Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 25 of 117
Found at i:6817335 original size:22 final size:22
Alignment explanation
Indices: 6817294--6817426 Score: 76
Period size: 22 Copynumber: 6.2 Consensus size: 22
6817284 AGTAAATACA
* *
6817294 TAATAATATAATAGTAAATTAT
1 TAATAATTTAATAATAAATTAT
6817316 TAATAATTTAATAAT-AA--AT
1 TAATAATTTAATAATAAATTAT
* * * * *
6817335 TGATAACTTAATAATAACTCAC
1 TAATAATTTAATAATAAATTAT
** * *
6817357 TAATAACATAGTAAT-AATTAC
1 TAATAATTTAATAATAAATTAT
* ** * *
6817378 TAATAAGTTAATTGTAAATAAG
1 TAATAATTTAATAATAAATTAT
*
6817400 TGATAATTTAATAATAAATTAAT
1 TAATAATTTAATAATAAATT-AT
6817423 TAAT
1 TAAT
6817427 CATTGATAAT
Statistics
Matches: 81, Mismatches: 25, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
19 15 0.19
20 1 0.01
21 16 0.20
22 45 0.56
23 4 0.05
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (22 bp):
TAATAATTTAATAATAAATTAT
Found at i:6818787 original size:17 final size:16
Alignment explanation
Indices: 6818765--6818815 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
6818755 TTTATCCTAA
6818765 TTTTCTTTTTTACCTTT
1 TTTTCTTTTTTA-CTTT
6818782 TTTTCTTTTGTT--TTT
1 TTTTCTTTT-TTACTTT
*
6818797 TTTTTTTTTTTACATTT
1 TTTTCTTTTTTAC-TTT
6818814 TT
1 TT
6818816 ATAAATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 2 0.07
15 11 0.38
17 14 0.48
18 2 0.07
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTTTACTTT
Found at i:6819290 original size:18 final size:18
Alignment explanation
Indices: 6819256--6819289 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6819246 TTTTATTTCT
6819256 TTTGTTTTTTCTCTTTTA
1 TTTGTTTTTTCTCTTTTA
6819274 TTTGTTTTTTCT-TTTT
1 TTTGTTTTTTCTCTTTT
6819290 TCCTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.82
Consensus pattern (18 bp):
TTTGTTTTTTCTCTTTTA
Found at i:6819418 original size:13 final size:13
Alignment explanation
Indices: 6819400--6819435 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
6819390 GTGAGTTTTA
6819400 TTTTATTTTCATT
1 TTTTATTTTCATT
*
6819413 TTTTATTTTTATT
1 TTTTATTTTCATT
6819426 TTTTACTTTT
1 TTTTA-TTTT
6819436 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTATTTTCATT
Found at i:6819420 original size:7 final size:7
Alignment explanation
Indices: 6819400--6819450 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
6819390 GTGAGTTTTA
6819400 TTTTA-T
1 TTTTATT
*
6819406 TTTCATT
1 TTTTATT
6819413 TTTTA-T
1 TTTTATT
6819419 TTTTATT
1 TTTTATT
6819426 TTTTACTTT
1 TTTTA--TT
6819435 TTTTATT
1 TTTTATT
*
6819442 TTTTCTT
1 TTTTATT
6819449 TT
1 TT
6819451 ACGTTTTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
6 10 0.26
7 21 0.55
9 7 0.18
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTATT
Found at i:6819439 original size:16 final size:15
Alignment explanation
Indices: 6819418--6819450 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
6819408 TCATTTTTTA
6819418 TTTTTATTTTTTACTT
1 TTTTTATTTTTT-CTT
6819434 TTTTTATTTTTTCTT
1 TTTTTATTTTTTCTT
6819449 TT
1 TT
6819451 ACGTTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTATTTTTTCTT
Found at i:6819451 original size:21 final size:22
Alignment explanation
Indices: 6819411--6819458 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
6819401 TTTATTTTCA
* *
6819411 TTTTTTATTTTTATTTTTTACT
1 TTTTTTATTTTTATCTTTTACG
6819433 TTTTTTATTTTT-TCTTTTACG
1 TTTTTTATTTTTATCTTTTACG
6819454 TTTTT
1 TTTTT
6819459 CTTTTGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTTATTTTTATCTTTTACG
Found at i:6819781 original size:15 final size:17
Alignment explanation
Indices: 6819751--6819791 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
6819741 TATTTTTATG
6819751 TGTATATATATATATTA
1 TGTATATATATATATTA
6819768 TGTATAT-TAT-TATTA
1 TGTATATATATATATTA
*
6819783 TATATATAT
1 TGTATATAT
6819792 TTTAAATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 11 0.50
16 4 0.18
17 7 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TGTATATATATATATTA
Found at i:6819784 original size:11 final size:13
Alignment explanation
Indices: 6819757--6819789 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
6819747 TATGTGTATA
6819757 TATATATATTATG
1 TATATATATTATG
6819770 TATAT-TATTAT-
1 TATATATATTATG
6819781 TATATATAT
1 TATATATAT
6819790 ATTTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.26
12 9 0.47
13 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
TATATATATTATG
Found at i:6820768 original size:9 final size:8
Alignment explanation
Indices: 6820747--6820788 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
6820737 ATTTTATACA
*
6820747 ATTTTTTC
1 ATTTTTTT
*
6820755 A-TTTTTA
1 ATTTTTTT
6820762 ATTTTTTT
1 ATTTTTTT
6820770 ATTTTTTT
1 ATTTTTTT
*
6820778 ATTTTTGT
1 ATTTTTTT
6820786 ATT
1 ATT
6820789 CTGATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (8 bp):
ATTTTTTT
Found at i:6820783 original size:15 final size:15
Alignment explanation
Indices: 6820746--6820775 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6820736 TATTTTATAC
*
6820746 AATTTTTTCATTTTT
1 AATTTTTTTATTTTT
6820761 AATTTTTTTATTTTT
1 AATTTTTTTATTTTT
6820776 TTATTTTTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
AATTTTTTTATTTTT
Found at i:6829888 original size:26 final size:26
Alignment explanation
Indices: 6829858--6829967 Score: 76
Period size: 27 Copynumber: 4.4 Consensus size: 26
6829848 AAACTAGATA
*
6829858 AATAAAAGAAATAGATAAATAATAAT
1 AATAAAATAAATAGATAAATAATAAT
*
6829884 AAT-AAATAAAAGCAGATAAAT-AT--T
1 AATAAAAT-AAA-TAGATAAATAATAAT
*
6829908 AA-AAATATTAATAGATAAA-AA-AAT
1 AATAAA-ATAAATAGATAAATAATAAT
* *
6829932 -A-AAAATATATAGATAAATAATAAA
1 AATAAAATAAATAGATAAATAATAAT
6829956 AATAAAAATAAA
1 AAT-AAAATAAA
6829968 AATAAAAGCC
Statistics
Matches: 64, Mismatches: 8, Indels: 23
0.67 0.08 0.24
Matches are distributed among these distances:
22 11 0.17
23 14 0.22
24 10 0.16
25 6 0.09
26 8 0.12
27 15 0.23
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.24
Consensus pattern (26 bp):
AATAAAATAAATAGATAAATAATAAT
Found at i:6829946 original size:22 final size:23
Alignment explanation
Indices: 6829897--6829959 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
6829887 AAATAAAAGC
* *
6829897 AGATAAATATTAAAAATATTAAT
1 AGATAAAAAATAAAAATATTAAT
6829920 AGATAAAAAAATAAAAATA-T-AT
1 AGAT-AAAAAATAAAAATATTAAT
*
6829942 AGATAAATAATAAAAATA
1 AGATAAAAAATAAAAATA
6829960 AAAATAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 13 0.36
22 6 0.17
23 5 0.14
24 12 0.33
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (23 bp):
AGATAAAAAATAAAAATATTAAT
Found at i:6829973 original size:6 final size:6
Alignment explanation
Indices: 6829926--6829974 Score: 62
Period size: 6 Copynumber: 7.7 Consensus size: 6
6829916 TAATAGATAA
*
6829926 AAAAAT AAAAAT ATATAGAT AAATAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT A-A-AAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAA
6829975 GCCCATTAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
6 27 0.71
7 7 0.18
8 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:6837915 original size:25 final size:25
Alignment explanation
Indices: 6837872--6837920 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
6837862 CATCACATAT
6837872 TCAATCTCATCCATTAATCATGCTA
1 TCAATCTCATCCATTAATCATGCTA
6837897 TCAATCTCATCC-TTAAATCATGCT
1 TCAATCTCATCCATT-AATCATGCT
6837921 TGTACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.37
Consensus pattern (25 bp):
TCAATCTCATCCATTAATCATGCTA
Found at i:6840867 original size:33 final size:33
Alignment explanation
Indices: 6840804--6840868 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
6840794 ATACAATGCC
* *
6840804 ACCCCAGCCCGTGGACACCTCCAGTCCAAACCT
1 ACCCCAGCCCATGGACACCTCCACTCCAAACCT
* *
6840837 ACCCCAGCCCATGGACACCTCTACTTCAAACC
1 ACCCCAGCCCATGGACACCTCCACTCCAAACC
6840869 ACATCCTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.48, G:0.12, T:0.14
Consensus pattern (33 bp):
ACCCCAGCCCATGGACACCTCCACTCCAAACCT
Found at i:6843248 original size:22 final size:22
Alignment explanation
Indices: 6843191--6843245 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
6843181 TTGACAAATT
* *
6843191 AAATCAATCAATATATAATTAC
1 AAATTAATAAATATATAATTAC
6843213 TAAATTAATAAATACTATAATTAC
1 -AAATTAATAAATA-TATAATTAC
6843237 -AATT-ATAAA
1 AAATTAATAAA
6843246 ATAGTTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 5 0.17
22 4 0.14
23 11 0.38
24 9 0.31
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATTAATAAATATATAATTAC
Found at i:6843289 original size:269 final size:262
Alignment explanation
Indices: 6842813--6843304 Score: 718
Period size: 269 Copynumber: 1.9 Consensus size: 262
6842803 TAATTTAAAA
* *
6842813 ATAATTCAAAAAGTTAAATTGATTATATTTATATTTTTATTATTAACATTATATCACTCTCAATT
1 ATAATTCAAAAAATTAAATTAATTATATTTATATTTTTATTATTAACATTATATCACTCTCAATT
* * * * *
6842878 CAATTGATATTAAAAATATTAAAATTTTAAATTTTTTTTAATTTGACGAATTATATCAATCAATA
66 CAATTCATATTAAAAATATTAAAATTTTAAAATTTTCTTAATTTGACAAATTAAATCAATCAATA
