Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, 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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 73 of 91
Found at i:16553129 original size:112 final size:109
Alignment explanation
Indices: 16552932--16553190 Score: 340
Period size: 112 Copynumber: 2.3 Consensus size: 109
16552922 AAATATATTT
* * *
16552932 CCCATAC-AGAAATTCATACACTTAGTATGGATTTGTTAGTTCACACACATAGTGCCCATACAGA
1 CCCATACGA-AAATTCATACACTTAGTATGAATTTCTTAGTTCACACACAAAGTGCCCATACAGA
* * *
16552996 AAATCATACACTTATTGTGAATTTCTTAGTTTTTTGCACACAAAGTG
65 AAATCATACACTTAGTATGAATTTCTTAG-TTTTT-CACACAAAGTA
* ** **
16553043 CCTATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATATGGA
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAG-TTCACACACAAAGTGCCCATACAGA
*
16553108 AATTCATACACTTAGTATGAATTTCTTAGTTTTTCACACAAAGTA
65 AAATCATACACTTAGTATGAATTTCTTAGTTTTTCACACAAAGTA
* * *
16553153 CCCATATGAAAATTCATATACTTAGTACGAATTTCTTA
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTA
16553191 ACTTTTTGCA
Statistics
Matches: 130, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
110 44 0.34
111 39 0.30
112 47 0.36
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (109 bp):
CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTCACACACAAAGTGCCCATACAGAA
AATCATACACTTAGTATGAATTTCTTAGTTTTTCACACAAAGTA
Found at i:16554851 original size:2 final size:2
Alignment explanation
Indices: 16554844--16554921 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
16554834 TGATTATGAC
16554844 AT AT AT AT AT 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 AT AT AT AT AT
16554886 AT AT 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 AT AT
16554922 CAAGTAATAG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16564535 original size:19 final size:18
Alignment explanation
Indices: 16564493--16564540 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
16564483 GAGCATTTTC
*
16564493 AGTATCGATACTCACTTA
1 AGTATCGATACTAACTTA
*
16564511 AGGTATCGATACTAAAGTTA
1 A-GTATCGATACT-AACTTA
16564531 AGTATCGATA
1 AGTATCGATA
16564541 TTGGAGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 1 0.04
19 20 0.77
20 5 0.19
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (18 bp):
AGTATCGATACTAACTTA
Found at i:16565047 original size:17 final size:18
Alignment explanation
Indices: 16565008--16565054 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
16564998 TGTTTCTGAG
16565008 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
16565026 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
16565043 GGAATTGGAATC
1 GGAATTGGAATC
16565055 CAATTTCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:16565970 original size:268 final size:265
Alignment explanation
Indices: 16565460--16565967 Score: 753
Period size: 268 Copynumber: 1.9 Consensus size: 265
16565450 TGAATTAGAA
* * *
16565460 ACCCGACCCGACACAAAATAATAAAAAAATTTATTTTTATTCAATAAAAACATTGACTTAATTGA
1 ACCCGACCCGACACAAAATAATAAAAAAATATATTTTTATTCAATAAAAACAGTAACTTAATTGA
16565525 AAAACAAGTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA
66 AAAACAAGTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA
* * *
16565590 TTTTTTTCGGGTAAGGTCCGATTTTTTCACCCTAAACTCGAACCCGACCCGACCCGAATATCACA
131 TTATTTTCGGGTAAGGT-C-ATTTTTTCAACCTAAACTCCAA--C-ACCCGACCCGAATATCACA
16565655 CTTAAAAAAACCCGACCCAACCCAAAAAAATAAAGTTTCACCCGACCCTACCCGAATATATGAAT
191 CTTAAAAAAACCCGACCCAACCCAAAAAAATAAAGTTTCACCCGACCCTACCCGAATATATGAAT
16565720 TAGAAATCCG
256 TAGAAATCCG
* *
16565730 ACCCGACCCGACCCGAAATAATAAAAAAA-ATATTTTTATTCAATAAAAACAGTAACTTAATTGA
1 ACCCGACCCGACACAAAATAATAAAAAAATATATTTTTATTCAATAAAAACAGTAACTTAATTGA
*
16565794 AAAA-AATTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA
66 AAAACAAGTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA
** *
16565858 -TATTTTCGGGTCGGGT-A-TTTTTCAACCTAAAC-CCAA-ACTCGACCCGAATATCACACTTAA
131 TTATTTTCGGGTAAGGTCATTTTTTCAACCTAAACTCCAACACCCGACCCGAATATCACACTTAA
* * ** *
16565918 AAAAA-CCGACCCGACCTGACCAAAATAAAGTTTCACCCGACCCGACCCGA
196 AAAAACCCGACCCAACC-CAAAAAAATAAAGTTTCACCCGACCCTACCCGA
16565968 CCCAAAATAA
Statistics
Matches: 220, Mismatches: 17, Indels: 14
0.88 0.07 0.06
Matches are distributed among these distances:
257 10 0.05
258 57 0.26
262 3 0.01
263 14 0.06
264 1 0.00
267 13 0.06
268 59 0.27
269 36 0.16
270 27 0.12
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (265 bp):
ACCCGACCCGACACAAAATAATAAAAAAATATATTTTTATTCAATAAAAACAGTAACTTAATTGA
AAAACAAGTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA
TTATTTTCGGGTAAGGTCATTTTTTCAACCTAAACTCCAACACCCGACCCGAATATCACACTTAA
AAAAACCCGACCCAACCCAAAAAAATAAAGTTTCACCCGACCCTACCCGAATATATGAATTAGAA
ATCCG
Found at i:16569139 original size:13 final size:13
Alignment explanation
Indices: 16569121--16569150 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16569111 AAATACTCCC
16569121 TTTTGAAAAATTA
1 TTTTGAAAAATTA
*
16569134 TTTTGAGAAATTA
1 TTTTGAAAAATTA
16569147 TTTT
1 TTTT
16569151 TCATTTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (13 bp):
TTTTGAAAAATTA
Found at i:16574711 original size:305 final size:302
Alignment explanation
Indices: 16574122--16574730 Score: 1040
Period size: 305 Copynumber: 2.0 Consensus size: 302
16574112 CTTTAAGAAA
* *
16574122 ATGGATCGATCCTTTTCATTGAGGATTGATGCTTTTGTGAAGGATCGATCCAAAAGTTTCTAGAA
1 ATGGATCGATCCTTTTCATTGAGGATTGATCCTTTGGTGAAGGATCGATCCAAAAGTTTCTAGAA
* * *
16574187 TCTAAAGGAATGATCCTTTTTCAAGGGGATCAATCATTTGGTCAAAGGGGTCGATCCTTTTACTA
66 TCTAAAGGAATGATCCTTTTTCAAGGGGATCAATCATTTGGTCAAAGGGATCAATCATTTTACTA
* *
16574252 AGGAATCGATCCATTGAGTAAAAAATCTATGGAAACTTGATCGAGTATGTTTTTAAGAAGGTTCG
131 AGGAATCGATCCATTGAGTAAAAAATCTATGGAAACTTGATCGAGCATGTTTTTAAGAAGGTTCA
*
16574317 ACTAAGTTGGAAATATTTTAAACATATTTTCAAGTTAATTTGGAGTTTGAATTATTTTTGAGAAA
196 ACTAAGTTGGAAATATTTTAAACATATTTTCAAGTTAATTTGGACTTTGAATTATTTTTGAGAAA
*
16574382 TTTTAATAAATTTGATTAAGTCTAAAAATCAATTTTACAAATT
261 TTTTAATAAATTTGATTAAGTCTAAAAATCAAATTTAC-AATT
*
16574425 ATGGATCGATCCTTTTCATTGGGGATTGATCCTTTGGTGAAAGGATCGATCCAAAAGTTTCTAGA
1 ATGGATCGATCCTTTTCATTGAGGATTGATCCTTTGGTG-AAGGATCGATCCAAAAGTTTCTAGA
* * *
16574490 ATCTAAGGGAATGATCCTTTTTTAAGGGGATCAATCATTTGGTCAAAGGGATCAATCATTTTGCT
65 ATCTAAAGGAATGATCCTTTTTCAAGGGGATCAATCATTTGGTCAAAGGGATCAATCATTTTACT
* *
16574555 AAGGAATCGATCTC-TTGAGTAAAAAAATCTATGGAATCTTGATCGAGCATGTTTTTGAGAAGGT
130 AAGGAATCGATC-CATTGAGT-AAAAAATCTATGGAAACTTGATCGAGCATGTTTTTAAGAAGGT
16574619 TCAACTAAGTTGGAAATATTTTAAACATATTTTCAAGTTAATTTGGACTTTGAATTATTTTTGAG
193 TCAACTAAGTTGGAAATATTTTAAACATATTTTCAAGTTAATTTGGACTTTGAATTATTTTTGAG
16574684 AAATTTTAATAAATTTGATTAAGTCTAAAAATCAAATTTACAATT
258 AAATTTTAATAAATTTGATTAAGTCTAAAAATCAAATTTACAATT
16574729 AT
1 AT
16574731 TTGTTACATA
Statistics
Matches: 288, Mismatches: 15, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
303 36 0.12
304 108 0.38
305 144 0.50
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (302 bp):
ATGGATCGATCCTTTTCATTGAGGATTGATCCTTTGGTGAAGGATCGATCCAAAAGTTTCTAGAA
TCTAAAGGAATGATCCTTTTTCAAGGGGATCAATCATTTGGTCAAAGGGATCAATCATTTTACTA
AGGAATCGATCCATTGAGTAAAAAATCTATGGAAACTTGATCGAGCATGTTTTTAAGAAGGTTCA
ACTAAGTTGGAAATATTTTAAACATATTTTCAAGTTAATTTGGACTTTGAATTATTTTTGAGAAA
TTTTAATAAATTTGATTAAGTCTAAAAATCAAATTTACAATT
Found at i:16578047 original size:24 final size:24
Alignment explanation
Indices: 16578017--16578062 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
16578007 TACTTATACG
*
16578017 TGGTCCTTAT-GGATAAATTCTACA
1 TGGTCCTT-TGGGACAAATTCTACA
16578041 TGGTCCTTTGGGACAAATTCTA
1 TGGTCCTTTGGGACAAATTCTA
16578063 TGTGGCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (24 bp):
TGGTCCTTTGGGACAAATTCTACA
Found at i:16590718 original size:28 final size:29
Alignment explanation
Indices: 16590662--16590719 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 29
16590652 ATGAAAAATG
16590662 ACACAAATAAAAGAAAAGAACTAAATTAGTGT
1 ACACAAATAAAAGAAAAG-A--AAATTAGTGT
16590694 ACACAAATAAAAGAAAAG-AAATTAGT
1 ACACAAATAAAAGAAAAGAAAATTAGT
16590720 TAGTACATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 8 0.31
32 18 0.69
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.17
Consensus pattern (29 bp):
ACACAAATAAAAGAAAAGAAAATTAGTGT
Found at i:16592519 original size:29 final size:29
Alignment explanation
Indices: 16592484--16592555 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
16592474 GTAAGGGACT
16592484 GAAATGAAAACAAATAAATATTACAAACC
1 GAAATGAAAACAAATAAATATTACAAACC
*
16592513 GAAATGAAAACAAATAAATATTACAATCC
1 GAAATGAAAACAAATAAATATTACAAACC
*
16592542 GAAAT-AAAAAAAAT
1 GAAATGAAAACAAAT
16592556 GAGCAAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 8 0.20
29 33 0.80
ACGTcount: A:0.64, C:0.11, G:0.07, T:0.18
Consensus pattern (29 bp):
GAAATGAAAACAAATAAATATTACAAACC
Found at i:16594272 original size:22 final size:22
Alignment explanation
Indices: 16594247--16594294 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
16594237 ATGTAATTAA
** *
16594247 AATAATAAATAATCATAATCAT
1 AATAATAAATAAGAATAATAAT
*
16594269 AATAATTAATAAGAATAATAAT
1 AATAATAAATAAGAATAATAAT
16594291 AATA
1 AATA
16594295 TACTAATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (22 bp):
AATAATAAATAAGAATAATAAT
Found at i:16594273 original size:3 final size:3
Alignment explanation
Indices: 16594247--16594304 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
16594237 ATGTAATTAA
* * *
16594247 AAT AAT AAAT AAT CAT AAT CAT AAT AATT AAT AAG AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
*
16594294 -AT ACT AAT AAT
1 AAT AAT AAT AAT
16594305 GTTTTTTCGA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16594293 original size:19 final size:19
Alignment explanation
Indices: 16594247--16594293 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
16594237 ATGTAATTAA
* * *
16594247 AATAATAAATAATCATAAT
1 AATAATAATTAATAAGAAT
*
16594266 CATAATAATTAATAAGAAT
1 AATAATAATTAATAAGAAT
16594285 AATAATAAT
1 AATAATAAT
16594294 ATACTAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (19 bp):
AATAATAATTAATAAGAAT
Found at i:16594401 original size:20 final size:23
Alignment explanation
Indices: 16594351--16594401 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 23
16594341 GACACGTGTC
16594351 ATGATTTAATTGGAGATTAAATTT
1 ATGA-TTAATTGGAGATTAAATTT
*
16594375 AT-TTTAATT-G-GATTAAA-TT
1 ATGATTAATTGGAGATTAAATTT
