Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 104 of 147
Found at i:19067353 original size:8 final size:8
Alignment explanation
Indices: 19067327--19067360 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
19067317 ATCTTTGGAG
19067327 ATTTTTAT
1 ATTTTTAT
*
19067335 TTTTATTAT
1 ATTT-TTAT
19067344 ATTTTTAT
1 ATTTTTAT
19067352 ATTTTTAT
1 ATTTTTAT
19067360 A
1 A
19067361 CCTATACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTTAT
Found at i:19069065 original size:40 final size:41
Alignment explanation
Indices: 19068989--19069070 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 41
19068979 ATCTACGGAG
19068989 AAGAGAAAGCATACTATTCTTTTTTTTTTTTTTTTGTAATTT
1 AAGAGAAAGCATACTATTC-TTTTTTTTTTTTTTTGTAATTT
* *
19069031 AAGAGAACGCCTACTATTC-TTTTTTTTTTTTTTGTAATTT
1 AAGAGAAAGCATACTATTCTTTTTTTTTTTTTTTGTAATTT
19069071 TTTAATTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 21 0.55
42 17 0.45
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (41 bp):
AAGAGAAAGCATACTATTCTTTTTTTTTTTTTTTGTAATTT
Found at i:19073724 original size:51 final size:49
Alignment explanation
Indices: 19073643--19073761 Score: 157
Period size: 51 Copynumber: 2.4 Consensus size: 49
19073633 GGGTGGGGTG
* * *
19073643 GGGTGCATTGGAAGGTAAGGTGGAGGGTGGGGTGAGATTGAGTGAGGTA
1 GGGTGCATTGGAAGGTAGGGTGGAGGGTGGGGTAAGATTGAGTGAAGTA
* * *
19073692 GGGTGCATTGGAGGGTAGGGTGAGATGGGTGGGGTAAGATTGGGTGAAGTT
1 GGGTGCATTGGAAGGTAGGGTG-GA-GGGTGGGGTAAGATTGAGTGAAGTA
*
19073743 GGGTGCATTAGAAGGTAGG
1 GGGTGCATTGGAAGGTAGG
19073762 ATGAAGTGTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 20 0.33
50 2 0.03
51 38 0.63
ACGTcount: A:0.22, C:0.03, G:0.52, T:0.24
Consensus pattern (49 bp):
GGGTGCATTGGAAGGTAGGGTGGAGGGTGGGGTAAGATTGAGTGAAGTA
Found at i:19087357 original size:45 final size:43
Alignment explanation
Indices: 19087296--19087379 Score: 114
Period size: 45 Copynumber: 1.9 Consensus size: 43
19087286 ATCTTTTAAA
* *
19087296 GATTGCAAACAATTTCAAAGTGTCTTTTAGCAGGGTTAATTTTCT
1 GATTACAAACAATTTCAAAGTGTCTTATA--AGGGTTAATTTTCT
* *
19087341 GATTACAAATAATTTCAAATTGTCTTATAAGGGTTAATT
1 GATTACAAACAATTTCAAAGTGTCTTATAAGGGTTAATT
19087380 GTCATTTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 10 0.29
45 25 0.71
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (43 bp):
GATTACAAACAATTTCAAAGTGTCTTATAAGGGTTAATTTTCT
Found at i:19087797 original size:44 final size:44
Alignment explanation
Indices: 19087749--19087851 Score: 106
Period size: 45 Copynumber: 2.4 Consensus size: 44
19087739 ATTAACAATT
*
19087749 TATATTATATTTTTATGAAAA-TTATAAATTATATTTATATAAAA
1 TATATTATATTTTTATGAAAATTTATAAATAATATTTA-ATAAAA
* * * *
19087793 TATATTCTTATTTTT-TTAAAATTTATATATAATTTTTAATAAAA
1 TATATT-ATATTTTTATGAAAATTTATAAATAATATTTAATAAAA
19087837 -A-ATTATATGTTTTAT
1 TATATTATAT-TTTTAT
19087852 ATTATTTTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
41 3 0.06
42 7 0.14
43 2 0.04
44 17 0.35
45 20 0.41
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (44 bp):
TATATTATATTTTTATGAAAATTTATAAATAATATTTAATAAAA
Found at i:19089700 original size:2 final size:2
Alignment explanation
Indices: 19089683--19089720 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
19089673 TTCTTAATGC
* *
19089683 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19089721 TTCCATTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:19096630 original size:10 final size:10
Alignment explanation
Indices: 19096610--19096657 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
19096600 AACTTAAGAC
19096610 TTAATGTACAA
1 TTAA-GTACAA
19096621 TTAAGTACAA
1 TTAAGTACAA
19096631 TTAAG-AC--
1 TTAAGTACAA
19096638 TTAATGTACAA
1 TTAA-GTACAA
19096649 TTAAGTACA
1 TTAAGTACA
19096658 TTCAAATGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
7 4 0.12
8 1 0.03
9 4 0.12
10 16 0.48
11 8 0.24
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (10 bp):
TTAAGTACAA
Found at i:19096635 original size:28 final size:28
Alignment explanation
Indices: 19096603--19096657 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
19096593 TCATTATAAC
19096603 TTAAGACTTAATGTACAATTAAGTACAA
1 TTAAGACTTAATGTACAATTAAGTACAA
19096631 TTAAGACTTAATGTACAATTAAGTACA
1 TTAAGACTTAATGTACAATTAAGTACA
19096658 TTCAAATGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (28 bp):
TTAAGACTTAATGTACAATTAAGTACAA
Found at i:19104353 original size:3 final size:3
Alignment explanation
Indices: 19104345--19104382 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19104335 AGGCAAAAGG
19104345 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19104383 GAGGTTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19107219 original size:30 final size:30
Alignment explanation
Indices: 19107150--19107254 Score: 101
Period size: 30 Copynumber: 3.6 Consensus size: 30
19107140 TAATAAATCT
* **
19107150 ATTTTTCAAAATGATATAGAAAGTTTTACATA
1 ATTTTTTAAAATGATAT-G-AAGTTTTATTTA
* *
19107182 ATATTTTAAAATGATATGGAGTTTTATTTA
1 ATTTTTTAAAATGATATGAAGTTTTATTTA
* *
19107212 ATTTTTT-AAATGA-AT-AAATTTT-TTAA
1 ATTTTTTAAAATGATATGAAGTTTTATTTA
19107238 ATTTTTTAAAATGATAT
1 ATTTTTTAAAATGATAT
19107255 TTAATCTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
26 10 0.16
27 11 0.18
28 4 0.06
29 6 0.10
30 15 0.24
31 1 0.02
32 15 0.24
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.49
Consensus pattern (30 bp):
ATTTTTTAAAATGATATGAAGTTTTATTTA
Found at i:19114630 original size:9 final size:10
Alignment explanation
Indices: 19114608--19114636 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
19114598 AAGCGACCCA
19114608 AAATGAATAG
1 AAATGAATAG
19114618 AAATGAA-AG
1 AAATGAATAG
19114627 AAATGAATAG
1 AAATGAATAG
19114637 GGGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (10 bp):
AAATGAATAG
Found at i:19116141 original size:22 final size:22
Alignment explanation
Indices: 19116116--19116169 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
19116106 GATGAAAGCT
*
19116116 ATTTTAAATTTAAATCATTTTG
1 ATTTTAAATTGAAATCATTTTG
* * **
19116138 ATTTTGAGTTGAAATTGTTTTG
1 ATTTTAAATTGAAATCATTTTG
*
19116160 AATTTAAATT
1 ATTTTAAATT
19116170 ATTTTTAATT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (22 bp):
ATTTTAAATTGAAATCATTTTG
Found at i:19116160 original size:16 final size:16
Alignment explanation
Indices: 19116138--19116188 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
19116128 AATCATTTTG
*
19116138 ATTTTGAGTTGAAATT
1 ATTTTGAATTGAAATT
* *
19116154 GTTTTGAATTTAAATT
1 ATTTTGAATTGAAATT
*
19116170 ATTTTTAATT-AAATT
1 ATTTTGAATTGAAATT
19116185 -TTTT
1 ATTTT
19116189 TAAAATTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 4 0.13
15 5 0.17
16 21 0.70
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (16 bp):
ATTTTGAATTGAAATT
Found at i:19117633 original size:10 final size:11
Alignment explanation
Indices: 19117616--19117641 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19117606 CATTTCCTTT
19117616 GAAAAAAAAAA
1 GAAAAAAAAAA
19117627 GAAAAAAAAAA
1 GAAAAAAAAAA
19117638 GAAA
1 GAAA
19117642 GGTTTTGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:19118986 original size:33 final size:33
Alignment explanation
Indices: 19118939--19119002 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
19118929 ATAGAAGCTG
*
19118939 TCTAAAGCTATCATGAGGCCACACCACCATCAC
1 TCTAAAGCTATCATGAGGCCACACCAACATCAC
*
19118972 TCTAAAGCTGTCATGAGGCCACACCAACATC
1 TCTAAAGCTATCATGAGGCCACACCAACATC
19119003 CGCTGAGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.34, G:0.14, T:0.19
Consensus pattern (33 bp):
TCTAAAGCTATCATGAGGCCACACCAACATCAC
Found at i:19123920 original size:19 final size:19
Alignment explanation
Indices: 19123869--19123929 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
19123859 GATTCGTAAA
* *
19123869 TTTAATCAAAATTTTTTA-
1 TTTAATTAAAATTTATTAT
* *
19123887 TTTAAATATATATTTATTAT
1 TTTAATTA-AAATTTATTAT
*
19123907 TTTAATTAAAATTTATAAT
1 TTTAATTAAAATTTATTAT
19123926 TTTA
1 TTTA
19123930 CTTTTAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 6 0.18
19 21 0.62
20 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATTAAAATTTATTAT
Found at i:19125951 original size:33 final size:33
Alignment explanation
Indices: 19125878--19125993 Score: 139
Period size: 33 Copynumber: 3.6 Consensus size: 33
19125868 TGTAATTATC
* * *
19125878 AAAAACTCGTTTT-GAGAATAATTTT-A-TCTC
1 AAAAACTCATTTTCGAGAATTATTTTAATTCTT
*
19125908 AAAAATTCATTTTCGAGAATTATTTTAATTCTT
1 AAAAACTCATTTTCGAGAATTATTTTAATTCTT
*
19125941 AAAAACTCATTTTCGAGAATTATTTTAATTTTT
1 AAAAACTCATTTTCGAGAATTATTTTAATTCTT
* * *
19125974 AAAAATTAATTTTTGAGAAT
1 AAAAACTCATTTTCGAGAAT
19125994 GTAATATAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
30 11 0.15
31 11 0.15
32 1 0.01
33 51 0.69
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.45
Consensus pattern (33 bp):
AAAAACTCATTTTCGAGAATTATTTTAATTCTT
Found at i:19129015 original size:17 final size:18
Alignment explanation
Indices: 19128976--19129022 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
19128966 TCCTAAACAT
*
19128976 TTTATATTAATGTTTATGG
1 TTTATATT-ATGTTTATGC
*
19128995 TTTATATT-TGTTTGTGC
1 TTTATATTATGTTTATGC
19129012 TTTATATTATG
1 TTTATATTATG
19129023 AACATGTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 15 0.60
18 2 0.08
19 8 0.32
ACGTcount: A:0.21, C:0.02, G:0.15, T:0.62
Consensus pattern (18 bp):
TTTATATTATGTTTATGC
Found at i:19129327 original size:35 final size:33
Alignment explanation
Indices: 19129287--19129355 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
19129277 TAAATATAAA
*
19129287 CTAAACATAAACATAACTACATATAAAATCAGTAT
1 CTAAACAT-AA-ATAACTAAATATAAAATCAGTAT
*
19129322 CTAAACATAATTAACTAAATATAAAATCAGTAT