6842943 TAAAATTAATAAATACTATAATTACAATTATAAAATAATTGATTCTTTAATTAATTATTTGATAC
131 TAAAATTAATAAATACTATAATTACAATTATAAAATAATTGATTCTTTAATTAATTATTTGATAC
* *
6843008 ATTTATATTTGATTAAATACAGTATCCAGTAATTGATGTGTTTCATATGTAAATATATAAAACAA
196 AATTACATTTGATTAAATACAGTATCCAGTAATTGATGTGTTTCATATGTAAATATATAAAACAA
6843073 AT
261 AT
* ** *
6843075 ATAATTCAAAAAATTAAATTAATTATATTTAT-TTTTTATTATTGATTTTA-AGTCACTTTCAAT
1 ATAATTCAAAAAATTAAATTAATTATATTTATATTTTTATTATTAACATTATA-TCACTCTCAAT
* * *
6843138 TTAATTCATATTAAAAGTATTAAAATTTTAAAATTTTCTTATTTTGACAAATTAAATCAATCAAT
65 TCAATTCATATTAAAAATATTAAAATTTTAAAATTTTCTTAATTTGACAAATTAAATCAATC---
*
6843203 ATATAATTACTAAATTAATAAATACTATAATTACAATTATAAAATAGTTGATTCTTTAATTAATT
127 A-AT-A-TA--AAATTAATAAATACTATAATTACAATTATAAAATAATTGATTCTTTAATTAATT
**
6843268 ATTTGATACAATTACATTTGATTAAATGTAGTATCCA
187 ATTTGATACAATTACATTTGATTAAATACAGTATCCA
6843305 TTTGAGTAAT
Statistics
Matches: 202, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
260 1 0.00
261 79 0.39
262 30 0.15
264 1 0.00
265 2 0.01
266 1 0.00
267 2 0.01
269 86 0.43
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (262 bp):
ATAATTCAAAAAATTAAATTAATTATATTTATATTTTTATTATTAACATTATATCACTCTCAATT
CAATTCATATTAAAAATATTAAAATTTTAAAATTTTCTTAATTTGACAAATTAAATCAATCAATA
TAAAATTAATAAATACTATAATTACAATTATAAAATAATTGATTCTTTAATTAATTATTTGATAC
AATTACATTTGATTAAATACAGTATCCAGTAATTGATGTGTTTCATATGTAAATATATAAAACAA
AT
Found at i:6845289 original size:8 final size:8
Alignment explanation
Indices: 6845278--6845322 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
6845268 TTAATTTGTC
*
6845278 AATTAAAA
1 AATTTAAA
*
6845286 AATTTTAA
1 AATTTAAA
*
6845294 AATTTTAA
1 AATTTAAA
6845302 AATTTAAA
1 AATTTAAA
*
6845310 AATTTAAT
1 AATTTAAA
6845318 AATTT
1 AATTT
6845323 TAATATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AATTTAAA
Found at i:6845297 original size:16 final size:16
Alignment explanation
Indices: 6845278--6845325 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
6845268 TTAATTTGTC
*
6845278 AATTAAAAAATTTTAA
1 AATTTAAAAATTTTAA
* *
6845294 AATTTTAAAATTTAAA
1 AATTTAAAAATTTTAA
*
6845310 AATTTAATAATTTTAA
1 AATTTAAAAATTTTAA
6845326 TATAAATTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTAAAAATTTTAA
Found at i:6845305 original size:24 final size:24
Alignment explanation
Indices: 6845278--6845325 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
6845268 TTAATTTGTC
6845278 AATTAAAAAATTTTAA-AATTTTAA
1 AATTAAAAAA-TTTAATAATTTTAA
*
6845302 AATTTAAAAATTTAATAATTTTAA
1 AATTAAAAAATTTAATAATTTTAA
6845326 TATAAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AATTAAAAAATTTAATAATTTTAA
Found at i:6845327 original size:9 final size:8
Alignment explanation
Indices: 6845284--6845325 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
6845274 TGTCAATTAA
6845284 AAAATTTT
1 AAAATTTT
6845292 AAAATTTT
1 AAAATTTT
6845300 AAAA-TTT
1 AAAATTTT
*
6845307 AAAAATTT
1 AAAATTTT
6845315 AATAATTTT
1 AA-AATTTT
6845324 AA
1 AA
6845326 TATAAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
7 7 0.23
8 17 0.55
9 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
AAAATTTT
Found at i:6850131 original size:25 final size:25
Alignment explanation
Indices: 6850091--6850139 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
6850081 AATTTGTACA
6850091 AGCATGATTTAAGGATGAGATTGAT
1 AGCATGATTTAAGGATGAGATTGAT
6850116 AGCATGA-TTAATGGATGAGATTGA
1 AGCATGATTTAA-GGATGAGATTGA
6850140 ATATGTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.31
Consensus pattern (25 bp):
AGCATGATTTAAGGATGAGATTGAT
Found at i:6865112 original size:22 final size:23
Alignment explanation
Indices: 6865086--6865128 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6865076 ATTATATATA
6865086 TTTTAT-TAAATTTAATTTTTGC
1 TTTTATATAAATTTAATTTTTGC
* *
6865108 TTTTATATAATTTTTATTTTT
1 TTTTATATAAATTTAATTTTT
6865129 ATTTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTATATAAATTTAATTTTTGC
Found at i:6865134 original size:23 final size:22
Alignment explanation
Indices: 6865086--6865135 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
6865076 ATTATATATA
*
6865086 TTTTATTAAATTTAATTTTTGC
1 TTTTATTAAATTTAATTTTTAC
* * *
6865108 TTTTATATAATTTTTATTTTTAT
1 TTTTAT-TAAATTTAATTTTTAC
6865131 TTTTA
1 TTTTA
6865136 ATTTATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTATTAAATTTAATTTTTAC
Found at i:6870353 original size:3 final size:3
Alignment explanation
Indices: 6870345--6870412 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
6870335 CTTCAAAACT
6870345 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6870393 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
6870413 TAGGTTGGGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6870717 original size:78 final size:78
Alignment explanation
Indices: 6870578--6870721 Score: 209
Period size: 78 Copynumber: 1.8 Consensus size: 78
6870568 TGTTCCTTGA
* * * * *
6870578 AAATAGAGGCACACAACTTTAAACATTAAGAGCTTTTCATAAATAGAGGCACATAATTTTAAAAA
1 AAATAGAGGCACACAACTTTAAAAAATAAGAGCTCTTCATAAATAGAGGCACACAACTTTAAAAA
6870643 ATAAAGCCCCTAT
66 ATAAAGCCCCTAT
* *
6870656 AAATAGAGGCACACAATTTTAAAAAAATAAG-GCTCTTCATAAATAGAGGCATACAACTTTAAAA
1 AAATAGAGGCACACAACTTT-AAAAAATAAGAGCTCTTCATAAATAGAGGCACACAACTTTAAAA
6870720 AA
65 AA
6870722 ATAAGGTTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 50 0.86
79 8 0.14
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (78 bp):
AAATAGAGGCACACAACTTTAAAAAATAAGAGCTCTTCATAAATAGAGGCACACAACTTTAAAAA
ATAAAGCCCCTAT
Found at i:6870727 original size:40 final size:40
Alignment explanation
Indices: 6870578--6870727 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
6870568 TGTTCCTTGA
* * *
6870578 AAATAGAGGCACACAACTTT-AAACATTAAGAGCTTTTCAT
1 AAATAGAGGCACACAACTTTAAAAAAATAAG-GCTCTTCAT
* * * * *
6870618 AAATAGAGGCACATAA-TTTTAAAAAATAAAGCCCCT-AT
1 AAATAGAGGCACACAACTTTAAAAAAATAAGGCTCTTCAT
*
6870656 AAATAGAGGCACACAATTTTAAAAAAATAAGGCTCTTCAT
1 AAATAGAGGCACACAACTTTAAAAAAATAAGGCTCTTCAT
*
6870696 AAATAGAGGCATACAACTTTAAAAAAATAAGG
1 AAATAGAGGCACACAACTTTAAAAAAATAAGG
6870728 TTAACACCTA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
38 17 0.18
39 22 0.24
40 54 0.58
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.24
Consensus pattern (40 bp):
AAATAGAGGCACACAACTTTAAAAAAATAAGGCTCTTCAT
Found at i:6871804 original size:14 final size:14
Alignment explanation
Indices: 6871767--6871818 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
6871757 CATTTTCCTT
6871767 TTTCTATTTTTTCA
1 TTTCTATTTTTTCA
* *
6871781 TTGCCATTTTTTCA
1 TTTCTATTTTTTCA
*
6871795 TTTCTCTTTTTT--
1 TTTCTATTTTTTCA
6871807 TTTCTATTTTTT
1 TTTCTATTTTTT
6871819 TTTGTTTCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 11 0.34
14 21 0.66
ACGTcount: A:0.10, C:0.15, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTCTATTTTTTCA
Found at i:6871810 original size:12 final size:12
Alignment explanation
Indices: 6871795--6871849 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
6871785 CATTTTTTCA
6871795 TTTCTCTTTTTT
1 TTTCTCTTTTTT
*
6871807 TTTCTATTTTTTT
1 TTTCT-CTTTTTT
*
6871820 TTGTTTCTTTCTTTT
1 TT-TCTC-TT-TTTT
6871835 TTTCTCTTTTTT
1 TTTCTCTTTTTT
6871847 TTT
1 TTT
6871850 TACTTGCTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 12 0.34
13 10 0.29
14 7 0.20
15 6 0.17
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.84
Consensus pattern (12 bp):
TTTCTCTTTTTT
Found at i:6871818 original size:10 final size:9
Alignment explanation
Indices: 6871802--6871848 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 9
6871792 TCATTTCTCT
6871802 TTTTTTTTC
1 TTTTTTTTC
6871811 TATTTTTTT-
1 T-TTTTTTTC
6871820 TTGTTTCTTTC
1 TT-TTT-TTTC
6871831 TTTTTTTCTC
1 TTTTTTT-TC
6871841 TTTTTTTT
1 TTTTTTTT
6871849 TTACTTGCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
8 1 0.03
9 8 0.24
10 22 0.67
11 2 0.06
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:6871818 original size:28 final size:28
Alignment explanation
Indices: 6871787--6871848 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
6871777 TTCATTGCCA
6871787 TTTTTTCATTTCTCTT-TTTTTTTCTATT
1 TTTTTTCATTTCT-TTCTTTTTTTCTATT
** *
6871815 TTTTTTTGTTTCTTTCTTTTTTTCTCTT
1 TTTTTTCATTTCTTTCTTTTTTTCTATT
6871843 TTTTTT
1 TTTTTT
6871849 TTACTTGCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 28 0.93
ACGTcount: A:0.03, C:0.13, G:0.02, T:0.82
Consensus pattern (28 bp):
TTTTTTCATTTCTTTCTTTTTTTCTATT
Found at i:6871849 original size:28 final size:28
Alignment explanation
Indices: 6871795--6871849 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
6871785 CATTTTTTCA
6871795 TTTCTCTTTTTTTTTCTATTTTTTTTTG
1 TTTCTCTTTTTTTTTCTATTTTTTTTTG
*
6871823 TTTCT-TTCTTTTTTTCTCTTTTTTTTT
1 TTTCTCTT-TTTTTTTCTATTTTTTTTT
6871850 TACTTGCTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.84
Consensus pattern (28 bp):
TTTCTCTTTTTTTTTCTATTTTTTTTTG
Found at i:6877059 original size:41 final size:42
Alignment explanation