16594394 ATGATTAA
1 ATGATTAA
16594402 AATGATAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 4 0.17
20 11 0.46
21 1 0.04
22 6 0.25
24 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (23 bp):
ATGATTAATTGGAGATTAAATTT
Found at i:16595309 original size:12 final size:12
Alignment explanation
Indices: 16595292--16595323 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
16595282 TGATTTGCGA
16595292 TTTATTTGTCAT
1 TTTATTTGTCAT
16595304 TTTATTTGTCAT
1 TTTATTTGTCAT
16595316 TTTATTTG
1 TTTATTTG
16595324 CAGCGACAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (12 bp):
TTTATTTGTCAT
Found at i:16599137 original size:78 final size:78
Alignment explanation
Indices: 16599047--16599199 Score: 252
Period size: 78 Copynumber: 2.0 Consensus size: 78
16599037 GGTTCGTTCG
* * *
16599047 AACTTAGAAACTCTCAAGGCATTGCTTCTGTTCATCATATGCTGATTACCATATGAATTTCAGGT
1 AACTTAGAAACTCTCAACGCATTGCTTCTGTTCATCATATGCTGATTACCATATGAAATCCAGGT
16599112 TCTTCAATCATAC
66 TCTTCAATCATAC
* * *
16599125 AACTTAGAAACTCTTAACGCATTGCTTTTGTTCATCATATGCTGATTACCTTATGAAATCCAGGT
1 AACTTAGAAACTCTCAACGCATTGCTTCTGTTCATCATATGCTGATTACCATATGAAATCCAGGT
16599190 TCTTCAATCA
66 TCTTCAATCA
16599200 GTACTCCCAA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (78 bp):
AACTTAGAAACTCTCAACGCATTGCTTCTGTTCATCATATGCTGATTACCATATGAAATCCAGGT
TCTTCAATCATAC
Found at i:16601722 original size:27 final size:28
Alignment explanation
Indices: 16601690--16601766 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
16601680 AGATTTACAA
*
16601690 TAAAAATAAATTTAAGATTTTTATAATT
1 TAAAAATAAATTTAATATTTTTATAATT
* * *
16601718 TAAAAATAATTTTTATATTTTTATATTT
1 TAAAAATAAATTTAATATTTTTATAATT
*
16601746 TAAACATTAAATTTAATATTT
1 TAAA-AATAAATTTAATATTT
16601767 CTAGATAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 28 0.68
29 13 0.32
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (28 bp):
TAAAAATAAATTTAATATTTTTATAATT
Found at i:16601833 original size:12 final size:12
Alignment explanation
Indices: 16601798--16601837 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 12
16601788 TTTAATTTTA
16601798 AAATATAAGAAAT
1 AAATATAA-AAAT
16601811 GAAATTATAAAAAT
1 -AAA-TATAAAAAT
16601825 AAATATAAAAAT
1 AAATATAAAAAT
16601837 A
1 A
16601838 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 7 0.28
15 5 0.20
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (12 bp):
AAATATAAAAAT
Found at i:16601982 original size:13 final size:13
Alignment explanation
Indices: 16601964--16602003 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
16601954 TATTTATTTT
16601964 TAAAATATAAAAA
1 TAAAATATAAAAA
16601977 TAAAAT-TATAAAA
1 TAAAATATA-AAAA
16601990 T-AAATATAAAAA
1 TAAAATATAAAAA
16602002 TA
1 TA
16602004 TTAAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAATATAAAAA
Found at i:16601985 original size:25 final size:26
Alignment explanation
Indices: 16601937--16601985 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
16601927 TTTAAAAATA
* * *
16601937 TTAAAATATTATAAATATATTTATTT
1 TTAAAATATTAAAAATAAAATTATTT
16601963 TTAAAATA-TAAAAATAAAATTAT
1 TTAAAATATTAAAAATAAAATTAT
16601986 AAAATAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TTAAAATATTAAAAATAAAATTATTT
Found at i:16602009 original size:19 final size:19
Alignment explanation
Indices: 16601970--16602009 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16601960 TTTTTAAAAT
*
16601970 ATAAAAATAAAATTATAAA
1 ATAAAAATAAAAATATAAA
* *
16601989 ATAAATATAAAAATATTAA
1 ATAAAAATAAAAATATAAA
16602008 AT
1 AT
16602010 TTAATATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAAATAAAAATATAAA
Found at i:16602029 original size:83 final size:82
Alignment explanation
Indices: 16601751--16602042 Score: 202
Period size: 83 Copynumber: 3.5 Consensus size: 82
16601741 TATTTTAAAC
* * *
16601751 ATTAAATTTAATATTT-CTAGATAAATTATATTTAATATTTAATTTTAAAATATAAGAAATGAAA
1 ATTAAATTTAATATTTAC-A-ATATATTATATAT-ATATTTAATTTTAAAATATAA-AAATAAAA
16601815 TTATAAAAATAAATATAAAAAT
62 TTAT-AAAATAAATATAAAAAT
* * * * ** * ** **
16601837 ATTAAATTTAAGATTTATAATAATATT-TTTATAT-TTTAAAATTTACATGTATCATTATCTAAT
1 ATTAAATTTAATATTTACAAT-ATATTATATATATATTT-AATTTTA-AAATATAAAAATAAAAT
** * *
16601900 T-GGAATTAAAATATAAAAAA
63 TATAAAAT-AAATATAAAAAT
* * * *
16601920 ATTATATTTTAAAAATATTA-AA-ATATTATAAATATATTTATTTTTAAAATATAAAAATAAAAT
1 ATTA-AATTT-AATAT-TTACAATATATTATATATATATTTAATTTTAAAATATAAAAATAAAAT
16601983 TATAAAATAAATATAAAAAT
63 TATAAAATAAATATAAAAAT
* *
16602003 ATTAAATTTAATATTTACAATGATATTTTTTATAT-TTTAA
1 ATTAAATTTAATATTTACAAT-ATATTATATATATATTTAA
16602043 GATGTACACG
Statistics
Matches: 152, Mismatches: 40, Indels: 32
0.68 0.18 0.14
Matches are distributed among these distances:
80 3 0.02
81 6 0.04
82 11 0.07
83 59 0.39
84 31 0.20
85 19 0.12
86 23 0.15
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (82 bp):
ATTAAATTTAATATTTACAATATATTATATATATATTTAATTTTAAAATATAAAAATAAAATTAT
AAAATAAATATAAAAAT
Found at i:16602450 original size:49 final size:49
Alignment explanation
Indices: 16602384--16602477 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
16602374 TTAAGTGGTG
* *
16602384 TTTCATGTTGCTTTATTTTCTATCCAATTC-GGTGGTGACATGTGTGTTA
1 TTTCATGTTGATTTATTTTCTATCCAA-CCGGGTGGTGACATGTGTGTTA
* *
16602433 TTTCATGTTTATTTATTTTTTATCCAACCGGGTGGTGACATGTGT
1 TTTCATGTTGATTTATTTTCTATCCAACCGGGTGGTGACATGTGT
16602478 CATCTCCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 1 0.03
49 39 0.98
ACGTcount: A:0.17, C:0.14, G:0.20, T:0.49
Consensus pattern (49 bp):
TTTCATGTTGATTTATTTTCTATCCAACCGGGTGGTGACATGTGTGTTA
Found at i:16606555 original size:43 final size:43
Alignment explanation
Indices: 16606494--16606784 Score: 444
Period size: 43 Copynumber: 6.8 Consensus size: 43
16606484 TTAATTACCG
*
16606494 TTACAGTTCCCCCAGGTCCCTTTGCTGTATGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
16606537 TTACAGTTCCCCCAGGTCCTTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
16606580 TTACAGTT-CCCCAGGTCCCATTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
16606622 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAACC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
16606665 TTACAGTTCCCCCAGGTTCCTTTGCTGTGTGCAAAGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
16606708 TTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
16606750 TTACAGTTTCCCCAGG-CTCTTTTGCTATGTGCAAG
1 TTACAGTTCCCCCAGGTC-CCTTTGCTGTGTGCAAG
16606785 TATAAGACCT
Statistics
Matches: 228, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
42 79 0.35
43 149 0.65
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (43 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:16606638 original size:85 final size:85
Alignment explanation
Indices: 16606494--16606784 Score: 435
Period size: 85 Copynumber: 3.4 Consensus size: 85
16606484 TTAATTACCG
*
16606494 TTACAGTTCCCCCAGGTCCCTTTGCTGTATGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCCTTT
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCC-TT
16606559 TGCTGTGTGCAAGGGTAAGCC
65 TGCTGTGTGCAAGGGTAAGCC
* *
16606580 TTACAGTT-CCCCAGGTCCCATTGTTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCCCTT
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGT-CCTT
*
16606644 TGCTGTGTGCAAGGGTAAACC
65 TGCTGTGTGCAAGGGTAAGCC
* * *
16606665 TTACAGTTCCCCCAGGTTCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTT-TCCCAGGTTCCTT
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGG-TCCTT
16606729 TGCTGTGTGCAAGGGTAAGCC
65 TGCTGTGTGCAAGGGTAAGCC
* * *
16606750 TTACAGTTTCCCCAGG-CTCTTTTGCTATGTGCAAG
1 TTACAGTTCCCCCAGGTC-CCTTTGCTGTGTGCAAG
16606785 TATAAGACCT
Statistics
Matches: 186, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
85 137 0.74
86 49 0.26
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (85 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCCTTT
GCTGTGTGCAAGGGTAAGCC
Found at i:16606722 original size:128 final size:128
Alignment explanation
Indices: 16606494--16606784 Score: 460
Period size: 128 Copynumber: 2.3 Consensus size: 128
16606484 TTAATTACCG
* *
16606494 TTACAGTTCCCCCAGGTCCCTTTGCTGTATGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCCTTT
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAACCTTACAGTTCCCCCAGGTCCTTT
* *
16606559 TGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCAGGTCCCATTGTTGTGTGCAAGGGTAAGCC
66 TGCTGTGTGCAAAGGTAAGCCTTACAGTTCCCCAGGTCCCATTGCTGTGTGCAAGGGTAAGCC
16606622 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAACCTTACAGTTCCCCCAGGTTCC-T
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAACCTTACAGTTCCCCCAGG-TCCTT
* * *
16606686 TTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
65 TTGCTGTGTGCAAAGGTAAGCCTTACAGTTCCCCAGGTCCCATTGCTGTGTGCAAGGGTAAGCC
* * *
16606750 TTACAGTTTCCCCAGG-CTCTTTTGCTATGTGCAAG
1 TTACAGTTCCCCCAGGTC-CCTTTGCTGTGTGCAAG
16606785 TATAAGACCT
Statistics
Matches: 151, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
127 1 0.01
128 147 0.97
129 3 0.02
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (128 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAACCTTACAGTTCCCCCAGGTCCTTT
TGCTGTGTGCAAAGGTAAGCCTTACAGTTCCCCAGGTCCCATTGCTGTGTGCAAGGGTAAGCC
Found at i:16607593 original size:2 final size:2
Alignment explanation
Indices: 16607586--16607622 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
16607576 ACCGACTTTG
16607586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16607623 CACACATGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16610246 original size:2 final size:2
Alignment explanation
Indices: 16610239--16610309 Score: 69
Period size: 2 Copynumber: 37.0 Consensus size: 2
16610229 CCCAAATTAA
16610239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AT AT AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * *
16610280 TT AT AA AT AA AA AT AT AT AT -T AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16610310 CAATGGTCGA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
1 4 0.07
2 53 0.91
3 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:16611228 original size:110 final size:106
Alignment explanation
Indices: 16611034--16611282 Score: 338
Period size: 110 Copynumber: 2.3 Consensus size: 106
16611024 TATTGTTCCG
* * * *
16611034 AGTCCAATATCC-TCTGCCGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACAG
1 AGTCCAATATCCTTC-GCTGTGAAGTTGAAATTGACTCTGAAACTGGGAAATTGTTTATTGACAA