1 CTAAACATAAATAACTAAATATAAAATCAGTAT
19129355 C
1 C
19129356 ATCATATAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 22 0.69
34 2 0.06
35 8 0.25
ACGTcount: A:0.54, C:0.16, G:0.03, T:0.28
Consensus pattern (33 bp):
CTAAACATAAATAACTAAATATAAAATCAGTAT
Found at i:19130800 original size:86 final size:86
Alignment explanation
Indices: 19130650--19130823 Score: 294
Period size: 86 Copynumber: 2.0 Consensus size: 86
19130640 TTTAAATAAT
19130650 TATAAATACATACATGAACAATTGTAAGATATTCAAAGATCTAATGCATGTGTGCCTTACTCACA
1 TATAAATACATACATGAACAATTGTAAGATATTCAAAGATCTAATGCATGTGTGCCTTACTCACA
*
19130715 ATCCCAAGCTGCTTATACAAG
66 ATCACAAGCTGCTTATACAAG
**** *
19130736 TATAAATACATACATGAACAATTGTAAGATATTTGGTGATCTAATGCATGTGTGCCTTATTCACA
1 TATAAATACATACATGAACAATTGTAAGATATTCAAAGATCTAATGCATGTGTGCCTTACTCACA
19130801 ATCACAAGCTGCTTATACAAG
66 ATCACAAGCTGCTTATACAAG
19130822 TA
1 TA
19130824 AGTGAGGCTA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (86 bp):
TATAAATACATACATGAACAATTGTAAGATATTCAAAGATCTAATGCATGTGTGCCTTACTCACA
ATCACAAGCTGCTTATACAAG
Found at i:19133904 original size:31 final size:31
Alignment explanation
Indices: 19133869--19133928 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
19133859 GGAAACACAA
19133869 TTTTGAGAAGCTCAAATTCAACCTAAATTCT
1 TTTTGAGAAGCTCAAATTCAACCTAAATTCT
*
19133900 TTTTGAGAAGCTTAAATTCAACCTAAATT
1 TTTTGAGAAGCTCAAATTCAACCTAAATT
19133929 TTATGTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (31 bp):
TTTTGAGAAGCTCAAATTCAACCTAAATTCT
Found at i:19135377 original size:16 final size:15
Alignment explanation
Indices: 19135356--19135406 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
19135346 TATGGTATTT
19135356 TTTATTTTTATTTTTA
1 TTTA-TTTTATTTTTA
19135372 TTTATTTTATTTTT-
1 TTTATTTTATTTTTA
* *
19135386 TATAGTTTA--TTTA
1 TTTATTTTATTTTTA
19135399 TTTATTTT
1 TTTATTTT
19135407 GCTTTATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
12 3 0.10
13 6 0.20
14 7 0.23
15 10 0.33
16 4 0.13
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTATTTTATTTTTA
Found at i:19138782 original size:25 final size:25
Alignment explanation
Indices: 19138748--19138798 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
19138738 TAAATATTTT
19138748 GTATGGCATGCAAGAAGGAGCAAGG
1 GTATGGCATGCAAGAAGGAGCAAGG
19138773 GTATGGCATGCAAGAAGGAGCAAGG
1 GTATGGCATGCAAGAAGGAGCAAGG
19138798 G
1 G
19138799 CATTATGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.41, T:0.12
Consensus pattern (25 bp):
GTATGGCATGCAAGAAGGAGCAAGG
Found at i:19139449 original size:22 final size:23
Alignment explanation
Indices: 19139424--19139466 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
19139414 CATAAAGACG
19139424 CATTA-AAATAATGTTTAGGAGA
1 CATTACAAATAATGTTTAGGAGA
* *
19139446 CATTACAATTGATGTTTAGGA
1 CATTACAAATAATGTTTAGGA
19139467 CTTTAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.35
Consensus pattern (23 bp):
CATTACAAATAATGTTTAGGAGA
Found at i:19139489 original size:24 final size:24
Alignment explanation
Indices: 19139460--19139509 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
19139450 ACAATTGATG
19139460 TTTAGGACTTTAAAATATTGTTAT
1 TTTAGGACTTTAAAATATTGTTAT
*
19139484 TTTAGGACTTTAGAATATTGTTAT
1 TTTAGGACTTTAAAATATTGTTAT
19139508 TT
1 TT
19139510 CTTTGTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (24 bp):
TTTAGGACTTTAAAATATTGTTAT
Found at i:19147954 original size:2 final size:2
Alignment explanation
Indices: 19147947--19147988 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
19147937 TAAATTTTAC
** *
19147947 AT AT AT AT GC AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19147989 TCAAATTACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:19147966 original size:14 final size:14
Alignment explanation
Indices: 19147947--19147988 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
19147937 TAAATTTTAC
*
19147947 ATATATATGCATAT
1 ATATATATACATAT
19147961 ATATATATACATAT
1 ATATATATACATAT
*
19147975 ATATATATATATAT
1 ATATATATACATAT
19147989 TCAAATTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (14 bp):
ATATATATACATAT
Found at i:19154881 original size:17 final size:17
Alignment explanation
Indices: 19154856--19154891 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19154846 GTTAATTCAT
19154856 AAATAATTTCTCAATTA
1 AAATAATTTCTCAATTA
* *
19154873 AAATTATTTCTTAATTA
1 AAATAATTTCTCAATTA
19154890 AA
1 AA
19154892 CACTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATAATTTCTCAATTA
Found at i:19158788 original size:14 final size:14
Alignment explanation
Indices: 19158771--19158823 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
19158761 GAGCTTGGGG
19158771 TTTAGGGTTTTAGT
1 TTTAGGGTTTTAGT
*
19158785 TTTAGGGTTTTAAGG
1 TTTAGGGTTTT-AGT
* *
19158800 TTTA-AGTTTTTGAT
1 TTTAGGGTTTTAG-T
19158814 TTTAGGGTTT
1 TTTAGGGTTT
19158824 GAAGGGTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 1 0.03
14 20 0.65
15 10 0.32
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (14 bp):
TTTAGGGTTTTAGT
Found at i:19158803 original size:29 final size:30
Alignment explanation
Indices: 19158666--19158882 Score: 104
Period size: 28 Copynumber: 7.4 Consensus size: 30
19158656 TTTTTAAATT
*
19158666 TTTTAGGGTTTG--GGATTTTAGGTTTTCA-A
1 TTTTAGGGTTTGAAGG-GTTTAGGTTTT-AGA
* *
19158695 TTTGAGGGTTT-AAGGTTTTAAGGTTTTCAG-
1 TTTTAGGGTTTGAAGGGTTT-AGGTTTT-AGA
* *
19158725 TTTTCAAGGTTTGAAGGGTTTA-ATATTTCA-A
1 TTTT-AGGGTTTGAAGGGTTTAGGT-TTT-AGA
* *
19158756 TTTTAGAGCTTG--GGGTTTAGGGTTTTAG-
1 TTTTAGGGTTTGAAGGGTTTA-GGTTTTAGA
* * *
19158784 TTTTAGGGTTTTAA-GGTTTAAGTTTTTGA
1 TTTTAGGGTTTGAAGGGTTTAGGTTTTAGA
*
19158813 TTTTAGGGTTTGAAGGGTTTAAGGTTTCA-A
1 TTTTAGGGTTTGAAGGGTTT-AGGTTTTAGA
* * *
19158843 TTTAAGGGATTG--GGGTTCGAGGTTTT-GA
1 TTTTAGGGTTTGAAGGGTT-TAGGTTTTAGA
*
19158871 TTTTAGGCTTTG
1 TTTTAGGGTTTG
19158883 GAGGATGTAA
Statistics
Matches: 145, Mismatches: 25, Indels: 37
0.70 0.12 0.18
Matches are distributed among these distances:
28 44 0.30
29 36 0.25
30 37 0.26
31 21 0.14
32 7 0.05
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.47
Consensus pattern (30 bp):
TTTTAGGGTTTGAAGGGTTTAGGTTTTAGA
Found at i:19158867 original size:87 final size:88
Alignment explanation
Indices: 19158685--19158877 Score: 214
Period size: 87 Copynumber: 2.2 Consensus size: 88
19158675 TTGGGATTTT
* * *
19158685 AGGTTTTCAATTTGAGGGTTTAAGGTTTTAAGGTTTTCAGTTTTCAAGGTTTGAAGGGTTTAATA
1 AGGTTTT-AGTTTTAGGGTTTAAGGTTTTAAGGTTTTCAGTTTTCAAGGTTTGAAGGGTTTAAGA
* * *
19158750 TTTCAATTTTAGAGCTTGGGGTTT
65 TTTCAATTTAAGAGATTGGGGTTG
* * *
19158774 AGGGTTTTAGTTTTAGGGTTTTAAGG-TTTAAGTTTTTGA-TTTT-AGGGTTTGAAGGGTTTAAG
1 A-GGTTTTAGTTTTAGGG-TTTAAGGTTTTAAGGTTTTCAGTTTTCAAGGTTTGAAGGGTTTAAG
* *
19158836 GTTTCAATTTAAGGGATTGGGGTTCG
64 ATTTCAATTTAAGAGATTGGGGTT-G
19158862 AGGTTTT-GATTTTAGG
1 AGGTTTTAG-TTTTAGG
19158878 CTTTGGAGGA
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
86 1 0.01
87 50 0.56
88 5 0.06
89 20 0.22
90 13 0.15
ACGTcount: A:0.21, C:0.04, G:0.29, T:0.46
Consensus pattern (88 bp):
AGGTTTTAGTTTTAGGGTTTAAGGTTTTAAGGTTTTCAGTTTTCAAGGTTTGAAGGGTTTAAGAT
TTCAATTTAAGAGATTGGGGTTG
Found at i:19158970 original size:28 final size:28
Alignment explanation
Indices: 19158917--19158973 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
19158907 GGTTTTAAGG
19158917 ATTTAGGGTTTAAAAATTTAGGATTTTA
1 ATTTAGGGTTTAAAAATTTAGGATTTTA
**
19158945 ATTTCAGGGTTTTGAAATTTA-GATTTTA
1 ATTT-AGGGTTTAAAAATTTAGGATTTTA
19158973 A
1 A
19158974 AGAAAATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (28 bp):
ATTTAGGGTTTAAAAATTTAGGATTTTA
Found at i:19160188 original size:21 final size:20
Alignment explanation
Indices: 19160147--19160193 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 20
19160137 CACCATTGTC
*
19160147 TTTTTTTTTCTATTTTTTTA
1 TTTTTTTTTCTATTTTATTA
19160167 TTTTTTTTT-TATTAATTATTA
1 TTTTTTTTTCTATT--TTATTA
19160188 TATTTT
1 T-TTTT
19160194 ATAACAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 9 0.39
21 6 0.26
22 4 0.17
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTTTTCTATTTTATTA
Found at i:19160525 original size:37 final size:37
Alignment explanation
Indices: 19160472--19160726 Score: 187
Period size: 37 Copynumber: 6.9 Consensus size: 37
19160462 AAAACGATTG
* *
19160472 GGACAACACCATAAGTCAAAAGATAAAGAATCAACTA
1 GGACAACACCACAAGTCAAAAGATAAAGAATCGACTA
* * *
19160509 GGACAATACCACAAGTCAAAAAATAAAGAATCGACTG
1 GGACAACACCACAAGTCAAAAGATAAAGAATCGACTA
* * * *
19160546 GGGCAACACCTCAAGTCGAAAGATAAAGAATCGATTA
1 GGACAACACCACAAGTCAAAAGATAAAGAATCGACTA
* * **
19160583 GGACAACACCACAAGTTGAACAA-A-GAAGAA-CGACCG
1 GGACAACACCACAAG-TCAA-AAGATAAAGAATCGACTA
* * *
19160619 GGACAACATCATAAGTCAGAAA-ATAAA-AAGTCGATTA
1 GGACAACACCACAAGTCA-AAAGATAAAGAA-TCGACTA
* *** * * *
19160656 GGATAACATTGCAAGTAAAAAAATAAAGAATAACGACTG
1 GGACAACACCACAAGTCAAAAGATAAAGAAT--CGACTA
* * *
19160695 GGATAACACTACAAGTCGAAAGATAAAGAATC
1 GGACAACACCACAAGTCAAAAGATAAAGAATC
19160727 AATCGGGATA
Statistics
Matches: 169, Mismatches: 39, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
35 7 0.04
36 22 0.13
37 103 0.61
38 5 0.03
39 32 0.19
ACGTcount: A:0.50, C:0.17, G:0.18, T:0.15
Consensus pattern (37 bp):
GGACAACACCACAAGTCAAAAGATAAAGAATCGACTA
Found at i:19160685 original size:73 final size:74
Alignment explanation
Indices: 19160471--19160726 Score: 238
Period size: 74 Copynumber: 3.4 Consensus size: 74
19160461 AAAAACGATT
* * * * *
19160471 GGGACAACACCAT-AAGTCAAAAGATAAAGAATCAACTAGGACAATACCACAAGTCAAAAAATAA
1 GGGACAACA-CATCAAGTCGAAAGATAAAGAATCGATTAGGACAACACCACAAGTAAAAAAATAA
*
19160535 AGAATCGACT
65 AGAATCGACC
* * * * *
19160545 GGGGCAACACCTCAAGTCGAAAGATAAAGAATCGATTAGGACAACACCACAAGTTGAACAAA-GA
