Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 90 of 105
Found at i:15930911 original size:8 final size:8
Alignment explanation
Indices: 15930898--15930930 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
15930888 ATAATTTATG
15930898 AAAATATA
1 AAAATATA
15930906 AAAATATA
1 AAAATATA
15930914 AAAATATAA
1 AAAATAT-A
15930923 AAAATATA
1 AAAATATA
15930931 TATTTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATATA
Found at i:15930919 original size:16 final size:17
Alignment explanation
Indices: 15930898--15930930 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15930888 ATAATTTATG
15930898 AAAATAT-AAAAATATA
1 AAAATATAAAAAATATA
15930914 AAAATATAAAAAATATA
1 AAAATATAAAAAATATA
15930931 TATTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATATAAAAAATATA
Found at i:15932833 original size:2 final size:2
Alignment explanation
Indices: 15932826--15932853 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15932816 ATATGTTGTA
15932826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15932854 TATGTCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15934743 original size:124 final size:125
Alignment explanation
Indices: 15934590--15934840 Score: 452
Period size: 126 Copynumber: 2.0 Consensus size: 125
15934580 GTATTTTGAT
15934590 TGATTGTGGATTGACACCTAGAATCAGCTTGTTAATGGAACTATTAAACATTTAAC-TTTTGTCA
1 TGATTGTGGATTGACACCTAGAATCAGCTTGTTAATGGAACTATTAAACATTTAACTTTTTGTCA
* *
15934654 TTGAATATCA-TTTTAAGGCTTGTTTATTGGTTTTATGGCATCTTTAAATGCTCCTCTGTC
66 TTG-ATATCATTTTTAAGGCTTGTTGATTGGTGTTATGGCATCTTTAAATGCTCCTCTGTC
15934714 TGATTGTGGATTGACACCTAGAATCAGCTTGTTAATGGAACTATTAAACATTTAACTTTTTTGTC
1 TGATTGTGGATTGACACCTAGAATCAGCTTGTTAATGGAACTATTAAACATTTAAC-TTTTTGTC
15934779 ATTGATATCATTTTTAAGGCTTGTTGATTGGTGTTATGGCATCTTTAAATGCTCCTCTGTC
65 ATTGATATCATTTTTAAGGCTTGTTGATTGGTGTTATGGCATCTTTAAATGCTCCTCTGTC
15934840 T
1 T
15934841 TCGAAGCTAG
Statistics
Matches: 122, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
124 56 0.46
125 6 0.05
126 60 0.49
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (125 bp):
TGATTGTGGATTGACACCTAGAATCAGCTTGTTAATGGAACTATTAAACATTTAACTTTTTGTCA
TTGATATCATTTTTAAGGCTTGTTGATTGGTGTTATGGCATCTTTAAATGCTCCTCTGTC
Found at i:15948440 original size:21 final size:21
Alignment explanation
Indices: 15948408--15948449 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15948398 AATTTTGAAT
* *
15948408 AAAATATGATGATATAATATA
1 AAAATATGATGAAAAAATATA
15948429 AAAATGAT-ATGAAAAAATATA
1 AAAAT-ATGATGAAAAAATATA
15948450 TAATATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (21 bp):
AAAATATGATGAAAAAATATA
Found at i:15949345 original size:25 final size:24
Alignment explanation
Indices: 15949292--15949345 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
15949282 TACCAATAAA
*
15949292 ATTTTTATATTTGTTATTAGTATT
1 ATTTTTATATTTGTTATTAGTAGT
* *
15949316 TTTTTTAATAATTT-TTATTATTAGT
1 ATTTTT-AT-ATTTGTTATTAGTAGT
15949341 ATTTT
1 ATTTT
15949346 AAGTATAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 5 0.21
25 15 0.62
26 4 0.17
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (24 bp):
ATTTTTATATTTGTTATTAGTAGT
Found at i:15951845 original size:2 final size:2
Alignment explanation
Indices: 15951838--15951868 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15951828 TTGTAACCTA
15951838 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15951869 CATCATTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15952534 original size:20 final size:20
Alignment explanation
Indices: 15952510--15952554 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
15952500 AATTAATCTA
*
15952510 AAATAATAA-TTTATATTATT
1 AAATAAAAAGTTTAT-TTATT
*
15952530 TAATAAAAAGTTTATTTATT
1 AAATAAAAAGTTTATTTATT
15952550 AAATA
1 AAATA
15952555 TTTATAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AAATAAAAAGTTTATTTATT
Found at i:15956968 original size:17 final size:18
Alignment explanation
Indices: 15956942--15956975 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15956932 ATTGGTTGTA
15956942 TTATTCTTTT-TATTTAG
1 TTATTCTTTTATATTTAG
*
15956959 TTATTTTTTTATATTTA
1 TTATTCTTTTATATTTA
15956976 ATTAATTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTATTCTTTTATATTTAG
Found at i:15959518 original size:2 final size:2
Alignment explanation
Indices: 15959511--15959538 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15959501 AGCTCACTGT
15959511 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15959539 AAACCATCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15961821 original size:30 final size:30
Alignment explanation
Indices: 15961770--15961827 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15961760 TTATAGATTC
*
15961770 AAATAAATATTTAAAAATTTAACTAATTTG
1 AAATAAATATTTAAAAATTTAAATAATTTG
* *
15961800 AAATAAA-ATATTAAGATTTTAAATAATT
1 AAATAAATAT-TTAAAAATTTAAATAATT
15961828 ATTAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (30 bp):
AAATAAATATTTAAAAATTTAAATAATTTG
Found at i:15961823 original size:20 final size:18
Alignment explanation
Indices: 15961794--15961837 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
15961784 AAATTTAACT
*
15961794 AATTTGAAATAAAATATTA
1 AATTTTAAAT-AAATATTA
*
15961813 AGATTTTAAATAATTATTA
1 A-ATTTTAAATAAATATTA
15961832 AATTTT
1 AATTTT
15961838 TATTTAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 9 0.41
20 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
AATTTTAAATAAATATTA