Indices: 6877001--6877080 Score: 119
Period size: 41 Copynumber: 1.9 Consensus size: 42
6876991 CAATGATAAG
6877001 ACAAAACCTTCAAGTAGGTAATTA-CCTTCTTTT-TTTGGCAA
1 ACAAAACCTTCAAGTAGGTAATTATCC-TCTTTTCTTTGGCAA
* *
6877042 ACAAAATCTTCAGGTAGGTAATTATCCTCTTTTCTTTGG
1 ACAAAACCTTCAAGTAGGTAATTATCCTCTTTTCTTTGG
6877081 TCTTCCTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 28 0.80
42 7 0.20
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (42 bp):
ACAAAACCTTCAAGTAGGTAATTATCCTCTTTTCTTTGGCAA
Found at i:6877917 original size:73 final size:71
Alignment explanation
Indices: 6877783--6877921 Score: 183
Period size: 73 Copynumber: 1.9 Consensus size: 71
6877773 TTTGAAAATT
* *
6877783 TTTATTTTAAAGAAAATTGATACTTTCAACTTTTTTCAAAATGCTTTTTTTGGAAATTTTTATTT
1 TTTATTTTAAAGAAAATTGATACTTTCAACTTTTTTCAAAATGATTTTTTT-GAAAATTTTATTT
6877848 TAGAAAC
65 TAGAAAC
* *
6877855 TTTATTTTTAAGAAAAATTGATACTTTTAACTTTTTTCTAAAAAT-ATATTTTTT-AAAATTTTA
1 TTTATTTTAAAG-AAAATTGATACTTTCAACTTTTTTC--AAAATGAT-TTTTTTGAAAATTTTA
6877918 TTTT
62 TTTT
6877922 TAAGGAGAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
72 11 0.19
73 36 0.61
74 1 0.02
75 11 0.19
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (71 bp):
TTTATTTTAAAGAAAATTGATACTTTCAACTTTTTTCAAAATGATTTTTTTGAAAATTTTATTTT
AGAAAC
Found at i:6877947 original size:3 final size:3
Alignment explanation
Indices: 6877941--6878015 Score: 54
Period size: 3 Copynumber: 26.7 Consensus size: 3
6877931 TCATTAAAAA
* * *
6877941 AAT AAT AA- AAT AA- AAT AA- AAT AAA AAT AA- AGAT AAA AAT TA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* *
6877982 AAG AAT AAT AAT AAT AAT AAA AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6878016 ATCAATAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
2 10 0.18
3 45 0.80
4 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:6877968 original size:6 final size:6
Alignment explanation
Indices: 6877935--6878007 Score: 64
Period size: 6 Copynumber: 12.5 Consensus size: 6
6877925 GGAGAATCAT
* *
6877935 TAAAAA -AATAA T-AAAA T-AAAA T-AAAA TAAAAA TAAAGA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
* *
6877979 TTAAAGAA TAATAA TAATAA TAAAAA TAA
1 -TAAA-AA TAAAAA TAAAAA TAAAAA TAA
6878008 TAAAATAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
5 18 0.32
6 30 0.53
7 7 0.12
8 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (6 bp):
TAAAAA
Found at i:6878801 original size:3 final size:3
Alignment explanation
Indices: 6878793--6878968 Score: 111
Period size: 3 Copynumber: 57.7 Consensus size: 3
6878783 TAAACCCCAA
*
6878793 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGAT AA- ATAT AA- AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT A-AT AAT AAT
* *
6878838 AAT -AT ACATT AAT AGAT AAAT AAT AAA AAT -AT ATT AAT AGAT AAAT
1 AAT AAT A-A-T AAT A-AT -AAT AAT AAT AAT AAT AAT AAT A-AT -AAT
* * *
6878884 AAT AA- ATAT ATAT ATT AAT AGAT AA- AA- AAT ACAA AAC AA- AAT AAT
1 AAT AAT A-AT A-AT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT
6878929 AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6878969 AAAATGAGCC
Statistics
Matches: 143, Mismatches: 9, Indels: 42
0.74 0.05 0.22
Matches are distributed among these distances:
2 18 0.13
3 94 0.66
4 27 0.19
5 4 0.03
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6878908 original size:23 final size:25
Alignment explanation
Indices: 6878798--6878914 Score: 116
Period size: 25 Copynumber: 4.6 Consensus size: 25
6878788 CCCAAAATAA
*
6878798 TAATA-AT-AATAAT-AATA-ATAA
1 TAATAGATAAATAATAAATATATAT
* *
6878819 TAATAGATAAATATAAAAAAATATACAT
1 TAATAGAT-AA-AT-AATAAATATATAT
*
6878847 TAATAGATAAATAATAAAAATATAT
1 TAATAGATAAATAATAAATATATAT
6878872 TAATAGATAAATAATAAATATATATAT
1 TAATAGATAAATAAT-AA-ATATATAT
*
6878899 TAATAGATAAAAAATA
1 TAATAGATAAATAATA
6878915 CAAAACAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
21 5 0.06
22 2 0.03
24 1 0.01
25 27 0.34
26 7 0.09
27 27 0.34
28 10 0.13
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (25 bp):
TAATAGATAAATAATAAATATATAT
Found at i:6878929 original size:53 final size:52
Alignment explanation
Indices: 6878817--6878971 Score: 156
Period size: 53 Copynumber: 2.9 Consensus size: 52
6878807 TAATAATAAT
* * * * * *
6878817 AATAATAGATAAATATAAAAAAATATACATTAATAGATAAATAATAAAAATAT
1 AATAATAGATAAATA-ATAAATATATATATTAATAGATAAAAAATAAAAACAA
*
6878870 ATTAATAGATAAATAATAAATATATATATTAATAGATAAAAAATACAAAACAA
1 AATAATAGATAAATAATAAATATATATATTAATAGATAAAAAATA-AAAACAA
*
6878923 AATAATA-AT-AA-AATAAATAATAATAATAATAATA-ATAATAAAATAAAAA
1 AATAATAGATAAATAATAAAT-AT-AT-ATATTAATAGATAA-AAAATAAAAA
6878972 ATGAGCCATC
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
50 7 0.08
51 4 0.05
52 38 0.43
53 39 0.44
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.28
Consensus pattern (52 bp):
AATAATAGATAAATAATAAATATATATATTAATAGATAAAAAATAAAAACAA
Found at i:6879162 original size:44 final size:44
Alignment explanation
Indices: 6879096--6879668 Score: 416
Period size: 44 Copynumber: 13.5 Consensus size: 44
6879086 AATTTTGATC
*
6879096 AAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAAT
* *
6879140 AAGGCTCCTCTAAGCAGAGGCTCAACGAA--TTTGAAAAGATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAAC-AACTTTTGAAAA-ATAAAT
* * ** * * *
6879184 AAATCTCCTTTAAGTAGAGGCTCAACGACTTTAGAAAGATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAAT
6879228 -AAGTCTCCTCTAAACAGAGGCT---CAACTTTTGAAAAAAATAAAT
1 AAAG-CTCCTCTAAACAGAGGCTCAACAACTTTTG--AAAAATAAAT
* * * * *
6879271 AAAGCTCCTTTAAATAGAGGC-AATATAACTTTTG-AAAGTAAAT
1 AAAGCTCCTCTAAACAGAGGCTCA-ACAACTTTTGAAAAATAAAT
* * *
6879314 --TGCTCCTCTAAACAGAGGCACCACAAC-TTTGAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAAT
* * * ** *
6879355 --TGCTCATCTAAATAGAGGCTCAACAACTTTAAAAAAATAAAC
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAAT
*
6879397 AAAGCTCCTCTAAATAGAGGCTCAA-AGACTTTT--AAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACA-ACTTTTGAAAAATAAAT
* * *
6879439 -TA-CTCATCTAAACAGAGGCTCAA-AGACTTTTGAAAAGT-AA-
1 AAAGCTCCTCTAAACAGAGGCTCAACA-ACTTTTGAAAAATAAAT
* *
6879479 AATGCTCCTCTAAACAGAGGCTCTAA-AACTTTTAAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTC-AACAACTTTTGAAAAATAAAT
* * * * * *
6879523 AAAGCTCATATAAGCAGAAGCTTAACAACTTTTGAAGAACTAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAA-AAATAAAT
** * * *
6879568 -AA-CTTATCTAAACATAGGCAT-TACAAC-TTTGGAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGC-TCAACAACTTTTGAAAAATAAAT
*** *
6879609 --TTTTCCTCTAAACAGAGGCTCAATAAC-TTTGAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAAT
*
6879650 -AA-CTCCTCTAAATAGAGGC
1 AAAGCTCCTCTAAACAGAGGC
6879669 AACAAACTTT
Statistics
Matches: 424, Mismatches: 74, Indels: 65
0.75 0.13 0.12
Matches are distributed among these distances:
40 32 0.08
41 113 0.27
42 57 0.13
43 68 0.16
44 131 0.31
45 15 0.04
46 8 0.02
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (44 bp):
AAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAAT
Found at i:6879308 original size:87 final size:86
Alignment explanation
Indices: 6879096--6879668 Score: 341
Period size: 84 Copynumber: 6.7 Consensus size: 86
6879086 AATTTTGATC
* * * *
6879096 AAAGCTCCTCT-AATCAGAGGCTCAACAACTTTTGAAAAATAAATAAGGCTCCTCTAAGCAGAGG
1 AAAGCTCCTTTAAAT-AGAGGCTAAACAACTTTTGAAAGATAAATAA-GCTCCTCTAAACAGAGG
*
6879160 CTCAACGAATTTGAAAAGATAAAT
64 CTCAAC-AATTTGAAAAAATAAAT
* * * * *
6879184 AAATCTCCTTTAAGTAGAGGCTCAACGACTTTAGAAAGATAAATAAGTCTCCTCTAAACAGAGGC
1 AAAGCTCCTTTAAATAGAGGCTAAACAACTTTTGAAAGATAAATAAG-CTCCTCTAAACAGAGGC
*
6879249 TCAAC-TTTTGAAAAAAATAAAT
65 TCAACAATTTG-AAAAAATAAAT
* *
6879271 AAAGCTCCTTTAAATAGAGGC-AATATAACTTTTGAAAG-TAAAT-TGCTCCTCTAAACAGAGGC
1 AAAGCTCCTTTAAATAGAGGCTAA-ACAACTTTTGAAAGATAAATAAGCTCCTCTAAACAGAGGC
* *
6879333 ACCACAACTTTG-AAAAATAAAT
65 TCAACAA-TTTGAAAAAATAAAT
* * * * ** * * *
6879355 --TGCTCATCTAAATAGAGGCTCAACAACTTTAAAAAAATAAACAAAGCTCCTCTAAATAGAGGC
1 AAAGCTCCTTTAAATAGAGGCTAAACAACTTTTGAAAGATAAA-TAAGCTCCTCTAAACAGAGGC
*
6879418 TCAA-AGACTTT--TAAAATAAAT
65 TCAACA-A-TTTGAAAAAATAAAT
* * * * * *
6879439 -TA-CTCATCTAAACAGAGGCTCAAA-GACTTTTGAAA-AGTAAA-ATGCTCCTCTAAACAGAGG
1 AAAGCTCCTTTAAATAGAGGCT-AAACAACTTTTGAAAGA-TAAATAAGCTCCTCTAAACAGAGG
*
6879499 CTCTAA-AACTTTTAAAAAATAAAT
64 CTC-AACAA-TTTGAAAAAATAAAT
* * ** * * ** *
6879523 AAAGCTCATATAAGCAGAAGCTTAACAACTTTTG-AAGAACTAAATAA-CTTATCTAAACATAGG
1 AAAGCTCCTTTAAATAGAGGCTAAACAACTTTTGAAAG-A-TAAATAAGCTCCTCTAAACAGAGG
* *
6879586 CAT-TACAACTTTG-GAAAATAAAT
64 C-TCAACAA-TTTGAAAAAATAAAT
*** * * * * * *
6879609 --TTTTCCTCTAAACAGAGGCTCAATAAC-TTTGAAAAATAAATAA-CTCCTCTAAATAGAGGC
1 AAAGCTCCTTTAAATAGAGGCTAAACAACTTTTGAAAGATAAATAAGCTCCTCTAAACAGAGGC
6879669 AACAAACTTT
Statistics
Matches: 389, Mismatches: 70, Indels: 58
0.75 0.14 0.11
Matches are distributed among these distances:
82 71 0.18
83 14 0.04
84 98 0.25
85 32 0.08
86 46 0.12
87 66 0.17
88 60 0.15
89 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (86 bp):