1 GGGACAACACATCAAGTCGAAAGATAAAGAATCGATTAGGACAACACCACAAG-TAAAAAAATAA
19160609 AGAA-CGACC
65 AGAATCGACC
* ***
19160618 GGGACAACATCAT-AAGTCAGAAA-ATAAA-AAGTCGATTAGGATAACATTGCAAGTAAAAAAAT
1 GGGACAACA-CATCAAGTC-GAAAGATAAAGAA-TCGATTAGGACAACACCACAAGTAAAAAAAT
*
19160680 AAAGAATAACGACT
63 AAAGAAT--CGACC
*
19160694 GGGATAACAC-TACAAGTCGAAAGATAAAGAATC
1 GGGACAACACAT-CAAGTCGAAAGATAAAGAATC
19160727 AATCGGGATA
Statistics
Matches: 148, Mismatches: 21, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
72 8 0.05
73 47 0.32
74 56 0.38
75 11 0.07
76 24 0.16
77 2 0.01
ACGTcount: A:0.50, C:0.17, G:0.18, T:0.14
Consensus pattern (74 bp):
GGGACAACACATCAAGTCGAAAGATAAAGAATCGATTAGGACAACACCACAAGTAAAAAAATAAA
GAATCGACC
Found at i:19160950 original size:33 final size:33
Alignment explanation
Indices: 19160897--19161224 Score: 204
Period size: 33 Copynumber: 9.9 Consensus size: 33
19160887 AAATTATACT
* *
19160897 TTCATTTAGGGCCAGCTAAACTAGGCTTAAAAC
1 TTCATTGAGTGCCAGCTAAACTAGGCTTAAAAC
* * *
19160930 TTTATTGAGTGCTAGCTAAACTAGGCTTAAATC
1 TTCATTGAGTGCCAGCTAAACTAGGCTTAAAAC
* * * * *
19160963 ATCATTTAAG-GCCAACTAACCT-GACCTTAAAAC
1 TTCA-TTGAGTGCCAGCTAAACTAG-GCTTAAAAC
* * *
19160996 TTCATTGGGTGCCAGCTAATCTATGCTTAAAAC
1 TTCATTGAGTGCCAGCTAAACTAGGCTTAAAAC
* **
19161029 TTCATT-AGGAGCCAAATAAACT-GGACTTAAAAC
1 TTCATTGA-GTGCCAGCTAAACTAGG-CTTAAAAC
* * * * *
19161062 TTCATTTGA-AGCCAGTTAAACTGGGTTTAAATC
1 TTCA-TTGAGTGCCAGCTAAACTAGGCTTAAAAC
* ** *
19161095 TTTCTTTG-GTGTTAACTAAACTAGGCTTAAAAC
1 -TTCATTGAGTGCCAGCTAAACTAGGCTTAAAAC
* **
19161128 TTCATT-AGGTGCCAGTTAAACTAGGCTTAAATT
1 TTCATTGA-GTGCCAGCTAAACTAGGCTTAAAAC
* * * *
19161161 TTCATTTG-GGGCTAGCTAAATTGGGCTTAAAAC
1 TTCA-TTGAGTGCCAGCTAAACTAGGCTTAAAAC
* * * *
19161194 TTCATTGGGTGCCAACTAATCTGGGCTTAAA
1 TTCATTGAGTGCCAGCTAAACTAGGCTTAAA
19161225 TTTTGTGCAT
Statistics
Matches: 221, Mismatches: 58, Indels: 32
0.71 0.19 0.10
Matches are distributed among these distances:
32 13 0.06
33 194 0.88
34 13 0.06
35 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (33 bp):
TTCATTGAGTGCCAGCTAAACTAGGCTTAAAAC
Found at i:19161049 original size:99 final size:99
Alignment explanation
Indices: 19160946--19161224 Score: 294
Period size: 99 Copynumber: 2.8 Consensus size: 99
19160936 GAGTGCTAGC
* * * ** *
19160946 TAAACTAGGCTTAAATCATCATTTAAGGCCAACTAACCTGACCTTAAAACTTCATTGGGTGCCAG
1 TAAACTAGGCTTAAATCTTCATTTAAGGCCAGCTAAACTGGGCTTAAAACTTCATTGGGTGCCAA
*
19161011 CTAATCTATGCTTAAAACTTCATTAGGAGCCAAA
66 CTAATCTAGGCTTAAAACTTCATTAGGAGCCAAA
* * * * * *
19161045 TAAACT-GGACTTAAAACTTCATTTGAA-GCCAGTTAAACTGGGTTTAAATCTTTC-TTTGGTGT
1 TAAACTAGG-CTTAAATCTTCATTT-AAGGCCAGCTAAACTGGGCTTAAAAC-TTCATTGGGTGC
* * * **
19161107 TAACTAAACTAGGCTTAAAACTTCATTAGGTGCCAGT
63 CAACTAATCTAGGCTTAAAACTTCATTAGGAGCCAAA
* ** * *
19161144 TAAACTAGGCTTAAATTTTCATTTGGGGCTAGCTAAATTGGGCTTAAAACTTCATTGGGTGCCAA
1 TAAACTAGGCTTAAATCTTCATTTAAGGCCAGCTAAACTGGGCTTAAAACTTCATTGGGTGCCAA
*
19161209 CTAATCTGGGCTTAAA
66 CTAATCTAGGCTTAAA
19161225 TTTTGTGCAT
Statistics
Matches: 142, Mismatches: 32, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
98 5 0.04
99 130 0.92
100 7 0.05
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (99 bp):
TAAACTAGGCTTAAATCTTCATTTAAGGCCAGCTAAACTGGGCTTAAAACTTCATTGGGTGCCAA
CTAATCTAGGCTTAAAACTTCATTAGGAGCCAAA
Found at i:19161226 original size:66 final size:66
Alignment explanation
Indices: 19160896--19161228 Score: 299
Period size: 66 Copynumber: 5.0 Consensus size: 66
19160886 TAAATTATAC
* * * * * *
19160896 TTTCATTTAGGGCCAGCTAAACTAGGCTTAAAACTTTATTGAGTGCTAGCTAAACTAGGCTTAAA
1 TTTCATTTGGGGCCAACTAAACTGGGCTTAAAACTTCATTGGGTGCCAGCTAAACTAGGCTTAAA
19160961 T
66 T
** ** * ** * *
19160962 CATCATTTAAGGCCAACTAACCTGACCTTAAAACTTCATTGGGTGCCAGCTAATCTATGCTTAAA
1 TTTCATTTGGGGCCAACTAAACTGGGCTTAAAACTTCATTGGGTGCCAGCTAAACTAGGCTTAAA
*
19161027 A
66 T
* * * * * * ** * * *
19161028 CTTCATTAGGAGCCAAATAAACTGGACTTAAAACTTCATTTGAAGCCAGTTAAACTGGGTTTAAA
1 TTTCATTTGGGGCCAACTAAACTGGGCTTAAAACTTCATTGGGTGCCAGCTAAACTAGGCTTAAA
19161093 T
66 T
* ** * * *
19161094 CTTTC-TTTGGTGTTAACTAAACTAGGCTTAAAACTTCATTAGGTGCCAGTTAAACTAGGCTTAA
1 -TTTCATTTGGGGCCAACTAAACTGGGCTTAAAACTTCATTGGGTGCCAGCTAAACTAGGCTTAA
19161158 AT
65 AT
* * * * * *
19161160 TTTCATTTGGGGCTAGCTAAATTGGGCTTAAAACTTCATTGGGTGCCAACTAATCTGGGCTTAAA
1 TTTCATTTGGGGCCAACTAAACTGGGCTTAAAACTTCATTGGGTGCCAGCTAAACTAGGCTTAAA
19161225 T
66 T
19161226 TTT
1 TTT
19161229 GTGCATATTT
Statistics
Matches: 210, Mismatches: 55, Indels: 4
0.78 0.20 0.01
Matches are distributed among these distances:
65 4 0.02
66 203 0.97
67 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (66 bp):
TTTCATTTGGGGCCAACTAAACTGGGCTTAAAACTTCATTGGGTGCCAGCTAAACTAGGCTTAAA
T
Found at i:19162472 original size:11 final size:11
Alignment explanation
Indices: 19162456--19162489 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
19162446 CACCCATTCA
19162456 TTTCTTTTTTT
1 TTTCTTTTTTT
19162467 TTTCTTTTTTT
1 TTTCTTTTTTT
19162478 TATTCTTTTTTT
1 T-TTCTTTTTTT
19162490 CCTTTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:19162477 original size:12 final size:12
Alignment explanation
Indices: 19162456--19162489 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
19162446 CACCCATTCA
19162456 TTTC-TTTTTTT
1 TTTCTTTTTTTT
19162467 TTTCTTTTTTTT
1 TTTCTTTTTTTT
*
19162479 ATTCTTTTTTT
1 TTTCTTTTTTT
19162490 CCTTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:19162503 original size:20 final size:21
Alignment explanation
Indices: 19162452--19162506 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
19162442 TTTCCACCCA
* *
19162452 TTCATTTCTT-TTTTTTTTCT
1 TTCATTTATTCTTTTTTTCCT
**
19162472 TTTTTTTATTCTTTTTTTCCT
1 TTCATTTATTCTTTTTTTCCT
19162493 TTCATTT-TTCTTTT
1 TTCATTTATTCTTTT
19162507 GCATTTTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (21 bp):
TTCATTTATTCTTTTTTTCCT
Found at i:19165330 original size:4 final size:4
Alignment explanation
Indices: 19165323--19165353 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
19165313 ACATAGATGG
*
19165323 ATGA ATGA ATGA ATGA ATGA ATGT ATGA ATG
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATG
19165354 CACAAATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (4 bp):
ATGA
Found at i:19166758 original size:19 final size:19
Alignment explanation
Indices: 19166723--19166761 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19166713 TATCCTAAAT
*
19166723 CTTTTTTTTTGCTTTTTTC
1 CTTTTTTTATGCTTTTTTC
*
19166742 CTTTTTTTATCTCTTTTTTC
1 CTTTTTTTAT-GCTTTTTTC
19166762 ATCTTAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.77
Consensus pattern (19 bp):
CTTTTTTTATGCTTTTTTC
Found at i:19168737 original size:29 final size:29
Alignment explanation
Indices: 19168695--19168752 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
19168685 GTTGTGTATC
* *
19168695 AAATTTAGGATTTTGGGTTTTGAATTTTA
1 AAATTTAGGATTTTAGGTTTGGAATTTTA
*
19168724 AAATTTAAGG-TTTTAGGTTTGGGATTTTA
1 AAATTT-AGGATTTTAGGTTTGGAATTTTA
19168753 TGGTTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (29 bp):
AAATTTAGGATTTTAGGTTTGGAATTTTA
Found at i:19168906 original size:28 final size:27
Alignment explanation
Indices: 19168810--19168917 Score: 85
Period size: 28 Copynumber: 3.8 Consensus size: 27
19168800 GGTTTAAGGT
* *
19168810 TTTAGAGTTTTAGTTTTTAGGGTTTGAAGGG
1 TTTAAAGTTTT-GATTTTA-GGTTTG--GGG
19168841 TTTAATA-TTTTGATTTTAAGGTTTGGGG
1 TTTAA-AGTTTTGATTTT-AGGTTTGGGG
** *
19168869 TTTAGGGTTTTGATTTTAGGATTTGGGT
1 TTTAAAGTTTTGATTTTAGG-TTTGGGG
*
19168897 TTTAAAGTTTT-AATTTAGGTT
1 TTTAAAGTTTTGATTTTAGGTT
19168918 GTCAAGGGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
26 2 0.03
27 10 0.15
28 32 0.49
30 11 0.17
31 9 0.14
32 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (27 bp):
TTTAAAGTTTTGATTTTAGGTTTGGGG
Found at i:19169478 original size:30 final size:31
Alignment explanation
Indices: 19169413--19169516 Score: 90
Period size: 30 Copynumber: 3.4 Consensus size: 31
19169403 TTGGGGTTTT
* * *
19169413 GATTTTAGGGTTTGAAGGGTTTA-AGGTTTCA
1 GATTTTAGGGTTTGAAGGATCTAGA-GTTTAA
*
19169444 -ATTTTAGGGTTTGGAGGATCTAGAGTTT-A
1 GATTTTAGGGTTTGAAGGATCTAGAGTTTAA
* *
19169473 GATTTT-GAGGTTTTAAGGATCTAGGGTTTAA
1 GATTTTAG-GGTTTGAAGGATCTAGAGTTTAA
* *
19169504 AAATTTAGGGTTT
1 GATTTTAGGGTTT
19169517 CAATTTTAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
29 2 0.03
30 46 0.77
31 11 0.18
32 1 0.02
ACGTcount: A:0.25, C:0.03, G:0.30, T:0.42
Consensus pattern (31 bp):
GATTTTAGGGTTTGAAGGATCTAGAGTTTAA
Found at i:19169512 original size:15 final size:14
Alignment explanation
Indices: 19169494--19169562 Score: 66
Period size: 14 Copynumber: 4.8 Consensus size: 14
19169484 TTTAAGGATC
19169494 TAGGGTTTAAAAATT
1 TAGGGTTT-AAAATT
* *
19169509 TAGGGTTTCAATTT
1 TAGGGTTTAAAATT
*
19169523 TAGGGCTTTGAAATT
1 TAGGG-TTTAAAATT
* * *
19169538 TAGAGTTTTAATTT
1 TAGGGTTTAAAATT
19169552 TAGGGTTTAAA
1 TAGGGTTTAAA
19169563 GAAAACGCAA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
14 25 0.57
15 19 0.43
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (14 bp):
TAGGGTTTAAAATT
Found at i:19169527 original size:29 final size:29
Alignment explanation
Indices: 19169494--19169562 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
19169484 TTTAAGGATC
*
19169494 TAGGGTTTAAAAATTTAGGGTTTCAATTT
1 TAGGGTTTAAAAATTTAGAGTTTCAATTT
* *
19169523 TAGGGCTTT-GAAATTTAGAGTTTTAATTT
1 TAGGG-TTTAAAAATTTAGAGTTTCAATTT
19169552 TAGGGTTTAAA
1 TAGGGTTTAAA
19169563 GAAAACGCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 3 0.09
29 28 0.82
30 3 0.09
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (29 bp):
TAGGGTTTAAAAATTTAGAGTTTCAATTT