Found at i:15969144 original size:18 final size:19
Alignment explanation
Indices: 15969117--15969153 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15969107 ATAGATTTAA
*
15969117 AAAAATTATTAAGGTTGTG
1 AAAAATTATTAAGATTGTG
15969136 AAAAA-TATTAAGATTGTG
1 AAAAATTATTAAGATTGTG
15969154 GTTTGAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (19 bp):
AAAAATTATTAAGATTGTG
Found at i:15979170 original size:18 final size:19
Alignment explanation
Indices: 15979125--15979170 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
15979115 AAATATTTTA
15979125 TTAATTAAAATAATAAAAAT
1 TTAATT-AAATAATAAAAAT
* *
15979145 ATATTTAAAT-ATAAAAAT
1 TTAATTAAATAATAAAAAT
15979163 TTAATTAA
1 TTAATTAA
15979171 GTTCGTGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 14 0.64
19 4 0.18
20 4 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAATTAAATAATAAAAAT
Found at i:15979955 original size:98 final size:98
Alignment explanation
Indices: 15979786--15979982 Score: 272
Period size: 98 Copynumber: 2.0 Consensus size: 98
15979776 CTCTTAAACA
* * * *
15979786 AATTTTGATTTGAGAAAAATTTTTGTCAAAAAAATCAATCTTGTGTGATATTATTATTTAGTTGT
1 AATTTTGATTTGAGAAAAATTTTTGTCAAAAAAATCAATCTTGTGTGATATTATCATTCAATTGC
15979851 AGGAATGATGAAGTTAGGCT-AAAGAGTAAAAAG
66 AGGAATGATGAAGTTAGGCTGAAAG-GTAAAAAG
* * *
15979884 AATTTTGATTTGAGAAAAATTTTTGAT-GAAAAAATCAATTTTGTGTTATATTATCATTCAATTG
1 AATTTTGATTTGAGAAAAATTTTTG-TCAAAAAAATCAATCTTGTGTGATATTATCATTCAATTG
* * *
15979948 CAGGAATGATTAAGTTGGGTTGAAAGGTAAAAAG
65 CAGGAATGATGAAGTTAGGCTGAAAGGTAAAAAG
15979982 A
1 A
15979983 CTTGATCTAT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
98 82 0.94
99 5 0.06
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37
Consensus pattern (98 bp):
AATTTTGATTTGAGAAAAATTTTTGTCAAAAAAATCAATCTTGTGTGATATTATCATTCAATTGC
AGGAATGATGAAGTTAGGCTGAAAGGTAAAAAG
Found at i:15982432 original size:18 final size:18
Alignment explanation
Indices: 15982411--15982460 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
15982401 TTGTTGTTCT
*
15982411 TTTTTTTGGTATTTTGTA
1 TTTTTTTGGTATTTTGCA
15982429 TTTTTTTGGTATTTTGCA
1 TTTTTTTGGTATTTTGCA
*
15982447 -TTATTTGGTATTTT
1 TTTTTTTGGTATTTT
15982461 TTTTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.12, C:0.02, G:0.16, T:0.70
Consensus pattern (18 bp):
TTTTTTTGGTATTTTGCA
Found at i:15982461 original size:18 final size:18
Alignment explanation
Indices: 15982415--15982460 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
15982405 TGTTCTTTTT
* *
15982415 TTTGGTATTTTGTATTTT
1 TTTGGTATTTTGCATTTA
15982433 TTTGGTATTTTGCA-TTA
1 TTTGGTATTTTGCATTTA
15982450 TTTGGTATTTT
1 TTTGGTATTTT
15982461 TTTTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.13, C:0.02, G:0.17, T:0.67
Consensus pattern (18 bp):
TTTGGTATTTTGCATTTA
Found at i:15982817 original size:34 final size:34
Alignment explanation
Indices: 15982668--15982818 Score: 92
Period size: 34 Copynumber: 4.5 Consensus size: 34
15982658 AAATGTATTT
* * * *
15982668 ATGTATTTTCAAAAATGAA-TTTTCAAAAATACA
1 ATGTATTCTCAAAAATAAATTTTTGAAAATTACA
* * * *
15982701 ATGTAAATCTCAAAAATGAATTTTTGAGAA-TGCAA
1 ATGT-ATTCTCAAAAATAAATTTTTGAAAATTAC-A
* * * * *
15982736 AT-AATTCTCGAAAATAAATTTTCGATAATTATA
1 ATGTATTCTCAAAAATAAATTTTTGAAAATTACA
* ** * *
15982769 TTACACTCTTAAAAATAAATTTTTGAAAATTACA
1 ATGTATTCTCAAAAATAAATTTTTGAAAATTACA
*
15982803 TTGTATTCTCAAAAAT
1 ATGTATTCTCAAAAAT
15982819 TTATTTCTAG
Statistics
Matches: 88, Mismatches: 25, Indels: 9
0.72 0.20 0.07
Matches are distributed among these distances:
33 26 0.30
34 52 0.59
35 10 0.11
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (34 bp):
ATGTATTCTCAAAAATAAATTTTTGAAAATTACA
Found at i:15984588 original size:14 final size:15
Alignment explanation
Indices: 15984571--15984600 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
15984561 AGAGAAAATG
15984571 AGAGATAAAAA-AAA
1 AGAGATAAAAAGAAA
15984585 AGAGATAAAAAGAAA
1 AGAGATAAAAAGAAA
15984600 A
1 A
15984601 TTCTGGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (15 bp):
AGAGATAAAAAGAAA
Found at i:15984822 original size:20 final size:20
Alignment explanation
Indices: 15984744--15984825 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 20
15984734 GGGAAAGGTA
15984744 GGGAGGGATTGGGTGTGGT-
1 GGGAGGGATTGGGTGTGGTG
* * *
15984763 --GAGGCATTGGGGGGAAGGTG
1 GGGAGGGATT-GGGTG-TGGTG
* * *
15984783 GAGAGGGATT-GATAGGGGTG
1 GGGAGGGATTGGGT-GTGGTG
15984803 GGGAGGGATTGGGTGTGGTG
1 GGGAGGGATTGGGTGTGGTG
15984823 GGG
1 GGG
15984826 TGTTTGAAGG
Statistics
Matches: 46, Mismatches: 10, Indels: 13
0.67 0.14 0.19
Matches are distributed among these distances:
17 7 0.15
18 4 0.09
19 3 0.07
20 22 0.48
21 3 0.07
22 7 0.15
ACGTcount: A:0.16, C:0.01, G:0.62, T:0.21
Consensus pattern (20 bp):
GGGAGGGATTGGGTGTGGTG
Found at i:15985344 original size:26 final size:26
Alignment explanation
Indices: 15985316--15985364 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
15985306 TAAAAAATAA
*
15985316 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
15985341 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
15985365 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:15988011 original size:156 final size:154
Alignment explanation
Indices: 15987814--15988121 Score: 449
Period size: 156 Copynumber: 2.0 Consensus size: 154
15987804 TCGTCTTCAC
* * *
15987814 TACTATAAATTAATAACAAAATAATAGCAAAGACAAGTGAATCGATGAAAAATAGATTTTTAACT
1 TACTATAAATTAATAACAAAACAATAACAAAGACAAGTGAATCGATGAAAAATA-AATTTTAACT