AAAGCTCCTTTAAATAGAGGCTAAACAACTTTTGAAAGATAAATAAGCTCCTCTAAACAGAGGCT
CAACAATTTGAAAAAATAAAT
Found at i:6879331 original size:41 final size:40
Alignment explanation
Indices: 6879267--6879693 Score: 190
Period size: 41 Copynumber: 10.3 Consensus size: 40
6879257 TGAAAAAAAT
* * *
6879267 AAATAAA--GCTCCTTTAAATAGAGGCAATATAACTTTTGA
1 AAATAAATTGCTCCTCTAAACAGAGGCAA-ACAACTTTTGA
* *
6879306 AAGTAAATTGCTCCTCTAAACAGAGGCACCACAAC-TTTGAA
1 AAATAAATTGCTCCTCTAAACAGAGGCA-AACAACTTTTG-A
* * * **
6879347 AAATAAATTGCTCATCTAAATAGAGGCTCAACAACTTTAAAA
1 AAATAAATTGCTCCTCTAAACAGAGGC-AAACAACTTT-TGA
** * *
6879389 AAATAAACAAAGCTCCTCTAAATAGAGGCTCAAA-GACTTTT-A
1 AAAT-AA-ATTGCTCCTCTAAACAGAGG--CAAACAACTTTTGA
* * *
6879431 AAATAAATTACTCATCTAAACAGAGGCTCAAA-GACTTTTGA
1 AAATAAATTGCTCCTCTAAACAGAGG--CAAACAACTTTTGA
* * *
6879472 AAAGTAAAATGCTCCTCTAAACAGAGGCTCTAA-AACTTTTAAA
1 AAA-TAAATTGCTCCTCTAAACAGAGG--CAAACAACTTTT-GA
* * * * * *
6879515 AAATAAATAAAGCTCATATAAGCAGAAGCTTAACAACTTTTGA
1 AAATAAAT--TGCTCCTCTAAACAGAGGC-AAACAACTTTTGA
** ** * * *
6879558 AGAACTAAATAACTTATCTAAACATAGGCATTACAACTTTGGA
1 A-AA-TAAATTGCTCCTCTAAACAGAGGCA-AACAACTTTTGA
** * *
6879601 AAATAAATTTTTCCTCTAAACAGAGGCTCAATAAC-TTTGAA
1 AAATAAATTGCTCCTCTAAACAGAGGC-AAACAACTTTTG-A
** *
6879642 AAATAAATAACTCCTCTAAATAGAGGC-AACAAAC-TTTGA
1 AAATAAATTGCTCCTCTAAACAGAGGCAAAC-AACTTTTGA
* *
6879681 AAGTAAATGGCTC
1 AAATAAATTGCTC
6879694 ATCGACAATC
Statistics
Matches: 301, Mismatches: 63, Indels: 48
0.73 0.15 0.12
Matches are distributed among these distances:
39 19 0.06
40 42 0.14
41 103 0.34
42 50 0.17
43 35 0.12
44 44 0.15
45 7 0.02
46 1 0.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.26
Consensus pattern (40 bp):
AAATAAATTGCTCCTCTAAACAGAGGCAAACAACTTTTGA
Found at i:6879411 original size:126 final size:125
Alignment explanation
Indices: 6879099--6879688 Score: 470
Period size: 126 Copynumber: 4.7 Consensus size: 125
6879089 TTTGATCAAA
* ** * **
6879099 GCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATAAGGCTCCTCTAAGCAGAGGC--T
1 GCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAATAAATAAAGCTCCTCTAAATAGAGGCAAT
* * * * * ** * *
6879162 CAACGAATTTGAAAAGATAAATAAATCTCCTTTAAGTAGAGGC-TCAACGACTTTAGAAAGATAA
66 AAAC--TTTTG-AAAG-TAAAT-TA-CTCATCTAAACAGAGGCATC-ACAACTTT-GAAAAATAA
*
6879226 ATAA
123 AT-T
* *
6879230 GTCTCCTCTAAACAGAGGCTCAAC--TTTTGAAAAAAATAAATAAAGCTCCTTTAAATAGAGGCA
1 G-CTCCTCTAAACAGAGGCTCAACAACTTT-AAAAAAATAAATAAAGCTCCTCTAAATAGAGGCA
* * *
6879293 ATATAACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAATT
64 ATA-AACTTTTGAAAGTAAATTACTCATCTAAACAGAGGCATCACAACTTTGAAAAATAAATT
* * *
6879356 GCTCATCTAAATAGAGGCTCAACAACTTTAAAAAAATAAACAAAGCTCCTCTAAATAGAGGCTCA
1 GCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAATAAATAAAGCTCCTCTAAATAGAGG--CA
* * * * *
6879421 A-AGACTTTT-AAAATAAATTACTCATCTAAACAGAGGC-TCAAAGACTTTTGAAAAGTAAAAT
64 ATAAACTTTTGAAAGTAAATTACTCATCTAAACAGAGGCATCACA-AC-TTTGAAAAATAAATT
* * * ** *
6879482 GCTCCTCTAAACAGAGGCTCTAA-AACTTTTAAAAAATAAATAAAGCTCATATAAGCAGAAGCTT
1 GCTCCTCTAAACAGAGGCTC-AACAACTTTAAAAAAATAAATAAAGCTCCTCTAAATAGAGGC--
* * * * * * *
6879546 AA-CAACTTTTGAAGAACTAAATAACTTATCTAAACATAGGCATTACAACTTTGGAAAATAAATT
63 AATAAACTTTTG-A-AAGTAAATTACTCATCTAAACAGAGGCATCACAACTTTGAAAAATAAATT
** * * *
6879610 TTTCCTCTAAACAGAGGCTCAATAACTTT-GAAAAATAAAT-AA-CTCCTCTAAATAGAGGCAAC
1 GCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAATAAATAAAGCTCCTCTAAATAGAGGCAAT
6879672 AAAC-TTTGAAAGTAAAT
66 AAACTTTTGAAAGTAAAT
6879689 GGCTCATCGA
Statistics
Matches: 376, Mismatches: 62, Indels: 52
0.77 0.13 0.11
Matches are distributed among these distances:
121 7 0.02
122 1 0.00
123 6 0.02
124 7 0.02
125 59 0.16
126 109 0.29
127 28 0.07
128 61 0.16
129 26 0.07
130 11 0.03
131 32 0.09
132 25 0.07
133 1 0.00
134 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (125 bp):
GCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAATAAATAAAGCTCCTCTAAATAGAGGCAAT
AAACTTTTGAAAGTAAATTACTCATCTAAACAGAGGCATCACAACTTTGAAAAATAAATT
Found at i:6891013 original size:13 final size:13
Alignment explanation
Indices: 6891006--6891031 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6890996 GAAAAGAAAG
6891006 AATAAAAAAATAA
1 AATAAAAAAATAA
6891019 AATAAAAAAATAA
1 AATAAAAAAATAA
6891032 TGATTCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AATAAAAAAATAA
Found at i:6891164 original size:60 final size:57
Alignment explanation
Indices: 6891096--6891299 Score: 239
Period size: 60 Copynumber: 3.4 Consensus size: 57
6891086 GCTTTTGTAC
* *
6891096 AAGAAAAATTGATACTTTCAACTTTTACTCAAAATGTTTTTCTTGATAATTTTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTT-CTCAAAATGTTTTTTTTGA-AA-TTTTAATTTT
* * * *
6891156 AAGGAAAATAGGTAC-TTCTAACTTTTCCTTAAAATGTTTTTTTTCTGAAATTTTAATTTT
1 AAGAAAAATTGATACTTTC-AACTTTT-CTCAAAATG-TTTTTTT-TGAAATTTTAATTTT
* *
6891216 AAGAAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTTTGGAAATTTTAATTTT
1 AAGAAAAATTGATACTTTCAACTTTTCTC-AAAATGTTTTTTTT-GAAATTTTAATTTT
*
6891275 AAAAAAAATTGATACTTTCAACTTT
1 AAGAAAAATTGATACTTTCAACTTT
6891300 CAAATTGATA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
58 1 0.01
59 49 0.40
60 60 0.48
61 11 0.09
62 3 0.02
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (57 bp):
AAGAAAAATTGATACTTTCAACTTTTCTCAAAATGTTTTTTTTGAAATTTTAATTTT
Found at i:6891306 original size:21 final size:21
Alignment explanation
Indices: 6891280--6891320 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6891270 ATTTTAAAAA
6891280 AAATTGATACTTTCAACTTTC
1 AAATTGATACTTTCAACTTTC
*
6891301 AAATTGATACTTTTAACTTT
1 AAATTGATACTTTCAACTTT
6891321 TCCTCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (21 bp):
AAATTGATACTTTCAACTTTC
Found at i:6891506 original size:6 final size:6
Alignment explanation
Indices: 6891480--6891541 Score: 56
Period size: 6 Copynumber: 10.3 Consensus size: 6
6891470 ATAATCATTA
* * *
6891480 AAAAAT AAAAA- AATAAT -AAAAT AAAAAT AAAGAT AAAAATT AAGGAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA-T AA-AAAT
*
6891528 AATAAT AAAAAT AA
1 AAAAAT AAAAAT AA
6891542 TAAAATAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
5 8 0.18
6 29 0.64
7 6 0.13
8 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:6891542 original size:12 final size:12
Alignment explanation
Indices: 6891483--6891557 Score: 57
Period size: 12 Copynumber: 6.2 Consensus size: 12
6891473 ATCATTAAAA
6891483 AATAAAAA-AAT
1 AATAAAAATAAT
*
6891494 AAT-AAAATAAA
1 AATAAAAATAAT
* *
6891505 AATAAAGATAAA
1 AATAAAAATAAT
*
6891517 AATTAAGGAATAAT
1 AA-TAA-AAATAAT
6891531 AATAAAAATAAT
1 AATAAAAATAAT
6891543 AA-AATAAATCAAT
1 AATAA-AAAT-AAT
6891556 AA
1 AA
6891558 ATCCAAGGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.08
11 10 0.19
12 21 0.40
13 11 0.21
14 6 0.12
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:6891548 original size:20 final size:20
Alignment explanation
Indices: 6891478--6891549 Score: 58
Period size: 23 Copynumber: 3.4 Consensus size: 20
6891468 GGATAATCAT
6891478 TAAAA-AATAA-AAAAATAA
1 TAAAATAATAATAAAAATAA
* *
6891496 TAAAATAAAAATAAAGATAAAAA
1 TAAAATAATAAT-AA-A-AATAA
6891519 TTAAGGAATAATAATAAAAATAA
1 -TAA--AATAATAATAAAAATAA
6891542 TAAAATAA
1 TAAAATAA
6891550 ATCAATAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
18 5 0.12
19 4 0.10
20 5 0.12
21 2 0.05
22 4 0.10
23 8 0.19
24 4 0.10
25 2 0.05
26 8 0.19
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (20 bp):
TAAAATAATAATAAAAATAA
Found at i:6892015 original size:11 final size:11
Alignment explanation
Indices: 6891999--6892030 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
6891989 ATTCATCGGA
6891999 TTCTAGAAAAT
1 TTCTAGAAAAT
*
6892010 TTCTAGAAATT
1 TTCTAGAAAAT
6892021 TTCTAGAAAA
1 TTCTAGAAAA
6892031 GAAACTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (11 bp):
TTCTAGAAAAT
Found at i:6892355 original size:27 final size:26
Alignment explanation
Indices: 6892325--6892448 Score: 96
Period size: 27 Copynumber: 4.7 Consensus size: 26
6892315 AAAAAATAAC
*
6892325 AATAATAAAAATAGATAAATATAAAAA
1 AATAATAATAATAGATAAATA-AAAAA
* *
6892352 AAT-ATACATTAACAGATAAATAATAAA
1 AATAATA-A-TAATAGATAAATAAAAAA
* *
6892379 AATATATATTAATAGATAAAAAAATACAA
1 AATA-ATAATAATAGATAAATAAA-A-AA
* *
6892408 AATAA-AATAATA-AT-AATAATAAT
1 AATAATAATAATAGATAAATAAAAAA
6892431 AATAATAATAATA-ATAAA
1 AATAATAATAATAGATAAA
6892449 ATGGGCCATC
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
23 6 0.08
24 10 0.13
25 6 0.08
26 5 0.06
27 29 0.37
28 13 0.17
29 9 0.12
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (26 bp):
AATAATAATAATAGATAAATAAAAAA
Found at i:6892419 original size:3 final size:3
Alignment explanation
Indices: 6892370--6892447 Score: 79
Period size: 3 Copynumber: 25.7 Consensus size: 3
6892360 TTAACAGATA
* * * *
6892370 AAT AAT AAA AAT ATAT ATT AAT AGAT AA- AAA AAT ACAA AAT AA- AAT
1 AAT AAT AAT AAT A-AT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT
6892416 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6892448 AATGGGCCAT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
2 4 0.06
3 51 0.81
4 8 0.13
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:6894491 original size:26 final size:26
Alignment explanation
Indices: 6894442--6894513 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
6894432 AAACATTTTG
*
6894442 AAATAAATAAACAATAAAACAAAACA
1 AAATAAATAAAAAATAAAACAAAACA
* *
6894468 AAATAAATAAATAAAT-AAATAAAATA
1 AAATAAATAAA-AAATAAAACAAAACA
*
6894494 AAACAAATACAAAAA-AAAAC
1 AAATAAATA-AAAAATAAAAC
6894514 TCAACTTGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 33 0.87
27 5 0.13
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (26 bp):
AAATAAATAAAAAATAAAACAAAACA
Found at i:6894502 original size:30 final size:30
Alignment explanation
Indices: 6894442--6894500 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
6894432 AAACATTTTG
*
6894442 AAATAAATAAACAATAAAACAAAACAAAAT
1 AAATAAATAAAAAATAAAACAAAACAAAAT
*
6894472 AAATAAATAAATAAATAAAATAAAACAAA
1 AAATAAATAAA-AAATAAAACAAAACAAA
6894501 TACAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (30 bp):
AAATAAATAAAAAATAAAACAAAACAAAAT
Found at i:6896071 original size:13 final size:13
Alignment explanation
Indices: 6896036--6896103 Score: 64
Period size: 13 Copynumber: 4.9 Consensus size: 13
6896026 TTTTATTAAA
6896036 TTTAATTTTTATTTT
1 TTTAATTTTTA--TT
*
6896051 TATATAATTTTTGTT
1 T-T-TAATTTTTATT
**
6896066 TTTAATTTTTACA
1 TTTAATTTTTATT
*
6896079 TATAATTTTTATT
1 TTTAATTTTTATT
6896092 TTTAATTTTTAT
1 TTTAATTTTTAT
6896104 ATATGTGAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
13 29 0.67
14 1 0.02
15 4 0.09
16 1 0.02
17 8 0.19
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (13 bp):
TTTAATTTTTATT
Found at i:6896073 original size:24 final size:24
Alignment explanation
Indices: 6896026--6896106 Score: 103
Period size: 26 Copynumber: 3.4 Consensus size: 24
6896016 TTTATATATA
* *
6896026 TTTTAT-TAAATTTAATTTTT-AT
1 TTTTATATAATTTTTATTTTTAAT
*
6896048 TTTTATATAATTTTTGTTTTTAAT
1 TTTTATATAATTTTTATTTTTAAT
6896072 TTTTACATATAATTTTTATTTTTAAT
1 TTTT--ATATAATTTTTATTTTTAAT
6896098 TTTTATATA
1 TTTTATATA
6896107 TGTGAATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
22 6 0.12
23 11 0.22
24 11 0.22
26 23 0.45
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (24 bp):
TTTTATATAATTTTTATTTTTAAT
Found at i:6897884 original size:29 final size:26
Alignment explanation
Indices: 6897851--6897920 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 26
6897841 ATAAATATTT
6897851 TAATATATTTTAATATAAAATATATAAAA
1 TAATATATTTTAATATAAAA-A-AT-AAA
* * *
6897880 TAATAAAATTT--TGTAAAAAATAAA
1 TAATATATTTTAATATAAAAAATAAA
6897904 TAATATATTTTATATAT
1 TAATATATTTTA-ATAT
6897921 TGATATAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
24 12 0.38
25 2 0.06
26 1 0.03
27 8 0.25
29 9 0.28
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (26 bp):
TAATATATTTTAATATAAAAAATAAA
Found at i:6900276 original size:18 final size:22
Alignment explanation
Indices: 6900232--6900272 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
6900222 CATTATCTTG
6900232 ATTTTATTTTCTTTCTTGATTAA
1 ATTTTATTTTCTTTCTTGATT-A
6900255 ATTTTA-TTT-TTTCTTGAT
1 ATTTTATTTTCTTTCTTGAT
6900273 ATTTACAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.50
22 3 0.17
23 6 0.33
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (22 bp):
ATTTTATTTTCTTTCTTGATTA
Found at i:6900645 original size:23 final size:22
Alignment explanation
Indices: 6900619--6900661 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6900609 CAAATATTTA
*
6900619 TAAATTTTGATAAAAAATAAAAT
1 TAAATCTT-ATAAAAAATAAAAT
*
6900642 TAAATCTTATTAAAAATAAA
1 TAAATCTTATAAAAAATAAA
6900662 GTTAGAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAATCTTATAAAAAATAAAAT
Found at i:6900673 original size:22 final size:22
Alignment explanation
Indices: 6900631--6900674 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6900621 AATTTTGATA
*
6900631 AAAAATAAAATTAAATCTTATT
1 AAAAATAAAATTAAATATTATT
*
6900653 AAAAATAAAGTTAGAA-ATTATT
1 AAAAATAAAATTA-AATATTATT
6900675 TTTAACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (22 bp):
AAAAATAAAATTAAATATTATT
Found at i:6902296 original size:2 final size:2
Alignment explanation
Indices: 6902246--6902279 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6902236 TCACGTTAGC
*
6902246 AT AT AT AA 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
6902280 TCACATCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6902636 original size:28 final size:29
Alignment explanation
Indices: 6902593--6902669 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
6902583 AAATTATTTC
*
6902593 TAAATTATAGTAAAATATTCAATATGATATT
1 TAAATTATA--AAATTATTCAATATGATATT
* * *
6902624 TAAATTTTAAAATTTTTTAATATGATATT
1 TAAATTATAAAATTATTCAATATGATATT
*
6902653 TAAATTATAAATTTATT
1 TAAATTATAAAATTATT
6902670 AATTAATATG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 31 0.79
31 8 0.21
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (29 bp):
TAAATTATAAAATTATTCAATATGATATT
Found at i:6902647 original size:29 final size:31
Alignment explanation
Indices: 6902608--6902684 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
6902598 TATAGTAAAA
*
6902608 TATTCAATATGATATTTAAATTTTAAAATT-T
1 TATT-AATATGATATTTAAATTATAAAATTAT
*
6902639 T-TTAATATGATATTTAAATTATAAATTTAT
1 TATTAATATGATATTTAAATTATAAAATTAT
6902669 TAATTAATATGATATT
1 T-ATTAATATGATATT
6902685 CACTTTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
29 23 0.56
30 4 0.10
31 1 0.02
32 13 0.32
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (31 bp):
TATTAATATGATATTTAAATTATAAAATTAT
Found at i:6906571 original size:12 final size:12
Alignment explanation
Indices: 6906554--6906585 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
6906544 AGAAATCGTT
6906554 GAACTTTCTGAC
1 GAACTTTCTGAC
6906566 GAACTTTCTGAC
1 GAACTTTCTGAC
6906578 GAACTTTC
1 GAACTTTC
6906586 AACAAAAAAT
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:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (12 bp):
GAACTTTCTGAC
Found at i:6907016 original size:3 final size:3
Alignment explanation
Indices: 6906993--6907037 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
6906983 TTTTTTTGTC
* *
6906993 TTA TCTA TTA ATA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6907038 TTGCCAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:6907177 original size:60 final size:60
Alignment explanation
Indices: 6907103--6907281 Score: 281
Period size: 60 Copynumber: 3.0 Consensus size: 60
6907093 TTTAATAATC
6907103 TCCTT-AAAATAAAAATTTCTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTT
1 TCCTTGAAAATAAAAATTTCTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTT
* *
6907162 TCCTTGAAAATAAAAATTTTTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATTAATTT
1 TCCTTGAAAATAAAAATTTCTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTT
* * * * *
6907222 TTCTTGAAAATAAAAATTTCTAAATAATA-TTTTTAAAGAAAAGTTAAAAGTATCAATTT
1 TCCTTGAAAATAAAAATTTCTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTT
6907281 T
1 T
6907282 TTTTGTATAA
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
59 32 0.29
60 78 0.71
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.39
Consensus pattern (60 bp):
TCCTTGAAAATAAAAATTTCTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTT
Found at i:6907292 original size:23 final size:24
Alignment explanation
Indices: 6907266--6907317 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
6907256 AAAGAAAAGT
*
6907266 TAAAAGTATCAATTTTTTTT-GTA
1 TAAAAGCATCAATTTTTTTTCGTA
* * *
6907289 TAAAAGCATGAGTTTTTTTTCTTA
1 TAAAAGCATCAATTTTTTTTCGTA
6907313 TAAAA
1 TAAAA
6907318 CAAAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (24 bp):
TAAAAGCATCAATTTTTTTTCGTA
Found at i:6909248 original size:25 final size:25
Alignment explanation
Indices: 6909220--6909267 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
6909210 TATTGTAAGA
*
6909220 TAAAAAAAATAAATTATAAAAATTT
1 TAAAAAAAATAAAATATAAAAATTT
***
6909245 TAAATGTAATAAAATATAAAAAT
1 TAAAAAAAATAAAATATAAAAAT
6909268 AAACATAATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
TAAAAAAAATAAAATATAAAAATTT
Found at i:6909711 original size:22 final size:23
Alignment explanation
Indices: 6909686--6909738 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
6909676 ATATATTACA
6909686 ATTTATATTAATATAAAAA-TAT
1 ATTTATATTAATATAAAAATTAT
* *
6909708 ATTTGTGTTAATATAAAAATTAT
1 ATTTATATTAATATAAAAATTAT
6909731 ATGTTATA
1 AT-TTATA
6909739 ATTTATACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 17 0.68
23 5 0.20
24 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (23 bp):
ATTTATATTAATATAAAAATTAT
Found at i:6910628 original size:2 final size:2
Alignment explanation
Indices: 6910623--6910653 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6910613 TTTGTTTAAT