Found at i:19169689 original size:3 final size:3
Alignment explanation
Indices: 19169681--19169735 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
19169671 TTATGAAAAT
*
19169681 TTA TTA TTA TTA TTA TTA TTA TTA TTAA TT- TTA TTA TTG TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
19169725 TTA TTTA TTA T
1 TTA -TTA TTA T
19169736 CTTCTTTATA
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:19169918 original size:16 final size:15
Alignment explanation
Indices: 19169899--19169941 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
19169889 TTTTAAAGCA
19169899 TTTTTATTTTACTT-T
1 TTTTTATTTTA-TTAT
19169914 TTTTTCATTTTATTAT
1 TTTTT-ATTTTATTAT
*
19169930 TATTTATTTTAT
1 TTTTTATTTTAT
19169942 AAATTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATTTTATTAT
Found at i:19169939 original size:21 final size:21
Alignment explanation
Indices: 19169900--19169939 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19169890 TTTAAAGCAT
*
19169900 TTTTATTTTACTTTTTTTTCA
1 TTTTATTTTACTTTATTTTCA
19169921 TTTTATTATTA-TTTATTTT
1 TTTTATT-TTACTTTATTTT
19169940 ATAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTTTACTTTATTTTCA
Found at i:19176663 original size:24 final size:24
Alignment explanation
Indices: 19176635--19176691 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
19176625 TTAGGTGTGA
19176635 GAGCTTGGGATT-TCTGGGCATGG
1 GAGCTTGGGATTATCTGGGCATGG
* *
19176658 GAAGCTCGAG-TTATCTGGGCATGG
1 G-AGCTTGGGATTATCTGGGCATGG
*
19176682 GAGGTTGGGA
1 GAGCTTGGGA
19176692 CTTTGAGGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.18, C:0.12, G:0.44, T:0.26
Consensus pattern (24 bp):
GAGCTTGGGATTATCTGGGCATGG
Found at i:19177644 original size:37 final size:36
Alignment explanation
Indices: 19177594--19177692 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 36
19177584 TAGCCACGAC
*
19177594 TAAACAGTGGCTTAGATTTAACTATCATTTTGA-TAA
1 TAAACA-TGGCTTAAATTTAACTATCATTTTGATTAA
**
19177630 TTAAACATTGGCTTAAATTTAACTATTGTTTTGATTAA
1 -TAAACA-TGGCTTAAATTTAACTATCATTTTGATTAA
*
19177668 -AAAC-TGACTTAAATTTAACTATCAT
1 TAAACATGGCTTAAATTTAACTATCAT
19177693 GTGCGATGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
34 18 0.33
36 4 0.07
37 29 0.54
38 3 0.06
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.41
Consensus pattern (36 bp):
TAAACATGGCTTAAATTTAACTATCATTTTGATTAA
Found at i:19182180 original size:13 final size:13
Alignment explanation
Indices: 19182162--19182186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19182152 CTCTTGTTTA
19182162 TATTTATCTATTG
1 TATTTATCTATTG
19182175 TATTTATCTATT
1 TATTTATCTATT
19182187 TTGATAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.64
Consensus pattern (13 bp):
TATTTATCTATTG
Found at i:19183727 original size:16 final size:16
Alignment explanation
Indices: 19183697--19183726 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19183687 AAATTTTTTA
19183697 TAAACATTTTAAAAAT
1 TAAACATTTTAAAAAT
19183713 TAAA-ATTTTAAAAA
1 TAAACATTTTAAAAA
19183727 AACTCTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAACATTTTAAAAAT
Found at i:19186425 original size:2 final size:2
Alignment explanation
Indices: 19186407--19186442 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
19186397 TTAAGAAAAT
* *
19186407 TA TA TA TC TA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19186443 AATAATAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:19187989 original size:31 final size:31
Alignment explanation
Indices: 19187925--19188008 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
19187915 GCTTGTCTTT
* *
19187925 GGCTAAGCAAGCTTTTGTTTT-TTTGGTACA
1 GGCTAAGCAAGCTTTTATTTTATTTGATACA
19187955 GGCTAAGCAAGCTTTTATTTTATTTGATACA
1 GGCTAAGCAAGCTTTTATTTTATTTGATACA
*
19187986 GGCTAAGCAAGCTTTTACTTTAT
1 GGCTAAGCAAGCTTTTATTTTAT
19188009 GTGTTTTGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 20 0.40
31 30 0.60
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (31 bp):
GGCTAAGCAAGCTTTTATTTTATTTGATACA
Found at i:19188056 original size:2 final size:2
Alignment explanation
Indices: 19188049--19188076 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19188039 AATTGGTTGC
19188049 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
19188077 GTAGAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19189195 original size:22 final size:21
Alignment explanation
Indices: 19189161--19189201 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
19189151 TTTTAAATTT
* *
19189161 ATTTTTTATTATTTTAATATA
1 ATTTTTAATTATTTGAATATA
19189182 ATTTTTAATATATTTGAATA
1 ATTTTTAAT-TATTTGAATA
19189202 GATTTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTTTTAATTATTTGAATATA
Found at i:19194728 original size:20 final size:20
Alignment explanation
Indices: 19194703--19194768 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
19194693 TTTGGAAGCT
19194703 TGGATAAGAAATTGACTAGG
1 TGGATAAGAAATTGACTAGG
* ** *
19194723 TGGATATGAGTTTGGA--AGCT
1 TGGATAAGAAATT-GACTAG-G
19194743 TGGATAAGAAATTGACTAGG
1 TGGATAAGAAATTGACTAGG
19194763 TGGATA
1 TGGATA
19194769 TGATTTGGTG
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 4 0.12
20 26 0.76
21 4 0.12
ACGTcount: A:0.35, C:0.05, G:0.32, T:0.29
Consensus pattern (20 bp):
TGGATAAGAAATTGACTAGG
Found at i:19194744 original size:40 final size:40
Alignment explanation
Indices: 19194689--19194776 Score: 169
Period size: 40 Copynumber: 2.2 Consensus size: 40
19194679 AAAGGTCACT
19194689 TGAGTTTGGAAGCTTGGATAAGAAATTGACTAGGTGGATA
1 TGAGTTTGGAAGCTTGGATAAGAAATTGACTAGGTGGATA
19194729 TGAGTTTGGAAGCTTGGATAAGAAATTGACTAGGTGGATA
1 TGAGTTTGGAAGCTTGGATAAGAAATTGACTAGGTGGATA
19194769 TGA-TTTGG
1 TGAGTTTGG
19194777 TGAAGATATC
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 5 0.10
40 43 0.90
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.32
Consensus pattern (40 bp):
TGAGTTTGGAAGCTTGGATAAGAAATTGACTAGGTGGATA
Found at i:19195786 original size:2 final size:2
Alignment explanation
Indices: 19195779--19195808 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19195769 TATCACTTTG
19195779 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19195809 ACCTTTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19199050 original size:19 final size:19
Alignment explanation
Indices: 19199026--19199068 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
19199016 TGTTTTAAAA
*
19199026 AAAAGTTAAAAAAAAAGTC
1 AAAAGTCAAAAAAAAAGTC
* *
19199045 AAAAGTCCAAAAAATAGTC
1 AAAAGTCAAAAAAAAAGTC
19199064 AAAAG
1 AAAAG
19199069 GAGAAAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.65, C:0.09, G:0.12, T:0.14
Consensus pattern (19 bp):
AAAAGTCAAAAAAAAAGTC
Found at i:19199075 original size:19 final size:19
Alignment explanation
Indices: 19199034--19199081 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
19199024 AAAAAAGTTA
**
19199034 AAAAAAAAGTCAAAAGTCC
1 AAAAAAAAGTCAAAAGGAC
* *
19199053 AAAAAATAGTCAAAAGGAG
1 AAAAAAAAGTCAAAAGGAC
19199072 AAAAAGAAAG
1 AAAAA-AAAG
19199082 AAATTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.67, C:0.08, G:0.17, T:0.08
Consensus pattern (19 bp):
AAAAAAAAGTCAAAAGGAC
Found at i:19199870 original size:42 final size:42
Alignment explanation
Indices: 19199811--19199916 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
19199801 ATTGTAGGAT
* * * * *
19199811 AATGGATCTATCTATTTTTATAAAGGATCTATCTATTTTTAA
1 AATGGATCAATCCATTTTCATAAAGGATCGATCTATTTTCAA
*
19199853 AATGGATCAATCCATTTTCATAAGGGATCGATCTATTTTCAA
1 AATGGATCAATCCATTTTCATAAAGGATCGATCTATTTTCAA
*
19199895 AATGCATCAATCCATTTTCATA
1 AATGGATCAATCCATTTTCATA
19199917 GATATCAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (42 bp):
AATGGATCAATCCATTTTCATAAAGGATCGATCTATTTTCAA
Found at i:19199892 original size:21 final size:21
Alignment explanation
Indices: 19199809--19199932 Score: 108
Period size: 21 Copynumber: 6.0 Consensus size: 21
19199799 CCATTGTAGG
* *
19199809 ATAATGGATCTATCTATTTTT
1 ATAATGGATCAATCTATTTTC
* * *
19199830 ATAAAGGATCTATCTATTTTT
1 ATAATGGATCAATCTATTTTC
* *
19199851 AAAATGGATCAATCCATTTTC
1 ATAATGGATCAATCTATTTTC
* *
19199872 ATAAGGGATCGATCTATTTTC
1 ATAATGGATCAATCTATTTTC
* * *
19199893 AAAATGCATCAATCCATTTTC
1 ATAATGGATCAATCTATTTTC
*
19199914 ATAGAT--ATCAATCCATTTT
1 ATA-ATGGATCAATCTATTTT
19199933 TACAAAATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
20 13 0.15
21 71 0.83
22 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (21 bp):
ATAATGGATCAATCTATTTTC
Found at i:19202027 original size:8 final size:8
Alignment explanation
Indices: 19201996--19202052 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 8
19201986 ATTAATTAAT
*
19201996 TATTTATT
1 TATTTATA
19202004 TATTTATA
1 TATTTATA
*
19202012 TATATATA
1 TATTTATA
19202020 TATTTATA
1 TATTTATA
* *
19202028 TAATGATA
1 TATTTATA
* *
19202036 TTTTTAAA
1 TATTTATA
19202044 TATTTATA
1 TATTTATA
19202052 T
1 T
19202053 TTAAAAAATA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (8 bp):
TATTTATA
Found at i:19202038 original size:30 final size:29
Alignment explanation
Indices: 19202004--19202073 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
19201994 ATTATTTATT
* * *
19202004 TATTTATATATATATATATTTATATAATGA
1 TATTT-TATATATATATATTTAAAAAATAA
* *
19202034 TATTTTTAAATATTTATATTTAAAAAATAA
1 TA-TTTTATATATATATATTTAAAAAATAA
19202064 TATTTTATAT
1 TATTTTATAT
19202074 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 7 0.21
30 23 0.70
31 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (29 bp):
TATTTTATATATATATATTTAAAAAATAA
Found at i:19202091 original size:22 final size:21
Alignment explanation
Indices: 19202042--19202094 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