*
15987879 AAACATTTGTTTTCATAATTTTTTTTCTTAATTTTAT-TAATA-AATATATACATAATACAATAT
65 AAACATTTGTTTTCATAATATTTTTTCTTAATTTTATGT-ATAGAATATATACATAATA-AA-AT
* * * *
15987942 GTGTATGTAAATGATTGTATATTTGCAT
127 GTGCATATAAATCATTGCATATTTGCAT
* * *
15987970 TACTATAAATTGATAACTAAACAATAACAAAGATAAGTGAATCGATGAAAAATAAATTTTAACTA
1 TACTATAAATTAATAACAAAACAATAACAAAGACAAGTGAATCGATGAAAAATAAATTTTAACTA
* *
15988035 AACATTTTTTTTCATAATATTTTTTCTTAATTTTATGTATAGAATATATACATAATATAATGTGC
66 AACATTTGTTTTCATAATATTTTTTCTTAATTTTATGTATAGAATATATACATAATAAAATGTGC
15988100 ATATAAATCATTGCATATTTGC
131 ATATAAATCATTGCATATTTGC
15988122 GTATGTATTT
Statistics
Matches: 137, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
154 24 0.18
155 48 0.35
156 65 0.47
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.40
Consensus pattern (154 bp):
TACTATAAATTAATAACAAAACAATAACAAAGACAAGTGAATCGATGAAAAATAAATTTTAACTA
AACATTTGTTTTCATAATATTTTTTCTTAATTTTATGTATAGAATATATACATAATAAAATGTGC
ATATAAATCATTGCATATTTGCAT
Found at i:15989925 original size:12 final size:12
Alignment explanation
Indices: 15989908--15989932 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15989898 CTATCTTTTT
15989908 CTGCTACAGTGA
1 CTGCTACAGTGA
15989920 CTGCTACAGTGA
1 CTGCTACAGTGA
15989932 C
1 C
15989933 GTCTTATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (12 bp):
CTGCTACAGTGA
Found at i:15991281 original size:13 final size:13
Alignment explanation
Indices: 15991263--15991288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15991253 TCTGTTATAA
15991263 TGATTGCTACAGT
1 TGATTGCTACAGT
15991276 TGATTGCTACAGT
1 TGATTGCTACAGT
15991289 ATTTTCTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TGATTGCTACAGT
Found at i:15995249 original size:13 final size:13
Alignment explanation
Indices: 15995222--15995257 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
15995212 CTGTCTTTTT
*
15995222 CTGCTATAG-TGA
1 CTGCTACAGTTGA
15995234 CTGCTACAGTTGA
1 CTGCTACAGTTGA
15995247 CTGCTACAGTT
1 CTGCTACAGTT
15995258 TTTTCTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (13 bp):
CTGCTACAGTTGA
Found at i:15996207 original size:3 final size:3
Alignment explanation
Indices: 15996194--15996223 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
15996184 AAGAAAGAGT
*
15996194 AGA AGA GGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15996224 GGACTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:15996985 original size:12 final size:12
Alignment explanation
Indices: 15996970--15997008 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
15996960 TTCTTCTTCC
15996970 TCTTCTACTCTT
1 TCTTCTACTCTT
15996982 TCTTCT--TC-T
1 TCTTCTACTCTT
15996991 TCTTCTACTCTT
1 TCTTCTACTCTT
15997003 TCTTCT
1 TCTTCT
15997009 TCACGATCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 7 0.29
10 2 0.08
11 2 0.08
12 13 0.54
ACGTcount: A:0.05, C:0.33, G:0.00, T:0.62
Consensus pattern (12 bp):
TCTTCTACTCTT
Found at i:15996985 original size:21 final size:21
Alignment explanation
Indices: 15996959--15997010 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
15996949 AAGTTCTCTT
15996959 TTTCTTCTTCCTCTTCTACTC
1 TTTCTTCTTCCTCTTCTACTC
*
15996980 TTTCTTCTTCTTCTTCTACTC
1 TTTCTTCTTCCTCTTCTACTC
15997001 TTTCTTCTTC
1 TTTCTTCTTC
15997011 ACGATCCCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTCTTCTTCCTCTTCTACTC
Found at i:16012154 original size:21 final size:20
Alignment explanation
Indices: 16012128--16012182 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
16012118 GTTATTGGTC
16012128 CTTTTTTTGCTTTTTTTTCAA
1 CTTTTTTTGCTTTTTTTT-AA
*
16012149 CTTTTTTTTG-TTGTTTTTTTA
1 C-TTTTTTTGCTT-TTTTTTAA
16012170 CTTTTTTT-CTTTT
1 CTTTTTTTGCTTTT
16012183 ATAAAAGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
19 2 0.07
20 9 0.30
21 5 0.17
22 14 0.47
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.78
Consensus pattern (20 bp):
CTTTTTTTGCTTTTTTTTAA
Found at i:16021545 original size:21 final size:22
Alignment explanation
Indices: 16021510--16021560 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
16021500 TTCATAACAC
* *
16021510 TTAAATTCAATTTAATTTTATG
1 TTAAATTCAATTTAATTATATA
*
16021532 TTAAATT-TATTTAATTATATA
1 TTAAATTCAATTTAATTATATA
16021553 TT-AATTCA
1 TTAAATTCA
16021561 TTGATTGCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 4 0.17
21 13 0.54
22 7 0.29
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (22 bp):
TTAAATTCAATTTAATTATATA
Found at i:16032992 original size:18 final size:18
Alignment explanation
Indices: 16032969--16033005 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16032959 CCTGATGGTC
16032969 AACATCCCATATAATTTT
1 AACATCCCATATAATTTT
16032987 AACATCCCATATAATTTT
1 AACATCCCATATAATTTT
16033005 A
1 A
16033006 TCTTCACGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (18 bp):
AACATCCCATATAATTTT
Found at i:16038104 original size:37 final size:37
Alignment explanation
Indices: 16038025--16038105 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
16038015 ATATGATTAG
*
16038025 GAATGATGTATTCACTCTGTCATGACTAAGTAAAGAT
1 GAATGATGTATTCACTCTATCATGACTAAGTAAAGAT
* ** *
16038062 AAATGATGTATTGGCTCTATCATGACTAA-TAATGTAT
1 GAATGATGTATTCACTCTATCATGACTAAGTAAAG-AT
16038099 GAATGAT
1 GAATGAT
16038106 ATACCATCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (37 bp):
GAATGATGTATTCACTCTATCATGACTAAGTAAAGAT
Found at i:16038293 original size:37 final size:38
Alignment explanation