6910623 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6910654 TTGGTTGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6918171 original size:186 final size:186
Alignment explanation
Indices: 6917847--6918216 Score: 670
Period size: 186 Copynumber: 2.0 Consensus size: 186
6917837 AATCTCTTAC
6917847 TTATATTTTCTTGAAATTCTGGTGTGGCTCAAGGCTCTGCATGGCATAGACGCATAGATACATTA
1 TTATATTTTCTTGAAATTCTGGTGTGGCTCAAGGCTCTGCATGGCATAGACGCATAGATACATTA
6917912 TATTTTTAGGACCACAACCTCTTGCCTTCTTTGGATGACTATTTCATTCATCACCCTCTTATAGC
66 TATTTTTAGGACCACAACCTCTTGCCTTCTTTGGATGACTATTTCATTCATCACCCTCTTATAGC
* * *
6917977 TATTATCAATAAGCAAATTTTTTTGTGCCAAATGTCAAGAATATGATTTTCTCCTT
131 TATTATCAAAAAGCAAAATTTTTTGTACCAAATGTCAAGAATATGATTTTCTCCTT
6918033 TTATATGTTT-TTGAAATTCTGGTGTGGCTCAAGGCTCTGCATGGCATAGACGCATAGATACATT
1 TTATAT-TTTCTTGAAATTCTGGTGTGGCTCAAGGCTCTGCATGGCATAGACGCATAGATACATT
* * *
6918097 ATATTTTTAGGACCATAACCTCTTGCCTTCTTTGGATGACTATTTCATTTATCACCCTCTTATGG
65 ATATTTTTAGGACCACAACCTCTTGCCTTCTTTGGATGACTATTTCATTCATCACCCTCTTATAG
6918162 CTATTATCAAAAAGCAAAATTTTTTGTACCAAATGTCAAGAATATGATTTTCTCC
130 CTATTATCAAAAAGCAAAATTTTTTGTACCAAATGTCAAGAATATGATTTTCTCC
6918217 CTTTCCATAC
Statistics
Matches: 177, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
186 174 0.98
187 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (186 bp):
TTATATTTTCTTGAAATTCTGGTGTGGCTCAAGGCTCTGCATGGCATAGACGCATAGATACATTA
TATTTTTAGGACCACAACCTCTTGCCTTCTTTGGATGACTATTTCATTCATCACCCTCTTATAGC
TATTATCAAAAAGCAAAATTTTTTGTACCAAATGTCAAGAATATGATTTTCTCCTT
Found at i:6918992 original size:2 final size:2
Alignment explanation
Indices: 6918985--6919017 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6918975 GCGGCTATGT
6918985 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6919018 TGTGTGTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6927563 original size:36 final size:35
Alignment explanation
Indices: 6927500--6927620 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 35
6927490 CCACATTGTA
* * *
6927500 CATAAACCATCTCATTTGGC-TTATTTCTACGCGGTG
1 CATAAACTATCTCACTT-GCTTTCTTTCTACGCGG-G
* * **
6927536 TATAAACTATCTCACTTGCTTTCTTTCTACACCAAG
1 CATAAACTATCTCACTTGCTTTCTTTCTAC-GCGGG
*
6927572 CATAAACTATCTCAGC-TGGTTTCTTTCTACGCCGGG
1 CATAAACTATCTCA-CTTGCTTTCTTTCTACG-CGGG
6927608 CATAAACTATCTC
1 CATAAACTATCTC
6927621 TGGTCGTTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
35 2 0.03
36 65 0.94
37 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (35 bp):
CATAAACTATCTCACTTGCTTTCTTTCTACGCGGG
Found at i:6927630 original size:36 final size:36
Alignment explanation
Indices: 6927537--6927630 Score: 109
Period size: 36 Copynumber: 2.6 Consensus size: 36
6927527 TACGCGGTGT
*
6927537 ATAAACTATCTCA-CTTGCTTTCTTTCTACACCAAGC
1 ATAAACTATCTCAGCTCG-TTTCTTTCTACACCAAGC
* * **
6927573 ATAAACTATCTCAGCTGGTTTCTTTCTACGCCGGGC
1 ATAAACTATCTCAGCTCGTTTCTTTCTACACCAAGC
* *
6927609 ATAAACTATCTCTGGTCGTTTC
1 ATAAACTATCTCAGCTCGTTTC
6927631 AAACAACTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 47 0.94
37 3 0.06
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (36 bp):
ATAAACTATCTCAGCTCGTTTCTTTCTACACCAAGC
Found at i:6933288 original size:21 final size:21
Alignment explanation
Indices: 6933264--6933327 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
6933254 TTTTCATTTG
*
6933264 AATTCATATTCTCTCTTTAAA
1 AATTCATATTCTCTCTCTAAA
* *
6933285 AATTTATTTTCTCTCTCTAAA
1 AATTCATATTCTCTCTCTAAA
* *
6933306 TTAAATCA-ATTCTCTTTCTAAA
1 --AATTCATATTCTCTCTCTAAA
6933328 CCCAAACCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 18 0.53
22 12 0.35
23 4 0.12
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTCATATTCTCTCTCTAAA
Found at i:6936767 original size:22 final size:23
Alignment explanation
Indices: 6936739--6936781 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
6936729 GATTTAAAAT
*
6936739 TTTAATAAAAA-ATATATATTAA
1 TTTAATAAAAATAAATATATTAA
6936761 TTTAATAAAAATAAATATATT
1 TTTAATAAAAATAAATATATT
6936782 GTTGGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTAATAAAAATAAATATATTAA
Found at i:6936771 original size:23 final size:22
Alignment explanation
Indices: 6936739--6936781 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
6936729 GATTTAAAAT
6936739 TTTAATAAAA-AATATATATTAA
1 TTTAATAAAATAA-ATATATTAA
6936761 TTTAATAAAAATAAATATATT
1 TTTAAT-AAAATAAATATATT
6936782 GTTGGTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 11 0.58
24 2 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAATAAAATAAATATATTAA
Found at i:6941076 original size:3 final size:3
Alignment explanation
Indices: 6941068--6941092 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6941058 AATTTTCCTT
6941068 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
6941093 GTTGTTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6941366 original size:15 final size:16
Alignment explanation
Indices: 6941334--6941399 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 16
6941324 TTATTTTTTA
6941334 TTAAATAATTTATATAC
1 TTAAATAA-TTATATAC
6941351 TTAAATAATT-TATAC
1 TTAAATAATTATATAC
*
6941366 TATAAA-AATTAATTTAC
1 T-TAAATAATT-ATATAC
*
6941383 TTATAAATAAATATATA
1 -T-TAAATAATTATATA
6941400 TTTTAATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
15 10 0.24
16 6 0.15
17 12 0.29
18 10 0.24
19 3 0.07
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAATAATTATATAC
Found at i:6941775 original size:6 final size:6
Alignment explanation
Indices: 6941759--6941847 Score: 96
Period size: 6 Copynumber: 15.2 Consensus size: 6
6941749 AAAAGTTTGA
* *
6941759 AATTCTT AATTTT AATTTT AATTTT GATTTT AA-TTT AATTTT GATTTT
1 AATT-TT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* *
6941807 GATTTT GATTTT AA-TTT AATTTT AATTTT --TGTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT AATTTT AAT-TTT AATTTT A
6941848 GGTCAAGTCA
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
4 1 0.01
5 13 0.18
6 54 0.74
7 5 0.07
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (6 bp):
AATTTT
Found at i:6941796 original size:29 final size:29
Alignment explanation
Indices: 6941764--6941835 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
6941754 TTTGAAATTC
6941764 TTAATTTTAATTTTAATTTTGATTTTAAT
1 TTAATTTTAATTTTAATTTTGATTTTAAT
* *
6941793 TTAATTTTGATTTTGATTTTGATTTTAAT
1 TTAATTTTAATTTTAATTTTGATTTTAAT
6941822 TTAATTTTAATTTT
1 TTAATTTTAATTTT
6941836 TGTTTAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (29 bp):
TTAATTTTAATTTTAATTTTGATTTTAAT
Found at i:6941847 original size:17 final size:17
Alignment explanation
Indices: 6941769--6941847 Score: 90
Period size: 17 Copynumber: 4.6 Consensus size: 17
6941759 AATTCTTAAT
6941769 TTTAATTTTAATTTTGA
1 TTTAATTTTAATTTTGA
6941786 TTTTAA-TTTAATTTTGA
1 -TTTAATTTTAATTTTGA
* * *
6941803 TTTTGATTTTGATTTTAA
1 -TTTAATTTTAATTTTGA
6941821 TTTAATTTTAATTTTTG-
1 TTTAATTTTAA-TTTTGA
6941838 TTTAATTTTA
1 TTTAATTTTA
6941848 GGTCAAGTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
17 35 0.66
18 18 0.34
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTAATTTTAATTTTGA
Found at i:6947517 original size:16 final size:16
Alignment explanation
Indices: 6947475--6947523 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
6947465 GTTTCAATTT
*
6947475 ATCATAGTT-TGATAAA
1 ATCATATTTATGA-AAA
*
6947491 ATGAT-TTTATGAAAA
1 ATCATATTTATGAAAA
6947506 ATCATATTTATGAAAA
1 ATCATATTTATGAAAA
6947522 AT
1 AT
6947524 ATGATATGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.32
16 19 0.68
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (16 bp):
ATCATATTTATGAAAA
Found at i:6952175 original size:17 final size:17
Alignment explanation
Indices: 6952143--6952174 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6952133 TCCTTTTATT
6952143 TTTTGATTTTAATTTTA
1 TTTTGATTTTAATTTTA
6952160 TTTTGATTTT-ATTTT
1 TTTTGATTTTAATTTT
6952175 TTAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (17 bp):
TTTTGATTTTAATTTTA
Found at i:6952216 original size:29 final size:29
Alignment explanation
Indices: 6952160--6952217 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
6952150 TTTAATTTTA
* * *
6952160 TTTTGATTTTATTTTTTAATTTTTTGATT
1 TTTTGATTTTATATTTTAATTGTGTGATT
6952189 TTTTGA-TTTATAATTTTAATTGTGTGATT
1 TTTTGATTTTAT-ATTTTAATTGTGTGATT
6952218 GAATTAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (29 bp):
TTTTGATTTTATATTTTAATTGTGTGATT
Found at i:6952399 original size:18 final size:20
Alignment explanation
Indices: 6952356--6952442 Score: 89
Period size: 18 Copynumber: 4.6 Consensus size: 20
6952346 ATGATATTAC
*
6952356 ATTTGCATGATTTATATTAT
1 ATTTGCATGATTTATCTTAT
6952376 -TATTGCATGA-TTA-CTTAT
1 AT-TTGCATGATTTATCTTAT
6952394 ATTTGCATGATTTATCTTAT
1 ATTTGCATGATTTATCTTAT
6952414 -TTGTG--TGATTTAT-TTAT
1 ATT-TGCATGATTTATCTTAT
*
6952431 AATTGCATGATT
1 ATTTGCATGATT
6952443 ATTAATATAT
Statistics
Matches: 57, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
17 6 0.11
18 21 0.37
19 15 0.26