19202032 GATATTTTTA
19202042 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
19202062 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
19202083 AATATTTT-TATT
1 AATATTTTATATT
19202095 AATTTCGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 8 0.25
21 24 0.75
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:19203347 original size:239 final size:238
Alignment explanation
Indices: 19202864--19203812 Score: 1015
Period size: 240 Copynumber: 4.0 Consensus size: 238
19202854 TTTAAAAGAA
* ** * *
19202864 AATTATTGAAGGTATTTTCTT-AGAAAAAATGCCTTTAATAATTTCATTTTGAAAATTGTTTGGG
1 AATTATTGAAGCTATTTT-TTGAGAAAAAACACCTTCAATAATTTC-TTTTAAAAATTGTTT-GG
* ** * * ** * * *
19202928 ATTATTAAATGTGTCTTTTAGTAGAAAACACCTTCAATATTATACTACTAAAATTTTAAGGGGGC
63 ATTATTAAAGGCATCTTCTAGTAGAAAACGCCTTCAATATTCCACTACTAAAAATTTAAAGGGGT
* *
19202993 TATTGAAAGCATTTATTCTAGAAAAACGTC-TTCACTAACTCATTCTAATTTTTGAAAGAATTTA
128 TATTGAAGGCATTTATTCTAGAAAAACGTCATTCACTAATTCATTCTAATTTTTGAAAGAATTTA
* **
19203057 TTGAAGGCATTTTTTATATTATACACCTTCAATAATTTTTGTAAAG
193 TTAAAGGCATTTTTTGCATTATACACCTTCAATAATTTTTGTAAAG
* * *
19203103 AATTATTGGAGCTATTTTTTTGAGAAAAAACACTTTCAATAATTT-TTTTAAAAAAATTATTTAG
1 AATTATTGAAGCTA-TTTTTTGAGAAAAAACACCTTCAATAATTTCTTTT--AAAAATTGTTT-G
* * *
19203167 GATTATTAAAGGCCATCTTCTAGTAGAAAATGCCTTCAATATGCCACTAC-AAAAATTTAAAGAG
62 GATTATTAAAGG-CATCTTCTAGTAGAAAACGCCTTCAATATTCCACTACTAAAAATTTAAAGGG
** * *
19203231 GTTATTGAAGGTGTTTATTCTAGAAAAACG-CATTCGCTAATTCATTCTAA-TTTTGAAGGAATT
126 GTTATTGAAGGCATTTATTCTAGAAAAACGTCATTCACTAATTCATTCTAATTTTTGAAAGAATT
* * *
19203294 TATTGAAGGCATTTTTTGCATTACACGCCTTCAATAATTTTTGTAAAG
191 TATTAAAGGCATTTTTTGCATTATACACCTTCAATAATTTTTGTAAAG
* * *
19203342 AATTATTGAAAGC-ATTTTTTGTGAAGAAACGCCTTCAATAATTTCCTTTTAAAAATTGTTTGGA
1 AATTATTG-AAGCTATTTTTTGAGAAAAAACACCTTCAATAATTT-CTTTTAAAAATTGTTTGGA
* *
19203406 GTTATTAAAGGCATCTTCTAGTAGAAAACGCCTTCAATATTCCATTACTAAAATTTTAATA-GGG
64 -TTATTAAAGGCATCTTCTAGTAGAAAACGCCTTCAATATTCCACTACTAAAAATTTAA-AGGGG
* * * *
19203470 TTATTGAAGGCGTTTTATTCCAGAAAAATGTCA-TCACTAATTCGTTCTAATTTTTGAAAGAATT
127 TTATTGAAGGC-ATTTATTCTAGAAAAACGTCATTCACTAATTCATTCTAATTTTTGAAAGAATT
*
19203534 TATTAAAAGCATTTTTTGCATTATACACCTTCAATAATTTTTGTACAA-
191 TATTAAAGGCATTTTTTGCATTATACACCTTCAATAATTTTTGTA-AAG
* * * * * *
19203582 AATTATTGAAGGTGTCTATTGAGAAAAAATACCTTCAATAATTTCATTTTAAAAATCGTTTGAGA
1 AATTATTGAAGCTATTTTTTGAGAAAAAACACCTTCAATAATTTC-TTTTAAAAATTGTTTG-GA
** * * * * * * * * *
19203647 TTATTAAAGGTGTATTTTAGTAGAAAATGCCTTTAATATTCTATTA-TTAAAATTTTATGGGTGT
64 TTATTAAAGGCATCTTCTAGTAGAAAACGCCTTCAATATTCCACTACTAAAAATTTAAAGGG-GT
* * * * * *
19203711 TATTGAAGGCATTTATT-TCAAAAAAATG-CCTTCACTAATTCATTATCCATTTTTAAAAGAATT
128 TATTGAAGGCATTTATTCT-AGAAAAACGTCATTCACTAATTCATTCT-AATTTTTGAAAGAATT
* * *
19203774 TATTAAAGGTATTTTTTGCATAATACGCCTTCAATAATT
191 TATTAAAGGCATTTTTTGCATTATACACCTTCAATAATT
19203813 CACTCTAATT
Statistics
Matches: 600, Mismatches: 86, Indels: 47
0.82 0.12 0.06
Matches are distributed among these distances:
237 37 0.06
238 72 0.12
239 152 0.25
240 306 0.51
241 33 0.05
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.40
Consensus pattern (238 bp):
AATTATTGAAGCTATTTTTTGAGAAAAAACACCTTCAATAATTTCTTTTAAAAATTGTTTGGATT
ATTAAAGGCATCTTCTAGTAGAAAACGCCTTCAATATTCCACTACTAAAAATTTAAAGGGGTTAT
TGAAGGCATTTATTCTAGAAAAACGTCATTCACTAATTCATTCTAATTTTTGAAAGAATTTATTA
AAGGCATTTTTTGCATTATACACCTTCAATAATTTTTGTAAAG
Found at i:19203751 original size:478 final size:479
Alignment explanation
Indices: 19202894--19203812 Score: 1147
Period size: 478 Copynumber: 1.9 Consensus size: 479
19202884 TAGAAAAAAT
* * * ** *
19202894 GCCTTTAATAATTTCATTTTGAAAATTGTTTGGGATTATTAAATGTGTCTTTTAGTAGAAAACAC
1 GCCTTCAATAATTTCATTTTAAAAATTGTTTGGGATTATTAAAGGCATCTTCTAGTAGAAAACAC
* * * *
19202959 CTTCAATATTATACTACTAAAATTTTAAGGGGGCTATTGAAAGCATTTATTCTAGAAAAACGTCT
66 CTTCAATATTACACTACTAAAATTTTAAGAGGGCTATTGAAAGCATTTATTCCAGAAAAACGTCA
* * *
19203024 TCACTAACTCATTCTAATTTTTGAAAGAATTTATTGAAGGCATTTTTTATATTATACACCTTCAA
131 TCACTAACTCATTCTAATTTTTGAAAGAATTTATTAAAAGCATTTTTTACATTATACACCTTCAA
* * * * *
19203089 TAATTTTTGTAAAGAATTATTGGAGCTATTTTTTTGAGAAAAAACACTTTCAATAATTTTTTTAA
196 TAATTTTTGTAAAGAATTATTGAAGCTAGTCTATTGAGAAAAAACACCTTCAATAATTTTTTT-A
*
19203154 AAAAATTATTTAGGATTATTAAAGGCCATCTTCTAGTAGAAAATGCCTTCAATATGCCACTACAA
260 AAAAATCATTTAGGATTATTAAAGGCCATCTTCTAGTAGAAAATGCCTTCAATATGCCACTACAA
** * * *
19203219 AAATTTAAAGAGGTTATTGAAGGTGTTTATTCTAGAAAAACGCATTCGCTAATTCA-T-TCTAAT
325 AAATTTAAAGAGGTTATTGAAGGCATTTATTCTAAAAAAACGCATTCACTAATTCATTATCCAAT
* * * *
19203282 TTTGAAGGAATTTATTGAAGGCATTTTTTGCATTACACGCCTTCAATAATTTTTGTAAAGAATTA
390 TTTAAAAGAATTTATTAAAGGCATTTTTTGCATAACACGCCTTCAATAATTTTTGTAAAGAATTA
19203347 TTGAAAGCATTTTTTGTGAAGAAAC
455 TTGAAAGCATTTTTTGTGAAGAAAC
* *
19203372 GCCTTCAATAATTTCCTTTTAAAAATTGTTT-GGAGTTATTAAAGGCATCTTCTAGTAGAAAACG
1 GCCTTCAATAATTTCATTTTAAAAATTGTTTGGGA-TTATTAAAGGCATCTTCTAGTAGAAAACA
* * * * * * *
19203436 CCTTCAATATTCCATTACTAAAATTTTAATAGGGTTATTGAAGGCGTTTTATTCCAGAAAAATGT
65 CCTTCAATATTACACTACTAAAATTTTAAGAGGGCTATTGAAAGC-ATTTATTCCAGAAAAACGT
* * *
19203501 CATCACTAATTCGTTCTAATTTTTGAAAGAATTTATTAAAAGCATTTTTTGCATTATACACCTTC
129 CATCACTAACTCATTCTAATTTTTGAAAGAATTTATTAAAAGCATTTTTTACATTATACACCTTC
* *
19203566 AATAATTTTTGTACAA-AATTATTGAAGGT-GTCTATTGAGAAAAAATACCTTCAATAATTTCAT
194 AATAATTTTTGTA-AAGAATTATTGAAGCTAGTCTATTGAGAAAAAACACCTTCAATAATTT--T
* ** * * *
19203629 TTT-AAAAATCGTTT-GAGATTATTAAAGGTGTAT-TT-TAGTAGAAAATGCCTTTAATATTCTA
256 TTTAAAAAATCATTTAG-GATTATTAAAGG-CCATCTTCTAGTAGAAAATGCCTTCAATATGCCA
* ** * * * * *
19203690 TTATTAAAATTTTATGGGTGTTATTGAAGGCATTTATT-TCAAAAAAATGCCTTCACTAATTCAT
319 CTACAAAAATTTAAAGAG-GTTATTGAAGGCATTTATTCT-AAAAAAACGCATTCACTAATTCAT
* * *
19203754 TATCCATTTTTAAAAGAATTTATTAAAGGTATTTTTTGCATAATACGCCTTCAATAATT
382 TATCCAATTTTAAAAGAATTTATTAAAGGCATTTTTTGCATAACACGCCTTCAATAATT
19203813 CACTCTAATT
Statistics
Matches: 371, Mismatches: 59, Indels: 20
0.82 0.13 0.04
Matches are distributed among these distances:
477 40 0.11
478 175 0.47
479 101 0.27
480 55 0.15
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (479 bp):
GCCTTCAATAATTTCATTTTAAAAATTGTTTGGGATTATTAAAGGCATCTTCTAGTAGAAAACAC
CTTCAATATTACACTACTAAAATTTTAAGAGGGCTATTGAAAGCATTTATTCCAGAAAAACGTCA
TCACTAACTCATTCTAATTTTTGAAAGAATTTATTAAAAGCATTTTTTACATTATACACCTTCAA
TAATTTTTGTAAAGAATTATTGAAGCTAGTCTATTGAGAAAAAACACCTTCAATAATTTTTTTAA
AAAATCATTTAGGATTATTAAAGGCCATCTTCTAGTAGAAAATGCCTTCAATATGCCACTACAAA
AATTTAAAGAGGTTATTGAAGGCATTTATTCTAAAAAAACGCATTCACTAATTCATTATCCAATT
TTAAAAGAATTTATTAAAGGCATTTTTTGCATAACACGCCTTCAATAATTTTTGTAAAGAATTAT
TGAAAGCATTTTTTGTGAAGAAAC
Found at i:19205045 original size:59 final size:58
Alignment explanation
Indices: 19204921--19205258 Score: 335
Period size: 58 Copynumber: 5.7 Consensus size: 58
19204911 TTGTGCAGGA
* * * * * * **
19204921 AAAATTGATACTTTTAACTTCTCC-CCAAAATATTTTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTTGAAAATTTATTTTTAAGG
*
19204978 AAAATTGATACTTCCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAA-TTTTTTTGAAAATTTATTTTTAAGG
* * **
19205037 AAAATTGATACTTTCAACTTTT-CTC-CAAAAATATTTTTTGAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAT-TTTTTTGAAAA-TTTATTTTTAAGG
* *
19205095 AAAATTGATACTTTCAACTTTTCCTTAAAAAAAACCTTTTTTT-TAAATTTATTTTTAAGAAAAA
1 AAAATTGATACTTTCAACTTTTCC-TCAAAAAAA--TTTTTTTGAAAATTTATTTTTAAG-----
19205159 TTG
58 --G
* * *
19205162 ATAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAAAATTTTTTTGAAAATTTATTTTTAAGG
* *
19205220 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTT
19205259 AGAATTTTAT
Statistics
Matches: 235, Mismatches: 27, Indels: 37
0.79 0.09 0.12
Matches are distributed among these distances:
56 1 0.00
57 37 0.16
58 77 0.33
59 43 0.18
60 10 0.04
61 8 0.03
62 6 0.03
63 1 0.00
64 7 0.03
65 15 0.06
66 6 0.03
67 24 0.10
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTTGAAAATTTATTTTTAAGG
Found at i:19205169 original size:67 final size:65
Alignment explanation
Indices: 19205097--19205229 Score: 205
Period size: 65 Copynumber: 2.0 Consensus size: 65
19205087 TTTCGAGGAA
* *
19205097 AATTGATACTTTCAACTTTTCCTTAAAAAAAACCTTTTTTT-TAAATTTATTTTTAAGAAAAATT
1 AATTGATACTTTCAACTTTTCCCT-AAAAAAA--TTTTTTTGAAAATTTATTTTTAAGAAAAATT
19205161 GAT
63 GAT
*
19205164 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTTTAAGAAAAATTGAT
1 AATTGATACTTTCAACTTTTCCCTAAAAAAATTTTTTTGAAAATTTATTTTTAAGAAAAATTGAT
19205229 A
1 A
19205230 CTTTCAACTT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
64 7 0.11
65 26 0.42
66 6 0.10
67 23 0.37
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (65 bp):
AATTGATACTTTCAACTTTTCCCTAAAAAAATTTTTTTGAAAATTTATTTTTAAGAAAAATTGAT
Found at i:19205295 original size:15 final size:15
Alignment explanation
Indices: 19205270--19205328 Score: 66
Period size: 15 Copynumber: 3.8 Consensus size: 15
19205260 GAATTTTATT
*
19205270 TAAAGAAAAATAATAA
1 TAAATAAAAATAA-AA
19205286 T-AATAAAAATGAAAA
1 TAAATAAAAAT-AAAA
*
19205301 TAAAAATAAAATAAAA
1 TAAATA-AAAATAAAA
19205317 TAAATAAAAATA
1 TAAATAAAAATA
19205329 GAGAAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 17 0.46
16 15 0.41
17 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
TAAATAAAAATAAAA
Found at i:19205323 original size:4 final size:5
Alignment explanation
Indices: 19205276--19205325 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
19205266 TATTTAAAGA
*
19205276 AAAAT AATAAT AATA- AAAAT GAAAAT AAAAAT AAAAT AAAAT -AAAT
1 AAAAT AA-AAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT
19205322 AAAA
1 AAAA
19205326 ATAGAGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
4 7 0.18
5 16 0.42
6 15 0.39