*
16611098 CCAGCCTCCCCTTCGCTGTGAAGTTGAGCTTGTGTTATCTCA
65 CCAGCCTCCCCTTCGCTGTGAAGATGAGCTTGTGTTATCTCA
* *
16611140 AGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGGAAGTTGTTTATTGA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTC----TGAAACTGGGAAATTGTTTATTGA
* * * **
16611205 CAACCAGTCTCCCCTTCGTTGTGAAGATGAGCTTGTGTTGTCTTG
62 CAACCAGCCTCCCCTTCGCTGTGAAGATGAGCTTGTGTTATCTCA
16611250 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
16611283 GTTGGGAAGA
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
106 31 0.25
107 2 0.02
110 92 0.74
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAACTGGGAAATTGTTTATTGACAAC
CAGCCTCCCCTTCGCTGTGAAGATGAGCTTGTGTTATCTCA
Found at i:16612576 original size:21 final size:21
Alignment explanation
Indices: 16612550--16612589 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16612540 TTGAATATTA
*
16612550 TGAAGGGGTATCGATTCCCTG
1 TGAAGGGGTACCGATTCCCTG
16612571 TGAAGGGGTACCGATTCCC
1 TGAAGGGGTACCGATTCCC
16612590 CCCATTCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.25
Consensus pattern (21 bp):
TGAAGGGGTACCGATTCCCTG
Found at i:16612911 original size:35 final size:33
Alignment explanation
Indices: 16612866--16612938 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 33
16612856 CCTTTTGTAA
* * *
16612866 AGGGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCT
1 AGGGAAAAGGTTCTAGCTTAGCCC-TG-AAAAACT
*
16612901 AGGGAAAAGGTTCTAGTTTAGCCCTGAAAAACT
1 AGGGAAAAGGTTCTAGCTTAGCCCTGAAAAACT
16612934 AGGGA
1 AGGGA
16612939 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 11 0.32
34 2 0.06
35 21 0.62
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (33 bp):
AGGGAAAAGGTTCTAGCTTAGCCCTGAAAAACT
Found at i:16615304 original size:19 final size:20
Alignment explanation
Indices: 16615265--16615304 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
16615255 ATCAGATTGT
16615265 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
16615285 CCAGGGGGTATC-GATTCCCC
1 CCAGGGGGTA-CAGATTCCCC
16615305 GGGAACAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.17, C:0.35, G:0.30, T:0.17
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:16615460 original size:21 final size:21
Alignment explanation
Indices: 16615434--16615473 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16615424 TTGAATATTA
*
16615434 TGAAGGGGTATCGATTCCCTG
1 TGAAGGGGTACCGATTCCCTG
16615455 TGAAGGGGTACCGATTCCC
1 TGAAGGGGTACCGATTCCC
16615474 CCCATTCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.25
Consensus pattern (21 bp):
TGAAGGGGTACCGATTCCCTG
Found at i:16616447 original size:11 final size:11
Alignment explanation
Indices: 16616433--16616466 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
16616423 GTTTTTTCTC
16616433 TTTTTTGTTTT
1 TTTTTTGTTTT
16616444 TTTTTTGTTTT
1 TTTTTTGTTTT
* *
16616455 CTTTTTCTTTT
1 TTTTTTGTTTT
16616466 T
1 T
16616467 CTTTCTTCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:16616459 original size:12 final size:12
Alignment explanation
Indices: 16616431--16616470 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
16616421 ACGTTTTTTC
16616431 TCTTTTTTGTTT
1 TCTTTTTTGTTT
16616443 T-TTTTTTGTTT
1 TCTTTTTTGTTT
16616454 TCTTTTTCT-TTT
1 TCTTTTT-TGTTT
16616466 TCTTT
1 TCTTT
16616471 CTTCGACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.42
12 14 0.54
13 1 0.04
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (12 bp):
TCTTTTTTGTTT
Found at i:16616471 original size:16 final size:15
Alignment explanation
Indices: 16616425--16616473 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
16616415 CCCTAAACGT
* *
16616425 TTTTTCTCTTTTTTG
1 TTTTTCTTTTTTTTC
*
16616440 TTTTTTTTTTGTTTTC
1 TTTTTCTTTT-TTTTC
16616456 TTTTTCTTTTTCTTTC
1 TTTTTCTTTTT-TTTC
16616472 TT
1 TT
16616474 CGACTTAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 9 0.32
16 19 0.68
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (15 bp):
TTTTTCTTTTTTTTC
Found at i:16642757 original size:11 final size:11
Alignment explanation
Indices: 16642741--16642776 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
16642731 TATTTTCTTC
16642741 TCTTCATTTCT
1 TCTTCATTTCT
16642752 TCTTCATTTCT
1 TCTTCATTTCT
16642763 TCTTCATTTCT
1 TCTTCATTTCT
16642774 TCT
1 TCT
16642777 CTAAGCCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TCTTCATTTCT
Found at i:16643318 original size:31 final size:30
Alignment explanation
Indices: 16643271--16643328 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
16643261 AAAATTTGGG
* **
16643271 GACCATTTAGTAATTTTTTAAAAGTTGGCA
1 GACCAATTAGTAATTTTGGAAAAGTTGGCA
16643301 GACCAATTAGGTAATTTTGGAAAAGTTG
1 GACCAATTA-GTAATTTTGGAAAAGTTG
16643329 TGAATGTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (30 bp):
GACCAATTAGTAATTTTGGAAAAGTTGGCA
Found at i:16643899 original size:24 final size:24
Alignment explanation
Indices: 16643872--16643920 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
16643862 TGCATGACAT
16643872 TGTACATAGACGTTCTATACATCA
1 TGTACATAGACGTTCTATACATCA
* * *
16643896 TGTATATAGATGTTTTATACATCA
1 TGTACATAGACGTTCTATACATCA
16643920 T
1 T
16643921 CAGGAATACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (24 bp):
TGTACATAGACGTTCTATACATCA
Found at i:16645871 original size:40 final size:40
Alignment explanation
Indices: 16645827--16645943 Score: 96
Period size: 40 Copynumber: 3.2 Consensus size: 40
16645817 GAAAATAAAT
16645827 TAAAATCTTAGAAATCCTTTCAATTAAATCAACAATTTAA
1 TAAAATCTTAGAAATCCTTTCAATTAAATCAACAATTTAA
* * *
16645867 TAAAATCATT--AATTAGC-TTCGA--AAAT---CAA--T--
1 TAAAATC-TTAGAAAT-CCTTTCAATTAAATCAACAATTTAA
*
16645897 TAAAATCTTAGAAATCCTTTCAATTAAATCAACAATTCAA
1 TAAAATCTTAGAAATCCTTTCAATTAAATCAACAATTTAA
16645937 TAAAATC
1 TAAAATC
16645944 ATTAACACAT
Statistics
Matches: 56, Mismatches: 7, Indels: 28
0.62 0.08 0.31
Matches are distributed among these distances:
29 2 0.04
30 8 0.14
31 7 0.12
32 1 0.02
33 4 0.07
34 3 0.05
36 3 0.05
37 4 0.07
39 7 0.12
40 15 0.27
41 2 0.04
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.33
Consensus pattern (40 bp):
TAAAATCTTAGAAATCCTTTCAATTAAATCAACAATTTAA
Found at i:16645916 original size:70 final size:70
Alignment explanation
Indices: 16645803--16645948 Score: 274
Period size: 70 Copynumber: 2.1 Consensus size: 70
16645793 GAAAGCAACA
*
16645803 CATTAATTAGCTTCGAAAATAAATTAAAATCTTAGAAATCCTTTCAATTAAATCAACAATTTAAT
1 CATTAATTAGCTTCGAAAATAAATTAAAATCTTAGAAATCCTTTCAATTAAATCAACAATTCAAT
16645868 AAAAT
66 AAAAT
*
16645873 CATTAATTAGCTTCGAAAATCAATTAAAATCTTAGAAATCCTTTCAATTAAATCAACAATTCAAT
1 CATTAATTAGCTTCGAAAATAAATTAAAATCTTAGAAATCCTTTCAATTAAATCAACAATTCAAT
16645938 AAAAT
66 AAAAT
16645943 CATTAA
1 CATTAA
16645949 CACATAGTCA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (70 bp):
CATTAATTAGCTTCGAAAATAAATTAAAATCTTAGAAATCCTTTCAATTAAATCAACAATTCAAT
AAAAT
Found at i:16651950 original size:20 final size:20
Alignment explanation
Indices: 16651912--16651950 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
16651902 AACAACGAAG
*
16651912 GGATCGATCTTTTTGAAAAA
1 GGATCGATCTCTTTGAAAAA
*
16651932 GGATCGAT-TCTTTGCAAAA
1 GGATCGATCTCTTTGAAAAA
16651951 TAGAAAGTTT
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:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
GGATCGATCTCTTTGAAAAA
Found at i:16663004 original size:29 final size:29
Alignment explanation
Indices: 16662972--16663066 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
16662962 GAATAATTGG
16662972 ATGACTATTTTATAACTTTTAATAGTCAA
1 ATGACTATTTTATAACTTTTAATAGTCAA
* ** *
16663001 ATGACTTAATAAAGTAACATTCT-ATAGTCAA
1 ATGAC-TATTTTA-TAAC-TTTTAATAGTCAA
* * *
16663032 AAGA-TCATTTTGTAACTTTTAATAGTCGA
1 ATGACT-ATTTTATAACTTTTAATAGTCAA
16663061 ATGACT
1 ATGACT
16663067 TAAAAAAGTA
Statistics
Matches: 48, Mismatches: 12, Indels: 11
0.68 0.17 0.15
Matches are distributed among these distances:
28 3 0.06
29 20 0.42
30 7 0.15
31 15 0.31
32 3 0.06
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.39
Consensus pattern (29 bp):
ATGACTATTTTATAACTTTTAATAGTCAA
Found at i:16663051 original size:60 final size:60
Alignment explanation
Indices: 16662978--16663090 Score: 181
Period size: 60 Copynumber: 1.9 Consensus size: 60
16662968 TTGGATGACT
* *
16662978 ATTTTATAACTTTTAATAGTCAAATGACTTAATAAAGTAACATTCTATAGTCAAAAGATC
1 ATTTTATAACTTTTAATAGTCAAATGACTTAAAAAAGTAACATCCTATAGTCAAAAGATC
* * *
16663038 ATTTTGTAACTTTTAATAGTCGAATGACTTAAAAAAGTAATATCCTATAGTCA
1 ATTTTATAACTTTTAATAGTCAAATGACTTAAAAAAGTAACATCCTATAGTCA
16663091 GGGGGCCATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.37
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTCAAATGACTTAAAAAAGTAACATCCTATAGTCAAAAGATC
Found at i:16666527 original size:28 final size:27
Alignment explanation
Indices: 16666467--16666528 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
16666457 TACACATTCA
16666467 AATTTAGTGTTAAGTTTAAAAAAATAT
1 AATTTAGTGTTAAGTTTAAAAAAATAT
*
16666494 AATTTAGTGTTAAGTTTAAAAAAATGT
1 AATTTAGTGTTAAGTTTAAAAAAATAT
16666521 AAGTTTAG
1 AA-TTTAG
16666529 ATAGTAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 28 0.85
28 5 0.15
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (27 bp):
AATTTAGTGTTAAGTTTAAAAAAATAT
Found at i:16666595 original size:24 final size:24
Alignment explanation
Indices: 16666566--16666614 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
16666556 AATACATTAA
16666566 ATCTTAACGGAGGATATTTAAATG
1 ATCTTAACGGAGGATATTTAAATG
** *
16666590 ATCTTATTGGATGATATTTAAATG
1 ATCTTAACGGAGGATATTTAAATG
16666614 A
1 A
16666615 AACAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (24 bp):
ATCTTAACGGAGGATATTTAAATG
Found at i:16667645 original size:40 final size:40
Alignment explanation
Indices: 16667570--16667645 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
16667560 ACACCAACTT
* *
16667570 AAAATGTTATGTGTTTGGGAACATTTAATGCTGCAAACAA
1 AAAATGTTATGTGGTTGGGAACATTTAAGGCTGCAAACAA
* *
16667610 AAAATGTTATGTGGTTGGTG-ACATTTCAGGTTGCAA
1 AAAATGTTATGTGGTTGG-GAACATTTAAGGCTGCAA
16667646 CTTAAAATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.97
41 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (40 bp):
AAAATGTTATGTGGTTGGGAACATTTAAGGCTGCAAACAA
Found at i:16667891 original size:25 final size:27
Alignment explanation
Indices: 16667835--16667901 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 27