20 15 0.26
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (20 bp):
ATTTGCATGATTTATCTTAT
Found at i:6952484 original size:13 final size:14
Alignment explanation
Indices: 6952466--6952494 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6952456 TTAGTATCTA
6952466 TTTGCAT-GATATT
1 TTTGCATGGATATT
6952479 TTTGCATGGATATT
1 TTTGCATGGATATT
6952493 TT
1 TT
6952495 GGTGTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (14 bp):
TTTGCATGGATATT
Found at i:6952610 original size:29 final size:27
Alignment explanation
Indices: 6952540--6952610 Score: 65
Period size: 29 Copynumber: 2.5 Consensus size: 27
6952530 TGATATCTTA
*
6952540 GCATGATTTTTGGTATGATTTTTATATTG
1 GCATGATTTTT--TATGATTTTCATATTG
*
6952569 GCATGA-TATTTATGATATTTACATGATT-
1 GCATGATTTTTTATGAT-TTT-CAT-ATTG
6952597 GCATGATTTTTTAT
1 GCATGATTTTTTAT
6952611 AGAACTTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
26 6 0.17
27 3 0.09
28 11 0.31
29 15 0.43
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.52
Consensus pattern (27 bp):
GCATGATTTTTTATGATTTTCATATTG
Found at i:6953157 original size:24 final size:22
Alignment explanation
Indices: 6953130--6953175 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
6953120 AAGGTTTGAG
6953130 AATATAAATATTTTAAATATATAT
1 AATATAAAT-TTTTAAA-ATATAT
**
6953154 AATATTTATTTTTAAAATATAT
1 AATATAAATTTTTAAAATATAT
6953176 GACATTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 7 0.35
24 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATAAATTTTTAAAATATAT
Found at i:6953182 original size:22 final size:23
Alignment explanation
Indices: 6953140--6953182 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6953130 AATATAAATA
*
6953140 TTTTAAATATATATAATATTTAT
1 TTTTAAATATATATAACATTTAT
*
6953163 TTTTAAA-ATATATGACATTT
1 TTTTAAATATATATAACATTT
6953183 GTTGATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTTAAATATATATAACATTTAT
Found at i:6953541 original size:17 final size:20
Alignment explanation
Indices: 6953499--6953546 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
6953489 AAAATTTTGA
6953499 AATTTTTTTATACATATGTT
1 AATTTTTTTATACATATGTT
*
6953519 ATTTTTTTTATA-AT-T-TT
1 AATTTTTTTATACATATGTT
6953536 AATTTTTTTAT
1 AATTTTTTTAT
6953547 TAAAAATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 12 0.46
18 1 0.04
19 2 0.08
20 11 0.42
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
AATTTTTTTATACATATGTT
Found at i:6959300 original size:82 final size:82
Alignment explanation
Indices: 6959199--6959362 Score: 265
Period size: 82 Copynumber: 2.0 Consensus size: 82
6959189 TATTGATTAA
* * *
6959199 ATAGTTATATATAAACAATGTATGATATTTTTCCATTTAAGTTAACCTATTGTTAGCCTTGAATT
1 ATAGTTATATATAAACAATGTATGATATTTTCCCATTTAAGTTAACCTATTATTAGCCTTAAATT
6959264 GATCCCTATTTTGAAAT
66 GATCCCTATTTTGAAAT
* * *
6959281 ATAGTTTTATATTAACAATGTATGATATTTTCCCATTTAAGTTAACTTATTATTAGCCTTAAATT
1 ATAGTTATATATAAACAATGTATGATATTTTCCCATTTAAGTTAACCTATTATTAGCCTTAAATT
*
6959346 GATCCTTATTTTGAAAT
66 GATCCCTATTTTGAAAT
6959363 GACAAAACAT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.46
Consensus pattern (82 bp):
ATAGTTATATATAAACAATGTATGATATTTTCCCATTTAAGTTAACCTATTATTAGCCTTAAATT
GATCCCTATTTTGAAAT
Found at i:6962952 original size:22 final size:23
Alignment explanation
Indices: 6962909--6962952 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6962899 TTTTAACATC
*
6962909 TAAAACTTTTTTTTTTTATATTT
1 TAAAACTTTTTTTTATTATATTT
6962932 TAAAA-TTATTTTTTATT-TATT
1 TAAAACTT-TTTTTTATTATATT
6962953 GATATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
TAAAACTTTTTTTTATTATATTT
Found at i:6964008 original size:22 final size:21
Alignment explanation
Indices: 6963962--6964008 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
6963952 TTTTAATAAT
* *
6963962 ATTTTTTTTTACATATTATTG
1 ATTTTTTTTTAAATATTATTA
*
6963983 ATTTTTTTATTAAATATTTTTA
1 ATTTTTTT-TTAAATATTATTA
6964005 ATTT
1 ATTT
6964009 ATCAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
ATTTTTTTTTAAATATTATTA
Found at i:6964050 original size:35 final size:35
Alignment explanation
Indices: 6963985--6964051 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
6963975 TATTATTGAT
* *
6963985 TTTTTTATTAAATATTTTTAATTTATCAATTTAAA
1 TTTTTTATTAAATATTTTTAATTAAACAATTTAAA
6964020 TTTTTTATTAAATTATTTTTAA-TAAACAATTT
1 TTTTTTATTAAA-TATTTTTAATTAAACAATTT
6964052 CTCAAAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 20 0.69
36 9 0.31
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (35 bp):
TTTTTTATTAAATATTTTTAATTAAACAATTTAAA
Found at i:6969831 original size:16 final size:16
Alignment explanation
Indices: 6969797--6969846 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
6969787 TAAATTTTAA
*
6969797 TTATTAAAAATATTAT
1 TTATCAAAAATATTAT
6969813 TTATCAAAAATA--AT
1 TTATCAAAAATATTAT
*
6969827 TT-TTAAAAATATTAT
1 TTATCAAAAATATTAT
6969842 ATTAT
1 -TTAT
6969847 TTTGTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 8 0.29
14 4 0.14
15 2 0.07
16 13 0.46
17 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATCAAAAATATTAT
Found at i:6971602 original size:2 final size:2
Alignment explanation
Indices: 6971595--6971631 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
6971585 AATGGAAAAT
6971595 TA TA TA TA TA TA TA TA TA TA T- TA TA TA -A TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6971632 CAAATAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6971619 original size:21 final size:19
Alignment explanation
Indices: 6971593--6971631 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
6971583 AAAATGGAAA
6971593 ATTATATATATATATATATAT
1 ATTATATA-ATA-ATATATAT
6971614 ATTATATAATAATATATA
1 ATTATATAATAATATATA
6971632 CAAATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTATATAATAATATATAT
Found at i:6971862 original size:30 final size:30
Alignment explanation
Indices: 6971817--6971884 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
6971807 TAACTTTTTG
*
6971817 AAAAA-TTTATGTAAGACATTAAAAATTCA
1 AAAAATTTTATATAAGACATTAAAAATTCA
* ** *
6971846 AATAATTTTATATAAGATTTTGAAAATTCA
1 AAAAATTTTATATAAGACATTAAAAATTCA
6971876 AAAAATTTT
1 AAAAATTTT
6971885 CATCATAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (30 bp):
AAAAATTTTATATAAGACATTAAAAATTCA
Found at i:6972408 original size:23 final size:23
Alignment explanation
Indices: 6972354--6972409 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
6972344 TTTATCAATC
6972354 AATAATAT-ATAATTTTATTTTT
1 AATAATATAATAATTTTATTTTT
* *
6972376 AAAAAAATAATAA-TTTATTTTT
1 AATAATATAATAATTTTATTTTT
*
6972398 ATTTAATATAAT
1 A-ATAATATAAT
6972410 TTTACAGGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATAATATAATAATTTTATTTTT
Found at i:6974046 original size:27 final size:27
Alignment explanation
Indices: 6974008--6974076 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 27
6973998 ACTGAATCGA
* *
6974008 GTTTCTGTTGTGACAACCTTGAGTCTG
1 GTTTTTGTTGTGACAACCTCGAGTCTG
*
6974035 GTTTTTGTTGTGGTGACAGCCTCGAGTCTG
1 GTTTTTG-T-T-GTGACAACCTCGAGTCTG
6974065 GTTTTTGTTGTG
1 GTTTTTGTTGTG
6974077 GTGATAACCT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 9 0.25
28 2 0.06
29 2 0.06
30 23 0.64
ACGTcount: A:0.10, C:0.14, G:0.30, T:0.45
Consensus pattern (27 bp):
GTTTTTGTTGTGACAACCTCGAGTCTG
Found at i:6974062 original size:30 final size:30
Alignment explanation
Indices: 6974017--6974107 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 30
6974007 AGTTTCTGTT
*
6974017 GTGACAACCTTGAGTCTGGTTTTTGTTGTG
1 GTGACAACCTAGAGTCTGGTTTTTGTTGTG
* *
6974047 GTGACAGCCTCGAGTCTGGTTTTTGTTGTG
1 GTGACAACCTAGAGTCTGGTTTTTGTTGTG
* * * *
6974077 GTGATAACCTAGAGCCTGGTTTCTGATGTG
1 GTGACAACCTAGAGTCTGGTTTTTGTTGTG
6974107 G
1 G
6974108 AGATAATTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.14, C:0.15, G:0.32, T:0.38
Consensus pattern (30 bp):
GTGACAACCTAGAGTCTGGTTTTTGTTGTG
Found at i:6978536 original size:33 final size:32
Alignment explanation
Indices: 6978499--6978574 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 32
6978489 TCAAAGTCCC
* **
6978499 AAAAAAGGCAAAACACAGTTACAATAACTAAAA
1 AAAAAAGGCAAAA-AAACCTACAATAACTAAAA
6978532 AAAAAA---AAAAAAACCTACAATAACTAAAA
1 AAAAAAGGCAAAAAAACCTACAATAACTAAAA
*
6978561 AAGAAAGGACAAAA
1 AAAAAAGG-CAAAA
6978575 TTAAACTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
29 21 0.60
30 4 0.11
33 10 0.29
ACGTcount: A:0.70, C:0.13, G:0.08, T:0.09
Consensus pattern (32 bp):
AAAAAAGGCAAAAAAACCTACAATAACTAAAA
Found at i:6978616 original size:3 final size:3
Alignment explanation
Indices: 6978608--6978643 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
6978598 AGTCAAAATC
*
6978608 ATT ATT ATT ATT AAT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6978644 TCTCTCGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6982437 original size:36 final size:37
Alignment explanation
Indices: 6982389--6982558 Score: 127
Period size: 36 Copynumber: 4.7 Consensus size: 37
6982379 AATGGGATTG
6982389 TTTTCCTAAAAAATAAGAGAACAAGTAATAG-GAGTA
