Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 63 of 121
Found at i:10791017 original size:36 final size:36
Alignment explanation
Indices: 10790959--10791029 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
10790949 ATCTAAATGA
* * *
10790959 AAGATCTCGAGATTTATGAATAGCTC-GATTTTATGC
1 AAGACCTCAAGATTTATCAATAGCTCAG-TTTTATGC
10790995 AAGACCTCAAGATTTATCAATAGCTCAGTTTTATG
1 AAGACCTCAAGATTTATCAATAGCTCAGTTTTATG
10791030 TCGTAGCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (36 bp):
AAGACCTCAAGATTTATCAATAGCTCAGTTTTATGC
Found at i:10792456 original size:21 final size:19
Alignment explanation
Indices: 10792421--10792459 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
10792411 ATAATAATAA
10792421 AAATTAAATTAAAAAGAAG
1 AAATTAAATTAAAAAGAAG
10792440 AAATATAAATATAAAAAGAA
1 AAAT-TAAAT-TAAAAAGAA
10792460 ATAAAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (19 bp):
AAATTAAATTAAAAAGAAG
Found at i:10792731 original size:15 final size:15
Alignment explanation
Indices: 10792711--10792742 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10792701 AAGTCTTTGA
10792711 AAAGAAATGAAAACT
1 AAAGAAATGAAAACT
10792726 AAAGAAATGAAAACT
1 AAAGAAATGAAAACT
10792741 AA
1 AA
10792743 GGGGAACCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAGAAATGAAAACT
Found at i:10795011 original size:15 final size:15
Alignment explanation
Indices: 10794991--10795020 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10794981 AAAGTTTTAG
*
10794991 ATAAAACCCTAAACC
1 ATAAAACCCAAAACC
10795006 ATAAAACCCAAAACC
1 ATAAAACCCAAAACC
10795021 CTAAGTGAAA
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:0.57, C:0.33, G:0.00, T:0.10
Consensus pattern (15 bp):
ATAAAACCCAAAACC
Found at i:10795050 original size:19 final size:18
Alignment explanation
Indices: 10794991--10795051 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
10794981 AAAGTTTTAG
10794991 ATAAAACCCTAAA-CC--
1 ATAAAACCCTAAACCCTA
*
10795006 ATAAAACCCAAAACCCTA
1 ATAAAACCCTAAACCCTA
*
10795024 AGTGAAACCCTAAACCCTA
1 A-TAAAACCCTAAACCCTA
10795043 GATAAAACC
1 -ATAAAACC
10795052 TGAAATGGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
15 12 0.32
16 2 0.05
18 1 0.03
19 21 0.57
20 1 0.03
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (18 bp):
ATAAAACCCTAAACCCTA
Found at i:10795257 original size:7 final size:7
Alignment explanation
Indices: 10795238--10795272 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
10795228 TTCGTTTTAT
10795238 TAAAATA
1 TAAAATA
10795245 -ACAAATA
1 TA-AAATA
10795252 TAAAATA
1 TAAAATA
10795259 TAAAATA
1 TAAAATA
10795266 TAAAATA
1 TAAAATA
10795273 ATAGAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 1 0.04
7 24 0.92
8 1 0.04
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAAATA
Found at i:10795271 original size:21 final size:23
Alignment explanation
Indices: 10795238--10795281 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
10795228 TTCGTTTTAT
10795238 TAAAATAACAAAT-ATA-AAATA
1 TAAAATAACAAATAATAGAAATA
10795259 TAAAATATA-AAATAATAGAAATA
1 TAAAATA-ACAAATAATAGAAATA
10795282 ATAGGACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 11 0.55
22 4 0.20
23 5 0.25
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (23 bp):
TAAAATAACAAATAATAGAAATA
Found at i:10812141 original size:16 final size:17
Alignment explanation
Indices: 10812116--10812150 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
10812106 CTTGGTTAAC
10812116 AAAAAGTTCACAAATTG
1 AAAAAGTTCACAAATTG
10812133 AAAAA-TTCACAAATTG
1 AAAAAGTTCACAAATTG
10812149 AA
1 AA
10812151 TTTGATAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (17 bp):
AAAAAGTTCACAAATTG
Found at i:10819061 original size:12 final size:13
Alignment explanation
Indices: 10819033--10819068 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
10819023 GCAGTGTAAT
10819033 GAAAAAGAAAAGAA
1 GAAAAA-AAAAGAA
10819047 GAAAAAAAAAG-A
1 GAAAAAAAAAGAA
10819059 GAAAAAAAAA
1 GAAAAAAAAA
10819069 ACAAGAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.50
13 5 0.23
14 6 0.27
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAGAA
Found at i:10837732 original size:30 final size:29
Alignment explanation
Indices: 10837670--10837732 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
10837660 GAGGTTTGGT
* *
10837670 TTAGGTTTTAAAGTTAATTGGGGTCTAGG
1 TTAGGTTTTAAAGTTAATTGGAGTCTAAG
*
10837699 TTAGGTTTTAGAA-TTAGTTTGGAGTCTAAG
1 TTAGGTTTTA-AAGTTA-ATTGGAGTCTAAG
10837729 TTAG
1 TTAG
10837733 AATTTGAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.25, C:0.03, G:0.29, T:0.43
Consensus pattern (29 bp):
TTAGGTTTTAAAGTTAATTGGAGTCTAAG
Found at i:10858987 original size:22 final size:22
Alignment explanation
Indices: 10858962--10859008 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
10858952 AAAAGGAAAA
*
10858962 AAGAAGAAGCAAATAAGGAAGC
1 AAGAAAAAGCAAATAAGGAAGC
*
10858984 AAGAAAAAGTAAATAAGGAAGC
1 AAGAAAAAGCAAATAAGGAAGC
10859006 AAG
1 AAG
10859009 GAATGCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.62, C:0.06, G:0.26, T:0.06
Consensus pattern (22 bp):
AAGAAAAAGCAAATAAGGAAGC
Found at i:10860443 original size:9 final size:10
Alignment explanation
Indices: 10860424--10860462 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
10860414 TTTTCTAGGA
10860424 AGTTAAAGTT
1 AGTTAAAGTT
10860434 AGTT-AAGTT
1 AGTTAAAGTT
*
10860443 AGTTAAATTT
1 AGTTAAAGTT
*
10860453 AGTTCAAGTT
1 AGTTAAAGTT
10860463 GATTAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (10 bp):
AGTTAAAGTT
Found at i:10860448 original size:19 final size:20
Alignment explanation
Indices: 10860424--10860462 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10860414 TTTTCTAGGA
10860424 AGTTAAAGTTAGTT-AAGTT
1 AGTTAAAGTTAGTTCAAGTT
*
10860443 AGTTAAATTTAGTTCAAGTT
1 AGTTAAAGTTAGTTCAAGTT
10860463 GATTAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (20 bp):
AGTTAAAGTTAGTTCAAGTT
Found at i:10869276 original size:48 final size:48
Alignment explanation
Indices: 10869224--10869316 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
10869214 GTATTGTCAT
*
10869224 TTGTTCATTCAACTATATTGCTTA-GTTTTTCCTTGTTCATTTGTTTAG
1 TTGTTCATTCAACTATA-TGCTTATGTTTTTCCTTGTTCAATTGTTTAG
* ** *
10869272 TTGTTCATTTAGTTATATGCTTATTTTTTTCCTTGTTCAATTGTT
1 TTGTTCATTCAACTATATGCTTATGTTTTTCCTTGTTCAATTGTT
10869317 CATTAGGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 6 0.15
48 33 0.85
ACGTcount: A:0.16, C:0.13, G:0.12, T:0.59
Consensus pattern (48 bp):
TTGTTCATTCAACTATATGCTTATGTTTTTCCTTGTTCAATTGTTTAG
Found at i:10869375 original size:17 final size:17
Alignment explanation
Indices: 10869353--10869395 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
10869343 TATTGATGTC
10869353 GTTTTCTTTATGTAGTG
1 GTTTTCTTTATGTAGTG
*
10869370 GTTTTCTTTATTTAGTG
1 GTTTTCTTTATGTAGTG
10869387 GTTTTCTTT
1 GTTTTCTTT
10869396 GTTTTATAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.09, C:0.07, G:0.19, T:0.65
Consensus pattern (17 bp):
GTTTTCTTTATGTAGTG
Found at i:10874855 original size:17 final size:18
Alignment explanation
Indices: 10874833--10874866 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10874823 TATTTTTACT
*
10874833 TACACATTG-AATATTTA
1 TACACATAGAAATATTTA
10874850 TACACATAGAAATATTT
1 TACACATAGAAATATTT
10874867 TTACCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (18 bp):
TACACATAGAAATATTTA
Found at i:10879660 original size:31 final size:31
Alignment explanation
Indices: 10879625--10879684 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
10879615 ATACTTGTCC
*
10879625 AATATTATAAAATGATCATTTTACCTTTTTT
1 AATATTATAAAATAATCATTTTACCTTTTTT
*
10879656 AATATTATAACATAATCATTTTACCTTTT
1 AATATTATAAAATAATCATTTTACCTTTT
10879685 AATAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.50
Consensus pattern (31 bp):
AATATTATAAAATAATCATTTTACCTTTTTT
Found at i:10879749 original size:104 final size:103
Alignment explanation
Indices: 10879628--10879822 Score: 275
Period size: 104 Copynumber: 1.9 Consensus size: 103
10879618 CTTGTCCAAT
* * * *
10879628 ATTATAAAATGATCATTTTACCTTTTTT-AATATTATAACATAATCATTTTACCTTTTAATAAAA
1 ATTATAAAATGACCATTTTA-CTTTTTTCAATATTATAAAATAATAATTTTACCCTTTAATAAAA
10879692 ATAAAATAACTCAAAATGTTAATAATAACATCTCTCTAAC
65 ATAAAAT-ACTCAAAATGTTAATAATAACATCTCTCTAAC
* * *
10879732 ATTATAATATGACCATTTTACTTTTTTCAATATTATAAAATGATAATTTTACCCTTTAATCAAAA
1 ATTATAAAATGACCATTTTACTTTTTTCAATATTATAAAATAATAATTTTACCCTTTAATAAAAA
* * *
10879797 TAATATAGTTAAAATGTTAATAATAA
66 TAAAATACTCAAAATGTTAATAATAA
10879823 AAATTTAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
103 25 0.31
104 55 0.69
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (103 bp):
ATTATAAAATGACCATTTTACTTTTTTCAATATTATAAAATAATAATTTTACCCTTTAATAAAAA
TAAAATACTCAAAATGTTAATAATAACATCTCTCTAAC
Found at i:10880135 original size:150 final size:151
Alignment explanation
Indices: 10879743--10880134 Score: 492
Period size: 150 Copynumber: 2.6 Consensus size: 151
10879733 TTATAATATG
* * * * *
10879743 ACCATTTTACTTTTTTCAATATTATAAAATGATAATTTTACCCTTTAATCAAAATAATATAGT--
1 ACCATTTTACCTTTTTCAATATTATAAAATGATCATTTTACTCTTTAATGAAAATAAAATA-TCC
**
10879806 TAAAATGTTAATAATAAAAATTTAAAAATATATTAAAAGAATTTTCGAATGGGTTATATTTTGAC
65 TAAAATGTTAATAATAAAAATTTAAAAATATATTAAAAGAATTTTCGAATGAATTATATTTTGAC
10879871 ACATGTCCAATAGTTTAAAATA
130 ACATGTCCAATAGTTTAAAATA
*
10879893 ACCATTTTACCCTTTTT-AATATTATAAAATGATCATTTTA-TCTTTTAATGAAAATAAAATAAC
1 ACCATTTTA-CCTTTTTCAATATTATAAAATGATCATTTTACTC-TTTAATGAAAATAAAATATC
*
10879956 CCAAAATGTTAATAATAAAAAATTTAAAAATATATTAAAAGAATTTTC-AA-GAATTATATTTTG
64 CTAAAATGTTAATAAT-AAAAATTTAAAAATATATTAAAAGAATTTTCGAATGAATTATATTTTG
** * * *
10880019 ACATTTTTCCAATA-TTATACAATG
128 ACACATGTCCAATAGTT-TAAAATA
* * * * * *
10880043 GCTATTTTACCTTTTTCAACATTATAAAATAACCATTTTACTCGTTAATGAAAATAAAATATCCT
1 ACCATTTTACCTTTTTCAATATTATAAAATGATCATTTTACTCTTTAATGAAAATAAAATATCCT
* *
10880108 AAAATGTAAATAATAAAAATTAAAAAA
66 AAAATGTTAATAATAAAAATTTAAAAA
10880135 AATAATATCT
Statistics
Matches: 210, Mismatches: 24, Indels: 17
0.84 0.10 0.07
Matches are distributed among these distances:
149 22 0.10
150 133 0.63
151 24 0.11
152 31 0.15
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.39
Consensus pattern (151 bp):
ACCATTTTACCTTTTTCAATATTATAAAATGATCATTTTACTCTTTAATGAAAATAAAATATCCT
AAAATGTTAATAATAAAAATTTAAAAATATATTAAAAGAATTTTCGAATGAATTATATTTTGACA
CATGTCCAATAGTTTAAAATA
Found at i:10884723 original size:15 final size:15
Alignment explanation