16667825 GATTTATTAT
* *
16667835 AACTTTTGAAAAGTGACTTTTAGAAATA
1 AACTTTT-AAAAGTGACTTATAGAAACA
*
16667863 AACTTTTAAAAGTG-C-TATAGAAACG
1 AACTTTTAAAAGTGACTTATAGAAACA
16667888 AACTTTTAAAAGTG
1 AACTTTTAAAAGTG
16667902 TTGTGCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 21 0.58
26 1 0.03
27 7 0.19
28 7 0.19
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (27 bp):
AACTTTTAAAAGTGACTTATAGAAACA
Found at i:16668173 original size:17 final size:17
Alignment explanation
Indices: 16668102--16668163 Score: 70
Period size: 19 Copynumber: 3.4 Consensus size: 17
16668092 GAATTATATC
16668102 AATATAAATTATAATAAA
1 AATAT-AATTATAATAAA
*
16668120 AATATAAAAATATAAATAGAA
1 AATAT--AATTAT-AATA-AA
16668141 AATATAATTATAATAAA
1 AATATAATTATAATAAA
16668158 AATATA
1 AATATA
16668164 TTTTATATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 8 0.21
18 9 0.23
19 11 0.28
20 4 0.10
21 7 0.18
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
AATATAATTATAATAAA
Found at i:16674567 original size:141 final size:141
Alignment explanation
Indices: 16674313--16674592 Score: 418
Period size: 141 Copynumber: 2.0 Consensus size: 141
16674303 GTTGAGCCAA
* * *
16674313 TATGAGAGCTGTGATACGTAGAGAGTTGGTTAGAGATGTGCTACATTTAAAGTTTGTTGCAGGAG
1 TATGAGAGCTGTGATACGTAGAGAGTTAGTTAGAGATGTGCTACATGTAAAGTTTGTTGCAAGAG
* * *
16674378 CTGACATGGTTGTTAGAATGTCATATGACCAGCTGTTATAATTCTAGAAGTAGTCTAAGCCTATA
66 ATGACAGGGTTGTTAGAATGTCATATGACCAGCTGTTATAATTCTAGAAGCAGTCTAAGCCTATA
*
16674443 ATAAGAGTCTC
131 AAAAGAGTCTC
* * * *
16674454 TATGAGAGCTGTGCTACGTGGAGAGTTAGTTAGATG-TGTGCTACGTGTGAAGTTTGTTGCAAGA
1 TATGAGAGCTGTGATACGTAGAGAGTTAGTTAGA-GATGTGCTACATGTAAAGTTTGTTGCAAGA
* * *
16674518 GATGGCAGGGTTGTTATAATGTCATATGACCAGTTGTTATAATTCTAGAAGCAGTCTAAGCCTAT
65 GATGACAGGGTTGTTAGAATGTCATATGACCAGCTGTTATAATTCTAGAAGCAGTCTAAGCCTAT
16674583 AAAAAGAGTC
130 AAAAAGAGTC
16674593 ACTGTGTAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
141 123 0.99
142 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (141 bp):
TATGAGAGCTGTGATACGTAGAGAGTTAGTTAGAGATGTGCTACATGTAAAGTTTGTTGCAAGAG
ATGACAGGGTTGTTAGAATGTCATATGACCAGCTGTTATAATTCTAGAAGCAGTCTAAGCCTATA
AAAAGAGTCTC
Found at i:16676966 original size:25 final size:25
Alignment explanation
Indices: 16676938--16677016 Score: 122
Period size: 25 Copynumber: 3.2 Consensus size: 25
16676928 GAATATGAAA
* *
16676938 AGCCCTTGGTTTGAATGATTAAACC
1 AGCCCTTGGTTTGGATGATTAAATC
16676963 AGCCCTTGGTTTGGATGATTAAATC
1 AGCCCTTGGTTTGGATGATTAAATC
* *
16676988 AACCCTTAGTTTGGATGATTAAATC
1 AGCCCTTGGTTTGGATGATTAAATC
16677013 AGCC
1 AGCC
16677017 TTGAATGCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (25 bp):
AGCCCTTGGTTTGGATGATTAAATC
Found at i:16677441 original size:17 final size:17
Alignment explanation
Indices: 16677419--16677490 Score: 76
Period size: 17 Copynumber: 4.2 Consensus size: 17
16677409 AATTAAGAGT
16677419 TAGTTT-ATTAAATGAAC
1 TAGTTTAATT-AATGAAC
* *
16677436 TAGTTTGATGAATGAAC
1 TAGTTTAATTAATGAAC
16677453 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
*
16677470 TAACTTT-ATTCAATGAAC
1 T-AGTTTAATT-AATGAAC
16677488 TAG
1 TAG
16677491 ATGTATGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
17 33 0.70
18 14 0.30
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:16677484 original size:18 final size:18
Alignment explanation
Indices: 16677446--16677489 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
16677436 TAGTTTGATG
*
16677446 AATGAACT-AGTTTAATT
1 AATGAACTAACTTTAATT
16677463 AATGAACTAACTTT-ATT
1 AATGAACTAACTTTAATT
16677480 CAATGAACTA
1 -AATGAACTA
16677490 GATGTATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTAATT
Found at i:16677503 original size:17 final size:17
Alignment explanation
Indices: 16677419--16677503 Score: 73
Period size: 17 Copynumber: 4.9 Consensus size: 17
16677409 AATTAAGAGT
* *
16677419 TAGTTTATTAAATGAAC
1 TAGTTTAATGAATGAAC
*
16677436 TAGTTTGATGAATGAAC
1 TAGTTTAATGAATGAAC
*
16677453 TAGTTTAATTAATGAAC
1 TAGTTTAATGAATGAAC
* * *
16677470 TAACTTTATTCAATGAAC
1 T-AGTTTAATGAATGAAC
*
16677488 TAGATGT-ATGAATGAA
1 TAG-TTTAATGAATGAA
16677504 GTAGCTTACT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
17 38 0.70
18 16 0.30
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (17 bp):
TAGTTTAATGAATGAAC
Found at i:16677554 original size:17 final size:17
Alignment explanation
Indices: 16677532--16677576 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
16677522 TAAATATGCA
*
16677532 TAAATGAACTATTTCCC
1 TAAATGAACTACTTCCC
16677549 TAAATGAACTACTTCCC
1 TAAATGAACTACTTCCC
16677566 TAAATGAACTA
1 TAAATGAACTA
16677577 GATGCTTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (17 bp):
TAAATGAACTACTTCCC
Found at i:16684027 original size:34 final size:34
Alignment explanation
Indices: 16683988--16684112 Score: 223
Period size: 34 Copynumber: 3.7 Consensus size: 34
16683978 TTTTGTAAAG
16683988 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
*
16684022 GGGAAAAGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
*
16684056 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAATCTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
*
16684090 GGGAAAGGTTCTAGTTTAGCCCG
1 GGGAAAGGTTCTAGCTTAGCCCG
16684113 AAAAAACTAG
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 87 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (34 bp):
GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
Found at i:16685650 original size:29 final size:29
Alignment explanation
Indices: 16685605--16685662 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
16685595 GTTCTTGTTG
*
16685605 GATATACATATTCAGATATGGTCGGATAC
1 GATATACATATTCAGATATGGCCGGATAC
*
16685634 GATATACATATTTAGATATGGCCGGATAC
1 GATATACATATTCAGATATGGCCGGATAC
16685663 ATTGACTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (29 bp):
GATATACATATTCAGATATGGCCGGATAC
Found at i:16687861 original size:43 final size:43
Alignment explanation
Indices: 16687800--16687889 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
16687790 GAAAAGCGAT
* *
16687800 AATGCACTTTATTCACAATTAGAAATTATTGATACCTATGAAC
1 AATGCACTTCATTCACAATTAGAAAATATTGATACCTATGAAC
* ** *
16687843 AATGCTCTTCATTCACAATTAGAAAATATTGATGTCTATGGAC
1 AATGCACTTCATTCACAATTAGAAAATATTGATACCTATGAAC
16687886 AATG
1 AATG
16687890 GAGTATCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (43 bp):
AATGCACTTCATTCACAATTAGAAAATATTGATACCTATGAAC
Found at i:16694043 original size:20 final size:19
Alignment explanation
Indices: 16693997--16694034 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16693987 TACTGGAATC
*
16693997 CAAGGGATCGATACTTTTT
1 CAAGGGATCGATCCTTTTT
16694016 CAAGGGGATCGATCCTTTT
1 CAA-GGGATCGATCCTTTT
16694035 GATAAGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (19 bp):
CAAGGGATCGATCCTTTTT
Found at i:16697437 original size:30 final size:30
Alignment explanation
Indices: 16697372--16697439 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
16697362 TCTTTTGGTA
* * *
16697372 TTCGGGTCGGATTTTTTTTTAAATTTCGGG
1 TTCGGGTCGGATTTTTTTTAAAAATTCAGG
*
16697402 ATCGGGTC-GATTTTTTTTAAAAAATTCAGG
1 TTCGGGTCGGATTTTTTTT-AAAAATTCAGG
16697432 TTCGGGTC
1 TTCGGGTC
16697440 AGGTCAGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.19, C:0.12, G:0.25, T:0.44
Consensus pattern (30 bp):
TTCGGGTCGGATTTTTTTTAAAAATTCAGG
Found at i:16697475 original size:38 final size:38
Alignment explanation
Indices: 16697433--16697509 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
16697423 AAATTCAGGT
*
16697433 TCGGGTCAGGTCAGGTTTTTTTAAGTTTGATATTCGGG
1 TCGGGTCAGGTCAGGTTTTTTTAAGTGTGATATTCGGG
* *
16697471 TCGGGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGG
1 TCGGGTCAGGTCAGGTTTTTTTAAGTGTGATATTCGGG
16697509 T
1 T
16697510 TGAGTTCGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.13, C:0.10, G:0.35, T:0.42
Consensus pattern (38 bp):
TCGGGTCAGGTCAGGTTTTTTTAAGTGTGATATTCGGG
Found at i:16697594 original size:27 final size:27
Alignment explanation
Indices: 16697564--16697628 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
16697554 AGTTCGGGCT
*
16697564 GGGTCGGGTTTTTTAAGTTTGATATTC
1 GGGTCGGGTTTTTTAAGTGTGATATTC
*
16697591 GGGTCGGGTTTTTTAAGTGTGATATTT
1 GGGTCGGGTTTTTTAAGTGTGATATTC
*
16697618 GGGTCGAGTTT
1 GGGTCGGGTTT
16697629 AGGGTTTAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.14, C:0.06, G:0.34, T:0.46
Consensus pattern (27 bp):
GGGTCGGGTTTTTTAAGTGTGATATTC
Found at i:16698147 original size:18 final size:17
Alignment explanation
Indices: 16698104--16698152 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
16698094 GTTTCAGATT
* *
16698104 CAGATTTCAATTCCTGA
1 CAGATTCCAATTCCTCA
*
16698121 CAAATTCCAATTCCTTCA
1 CAGATTCCAATTCC-TCA
16698139 CAGATTCCAATTCC
1 CAGATTCCAATTCC
16698153 CTCAGAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.33
Consensus pattern (17 bp):
CAGATTCCAATTCCTCA
Found at i:16706389 original size:28 final size:29
Alignment explanation
Indices: 16706348--16706407 Score: 104
Period size: 28 Copynumber: 2.1 Consensus size: 29
16706338 TGCAATACTC
*
16706348 AAAATGATGCAAATATTACATTTTAATAT
1 AAAATGATCCAAATATTACATTTTAATAT
16706377 AAAA-GATCCAAATATTACATTTTAATAT
1 AAAATGATCCAAATATTACATTTTAATAT
16706405 AAA
1 AAA
16706408 TTCTTAACAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 26 0.87
29 4 0.13
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATGATCCAAATATTACATTTTAATAT
Found at i:16707630 original size:40 final size:39
Alignment explanation
Indices: 16707567--16707834 Score: 258
Period size: 40 Copynumber: 6.7 Consensus size: 39
16707557 ATTCTATTAA
** * *
16707567 TTAGGTGTGTATCCTATATAATACATCACCATTTTCATAT
1 TTAGGTGTGTA-CCCGTACAATACATCACCACTTTCATAT
* * ** *
16707607 TTCGTTGTGTACCTCGTACAATACATCA-CA-TTGCTTGTAA
1 TTAGGTGTGTACC-CGTACAATACATCACCACTT--TCATAT
* *
16707647 TTGGGTGTGTATCCCGTACAATAAATCACCACTTTCATAT
1 TTAGGTGTGTA-CCCGTACAATACATCACCACTTTCATAT
*
16707687 TTAGGTGTGTACCCCGTACAATGCATCACCTTACTTGT-A-A-
1 TTAGGTGTGTA-CCCGTACAATACATCACC--ACTT-TCATAT
* *
16707727 TTGGGTGTGTATCCCATACAATACATCACCACTTTCATAT
1 TTAGGTGTGTA-CCCGTACAATACATCACCACTTTCATAT
16707767 TTAGGTGTGTACCCTGTACAATACATCACCACTTTCATAT
1 TTAGGTGTGTACCC-GTACAATACATCACCACTTTCATAT
*
16707807 TTAGGTGTGTACCCTGTATAATACATCA
1 TTAGGTGTGTACCC-GTACAATACATCA
16707835 TCTTACTTTT
Statistics