Indices: 16038229--16038300 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
16038219 CTGCATCATG
* *
16038229 ATGTTTTAACATTAATCTGAGTAAATTTG-TAATGCGA
1 ATGTTTTAACAATAATCTAAGTAAATTTGATAATGCGA
* *
16038266 ATGTTTTAACAATAATGTAAGTGAATTTGATAATG
1 ATGTTTTAACAATAATCTAAGTAAATTTGATAATG
16038301 TGCAACAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 25 0.83
38 5 0.17
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (38 bp):
ATGTTTTAACAATAATCTAAGTAAATTTGATAATGCGA
Found at i:16043720 original size:13 final size:14
Alignment explanation
Indices: 16043684--16043712 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16043674 AAACCTGCAA
16043684 GATCAAAACACCAT
1 GATCAAAACACCAT
16043698 GATCAAAACACCAT
1 GATCAAAACACCAT
16043712 G
1 G
16043713 TTAAAACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.28, G:0.10, T:0.14
Consensus pattern (14 bp):
GATCAAAACACCAT
Found at i:16043987 original size:30 final size:30
Alignment explanation
Indices: 16043901--16043989 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 30
16043891 GTCACACCTT
* *
16043901 TCAAAGTGACCATAGTAATAGCCATACCAC
1 TCAAAATGACCATAGTAATAGCCACACCAC
* * * * * *
16043931 TTACAATGACTAGAGCAACAGCCACACCAC
1 TCAAAATGACCATAGTAATAGCCACACCAC
* *
16043961 TCAAAATGACCATAGTAGTAGTCACACCA
1 TCAAAATGACCATAGTAATAGCCACACCA
16043990 ACCACAATCT
Statistics
Matches: 43, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.18
Consensus pattern (30 bp):
TCAAAATGACCATAGTAATAGCCACACCAC
Found at i:16047253 original size:19 final size:19
Alignment explanation
Indices: 16047215--16047252 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
16047205 ATTCTGGGTC
*
16047215 TATAATCAGTCTTTTATTT
1 TATAATCAGACTTTTATTT
16047234 TATAAT-AGACTTTTATTT
1 TATAATCAGACTTTTATTT
16047252 T
1 T
16047253 TCTACCAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (19 bp):
TATAATCAGACTTTTATTT
Found at i:16048671 original size:9 final size:9
Alignment explanation
Indices: 16048642--16048686 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
16048632 TAACAATAAT
*
16048642 AATAGCAAC
1 AATAACAAC
*
16048651 AACAACAAC
1 AATAACAAC
16048660 AATAACAAC
1 AATAACAAC
* *
16048669 AATAATAAT
1 AATAACAAC
16048678 AATAACAAC
1 AATAACAAC
16048687 TTACACAATA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.64, C:0.20, G:0.02, T:0.13
Consensus pattern (9 bp):
AATAACAAC
Found at i:16053288 original size:23 final size:23
Alignment explanation
Indices: 16053261--16053307 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
16053251 GCAAAAAATA
16053261 ATTGTAGGCCTATAATGACCAAT
1 ATTGTAGGCCTATAATGACCAAT
*
16053284 ATTGTAGGCCTATAGTGACCAAT
1 ATTGTAGGCCTATAATGACCAAT
16053307 A
1 A
16053308 AATATTCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (23 bp):
ATTGTAGGCCTATAATGACCAAT
Found at i:16058241 original size:37 final size:37
Alignment explanation
Indices: 16058183--16058258 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
16058173 CATTCTCTCT
* *
16058183 GGGGTGTTTAAAGGAATAATAAGTTAAGAAATAACAA
1 GGGGTGTCTAAAGGAATAATAAGTTAACAAATAACAA
*
16058220 GGGGTGTCTACAGGAGA-AATAAGTTAACAAATAACAA
1 GGGGTGTCTAAAGGA-ATAATAAGTTAACAAATAACAA
16058257 GG
1 GG
16058259 CAAAAAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 34 0.97
38 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.26, T:0.21
Consensus pattern (37 bp):
GGGGTGTCTAAAGGAATAATAAGTTAACAAATAACAA
Found at i:16059864 original size:2 final size:2
Alignment explanation
Indices: 16059857--16059891 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
16059847 TCGATCTCAT
16059857 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16059892 TTATTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16059896 original size:4 final size:4
Alignment explanation
Indices: 16059889--16059915 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
16059879 TATATATATA
16059889 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
16059916 AAAAGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:16076393 original size:218 final size:215
Alignment explanation
Indices: 16076030--16076454 Score: 511
Period size: 218 Copynumber: 2.0 Consensus size: 215
16076020 TTACATTAAT
* *
16076030 ACTTATTTTTTGTTTGGAATTATTTTTTATTTATAATAATTTTTTTACGTTATCAATTTAATTAT
1 ACTTATTTTTTGTTTGGAATTATTTTTTATTTATAATAATTTTTTTACATTATCAACTTAATTAT
* * * * * *
16076095 TTACATTATAATAAATATGTTTTTATACTTACTTTTATTTTTTATTATGTTTAAAATTATCATAA
66 TTACACTAAAATAAATATGTTTTTACACTTACTTTTATATTTCATTACGTTTAAAATTATCATAA
* * * * * *
16076160 CTTTTTTATGGTGTTACAATACTTCTAATATA-TTTATGTCAAAATGATACAAATTTCATGACTA
131 CTTTTTTAAGGTGTTACAATACTTATAACATATTTTA-CTCAAAATGATACAAATTTCACGAATA
16076224 TTCTCACATTTTTACGTAAAC
195 TTCTCACATTTTTACGTAAAC
*
16076245 ACTTATTTTTT-TATT-GAATTATTTTTTTATTTATAATAATAATTTTTTTATATTATCAACTTA
1 ACTTATTTTTTGT-TTGGAATTA-TTTTTTA-TT-T-ATAATAATTTTTTTACATTATCAACTTA
* * *
16076308 ATTATTTACGCTAAAAT-AATATTTTTTTACACTTA-TTCTTATATTTCATT-CGTTTAAATTTA
61 ATTATTTACACTAAAATAAATATGTTTTTACACTTACTT-TTATATTTCATTACGTTTAAAATTA
* * * * * *
16076370 TTATAACTTTTCTTTAAGGTGTTACAATAGTTATAACATATTTTACTCTAAATTATACTAATTTT
125 TCATAAC-TTT-TTTAAGGTGTTACAATACTTATAACATATTTTACTCAAAATGATACAAATTTC
16076435 ACGAATATTCTCACATTTTT
188 ACGAATATTCTCACATTTTT
16076455 TGTTACAATA
Statistics
Matches: 177, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
214 7 0.04
215 20 0.11
216 20 0.11
217 30 0.17
218 96 0.54
219 4 0.02
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (215 bp):