Indices: 10884703--10884756 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
10884693 AAAAAAAATC
*
10884703 AAAAATTGAAATCT-A
1 AAAAATTTAAAT-TAA
10884718 AAAAATTTAAATATAA
1 AAAAATTTAAAT-TAA
*
10884734 AAAAATTTAAATTCA
1 AAAAATTTAAATTAA
10884749 AAAAATTT
1 AAAAATTT
10884757 GATATCGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
15 22 0.63
16 13 0.37
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (15 bp):
AAAAATTTAAATTAA
Found at i:10888345 original size:21 final size:22
Alignment explanation
Indices: 10888298--10888351 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
10888288 CTCCTTCTTT
* *
10888298 TTGTTTATGCTCTTTATACCAA
1 TTGTTTAAGCTCTCTATACCAA
* *
10888320 ATGTTTAAGCTC-CTATATCAA
1 TTGTTTAAGCTCTCTATACCAA
10888341 TTGTTATAAGC
1 TTGTT-TAAGC
10888352 ATACAAGAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (22 bp):
TTGTTTAAGCTCTCTATACCAA
Found at i:10888744 original size:16 final size:16
Alignment explanation
Indices: 10888710--10888744 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10888700 ATACAAGCTC
**
10888710 ATACCAATTGTTATGG
1 ATACCAATTGTTAAAG
10888726 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
10888742 ATA
1 ATA
10888745 TGTTATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:10894220 original size:14 final size:14
Alignment explanation
Indices: 10894201--10894232 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
10894191 AAGAGTTGTC
*
10894201 ACTAATCTTTTTTA
1 ACTAATATTTTTTA
10894215 ACTAATATTTTTTA
1 ACTAATATTTTTTA
10894229 ACTA
1 ACTA
10894233 GCTGTGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (14 bp):
ACTAATATTTTTTA
Found at i:10897722 original size:62 final size:62
Alignment explanation
Indices: 10897625--10897750 Score: 216
Period size: 62 Copynumber: 2.0 Consensus size: 62
10897615 TGGATAAACT
* *
10897625 TGAGCTGACATGTTGGTTATTGTTACAAGAACAAGTTCACTAAAAATGACCCAATATGATAA
1 TGAGCTAACATATTGGTTATTGTTACAAGAACAAGTTCACTAAAAATGACCCAATATGATAA
* *
10897687 TGAGCTAACATATTGGTTCTTGTTACAAGAACAAGTTCACTAAAATTGACCCAATATGATAA
1 TGAGCTAACATATTGGTTATTGTTACAAGAACAAGTTCACTAAAAATGACCCAATATGATAA
10897749 TG
1 TG
10897751 TTATATGGTA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (62 bp):
TGAGCTAACATATTGGTTATTGTTACAAGAACAAGTTCACTAAAAATGACCCAATATGATAA
Found at i:10899915 original size:5 final size:5
Alignment explanation
Indices: 10899907--10900031 Score: 74
Period size: 5 Copynumber: 23.4 Consensus size: 5
10899897 TATATCACTT
* *
10899907 TATTA TATTA TTATTA TGATACTA TATTA TACTA TATTA TAATA TTATTA
1 TATTA TATTA -TATTA T-AT--TA TATTA TATTA TATTA TATTA -TATTA
* * ** * *
10899957 TATTA CAGT- TATTA TA-GC TATTA TAATTA TTATTGT TATTA TACTA
1 TATTA TATTA TATTA TATTA TATTA T-ATTA -TATT-A TATTA TATTA
10900003 TATTA TATTA TATTA TTATTA TAGTTA TA
1 TATTA TATTA TATTA -TATTA TA-TTA TA
10900032 ATAATAATAA
Statistics
Matches: 92, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
4 4 0.04
5 50 0.54
6 32 0.35
7 3 0.03
8 3 0.03
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (5 bp):
TATTA
Found at i:10899918 original size:3 final size:3
Alignment explanation
Indices: 10899906--10900092 Score: 82
Period size: 3 Copynumber: 66.7 Consensus size: 3
10899896 GTATATCACT
* * *
10899906 TTA TTA -TA TTA TTA TTA TGA -TA CTA -TA TTA -TA CTA -TA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
10899948 ATA TTA TTA -TA TTA -CA GTTA TTA -TA GCTA TTA TAA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* *
10899992 TTA TTA -TA CTA -TA TTA -TA TTA -TA TTA TTA TTA -TA GTTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * * * * *
10900033 TAA TAA TAA TAA TAA TAA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10900081 TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TT
10900093 TCTTTGATTT
Statistics
Matches: 153, Mismatches: 12, Indels: 38
0.75 0.06 0.19
Matches are distributed among these distances:
2 30 0.20
3 118 0.77
4 5 0.03
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:10900487 original size:20 final size:20
Alignment explanation
Indices: 10900464--10900523 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
10900454 GGGAATCCTA
10900464 GGTTTGATTTGAAGTTTTTG
1 GGTTTGATTTGAAGTTTTTG
**
10900484 GGTTAAATTTG-AGTTTTTG
1 GGTTTGATTTGAAGTTTTTG
10900503 GGCTTTGATTT-AAGTTTTTG
1 GG-TTTGATTTGAAGTTTTTG
10900523 G
1 G
10900524 AGAATTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 10 0.29
20 24 0.71
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.53
Consensus pattern (20 bp):
GGTTTGATTTGAAGTTTTTG
Found at i:10900966 original size:6 final size:6
Alignment explanation
Indices: 10900957--10900991 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
10900947 AGGTTTTCTT
*
10900957 TTTTAA TTTTAA TTTTAA TTTTTGA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA -TTTTAA TTTTAA TTTT
10900992 TAAATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:10900972 original size:13 final size:13
Alignment explanation
Indices: 10900957--10900994 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
10900947 AGGTTTTCTT
10900957 TTTTAA-TTTTAA
1 TTTTAATTTTTAA
*
10900969 TTTTAATTTTTGA
1 TTTTAATTTTTAA
10900982 TTTTAATTTTTAA
1 TTTTAATTTTTAA
10900995 ATTATTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:10905023 original size:7 final size:7
Alignment explanation
Indices: 10904998--10905061 Score: 60
Period size: 8 Copynumber: 8.9 Consensus size: 7
10904988 AAAGGTGTGC
10904998 AAAAAA-
1 AAAAAAG
*
10905004 AAAAAAT
1 AAAAAAG
10905011 ATAAAAAG
1 A-AAAAAG
10905019 CAAAAAA-
1 -AAAAAAG
*
10905026 AAAAAGG
1 AAAAAAG
10905033 CAAAAAAG
1 -AAAAAAG
10905041 AAAACAAG
1 AAAA-AAG
10905049 AAAAAAG
1 AAAAAAG
10905056 AAAAAA
1 AAAAAA
10905062 AACAAAGGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
6 11 0.22
7 14 0.29
8 23 0.47
9 1 0.02
ACGTcount: A:0.83, C:0.05, G:0.09, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:10905037 original size:21 final size:21
Alignment explanation
Indices: 10904999--10905067 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
10904989 AAGGTGTGCA
* *
10904999 AAAAAAAAAAATATAAAAAGC
1 AAAAAAAAAAAGACAAAAAGC
* *
10905020 AAAAAAAAAAAGGCAAAAAAGA
1 AAAAAAAAAAAGAC-AAAAAGC
* *
10905042 AAACAAGAAAAAAGAAAAAAAAC
1 AAA-AA-AAAAAAGACAAAAAGC
10905065 AAA
1 AAA
10905068 GGAGAAAAAG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 11 0.30
22 9 0.24
23 10 0.27
24 7 0.19
ACGTcount: A:0.83, C:0.06, G:0.09, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAAAGACAAAAAGC
Found at i:10905038 original size:22 final size:23
Alignment explanation
Indices: 10904996--10905056 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
10904986 AAAAAGGTGT
*
10904996 GCAAAAAAAAAAA-ATATAAAAA
1 GCAAAAAAAAAAAGACATAAAAA
*
10905018 GCAAAAAAAAAAAGGCA-AAAAA
1 GCAAAAAAAAAAAGACATAAAAA
*
10905040 GAAAACAAGAAAAAAGA
1 GCAAA-AA-AAAAAAGA
10905057 AAAAAAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 22 0.69
23 3 0.09
24 7 0.22
ACGTcount: A:0.79, C:0.07, G:0.11, T:0.03
Consensus pattern (23 bp):
GCAAAAAAAAAAAGACATAAAAA
Found at i:10905039 original size:15 final size:14
Alignment explanation
Indices: 10904998--10905061 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 14
10904988 AAAGGTGTGC
*
10904998 AAAAAA-AAAAAAT
1 AAAAAAGAAAAAAG
10905011 ATAAAAAGCAAAAAA-
1 A-AAAAAG-AAAAAAG
*
10905026 AAAAAGGCAAAAAAG
1 AAAAAAG-AAAAAAG
10905041 AAAACAAGAAAAAAG
1 AAAA-AAGAAAAAAG
10905056 AAAAAA
1 AAAAAA
10905062 AACAAAGGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
13 1 0.02
14 19 0.43
15 16 0.36
16 8 0.18
ACGTcount: A:0.83, C:0.05, G:0.09, T:0.03
Consensus pattern (14 bp):
AAAAAAGAAAAAAG
Found at i:10905039 original size:37 final size:37
Alignment explanation
Indices: 10904998--10905077 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
10904988 AAAGGTGTGC
*
10904998 AAAAA-AAAAAAATATAAAAAGCAAAAAAAA-AAAGGCA
1 AAAAAGAAAAAAAGA-AAAAAG-AAAAAAAACAAAGGCA
*
10905035 AAAAAGAAAACAAGAAAAAAGAAAAAAAACAAAGG-A
1 AAAAAGAAAAAAAGAAAAAAGAAAAAAAACAAAGGCA
10905071 GAAAAAG
1 -AAAAAG
10905078 GAATACTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
36 9 0.24
37 22 0.58
38 7 0.18
ACGTcount: A:0.80, C:0.05, G:0.12, T:0.03
Consensus pattern (37 bp):
AAAAAGAAAAAAAGAAAAAAGAAAAAAAACAAAGGCA
Found at i:10906042 original size:120 final size:119
Alignment explanation
Indices: 10905824--10906980 Score: 720
Period size: 120 Copynumber: 9.7 Consensus size: 119
10905814 CTCAGTCCAA
* * * * **
10905824 ATCATTTCTTAT-A-ACATGATTTCATCCCAATCATTCATTTTCGACCTCGACTC-AGTCTTGGT
1 ATCATTTCTTATGACTCATGATTTCATCCCGATTATTCATTTTCAACCTCGACTCGA-TCTTAAT
* * * *** * * *
10905886 CGCTTTTATTTTTGACTTGTGATTTCGTCTTAATCACTTAAGCTTGGCTCAATCCAA
65 C-ATTTCATTTTTGACTTGTGATTTCATCTT-ATCACCCGATCTTGGCTCAATCTAG
* ** * * * *
10905943 ATCATTTCTTATGACTCATAATTTCATTTCGGTTATTTATTTTTAACTTCGACTCGATAC-TAAT
1 ATCATTTCTTATGACTCATGATTTCATCCCGATTATTCATTTTCAACCTCGACTCGAT-CTTAAT
** *
10906007 CATTTCATTTTTGACTCATGATTTCATCCTTATCACCTGATCTTGGCTC-ATACTAG
65 CATTTCATTTTTGACTTGTGATTTCAT-CTTATCACCCGATCTTGGCTCAAT-CTAG
* * * **
10906063 ATCATTTCTTATAACTCATGGTTTCATCCCTATTATTCATTTTCAACCTCGACTCGATCTTGGT-
1 ATCATTTCTTATGACTCATGATTTCATCCCGATTATTCATTTTCAACCTCGACTCGATCTTAATC
* * * *
10906127 AGCTTCATTTTTTACTTATGATTTCATCTCAATCACCCGATCTTGGCTCAATCTAG
66 A-TTTCATTTTTGACTTGTGATTTCATCT-TATCACCCGATCTTGGCTCAATCTAG
* * * * * * * * *
10906183 ATCATTTCTTATGACTCGTGGTTTCATCTCAATTATTTA-TTGCGACCTCGACTCGACCCTAATC
1 ATCATTTCTTATGACTCATGATTTCATCCCGATTATTCATTTTCAACCTCGACTCGATCTTAATC
* * *
10906247 ATTTCATTTTTGACTCGTGATTTCGTTCTGATCACCCGATCTTGGCTCAATCTAG
66 ATTTCATTTTTGACTTGTGATTTC-ATCTTATCACCCGATCTTGGCTCAATCTAG
* * * * * **
10906302 ATCATTTCTTATGACTTATGATTTCATCCTGGTTATTCATATTT-GACCTCAACTCGATCTTGCT
1 ATCATTTCTTATGACTCATGATTTCATCCCGATTATTCAT-TTTCAACCTCGACTCGATCTTAAT
* * * * * *
10906366 CATTTCATTTTTGACTTGTGATTTCATCTCAATCACTCGATCTT-GTTTAGTCTAA
65 CATTTCATTTTTGACTTGTGATTTCATCT-TATCACCCGATCTTGGCTCAATCTAG
** * ** ** * * * **
10906421 ATCATTTCTTATGACTTGTGGTTTTGTCCCGATCGTTTATTGTT-GACCTCGACTCGATCATGGT
1 ATCATTTCTTATGACTCATGATTTCATCCCGATTATTCATT-TTCAACCTCGACTCGATCTTAAT
** * ** ** * * *
10906485 CGCTTCATTTTTGACTTGTGGTTTTGTCTTGATCACCATATCTTGACTCAGTCCAG
65 CATTTCATTTTTGACTTGTGATTTCATCTT-ATCACCCGATCTTGGCTCAATCTAG
* * * * * * * **
10906541 ATCATTTCTTATGACTCATGATTTTATCCCGATCATTTATTTTCGACCTCAACTTGGTCTTAGCC
1 ATCATTTCTTATGACTCATGATTTCATCCCGATTATTCATTTTCAACCTCGACTCGATCTTAATC
* * ** * ** ** *