1 TTTTCCTAAAAAATAAGAGAACAAGTAATAGAGAGTA
* * * * * **
6982425 TTTTTCTAAAAAAAAAAAAGAATAAATAAT-GAGAGCG
1 TTTTCCT-AAAAAATAAGAGAACAAGTAATAGAGAGTA
* * *
6982462 TTTT-CTAAAAAAACAAGAAAACAAGT--TACGTGAGTA
1 TTTTCCT-AAAAAATAAGAGAACAAGTAATA-GAGAGTA
* * * *
6982498 TTTTCCTAAAATATAGGAGAACAAGTAAT-TAGAGTG
1 TTTTCCTAAAAAATAAGAGAACAAGTAATAGAGAGTA
* *
6982534 TTTCCCTAAAAAATAGGAGAACAAG
1 TTTTCCTAAAAAATAAGAGAACAAG
6982559 CAAGTAATAG
Statistics
Matches: 103, Mismatches: 24, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
34 1 0.01
36 74 0.72
37 27 0.26
38 1 0.01
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.25
Consensus pattern (37 bp):
TTTTCCTAAAAAATAAGAGAACAAGTAATAGAGAGTA
Found at i:6982454 original size:73 final size:73
Alignment explanation
Indices: 6982372--6982508 Score: 172
Period size: 73 Copynumber: 1.9 Consensus size: 73
6982362 TGTCAAATGA
* ** * * *
6982372 AATAAATAATGGGATTGTTTTCCT-AAAAAATAAGAGAACAAGTAATA-G-GAGTATTTTTCTAA
1 AATAAATAATGAGAGCGTTTT-CTAAAAAAACAAGAAAACAAGT--TACGTGAGTATTTTCCTAA
6982434 AAAAAAAAAAG
63 AAAAAAAAAAG
6982445 AATAAATAATGAGAGCGTTTTCTAAAAAAACAAGAAAACAAGTTACGTGAGTATTTTCCTAAAA
1 AATAAATAATGAGAGCGTTTTCTAAAAAAACAAGAAAACAAGTTACGTGAGTATTTTCCTAAAA
6982509 TATAGGAGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
71 2 0.04
72 3 0.05
73 50 0.91
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (73 bp):
AATAAATAATGAGAGCGTTTTCTAAAAAAACAAGAAAACAAGTTACGTGAGTATTTTCCTAAAAA
AAAAAAAG
Found at i:6983111 original size:93 final size:93
Alignment explanation
Indices: 6982952--6983122 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
6982942 AAGCCACGGC
* *
6982952 CAATAATTGTATTCTTAATTTATGAAAGAAATAATTCTCAACTTGGTATCAAGGAAGTTCACTTG
1 CAATAATTGTATTCTCAATTTATGAAAGAAATAATTCTCAACTTGATATCAAGGAAGTTCACTTG
6983017 ATAGCAAGTATAAGCGACAAAGCTAGGT
66 ATAGCAAGTATAAGCGACAAAGCTAGGT
* * * *
6983045 CAATAATTGTATTCTCAATTTAT-AAGAGAGATAATTCTTAACTTGATATCGAGGGAGTTCACTT
1 CAATAATTGTATTCTCAATTTATGAA-AGAAATAATTCTCAACTTGATATCAAGGAAGTTCACTT
6983109 GATAGCAAGTATAA
65 GATAGCAAGTATAA
6983123 ATAATAAAGT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (93 bp):
CAATAATTGTATTCTCAATTTATGAAAGAAATAATTCTCAACTTGATATCAAGGAAGTTCACTTG
ATAGCAAGTATAAGCGACAAAGCTAGGT
Found at i:6986439 original size:2 final size:2
Alignment explanation
Indices: 6986432--6986459 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6986422 AAAATTAAAT
6986432 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
6986460 AAGTCGGAAT
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):
TA
Found at i:6991494 original size:10 final size:10
Alignment explanation
Indices: 6991481--6991512 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
6991471 TTGAATTGAA
6991481 TTATATATTT
1 TTATATATTT
*
6991491 TTATTTATTT
1 TTATATATTT
6991501 TTATATATTT
1 TTATATATTT
6991511 TT
1 TT
6991513 TTAATTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTATATATTT
Found at i:6991560 original size:10 final size:10
Alignment explanation
Indices: 6991545--6991583 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
6991535 AATTATTTTA
6991545 TATTTAAATT
1 TATTTAAATT
*
6991555 TATTTAAATA
1 TATTTAAATT
*
6991565 TATTTAAAAT
1 TATTTAAATT
6991575 TATATTAAA
1 TAT-TTAAA
6991584 ATAACATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TATTTAAATT
Found at i:6991568 original size:20 final size:21
Alignment explanation
Indices: 6991543--6991583 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
6991533 ATAATTATTT
*
6991543 TATATTTAAATTTAT-TTAAA
1 TATATTTAAAATTATATTAAA
6991563 TATATTTAAAATTATATTAAA
1 TATATTTAAAATTATATTAAA
6991584 ATAACATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATATTTAAAATTATATTAAA
Found at i:6991580 original size:12 final size:12
Alignment explanation
Indices: 6991542--6991596 Score: 57
Period size: 11 Copynumber: 5.0 Consensus size: 12
6991532 AATAATTATT
6991542 TTATATTT-AAA
1 TTATATTTAAAA
6991553 TT-TATTT-AAA
1 TTATATTTAAAA
6991563 -TATATTTAAAA
1 TTATATTTAAAA
6991574 TTATA-TTAAAA
1 TTATATTTAAAA
* *
6991585 TAACATTTAAAA
1 TTATATTTAAAA
6991597 ATTAAAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 1 0.03
10 13 0.34
11 14 0.37
12 10 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TTATATTTAAAA
Found at i:6991669 original size:30 final size:30
Alignment explanation
Indices: 6991635--6991704 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 30
6991625 TCAATTTGAT
6991635 AAATTTTATTTAAATTAAAATCATATTTTA
1 AAATTTTATTTAAATTAAAATCATATTTTA
6991665 AAATTTTTATTTAAATTAAAATCATATTTTA
1 AAA-TTTTATTTAAATTAAAATCATATTTTA
*
6991696 TAATTTTAT
1 AAATTTTAT
6991705 AATTTTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 9 0.24
31 29 0.76
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (30 bp):
AAATTTTATTTAAATTAAAATCATATTTTA
Found at i:6992214 original size:19 final size:19
Alignment explanation
Indices: 6992192--6992229 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
6992182 GACATAAAAA
6992192 TATTTACT-ATTTTGTAAAT
1 TATTTACTAATTTT-TAAAT
*
6992211 TATTTATTAATTTTTAAAT
1 TATTTACTAATTTTTAAAT
6992230 ATTAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
TATTTACTAATTTTTAAAT
Found at i:6993880 original size:29 final size:30
Alignment explanation
Indices: 6993832--6993890 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
6993822 AATTACATTG
6993832 AAATATTTAATATAACATTTAAATT-TTAA
1 AAATATTTAATATAACATTTAAATTATTAA
* * *
6993861 AAATTTTTAATATGATATTTAAATTATTAA
1 AAATATTTAATATAACATTTAAATTATTAA
6993891 TTTGCTAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
AAATATTTAATATAACATTTAAATTATTAA
Found at i:6994059 original size:198 final size:199
Alignment explanation
Indices: 6993689--6994092 Score: 738
Period size: 198 Copynumber: 2.0 Consensus size: 199
6993679 CTTGTTGATA
6993689 GAATTTGCTAGTGAAACCCAAGATTTCTATGCTTAATGAAATACATTCATGGGTTTTTTTAATCT
1 GAATTTGCTAGTGAAACCCAAGATTTCTATGCTTAATGAAATACATTCATGGGTTTTTTTAATCT
*
6993754 TTTTGGTTGATGAAGAATTTGGGACATATCGACATTACCCTTATAAGTGTTAACGCATATAGCCT
66 TTTTGGTTGATGAAGAATTTGGGACATATCGACATTACCCTTATAAGTGTTAACGCATATAACCT
6993819 TTAAATTACATTGAAATATTTAATATAACATTTAAATTTTAAAAATTTTTAATATGATATTTAAA
131 TTAAATTACATTGAAATATTTAATATAACATTTAAATTTTAAAAATTTTTAATATGATATTTAAA
6993884 TTAT
196 TTAT
*
6993888 TAATTTGCTAGTGAAACCCAAGATTTCTATGCTTAATGAAATACATTCATGGGTTTTTTTAATCT
1 GAATTTGCTAGTGAAACCCAAGATTTCTATGCTTAATGAAATACATTCATGGGTTTTTTTAATCT
** *
6993953 TTTTGGTTGATGAAGAA-TTGGGACATATCGACATTACTTTTATAAGTGTTAATGCATATAACCT
66 TTTTGGTTGATGAAGAATTTGGGACATATCGACATTACCCTTATAAGTGTTAACGCATATAACCT
* *
6994017 TTAAATTACATTGAAATATTTAATATGATATTTAAATTTTAAAAATTTTTAATATGATATTTAAA
131 TTAAATTACATTGAAATATTTAATATAACATTTAAATTTTAAAAATTTTTAATATGATATTTAAA
6994082 TTAT
196 TTAT
6994086 GAATTTG
1 GAATTTG
6994093 ATAATTAATA
Statistics
Matches: 197, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
198 116 0.59
199 81 0.41
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (199 bp):
GAATTTGCTAGTGAAACCCAAGATTTCTATGCTTAATGAAATACATTCATGGGTTTTTTTAATCT
TTTTGGTTGATGAAGAATTTGGGACATATCGACATTACCCTTATAAGTGTTAACGCATATAACCT
TTAAATTACATTGAAATATTTAATATAACATTTAAATTTTAAAAATTTTTAATATGATATTTAAA
TTAT
Found at i:6994194 original size:15 final size:16
Alignment explanation
Indices: 6994176--6994242 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 16
6994166 AATATTACAT
*
6994176 TAATTAATAAAT-TTA
1 TAATTAAAAAATATTA
*
6994191 TAATT--TAAATATTA
1 TAATTAAAAAATATTA
*
6994205 T-ATTAAAAAAAATT-
1 TAATTAAAAAATATTA
6994219 TAAATTAAAAAATATTA
1 T-AATTAAAAAATATTA
6994236 T-ATTAAA
1 TAATTAAA
6994243 TATTTTAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
13 8 0.19
14 5 0.12
15 17 0.40
16 12 0.28
17 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATTAAAAAATATTA
Found at i:6994209 original size:28 final size:27
Alignment explanation
Indices: 6994174--6994262 Score: 67
Period size: 31 Copynumber: 3.2 Consensus size: 27
6994164 TAAATATTAC
6994174 ATTA-ATTAATAAATTTATAATTTAAAT
1 ATTATATTAA-AAATTTATAATTTAAAT
*
6994201 ATTATATTAAAAAAAATTTA-AATTAAAAAAT
1 ATTATATT---AAAAATTTATAATT--TAAAT
* * *
6994232 ATTATATTAAATATTT-TAATATAAAA
1 ATTATATTAAAAATTTATAATTTAAAT
6994258 ATTAT
1 ATTAT
6994263 TCATAATATT
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
26 8 0.16
27 4 0.08
28 13 0.26
29 4 0.08
30 7 0.14
31 14 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTATATTAAAAATTTATAATTTAAAT
Found at i:6994250 original size:29 final size:30
Alignment explanation
Indices: 6994197--6994263 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
6994187 TTTATAATTT
6994197 AAATATTATATTAAAAAAAATTTAA-ATTAAA
1 AAATATTATATT-AAAAAAATTTAATA-TAAA
* *
6994228 AAATATTATATT-AAATATTTTAATATAAA
1 AAATATTATATTAAAAAAATTTAATATAAA
*
6994257 AATTATT
1 AAATATT
6994264 CATAATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 19 0.59
30 1 0.03
31 12 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
AAATATTATATTAAAAAAATTTAATATAAA
Done.