806 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
106435666 ATAGTGAATC
*
106435676 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
106435705 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
106435735 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
106435763 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
106435793 CGCACACTTAGTGC
1 CGCACACTTAGTGC
106435807 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:106435786 original size:58 final size:58
Alignment explanation
Indices: 106435675--106435806 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
106435665 TATAGTGAAT
* * * * *
106435675 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
106435734 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
106435792 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
106435807 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:106446396 original size:2 final size:2
Alignment explanation
Indices: 106446389--106446420 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
106446379 TCAAATTAGA
106446389 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
106446421 TTGAATGAAA
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):
AT
Found at i:106449520 original size:26 final size:27
Alignment explanation
Indices: 106449461--106449512 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
106449451 TATTTAACAT
* *
106449461 ATTATTTATTTGAAATTTGCTTTATAA
1 ATTATTTATTTCAAATTTGATTTATAA
*
106449488 ACTATTTATTTCAAA-TTGATTTATA
1 ATTATTTATTTCAAATTTGATTTATA
106449513 CTTTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (27 bp):
ATTATTTATTTCAAATTTGATTTATAA
Found at i:106449535 original size:23 final size:22
Alignment explanation
Indices: 106449492--106449535 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
106449482 TTATAAACTA
* *
106449492 TTTATTTCAAATTGATTTATAC
1 TTTATTTAAAATTGATATATAC
*
106449514 TTTATTTTAAAATTTATATATA
1 TTTA-TTTAAAATTGATATATA
106449536 TTGCTTATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTATTTAAAATTGATATATAC
Found at i:106449619 original size:26 final size:26
Alignment explanation
Indices: 106449514--106449608 Score: 106
Period size: 25 Copynumber: 3.8 Consensus size: 26
106449504 TGATTTATAC
* * *
106449514 TTTATTTTAAA-ATTTATATATATTG
1 TTTATTTTAAACCTTTTTATATATTA
* * * *
106449539 CTTATTCTAAACCGTTTCATATATTA
1 TTTATTTTAAACCTTTTTATATATTA
106449565 -TTATTTTAAACCTTTTTATATATTA
1 TTTATTTTAAACCTTTTTATATATTA
106449590 TTTATTTTAAA-CTTTTTAT
1 TTTATTTTAAACCTTTTTAT
106449609 TTTACACTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
25 39 0.67
26 19 0.33
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTATTTTAAACCTTTTTATATATTA
Found at i:106454036 original size:24 final size:24
Alignment explanation
Indices: 106454004--106454066 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
106453994 AATCTCAAAT
106454004 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
106454028 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
106454052 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
106454067 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:106457294 original size:43 final size:43
Alignment explanation
Indices: 106457225--106457306 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
106457215 TCTTTCAATT
* * * * *
106457225 TCATACCGTACAAACAATTATTCTTAGATTCTTTTATTCATGA
1 TCATACCATACAAACAATCATCCTTAGAATCATTTATTCATGA
*
106457268 TCATACCATACAAATAATCATCCTTAGAATCATTTATTC
1 TCATACCATACAAACAATCATCCTTAGAATCATTTATTC
106457307 TTTGGCATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (43 bp):
TCATACCATACAAACAATCATCCTTAGAATCATTTATTCATGA
Found at i:106460308 original size:132 final size:131
Alignment explanation
Indices: 106459939--106460621 Score: 1062
Period size: 132 Copynumber: 5.2 Consensus size: 131
106459929 AATTCTGCAA
* *
106459939 ATCTTGCCTCTCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAGATCTTGTCTCCCTGAAGTTG
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCA-ATCTTGTCTTCCTGAAGTTG
*
106460004 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGT
65 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTGT
*
106460069 AA
130 AG
* *
106460071 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCA-ATCGAGGATGGCGAATCTTGTCTTCCTGAAGTTG
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGC-AATCTTGTCTTCCTGAAGTTG
* * *
106460135 CAGTGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTAT
65 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTGT
106460200 AG
130 AG
* * * * *
106460202 ATCCTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGATGGCGAATCTTGTCTTCCTGAAGTTA
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGC-AATCTTGTCTTCCTGAAGTTG
106460267 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTGT
65 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTGT
106460332 AG
130 AG
*
106460334 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGCAGATCTTGTCTTCCTGAAGTTG
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCA-ATCTTGTCTTCCTGAAGTTG
* * *
106460399 TAGTGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGT
65 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTGT
106460464 AG
130 AG
* * * *
106460466 ATCTTGCCTCACTGAAGTTGTAGTGGAACAGATCGAAGACGGCAAATCTTGTCTTTCTGAAGTTG
1 ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGC-AATCTTGTCTTCCTGAAGTTG
** * *
106460531 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCTGAAGATTAT
65 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTGT
106460596 AG
130 AG
* *
106460598 ATCTTGTCTCTCTGAAGTTGCAGT
1 ATCTTGCCTCCCTGAAGTTGCAGT
106460622 AGAGTACACT
Statistics
Matches: 506, Mismatches: 41, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
131 119 0.24
132 386 0.76
133 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (131 bp):
ATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAATCTTGTCTTCCTGAAGTTGC
AGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTGTA
G
Found at i:106460801 original size:89 final size:89
Alignment explanation
Indices: 106460609--106460940 Score: 311
Period size: 89 Copynumber: 3.8 Consensus size: 89
106460599 TCTTGTCTCT
* * * * * ** *
106460609 CTGAAGTTGCAGTAGAGTACACTGAAGATAGCAAATCTTATCTCTCCGAAATCACAGTAGAGCAG
1 CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGGGCAG
106460674 AGTTAAAGCTATAAACCTTATCCCC
66 A-TTAAAGCTATAAACCTTATCCCC
* * *
106460699 CTGAAGGTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGGGCAG
1 CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGGGCAG
106460764 ATTAAAGCTATAAACCTTATCCCC
66 ATTAAAGCTATAAACCTTATCCCC
* * * *
106460788 CTGAAGTTGCAGTGGGGCA-AGTTGAAGTTA-CAAGTCTTATCT-TCCTGAAGTTGCAGT-GGAG
1 CTGAAGTTGCAGTGGAGCAGA-CTGAAGATAGCAAATCTTATCTCT-CTGAAGTTGCAGTAGG-G
* * * * * * *
106460849 TAGACTGAAGATAGCAAACCTTATCTCT
63 CAGATTAAAGCTA-TAAACCTTATCCCC
** * * *
106460877 CTGAAGTTGCAGTGGAGCAGGTTGAA-ATTA-CAAGTATTA--TCTCTGAAGTTGCAGTAGAGCA
1 CTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCAAATCTTATCTCTCTGAAGTTGCAGTAGGGCA
106460938 GAT
65 GAT
106460941 CATAGCAAAC
Statistics
Matches: 202, Mismatches: 32, Indels: 19
0.80 0.13 0.08
Matches are distributed among these distances:
87 21 0.10
88 36 0.18
89 90 0.45
90 55 0.27
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (89 bp):
CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGGGCAG
ATTAAAGCTATAAACCTTATCCCC
Found at i:106460827 original size:44 final size:44
Alignment explanation
Indices: 106459936--106461125 Score: 351
Period size: 45 Copynumber: 26.9 Consensus size: 44
106459926 ACCAATTCTG
** * * **
106459936 CAAATCTTGCCTCTCTGAAGTTGCAGTGGAGCAGATCGAAGACGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * * * **
106459981 CAGATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATTTAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * ** * * * * *
106460025 C-CATCCTATCTCCCT-AAGCAGTAGTGGAGTAGGTTAAAGATTG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* ** * * *
106460068 TAAATCTTGCCTCCCTGAAGTTGCAGTGGAGCA-ATCGAGGATGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-A
* * * * * * **
106460112 CGAATCTTGTCTTCCTGAAGTTGCAGTGAAGTAGATTTAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * ** * * **
106460156 C-CATCCTATCTCCCT-AAGCAGTAGTGGAGTAGGCTGAAGATTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * * * * * *
106460199 TAGATCCTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGATGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-A
* * * * * * **
106460244 CGAATCTTGTCTTCCTGAAGTTACAGTGAAGCAGATTTAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * ** * * ** * *
106460288 C-CATCCTATCTCCCT-AAGCAGTAGTGGAGTAGGCTAAAGATTG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * ** ** **
106460331 TAGATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * * * * * * **
106460376 CAGATCTTGTCTTCCTGAAGTTGTAGTGAAGTAGATTTAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * ** * * * * *
106460420 C-CATCCTATCTCCCT-AAGCAGTAGTGGAGTAGGTTAAAGATTG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * ** * * * * **
106460463 TAGATCTTGCCTCACTGAAGTTGTAGTGGAACAGATCGAAGACGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* ** * * **
106460508 CAAATCTTGTCTTTCTGAAGTTGCAGTGAAGCAGATTTAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * **
106460552 C-CATCCTATCTCCCT-AAGTTGTAGTGGAGTAGGCTGAAGATTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * * * * * * *
106460595 TAGATCTTGTCTCTCTGAAGTTGCAGTAGAGTACACTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* ** * * *
106460639 GCAAATCTTATCTCTCC-GAAATCACAGTAGAGCAGAGTTAAAGCTA