10906606 ACTTT-ATTTTTGACTCGTGGTTTTGTCTCGATCACCATATCTTGGCTCTGTCCAG
66 A-TTTCATTTTTGACTTGTGATTTCATCT-TATCACCCGATCTTGGCTCAATCTAG
* * * ** ** * *
10906661 ATCATTTCTTATGACTTATGGTTTCATCTCGATCCTTCATTTTTGACCTCGACTCAATCTTAGTC
1 ATCATTTCTTATGACTCATGATTTCATCCCGATTATTCATTTTCAACCTCGACTCGATCTTAATC
* * * * ** * *
10906726 ACTTCATTTTTGACTTGCGATTTCGT-TTCAATTACTTGATCTTGACTCAATCTAA
66 ATTTCATTTTTGACTTGTGATTTCATCTT--ATCACCCGATCTTGGCTCAATCTAG
* * * * * * * * *
10906781 ATCATTTCTTATGACTCGT-AGTTTCATCTCGATCATTTATTTTCGATCTTGACTCGATCCTAGT
1 ATCATTTCTTATGACTCATGA-TTTCATCCCGATTATTCATTTTCAACCTCGACTCGATCTTAAT
* ** * * * * * * * *
10906845 TACGTCATTTTTAACTCGTGGTTTCGTCTCGATCACCTGATCTTGGCTCAGTCCAG
65 CATTTCATTTTTGACTTGTGATTTCATCT-TATCACCCGATCTTGGCTCAATCTAG
** * * * * * * **
10906901 ATCATTTCTTATGACTTTTGGTTTCATCCCTATTATTCATTTTCGACCTTGACTCAATCCTGGTC
1 ATCATTTCTTATGACTCATGATTTCATCCCGATTATTCATTTTCAACCTCGACTCGATCTTAATC
*
10906966 ACTTCATTTTTGACT
66 ATTTCATTTTTGACT
10906981 CATTTGTTTC
Statistics
Matches: 825, Mismatches: 185, Indels: 55
0.77 0.17 0.05
Matches are distributed among these distances:
118 1 0.00
119 210 0.25
120 569 0.69
121 43 0.05
122 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (119 bp):
ATCATTTCTTATGACTCATGATTTCATCCCGATTATTCATTTTCAACCTCGACTCGATCTTAATC
ATTTCATTTTTGACTTGTGATTTCATCTTATCACCCGATCTTGGCTCAATCTAG
Found at i:10906214 original size:56 final size:57
Alignment explanation
Indices: 10906145--10906329 Score: 151
Period size: 56 Copynumber: 3.2 Consensus size: 57
10906135 TTTTTACTTA
10906145 TGATTTCATCTC-AATCACCCGATCTTGGCTCAATCTAGATCATTTCTTATGACTCG
1 TGATTTCATCTCAAATCACCCGATCTTGGCTCAATCTAGATCATTTCTTATGACTCG
* * ** * * * ** *
10906201 TGGTTTCATCTCAATTATTTATTGCGACCTCGACTCGACCCTA-ATCATTTCATTTTTGACTCG
1 TGATTTCATCTCAA--A-TCA-CCCGATCTTGGCTC-AATCTAGATCATTTC--TTATGACTCG
* ** **
10906264 TGATTTCGT-TCTGATCACCCGATCTTGGCTCAATCTAGATCATTTCTTATGACTTA
1 TGATTTCATCTCAAATCACCCGATCTTGGCTCAATCTAGATCATTTCTTATGACTCG
10906320 TGATTTCATC
1 TGATTTCATC
10906330 CTGGTTATTC
Statistics
Matches: 93, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
56 26 0.28
57 5 0.05
58 17 0.18
59 3 0.03
60 3 0.03
61 17 0.18
62 6 0.06
63 16 0.17
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.41
Consensus pattern (57 bp):
TGATTTCATCTCAAATCACCCGATCTTGGCTCAATCTAGATCATTTCTTATGACTCG
Found at i:10906261 original size:239 final size:239
Alignment explanation
Indices: 10905824--10906981 Score: 1026
Period size: 240 Copynumber: 4.8 Consensus size: 239
10905814 CTCAGTCCAA
* * *
10905824 ATCATTTCTTAT-A-ACATGATTTCATCCCAATCATTCATTTTCGACCTCGACTC-AGTCTTGGT
1 ATCATTTCTTATGACTCATGATTTCATCCCGATCATTCATTTTCGACCTCGACTCGA-TCTTGCT
* * * *** * * *
10905886 CGCTTTTATTTTTGACTTGTGATTTCGTCTTAATCACTTAAGCTTGGCTCAATCCAAATCATTTC
65 -AC-TTCATTTTTGACTTGTGATTTCGTCTCAATCACCCGATCTTGGCTCAGTCCAGATCATTTC
* ** * * * * * * *
10905951 TTATGACTCATAATTTCATTTCGGTTATTTATTTTTAACTTCGACTCGATACTAATCATTTCATT
128 TTATGACTTATGGTTTCATCTCGATTATTTATTTTTGACCTCGACTCGATCCTAGTCACTTCATT
* * *
10906016 TTTGACTCATGATTTCATCCTT-ATCACCTGATCTTGGCTC-ATACTAG
193 TTTGACTCGTGATTTCGT-CTTAATCACCTGATCTTGACTCAAT-CTAG
* * * * * *
10906063 ATCATTTCTTATAACTCATGGTTTCATCCCTATTATTCATTTTCAACCTCGACTCGATCTTGGTA
1 ATCATTTCTTATGACTCATGATTTCATCCCGATCATTCATTTTCGACCTCGACTCGATCTTGCTA
* * * * *
10906128 GCTTCATTTTTTACTTATGATTTCATCTCAATCACCCGATCTTGGCTCAATCTAGATCATTTCTT
66 -CTTCATTTTTGACTTGTGATTTCGTCTCAATCACCCGATCTTGGCTCAGTCCAGATCATTTCTT
** * ** * * *
10906193 ATGACTCGTGGTTTCATCTCAATTATTTA-TTGCGACCTCGACTCGACCCTAATCATTTCATTTT
130 ATGACTTATGGTTTCATCTCGATTATTTATTTTTGACCTCGACTCGATCCTAGTCACTTCATTTT
* * *
10906257 TGACTCGTGATTTCGT-TCTGATCACCCGATCTTGGCTCAATCTAG
195 TGACTCGTGATTTCGTCT-TAATCACCTGATCTTGACTCAATCTAG
* * * * *
10906302 ATCATTTCTTATGACTTATGATTTCATCCTGGTTATTCATATTT-GACCTCAACTCGATCTTGCT
1 ATCATTTCTTATGACTCATGATTTCATCCCGATCATTCAT-TTTCGACCTCGACTCGATCTTGCT
* * * * * * *
10906366 CATTTCATTTTTGACTTGTGATTTCATCTCAATCACTCGATCTT-GTTTAGTCTAAATCATTTCT
65 -ACTTCATTTTTGACTTGTGATTTCGTCTCAATCACCCGATCTTGGCTCAGTCCAGATCATTTCT
* ** * ** * * * *
10906430 TATGACTTGTGGTTTTGTCCCGATCGTTTATTGTTGACCTCGACTCGATCATGGTCGCTTCATTT
129 TATGACTTATGGTTTCATCTCGATTATTTATTTTTGACCTCGACTCGATCCTAGTCACTTCATTT
* * * * * *
10906495 TTGACTTGTGGTTTTGTCTTGATCACCAT-ATCTTGACTCAGTCCAG
194 TTGACTCGTGATTTCGTCTTAATCACC-TGATCTTGACTCAATCTAG
* * * * * *
10906541 ATCATTTCTTATGACTCATGATTTTATCCCGATCATTTATTTTCGACCTCAACTTGGTCTTAGCC
1 ATCATTTCTTATGACTCATGATTTCATCCCGATCATTCATTTTCGACCTCGACTCGATCTT-GCT
* * * * * ** *
10906606 ACTTTATTTTTGACTCGTGGTTTTGTCTCGATCACCATATCTTGGCTCTGTCCAGATCATTTCTT
65 ACTTCATTTTTGACTTGTGATTTCGTCTCAATCACCCGATCTTGGCTCAGTCCAGATCATTTCTT
** * * *
10906671 ATGACTTATGGTTTCATCTCGATCCTTCATTTTTGACCTCGACTCAATCTTAGTCACTTCATTTT
130 ATGACTTATGGTTTCATCTCGATTATTTATTTTTGACCTCGACTCGATCCTAGTCACTTCATTTT
* * * * *
10906736 TGACTTGCGATTTCGT-TTCAATTACTTGATCTTGACTCAATCTAA
195 TGACTCGTGATTTCGTCTT-AATCACCTGATCTTGACTCAATCTAG
* * * * * * *
10906781 ATCATTTCTTATGACTCGT-AGTTTCATCTCGATCATTTATTTTCGATCTTGACTCGATCCTAGT
1 ATCATTTCTTATGACTCATGA-TTTCATCCCGATCATTCATTTTCGACCTCGACTCGAT-CTTGC
* * * * * *
10906845 TACGTCATTTTTAACTCGTGGTTTCGTCTCGATCACCTGATCTTGGCTCAGTCCAGATCATTTCT
64 TACTTCATTTTTGACTTGTGATTTCGTCTCAATCACCCGATCTTGGCTCAGTCCAGATCATTTCT
* * * * * * * *
10906910 TATGACTTTTGGTTTCATCCCTATTATTCATTTTCGACCTTGACTCAATCCTGGTCACTTCATTT
129 TATGACTTATGGTTTCATCTCGATTATTTATTTTTGACCTCGACTCGATCCTAGTCACTTCATTT
10906975 TTGACTC
194 TTGACTC
10906982 ATTTGTTTCA
Statistics
Matches: 756, Mismatches: 144, Indels: 37
0.81 0.15 0.04
Matches are distributed among these distances:
237 1 0.00
238 43 0.06
239 312 0.41
240 354 0.47
241 45 0.06
242 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (239 bp):
ATCATTTCTTATGACTCATGATTTCATCCCGATCATTCATTTTCGACCTCGACTCGATCTTGCTA
CTTCATTTTTGACTTGTGATTTCGTCTCAATCACCCGATCTTGGCTCAGTCCAGATCATTTCTTA
TGACTTATGGTTTCATCTCGATTATTTATTTTTGACCTCGACTCGATCCTAGTCACTTCATTTTT
GACTCGTGATTTCGTCTTAATCACCTGATCTTGACTCAATCTAG
Found at i:10907008 original size:65 final size:65
Alignment explanation
Indices: 10906921--10907047 Score: 184
Period size: 65 Copynumber: 2.0 Consensus size: 65
10906911 ATGACTTTTG
* * *
10906921 GTTTCATCCCTATTATTCATTTTCGACCTTGACTCA-ATCCTGGTCACTTCATTTTTGACTCATT
1 GTTTCATCCCGATCATTCATTTTCGACCTCGACT-AGATCCTGGTCACTTCATTTTTGACTCATT
10906985 T
65 T
* * *
10906986 GTTTCATCCCGATCATTTATTTTTGACCTCGACTAGATCCTGGTCACTTTATTTTTGACTCA
1 GTTTCATCCCGATCATTCATTTTCGACCTCGACTAGATCCTGGTCACTTCATTTTTGACTCA
10907048 AGGTTTTGTC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 1 0.02
65 54 0.98
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.45
Consensus pattern (65 bp):
GTTTCATCCCGATCATTCATTTTCGACCTCGACTAGATCCTGGTCACTTCATTTTTGACTCATTT
Found at i:10907213 original size:88 final size:88
Alignment explanation
Indices: 10907022--10907216 Score: 212
Period size: 88 Copynumber: 2.2 Consensus size: 88
10907012 CCTCGACTAG
** * *
10907022 ATCCTGGTCACTTTATTTTTGACTCAAGGTTTTGTCCCAATCACTTGATCTTCGCTCAGTCTAAA
1 ATCCTGGTCA-TTTATTTTTGACTCAAGGTTTTGTCCCAATCACCCGATCTTAGCTCAGTCCAAA
*
10907087 TCATTTCTTATGACTCATGGTTTC
65 TCATTTCTTACGACTCATGGTTTC
* ** ** **** *
10907111 GTCCTGGTTGTTTATTTTTGACTCGTGGTTTTGTCTTGGTCACCCGATCTTAGCTCAGTCCATAT
1 ATCCTGGTCATTTATTTTTGACTCAAGGTTTTGTCCCAATCACCCGATCTTAGCTCAGTCCAAAT
**
10907176 CATTTCTTACGACTTGTGGTTTC
66 CATTTCTTACGACTCATGGTTTC
10907199 AT-CTCGGTCATTTATTTT
1 ATCCT-GGTCATTTATTTT
10907217 CGACCTCGAC
Statistics
Matches: 85, Mismatches: 20, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
87 2 0.02
88 76 0.89
89 7 0.08
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.45
Consensus pattern (88 bp):
ATCCTGGTCATTTATTTTTGACTCAAGGTTTTGTCCCAATCACCCGATCTTAGCTCAGTCCAAAT
CATTTCTTACGACTCATGGTTTC
Found at i:10907638 original size:3 final size:3
Alignment explanation
Indices: 10907630--10907795 Score: 119
Period size: 3 Copynumber: 58.3 Consensus size: 3
10907620 AGTATATCAC
* *
10907630 TAT TAT TA- TAT TAT TAT TAT GGTAC TA- TAT TA- TAC TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT
* * *
10907673 TAT TA- TAGT TAT TA- TAGC TAT TAT AAT TAT TAT TAT TA- TAC TA-
1 TAT TAT TA-T TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
10907716 TAC TA- TAT TA- TAT TAT TAT TA- TAGT TAT TA- TAGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT TAT TAT
10907759 TAT TAT TAT TAT TAT TAT TAT T-T TAT T-T TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10907796 TCTTTCCTTT
Statistics
Matches: 137, Mismatches: 5, Indels: 42
0.74 0.03 0.23
Matches are distributed among these distances:
2 30 0.22
3 97 0.71
4 8 0.06
5 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:10907673 original size:59 final size:60
Alignment explanation
Indices: 10907597--10907773 Score: 189
Period size: 62 Copynumber: 2.9 Consensus size: 60
10907587 TTTTTTCTAT
* *
10907597 TATTATTACTAGTATTATAGTATAGTATATCACTATTATTA-TATTATTATTAT-GGTACTA
1 TATTA-TACTATTATTATAGTATAGTATAT-ACTATTATTATTATTATTATTATAGATACTA
* * *
10907657 TATTATACTATTATTATATTATAGTTATTATAGCTATTATAATTATTATTATTATACTATACTA
1 TATTATACTATTATTATAGTATAG-TA-TATA-CTATTATTATTATTATTATTATA-GATACTA
* * *
10907721 TATTATATTATTATTATAGT-TATTATAGTTATTATTATTATTATTATTATTAT
1 TATTATACTATTATTATAGTATAGTATA--TACTATTATTATTATTATTATTAT
10907774 TATTATTTTA
Statistics
Matches: 99, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
59 17 0.17
60 8 0.08
61 13 0.13
62 34 0.34
63 4 0.04
64 23 0.23
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (60 bp):
TATTATACTATTATTATAGTATAGTATATACTATTATTATTATTATTATTATAGATACTA
Found at i:10908900 original size:19 final size:19
Alignment explanation
Indices: 10908878--10908930 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
10908868 TATTTATAAA
10908878 AACAAAAAAAAATCCTTTT
1 AACAAAAAAAAATCCTTTT
10908897 AACAAAAAAAAAT-CTTTT
1 AACAAAAAAAAATCCTTTT
* *
10908915 -TCAAATAAAAATCCTT
1 AACAAAAAAAAATCCTT
10908931 ACAAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 10 0.32
18 8 0.26
19 13 0.42
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (19 bp):
AACAAAAAAAAATCCTTTT
Found at i:10908940 original size:17 final size:16
Alignment explanation
Indices: 10908879--10908936 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 16
10908869 ATTTATAAAA
10908879 ACAAAAAAAAATCCTTTT
1 ACAAAAAAAAATCC--TT
*
10908897 AACAAAAAAAAATCTTTT
1 -ACAAAAAAAAATC-CTT
* *
10908915 TCAAATAAAAATCCTT
1 ACAAAAAAAAATCCTT
10908931 ACAAAA
1 ACAAAA