ACTTATTTTTTGTTTGGAATTATTTTTTATTTATAATAATTTTTTTACATTATCAACTTAATTAT
TTACACTAAAATAAATATGTTTTTACACTTACTTTTATATTTCATTACGTTTAAAATTATCATAA
CTTTTTTAAGGTGTTACAATACTTATAACATATTTTACTCAAAATGATACAAATTTCACGAATAT
TCTCACATTTTTACGTAAAC
Found at i:16076568 original size:20 final size:22
Alignment explanation
Indices: 16076545--16076598 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
16076535 TTTTAGGTTT
16076545 ATAATTATTTTTTAT-TTAT-A
1 ATAATTATTTTTTATATTATCA
*
16076565 ATAATAATTTTTTATATTATCA
1 ATAATTATTTTTTATATTATCA
16076587 ATTTAATTATTT
1 A--TAATTATTT
16076599 ACGTTATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 14 0.50
21 4 0.14
22 2 0.07
24 8 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
ATAATTATTTTTTATATTATCA
Found at i:16076782 original size:18 final size:17
Alignment explanation
Indices: 16076761--16076795 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16076751 TTTTTTGATT
*
16076761 TAAAATTACTTTTATTTA
1 TAAAATTAATTTT-TTTA
16076779 TAAAATTAATTTTTTTA
1 TAAAATTAATTTTTTTA
16076796 CATTATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TAAAATTAATTTTTTTA
Found at i:16077781 original size:22 final size:21
Alignment explanation
Indices: 16077745--16077789 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
16077735 TTATATCTTT
** *
16077745 TTACATTTATTATTACTTTTAA
1 TTACATTTAGAATTA-TTATAA
16077767 TTACATTTAGAATTATTATAA
1 TTACATTTAGAATTATTATAA
16077788 TT
1 TT
16077790 TTTTTCTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (21 bp):
TTACATTTAGAATTATTATAA
Found at i:16077909 original size:924 final size:925
Alignment explanation
Indices: 16076521--16078887 Score: 2335
Period size: 924 Copynumber: 2.5 Consensus size: 925
16076511 TTACTTGTTT
* * *
16076521 ACATTAACACTTATTTT-TAGGTTTATAATTATTTTTTATTTATAATAATAA-TTTTTTATATTA
1 ACATTAACACTT-TTTTCT-TGTTTAGAA-T-TTTTTTATTTATAATAATAATTTTTTTATGTTA
* * * *
16076584 TCAATTTAATTATTTACGTTATAATAAAATATGTTATGCTTGTTCTTATATTTTATTATATTCAA
62 TCAA-TT--TTATTTACGTTATAATAAAATCTGTTACGCTTGTTCTTATCTTTTATTATATTTAA
* * *
16076649 AATTATCACAATTTTTTCTTAA-TTATTACAATACTTTAAACATATTTTAT-GTCAAAT-TATAC
124 AATTATCACAATTTTTTCTTAAGGTATTATAATACTTTTAACATATTTT-TCGTCAAATATAT-C
* * * * * * * * *
16076711 TAATTGTGTAATTATTTTCACCATTTTACTTTAAAACTTATTTTTTGATTTAAAATTACTTTTAT
187 TAATTTTATGATTATTCTCA-TATTTTACATTAACACTTATTTTTT-AATT-AAATTATTTTTAT
* * * *
16076776 TTATAAAATTAATTTTTTTACATTATAAATTTATTACG-------TATCTTTTTACATTTGTTGT
249 TTATAATACTAATTTTTTTACATTATCAATTTATTACGTTTAATATATCTTTTTACATTTATTGT
* * *
16076834 TACTTTTCATTACATTTAAAATTATTACAATTTTTTTGTTAAGATGTATCGATACTTCTAACCAT
314 TACTTTTCATTACATTTAGAATTATTATAATTTTTTTATTAAGATGTAT-GATACTTCTAACCAT
* * * *
16076899 TTTACGTAAAATAATACAAATTTTACGATTATTCTCACCATTTTATGTTAACTCTTATC-TTTTG
378 TTTACGTAAAATAATACAAATTTTACAATTATTCTTATCATTTTACGTTAACTCTTATCTTTTTG
*
16076963 TTT-GAATTATTTTTTATTTGTAATAATATTTTTTTATATTGCCAACTTAATTATTTATGTTATA
443 TTTAAAATTA-TTTTTATTTGTAATAATATTTTTTTATATTGCCAACTTAATTATTTATGTTATA
** *
16077027 ATAATA-TCTTTTTATGTTTATTGTTACCT-TTCATTACATTT--AAGATTATCATAACTTTTTC
507 ATAATATTCTTTTTACATTTATTATTACCTCTT-ATTACATTTAGAAG-TT-TCATAACTTTTT-
* * * * * * *
16077088 TT-AAAGGTGTTACAATACTTATAAATATTTTACATTAATTAATA-TCAATTTTACGATTATTTT
568 TTAAAAGGT-TTACAACACTTATAAACATTTTACATCAAATAATACT-AATTTTACAATTACTCT
* * *
16077151 CACATTTTTTATA-TTA-A-TATTTTTTTATTTATAA-T-TTAATTTATTTGTAATAATAATTCT
631 CACATTTTTTATACTAACACTATTTTTTTATTTAGAATTATTAA-TTATTTATAATAATAATT-T
** * * * *
16077211 TTTATGTTGGCC-AAATTATTATTTATGTTATAATAATA-ATTTTTTATACTTATT-TCTATTTT
694 TTTACATT-GCCAAAAATATTATTTATGTTACAATAATATA-TTTTTACACTTGTTCT-TATTTT
* * * * * *
16077273 TTATTACGTTTACAA-TTATTACAACTTTTTGTTAAAGTGTTACGATACTTTTAATCTC-ATTTA
756 TTATTACGTTTA-AATTTATCACAACTCTTAGTTAAAGTGTTACGATAATTCTAA-CCCAATTTA
* * ** * *
16077336 CGTCAAATGATACTAATTTTTTAAATATTATTATCCATTT-AGGTTACAACA-TTGTAACATATT
819 CGTCAAATGACACCAATTTTACAAATATTATTA-CCATTTAAGGTTACAACACTTCTAACATACT
* *
16077399 TTACACCAAATGATTTCAATTTTT-TAATTA-TTATCACATTTTC
883 TTACACCAAATGA-TCCAATTTTTACAATTACTT-TCACATTTTC
* *
16077442 ACGTTAACA-TGTTTTTCTTGTTTAGAATTTTTTTATTTATAATAATAATTTTTTTATGTTGTC-
1 ACATTAACACT-TTTTTCTTGTTTAGAATTTTTTTATTTATAATAATAATTTTTTTATGTTATCA
* * *
16077505 ATTTCTATTTACATTAAAATAAAATCTGTTACGCTTATTCTTATCTTTTATTATATTTAAAATTA
65 ATTT-TATTTACGTTATAATAAAATCTGTTACGCTTGTTCTTATCTTTTATTATATTTAAAATTA
* * *
16077570 TCACAAGTTTTTCTTAAGGTATTATAATACTTTTAATATATTTTTCATCAAATGATATC-AATTT
129 TCACAATTTTTTCTTAAGGTATTATAATACTTTTAACATATTTTTCGTCAAAT-ATATCTAATTT
*
16077634 TATGATTATTCTCATATTTTTACATTAACACTTATTTTTTAATTGAATTATTTTTATTTATAATA
193 TATGATTATTCTCATA-TTTTACATTAACACTTATTTTTTAATTAAATTATTTTTATTTATAATA
*
16077699 CTAATTTTTTTACATTATCAATTTATTACGTTTCAATTATATCTTTTTACATTTATTATTACTTT
257 CTAATTTTTTTACATTATCAATTTATTACGTTT-AA-TATATCTTTTTACATTTATTGTTACTTT
* * * * * * *
16077764 TAATTACATTTAGAATTATTATAATTTTTTTCTTAATATGTCATGATATTTTTAA-CAGTATTAT
320 TCATTACATTTAGAATTATTATAATTTTTTTATTAAGATGT-ATGATACTTCTAACCA-TTTTAC
* * * * * *
16077828 GTTAAATAATATC-AATTTTACAATTATTTTTATCGTTTTACGTTAACTCCTAACTTTTTATTTA
383 GTAAAATAATA-CAAATTTTACAATTATTCTTATCATTTTACGTTAACTCTTATCTTTTTGTTTA
* * *
16077892 AAATTATTTTT-TTTGTAATAATAGTTCTTTATATTGCCAACTTAATTATTTATGTTGTAATAAT
447 AAATTATTTTTATTTGTAATAATATTTTTTTATATTGCCAACTTAATTATTTATGTTATAATAAT
* * ** *
16077956 ATTTTTTTTACATTTTTTATTACCTCTTATTATGTTTAGAAGTTTTATAACTTTTTTTAAAAAGG
512 ATTCTTTTTACATTTATTATTACCTCTTATTACATTTAGAAGTTTCATAACTTTTTTT-AAAAGG