Matches: 190, Mismatches: 25, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
37 1 0.01
38 7 0.04
39 8 0.04
40 161 0.85
41 5 0.03
42 7 0.04
43 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (39 bp):
TTAGGTGTGTACCCGTACAATACATCACCACTTTCATAT
Found at i:16707786 original size:120 final size:120
Alignment explanation
Indices: 16707650--16707877 Score: 350
Period size: 120 Copynumber: 1.9 Consensus size: 120
16707640 CTTGTAATTG
*
16707650 GGTGTGTATCCCGTACAATAAATCACCACTTTCATATTTAGGTGTGTACCCCGTACAATGCATCA
1 GGTGTGTATCCCGTACAATAAATCACCACTTTCATATTTAGGTGTGTACCCCGTACAATACATCA
*
16707715 CCTTACTTGTAATTGGGTGTGTATCCCATACAATACATCACCACTTTCATATTTA
66 CCTTACTTGTAATTGGGTGTATATCCCATACAATACATCACCACTTTCATATTTA
* * *
16707770 GGTGTGTA-CCCTGTACAATACATCACCACTTTCATATTTAGGTGTGTACCCTGTATAATACATC
1 GGTGTGTATCCC-GTACAATAAATCACCACTTTCATATTTAGGTGTGTACCCCGTACAATACATC
* * * * *
16707834 ATCTTACTTTTAATTGGGTGTATATTCCGTGCAATACATCACCA
65 ACCTTACTTGTAATTGGGTGTATATCCCATACAATACATCACCA
16707878 TTGTACCTAT
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
119 3 0.03
120 94 0.97
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (120 bp):
GGTGTGTATCCCGTACAATAAATCACCACTTTCATATTTAGGTGTGTACCCCGTACAATACATCA
CCTTACTTGTAATTGGGTGTATATCCCATACAATACATCACCACTTTCATATTTA
Found at i:16707796 original size:80 final size:80
Alignment explanation
Indices: 16707564--16707796 Score: 342
Period size: 80 Copynumber: 2.9 Consensus size: 80
16707554 AACATTCTAT
* * * * * *
16707564 TAATTAGGTGTGTATCCTATATAATACATCACCATTTTCATATTTCGTTGTGTA-CCTCGTACAA
1 TAATTGGGTGTGTATCCCATACAATACATCACCACTTTCATATTTAGGTGTGTACCCT-GTACAA
* *
16707628 TACATCACATTGCTTG
65 TACATCACCTTACTTG
* * *
16707644 TAATTGGGTGTGTATCCCGTACAATAAATCACCACTTTCATATTTAGGTGTGTACCCCGTACAAT
1 TAATTGGGTGTGTATCCCATACAATACATCACCACTTTCATATTTAGGTGTGTACCCTGTACAAT
*
16707709 GCATCACCTTACTTG
66 ACATCACCTTACTTG
16707724 TAATTGGGTGTGTATCCCATACAATACATCACCACTTTCATATTTAGGTGTGTACCCTGTACAAT
1 TAATTGGGTGTGTATCCCATACAATACATCACCACTTTCATATTTAGGTGTGTACCCTGTACAAT
16707789 ACATCACC
66 ACATCACC
16707797 ACTTTCATAT
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
80 134 0.99
81 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (80 bp):
TAATTGGGTGTGTATCCCATACAATACATCACCACTTTCATATTTAGGTGTGTACCCTGTACAAT
ACATCACCTTACTTG
Found at i:16707814 original size:80 final size:79
Alignment explanation
Indices: 16707566--16707834 Score: 298
Period size: 80 Copynumber: 3.4 Consensus size: 79
16707556 CATTCTATTA
* * * * *
16707566 ATTAGGTGTGTATCCTATATAATACATCACCATTTTCATATTTCGTTGTGTA-CCTCGTACAATA
1 ATTAGGTGTGTATCCCATACAATACATCACCACTTTCATATTTAGGTGTGTACCCT-GTACAATA
16707630 CATCA-CATTGCTTGTA-
65 CATCACCA---CTTGTAT
* * * * *
16707646 ATTGGGTGTGTATCCCGTACAATAAATCACCACTTTCATATTTAGGTGTGTACCCCGTACAATGC
1 ATTAGGTGTGTATCCCATACAATACATCACCACTTTCATATTTAGGTGTGTACCCTGTACAATAC
16707711 ATCACCTTACTTGTA-
66 ATCACC--ACTTGTAT
*
16707726 ATTGGGTGTGTATCCCATACAATACATCACCACTTTCATATTTAGGTGTGTACCCTGTACAATAC
1 ATTAGGTGTGTATCCCATACAATACATCACCACTTTCATATTTAGGTGTGTACCCTGTACAATAC
16707791 ATCACCACTT-TCAT
66 ATCACCACTTGT-AT
* *
16707805 ATTTAGGTGTGTA-CCCTGTATAATACATCA
1 A-TTAGGTGTGTATCCC-ATACAATACATCA
16707835 TCTTACTTTT
Statistics
Matches: 164, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 5 0.03
79 4 0.02
80 150 0.91
81 3 0.02
83 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (79 bp):
ATTAGGTGTGTATCCCATACAATACATCACCACTTTCATATTTAGGTGTGTACCCTGTACAATAC
ATCACCACTTGTAT
Found at i:16707854 original size:40 final size:39
Alignment explanation
Indices: 16707564--16707877 Score: 228
Period size: 40 Copynumber: 7.9 Consensus size: 39
16707554 AACATTCTAT
* * * *
16707564 TAATTAGGTGTGTATCCTATATAATACATCACCATTTTCA
1 TAATTAGGTGTGTACCCTGTACAATACATCACCACTTT-A
* * * * *
16707604 TATTTCGTTGTGTA-CCTCGTACAATACATCA-CATTGCTTG
1 TAATTAGGTGTGTACCCT-GTACAATACATCACCACT--TTA
* *
16707644 TAATTGGGTGTGTATCCC-GTACAATAAATCACCACTTTCA
1 TAATTAGGTGTGTA-CCCTGTACAATACATCACCACTTT-A
* * * *
16707684 TATTTAGGTGTGTACCCCGTACAATGCATCACCTTAC-TTG
1 TAATTAGGTGTGTACCCTGTACAATACATCACC--ACTTTA
* *
16707724 TAATTGGGTGTGTATCCC-ATACAATACATCACCACTTTCA
1 TAATTAGGTGTGTA-CCCTGTACAATACATCACCACTTT-A
*
16707764 TATTTAGGTGTGTACCCTGTACAATACATCACCACTTTCA
1 TAATTAGGTGTGTACCCTGTACAATACATCACCACTTT-A
* * *
16707804 TATTTAGGTGTGTACCCTGTATAATACATCATCTTACTTT-
1 TAATTAGGTGTGTACCCTGTACAATACATCA-C-CACTTTA
* * * *
16707844 TAATTGGGTGTATATTCC-GTGCAATACATCACCA
1 TAATTAGGTGTGTA-CCCTGTACAATACATCACCA
16707878 TTGTACCTAT
Statistics
Matches: 223, Mismatches: 34, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
38 3 0.01
39 18 0.08
40 180 0.81
41 13 0.06
42 9 0.04
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (39 bp):
TAATTAGGTGTGTACCCTGTACAATACATCACCACTTTA
Found at i:16707955 original size:20 final size:19
Alignment explanation
Indices: 16707913--16708085 Score: 111
Period size: 19 Copynumber: 8.7 Consensus size: 19
16707903 CCATAATTTG
16707913 AAATTTGGTTTCTAACCCT--
1 AAATTTGGTTTC-AA-CCTAA
*
16707932 AAATTGTGGTTTTAACCTAA
1 AAATT-TGGTTTCAACCTAA
** * *
16707952 AAATCAGGTTTTAACCTCA
1 AAATTTGGTTTCAACCTAA
*
16707971 AATTTTAGGTTTCCAACCTAA
1 AAATTT-GGTTT-CAACCTAA
* *
16707992 AAATTTGATTTCAACCTAG
1 AAATTTGGTTTCAACCTAA
* *
16708011 AAGTTAAGGTTTCCAACCTAA
1 AAATT-TGGTTT-CAACCTAA
*
16708032 AAATCTT-GTTTCAACCTTA
1 AAAT-TTGGTTTCAACCTAA
*
16708051 AAATTTAGGTTTCCAACATAA
1 AAATTT-GGTTT-CAACCTAA
16708072 AAATCTT-GTTTCAA
1 AAAT-TTGGTTTCAA
16708086 TATGGAGCTC
Statistics
Matches: 121, Mismatches: 21, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
18 5 0.04
19 47 0.39
20 35 0.29
21 31 0.26
22 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.37
Consensus pattern (19 bp):
AAATTTGGTTTCAACCTAA
Found at i:16707994 original size:40 final size:39
Alignment explanation
Indices: 16707945--16708085 Score: 165
Period size: 40 Copynumber: 3.5 Consensus size: 39
16707935 TTGTGGTTTT
* * *
16707945 AACCTAAAAATCAGGTTTTAACCTCAAATTTTAGGTTTCC
1 AACCTAAAAATCTGGTTTCAACCT-AAAATTTAGGTTTCC
* * * *
16707985 AACCTAAAAATTTGATTTCAACCTAGAAGTTAAGGTTTCC
1 AACCTAAAAATCTGGTTTCAACCTA-AAATTTAGGTTTCC
*
16708025 AACCTAAAAATCTTGTTTCAACCTTAAAATTTAGGTTTCC
1 AACCTAAAAATCTGGTTTCAACC-TAAAATTTAGGTTTCC
* *
16708065 AACATAAAAATCTTGTTTCAA
1 AACCTAAAAATCTGGTTTCAA
16708086 TATGGAGCTC
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 84 0.97
41 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (39 bp):
AACCTAAAAATCTGGTTTCAACCTAAAATTTAGGTTTCC
Found at i:16708027 original size:21 final size:20
Alignment explanation
Indices: 16707945--16708075 Score: 99
Period size: 20 Copynumber: 6.5 Consensus size: 20
16707935 TTGTGGTTTT
* *
16707945 AACCTAAAAATCAGGTTT-T
1 AACCTAAAAATTAGGTTTCC
**
16707964 AACCTCAAATTTTAGGTTTCC
1 AACCT-AAAAATTAGGTTTCC
* *
16707985 AACCTAAAAATTTGATTT-C
1 AACCTAAAAATTAGGTTTCC
* *
16708004 AACCTAGAAGTTAAGGTTTCC
1 AACCTAAAAATT-AGGTTTCC
*
16708025 AACCTAAAAATCT-TGTTT-C
1 AACCTAAAAAT-TAGGTTTCC
*
16708044 AACCTTAAAATTTAGGTTTCC
1 AACC-TAAAAATTAGGTTTCC
*
16708065 AACATAAAAAT
1 AACCTAAAAAT
16708076 CTTGTTTCAA
Statistics
Matches: 85, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
19 22 0.26
20 43 0.51
21 19 0.22
22 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (20 bp):
AACCTAAAAATTAGGTTTCC
Found at i:16718015 original size:306 final size:306
Alignment explanation
Indices: 16717462--16718073 Score: 1170
Period size: 306 Copynumber: 2.0 Consensus size: 306
16717452 AAGCTTGATG
*
16717462 GCCTTTGAGAGAAGCAACAACGCTCGGGTGGTTCACAGTAATCCGCAATAGCTTTTGGCTTGGAA
1 GCCTTTGAGAGAAGCAACAACGCTCGGGTGGTTCACAGTAATCCGCAACAGCTTTTGGCTTGGAA
*
16717527 GTTTTCTTCCTCATTTAGTTGTTATTTATTTTCTTTGTCTTTTACTGGTTATGGGTTGTATTAAA
66 GTTTTCTTCCTCATTTAATTGTTATTTATTTTCTTTGTCTTTTACTGGTTATGGGTTGTATTAAA
16717592 TAGATGATTATGGATGCTAATTACCTAGCCATGAACTAGCTTAAGCTGGCTTGGGTTTATCTTTG
131 TAGATGATTATGGATGCTAATTACCTAGCCATGAACTAGCTTAAGCTGGCTTGGGTTTATCTTTG
16717657 ATAAATTTGTATCATGTTTAAATGTTTTGTTATAACTTTTCCAGTTTATATACATGATTTTCTCA
196 ATAAATTTGTATCATGTTTAAATGTTTTGTTATAACTTTTCCAGTTTATATACATGATTTTCTCA
16717722 TTGATTATACTTTAATCGCTTAGACTTGTAAGAGCTTTCGAGTGTT
261 TTGATTATACTTTAATCGCTTAGACTTGTAAGAGCTTTCGAGTGTT
*
16717768 GCCTTTGAGAGAAGCAACAACGCTTGGGTGGTTCACAGTAATCCGCAACAGCTTTTGGCTTGGAA
1 GCCTTTGAGAGAAGCAACAACGCTCGGGTGGTTCACAGTAATCCGCAACAGCTTTTGGCTTGGAA
16717833 GTTTTCTTCCTCATTTAATTGTTATTTATTTTCTTTGTCTTTTACTGGTTATGGGTTGTATTAAA
66 GTTTTCTTCCTCATTTAATTGTTATTTATTTTCTTTGTCTTTTACTGGTTATGGGTTGTATTAAA
16717898 TAGATGATTATGGATGCTAATTACCTAGCCATGAACTAGCTTAAGCTGGCTTGGGTTTATCTTTG
131 TAGATGATTATGGATGCTAATTACCTAGCCATGAACTAGCTTAAGCTGGCTTGGGTTTATCTTTG
* *
16717963 ATAAATTTGTATCGTGTTTAAATGTTTTGTTGTAACTTTTCCAGTTTATATACATGATTTTCTCA
196 ATAAATTTGTATCATGTTTAAATGTTTTGTTATAACTTTTCCAGTTTATATACATGATTTTCTCA
*
16718028 TTGATTATACTTTAATCGCTTAGACTTGTAAGAGCTTTTGAGTGTT
261 TTGATTATACTTTAATCGCTTAGACTTGTAAGAGCTTTCGAGTGTT
16718074 AGCCATTTTC
Statistics
Matches: 300, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
306 300 1.00
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (306 bp):
GCCTTTGAGAGAAGCAACAACGCTCGGGTGGTTCACAGTAATCCGCAACAGCTTTTGGCTTGGAA
GTTTTCTTCCTCATTTAATTGTTATTTATTTTCTTTGTCTTTTACTGGTTATGGGTTGTATTAAA
TAGATGATTATGGATGCTAATTACCTAGCCATGAACTAGCTTAAGCTGGCTTGGGTTTATCTTTG
ATAAATTTGTATCATGTTTAAATGTTTTGTTATAACTTTTCCAGTTTATATACATGATTTTCTCA
TTGATTATACTTTAATCGCTTAGACTTGTAAGAGCTTTCGAGTGTT
Found at i:16720337 original size:17 final size:16
Alignment explanation
Indices: 16720317--16720363 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
16720307 TTATTTCCCA
16720317 AATATTTTTTATAAATT
1 AATATTTTTT-TAAATT
*
16720334 AATATTTTTTTATATT
1 AATATTTTTTTAAATT
*
16720350 AACATTTTTCTTAA
1 AATATTTTT-TTAA
16720364 CTTATTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
AATATTTTTTTAAATT
Found at i:16720350 original size:16 final size:17
Alignment explanation
Indices: 16720317--16720358 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
16720307 TTATTTCCCA
16720317 AATATTTTTTATAAATT
1 AATATTTTTTATAAATT
*
16720334 AATATTTTTT-TATATT
1 AATATTTTTTATAAATT
*
16720350 AACATTTTT
1 AATATTTTT
16720359 CTTAACTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
AATATTTTTTATAAATT
Found at i:16726790 original size:21 final size:21
Alignment explanation
Indices: 16726757--16726797 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16726747 TTTTTATTTC
*