10908937 TAAATTCATG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 6 0.19
17 11 0.34
18 2 0.06
19 13 0.41
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.26
Consensus pattern (16 bp):
ACAAAAAAAAATCCTT
Found at i:10913086 original size:26 final size:26
Alignment explanation
Indices: 10913052--10913111 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
10913042 TTACTAAGTG
*
10913052 AAAAGAAAGCATACTTGAAAATCTAA
1 AAAAAAAAGCATACTTGAAAATCTAA
10913078 AAAAAAAAGCATACTTGAAAATCTAA
1 AAAAAAAAGCATACTTGAAAATCTAA
*
10913104 AGAAAAAA
1 AAAAAAAA
10913112 TAGTTAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.63, C:0.10, G:0.10, T:0.17
Consensus pattern (26 bp):
AAAAAAAAGCATACTTGAAAATCTAA
Found at i:10920136 original size:63 final size:64
Alignment explanation
Indices: 10920017--10920162 Score: 149
Period size: 63 Copynumber: 2.3 Consensus size: 64
10920007 GTTTCAAGAA
* * * * * * * *
10920017 AAAAATACCTTCAATAATCCTTTTAAATTTTTTCAAGAGGATTATTGAAGGTA-TTTTTCT-GC
1 AAAAATGCCTTTAATAATCCTCTTAAATTTTATCAAGAGGACTATTAAAGGCATTTTTTCTACC
*
10920079 AAAACATGCCTTTAATAATCCTCTTAAATTTTGAT-AAG-GAGACTATTAAAGGCATTTTTTTTA
1 AAAA-ATGCCTTTAATAATCCTCTTAAATTTT-ATCAAGAG-GACTATTAAAGGCATTTTTTCTA
10920142 CC
63 CC
10920144 AAAAATG-CTTTAATAATCC
1 AAAAATGCCTTTAATAATCC
10920163 CCTCTAATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
62 5 0.07
63 50 0.71
64 10 0.14
65 5 0.07
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (64 bp):
AAAAATGCCTTTAATAATCCTCTTAAATTTTATCAAGAGGACTATTAAAGGCATTTTTTCTACC
Found at i:10920231 original size:62 final size:61
Alignment explanation
Indices: 10920155--10920350 Score: 209
Period size: 63 Copynumber: 3.1 Consensus size: 61
10920145 AAAATGCTTT
** * * * * *
10920155 AATAATCCCCTCTAATTTTTAGAGGGAATTATTGAAGGTGTTTTTTGGCCAAAAACACTTTC
1 AATAATCCTTTCTAATTTTTAGAGGGAATTATTGAAGGCG-TTTCTGACAAAAAACACATTC
*
10920217 AATAATCCTTTCTAATTTTTTAGAGTGAATTATTGAAGGCGCTTTCTGTA-AAAAAACACATTC
1 AATAATCCTTTCTAA-TTTTTAGAGGGAATTATTGAAGGCG-TTTCTG-ACAAAAAACACATTC
* * *
10920280 AATAAT-CTCTTCTATTTTTTATGAAGGG-ATTATTAAAGGCGTTTCAGACAAAAAACACATTC
1 AATAATCCT-TTCTAATTTTTA-G-AGGGAATTATTGAAGGCGTTTCTGACAAAAAACACATTC
10920342 AATAATCCT
1 AATAATCCT
10920351 CTTAAATTTT
Statistics
Matches: 114, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
61 1 0.01
62 45 0.39
63 65 0.57
64 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (61 bp):
AATAATCCTTTCTAATTTTTAGAGGGAATTATTGAAGGCGTTTCTGACAAAAAACACATTC
Found at i:10920373 original size:62 final size:63
Alignment explanation
Indices: 10920245--10920380 Score: 163
Period size: 62 Copynumber: 2.2 Consensus size: 63
10920235 TTTAGAGTGA
* * * * *
10920245 ATTATTGAAGGCGCTTTCTGTAAAAAAACACATTCAATAATCTCTTCTATTTTTTATGAAGGG
1 ATTATTGAAGGCGCTTTCAGTAAAAAAACACATTCAATAATCTCTTCAAATTTTGATGAAGAG
*
10920308 ATTATTAAAGGCG-TTTCAG-ACAAAAAACACATTCAATAATCCTCTT-AAATTTTGAT-AAGAA
1 ATTATTGAAGGCGCTTTCAGTA-AAAAAACACATTCAATAAT-CTCTTCAAATTTTGATGAAG-A
10920369 G
63 G
10920370 ATTATTGAAGG
1 ATTATTGAAGG
10920381 TATTTTTTAG
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
61 4 0.06
62 42 0.67
63 17 0.27
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (63 bp):
ATTATTGAAGGCGCTTTCAGTAAAAAAACACATTCAATAATCTCTTCAAATTTTGATGAAGAG
Found at i:10920444 original size:88 final size:88
Alignment explanation
Indices: 10920308--10920475 Score: 300
Period size: 88 Copynumber: 1.9 Consensus size: 88
10920298 TTATGAAGGG
10920308 ATTATTAAAGGCGTTTCAGACAAAAAACACATTCAATAATCCTCTTAAATTTTGATAAGAAGATT
1 ATTATTAAAGGCGTTTCAGACAAAAAACACATTCAATAATCCTCTTAAATTTTGATAAGAAGATT
10920373 ATTGAAGGTATTTTTTAGAGTGA
66 ATTGAAGGTATTTTTTAGAGTGA
* * * *
10920396 ATTATTGAAGGCGTTTCAGGCAAAAATCGCATTCAATAATCCTCTTAAATTTTGATAAGAAGATT
1 ATTATTAAAGGCGTTTCAGACAAAAAACACATTCAATAATCCTCTTAAATTTTGATAAGAAGATT
10920461 ATTGAAGGTATTTTT
66 ATTGAAGGTATTTTT
10920476 GACGAAAAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (88 bp):
ATTATTAAAGGCGTTTCAGACAAAAAACACATTCAATAATCCTCTTAAATTTTGATAAGAAGATT
ATTGAAGGTATTTTTTAGAGTGA
Found at i:10920523 original size:62 final size:61
Alignment explanation
Indices: 10920457--10920599 Score: 164
Period size: 63 Copynumber: 2.3 Consensus size: 61
10920447 TTGATAAGAA
* *
10920457 GATTATTGAAGGTATTTTTGACGAAAAATACCTTTAATAATCCCTTCTAATTTTTTATGA-GG
1 GATTATTGAAGGTATTTTTG-CGAAAAACACCTTTAATAATCCCCTCTAATTTTTTA-GAGGG
* ** *
10920519 GATTATTGATGGCCT-TTTATTGTTAAAAACGCCTTTAATAATCCCCTCTAATTTTTTAGAGGG
1 GATTATTGAAGG--TATTT-TTGCGAAAAACACCTTTAATAATCCCCTCTAATTTTTTAGAGGG
*
10920582 GATTATTGAAGGCATTTT
1 GATTATTGAAGGTATTTT
10920600 ATGCAAACAA
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
61 1 0.01
62 16 0.24
63 47 0.69
64 4 0.06
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (61 bp):
GATTATTGAAGGTATTTTTGCGAAAAACACCTTTAATAATCCCCTCTAATTTTTTAGAGGG
Found at i:10921297 original size:64 final size:62
Alignment explanation
Indices: 10921131--10921297 Score: 167
Period size: 64 Copynumber: 2.7 Consensus size: 62
10921121 ATCTTTTAAA
* * * * * *
10921131 ATTTTTTA-G-GAGAATTATTGAAGGTATTTTTTTGTAGAAAATGCCTTTAATAATTGCTTCT
1 ATTTTTTATGAGAGGATTATTCAAGGTA-TTTTCTGTAAAAAATGCCTTTAATAATTCCTTCC
* * ** * * *
10921192 ATTTTTTATGAGAGGATTGTTCAAAGCGTTGTCTATCAAAAATGCCTTTAATAATTCCCTATCC
1 ATTTTTTATGAGAGGATTATTCAAGGTATTTTCTGTAAAAAATGCCTTTAATAATT-CCT-TCC
*
10921256 ATTTTTTATGAGGGGATTATTCAAGGTATTTTCTGTAAAAAA
1 ATTTTTTATGAGAGGATTATTCAAGGTATTTTCTGTAAAAAA
10921298 AACACCTTCA
Statistics
Matches: 81, Mismatches: 21, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
61 8 0.10
62 24 0.30
63 13 0.16
64 36 0.44
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (62 bp):
ATTTTTTATGAGAGGATTATTCAAGGTATTTTCTGTAAAAAATGCCTTTAATAATTCCTTCC
Found at i:10923797 original size:18 final size:18
Alignment explanation
Indices: 10923749--10923804 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
10923739 CATACAACAT
10923749 ATTTTTTAA-AATAAAAA
1 ATTTTTTAAGAATAAAAA
*
10923766 ATGTCTTTATAGAA-AAAATA
1 AT-TTTTTA-AGAATAAAA-A
10923786 ATTTTTTAAGAATAAAAA
1 ATTTTTTAAGAATAAAAA
10923804 A
1 A
10923805 AAACCTTACC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 2 0.06
18 11 0.34
19 14 0.44
20 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (18 bp):
ATTTTTTAAGAATAAAAA
Found at i:10924048 original size:17 final size:18
Alignment explanation
Indices: 10924028--10924061 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10924018 GATTTTGAAA
10924028 TTTTAAAG-TTGATTTTT
1 TTTTAAAGTTTGATTTTT
*
10924045 TTTTCAAGTTTGATTTT
1 TTTTAAAGTTTGATTTT
10924062 GAAAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.65
Consensus pattern (18 bp):
TTTTAAAGTTTGATTTTT
Found at i:10924187 original size:59 final size:57
Alignment explanation
Indices: 10924073--10924187 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 57
10924063 AAAAATAAAA
* * *
10924073 AAAAAATCTTACCAACATATTACAGGTTTTTTAAATAAAAAATAGTTTTAAAAAATT
1 AAAAAATCTTACCAACATATTACAAGCTTTTTAAATAAAAAATAATTTTAAAAAATT
* * * *
10924130 AAAAAATCTTACCAACATATTAGAAGCTTTTTAAGTTTTAAAAATAATTTTGAAAAAT
1 AAAAAATCTTACCAACATATTACAAGCTTTTTAA--ATAAAAAATAATTTTAAAAAAT
10924188 AAGATCTTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
57 31 0.63
59 18 0.37
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.36
Consensus pattern (57 bp):
AAAAAATCTTACCAACATATTACAAGCTTTTTAAATAAAAAATAATTTTAAAAAATT
Found at i:10925203 original size:3 final size:3
Alignment explanation
Indices: 10925195--10925236 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
10925185 AGGAAAAGGA
10925195 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10925237 CAAATTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10925384 original size:16 final size:16
Alignment explanation
Indices: 10925365--10925396 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
10925355 TTGTCTAATT
10925365 AAAAAAAATG-AATGG
1 AAAAAAAATGAAATGG
10925380 AAAAAAAATGAAATGG
1 AAAAAAAATGAAATGG
10925396 A
1 A
10925397 GTGCTATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (16 bp):
AAAAAAAATGAAATGG
Found at i:10926408 original size:24 final size:25
Alignment explanation
Indices: 10926373--10926433 Score: 81
Period size: 24 Copynumber: 2.4 Consensus size: 25
10926363 TTAAATATAA
*
10926373 AAAAGTAAAAAGTAAACA-AAAATGA
1 AAAAGTAAAAAGTAAA-AGAAAAAGA
10926398 AAAAGT-AAAAGTAAAAGAAAAAGA
1 AAAAGTAAAAAGTAAAAGAAAAAGA
10926422 AAAAGTGAAAAA
1 AAAAGT-AAAAA
10926434 AAAAAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 1 0.03
24 21 0.66
25 6 0.19
26 4 0.12
ACGTcount: A:0.74, C:0.02, G:0.15, T:0.10
Consensus pattern (25 bp):
AAAAGTAAAAAGTAAAAGAAAAAGA
Found at i:10926413 original size:12 final size:12
Alignment explanation
Indices: 10926391--10926437 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
10926381 AAAGTAAACA
10926391 AAAATGAAAAAGT
1 AAAA-GAAAAAGT
* *
10926404 AAAAGTAAAAGA
1 AAAAGAAAAAGT
10926416 AAAAGAAAAAGT
1 AAAAGAAAAAGT
10926428 GAAAA-AAAAA
1 -AAAAGAAAAA
10926438 AAAACAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 21 0.72
13 8 0.28
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (12 bp):
AAAAGAAAAAGT
Found at i:10926417 original size:18 final size:18
Alignment explanation
Indices: 10926373--10926437 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
10926363 TTAAATATAA
10926373 AAAAGTAAAAAGTAAACA--
1 AAAAG-AAAAAGTAAA-AGT
10926391 AAAATGAAAAAGTAAAAGT
1 AAAA-GAAAAAGTAAAAGT
*
10926410 AAAAGAAAAAGAAAAAGT
1 AAAAGAAAAAGTAAAAGT
10926428 GAAAA-AAAAA
1 -AAAAGAAAAA
10926438 AAAACAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
17 1 0.02
18 32 0.76
19 9 0.21
ACGTcount: A:0.75, C:0.02, G:0.14, T:0.09
Consensus pattern (18 bp):
AAAAGAAAAAGTAAAAGT
Found at i:10926437 original size:24 final size:23
Alignment explanation
Indices: 10926372--10926441 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 23
10926362 ATTAAATATA
*
10926372 AAAAAGTAAAAAGTAAACAAAAATG
1 AAAAAGTAAAAA--AAAAAAAAATG
*
10926397 AAAAAGTAAAAGTAAAAGAAAAA-G
1 AAAAAGTAAAA--AAAAAAAAAATG
*
10926421 AAAAAGTGAAAAAAAAAAAAA
1 AAAAAGTAAAAAAAAAAAAAA
10926442 CAAAAAATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 9 0.22
24 11 0.28
25 19 0.47
27 1 0.03
ACGTcount: A:0.77, C:0.01, G:0.13, T:0.09
Consensus pattern (23 bp):
AAAAAGTAAAAAAAAAAAAAATG
Found at i:10927200 original size:17 final size:15
Alignment explanation
Indices: 10927180--10927224 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
10927170 AGAAAAACAT
* *
10927180 AAAAACAAAAAAAGG
1 AAAAAAAAAAAAAAG