** * * * * * **
16078021 TTTACGGCACTTCTTACCATTTTACATCAAATAATACTATTTTTATAATTACTCTCATTTTTTTT
576 TTTACAACACTTATAAACATTTTACATCAAATAATACTAATTTTACAATTACTCTCACATTTTTT
16078086 ATACTAACACTTATTTTTTTATTTAGAATTATTAATTATTTATAATAATAATTTTTTACATTGCC
641 ATACTAACAC-TATTTTTTTATTTAGAATTATTAATTATTTATAATAATAATTTTTTACATTGCC
*
16078151 AAAAATATTATTTATGTTACAATAATATATTTTTACACTTGTTCTTATTTTTTATTATGTTTAAA
705 AAAAATATTATTTATGTTACAATAATATATTTTTACACTTGTTCTTATTTTTTATTACGTTTAAA
* ** *
16078216 TTTATCATAACTCTTAGTTAGGGTGTTACGATAATTCTAACCCAATTTATGTCAAATGACACCAA
770 TTTATCACAACTCTTAGTTAAAGTGTTACGATAATTCTAACCCAATTTACGTCAAATGACACCAA
* * ** * ** * ** *
16078281 TTTTACAATTATTTTTACTTTTTAATGTTATGACACTTCTAATATACTTTATGCCAAATGATCCT
835 TTTTACAAATATTATTACCATTTAAGGTTACAACACTTCTAACATACTTTACACCAAATGATCCA
* *
16078346 ATTTTTACAATTACTTTCACTTTTTT
900 ATTTTTACAATTACTTTCACATTTTC
* *
16078372 TCATTAACACTTTTTTTTTGTTTAGAATTATTTATTATTTATAATAATAATTTTTTTTATGTTAT
1 ACATTAACACTTTTTTCTTGTTTAGAATT-TTT-TTATTTATAATAATAA-TTTTTTTATGTTAT
* * * * *
16078437 CAACTTAATTA-TTACGTTATAATAATAA-CTTTTACACTTGTTCTTGTCTTTTAATATGTTTAA
63 CAA-TT--TTATTTACGTTATAATAA-AATCTGTTACGCTTGTTCTTATCTTTTATTATATTTAA
* * * * * *
16078500 AATTATTATAATTTTTTCTGAAGGTATTATGATA-TTTCTACCAT-TTTTACGTCAAA-ATATAC
124 AATTATCACAATTTTTTCTTAAGGTATTATAATACTTT-TAACATATTTTTCGTCAAATATAT-C
* * * **
16078562 TACTTTTATGATTATTCTTATATTTTACATTAACACCTATTTTTTTGTGTAATATTATTTTTAAT
187 TAATTTTATGATTATTCTCATATTTTACATTAACACTTATTTTTTAAT-TAA-ATTATTTTT-AT
*** * * *
16078627 TTATAATACTAATTTTTTTTTGTTACCAATTTAATTATTTACATTTTAATAATATTTTTTTACAT
249 TTATAATACTAATTTTTTTACATTATCAA--T--TTA-TTAC-GTTTAAT-ATATCTTTTTACAT
* * ** * *
16078692 TTATTGTTAACTTTTCATTACGTTTAGAATTATCATAA-CATTTTATTAAGGTGTAACGATACTT
307 TTATTGTT-ACTTTTCATTACATTTAGAATTATTATAATTTTTTTATTAAGATGT-ATGATACTT
* * * * * ** * *
16078756 GTAACCATTTTACATCAAATAATACTAATTTTA-AGACTATTCTTATTTTTTTACATTAACTTTT
370 CTAACCATTTTACGTAAAATAATACAAATTTTACA-ATTATTCTTATCATTTTACGTTAACTCTT
* * *
16078820 ATTTTTTTGTTTAAAATTATTATTTTTATTTGTAATAATATTTTTTTATATTACGAACTTAATTA
434 ATCTTTTTGTTT-AAA--ATTATTTTTATTTGTAATAATATTTTTTTATATTGCCAACTTAATTA
16078885 TTT
496 TTT
16078888 TTGTCACAAT
Statistics
Matches: 1186, Mismatches: 185, Indels: 126
0.79 0.12 0.08
Matches are distributed among these distances:
915 47 0.04
916 74 0.06
917 66 0.06
918 22 0.02
919 16 0.01
920 12 0.01
921 10 0.01
923 2 0.00
924 169 0.14
925 100 0.08
926 18 0.02
927 4 0.00
928 11 0.01
929 154 0.13
930 77 0.06
931 10 0.01
932 20 0.02
933 38 0.03
934 35 0.03
935 85 0.07
936 31 0.03
937 1 0.00
938 1 0.00
940 6 0.01
941 98 0.08
942 34 0.03
944 9 0.01
945 36 0.03
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (925 bp):
ACATTAACACTTTTTTCTTGTTTAGAATTTTTTTATTTATAATAATAATTTTTTTATGTTATCAA
TTTTATTTACGTTATAATAAAATCTGTTACGCTTGTTCTTATCTTTTATTATATTTAAAATTATC
ACAATTTTTTCTTAAGGTATTATAATACTTTTAACATATTTTTCGTCAAATATATCTAATTTTAT
GATTATTCTCATATTTTACATTAACACTTATTTTTTAATTAAATTATTTTTATTTATAATACTAA
TTTTTTTACATTATCAATTTATTACGTTTAATATATCTTTTTACATTTATTGTTACTTTTCATTA
CATTTAGAATTATTATAATTTTTTTATTAAGATGTATGATACTTCTAACCATTTTACGTAAAATA
ATACAAATTTTACAATTATTCTTATCATTTTACGTTAACTCTTATCTTTTTGTTTAAAATTATTT
TTATTTGTAATAATATTTTTTTATATTGCCAACTTAATTATTTATGTTATAATAATATTCTTTTT
ACATTTATTATTACCTCTTATTACATTTAGAAGTTTCATAACTTTTTTTAAAAGGTTTACAACAC
TTATAAACATTTTACATCAAATAATACTAATTTTACAATTACTCTCACATTTTTTATACTAACAC
TATTTTTTTATTTAGAATTATTAATTATTTATAATAATAATTTTTTACATTGCCAAAAATATTAT
TTATGTTACAATAATATATTTTTACACTTGTTCTTATTTTTTATTACGTTTAAATTTATCACAAC
TCTTAGTTAAAGTGTTACGATAATTCTAACCCAATTTACGTCAAATGACACCAATTTTACAAATA
TTATTACCATTTAAGGTTACAACACTTCTAACATACTTTACACCAAATGATCCAATTTTTACAAT
TACTTTCACATTTTC
Found at i:16078429 original size:40 final size:43
Alignment explanation
Indices: 16078382--16078469 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
16078372 TCATTAACAC
* *
16078382 TTTTTTTT-TGTT-T-AGAATTATTTATTA-TTTATAATAATAA
1 TTTTTTTTATGTTATCA-AATTAATTATTACGTTATAATAATAA
*
16078422 TTTTTTTTATGTTATCAACTTAATTATTACGTTATAATAATAA
1 TTTTTTTTATGTTATCAAATTAATTATTACGTTATAATAATAA
*
16078465 CTTTT
1 TTTTT
16078470 ACACTTGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 8 0.20
41 4 0.10
42 11 0.28
43 17 0.43
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (43 bp):
TTTTTTTTATGTTATCAAATTAATTATTACGTTATAATAATAA
Found at i:16079078 original size:219 final size:219
Alignment explanation
Indices: 16078696--16079107 Score: 460
Period size: 217 Copynumber: 1.9 Consensus size: 219
16078686 TTACATTTAT
* * *
16078696 TGTTAACTTTTCATTACGTTTAGAATTATCATAACATTTTATTAAGGTGTAACGATACTTGTAAC
1 TGTTAACTTTTCATTACGTTTAGAACTATCACAACATTTTATTAAGGTATAACGATACTTGTAAC
* * * ** * *
16078761 CATTTTACATCAAATAATACTAATTTTAAGACTATTCTTATTTTTTTACATTAACTTTTATTTTT
66 CATTTTACATCAAATAACACTAATTTTAAAACTATTCTCACATTTTTACATTAACTCTTATTTTA
* * ** * *
16078826 TTGTTTAAAATTATTATTTTTATTTGTAATAAT-ATTTTTTTATATT-ACGAACTTAATTATTTT
131 TTGTTTAAAATTATTACTTTGATTTAAAATAATAATTCTTTTACATTGAC-AACTTAATTATTTT
16078889 TGTCACAATAATTTTTTATGCATGC
195 TGTCACAATAATTTTTTATGCATGC
* * * * * *
16078914 TGTT-ACTTTTCATTACGTTTATAACTATCACAA-TTATTTGTTAGGGTATTACGATACTTTTAA
1 TGTTAACTTTTCATTACGTTTAGAACTATCACAACAT-TTTATTAAGGTATAACGATACTTGTAA
* * * *
16078977 CTTATTTTACTTCAAATAACACTAATTTTAATAATTATTCTCACATTTTTACGTTAA-TACTTA-
65 C-CATTTTACATCAAATAACACTAATTTTAA-AACTATTCTCACATTTTTACATTAACT-CTTAT
* *
16079040 TTTATTGATTTACAATTATT-CTTTGAGTTTAAAATAATAATTCTTTTACATTGTCAACTTAATT