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:19205326 original size:10 final size:10
Alignment explanation
Indices: 19205277--19205338 Score: 56
Period size: 10 Copynumber: 6.1 Consensus size: 10
19205267 ATTTAAAGAA
*
19205277 AAATAATAAT
1 AAATAAAAAT
19205287 -AATAAAAAT
1 AAATAAAAAT
19205296 GAAAATAAAAAT
1 --AAATAAAAAT
19205308 AAA-ATAAAAT
1 AAATA-AAAAT
19205318 AAATAAAAAT
1 AAATAAAAAT
* *
19205328 AGAGAAAAAT
1 AAATAAAAAT
19205338 A
1 A
19205339 TTAAACAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
9 9 0.20
10 25 0.57
11 1 0.02
12 9 0.20
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:19205327 original size:6 final size:6
Alignment explanation
Indices: 19205281--19205328 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
19205271 AAAGAAAAAT
* * *
19205281 AATAAT AATAAA AATGAA AATAAA AATAAA ATAAAATA AATAAA AATA
1 AATAAA AATAAA AATAAA AATAAA AATAAA A-ATAA-A AATAAA AATA
19205329 GAGAAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 27 0.77
7 6 0.17
8 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:19205890 original size:19 final size:19
Alignment explanation
Indices: 19205866--19205902 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19205856 GCCGGAATAA
19205866 TCACCGAAAAACTCAACCT
1 TCACCGAAAAACTCAACCT
*
19205885 TCACCGAAAAATTCAACC
1 TCACCGAAAAACTCAACC
19205903 GAAATCTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.35, G:0.05, T:0.16
Consensus pattern (19 bp):
TCACCGAAAAACTCAACCT
Found at i:19206011 original size:20 final size:19
Alignment explanation
Indices: 19205986--19206024 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19205976 CCTAGAGCTA
19205986 TTCTCACGCCTCTAAACCTT
1 TTCTCA-GCCTCTAAACCTT
* *
19206006 TTCTCAGCTTTTAAACCTT
1 TTCTCAGCCTCTAAACCTT
19206025 CTGTGTGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.41
Consensus pattern (19 bp):
TTCTCAGCCTCTAAACCTT
Found at i:19206262 original size:12 final size:11
Alignment explanation
Indices: 19206245--19206275 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
19206235 AATTTGAAAA
19206245 AAAAAATAAAT
1 AAAAAATAAAT
19206256 AATAAAATAAAT
1 AA-AAAATAAAT
19206268 AAAAAATA
1 AAAAAATA
19206276 TTAATAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:19206286 original size:21 final size:21
Alignment explanation
Indices: 19206262--19206328 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
19206252 AAATAATAAA
19206262 ATAAATAAAAAATATTAATAG
1 ATAAATAAAAAATATTAATAG
* *
19206283 ATAATTAAAGAAA-A-AAATCAG
1 ATAAATAAA-AAATATTAAT-AG
* *
19206304 ATAAAT-CAAAATATTAACAG
1 ATAAATAAAAAATATTAATAG
19206324 ATAAA
1 ATAAA
19206329 AATAATACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
19 3 0.08
20 12 0.33
21 18 0.50
22 3 0.08
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (21 bp):
ATAAATAAAAAATATTAATAG
Found at i:19206366 original size:14 final size:14
Alignment explanation
Indices: 19206328--19206425 Score: 57
Period size: 14 Copynumber: 7.4 Consensus size: 14
19206318 TAACAGATAA
*
19206328 AAATAATACTAGAT
1 AAATAATAATAGAT
* *
19206342 AAATTACAATAGAT
1 AAATAATAATAGAT
19206356 AAATAATAATA-A-
1 AAATAATAATAGAT
*
19206368 ATAT-ATAACTAGAT
1 AAATAATAA-TAGAT
19206382 AAATAA-AAT--AT
1 AAATAATAATAGAT
* * *
19206393 ATATATTAACAGA-
1 AAATAATAATAGAT
* *
19206406 AAAAAATAATAAAT
1 AAATAATAATAGAT
19206420 AAATAA
1 AAATAA
19206426 CAAATACATA
Statistics
Matches: 60, Mismatches: 16, Indels: 16
0.65 0.17 0.17
Matches are distributed among these distances:
11 10 0.17
12 7 0.12
13 11 0.18
14 31 0.52
15 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (14 bp):
AAATAATAATAGAT
Found at i:19206394 original size:23 final size:25
Alignment explanation
Indices: 19206351--19206426 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 25
19206341 TAAATTACAA
19206351 TAGATAAATAATAATAAATATATAAC
1 TAGATAAATAATAAT-AATATATAAC
19206377 TAGATAAATAA-AATATATATATTAAC
1 TAGATAAATAATAATA-ATATA-TAAC
* *
19206403 -AGA-AAAAAATAATAAATAAATAAC
1 TAGATAAATAATAAT-AATATATAAC
19206427 AAATACATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
24 10 0.23
25 18 0.41
26 16 0.36
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (25 bp):
TAGATAAATAATAATAATATATAAC
Found at i:19206486 original size:15 final size:15
Alignment explanation
Indices: 19206446--19206498 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
19206436 AGATATAAAG
*
19206446 AAAAATATATATATAAT
1 AAAAATA-ATA-AAAAT
19206463 AATAAATAATAAAAAT
1 AA-AAATAATAAAAAT
19206479 AAAAATAATAAAATAT
1 AAAAATAATAAAA-AT
19206495 AAAA
1 AAAA
19206499 TACAAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
15 11 0.33
16 12 0.36
17 5 0.15
18 5 0.15
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAATAATAAAAAT
Found at i:19206488 original size:22 final size:23
Alignment explanation
Indices: 19206408--19206512 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 23
19206398 TTAACAGAAA
19206408 AAAATAATAAATAAATAACAAATAC
1 AAAATAATAAAT-AATAA-AAATAC
* *
19206433 ATAAGAT-ATAAAGAA-AAATATATAT
1 A-AA-ATAATAAATAATAAA-A-ATAC
*
19206458 ATAATAATAAATAATAAAAATA-
1 AAAATAATAAATAATAAAAATAC
19206480 AAAATAAT-AA-AATATAAAATAC
1 AAAATAATAAATAATA-AAAATAC
19206502 AAAATAATAAA
1 AAAATAATAAA
19206513 AACCAGGTGG
Statistics
Matches: 66, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
20 4 0.06
21 8 0.12
22 15 0.23
23 8 0.12
24 12 0.18
25 10 0.15
26 7 0.11
27 2 0.03
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAATAATAAATAATAAAAATAC
Found at i:19206496 original size:7 final size:7
Alignment explanation
Indices: 19206447--19206513 Score: 52
Period size: 7 Copynumber: 9.6 Consensus size: 7
19206437 GATATAAAGA
19206447 AAAATAT
1 AAAATAT
*
19206454 -ATATAT
1 AAAATAT
19206460 AATAATA-
1 AA-AATAT
19206467 AATAATA-
1 AA-AATAT
19206474 AAAATA-
1 AAAATAT
19206480 AAAATAAT
1 AAAAT-AT
19206488 AAAATAT
1 AAAATAT
*
19206495 AAAATAC
1 AAAATAT
19206502 AAAATAAT
1 AAAAT-AT
19206510 AAAA
1 AAAA
19206514 ACCAGGTGGA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
6 14 0.27
7 24 0.47
8 13 0.25
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATAT
Found at i:19206499 original size:15 final size:15
Alignment explanation
Indices: 19206466--19206513 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
19206456 ATATAATAAT
19206466 AAATAATAAAA-ATAA
1 AAATAATAAAATAT-A
19206481 AAATAATAAAATATA
1 AAATAATAAAATATA
*
19206496 AAAT-ACAAAATAATA
1 AAATAATAAAAT-ATA
19206511 AAA
1 AAA
19206514 ACCAGGTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 6 0.20
15 22 0.73
16 2 0.07
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAATAAAATATA
Found at i:19206792 original size:43 final size:43
Alignment explanation
Indices: 19206703--19207034 Score: 419
Period size: 43 Copynumber: 7.8 Consensus size: 43
19206693 TCAGAACTCT
* * *
19206703 TCTAAGCAG-GGCTCAACGACTTTG-AAGATGAATAAAGCTCC
1 TCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCC
19206744 TCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCC
1 TCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCC
* *
19206787 TCTAATCAAAGGCTCAACGACTTTTGAAAAATAAATAAAGCTAC
1 TCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATAAAGCTCC
* * *
19206831 TCTAATCAGAGGCTCAATGACTTTGAAAAATAAAT--GGCTCA
1 TCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCC
* *
19206872 TCTAATCAAAGGCTCAACGACTTTGGAAAATAAATAAAGCTCC
1 TCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCC
* *
19206915 TCTAATCAGAGGCTCAACGACTTTGGAAAAATAAAT--GGCTCA
1 TCTAATCAGAGGCTCAACGACTTT-GAAAAATAAATAAAGCTCC
** * *
19206957 TCTAATCAGAGGCTCAATAACTTTTGAAAAGTAAAT--GGCTCC
1 TCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATAAAGCTCC
19206999 TCTAATCAGAGGCTCAACGACTTTTGAAAAAGTAAA
1 TCTAATCAGAGGCTCAACGAC-TTTGAAAAA-TAAA
19207035 ATGCTCCTTG
Statistics
Matches: 257, Mismatches: 26, Indels: 14
0.87 0.09 0.05
Matches are distributed among these distances:
41 43 0.17
42 81 0.32
43 83 0.32
44 50 0.19
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (43 bp):
TCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCC
Found at i:19206888 original size:85 final size:84
Alignment explanation
Indices: 19206712--19207034 Score: 454
Period size: 85 Copynumber: 3.8 Consensus size: 84
19206702 TTCTAAGCAG
* *
19206712 GGCTCAACGACTTTG-AAGATGAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATA
1 GGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATA
* *
19206776 AATAAAGCTCCTCTAATCAAA
66 AAT--GGCTCATCTAATCAAA
* *
19206797 GGCTCAACGACTTTTGAAAAATAAATAAAGCTACTCTAATCAGAGGCTCAATGACTTTGAAAAAT
1 GGCTCAACGAC-TTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAT
19206862 AAATGGCTCATCTAATCAAA
65 AAATGGCTCATCTAATCAAA
*
19206882 GGCTCAACGACTTTGGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAAT
1 GGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTT-GAAAAAT
*
19206947 AAATGGCTCATCTAATCAGA
65 AAATGGCTCATCTAATCAAA
** * *
19206967 GGCTCAATAACTTTTGAAAAGTAAAT--GGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAA
1 GGCTCAACGAC-TTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAA
19207030 GTAAA
64 -TAAA
19207035 ATGCTCCTTG
Statistics
Matches: 217, Mismatches: 15, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
84 75 0.35
85 78 0.36
86 16 0.07
87 48 0.22
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (84 bp):
GGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATA
AATGGCTCATCTAATCAAA
Found at i:19206931 original size:128 final size:126
Alignment explanation
Indices: 19206703--19207028 Score: 462
Period size: 128 Copynumber: 2.6 Consensus size: 126
19206693 TCAGAACTCT
* *
19206703 TCTAAGCAG-GGCTCAACGACTTTGAAGATGAATAAA--GCTCCTCTAATCAGAGGCTCAACGAC