10927195 AAAAAATAAAAAAAAG
1 AAAAAA-AAAAAAAAG
10927211 AAAAAAAAAGAAAA
1 AAAAAAAAA-AAAA
10927225 TGGAGCTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.87, C:0.02, G:0.09, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:10927224 original size:16 final size:16
Alignment explanation
Indices: 10927180--10927216 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10927170 AGAAAAACAT
*
10927180 AAAAACAAAAAAAGGA
1 AAAAACAAAAAAAAGA
*
10927196 AAAAATAAAAAAAAGA
1 AAAAACAAAAAAAAGA
10927212 AAAAA
1 AAAAA
10927217 AAAGAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.86, C:0.03, G:0.08, T:0.03
Consensus pattern (16 bp):
AAAAACAAAAAAAAGA
Found at i:10927334 original size:9 final size:9
Alignment explanation
Indices: 10927315--10927355 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
10927305 CTTTATTAAT
10927315 AAAAAA-TA
1 AAAAAAGTA
*
10927323 AAAAAAGGA
1 AAAAAAGTA
*
10927332 AAAAAAATA
1 AAAAAAGTA
10927341 AAAAAAGTA
1 AAAAAAGTA
10927350 AAAAAA
1 AAAAAA
10927356 AAGGAAAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (9 bp):
AAAAAAGTA
Found at i:10927338 original size:18 final size:18
Alignment explanation
Indices: 10927315--10927356 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
10927305 CTTTATTAAT
10927315 AAAAAATAAAAAAAGGAA
1 AAAAAATAAAAAAAGGAA
*
10927333 AAAAAATAAAAAAAGTAA
1 AAAAAATAAAAAAAGGAA
10927351 AAAAAA
1 AAAAAA
10927357 AGGAAAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (18 bp):
AAAAAATAAAAAAAGGAA
Found at i:10927715 original size:13 final size:13
Alignment explanation
Indices: 10927697--10927721 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10927687 ATCTAATTTG
10927697 AAAAAACAAAAAA
1 AAAAAACAAAAAA
10927710 AAAAAACAAAAA
1 AAAAAACAAAAA
10927722 GCAATAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAA
Found at i:10930865 original size:10 final size:10
Alignment explanation
Indices: 10930852--10930887 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
10930842 TCAAATTTGG
10930852 TCAAACTTAA
1 TCAAACTTAA
10930862 TCAAACTTAA
1 TCAAACTTAA
*
10930872 TCAAACTTAG
1 TCAAACTTAA
10930882 TCAAAC
1 TCAAAC
10930888 CCATATCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (10 bp):
TCAAACTTAA
Found at i:10932808 original size:25 final size:25
Alignment explanation
Indices: 10932767--10932887 Score: 129
Period size: 25 Copynumber: 4.9 Consensus size: 25
10932757 AAATCATGGT
* *
10932767 AAACCCTAAAACTTAACCCTAATCC
1 AAACCCTATAACCTAACCCTAATCC
* *
10932792 AAACCCTATAACCTAACCTTAACCC
1 AAACCCTATAACCTAACCCTAATCC
*
10932817 AAACCTTATAACCT-ACCCTAATCC
1 AAACCCTATAACCTAACCCTAATCC
* *
10932841 AAACCCTATAAGCTAACTCTAAAT-C
1 AAACCCTATAACCTAACCCT-AATCC
* * *
10932866 AAACCTTAAAACCTAGCCCTAA
1 AAACCCTATAACCTAACCCTAA
10932888 ATCCCAAAGC
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
24 22 0.28
25 54 0.68
26 3 0.04
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.21
Consensus pattern (25 bp):
AAACCCTATAACCTAACCCTAATCC
Found at i:10932906 original size:19 final size:20
Alignment explanation
Indices: 10932882--10932939 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
10932872 TAAAACCTAG
10932882 CCCTAAATCCCAAAG-CAAA
1 CCCTAAATCCCAAAGTCAAA
**
10932901 CCCTAAATCTTAAAGTCAAA
1 CCCTAAATCCCAAAGTCAAA
* * *
10932921 CCTTAAAACCCAAATTCAA
1 CCCTAAATCCCAAAGTCAA
10932940 CCCCCTAATC
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.19
Consensus pattern (20 bp):
CCCTAAATCCCAAAGTCAAA
Found at i:10933022 original size:11 final size:11
Alignment explanation
Indices: 10933008--10933040 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
10932998 CTAAATCAAA
*
10933008 CCCTTAACCTT
1 CCCTTAAACTT
10933019 CCCTTAAACTT
1 CCCTTAAACTT
10933030 CCCTTAAACTT
1 CCCTTAAACTT
10933041 TAAACACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.36
Consensus pattern (11 bp):
CCCTTAAACTT
Found at i:10935561 original size:16 final size:16
Alignment explanation
Indices: 10935536--10935590 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
10935526 AATCAATTCA
*
10935536 ATAATTTTAATTTAAT
1 ATAATATTAATTTAAT
10935552 ATAATATTAA-TTAAT
1 ATAATATTAATTTAAT
10935567 AT-ATA-TAATTTTTAAT
1 ATAATATTAA--TTTAAT
10935583 ATAA-ATTA
1 ATAATATTA
10935591 CATCTAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
13 3 0.09
14 3 0.09
15 7 0.21
16 17 0.52
17 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATAATATTAATTTAAT
Found at i:10935572 original size:19 final size:19
Alignment explanation
Indices: 10935550--10935615 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 19
10935540 TTTTAATTTA
10935550 ATATAATATTAATTAATAT
1 ATATAATATTAATTAATAT
10935569 ATATAAT-TT--TTAATAT
1 ATATAATATTAATTAATAT
* * * *
10935585 AAATTACATCTAATTATATAA
1 ATATAATAT-TAATTA-ATAT
10935606 ATATAATATT
1 ATATAATATT
10935616 TTTATTAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 9
0.69 0.14 0.18
Matches are distributed among these distances:
16 11 0.31
17 1 0.03
18 3 0.09
19 7 0.20
20 4 0.11
21 9 0.26
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATAATATTAATTAATAT
Found at i:10935584 original size:31 final size:31
Alignment explanation
Indices: 10935546--10935605 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
10935536 ATAATTTTAA
10935546 TTTAATATAATATTA-AT-TAATATATATAATT
1 TTTAATATAA-ATTACATCTAAT-TATATAATT
10935577 TTTAATATAAATTACATCTAATTATATAA
1 TTTAATATAAATTACATCTAATTATATAA
10935606 ATATAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.15
31 19 0.70
32 4 0.15
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
TTTAATATAAATTACATCTAATTATATAATT
Found at i:10935620 original size:19 final size:19
Alignment explanation
Indices: 10935549--10935661 Score: 59
Period size: 19 Copynumber: 6.3 Consensus size: 19
10935539 ATTTTAATTT
10935549 AATATAATATTAATTA-ATA
1 AATATAATATT-ATTATATA
*
10935568 TATATAAT-TT-TTAATATA
1 AATATAATATTATT-ATATA
* *
10935586 AAT-TACATCTAATTATATA
1 AATATA-ATATTATTATATA
*
10935605 AATATAATATTTTTAT-TA
1 AATATAATATTATTATATA
*
10935623 AAT-TAAT-GTATTA-A-A
1 AATATAATATTATTATATA
*
10935638 AATA-AATTTTATTAT-TA
1 AATATAATATTATTATATA
10935655 CAATATA
1 -AATATA
10935662 TAAATATAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 26
0.67 0.08 0.24
Matches are distributed among these distances:
15 7 0.10
16 11 0.15
17 8 0.11
18 18 0.25
19 24 0.33
20 4 0.06
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (19 bp):
AATATAATATTATTATATA
Found at i:10935932 original size:6 final size:6
Alignment explanation
Indices: 10935921--10935953 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
10935911 GATAAAAGAT
*
10935921 AATAAA AATAAA AATAAA AATAAC AATAAA AAT
1 AATAAA AATAAA AATAAA AATAAA AATAAA AAT
10935954 GAAGGTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:10943111 original size:22 final size:24
Alignment explanation
Indices: 10943081--10943128 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
10943071 ATTTTATATG
*
10943081 TTATTAATCT-TCATATT-AAATT
1 TTATCAATCTATCATATTGAAATT
*
10943103 TTATCAATCTATCATTTTGAAATT
1 TTATCAATCTATCATATTGAAATT
10943127 TT
1 TT
10943129 TTATTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 6 0.27
24 7 0.32
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.54
Consensus pattern (24 bp):
TTATCAATCTATCATATTGAAATT
Found at i:10943433 original size:33 final size:34
Alignment explanation
Indices: 10943364--10943439 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
10943354 ATAAAACATT
*
10943364 GTTATATTAGCGGCATTTGTATGTGAAAAACACC
1 GTTATATTAGCGGCATTTGAATGTGAAAAACACC
*
10943398 GTTATATTAGCGGCATTTGAAT-T-AGAAAACGCC
1 GTTATATTAGCGGCATTTGAATGTGA-AAAACACC
10943431 GTTATATTA
1 GTTATATTA
10943440 ACGGTGTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
32 1 0.03
33 17 0.44
34 21 0.54
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (34 bp):
GTTATATTAGCGGCATTTGAATGTGAAAAACACC
Found at i:10950038 original size:63 final size:62
Alignment explanation
Indices: 10949971--10950188 Score: 166
Period size: 63 Copynumber: 3.5 Consensus size: 62
10949961 TTTAAAGGGG
10949971 TTATTGAAGGCGTTTATTCTAGAAAAATGCCTTAACTAATTCATTTTAATTTTTTTAAAGAAT
1 TTATTGAAGGCGTTTATTCTAGAAAAATGCCTTAACTAATTCATTTTAATTTTTTTAAA-AAT
* * *
10950034 TTATTGAAGAC--TTATTCTAGTGCAAAATGCCTTTAA-T-ATTCTATTATTCAA--ATTTT-AA
1 TTATTGAAGGCGTTTATTCTA--GAAAAATGCC-TTAACTAATTC-ATT-TT-AATTTTTTTAAA
10950092 AAT
60 AAT
* * * * * * *
10950095 GGTTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCTTTTTAATTTATGTACATAA-
1 --TTATTGAAGGCGTTTATTCTAGAAAAATGCCTTAACTAATTCATTTTAATTTTTTTA-AAAAT
* *
10950159 TTATTGAAGGTGTTT-TTTTAGAACAAATGC
1 TTATTGAAGGCGTTTATTCTAGAA-AAATGC
10950189 TTTCAATAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 35
0.71 0.09 0.20
Matches are distributed among these distances:
61 20 0.16
62 29 0.24
63 50 0.41
64 10 0.08
65 13 0.11
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (62 bp):
TTATTGAAGGCGTTTATTCTAGAAAAATGCCTTAACTAATTCATTTTAATTTTTTTAAAAAT
Found at i:10950286 original size:187 final size:187
Alignment explanation
Indices: 10950048--10951381 Score: 1381
Period size: 187 Copynumber: 7.1 Consensus size: 187
10950038 TGAAGACTTA
* * * * * * *
10950048 TTCTAGTGCAAAATGCCTTTAATATTCTATTATTCAAATTTTAAAATGGTTAGTGAAGGCATTTA
1 TTCTAGTGAAAAACGCCTTCAATATACCAGTACTCAAATTTTAAAATGGTTAGTGAAGGCATTTA
10950113 TTCTAGAAAAATGCCTTCACTAATTCTTTTTAATTTATGTACATAATTATTGAAGGTGTTTTTTT
66 TTCTAGAAAAATGCCTTCACTAATTCTTTTTAATTTATGTACATAATTATTGAAGGTGTTTTTTT
*
10950178 AGAACAAATGCTTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAAGTGTC
131 AGAACAAAAGCTTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAAGTGTC
** * * *
10950235 TTCTAGTGAAAAACGAATTCAATATACCAGTACTCAAATTTCAAGATGGTTAGTGAAGGCGTTTA
1 TTCTAGTGAAAAACGCCTTCAATATACCAGTACTCAAATTTTAAAATGGTTAGTGAAGGCATTTA
* * * * *
10950300 TTTTAGAAAAATGCCTTTAATAATTCCTTTTAAATTT-TGTAAATAATTATTGAAGGCAT-TTTT
66 TTCTAGAAAAATGCCTTCACTAATT-CTTTTTAATTTATGTACATAATTATTGAAGG--TGTTTT
* * ** * *
10950363 TTTAGAAC-AAACCTAT-AATAATTTCCTTTTAAAAATTTTTAGGATTATTAAAAGTGTT
128 TTTAGAACAAAAGCTTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAAGTGTC
* * * ** * * **
10950421 TTCCACTGAAAAATGCCTTCAATATTTCACTACTAAAATTTTAAAATGGTTAGTGAAGGTGTTTA
1 TTCTAGTGAAAAACGCCTTCAATATACCAGTACTCAAATTTTAAAATGGTTAGTGAAGGCATTTA
* *
10950486 TTCTAGAAAAATACCTTCACTAATT-TCTTTTAATTTATGTACATAATTATTGAAGGTGTTTTTA
66 TTCTAGAAAAATGCCTTCACTAATTCT-TTTTAATTTATGTACATAATTATTGAAGGTGTTTTTT
* * * * * *