16726757 TTTTTATAAATTAATATTTTA
1 TTTTTATAAATTAACATTTTA
* *
16726778 TTTTTTTATATTAACATTTT
1 TTTTTATAAATTAACATTTT
16726798 TCTTAACTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTATAAATTAACATTTTA
Found at i:16726843 original size:3 final size:3
Alignment explanation
Indices: 16726837--16726867 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
16726827 TTATTTTACC
*
16726837 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
16726868 CGTAACCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:16727402 original size:23 final size:24
Alignment explanation
Indices: 16727338--16727408 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 24
16727328 GCCCATTTTT
16727338 TAAT-ATTAAAAAA-TAA-ATAAA
1 TAATAATTAAAAAATTAATATAAA
* * **
16727359 TATTAA-TAAAACATTTCTATAAA
1 TAATAATTAAAAAATTAATATAAA
*
16727382 -AATAATTAAAAAATTAATATATA
1 TAATAATTAAAAAATTAATATAAA
16727405 TAAT
1 TAAT
16727409 TTATAAAAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 7
0.69 0.17 0.13
Matches are distributed among these distances:
21 9 0.25
22 6 0.17
23 18 0.50
24 3 0.08
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (24 bp):
TAATAATTAAAAAATTAATATAAA
Found at i:16727666 original size:29 final size:30
Alignment explanation
Indices: 16727612--16727668 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
16727602 ATTACAATTA
16727612 AATAGCGACTAAAACATATAAAATTAAAGT
1 AATAGCGACTAAAACATATAAAATTAAAGT
* *
16727642 AATAG-GATTAAAATATA-AAATATTAAA
1 AATAGCGACTAAAACATATAAA-ATTAAA
16727669 ATTTACAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 16 0.67
30 5 0.21
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (30 bp):
AATAGCGACTAAAACATATAAAATTAAAGT
Found at i:16728818 original size:3 final size:3
Alignment explanation
Indices: 16728810--16728883 Score: 67
Period size: 3 Copynumber: 24.3 Consensus size: 3
16728800 TATTTTTATT
* * * * *
16728810 TAA TAA TAA TAA TAA TAA TTA TAA TAA TAC TAC TAA TATT TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
* * *
16728856 TAA TAA TAG TAA TAT TAA AAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
16728884 TTAAGTAAAA
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
3 54 0.96
4 2 0.04
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:16729184 original size:45 final size:45
Alignment explanation
Indices: 16729119--16729230 Score: 199
Period size: 45 Copynumber: 2.5 Consensus size: 45
16729109 TCAAAAAGCT
*
16729119 CCCGAAGGCTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG-TTTTGAAAACATCATGCACTGAAGGGATTACAGATGA
16729165 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGATTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGATTACAGATGA
16729210 CCCGAAGGTTTTG-AAACATCA
1 CCCGAAGGTTTTGAAAACATCA
16729231 AAAAGCTCCC
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
44 8 0.12
45 49 0.75
46 8 0.12
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGATTACAGATGA
Found at i:16729254 original size:75 final size:74
Alignment explanation
Indices: 16729165--16729306 Score: 189
Period size: 75 Copynumber: 1.9 Consensus size: 74
16729155 TTACAGATGA
16729165 CCCGAAGGTTTTGAAAACATCATGCACTGA-AGGGATTACAGATGACCCGAAGGTTTTGAAA-CA
1 CCCGAAGGTTTTGAAAACATCATGCACT-ACAGGGATTACAGATGACCCGAAGGTTTTGAAAGCA
16729228 TCAAAAAGCT
65 TCAAAAAGCT
* * ** **
16729238 CCCGAAGGCTTCTTGAAAACATCCTGCACTACATGTCTTATGGATGACCCGAAGGTTTTGAAAGC
1 CCCGAAGG-TT-TTGAAAACATCATGCACTACAGGGATTACAGATGACCCGAAGGTTTTGAAAGC
16729303 ATCA
64 ATCA
16729307 TGCAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
73 8 0.14
74 3 0.05
75 43 0.73
76 5 0.08
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACATCATGCACTACAGGGATTACAGATGACCCGAAGGTTTTGAAAGCAT
CAAAAAGCT
Found at i:16729254 original size:120 final size:120
Alignment explanation
Indices: 16729041--16729471 Score: 605
Period size: 120 Copynumber: 3.6 Consensus size: 120
16729031 GGTTTTACGA
** * * * *
16729041 ATGACCCGAACATTTTTAAAATATCATCCACTGAAGGGCTTACAGATGACTCGAAGGCTTTGAAA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTG-AA
* * * **
16729106 ATATCAAAAAGCTCCCGAAGGCTT-TTGAAAACATCATGCACTGAAGGGCTTACAG
65 ACATCAAAAAGCTCCCGAAGGCTTCTTGAAAACATCCTGCACTGAAGGTCTTATGG
* *
16729161 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGATTACAGATGACCCGAAGGTTTTGAAA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
*
16729226 CATCAAAAAGCTCCCGAAGGCTTCTTGAAAACATCCTGCACT-ACATGTCTTATGG
66 CATCAAAAAGCTCCCGAAGGCTTCTTGAAAACATCCTGCACTGA-AGGTCTTATGG
* * * *
16729281 ATGACCCGAAGGTTTTGAAAGCATCATGCAATGAAAGTCTTACAGATGACCCGAAGGCTTTGAAA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
* *
16729346 CATCAAAAAGCTCCTGAAGGCTTCTTGAAAACATCCTGCACTGTAGGTCTTATGG
66 CATCAAAAAGCTCCCGAAGGCTTCTTGAAAACATCCTGCACTGAAGGTCTTATGG
* ** *
16729401 ATGACCCGAAGGTTTTGAAAACATGATGCACTGAAGGGCTTATTGATGACCCGAAGGTTTTGACA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGA-A
16729466 ACATCA
65 ACATCA
16729472 TGCACTGAAG
Statistics
Matches: 276, Mismatches: 31, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
119 26 0.09
120 243 0.88
121 7 0.03
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (120 bp):
ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
CATCAAAAAGCTCCCGAAGGCTTCTTGAAAACATCCTGCACTGAAGGTCTTATGG
Found at i:16729431 original size:45 final size:45
Alignment explanation
Indices: 16729361--16729538 Score: 248
Period size: 45 Copynumber: 3.9 Consensus size: 45
16729351 AAAAGCTCCT
* * * *
16729361 GAAGGCTTCTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCC
1 GAAGG-TT-TTGAAAACATCATGCACTGAAGGGCTTATAGATGACCC
* *
16729408 GAAGGTTTTGAAAACATGATGCACTGAAGGGCTTATTGATGACCC
1 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCC
* * *
16729453 GAAGGTTTTGACAACATCATGCACTGAAGGGCTTACAAATGACCC
1 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCC
*
16729498 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
1 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGATG
16729539 TGGGAAATAG
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 112 0.94
46 2 0.02
47 5 0.04
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (45 bp):
GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCC
Found at i:16730695 original size:54 final size:53
Alignment explanation
Indices: 16730613--16730762 Score: 201
Period size: 54 Copynumber: 2.8 Consensus size: 53
16730603 CGTAACACAT
**
16730613 TTTGACAACACATTCATTCTTTTATGTGGTTTCTACTCAGATGTTCATAAAGAA
1 TTTGACAACACATTCA-TCTTTCCTGTGGTTTCTACTCAGATGTTCATAAAGAA
* * * **
16730667 TTTGACAACACATTCATCATTTCCTGTGGTTTCTACCCATATGTTCGTAAATCA
1 TTTGACAACACATTCATC-TTTCCTGTGGTTTCTACTCAGATGTTCATAAAGAA
*
16730721 TTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
1 TTTGACAACACATTCAT-CTTTCCTGTGGTTTCTACTCAGAT
16730763 TTCTCATCAA
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 2 0.02
54 81 0.96
55 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (53 bp):
TTTGACAACACATTCATCTTTCCTGTGGTTTCTACTCAGATGTTCATAAAGAA
Found at i:16731759 original size:75 final size:75
Alignment explanation
Indices: 16731631--16731788 Score: 196
Period size: 75 Copynumber: 2.1 Consensus size: 75
16731621 TGATATAGAT
* * *
16731631 CTTT-AGCATGCCCCAACATTGGCTAATACAAACGTTCAAAACACATCAATATTCCTGATTCTGA
1 CTTTCAGCATGCCCCAACATTGGCCAATACAAACGTTCAAAAAACATCAATATTCCTGATTATGA
16731695 TT-GAAAGGG
66 TTGGAAAGGG
* ** * *
16731704 ACTTTCAGCATGCCCCAGCATTGGCCAATACAAACGTT-AAAAAAGTGTTAGTATTCCTGATTAT
1 -CTTTCAGCATGCCCCAACATTGGCCAATACAAACGTTCAAAAAA-CATCAATATTCCTGATTAT
*
16731768 GATTGGAATGGG
64 GATTGGAAAGGG
16731780 CTTTCAGCA
1 CTTTCAGCA
16731789 AGCTCTATCA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
74 9 0.12
75 57 0.79
76 6 0.08
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (75 bp):
CTTTCAGCATGCCCCAACATTGGCCAATACAAACGTTCAAAAAACATCAATATTCCTGATTATGA
TTGGAAAGGG
Found at i:16733743 original size:16 final size:16
Alignment explanation
Indices: 16733722--16733753 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16733712 TCAATCTTTC
16733722 CTTGCTTGACTTGGAT
1 CTTGCTTGACTTGGAT
16733738 CTTGCTTGACTTGGAT
1 CTTGCTTGACTTGGAT
16733754 ATGCTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.44
Consensus pattern (16 bp):
CTTGCTTGACTTGGAT
Found at i:16733954 original size:9 final size:9
Alignment explanation
Indices: 16733934--16733999 Score: 102
Period size: 9 Copynumber: 7.7 Consensus size: 9
16733924 CTTGATTCAA
16733934 TTTTTTCC-
1 TTTTTTCCT
16733942 TTTTTTCCT
1 TTTTTTCCT
16733951 TTTTTTCCT
1 TTTTTTCCT
16733960 TTTTTTCCT
1 TTTTTTCCT
16733969 TTTTTTCC-
1 TTTTTTCCT
16733977 TTTTTT-CT
1 TTTTTTCCT
*
16733985 TGTTTTCCT
1 TTTTTTCCT
16733994 TTTTTT
1 TTTTTT
16734000 ATGGATGAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
7 1 0.02
8 19 0.36
9 33 0.62
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTTTTCCT
Found at i:16738354 original size:85 final size:84
Alignment explanation
Indices: 16738208--16738642 Score: 381
Period size: 85 Copynumber: 5.1 Consensus size: 84
16738198 AAGGTAATTA
* ** *
16738208 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGATTTTTTGCGGCGTTTGTGTCCAAAAACG
1 GCGGCGTTTGTATC-AAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTTCAAAAACG
*
16738273 CCGCTCTAGGTCTGACCTTTT
65 CCG-TATAGGTCTGACCTTTT
** ** *
16738294 GCGGCGTTTGT-TCTAAAAACGCCAATATAGGTCTTCCCTTTTGCGGCGTTTGTGTTCAAAAATG
1 GCGGCGTTTGTATC-AAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTTCAAAAACG
16738358 CCGTTATAGGTCTGACCTTTT
65 CCG-TATAGGTCTGACCTTTT
* *
16738379 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTTACGGCG-TT-TGTTCTAAAAAC
1 GCGGCGTTTGTAT-CAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTTC-AAAAAC
**
16738442 GCCAGTATAGGT-TTTCTCTTTT
64 GCC-GTATAGGTCTGAC-CTTTT
* *
16738464 GCGGCGTTTGTATCATAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTCTAG---AAAAAC
1 GCGGCGTTTGTATCA-AAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGT-GTTCAAAAAC
** *
16738526 GCCGCTATATATCAT-AACTTTT
64 GCCG-TATAGGTC-TGACCTTTT
* * * *
16738548 ACGGCG-TT-TACTCCAAAAACGCCTCTATAGATATCGACCTTTTGCGGCG-TT-TGTTCAAAAA
1 GCGGCGTTTGTA-T-CAAAAACGCCGCTATAGGTCT-GACCTTTTGCGGCGTTTGTGTTC-AAAA
* * * *
16738609 ACGCTGTAATAGATATTGACCTATT
62 ACGCCGT-ATAGGT-CTGACCTTTT
16738634 GCGGCGTTT
1 GCGGCGTTT
16738643 TTTGTTCTCA
Statistics
Matches: 290, Mismatches: 36, Indels: 45
0.78 0.10 0.12