1 -CAAATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTGAAGATA
* * * * * *
106460685 TAAACCTTATCCCCCTGAAGGTGCAGTGGAGCAGACTAAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
106460729 GCAAATCTTATCTCTCTGAAGTTGTAGTAGG-GCAGATTAAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGATA
* * * * *
106460774 TAAACCTTATCCCCCTGAAGTTGCAGTGGGGCA-AGTTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATA
* * * *
106460818 CAAGTCTTATCTTCCTGAAGTTGCAGTGGAGTAGACTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * *
106460862 GCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAA-ATTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * * *
106460907 CAAGTATTATCT--CTGAAGTTGCAGTAGAGCAGA-T---CATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
106460945 GCAAACCTTATTTCTCTAAAGTTGCAATGGAACAGATTGAAGCTATAAA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A
* * * * * *
106460994 TCACAGATCTTATTTCTCTGAAGTTGTAGTGGAGTAGGTCGAA-ATTA
1 -CA-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * * * *
106461041 CAAACCTCATCTTCCTGAAGTTGCAGTGGAGCAGGTT-AAAATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* *
106461084 GCAAGA-CTTATCT-CCTCGAAGTTGCAGTAGAGCATATTGAAG
1 -CAA-ATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTGAAG
106461126 CTACTTGAAG
Statistics
Matches: 821, Mismatches: 275, Indels: 98
0.69 0.23 0.08
Matches are distributed among these distances:
38 2 0.00
39 9 0.01
41 18 0.02
42 106 0.13
43 63 0.08
44 229 0.28
45 345 0.42
46 11 0.01
47 3 0.00
48 1 0.00
49 4 0.00
50 1 0.00
51 29 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
Found at i:106460985 original size:83 final size:88
Alignment explanation
Indices: 106460809--106460985 Score: 220
Period size: 83 Copynumber: 2.1 Consensus size: 88
106460799 GTGGGGCAAG
* * * *
106460809 TTGAAGTTACAAGTCTTATCTTCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCTTATC
1 TTGAAATTACAAGTATTATCTTCCTGAAGTTGCAGT-GAGTAGACAGAACATAGCAAACCTTATC
* * * *
106460874 TCTCTGAAGTTGCAGTGGAGCAGG
65 TCTCTAAAGTTGCAATGGAACAGA
* *
106460898 TTGAAATTACAAGTATTATC-T-CTGAAGTTGCAGT-AG-AG-CAGATCATAGCAAACCTTATTT
1 TTGAAATTACAAGTATTATCTTCCTGAAGTTGCAGTGAGTAGACAGAACATAGCAAACCTTATCT
106460958 CTCTAAAGTTGCAATGGAACAGA
66 CTCTAAAGTTGCAATGGAACAGA
106460981 TTGAA
1 TTGAA
106460986 GCTATAAATC
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
83 42 0.54
84 2 0.03
85 2 0.03
87 13 0.17
88 1 0.01
89 18 0.23
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (88 bp):
TTGAAATTACAAGTATTATCTTCCTGAAGTTGCAGTGAGTAGACAGAACATAGCAAACCTTATCT
CTCTAAAGTTGCAATGGAACAGA
Found at i:106463095 original size:26 final size:27
Alignment explanation
Indices: 106463036--106463087 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
106463026 TATTTAACAT
* *
106463036 ATTATTTATTTGAAATTTGCTTTATAA
1 ATTATTTATTTCAAATTTGATTTATAA
*
106463063 ACTATTTATTTCAAA-TTGATTTATA
1 ATTATTTATTTCAAATTTGATTTATA
106463088 CTTTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (27 bp):
ATTATTTATTTCAAATTTGATTTATAA
Found at i:106463110 original size:23 final size:22
Alignment explanation
Indices: 106463067--106463110 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
106463057 TTATAAACTA
* *
106463067 TTTATTTCAAATTGATTTATAC
1 TTTATTTAAAATTGATATATAC
*
106463089 TTTATTTTAAAATTTATATATA
1 TTTA-TTTAAAATTGATATATA
106463111 TTGCTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTATTTAAAATTGATATATAC
Found at i:106463182 original size:25 final size:25
Alignment explanation
Indices: 106463089--106463185 Score: 79
Period size: 25 Copynumber: 3.8 Consensus size: 25
106463079 TGATTTATAC
* * *
106463089 TTTATTTTAAAATTTATATATATTG
1 TTTATTTTAAACTTTTTATATATTA
* * * **
106463114 CTTATTTTGAACCGTTTCGTATATTA
1 TTTATTTT-AAACTTTTTATATATTA
106463140 -TTATTTTAAACCTTTTTTTATATATTA
1 TTTATTTTAAA-C--TTTTTATATATTA
106463167 TTTATTTTAAACTTTTTAT
1 TTTATTTTAAACTTTTTAT
106463186 TTTATGCTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
24 2 0.04
25 22 0.40
26 10 0.18
27 11 0.20
28 10 0.18
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTATTTTAAACTTTTTATATATTA
Found at i:106463195 original size:14 final size:14
Alignment explanation
Indices: 106463140--106463189 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
106463130 TCGTATATTA
106463140 TTATTTTAAACCTTT
1 TTATTTTAAA-CTTT
* *
106463155 TT-TTATATA-TTAT
1 TTATTTTAAACTT-T
106463168 TTATTTTAAACTTT
1 TTATTTTAAACTTT
106463182 TTATTTTA
1 TTATTTTA
106463190 TGCTTTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 2 0.07
13 3 0.11
14 19 0.68
15 4 0.14
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTTAAACTTT
Found at i:106464136 original size:26 final size:26
Alignment explanation
Indices: 106464107--106464216 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