10950550 GAGGACAAACACCTTT-AATAATTTTATTTTAGAAATTTTTGAGATTATTAAAGGTGTC
130 TAGAACAAA-AGCTTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAAGTGTC
* * *
10950608 TTCTAGTGAAAAACACCTTCAATATACCAGTACTCAAATTTTAAGAA-AGTTAGTGAAGGCGTTT
1 TTCTAGTGAAAAACGCCTTCAATATACCAGTACTCAAATTTTAA-AATGGTTAGTGAAGGCATTT
* * **
10950672 ATTCTAGAAAACA--CCTTCAATAATTCTTTTTAAATTT-TTTACATAATTATTGAAGGCATTTT
65 ATTCTAGAAAA-ATGCCTTCACTAATTCTTTTT-AATTTATGTACATAATTATTGAAGGTGTTTT
* * ** ** *
10950734 TTTAG-ACAAACACCTTT-AATAGTTTCCTTTTAAAAA-TTTTAAGATTATTAAAAGCGTC
128 TTTAGAACAAA-AGCTTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAAGTGTC
* * * * * * ** *
10950792 TTCCAATGAAAAACGCTTTTAATATTCCACTTA-TCAAATTTTAAAACAGTTAGTAAAGGCATTT
1 TTCTAGTGAAAAACGCCTTCAATATACCA-GTACTCAAATTTTAAAATGGTTAGTGAAGGCATTT
* ** * *
10950856 ATTCTAGAAAAATGCCTTCACTGATTCCATTTAATTTATGTATATAATTATTGAAGGTATTTTTT
65 ATTCTAGAAAAATGCCTTCACTAATTCTTTTTAATTTATGTACATAATTATTGAAGGTGTTTTTT
* * * * *
10950921 TAAAACAAACGCCTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAGGCGTC
130 TAGAACAAAAGCTTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAAGTGTC
* * **
10950979 TTCTAGTGAAAAACGCTTTCAATATACCAGTACTTAAATTTTAAAACAGTTAGTGAAGGCATTTA
1 TTCTAGTGAAAAACGCCTTCAATATACCAGTACTCAAATTTTAAAATGGTTAGTGAAGGCATTTA
* * * ** * *
10951044 TTCTAGAAAAATACCTTCAATAATTTCTTTTAAATTTTATACACATAATTATTGAAGGCGTATTT
66 TTCTAGAAAAATGCCTTCACTAA-TTCTTTTTAA-TTTATGTACATAATTATTGAAGGTGTTTTT
* * * * * ** *
10951109 TGAGAACAAATGCCTTCAATAATTTCCT-TTTTAAAAAATTTTTAGGATTATTAAAGGCATA
129 TTAGAACAAAAGCTTTCAATAATTT--TATTTT-AAAAATTTTTGGGATTATTAAAAGTGTC
** ** * *
10951170 TTCTAGTGAAAAACGCCTTCAATATTTCACCACTCAAATTTTAAGATGGTTAATGAAGGCATTTA
1 TTCTAGTGAAAAACGCCTTCAATATACCAGTACTCAAATTTTAAAATGGTTAGTGAAGGCATTTA
* * * *
10951235 TTCTAAAAAAATGCCTTCACTAATTCATTTTAATTTTTTTACATAATTATTGAAGGCAT-TTTTT
66 TTCTAGAAAAATGCCTTCACTAATTCTTTTTAATTTATGTACATAATTATTGAAGG--TGTTTTT
* * * * *
10951299 TTATAACAAACGCCTTCAATAATTTCT-TTTTAAAAATTGTTGGGATTATTAAATGTGTC
129 TTAGAACAAAAGCTTTCAATAATTT-TATTTTAAAAATTTTTGGGATTATTAAAAGTGTC
* *
10951358 TTTTAGT-ATAAAATGCCTTCAATA
1 TTCTAGTGA-AAAACGCCTTCAATA
10951382 ATGTTAAGGG
Statistics
Matches: 960, Mismatches: 158, Indels: 57
0.82 0.13 0.05
Matches are distributed among these distances:
183 3 0.00
184 86 0.09
185 89 0.09
186 195 0.20
187 301 0.31
188 74 0.08
189 73 0.08
190 38 0.04
191 101 0.11
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (187 bp):
TTCTAGTGAAAAACGCCTTCAATATACCAGTACTCAAATTTTAAAATGGTTAGTGAAGGCATTTA
TTCTAGAAAAATGCCTTCACTAATTCTTTTTAATTTATGTACATAATTATTGAAGGTGTTTTTTT
AGAACAAAAGCTTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAAGTGTC
Found at i:10950947 original size:371 final size:370
Alignment explanation
Indices: 10950057--10951381 Score: 1669
Period size: 371 Copynumber: 3.5 Consensus size: 370
10950047 ATTCTAGTGC
* * * * *
10950057 AAAATGCCTTTAATATTCTATTATTCAAATTTTAAAATGGTTAGTGAAGGCATTTATTCTAGAAA
1 AAAACGCCTTCAATATTCCACTACTCAAATTTTAAAATGGTTAGTGAAGGCATTTATTCTAGAAA
** * *
10950122 AATGCCTTCACTAATTCTTTTTAATTTATGTACATAATTATTGAAGGTGTTTTTTTAGAACAAAT
66 AATGCCTTCACTAATTCCATTTAATTTATGTACATAATTATTGAAGGTATTTTTTTAGAACAAAC
* *
10950187 GCTTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAAGTGTCTTCTAGTGAAAAACGA-
131 GCCTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAGGTGTCTTCTAGTGAAAAAC-AC
* * ** *
10950251 ATTCAATATACCAGTACTCAAATTTCAAGATGGTTAGTGAAGGCGTTTATTTTAGAAAAATGCCT
195 CTTCAATATACCAGTACTCAAATTTTAAGAAAGTTAGTGAAGGCGTTTATTCTAGAAAAA--CCT
* * * * *
10950316 TTAATAATTCCTTTTAAATTTTGTAAATAATTATTGAAGGCATTTTTTTTAGA-ACAAACCTATA
258 TCAATAATTCTTTTTAAATTTTTTACATAATTATTGAAGGCA-TTTTTTTAGACA-AAACCTTTA
* * *
10950380 ATAATTTCCTTTTAAAAATTTTTAGGATTATTAAAAGTGTTTTCCACTGA
321 ATAATTTCCTTTTAAAAATTTTTAGGATTATTAAAAGCGTATTCCAATGA
* * * **
10950430 AAAATGCCTTCAATATTTCACTACTAAAATTTTAAAATGGTTAGTGAAGGTGTTTATTCTAGAAA
1 AAAACGCCTTCAATATTCCACTACTCAAATTTTAAAATGGTTAGTGAAGGCATTTATTCTAGAAA
* * * * ** *
10950495 AATACCTTCACTAATTTCTTTTAATTTATGTACATAATTATTGAAGGTGTTTTTAGAGGACAAAC
66 AATGCCTTCACTAATTCCATTTAATTTATGTACATAATTATTGAAGGTATTTTTTTAGAACAAAC
* * * *
10950560 ACCTTTAATAATTTTATTTTAGAAATTTTTGAGATTATTAAAGGTGTCTTCTAGTGAAAAACACC
131 GCCTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAGGTGTCTTCTAGTGAAAAACACC
10950625 TTCAATATACCAGTACTCAAATTTTAAGAAAGTTAGTGAAGGCGTTTATTCTAGAAAACACCTTC
196 TTCAATATACCAGTACTCAAATTTTAAGAAAGTTAGTGAAGGCGTTTATTCTAGAAAA-ACCTTC
10950690 AATAATTCTTTTTAAATTTTTTACATAATTATTGAAGGCATTTTTTTAGACAAACACCTTTAATA
260 AATAATTCTTTTTAAATTTTTTACATAATTATTGAAGGCATTTTTTTAGACAAA-ACCTTTAATA
* * *
10950755 GTTTCCTTTTAAAAA-TTTTAAGATTATTAAAAGCGTCTTCCAATGA
324 ATTTCCTTTTAAAAATTTTTAGGATTATTAAAAGCGTATTCCAATGA
* * ** *
10950801 AAAACGCTTTTAATATTCCACTTA-TCAAATTTTAAAACAGTTAGTAAAGGCATTTATTCTAGAA
1 AAAACGCCTTCAATATTCCAC-TACTCAAATTTTAAAATGGTTAGTGAAGGCATTTATTCTAGAA
* * *
10950865 AAATGCCTTCACTGATTCCATTTAATTTATGTATATAATTATTGAAGGTATTTTTTTAAAACAAA
65 AAATGCCTTCACTAATTCCATTTAATTTATGTACATAATTATTGAAGGTATTTTTTTAGAACAAA
* *
10950930 CGCCTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAGGCGTCTTCTAGTGAAAAACGC
130 CGCCTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAGGTGTCTTCTAGTGAAAAACAC
* * *
10950995 TTTCAATATACCAGTACTTAAATTTTAA-AACAGTTAGTGAAGGCATTTATTCTAGAAAAATACC
195 CTTCAATATACCAGTACTCAAATTTTAAGAA-AGTTAGTGAAGGCGTTTATTCTAG-AAAA-ACC
* * * * *
10951059 TTCAATAATT-TCTTTTAAATTTTATACACATAATTATTGAAGGCGTATTTTGAGAACAAATGCC
257 TTCAATAATTCT-TTTTAAATTTT-T-TACATAATTATTGAAGGCATTTTTTTAG-ACAAA-ACC
* * * * *
10951123 TTCAATAATTTCCTTTTTAAAAAATTTTTAGGATTATTAAAGGCATATTCTAGTGA
317 TTTAATAATTTCC-TTTT-AAAAATTTTTAGGATTATTAAAAGCGTATTCCAATGA
* * * * *
10951179 AAAACGCCTTCAATATTTCACCACTCAAATTTTAAGATGGTTAATGAAGGCATTTATTCTAAAAA
1 AAAACGCCTTCAATATTCCACTACTCAAATTTTAAAATGGTTAGTGAAGGCATTTATTCTAGAAA
* * * *
10951244 AATGCCTTCACTAATT-CATTTTAATTTTTTTACATAATTATTGAAGGCATTTTTTTTATAACAA
66 AATGCCTTCACTAATTCCA-TTTAATTTATGTACATAATTATTGAAGGTA-TTTTTTTAGAACAA
* * *
10951308 ACGCCTTCAATAATTTCT-TTTTAAAAATTGTTGGGATTATTAAATGTGTCTTTTAGT-ATAAAA
129 ACGCCTTCAATAATTT-TATTTTAAAAATTTTTGGGATTATTAAAGGTGTCTTCTAGTGA-AAAA
**
10951371 TGCCTTCAATA
192 CACCTTCAATA
10951382 ATGTTAAGGG
Statistics
Matches: 831, Mismatches: 102, Indels: 32
0.86 0.11 0.03
Matches are distributed among these distances:
370 2 0.00
371 254 0.31
372 96 0.12
373 226 0.27
374 25 0.03
375 18 0.02
376 4 0.00
377 8 0.01
378 120 0.14
379 77 0.09
380 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (370 bp):
AAAACGCCTTCAATATTCCACTACTCAAATTTTAAAATGGTTAGTGAAGGCATTTATTCTAGAAA
AATGCCTTCACTAATTCCATTTAATTTATGTACATAATTATTGAAGGTATTTTTTTAGAACAAAC
GCCTTCAATAATTTTATTTTAAAAATTTTTGGGATTATTAAAGGTGTCTTCTAGTGAAAAACACC
TTCAATATACCAGTACTCAAATTTTAAGAAAGTTAGTGAAGGCGTTTATTCTAGAAAAACCTTCA
ATAATTCTTTTTAAATTTTTTACATAATTATTGAAGGCATTTTTTTAGACAAAACCTTTAATAAT
TTCCTTTTAAAAATTTTTAGGATTATTAAAAGCGTATTCCAATGA
Found at i:10952170 original size:28 final size:28
Alignment explanation
Indices: 10952123--10952179 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
10952113 CTAAAACTTG
* * * * *
10952123 TTGTGTGATATTGTTTTGCTGAATGGTA
1 TTGTATGATATTGGTATGCTAAATCGTA
10952151 TTGTATGATATTGGTATGCTAAATCGTA
1 TTGTATGATATTGGTATGCTAAATCGTA
10952179 T
1 T
10952180 GTTGAATGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (28 bp):
TTGTATGATATTGGTATGCTAAATCGTA
Found at i:10952252 original size:37 final size:37
Alignment explanation
Indices: 10952202--10952272 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
10952192 TTCTGAATGG
*
10952202 TTTGCTGAAGGGTGTGTCTGAGCACATTGCTAATTAA
1 TTTGCTGAAGGGTGTGTCTAAGCACATTGCTAATTAA
10952239 TTTGCTGAAGGGTGTGTCTAAGCACATTGCTAAT
1 TTTGCTGAAGGGTGTGTCTAAGCACATTGCTAAT
10952273 GGTGTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (37 bp):
TTTGCTGAAGGGTGTGTCTAAGCACATTGCTAATTAA
Found at i:10954939 original size:36 final size:35
Alignment explanation
Indices: 10954876--10954946 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 35
10954866 ATATATAAAC
*
10954876 CAAATGTTTTCTAGACATAAATATACAACTGACTT
1 CAAATGTTTTCTAGACATAAACATACAACTGACTT
* * *
10954911 CAAATGTTTTTTCAGACATAAACCTACAATTGACTT
1 CAAATGTTTTCT-AGACATAAACATACAACTGACTT
10954947 GACATATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 11 0.35
36 20 0.65
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (35 bp):
CAAATGTTTTCTAGACATAAACATACAACTGACTT
Found at i:10956839 original size:18 final size:16
Alignment explanation
Indices: 10956806--10956849 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
10956796 AATTAGAATT
*
10956806 AATATATTTTATAAAA
1 AATATATTTAATAAAA
10956822 AATATATGTTAATAAAA
1 AATATAT-TTAATAAAA
10956839 AA-ATTATTTAA
1 AATA-TATTTAA
10956850 ATATAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
AATATATTTAATAAAA
Found at i:10956852 original size:17 final size:19
Alignment explanation
Indices: 10956815--10956857 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
10956805 TAATATATTT
10956815 TATAAAAAATATATGTTAA
1 TATAAAAAATATATGTTAA
10956834 TA-AAAAAAT-TAT-TTAAA
1 TATAAAAAATATATGTT-AA
10956851 TATAAAA
1 TATAAAA
10956858 GATAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.09
17 7 0.32
18 11 0.50
19 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TATAAAAAATATATGTTAA
Found at i:10957991 original size:21 final size:22
Alignment explanation
Indices: 10957965--10958011 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
10957955 ATATTTAAAA
10957965 TTATA-TTTAAAAAATAATATT
1 TTATATTTTAAAAAATAATATT
*
10957986 TTATATTTTTAAAAATAATATT
1 TTATATTTTAAAAAATAATATT
10958008 TTAT
1 TTAT
10958012 TAATTTCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTATATTTTAAAAAATAATATT
Found at i:10962280 original size:32 final size:33
Alignment explanation
Indices: 10962235--10962299 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
10962225 TTTTGCATGA
* *
10962235 CTAAAATTATATTTATATGA-TAATTTATTTGC
1 CTAAAATTATATTTACATGATTAATATATTTGC
* * *
10962267 CTAATATTTTATTTGCATGATTAATATATTTGC
1 CTAAAATTATATTTACATGATTAATATATTTGC
10962300 ATGAATTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (33 bp):
CTAAAATTATATTTACATGATTAATATATTTGC
Found at i:10962298 original size:17 final size:17
Alignment explanation
Indices: 10962251--10962363 Score: 95
Period size: 17 Copynumber: 6.4 Consensus size: 17
10962241 TTATATTTAT
10962251 ATGA-TAATTTATTTGC
1 ATGATTAATTTATTTGC
* * *
10962267 CT-AATATTTTATTTGC
1 ATGATTAATTTATTTGC
*
10962283 ATGATTAATATATTTGC