Matches are distributed among these distances:
81 1 0.00
82 3 0.01
83 23 0.08
84 50 0.17
85 153 0.53
86 55 0.19
87 4 0.01
88 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (84 bp):
GCGGCGTTTGTATCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTTCAAAAACGC
CGTATAGGTCTGACCTTTT
Found at i:16738436 original size:128 final size:126
Alignment explanation
Indices: 16738208--16738642 Score: 504
Period size: 128 Copynumber: 3.4 Consensus size: 126
16738198 AAGGTAATTA
**
16738208 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGATTTTTTGCGGCGTTTGTGTCCAAAAACG
1 GCGGCGTTTGTATC-AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTGTCCAAAAACG
* *
16738273 CCGCTCTAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGCCAATATAGGTCTTCCCTTTT
65 CCGCTATAGGTCTGACCTTTTACGGCGTTTGTTCTAAAAACGCCAATATAGGT-TTCCCTTTT
* * * *
16738336 GCGGCGTTTGTGTTCAAAAATGCCGTTATAGGTCTGACCTTTTGCGGCGTTTGTGTCCAAAAACG
1 GCGGCGTTTGT-ATCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTGTCCAAAAACG
* *
16738401 CCGCTATAGGTCTGACCTTTTACGGCGTTTGTTCTAAAAACGCCAGTATAGGTTTTCTCTTTT
65 CCGCTATAGGTCTGACCTTTTACGGCGTTTGTTCTAAAAACGCCAATATAGG-TTTCCCTTTT
*
16738464 GCGGCGTTTGTATCATAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTCTAG---AAAAAC
1 GCGGCGTTTGTATCA-AAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGT-GTCCAAAAAC
** * ** * ** * *
16738526 GCCGCTATATATCAT-AACTTTTACGGCGTTTACTCCAAAAACGCCTCTATAGATATCGACCTTT
64 GCCGCTATAGGTC-TGACCTTTTACGGCGTTTGTTCTAAAAACGCCAATATAGGTTTC--CCTTT
16738590 T
126 T
* * *
16738591 GCGGCGTTTGT-TCAAAAAACGCTG-TAATAGATATTGACCTATTGCGGCGTTT
1 GCGGCGTTTGTATC-AAAAACGCCGCT-ATAGAT-CTGACCTTTTGCGGCGTTT
16738643 TTTGTTCTCA
Statistics
Matches: 268, Mismatches: 29, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
125 4 0.01
126 64 0.24
127 38 0.14
128 158 0.59
129 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (126 bp):
GCGGCGTTTGTATCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTGTCCAAAAACGC
CGCTATAGGTCTGACCTTTTACGGCGTTTGTTCTAAAAACGCCAATATAGGTTTCCCTTTT
Found at i:16738621 original size:43 final size:42
Alignment explanation
Indices: 16738208--16738642 Score: 398
Period size: 43 Copynumber: 10.2 Consensus size: 42
16738198 AAGGTAATTA
**
16738208 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGATTTTTT
1 GCGGCGTTTGT-TCAAAAAACGCCGCTATAGATCTGACCTTTT
* * *
16738251 GCGGCGTTTGTGTCCAAAAACGCCGCTCTAGGTCTGACCTTTT
1 GCGGCGTTTGT-TCAAAAAACGCCGCTATAGATCTGACCTTTT
* ** * **
16738294 GCGGCGTTTGTTCTAAAAACGCCAATATAGGTCTTCCCTTTT
1 GCGGCGTTTGTTCAAAAAACGCCGCTATAGATCTGACCTTTT
* * *
16738336 GCGGCGTTTGTGTTC-AAAAATGCCGTTATAGGTCTGACCTTTT
1 GCGGCG-TT-TGTTCAAAAAACGCCGCTATAGATCTGACCTTTT
* *
16738379 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTT
1 GCGGCGTTTGT-TCAAAAAACGCCGCTATAGATCTGACCTTTT
* * * **
16738422 ACGGCGTTTGTTCTAAAAACGCCAG-TATAGGT-TTTCTCTTTT
1 GCGGCGTTTGTTCAAAAAACGCC-GCTATAGATCTGAC-CTTTT
*
16738464 GCGGCGTTTGTATCATAAAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGT-TCAAAAAACGCCGCTATAGATCTGACCTTTT
* * *
16738507 GCGGCGTTT-CT-AGAAAAACGCCGCTATATATCAT-AACTTTT
1 GCGGCGTTTGTTCA-AAAAACGCCGCTATAGATC-TGACCTTTT
* ** * * *
16738548 ACGGCGTTTACTCCAAAAACGCCTCTATAGATATCGACCTTTT
1 GCGGCGTTTGTTCAAAAAACGCCGCTATAGATCT-GACCTTTT
* * *
16738591 GCGGCGTTTGTTCAAAAAACGCTG-TAATAGATATTGACCTATT
1 GCGGCGTTTGTTCAAAAAACGCCGCT-ATAGAT-CTGACCTTTT
16738634 GCGGCGTTT
1 GCGGCGTTT
16738643 TTTGTTCTCA
Statistics
Matches: 328, Mismatches: 47, Indels: 34
0.80 0.11 0.08
Matches are distributed among these distances:
40 1 0.00
41 38 0.12
42 89 0.27
43 192 0.59
44 8 0.02
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (42 bp):
GCGGCGTTTGTTCAAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:16740485 original size:16 final size:16
Alignment explanation
Indices: 16740466--16740498 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16740456 AATATATAAC
16740466 TACAAAAATAA-TTGAT
1 TACAAAAA-AACTTGAT
16740482 TACAAAAAAACTTGAT
1 TACAAAAAAACTTGAT
16740498 T
1 T
16740499 TTTTTATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (16 bp):
TACAAAAAAACTTGAT
Found at i:16740984 original size:179 final size:176
Alignment explanation
Indices: 16740600--16741002 Score: 397
Period size: 177 Copynumber: 2.3 Consensus size: 176
16740590 AGAAAACTAG
* * * * *
16740600 TTATGACAAAATATGTTATCACTATAATTAAAATTTATAACTACAAATATAATTTGTCACAAAAA
1 TTATGACAATACATTTTGTCACTATAATTAAAATATATAACTACAAATAT-ATTTGTCACAAAAA
* * * * *
16740665 CGTGATTATTATTATTTTTGTAACAATATTGTTTGTAATAATTATCGACACTTCTAGTTACAAAA
65 CGTGAATATCATTATTTTTGTAACAATATTGTTTGTAACAATAATCGACACTTATAGTTACAAAA
** *
16740730 TTTGTCACTATATGACTTTTTTCACCAAAAAATATTGAGGGAAATCT
130 CGTGTCACTATATGACTTTTTTCACCAAAAAATATTGAGAGAAATCT
* * *
16740777 TTATGACAATATATTTTGTCATTATAATTAAAATATATAACTACAAATAT-TTTTTCACTAAAAA
1 TTATGACAATACATTTTGTCACTATAATTAAAATATATAACTACAAATATATTTGTCAC-AAAAA
* * * * * *
16740841 CTTGAATCTCATTATTTGTTTTGACAAT-TT-TTTCGTAACAATAAT-TATAGCTTATAGTTACA
65 CGTGAATATCATTATTT-TTGTAACAATATTGTTT-GTAACAATAATCGACA-CTTATAGTTACA
* *
16740903 AAACGTGTCATTATATGATTCTGTTTTTGTA-CAAAAAA-ATTG-GAGATAATCAT
127 AAACGTGTCACTATATGA--CT-TTTTT-CACCAAAAAATATTGAGAGA-AATC-T
* * * * *
16740956 TTGTGACTATACGTTTTGTCACTATAATTAAATTATATAATTACAAA
1 TTATGACAATACATTTTGTCACTATAATTAAAATATATAACTACAAA
16741003 CAAAATTTAT
Statistics
Matches: 187, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
175 12 0.06
176 55 0.29
177 56 0.30
178 10 0.05
179 53 0.28
180 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (176 bp):
TTATGACAATACATTTTGTCACTATAATTAAAATATATAACTACAAATATATTTGTCACAAAAAC
GTGAATATCATTATTTTTGTAACAATATTGTTTGTAACAATAATCGACACTTATAGTTACAAAAC
GTGTCACTATATGACTTTTTTCACCAAAAAATATTGAGAGAAATCT
Found at i:16741091 original size:15 final size:16
Alignment explanation
Indices: 16741063--16741092 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16741053 TTTTTTGTCA
16741063 TAGTTACTAAAACTTT
1 TAGTTACTAAAACTTT
16741079 TAGTTAC-AAAACTT
1 TAGTTACTAAAACTT
16741093 GTCACTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (16 bp):
TAGTTACTAAAACTTT
Found at i:16742545 original size:24 final size:24
Alignment explanation
Indices: 16742516--16742562 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
16742506 GACTCTCCAG
16742516 CCCTTACCCAGCCGTTCTTGACTC
1 CCCTTACCCAGCCGTTCTTGACTC
16742540 CCCTTACCCAGCCGTTCTTGACT
1 CCCTTACCCAGCCGTTCTTGACT
16742563 GAACTCTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.13, C:0.45, G:0.13, T:0.30
Consensus pattern (24 bp):
CCCTTACCCAGCCGTTCTTGACTC
Found at i:16743662 original size:19 final size:19
Alignment explanation
Indices: 16743617--16743662 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
16743607 ATGAACATAA
*
16743617 TTCACGTTTTGATTCAACT
1 TTCACTTTTTGATTCAACT
* * *
16743636 TCCTCTTTTTGCTTCAACT
1 TTCACTTTTTGATTCAACT
16743655 TTCACTTT
1 TTCACTTT
16743663 CTTCAATCTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.26, G:0.07, T:0.52
Consensus pattern (19 bp):
TTCACTTTTTGATTCAACT
Found at i:16748376 original size:2 final size:2
Alignment explanation
Indices: 16748365--16748400 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
16748355 ATGATCAAAA
16748365 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16748401 ATTGTTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16748899 original size:40 final size:40
Alignment explanation
Indices: 16748832--16749028 Score: 163
Period size: 40 Copynumber: 4.9 Consensus size: 40
16748822 GTAGGCAACA
* *
16748832 TTATATTAATAGGTGTGTATTCTGTACAATACATCACC-ACT
1 TTATATT--TAGGTGTGTATCCCGTACAATACATCACCTACT
* *
16748873 TTCATATTTAGGTGTGTA-CCCAGTACAATACGTCACCTTGCT
1 TT-ATATTTAGGTGTGTATCCC-GTACAATACATCACC-TACT
* * *
16748915 TGTA-A-TTGGGTGTGTATCTCGTACAATACATAACC-ACT
1 T-TATATTTAGGTGTGTATCCCGTACAATACATCACCTACT
* * *
16748953 TTCATATTTAGGTGTATACCCCATACAATACATCACCTTA-T
1 TT-ATATTTAGGTGTGTATCCCGTACAATACATCACC-TACT
* * *
16748994 TTGTAATTGGGTGTGTATCCCGTACAATACATCAC
1 TTATATTTAGGTGTGTATCCCGTACAATACATCAC
16749029 ACTGCACCTA
Statistics
Matches: 124, Mismatches: 21, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
37 1 0.01
38 4 0.03
39 2 0.02
40 98 0.79
41 8 0.06
42 10 0.08
43 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (40 bp):
TTATATTTAGGTGTGTATCCCGTACAATACATCACCTACT
Found at i:16748980 original size:80 final size:80
Alignment explanation
Indices: 16748843--16749025 Score: 280
Period size: 80 Copynumber: 2.3 Consensus size: 80
16748833 TATATTAATA
* * *
16748843 GGTGTGTAT-TCTGTACAATACATCACCACTTTCATATTTAGGTGTGTACCCAGTACAATACGTC
1 GGTGTGTATCTC-GTACAATACATAACCACTTTCATATTTAGGTGTATACCCAGTACAATACATC
*
16748907 ACCTTGCTTGTAATTG
65 ACCTTACTTGTAATTG
16748923 GGTGTGTATCTCGTACAATACATAACCACTTTCATATTTAGGTGTATACCCCA-TACAATACATC
1 GGTGTGTATCTCGTACAATACATAACCACTTTCATATTTAGGTGTATA-CCCAGTACAATACATC
*
16748987 ACCTTATTTGTAATTG
65 ACCTTACTTGTAATTG
*
16749003 GGTGTGTATCCCGTACAATACAT
1 GGTGTGTATCTCGTACAATACAT
16749026 CACACTGCAC
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
80 89 0.94
81 6 0.06
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (80 bp):
GGTGTGTATCTCGTACAATACATAACCACTTTCATATTTAGGTGTATACCCAGTACAATACATCA
CCTTACTTGTAATTG
Found at i:16749143 original size:20 final size:21
Alignment explanation
Indices: 16749120--16749174 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
16749110 TGTTCCAACC
16749120 TAAAAATTTTGGTTT-GAACA
1 TAAAAATTTTGGTTTAGAACA
** * *
16749140 TAAAAATTCAGGTTTATAACC
1 TAAAAATTTTGGTTTAGAACA
16749161 TAAAAA-TTTGGTTT
1 TAAAAATTTTGGTTT
16749175 CAACCTTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (21 bp):
TAAAAATTTTGGTTTAGAACA
Found at i:16749185 original size:19 final size:19
Alignment explanation
Indices: 16749092--16749187 Score: 86
Period size: 19 Copynumber: 4.9 Consensus size: 19
16749082 CTAAAATATA
*
16749092 GTTTTAACCTAAAAATCTT-
1 GTTTCAACCTAAAAAT-TTG
*
16749111 GTTCCAACCTAAAAATTTTG
1 GTTTCAACCTAAAAA-TTTG
* * *
16749131 GTTTGAACATAAAAATTCAG
1 GTTTCAACCTAAAAATT-TG
*
16749151 GTTTATAACCTAAAAATTTG
1 GTTT-CAACCTAAAAATTTG
*
16749171 GTTTCAACCTTAAAATT
1 GTTTCAACCTAAAAATT
16749188 CAAATGTCCA
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
19 28 0.45
20 23 0.37
21 11 0.18
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
GTTTCAACCTAAAAATTTG
Found at i:16749201 original size:40 final size:40
Alignment explanation