106464097 TGATACAAAT
106464107 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
106464133 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
106464159 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
106464185 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106464211 TGATAA
1 TGATAA
106464217 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:106467415 original size:12 final size:12
Alignment explanation
Indices: 106467398--106467428 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
106467388 ACTCGGGGAA
106467398 GAGGCCGTGGTC
1 GAGGCCGTGGTC
106467410 GAGGCCGTGGTC
1 GAGGCCGTGGTC
106467422 GAGGCCG
1 GAGGCCG
106467429 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:106472322 original size:26 final size:26
Alignment explanation
Indices: 106472293--106472402 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
106472283 TGATACAAAT
106472293 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
106472319 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
106472345 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
106472371 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106472397 TGATAA
1 TGATAA
106472403 GAATTCATGT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:106475353 original size:129 final size:130
Alignment explanation
Indices: 106475052--106475362 Score: 357
Period size: 129 Copynumber: 2.4 Consensus size: 130
106475042 GGTGCTACAT
* * * ** ** * *
106475052 AAATAATCAAATTTTCCTTTAAAATTTCGTTCGCGTTTTCTAAA--CCTTAAAACAAAAGCGATG
1 AAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTCTAAATTCCTTAAAACAAAAGCAACG
* * *
106475115 TTTGATGTTTAGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCAATTTCTCGTTTGTTCA
66 TTCGAAGTTTAGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCA
* * * ** * *
106475180 AAATGATCGCATATTCCTTTGGAATTTCACTCATG-TTTAAAAATTCCTTAAAACGAAGGCAACG
1 AAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTCTAAATTCCTTAAAACAAAAGCAACG
* * *
106475244 TTCGAAGTTTTGAGATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTC-CTGTTTGTTC
66 TTCGAAGTTTAGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTC-GTTTGTTC
106475308 -
130 A
*
106475308 AAATAATTGAATATTCCTTTAGAATTTCACTCATGTTTTCTAAATT-C-TAAAACAA
1 AAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTCTAAATTCCTTAAAACAA
106475363 GACAATGTTC
Statistics
Matches: 150, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
127 13 0.09
128 58 0.39
129 79 0.53
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (130 bp):
AAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTCTAAATTCCTTAAAACAAAAGCAACG
TTCGAAGTTTAGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCA
Found at i:106475987 original size:19 final size:19
Alignment explanation
Indices: 106475963--106476107 Score: 221
Period size: 19 Copynumber: 7.9 Consensus size: 19
106475953 ATAATCTTCA
*
106475963 ATGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
106475982 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
106476001 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
106476018 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
106476036 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
106476055 ATGATAT--AATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
106476072 ATAAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
106476090 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
106476108 AGATATGATT
Statistics
Matches: 116, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
16 1 0.01
17 30 0.26
18 30 0.26
19 55 0.47
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:106476001 original size:14 final size:15
Alignment explanation
Indices: 106475984--106476039 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
106475974 TCTTAAATAT
106475984 GATATG-CAATCTTA
1 GATATGACAATCTTA
106475998 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
106476015 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
106476033 GATATGA
1 GATATGA
106476040 TATGTAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:106476028 original size:54 final size:54
Alignment explanation
Indices: 106475963--106476107 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
106475953 ATAATCTTCA
*
106475963 ATGATATGCAATCTTAAATATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
* *
106476018 ATGATTGCAATCTTAGATATGATATGTAATCTTAGATATGATATAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
*
106476072 ATAATTGCAATCTTAGATATGATATGCAATCTTAGA
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGA
106476108 AGATATGATT
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
54 80 0.94
55 5 0.06
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (54 bp):
ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
Done.