127 TTTATTG-TTTAAAATTATTACTTTGA-TTTAAAATAATAATTCTTTTACATTGACAACTTAATT
16079104 ATTT
190 ATTT
16079108 ATATTACAAT
Statistics
Matches: 158, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
216 1 0.01
217 49 0.31
218 41 0.26
219 42 0.27
220 24 0.15
221 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (219 bp):
TGTTAACTTTTCATTACGTTTAGAACTATCACAACATTTTATTAAGGTATAACGATACTTGTAAC
CATTTTACATCAAATAACACTAATTTTAAAACTATTCTCACATTTTTACATTAACTCTTATTTTA
TTGTTTAAAATTATTACTTTGATTTAAAATAATAATTCTTTTACATTGACAACTTAATTATTTTT
GTCACAATAATTTTTTATGCATGC
Found at i:16081354 original size:3 final size:3
Alignment explanation
Indices: 16081346--16081373 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16081336 TATAAATAGG
16081346 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16081374 CTTTTTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:16081555 original size:30 final size:30
Alignment explanation
Indices: 16081521--16081700 Score: 111
Period size: 30 Copynumber: 6.1 Consensus size: 30
16081511 ATAAACCTTT
*
16081521 AAATTGAAACTCTAAATCCTTCAAACCCTA
1 AAATTGAAACTCTAAACCCTTCAAACCCTA
* *
16081551 AAATT-AAATTATAAACCCTTCAAACCCTAA
1 AAATTGAAACTCTAAACCCTTCAAACCCT-A
** * *
16081581 AAATCCAAACCCTAAA-CCTCCAAACCCTA
1 AAATTGAAACTCTAAACCCTTCAAACCCTA
* ** * *
16081610 AAATT--AAGTC-ACAAATCTCCAAACTCTA
1 AAATTGAAACTCTA-AACCCTTCAAACCCTA
** * * ** *
16081638 AAAACGAAACCCTAAGCCCTTTGAGCCCTA
1 AAATTGAAACTCTAAACCCTTCAAACCCTA
*
16081668 AAAATGAAAC-CTTAAACCCTTCAAACCCTA
1 AAATTGAAACTC-TAAACCCTTCAAACCCTA
16081698 AAA
1 AAA
16081701 AATTCTAAAA
Statistics
Matches: 112, Mismatches: 30, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
26 1 0.01
27 5 0.04
28 14 0.12
29 26 0.23
30 58 0.52
31 8 0.07
ACGTcount: A:0.46, C:0.29, G:0.04, T:0.21
Consensus pattern (30 bp):
AAATTGAAACTCTAAACCCTTCAAACCCTA
Found at i:16081591 original size:15 final size:15
Alignment explanation
Indices: 16081571--16081612 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
16081561 ATAAACCCTT
16081571 CAAACCCTAAAAATC
1 CAAACCCTAAAAATC
**
16081586 CAAACCCTAAACCTC
1 CAAACCCTAAAAATC
16081601 CAAACCCTAAAA
1 CAAACCCTAAAA
16081613 TTAAGTCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (15 bp):
CAAACCCTAAAAATC
Found at i:16081746 original size:22 final size:24
Alignment explanation
Indices: 16081690--16081746 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
16081680 TAAACCCTTC
*
16081690 AAACCCTAAAAAATTCTAAAACCTCT
1 AAACCCT--AAAATTCTAAAACCTCA
16081716 AAACCCTAAAA-TCTAAAA-CTCA
1 AAACCCTAAAATTCTAAAACCTCA
*
16081738 AAACTCTAA
1 AAACCCTAA
16081747 TCCCAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 11 0.38
23 7 0.24
24 4 0.14
26 7 0.24
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (24 bp):
AAACCCTAAAATTCTAAAACCTCA
Found at i:16081766 original size:14 final size:14
Alignment explanation
Indices: 16081749--16081778 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16081739 AACTCTAATC
16081749 CCAAAATCCAAAAT
1 CCAAAATCCAAAAT
16081763 CCAAAATCCAAAAT
1 CCAAAATCCAAAAT
16081777 CC
1 CC
16081779 TAAACCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.13
Consensus pattern (14 bp):
CCAAAATCCAAAAT
Found at i:16082940 original size:16 final size:18
Alignment explanation
Indices: 16082913--16082951 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
16082903 CTCTCACCTA
*
16082913 TTTATGTTATTTG-TTTT
1 TTTATGTTATTTGATATT
16082930 TTTAT-TTATTTGATATT
1 TTTATGTTATTTGATATT
16082947 TTTAT
1 TTTAT
16082952 ATTTTTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (18 bp):
TTTATGTTATTTGATATT
Found at i:16088017 original size:21 final size:20
Alignment explanation
Indices: 16087975--16088019 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
16087965 AAACTTGAAT
*
16087975 TTTTCGAAGTATTTTTTCAA
1 TTTTCGAAGTATTTTTCCAA
16087995 TTTTCGATAG-ATTTTTCCAA
1 TTTTCGA-AGTATTTTTCCAA
*
16088015 ATTTC
1 TTTTC
16088020 AGTAAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.53
Consensus pattern (20 bp):
TTTTCGAAGTATTTTTCCAA
Found at i:16093878 original size:41 final size:41
Alignment explanation
Indices: 16093763--16093943 Score: 218
Period size: 41 Copynumber: 4.4 Consensus size: 41
16093753 GATTATCAAT
* * * *
16093763 GAGCATTTTATTTTTTCAAAGTTGTGGTGCCTTTGTTTAGAG
1 GAGCAATTTATTTTTT-AAAGTTATGGTGCCTCTATTTAGAG
* * *
16093805 GAGCATTTTATTTTTCTAAAGTTGTGGTGCCTCTATTTATAG
1 GAGCAATTTATTTTT-TAAAGTTATGGTGCCTCTATTTAGAG
* *
16093847 GAGCAATTTATTTTTTAAAGTTATGGTGCCTCTGTTTAGAT
1 GAGCAATTTATTTTTTAAAGTTATGGTGCCTCTATTTAGAG
* ** * *
16093888 AAGCAATTTATTTTCCAAAATTATGATGCCTCTATTTAGAG
1 GAGCAATTTATTTTTTAAAGTTATGGTGCCTCTATTTAGAG
16093929 GAGCAATTTATTTTT
1 GAGCAATTTATTTTT
16093944 CAATGTTAGA
Statistics
Matches: 121, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
41 69 0.57
42 51 0.42
43 1 0.01
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (41 bp):
GAGCAATTTATTTTTTAAAGTTATGGTGCCTCTATTTAGAG
Found at i:16093953 original size:26 final size:26
Alignment explanation
Indices: 16093923--16093976 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
16093913 ATGCCTCTAT
16093923 TTAGAGGAGCAATTTATTTTTCAATG
1 TTAGAGGAGCAATTTATTTTTCAATG
*
16093949 TTAGAGGAGCAATTTATTTTTTAATG
1 TTAGAGGAGCAATTTATTTTTCAATG
16093975 TT
1 TT
16093977 GTGATGTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.46
Consensus pattern (26 bp):
TTAGAGGAGCAATTTATTTTTCAATG
Found at i:16093963 original size:67 final size:67
Alignment explanation
Indices: 16093889--16094018 Score: 161