Indices: 16749113--16749217 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
16749103 AAAATCTTGT
* ** *
16749113 TCCAACCTAAAAATTTTGGTTTGAACATAAAAATTCAGGTT
1 TCCAACCTAAAAA-TTTGGTTTCAACATAAAAATTCAAATG
** * *
16749154 TATAACCTAAAAATTTGGTTTCAACCTTAAAATTCAAATG
1 TCCAACCTAAAAATTTGGTTTCAACATAAAAATTCAAATG
* *
16749194 TCCAACCTAAAAATCTAGTTTCAA
1 TCCAACCTAAAAATTTGGTTTCAA
16749218 TACTGAGCTT
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
40 41 0.79
41 11 0.21
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (40 bp):
TCCAACCTAAAAATTTGGTTTCAACATAAAAATTCAAATG
Found at i:16750394 original size:16 final size:16
Alignment explanation
Indices: 16750373--16750408 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
16750363 AAGTACAAAA
16750373 AATAAAATCCCTATAT
1 AATAAAATCCCTATAT
*
16750389 AATAAAATCCTTATAT
1 AATAAAATCCCTATAT
16750405 AATA
1 AATA
16750409 TTTAAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATCCCTATAT
Found at i:16751157 original size:18 final size:17
Alignment explanation
Indices: 16751136--16751204 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 17
16751126 ATAAGCATTT
16751136 TACTTCATATAAAGCATA
1 TACTTCAT-TAAAGCATA
* *
16751154 TACTTCATTTAAGCATG
1 TACTTCATTAAAGCATA
* * *
16751171 TA-GTCATTTAAGCATGT
1 TACTTCATTAAAGCAT-A
16751188 TACTTCATTTAAAGCAT
1 TACTTCA-TTAAAGCAT
16751205 GTTTGATACT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
16 12 0.29
17 11 0.26
18 11 0.26
19 8 0.19
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (17 bp):
TACTTCATTAAAGCATA
Found at i:16751179 original size:16 final size:17
Alignment explanation
Indices: 16751147--16751206 Score: 68
Period size: 16 Copynumber: 3.5 Consensus size: 17
16751137 ACTTCATATA
* *
16751147 AAGCATATACTTCATTT
1 AAGCATGTACGTCATTT
16751164 AAGCATGTA-GTCATTT
1 AAGCATGTACGTCATTT
*
16751180 AAGCATGTTACTTCATTT
1 AAGCATG-TACGTCATTT
16751198 AAAGCATGT
1 -AAGCATGT
16751207 TTGATACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 13 0.35
17 10 0.27
18 7 0.19
19 7 0.19
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (17 bp):
AAGCATGTACGTCATTT
Found at i:16755646 original size:24 final size:24
Alignment explanation
Indices: 16755619--16755671 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
16755609 TTTAGATACG
*
16755619 AAATTCATTTATTTTTGTAAAACA
1 AAATTCACTTATTTTTGTAAAACA
16755643 AAATTCACTTATTTTTGTAAAACA
1 AAATTCACTTATTTTTGTAAAACA
16755667 AAATT
1 AAATT
16755672 GAGTTTCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (24 bp):
AAATTCACTTATTTTTGTAAAACA
Found at i:16759344 original size:105 final size:105
Alignment explanation
Indices: 16759141--16759346 Score: 297
Period size: 105 Copynumber: 2.0 Consensus size: 105
16759131 TGAGGGATTG
* * *
16759141 ACATTTCCAGAAGAGTTCATAATGAGAATAACTCGTCATAAAGGAGAAAGTTCATAATGAGAATA
1 ACATTTCCAAAAGAGTTCATAATAAGAAAAACTCGTCATAAAGGAGAAAGTTCATAATGAGAATA
* * * * *
16759206 ACTTGTTCCTTTCAAATTCACCATAGAATGAGGTGAACCA
66 ACTTATTCATTTCAAATCCACCACAGAAGGAGGTGAACCA
*
16759246 ACATTTCCAAAAGAGTTCATAATAAGAAGAAACTCGTCTTAAAGGAGAAAGTTCATAATGAGAA-
1 ACATTTCCAAAAGAGTTCATAATAAGAA-AAACTCGTCATAAAGGAGAAAGTTCATAATGAGAAT
* *
16759310 AACTTATTCATTTCAAGTCCACCGCAGAAGGAGGTGA
65 AACTTATTCATTTCAAATCCACCACAGAAGGAGGTGA
16759347 CTAAACATTT
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
105 56 0.63
106 33 0.37
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (105 bp):
ACATTTCCAAAAGAGTTCATAATAAGAAAAACTCGTCATAAAGGAGAAAGTTCATAATGAGAATA
ACTTATTCATTTCAAATCCACCACAGAAGGAGGTGAACCA
Found at i:16759396 original size:18 final size:16
Alignment explanation
Indices: 16759373--16759421 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 16
16759363 GAGAGTTCAA
16759373 AATGAGAAGAACTCAT
1 AATGAGAAGAACTCAT
*
16759389 CCAATGAGGAAGAAGTTCAT
1 --AATGA-GAAGAA-CTCAT
16759409 AATGAGAAGAACT
1 AATGAGAAGAACT
16759422 TTTTCAACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.04
17 6 0.22
18 10 0.37
19 6 0.22
20 4 0.15
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.18
Consensus pattern (16 bp):
AATGAGAAGAACTCAT
Found at i:16759482 original size:114 final size:117
Alignment explanation
Indices: 16759334--16759545 Score: 342
Period size: 114 Copynumber: 1.8 Consensus size: 117
16759324 AAGTCCACCG
* *
16759334 CAGAAGGAGGTGACTAAACATTTTCAGTGGAGAGTTCAAAATGAGAAGAACTCATCC-A-ATGAG
1 CAGAAGGAGGTGACTAAACATTTTCAGTGAAGAGTTCAAAATGAGAAGAACTCATCCAACAAGAG
*
16759397 -GAAGAAGTTCATAATGAGAAGAACTTTTTCAACCTTGGTTCGATTCCATCA
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCA
* *
16759448 CAGAAGGAGGTGGA-TCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACAAGA
1 CAGAAGGAGGT-GACTAAACATTTTCAGTGAAGAGTTCAAAATGAGAAGAACTCATCCAACAAGA
16759512 GAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
65 GAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
16759546 TCCAATGCTT
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
114 51 0.57
115 3 0.03
116 4 0.04
117 31 0.35
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (117 bp):
CAGAAGGAGGTGACTAAACATTTTCAGTGAAGAGTTCAAAATGAGAAGAACTCATCCAACAAGAG
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCA
Found at i:16759698 original size:3 final size:3
Alignment explanation
Indices: 16759690--16759722 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
16759680 GGCTTAAAAA
16759690 TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA
16759723 ATTAACTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16759714 original size:19 final size:19
Alignment explanation
Indices: 16759690--16759726 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16759680 GGCTTAAAAA
*
16759690 TATTATTATTATTTATTAT
1 TATTATTATTATTAATTAT
16759709 TATTATTATTATTAATTA
1 TATTATTATTATTAATTA
16759727 ACTAATTTAT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTATTATTATTAATTAT
Found at i:16760866 original size:16 final size:16
Alignment explanation
Indices: 16760845--16760875 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16760835 GATTATAGCT
*
16760845 ATTTTGATCTTTGTTC
1 ATTTTGATCATTGTTC
16760861 ATTTTGATCATTGTT
1 ATTTTGATCATTGTT
16760876 TGAGTATCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.13, T:0.61
Consensus pattern (16 bp):
ATTTTGATCATTGTTC
Found at i:16768229 original size:20 final size:20
Alignment explanation
Indices: 16768214--16768260 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
16768204 AGGGATACTT
16768214 AATC-TTCGGTATGGATACC
1 AATCTTTCGGTATGGATACC
*
16768233 AATCTTTTGGTATGGATACC
1 AATCTTTCGGTATGGATACC
16768253 AATCTTTC
1 AATCTTTC
16768261 TATATGGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (20 bp):
AATCTTTCGGTATGGATACC
Found at i:16768266 original size:20 final size:20
Alignment explanation
Indices: 16768223--16768268 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
16768213 TAATCTTCGG
*
16768223 TATGGATACCAATCTTTTGG
1 TATGGATACCAATCTTTTGA
16768243 TATGGATACCAATCTTTCT-A
1 TATGGATACCAATCTTT-TGA
16768263 TATGGA
1 TATGGA
16768269 GAATAATCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (20 bp):
TATGGATACCAATCTTTTGA
Found at i:16768325 original size:20 final size:20
Alignment explanation
Indices: 16768297--16768335 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16768287 GAGACTAAGG
16768297 GTCTCGATACCGAGCATCTA
1 GTCTCGATACCGAGCATCTA
* **
16768317 GTCTTGATATTGAGCATCT
1 GTCTCGATACCGAGCATCT
16768336 GATATCGATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (20 bp):
GTCTCGATACCGAGCATCTA
Found at i:16769489 original size:23 final size:23
Alignment explanation
Indices: 16769470--16769543 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
16769460 TCTCGAAGGA
16769470 CCACATAGGTTTGTACCGAAGTG
1 CCACATAGGTTTGTACCGAAGTG
*
16769493 CCATATAGGTTTGTACCGAAGTG
1 CCACATAGGTTTGTACCGAAGTG
*
16769516 CCACATA--TTTGTCCCGAA-TG
1 CCACATAGGTTTGTACCGAAGTG
16769536 ACCACATA
1 -CCACATA
16769544 ATTGTCCCGA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
20 2 0.04
21 17 0.36
23 28 0.60
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (23 bp):
CCACATAGGTTTGTACCGAAGTG
Found at i:16769532 original size:21 final size:21
Alignment explanation
Indices: 16769442--16769554 Score: 95
Period size: 21 Copynumber: 5.2 Consensus size: 21
16769432 TAATTTGCAT
* * *
16769442 CGAAGTTCCACATAATTGTCT
1 CGAAGTGCCACATATTTGTCC
*
16769463 CGAAG-GACCACATAGGTTTGTAC
1 CGAAGTG-CCACATA--TTTGTCC
* *
16769486 CGAAGTGCCATATAGGTTTGTAC
1 CGAAGTGCCACATA--TTTGTCC
16769509 CGAAGTGCCACATATTTGTCC
1 CGAAGTGCCACATATTTGTCC
*
16769530 CGAA-TGACCACATAATTGTCC
1 CGAAGTG-CCACATATTTGTCC
16769551 CGAA
1 CGAA
16769555 TAACCACATA
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
20 2 0.03
21 39 0.49
23 37 0.47
24 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (21 bp):
CGAAGTGCCACATATTTGTCC
Found at i:16770207 original size:54 final size:54
Alignment explanation
Indices: 16770123--16770246 Score: 180
Period size: 54 Copynumber: 2.3 Consensus size: 54
16770113 GATATTTCCC
* *
16770123 TTCAAAGGTATCGATACCTCCTCATAGTACCGATACCGATA-TAGCATTTGATGT
1 TTCAAGGGTATCGATACCTCCTCATAGTACCGATACC-AAACTAGCATTTGATGT
*
16770177 TTCAAGGGTATCGATACCTCCTCA-AGGTACCGATACCAAACTGGCATTTGATGT
1 TTCAAGGGTATCGATACCTCCTCATA-GTACCGATACCAAACTAGCATTTGATGT
*
16770231 TTTAAGGGTATCGATA
1 TTCAAGGGTATCGATA
16770247 TCATCGTTCA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
53 3 0.05
54 61 0.95
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (54 bp):
TTCAAGGGTATCGATACCTCCTCATAGTACCGATACCAAACTAGCATTTGATGT
Found at i:16783081 original size:14 final size:14
Alignment explanation
Indices: 16783062--16783091 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16783052 GCCATAGTCC
*
16783062 TTAAGCTTTTTAGA
1 TTAAGCATTTTAGA
16783076 TTAAGCATTTTAGA
1 TTAAGCATTTTAGA
16783090 TT
1 TT
16783092 TTACAGTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (14 bp):
TTAAGCATTTTAGA
Found at i:16785807 original size:22 final size:22
Alignment explanation
Indices: 16785779--16785823 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
16785769 CAAACTTTGC
16785779 AAACTTACAGAAAAACCTCACA
1 AAACTTACAGAAAAACCTCACA
16785801 AAACTTACAGAAAAACCTCACA
1 AAACTTACAGAAAAACCTCACA
16785823 A
1 A
16785824 GTAGAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.27, G:0.04, T:0.13
Consensus pattern (22 bp):
AAACTTACAGAAAAACCTCACA
Done.