1 TCTAATCAGAGGCTCAATGACTTTGAA-A--AATAAATGGCTCCTCTAATCAGAGGCTCAACGAC
* *
19206765 TTTGAAAAATAAATAAAGCTCCTCTAATCAAAGGCTCAACGACTTTTGAAAAATAAATAAAGCT-
63 TTTGGAAAATAAATAAAGCTCCTCTAATCAAAGGCTCAACGACTTTGGAAAAATAAAT--AGCTC
19206829 A
126 A
* *
19206830 CTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATGGCTCATCTAATCAAAGGCTCAACGACTT
1 -TCTAATCAGAGGCTCAATGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTT
* *
19206895 TGGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATGGCTCA
65 TGGAAAATAAATAAAGCTCCTCTAATCAAAGGCTCAACGACTTTGGAAAAATAAATAGCTCA
* *
19206957 TCTAATCAGAGGCTCAATAACTTTTGAAAAGTAAATGGCTCCTCTAATCAGAGGCTCAACGACTT
1 TCTAATCAGAGGCTCAATGAC-TTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTT
*
19207022 TTGAAAA
65 TGGAAAA
19207029 AGTAAAATGC
Statistics
Matches: 180, Mismatches: 13, Indels: 11
0.88 0.06 0.05
Matches are distributed among these distances:
126 29 0.16
127 47 0.26
128 88 0.49
129 16 0.09
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (126 bp):
TCTAATCAGAGGCTCAATGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTT
GGAAAATAAATAAAGCTCCTCTAATCAAAGGCTCAACGACTTTGGAAAAATAAATAGCTCA
Found at i:19208066 original size:22 final size:23
Alignment explanation
Indices: 19208039--19208089 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
19208029 TGAGTCCTCC
19208039 TTTTTCATTCATTTT-TTTTC-TT
1 TTTTTCATT-ATTTTCTTTTCATT
*
19208061 TTTTTCATTTTTTTCTTTTCATT
1 TTTTTCATTATTTTCTTTTCATT
19208084 TTTTTC
1 TTTTTC
19208090 CTTTTTCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 4 0.15
22 14 0.54
23 8 0.31
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTCATTATTTTCTTTTCATT
Found at i:19208071 original size:14 final size:14
Alignment explanation
Indices: 19208062--19208094 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
19208052 TTTTTTCTTT
19208062 TTTTCATTTTTTTC
1 TTTTCATTTTTTTC
19208076 TTTTCATTTTTTTCC
1 TTTTCATTTTTTT-C
19208091 TTTT
1 TTTT
19208095 TCTTATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCATTTTTTTC
Found at i:19218626 original size:59 final size:59
Alignment explanation
Indices: 19218496--19218799 Score: 314
Period size: 59 Copynumber: 5.2 Consensus size: 59
19218486 TGCTTTTATG
* * * * *
19218496 CAAGAAAAATTGATACTTTCAAC-TTCTCCCCAAAATA-TTTTTTTGAAACTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAAACTTTTTTTGAAAATTTAATTT
* * * *
19218553 CGAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAAACCTTTTTTGAAAATTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAAACTTTTTTTGAAAATTTAATTT
* * * *
19218612 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAATCTTTTTTTTTGAAAATTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTC-AAAAAAA-C--TTTTTTTGAAAATTTAATTT
* * * *
19218675 TAAGAAAAATTGATACTTTCAACTTTTT-TCCAAAAATATTTTTTTTGAAACTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCT-CAAAAAAACTTTTTTTGAAAATTTAATTT
* * * * *
19218734 CAAGAAAAATTGATTCTTTCAACTTTTCCTCAAAAATA--TTTTTTG-GAATTTTATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAAACTTTTTTTGAAAATTTAATTT
*
19218790 AAAGAAAAAT
1 CAAGAAAAAT
19218800 AATAATAATA
Statistics
Matches: 213, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
56 17 0.08
57 28 0.13
58 10 0.05
59 96 0.45
60 8 0.04
61 1 0.00
62 7 0.03
63 46 0.22
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (59 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAAACTTTTTTTGAAAATTTAATTT
Found at i:19218684 original size:122 final size:122
Alignment explanation
Indices: 19218496--19218769 Score: 346
Period size: 122 Copynumber: 2.3 Consensus size: 122
19218486 TGCTTTTATG
* * * * *
19218496 CAAGAAAAATTGATACTTTCAACTTCTCC-C---CAAAA--TATTTTTTTGAAACTTTAATTTCG
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAATCTTTTTTTTTGAAAATTTAATTTCA
* *
19218555 AGGAAAATTGATACTTTCAAC-TTTTTCTCAAAAAAACCTTTTTTGAAAATTTATTTT
66 AGAAAAATTGATACTTTCAACTTTTTTC-CAAAAAAACCTTTTTTGAAAATTTAATTT
* * * *
19218612 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAATCTTTTTTTTTGAAAATTTATTTTTA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAATCTTTTTTTTTGAAAATTTAATTTCA
* ** *
19218677 AGAAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTTTGAAACTTTAATTT
66 AGAAAAATTGATACTTTCAACTTTTTTCCAAAAAAACCTTTTTTGAAAATTTAATTT
*
19218734 CAAGAAAAATTGATTCTTTCAACTTTTCCTCAAAAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA
19218770 TATTTTTTGG
Statistics
Matches: 133, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
116 26 0.20
117 1 0.01
120 4 0.03
122 96 0.72
123 6 0.05
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (122 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAATCTTTTTTTTTGAAAATTTAATTTCA
AGAAAAATTGATACTTTCAACTTTTTTCCAAAAAAACCTTTTTTGAAAATTTAATTT
Found at i:19218759 original size:31 final size:30
Alignment explanation
Indices: 19218667--19218759 Score: 77
Period size: 29 Copynumber: 3.1 Consensus size: 30
19218657 TTTTTGAAAA
* *
19218667 TTTATTTTTAAGAAAAATTGATACTTTCAAC
1 TTTA-TTTCAAGAAAAATTGATTCTTTCAAC
* * *
19218698 TTT-TTTCCAA-AAATATT--TTTTTTGAAAC
1 TTTATTT-CAAGAAAAATTGATTCTTT-CAAC
19218726 TTTAATTTCAAGAAAAATTGATTCTTTCAAC
1 TTT-ATTTCAAGAAAAATTGATTCTTTCAAC
19218757 TTT
1 TTT
19218760 TCCTCAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
27 4 0.09
28 6 0.13
29 12 0.26
30 11 0.23
31 9 0.19
32 5 0.11
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.48
Consensus pattern (30 bp):
TTTATTTCAAGAAAAATTGATTCTTTCAAC
Found at i:19218814 original size:15 final size:14
Alignment explanation
Indices: 19218794--19218847 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 14
19218784 TTATTTAAAG
19218794 AAAAATAATAATAAT
1 AAAAATAA-AATAAT
*
19218809 AAAAATGAAAATAAA
1 AAAAAT-AAAATAAT
19218824 AATAAAGTAAAATAAAT
1 AA-AAA-TAAAAT-AAT
19218841 AAAAATA
1 AAAAATA
19218848 GAGAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 15 0.45
16 13 0.39
17 5 0.15
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (14 bp):
AAAAATAAAATAAT
Found at i:19218842 original size:20 final size:18
Alignment explanation
Indices: 19218789--19218859 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 18
19218779 GAATTTTATT
*
19218789 TAAAGAAAAATAATAATAA
1 TAAAGAAAAA-AATAAAAA
*
19218808 TAAA-AATGAAAATAAAAA
1 TAAAGAA-AAAAATAAAAA
19218826 TAAAGTAAAATAAATAAAAA
1 TAAAG-AAAA-AAATAAAAA
*
19218846 TAGAGAAAAAAATA
1 TAAAGAAAAAAATA
19218860 TTAAACAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
18 18 0.41
19 11 0.25
20 15 0.34
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (18 bp):
TAAAGAAAAAAATAAAAA
Found at i:19218845 original size:10 final size:10
Alignment explanation
Indices: 19218796--19218847 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
19218786 ATTTAAAGAA
*
19218796 AAATAATAAT
1 AAATAAAAAT
19218806 -AATAAAAAT
1 AAATAAAAAT
19218815 GAAAATAAAAAT
1 --AAATAAAAAT
19218827 AAAGT-AAAAT
1 AAA-TAAAAAT
19218837 AAATAAAAAT
1 AAATAAAAAT
19218847 A
1 A
19218848 GAGAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
9 9 0.25
10 17 0.47
11 1 0.03
12 9 0.25
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:19218906 original size:23 final size:21
Alignment explanation
Indices: 19218876--19218919 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
19218866 AAATCTAATC
19218876 TAATAAATAAATAATAATAATAA
1 TAATAAATAAAT-ATAA-AATAA
*
19218899 TAATAAATATATATAAAATAA
1 TAATAAATAAATATAAAATAA
19218920 AATGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
23 11 0.55
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAATAAATAAATATAAAATAA
Found at i:19219185 original size:21 final size:22
Alignment explanation
Indices: 19219150--19219193 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
19219140 TCAGCAGAAG
*
19219150 CCCTTCTCCTCTTCTCTCTCTT
1 CCCTTCTCCTCTTCTCTCCCTT
*
19219172 CCCTTCT-TTCTTCTCTCCCTT
1 CCCTTCTCCTCTTCTCTCCCTT
19219193 C
1 C
19219194 TCTCTAGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (22 bp):
CCCTTCTCCTCTTCTCTCCCTT
Found at i:19219857 original size:14 final size:14
Alignment explanation
Indices: 19219819--19219917 Score: 59
Period size: 14 Copynumber: 7.4 Consensus size: 14
19219809 TAACAGATAA
*
19219819 AAATAATACTAGAT
1 AAATAATAATAGAT
* *
19219833 AAATTACAATAGAT
1 AAATAATAATAGAT
19219847 AAATAATAATA-A-
1 AAATAATAATAGAT
*
19219859 ATAT-ATAACTAGAT
1 AAATAATAA-TAGAT
*
19219873 AAATAA-AATATAT
1 AAATAATAATAGAT
* *
19219886 ATATTAA-CATA-A-
1 A-AATAATAATAGAT
*
19219898 AAATAATAATAAAT
1 AAATAATAATAGAT
19219912 AAATAA
1 AAATAA
19219918 CAAATAATAA
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
11 8 0.12
12 9 0.14
13 9 0.14
14 38 0.58
15 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (14 bp):
AAATAATAATAGAT
Found at i:19219885 original size:23 final size:25
Alignment explanation
Indices: 19219842--19219918 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 25
19219832 TAAATTACAA
19219842 TAGATAAATAATAATAAATATATAAC
1 TAGATAAATAATAAT-AATATATAAC
19219868 TAGATAAATAA-AATATATATATTAAC
1 TAGATAAATAATAATA-ATATA-TAAC
*
19219894 ATA-A-AAATAATAATAAATAAATAAC
1 -TAGATAAATAATAAT-AATATATAAC
19219919 AAATAATAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
24 1 0.02
25 18 0.40
26 23 0.51
27 3 0.07
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.30
Consensus pattern (25 bp):
TAGATAAATAATAATAATATATAAC
Found at i:19219922 original size:11 final size:10
Alignment explanation
Indices: 19219894--19220020 Score: 56
Period size: 10 Copynumber: 12.7 Consensus size: 10
19219884 ATATATTAAC
19219894 ATAAAAAT-A
1 ATAAAAATAA
19219903 ATAATAAATAA
1 ATAA-AAATAA
19219914 ATAACAAAT-A
1 ATAA-AAATAA
* *
19219924 ATAAGATATAC