1 ATGATTAATTTATTTGC
10962300 ATGAATTTAATTTATTTGC
1 ATG-A-TTAATTTATTTGC
* *
10962319 ATGATTTATTTAATTGC
1 ATGATTAATTTATTTGC
*
10962336 ATGTTTTATTAATTTAATTGC
1 ATG----ATTAATTTATTTGC
10962357 ATGATTA
1 ATGATTA
10962364 TTAATATATT
Statistics
Matches: 79, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.01
16 13 0.16
17 32 0.41
18 2 0.03
19 15 0.19
21 16 0.20
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (17 bp):
ATGATTAATTTATTTGC
Found at i:10962316 original size:36 final size:38
Alignment explanation
Indices: 10962274--10962363 Score: 112
Period size: 36 Copynumber: 2.4 Consensus size: 38
10962264 TGCCTAATAT
*
10962274 TTTATTTGCATGATTAATATATTTGCATG-AAT-TTAA
1 TTTATTTGCATGATTAATATAATTGCATGTAATATTAA
* * **
10962310 TTTATTTGCATGATTTATTTAATTGCATGTTTTATTAA
1 TTTATTTGCATGATTAATATAATTGCATGTAATATTAA
*
10962348 TTTAATTGCATGATTA
1 TTTATTTGCATGATTA
10962364 TTAATATATT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 26 0.58
37 1 0.02
38 18 0.40
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (38 bp):
TTTATTTGCATGATTAATATAATTGCATGTAATATTAA
Found at i:10962352 original size:21 final size:20
Alignment explanation
Indices: 10962286--10962368 Score: 84
Period size: 19 Copynumber: 4.3 Consensus size: 20
10962276 TATTTGCATG
* * *
10962286 ATTAATATATTTGCATGAAT
1 ATTAATTTAATTGCATGATT
*
10962306 -TTAATTTATTTGCATGA-T
1 ATTAATTTAATTGCATGATT
*
10962324 -TT-ATTTAATTGCATGTTTT
1 ATTAATTTAATTGCATG-ATT
10962343 ATTAATTTAATTGCATGATT
1 ATTAATTTAATTGCATGATT
10962363 ATTAAT
1 ATTAAT
10962369 ATATTTATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
17 12 0.22
18 3 0.05
19 17 0.31
20 10 0.18
21 13 0.24
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (20 bp):
ATTAATTTAATTGCATGATT
Found at i:10962400 original size:43 final size:42
Alignment explanation
Indices: 10962343--10962431 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 42
10962333 TGCATGTTTT
* *
10962343 ATTA-ATTTAATTGCATGATTATTAATATATTTATTTTGTAAG
1 ATTATATTTAATTGCATAATTATTAATATATTTA-ATTGTAAG
* *
10962385 ATTATATTTTATTGCATAATTATTAATATATTTAATTGTATG
1 ATTATATTTAATTGCATAATTATTAATATATTTAATTGTAAG
10962427 ATTAT
1 ATTAT
10962432 TAATATATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 15 0.36
43 27 0.64
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (42 bp):
ATTATATTTAATTGCATAATTATTAATATATTTAATTGTAAG
Found at i:10962420 original size:67 final size:64
Alignment explanation
Indices: 10962309--10962481 Score: 201
Period size: 67 Copynumber: 2.7 Consensus size: 64
10962299 CATGAATTTA
** * * *
10962309 ATTTATTTGCATGATT-TATTTAATTGCAT-GTTTTAT-TAATTTAATTGCATGATTATTAATAT
1 ATTTATTTGTGTGATTATATTTGATTGCATAATTATATAT-ATTTAATTGCATGATTATTAATAT
* *
10962371 ATTTATTT-TGTAAGATTATATTTTATTGCATAATTATTAATATATTTAATTGTATGATTATTAA
1 ATTTATTTGTGT--GATTATATTTGATTGCATAATTA-T-ATATATTTAATTGCATGATTATTAA
10962435 TAT
62 TAT
*
10962438 ATTTATTTGTGTGATTATATTTGATTGCATGATTATATATATTT
1 ATTTATTTGTGTGATTATATTTGATTGCATAATTATATATATTT
10962482 GCATAAATGA
Statistics
Matches: 95, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
61 1 0.01
62 8 0.08
63 4 0.04
64 20 0.21
65 3 0.03
66 22 0.23
67 33 0.35
68 4 0.04
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (64 bp):
ATTTATTTGTGTGATTATATTTGATTGCATAATTATATATATTTAATTGCATGATTATTAATAT
Found at i:10962447 original size:24 final size:24
Alignment explanation
Indices: 10962325--10962455 Score: 109
Period size: 24 Copynumber: 5.8 Consensus size: 24
10962315 TTGCATGATT
* *
10962325 TATTTAATTGCATG-TT-TTATTA
1 TATTTAATTGTATGATTATTAATA
*
10962347 -ATTTAATTGCATGATTATTAATA
1 TATTTAATTGTATGATTATTAATA
**
10962370 TATTT-ATT-T-TGTAAGATT-ATA
1 TATTTAATTGTATG-ATTATTAATA
* *
10962391 T-TTT-ATTGCATAATTATTAATA
1 TATTTAATTGTATGATTATTAATA
10962413 TATTTAATTGTATGATTATTAATA
1 TATTTAATTGTATGATTATTAATA
* *
10962437 TATTTATTTGTGTGATTAT
1 TATTTAATTGTATGATTAT
10962456 ATTTGATTGC
Statistics
Matches: 88, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
20 6 0.07
21 23 0.26
22 11 0.12
23 11 0.12
24 37 0.42
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (24 bp):
TATTTAATTGTATGATTATTAATA
Found at i:10962458 original size:18 final size:18
Alignment explanation
Indices: 10962435--10962485 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
10962425 TGATTATTAA
**
10962435 TATATTTATTTGTGTGAT
1 TATATTTATTTGCATGAT
10962453 TATATTTGA-TTGCATGAT
1 TATATTT-ATTTGCATGAT
*
10962471 TATATATATTTGCAT
1 TATATTTATTTGCAT
10962486 AAATGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (18 bp):
TATATTTATTTGCATGAT
Found at i:10962547 original size:23 final size:24
Alignment explanation
Indices: 10962521--10962572 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
10962511 TTGCATGATC
*
10962521 TATTGCATAATATGATTTTATA-T
1 TATTGCATAATATGATTTAATATT
*
10962544 TATTGCATGATATGATTTAATATT
1 TATTGCATAATATGATTTAATATT
10962568 TATTG
1 TATTG
10962573 TATGATTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.52
Consensus pattern (24 bp):
TATTGCATAATATGATTTAATATT
Found at i:10966120 original size:12 final size:12
Alignment explanation
Indices: 10966105--10966134 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10966095 AAAAAAATGT
10966105 GAAAAAAAGAAA
1 GAAAAAAAGAAA
*
10966117 GAAAGAAAGAAA
1 GAAAAAAAGAAA
10966129 GAAAAA
1 GAAAAA
10966135 GAAAAAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
GAAAAAAAGAAA
Found at i:10966446 original size:8 final size:8
Alignment explanation
Indices: 10966433--10966471 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
10966423 AAATATGTGA
10966433 AAAAAAAT
1 AAAAAAAT
*
10966441 AAAAAAAGC
1 AAAAAAA-T
10966450 AAAAAAAT
1 AAAAAAAT
10966458 -AAAAAAT
1 AAAAAAAT
10966465 AAAAAAA
1 AAAAAAA
10966472 AGAAAAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.87, C:0.03, G:0.03, T:0.08
Consensus pattern (8 bp):
AAAAAAAT
Found at i:10966470 original size:17 final size:17
Alignment explanation
Indices: 10966431--10966505 Score: 73
Period size: 17 Copynumber: 4.4 Consensus size: 17
10966421 GAAAATATGT
10966431 GAAAAAAAATAAAAAAA
1 GAAAAAAAATAAAAAAA
*
10966448 GCAAAAAAATAAAAAATA
1 GAAAAAAAATAAAAAA-A
*
10966466 -AAAAAAAGAAAAAGAAAA
1 GAAAAAAA-ATAAA-AAAA
**
10966484 GAAAAAGGAT-AAAAAA
1 GAAAAAAAATAAAAAAA
10966500 GAAAAA
1 GAAAAA
10966506 CTTAAACTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
16 10 0.21
17 23 0.48
18 7 0.15
19 8 0.17
ACGTcount: A:0.83, C:0.01, G:0.11, T:0.05
Consensus pattern (17 bp):
GAAAAAAAATAAAAAAA
Found at i:10966477 original size:15 final size:14
Alignment explanation
Indices: 10966434--10966489 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 14
10966424 AATATGTGAA
10966434 AAAAAATAAAAAAAG
1 AAAAAA-AAAAAAAG
*
10966449 CAAAAAAATAAAAAAT
1 -AAAAAAA-AAAAAAG
10966465 AAAAAAAAGAAAAAG
1 AAAAAAAA-AAAAAG
10966480 AAAAGAAAAA
1 AAAA-AAAAA
10966490 GGATAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 1 0.03
15 18 0.51
16 16 0.46
ACGTcount: A:0.86, C:0.02, G:0.07, T:0.05
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:10966484 original size:36 final size:34
Alignment explanation
Indices: 10966432--10966505 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 34
10966422 AAAATATGTG
* *
10966432 AAAAAAAATAAAAAAAGCAAAAA-AATAAAAAATA
1 AAAAAAAAAAAAAAAAG-AAAAAGAATAAAAAAGA
*
10966466 AAAAAAAGAAAAAGAAAAGAAAAAGGATAAAAAAGA
1 AAAAAAA-AAAAA-AAAAGAAAAAGAATAAAAAAGA
10966502 AAAA
1 AAAA
10966506 CTTAAACTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 7 0.21
35 9 0.26
36 18 0.53
ACGTcount: A:0.84, C:0.01, G:0.09, T:0.05
Consensus pattern (34 bp):
AAAAAAAAAAAAAAAAGAAAAAGAATAAAAAAGA
Found at i:10968767 original size:15 final size:15
Alignment explanation
Indices: 10968712--10968814 Score: 59
Period size: 15 Copynumber: 6.9 Consensus size: 15
10968702 AGACTTTCAA
*
10968712 GATTTTAGAGTTTTG
1 GATTTTAGGGTTTTG
*
10968727 G-TTTT-GAGATTTTG
1 GATTTTAG-GGTTTTG
* * *
10968741 GGTTTGAAGGTTTATG
1 GATTTTAGGGTTT-TG
10968757 G-TTTTAGGGTTTTG
1 GATTTTAGGGTTTTG
*
10968771 GATTTTAGGGTTATG
1 GATTTTAGGGTTTTG
* * *
10968786 AAATTTAGGGCTTTG
1 GATTTTAGGGTTTTG
* *
10968801 AAATTTTAAGGTTT
1 -GATTTTAGGGTTT
10968815 AGAGGGTTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
13 1 0.01
14 13 0.19
15 40 0.60
16 13 0.19
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (15 bp):
GATTTTAGGGTTTTG
Found at i:10968941 original size:14 final size:14
Alignment explanation
Indices: 10968899--10968941 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
10968889 TTAGGGCATT
10968899 GAGTATTTAGGGTTA
1 GAGT-TTTAGGGTTA
10968914 GAGTTTTGAGGGTTCA
1 GAGTTTT-AGGGTT-A
10968930 -AGTTTTAGGGTT
1 GAGTTTTAGGGTT
10968942 TAAGGATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 9 0.35
15 16 0.62
16 1 0.04
ACGTcount: A:0.21, C:0.02, G:0.35, T:0.42
Consensus pattern (14 bp):
GAGTTTTAGGGTTA
Found at i:10968964 original size:22 final size:22
Alignment explanation
Indices: 10968930--10968975 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
10968920 TGAGGGTTCA
** *
10968930 AGTTTTAGGGTTTAAGGATTTG
1 AGTTTTAAAGTTTAAAGATTTG
*
10968952 AGTTTTAAAGTTTAAAGTTTTG
1 AGTTTTAAAGTTTAAAGATTTG
10968974 AG
1 AG
10968976 GGTTTTGGGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (22 bp):
AGTTTTAAAGTTTAAAGATTTG
Found at i:10969012 original size:15 final size:16
Alignment explanation
Indices: 10968978--10969014 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
10968968 GTTTTGAGGG
*
10968978 TTTTGGGGTTTCTTAA
1 TTTTGGGGTTTCTAAA
10968994 TTTTGGGGTTTC-AAA
1 TTTTGGGGTTTCTAAA
10969009 TTTTGG
1 TTTTGG
10969015 ATTTTTAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.14, C:0.05, G:0.27, T:0.54
Consensus pattern (16 bp):
TTTTGGGGTTTCTAAA
Found at i:10969074 original size:23 final size:23
Alignment explanation
Indices: 10968993--10969082 Score: 69
Period size: 23 Copynumber: 3.9 Consensus size: 23
10968983 GGGTTTCTTA
* *
10968993 ATTTTGGGGTTTCAA-ATTTTGG
1 ATTTTAGGGTTTTAAGATTTTGG
**
10969015 ATTTTTAGGACTTTAAGAGTTTTAGG
1 A-TTTTAGGGTTTTAAGA-TTTT-GG
*
10969041 -GTTT-GGAGTTTTAAGATTTTGG
1 ATTTTAGG-GTTTTAAGATTTTGG
*
10969063 ATTTTAGGGTTTTAAAATTT
1 ATTTTAGGGTTTTAAGATTT
10969083 AAAAAAATAT
Statistics
Matches: 52, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
22 3 0.06
23 30 0.58
24 13 0.25
25 4 0.08
26 2 0.04
ACGTcount: A:0.23, C:0.02, G:0.24, T:0.50
Consensus pattern (23 bp):
ATTTTAGGGTTTTAAGATTTTGG
Found at i:10969075 original size:15 final size:16
Alignment explanation