1 ATAA-AAATAA
*
19219935 AGAAAAATATA
1 ATAAAAATA-A
*
19219946 TATATAAA-AA
1 -ATAAAAATAA
19219956 ATATAAAAT-A
1 ATA-AAAATAA
19219966 AT-AAAAT-A
1 ATAAAAATAA
19219974 ATAAAAATAA
1 ATAAAAATAA
*
19219984 A-AATAATAAA
1 ATAAAAAT-AA
19219994 ATATAAAATATA
1 ATA-AAAATA-A
*
19220006 A-AATAATAA
1 ATAAAAATAA
19220015 A-AAAAA
1 ATAAAAA
19220021 GGTGGACCTA
Statistics
Matches: 91, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
8 8 0.09
9 23 0.25
10 33 0.36
11 16 0.18
12 11 0.12
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:19219933 original size:45 final size:45
Alignment explanation
Indices: 19219884--19220016 Score: 129
Period size: 45 Copynumber: 3.0 Consensus size: 45
19219874 AATAAAATAT
19219884 ATATATTAACATAAAAATAATAATAAATAAATA-ACAAATAAT--A
1 ATATATTAACATAAAAATAATAATAAATAAATATA-AAATAATAAA
* *
19219927 AGATA-T-ACAGAAAAATATATATATAAA-AAATATAAAATAATAAA
1 ATATATTAACATAAAAATA-ATA-ATAAATAAATATAAAATAATAAA
* *
19219971 ATA-ATAAAAATAAAAATAATAA-AATATAAAATATAAAATAATAAA
1 ATATATTAACATAAAAATAATAATAA-AT-AAATATAAAATAATAAA
19220016 A
1 A
19220017 AAAAGGTGGA
Statistics
Matches: 74, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
41 10 0.14
42 18 0.24
43 13 0.18
44 6 0.08
45 27 0.36
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (45 bp):
ATATATTAACATAAAAATAATAATAAATAAATATAAAATAATAAA
Found at i:19219957 original size:15 final size:14
Alignment explanation
Indices: 19219937--19220016 Score: 81
Period size: 15 Copynumber: 5.4 Consensus size: 14
19219927 AGATATACAG
*
19219937 AAAAATATATATATA
1 AAAAATATA-AAATA
19219952 AAAAATATAAAATA
1 AAAAATATAAAATA
19219966 ATAAAATAATAAAA-A
1 A-AAAAT-ATAAAATA
19219981 TAAAAATAATAAAATA
1 -AAAAAT-ATAAAATA
*
19219997 TAAAATATAAAATA
1 AAAAATATAAAATA
19220011 ATAAAA
1 A-AAAA
19220017 AAAAGGTGGA
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
14 13 0.23
15 36 0.63
16 8 0.14
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAAATATAAAATA
Found at i:19219963 original size:23 final size:23
Alignment explanation
Indices: 19219949--19220020 Score: 98
Period size: 22 Copynumber: 3.3 Consensus size: 23
19219939 AAATATATAT
19219949 ATAAAAAATAT-AAAATAATAAA
1 ATAAAAAATATAAAAATAATAAA
19219971 ATAATAAAA-ATAAAAATAATAAA
1 ATAA-AAAATATAAAAATAATAAA
*
19219994 ATATAAAATAT-AAAATAATAAA
1 ATAAAAAATATAAAAATAATAAA
19220016 A-AAAA
1 ATAAAA
19220021 GGTGGACCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.07
22 22 0.49
23 20 0.44
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (23 bp):
ATAAAAAATATAAAAATAATAAA
Found at i:19219974 original size:65 final size:61
Alignment explanation
Indices: 19219877--19219998 Score: 156
Period size: 65 Copynumber: 1.9 Consensus size: 61
19219867 CTAGATAAAT
* * * *
19219877 AAAATATATATATTAACATAAAAATAATAATAA-ATAAATAACAAATAATAAGATATACAGA
1 AAAATATATATATAAAAATAAAAATAATAATAATAAAAATAA-AAATAATAAAATATACAGA
19219938 AAAATATATATATAAAAAATATAAAATAATAAAATAATAAAAATAAAAATAATAAAATATA
1 AAAATATATATAT-AAAAATA-AAAATAAT--AATAATAAAAATAAAAATAATAAAATATA
19219999 AAATATAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
61 13 0.25
62 5 0.10
63 8 0.15
65 19 0.37
66 7 0.13
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (61 bp):
AAAATATATATATAAAAATAAAAATAATAATAATAAAAATAAAAATAATAAAATATACAGA
Found at i:19220098 original size:38 final size:38
Alignment explanation
Indices: 19220050--19220131 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
19220040 ACCAGGCCCA
* *
19220050 AATGATTTGGGCCTGGACCAAATTAGGTGTTTACACTC
1 AATGACTTGGGCCTGGACCAAATTAGGTGTCTACACTC
19220088 AATGACTTGGGCCTGGACCAAATTAGGTGTCTACACTC
1 AATGACTTGGGCCTGGACCAAATTAGGTGTCTACACTC
19220126 AATGAC
1 AATGAC
19220132 ACACACCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (38 bp):
AATGACTTGGGCCTGGACCAAATTAGGTGTCTACACTC
Found at i:19220398 original size:28 final size:28
Alignment explanation
Indices: 19220339--19220399 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
19220329 TATGGTTTGG
* * * * *
19220339 TGAATGTTATTGTGTGATATTGTTTTGC
1 TGAATGGTATTGTATGATATAGGTATGC
*
19220367 TGAATGGTATTGTATGATATAGGTATGT
1 TGAATGGTATTGTATGATATAGGTATGC
19220395 TGAAT
1 TGAAT
19220400 CATATGCTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.02, G:0.26, T:0.48
Consensus pattern (28 bp):
TGAATGGTATTGTATGATATAGGTATGC
Found at i:19223126 original size:40 final size:40
Alignment explanation
Indices: 19223082--19223162 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
19223072 GAGATAGTTT
* *
19223082 TATATGGTTTTATGACCACACCATTCAAGGTTAGTATAAA
1 TATATGGTTTTATGACCACACCATTCAAAGTTAGTACAAA
19223122 TATATGGTTTTATGACCACACCATTCAAAGTTAGTACAAA
1 TATATGGTTTTATGACCACACCATTCAAAGTTAGTACAAA
19223162 T
1 T
19223163 TTCATAAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.35
Consensus pattern (40 bp):
TATATGGTTTTATGACCACACCATTCAAAGTTAGTACAAA
Found at i:19223680 original size:35 final size:35
Alignment explanation
Indices: 19223634--19223704 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
19223624 ATATAAACCA
*
19223634 AAATGTTTTCTAAGCATAAACCTACAACTGACTTC
1 AAATGTTTTCTAAGCATAAACCAACAACTGACTTC
* *
19223669 AAATGTTTTCTAGGCATAAATCAACAACTGACTTC
1 AAATGTTTTCTAAGCATAAACCAACAACTGACTTC
19223704 A
1 A
19223705 CATATATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (35 bp):
AAATGTTTTCTAAGCATAAACCAACAACTGACTTC
Found at i:19224870 original size:19 final size:18
Alignment explanation
Indices: 19224848--19224885 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
19224838 ATTTCATTTA
19224848 ATATCAATTAATTCATCAT
1 ATATCAATTAATT-ATCAT
*
19224867 ATATCAATTCATTATCAT
1 ATATCAATTAATTATCAT
19224885 A
1 A
19224886 AACCAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATCAATTAATTATCAT
Found at i:19227874 original size:21 final size:22
Alignment explanation
Indices: 19227843--19227895 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
19227833 TAAAGATTTG
19227843 GTCCTTTTCCAAAGGCACCTAC
1 GTCCTTTTCCAAAGGCACCTAC
*
19227865 GTCC-TTTCCAAAGGCACCTAT
1 GTCCTTTTCCAAAGGCACCTAC
*
19227886 GCCCTTTTCC
1 GTCCTTTTCC
19227896 TTACCTCTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.19, C:0.38, G:0.13, T:0.30
Consensus pattern (22 bp):
GTCCTTTTCCAAAGGCACCTAC
Found at i:19252179 original size:20 final size:20
Alignment explanation
Indices: 19252154--19252193 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
19252144 ATAATCCCAC
19252154 AAAGAATCTAAATAATAGTA
1 AAAGAATCTAAATAATAGTA
19252174 AAAGAATCTAAATAATAGTA
1 AAAGAATCTAAATAATAGTA
19252194 CTACTACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.25
Consensus pattern (20 bp):
AAAGAATCTAAATAATAGTA
Found at i:19258619 original size:39 final size:40
Alignment explanation
Indices: 19258576--19258661 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 40
19258566 TATCAAAAGA
*
19258576 TAATTAAGTTGATAATTGATATTAATAT-AATTAAATG-TT
1 TAATTAAGGTGATAATTGATATTAAT-TCAATTAAATGCTT
*
19258615 TAATTAAGGTGATAATTTATATTAATTCAATTAAATGCTT
1 TAATTAAGGTGATAATTGATATTAATTCAATTAAATGCTT
*
19258655 GAATTAA
1 TAATTAA
19258662 AATTAAGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 1 0.02
39 33 0.79
40 8 0.19
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.44
Consensus pattern (40 bp):
TAATTAAGGTGATAATTGATATTAATTCAATTAAATGCTT
Found at i:19261689 original size:20 final size:19
Alignment explanation
Indices: 19261663--19261722 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 19
19261653 ATTCAGTTTC
19261663 TTTCAAGTTAATTTAAATT
1 TTTCAAGTTAATTTAAATT
*
19261682 TTTGCAAGTTTAATTTAAGTT
1 TTT-CAAG-TTAATTTAAATT
**
19261703 TTTCAA-ACAATTTAAATT
1 TTTCAAGTTAATTTAAATT
19261721 TT
1 TT
19261723 GTTTTGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 11 0.31
19 3 0.09
20 7 0.20
21 14 0.40
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.52
Consensus pattern (19 bp):
TTTCAAGTTAATTTAAATT
Found at i:19265488 original size:21 final size:21
Alignment explanation
Indices: 19265462--19265504 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
19265452 GAAGTGAAAT
**
19265462 TCCAAGAAGGGATTGATCCCC
1 TCCAAGAAGGGATCAATCCCC
19265483 TCCAAGAAGGGATCAATCCCC
1 TCCAAGAAGGGATCAATCCCC
19265504 T
1 T
19265505 ATGCCCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (21 bp):
TCCAAGAAGGGATCAATCCCC
Found at i:19285864 original size:45 final size:45
Alignment explanation
Indices: 19285813--19285911 Score: 162
Period size: 45 Copynumber: 2.2 Consensus size: 45
19285803 CTTTCCAATT
**
19285813 AAACTAATTAAGCATGAACCAAAATGAATTTCTGATTTTATAATC
1 AAACTAATTAAGCATGAACCAAAATGAATTTCTGACATTATAATC
* *
19285858 AAACTAATTAAGCATGAACCTAAATGAATTTCTGACATTCTAATC
1 AAACTAATTAAGCATGAACCAAAATGAATTTCTGACATTATAATC
19285903 AAACTAATT
1 AAACTAATT
19285912 GATTAAGTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.32
Consensus pattern (45 bp):
AAACTAATTAAGCATGAACCAAAATGAATTTCTGACATTATAATC
Found at i:19288555 original size:20 final size:20
Alignment explanation
Indices: 19288532--19288576 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
19288522 TTTTTATTTA
* *
19288532 TTTTAT-TTTATTTTTTTATG
1 TTTTATGTTTAGTTGTTT-TG
19288552 TTTTATGTTTAGTTGTTTTG
1 TTTTATGTTTAGTTGTTTTG
19288572 TTTTA
1 TTTTA
19288577 AAAAATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.76
Consensus pattern (20 bp):
TTTTATGTTTAGTTGTTTTG
Found at i:19289043 original size:13 final size:13
Alignment explanation
Indices: 19289022--19289052 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19289012 ATAATTTTGT
*
19289022 AAATGAAAATAGA
1 AAATAAAAATAGA
19289035 AAATAAAAATAGA
1 AAATAAAAATAGA
19289048 AAATA
1 AAATA
19289053 TTTTCCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (13 bp):
AAATAAAAATAGA
Done.