Indices: 10969031--10969075 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
10969021 AGGACTTTAA
10969031 GAGTTTTAGGG-TTTG
1 GAGTTTTAGGGTTTTG
* *
10969046 GAGTTTTAAGATTTTG
1 GAGTTTTAGGGTTTTG
10969062 GA-TTTTAGGGTTTT
1 GAGTTTTAGGGTTTT
10969076 AAAATTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (16 bp):
GAGTTTTAGGGTTTTG
Found at i:10970432 original size:12 final size:12
Alignment explanation
Indices: 10970415--10970449 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10970405 GGGTGTGGCT
10970415 TAAGGTATGGTG
1 TAAGGTATGGTG
10970427 TAAGGTATGGTG
1 TAAGGTATGGTG
* *
10970439 CAGGGTATGGT
1 TAAGGTATGGT
10970450 CTCAGGGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.23, C:0.03, G:0.43, T:0.31
Consensus pattern (12 bp):
TAAGGTATGGTG
Found at i:10971033 original size:13 final size:14
Alignment explanation
Indices: 10971015--10971051 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
10971005 AAAATCTTTT
10971015 CATTCATTGCAC-A
1 CATTCATTGCACTA
*
10971028 CATTCATTTC-CTA
1 CATTCATTGCACTA
10971041 CATTCATTGCA
1 CATTCATTGCA
10971052 TATGCTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
12 1 0.05
13 19 0.95
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (14 bp):
CATTCATTGCACTA
Found at i:10971414 original size:37 final size:37
Alignment explanation
Indices: 10971367--10971492 Score: 121
Period size: 37 Copynumber: 3.4 Consensus size: 37
10971357 CATGATTTTA
* *
10971367 TTTTTTTCAAAGTTAAAGCCTTGATGGAGGAGTTCTT
1 TTTTTTTCAAAGTTAAAGCCTTGATGGAAGAGTACTT
*
10971404 TTTTTTTCAAAAGTTAAA--CTTCGATAGAAGAGTACTT
1 TTTTTTTC-AAAGTTAAAGCCTT-GATGGAAGAGTACTT
** ** * *
10971441 TAGTTGGCAAAGTTGAAGCCTTGGTGGAAGAGTACTT
1 TTTTTTTCAAAGTTAAAGCCTTGATGGAAGAGTACTT
*
10971478 TATTCTTTCAAAGTT
1 T-TTTTTTCAAAGTT
10971493 GAAACTTTAG
Statistics
Matches: 69, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
36 11 0.16
37 38 0.55
38 20 0.29
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.40
Consensus pattern (37 bp):
TTTTTTTCAAAGTTAAAGCCTTGATGGAAGAGTACTT
Found at i:10971597 original size:43 final size:43
Alignment explanation
Indices: 10971532--10971651 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 43
10971522 AAGTTTCGAG
* * * *
10971532 CCTCGGTTATGGGAGAGCATTTTATTTTCCAAAAGTTCCAAAA
1 CCTCAGTTGTGGGAAAGTATTTTATTTTCCAAAAGTTCCAAAA
* * * ** *
10971575 TCTTAGTTGTGGGAAAGTATTTTATTTTTCAAAAGTTTTAAAG
1 CCTCAGTTGTGGGAAAGTATTTTATTTTCCAAAAGTTCCAAAA
*
10971618 CCTCAGTTGT-GGAGAAGTATTTTATTTTCTAAAA
1 CCTCAGTTGTGGGA-AAGTATTTTATTTTCCAAAA
10971652 ATGTCAATGC
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 3 0.05
43 59 0.95
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (43 bp):
CCTCAGTTGTGGGAAAGTATTTTATTTTCCAAAAGTTCCAAAA
Found at i:10971996 original size:22 final size:23
Alignment explanation
Indices: 10971971--10972019 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
10971961 AAAGTCAAAG
* *
10971971 AAAATTAGTAAAAAAA-AATGAA
1 AAAATGAGTAAAAAAATAAAGAA
*
10971993 AAAATGGGTAAAAAAATAAAGAA
1 AAAATGAGTAAAAAAATAAAGAA
10972016 AAAA
1 AAAA
10972020 ATGTGGGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.14
Consensus pattern (23 bp):
AAAATGAGTAAAAAAATAAAGAA
Found at i:10972642 original size:32 final size:33
Alignment explanation
Indices: 10972603--10972667 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
10972593 TTTTGCATGA
*
10972603 CTAATATTATATTTGCATGATTAGT-TATTTGC
1 CTAATATTATATTTGCATGATTAATATATTTGC
*
10972635 CTAATATTTTATTTGCATGATTAATATATTTGC
1 CTAATATTATATTTGCATGATTAATATATTTGC
10972668 TTGAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (33 bp):
CTAATATTATATTTGCATGATTAATATATTTGC
Found at i:10972661 original size:20 final size:20
Alignment explanation
Indices: 10972636--10972758 Score: 71
Period size: 21 Copynumber: 6.1 Consensus size: 20
10972626 GTTATTTGCC
10972636 TAATATTTTATTTGCATGAT
1 TAATATTTTATTTGCATGAT
*
10972656 TAATA---TATTTGCTTGAAT
1 TAATATTTTATTTGCATG-AT
*
10972674 T--TAATTTATTTGCATGATT
1 TAATATTTTATTTGCATGA-T
* * *
10972693 TATTAATTTAATTGCATGATTAT
1 TAATATTTTATTTGCATG---AT
*
10972716 TAATATATTTTATTATGTATGAT
1 T-A-ATATTTTATT-TGCATGAT
10972739 T-ATATTTTA-TTGCATGAT
1 TAATATTTTATTTGCATGAT
10972757 TA
1 TA
10972759 TTAATATATT
Statistics
Matches: 81, Mismatches: 8, Indels: 29
0.69 0.07 0.25
Matches are distributed among these distances:
16 2 0.02
17 9 0.11
18 12 0.15
19 12 0.15
20 13 0.16
21 14 0.17
23 5 0.06
24 2 0.02
25 7 0.09
26 5 0.06
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.54
Consensus pattern (20 bp):
TAATATTTTATTTGCATGAT
Found at i:10972683 original size:19 final size:17
Alignment explanation
Indices: 10972612--10972692 Score: 76
Period size: 16 Copynumber: 4.8 Consensus size: 17
10972602 ACTAATATTA
*
10972612 TATTTGCATGATT-AGT
1 TATTTGCATGATTAATT
* * *
10972628 TATTTGCCT-AATATTT
1 TATTTGCATGATTAATT
*
10972644 TATTTGCATGATTAATA
1 TATTTGCATGATTAATT
*
10972661 TATTTGCTTGAATTTAATT
1 TATTTGCATG-A-TTAATT
10972680 TATTTGCATGATT
1 TATTTGCATGATT
10972693 TATTAATTTA
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
15 2 0.04
16 17 0.34
17 15 0.30
18 2 0.04
19 14 0.28
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.53
Consensus pattern (17 bp):
TATTTGCATGATTAATT
Found at i:10972689 original size:36 final size:32
Alignment explanation
Indices: 10972603--10972697 Score: 102
Period size: 32 Copynumber: 2.8 Consensus size: 32
10972593 TTTTGCATGA
*
10972603 CTAAT-ATTATATTTGCATGATTAGTTATTTGC
1 CTAATAATT-TATTTGCATGATTAATTATTTGC
*
10972635 CTAATATTTTATTTGCATGATTAATATATTTGC
1 CTAATAATTTATTTGCATGATTAAT-TATTTGC
* *
10972668 TTGAATTTAATTTATTTGCATGATTTATTA
1 CT-AA--TAATTTATTTGCATGATTAATTA
10972698 ATTTAATTGC
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
32 20 0.38
33 10 0.19
34 2 0.04
35 2 0.04
36 19 0.36
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (32 bp):
CTAATAATTTATTTGCATGATTAATTATTTGC
Found at i:10972700 original size:21 final size:20
Alignment explanation
Indices: 10972642--10972769 Score: 88
Period size: 19 Copynumber: 6.3 Consensus size: 20
10972632 TGCCTAATAT
10972642 TTTATTTGCATG---ATTAA
1 TTTATTTGCATGATTATTAA
* * *
10972659 TATATTTGCTTGAAT-TTAA
1 TTTATTTGCATGATTATTAA
10972678 TTTATTTGCATGATTTATTAA
1 TTTATTTGCATGA-TTATTAA
*
10972699 TTTAATTGCATGATTATTAATATA
1 TTTATTTGCATGATTA-T--TA-A
* *
10972723 TTTTATTATGTATGATTA-TAT
1 -TTTATT-TGCATGATTATTAA
10972744 TTTA-TTGCATGATTATTAA
1 TTTATTTGCATGATTATTAA
*
10972763 TATATTT
1 TTTATTT
10972770 ATTTGTGTGA
Statistics
Matches: 86, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
17 10 0.12
18 9 0.10
19 21 0.24
20 10 0.12
21 17 0.20
22 2 0.02
23 2 0.02
24 1 0.01
25 5 0.06
26 9 0.10
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTATTTGCATGATTATTAA
Found at i:10972756 original size:44 final size:43
Alignment explanation
Indices: 10972678--10972809 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 43
10972668 TTGAATTTAA
*
10972678 TTTATTTGCATGATTTATTAATTTAATTGCATGATTATTAATATAT
1 TTTATTTGTATGA-TTA-T-ATTTAATTGCATGATTATTAATATAT
*
10972724 TTTATTATGTATGATTATATTTTATTGCATGATTATTAATATA-
1 TTTATT-TGTATGATTATATTTAATTGCATGATTATTAATATAT
* * * *
10972767 TTTATTTGTGTGATTGTATTTGATTGTATGATTA-T-ATATAT
1 TTTATTTGTATGATTATATTTAATTGCATGATTATTAATATAT
10972808 TT
1 TT
10972810 GCATGAATGA
Statistics
Matches: 78, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
40 5 0.06
41 3 0.04
42 24 0.31
43 6 0.08
44 24 0.31
45 1 0.01
46 9 0.12
47 6 0.08
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (43 bp):
TTTATTTGTATGATTATATTTAATTGCATGATTATTAATATAT
Found at i:10972757 original size:18 final size:20
Alignment explanation
Indices: 10972719--10972759 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
10972709 TGATTATTAA
*
10972719 TATATTTTATTATGTATGAT
1 TATATTTTATTATGCATGAT
10972739 TATATTTTA-T-TGCATGAT
1 TATATTTTATTATGCATGAT
10972757 TAT
1 TAT
10972760 TAATATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 1 0.05
20 9 0.45
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (20 bp):
TATATTTTATTATGCATGAT
Found at i:10972780 original size:24 final size:24
Alignment explanation
Indices: 10972709--10972781 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 24
10972699 TTTAATTGCA
*
10972709 TGATTATTAATATATTT-TATTATG
1 TGATTATTAATATATTTAT-TTGTG
* **
10972733 T-ATGATT-ATAT-TTTA-TTGCA
1 TGATTATTAATATATTTATTTGTG
10972753 TGATTATTAATATATTTATTTGTG
1 TGATTATTAATATATTTATTTGTG
10972777 TGATT
1 TGATT
10972782 GTATTTGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 3 0.08
21 8 0.22
22 8 0.22
23 9 0.24
24 9 0.24
ACGTcount: A:0.30, C:0.01, G:0.11, T:0.58
Consensus pattern (24 bp):
TGATTATTAATATATTTATTTGTG
Found at i:10972870 original size:35 final size:35
Alignment explanation
Indices: 10972831--10972944 Score: 102
Period size: 45 Copynumber: 3.0 Consensus size: 35
10972821 TTTTATGGCA
10972831 TATATTATTGTATGATTTATTGCATGGTATGATTT
1 TATATTATTGTATGATTTATTGCATGGTATGATTT
* *
10972866 TATATTATTGCATGATATGATTTTATTTATTGCATGATATAATTT
1 TATATTA-T---TG-TATG-----ATTTATTGCATGGTATGATTT
* *
10972911 TATATTATTGCATGATTTATTACATGGTATGATT
1 TATATTATTGTATGATTTATTGCATGGTATGATT
10972945 GAATATTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
35 24 0.38
36 1 0.02
39 2 0.03
40 7 0.11
41 2 0.03
44 1 0.02
45 26 0.41
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.53
Consensus pattern (35 bp):
TATATTATTGTATGATTTATTGCATGGTATGATTT
Found at i:10972898 original size:22 final size:23
Alignment explanation
Indices: 10972847--10972926 Score: 135
Period size: 23 Copynumber: 3.5 Consensus size: 23
10972837 ATTGTATGAT
*
10972847 TTATTGCATGGTATGATTTTATA
1 TTATTGCATGATATGATTTTATA
10972870 TTATTGCATGATATGATTTTAT-
1 TTATTGCATGATATGATTTTATA
*
10972892 TTATTGCATGATATAATTTTATA
1 TTATTGCATGATATGATTTTATA
10972915 TTATTGCATGAT
1 TTATTGCATGAT
10972927 TTATTACATG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
22 21 0.39
23 33 0.61
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.53
Consensus pattern (23 bp):
TTATTGCATGATATGATTTTATA
Found at i:10973398 original size:23 final size:24
Alignment explanation
Indices: 10973359--10973405 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
10973349 AAGCTAAAGT
10973359 TCAAGATATATGTGTAATCTTGAG
1 TCAAGATATATGTGTAATCTTGAG
10973383 TCAAGATA-ATGTGTAATCTTGAG
1 TCAAGATATATGTGTAATCTTGAG
10973406 CAACATGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (24 bp):
TCAAGATATATGTGTAATCTTGAG
Done.