Period size: 67 Copynumber: 1.9 Consensus size: 67
16093879 TGTTTAGATA
* * * *
16093889 AGCAATTTATTTTCCAAAATTATGATGCCTCTATTTAGAGGAGCAATTTATTTTTCAATGTTAGA
1 AGCAATTTATTTTCCAAAATTATGATGCCTCCATTTAGAAGAGCAATTTATTTTCCAAAGTTAGA
16093954 GG
66 GG
** ** * * *
16093956 AGCAATTTATTTTTTAATGTTGTGATGTCTCCGTTTAGAAGAGCAATTTATTTTCCAAAGTTA
1 AGCAATTTATTTTCCAAAATTATGATGCCTCCATTTAGAAGAGCAATTTATTTTCCAAAGTTA
16094019 TGGTGCCTCC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
67 52 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (67 bp):
AGCAATTTATTTTCCAAAATTATGATGCCTCCATTTAGAAGAGCAATTTATTTTCCAAAGTTAGA
GG
Found at i:16094003 original size:149 final size:152
Alignment explanation
Indices: 16093799--16094097 Score: 388
Period size: 149 Copynumber: 2.0 Consensus size: 152
16093789 GTGCCTTTGT
* * * * * **
16093799 TTAGAGGAGCATTTTATTTTTCTAAAGTTGTGGTGCCTCTATTTATAGGAGCAATTTATTTTTTA
1 TTAGAGGAGCAATTTATTTTTCTAAAGTTGTGATGCCTCCATTTAGAAGAGCAATTTATTTTCCA
* *
16093864 AAGTTATGGTGCCTCTGTTTAGATAAGCAATTTA-TTTTCCAAAATTATGATGCCTCTATTTAGA
66 AAGTTATGGTGCCTCCGTTTAGAGAAGCAATTTATTTTTCCAAAATTATGATGCCTCTATTTAGA
** *
16093928 GGAGCAA-TTTATTTTTCAATG
131 AAAGCAATTTTATTGTTCAATG
* * *
16093949 TTAGAGGAGCAATTTATTTTT-TAATGTTGTGATGTCTCCGTTTAGAAGAGCAATTTATTTTCCA
1 TTAGAGGAGCAATTTATTTTTCTAAAGTTGTGATGCCTCCATTTAGAAGAGCAATTTATTTTCCA
** * * * *
16094013 AAGTTATGGTGCCTCCGTTTAGAGGTGCAATTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGA
66 AAGTTATGGTGCCTCCGTTTAGAGAAGCAATTTATTTTTCCAAAATTATGATGCCTCTATTTAGA
16094078 AAAGCAATTTTATTGTTCAA
131 AAAGCAATTTTATTGTTCAA
16094098 AAGTTGTGGT
Statistics
Matches: 126, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
149 64 0.51
150 51 0.40
151 11 0.09
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (152 bp):
TTAGAGGAGCAATTTATTTTTCTAAAGTTGTGATGCCTCCATTTAGAAGAGCAATTTATTTTCCA
AAGTTATGGTGCCTCCGTTTAGAGAAGCAATTTATTTTTCCAAAATTATGATGCCTCTATTTAGA
AAAGCAATTTTATTGTTCAATG
Found at i:16094034 original size:108 final size:108
Alignment explanation
Indices: 16093845--16094051 Score: 308
Period size: 108 Copynumber: 1.9 Consensus size: 108
16093835 CTCTATTTAT
* *
16093845 AGGAGCAATTTATTTTTTAAAGTTATGGTGCCTCTGTTTAGATAAGCAATTTATTTTCCAAAATT
1 AGGAGCAATTTATTTTTTAAAGTTATGATGCCTCCGTTTAGATAAGCAATTTATTTTCCAAAATT
*
16093910 ATGATGCCTCTATTTAGAGGAGCAATTTATTTTTCAATGTTAG
66 ATGATGCCTCCATTTAGAGGAGCAATTTATTTTTCAATGTTAG
* * * *
16093953 AGGAGCAATTTATTTTTTAATGTTGTGATGTCTCCGTTTAGA-AGAGCAATTTATTTTCCAAAGT
1 AGGAGCAATTTATTTTTTAAAGTTATGATGCCTCCGTTTAGATA-AGCAATTTATTTTCCAAAAT
* * *
16094017 TATGGTGCCTCCGTTTAGAGGTGCAATTTATTTTT
65 TATGATGCCTCCATTTAGAGGAGCAATTTATTTTT
16094052 TCAAAGTTGT
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 1 0.01
108 87 0.99
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (108 bp):
AGGAGCAATTTATTTTTTAAAGTTATGATGCCTCCGTTTAGATAAGCAATTTATTTTCCAAAATT
ATGATGCCTCCATTTAGAGGAGCAATTTATTTTTCAATGTTAG
Found at i:16094076 original size:42 final size:42
Alignment explanation
Indices: 16093949--16094143 Score: 207
Period size: 41 Copynumber: 4.7 Consensus size: 42
16093939 TTTTTCAATG
* * * * *
16093949 TTAGAGGAGCAATTTATTTTTT-AATGTTGTGATGTCTCCGT
1 TTAGAAGAGCAATTTATTTTTTCAAAGTTGTGGTGCCTCCAT
* * *
16093990 TTAGAAGAGCAATTTA-TTTTCCAAAGTTATGGTGCCTCCGT
1 TTAGAAGAGCAATTTATTTTTTCAAAGTTGTGGTGCCTCCAT
* * *
16094031 TTAGAGGTGCAATTTATTTTTTCAAAGTTGTGGTGCCTCTAT
1 TTAGAAGAGCAATTTATTTTTTCAAAGTTGTGGTGCCTCCAT
* * *
16094073 TTAGAAAAGCAATTT-TATTGTTCAAAAGTTGTGGTGCCTCTAT
1 TTAGAAGAGCAATTTAT-TTTTTC-AAAGTTGTGGTGCCTCCAT
* *
16094116 TTAGAAGAACATTTTATTTTTTCAAAGT
1 TTAGAAGAGCAATTTATTTTTTCAAAGT
16094144 CATTGAACCT
Statistics
Matches: 129, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
40 4 0.03
41 45 0.35
42 43 0.33
43 36 0.28
44 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.43
Consensus pattern (42 bp):
TTAGAAGAGCAATTTATTTTTTCAAAGTTGTGGTGCCTCCAT
Found at i:16094091 original size:43 final size:42
Alignment explanation
Indices: 16093956--16094143 Score: 186
Period size: 42 Copynumber: 4.5 Consensus size: 42
16093946 ATGTTAGAGG
* * * * *
16093956 AGCAATTTATTTTTT-AATGTTGTGATGTCTCCGTTTAGAAG
1 AGCAATTTATTTTTTCAAAGTTGTGGTGCCTCCATTTAGAAA
* * * **
16093997 AGCAATTTA-TTTTCCAAAGTTATGGTGCCTCCGTTTAGAGG
1 AGCAATTTATTTTTTCAAAGTTGTGGTGCCTCCATTTAGAAA
* *
16094038 TGCAATTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAAA
1 AGCAATTTATTTTTTCAAAGTTGTGGTGCCTCCATTTAGAAA
* *
16094080 AGCAATTT-TATTGTTCAAAAGTTGTGGTGCCTCTATTTAGAAGA
1 AGCAATTTAT-TTTTTC-AAAGTTGTGGTGCCTCCATTTAGAA-A
*
16094124 A-CATTTTATTTTTTCAAAGT
1 AGCAATTTATTTTTTCAAAGT
16094144 CATTGAACCT
Statistics
Matches: 124, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
40 4 0.03
41 39 0.31
42 43 0.35
43 35 0.28
44 3 0.02
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (42 bp):
AGCAATTTATTTTTTCAAAGTTGTGGTGCCTCCATTTAGAAA
Found at i:16094132 original size:85 final size:83
Alignment explanation
Indices: 16093949--16094143 Score: 221
Period size: 85 Copynumber: 2.3 Consensus size: 83
16093939 TTTTTCAATG
* * * * * * *
16093949 TTAGAGGAGCAATTTATTTTTT-AATGTTGTGATGTCTCCGTTTAGAAGAGCAATTTATTTTCCA
1 TTAGAAGAACAATTTATTTTTTCAAAGTTGTGATGCCTCCATTTAGAAAAGCAATTTATTTTCAA
*
16094013 AAGTTATGGTGCCTCCGT
66 AAGTTATGGTGCCTCCAT
* ** * *
16094031 TTAGAGGTGCAATTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAAAAGCAATTTTATTGTTC
1 TTAGAAGAACAATTTATTTTTTCAAAGTTGTGATGCCTCCATTTAGAAAAGCAA-TTTATT-TTC
* *
16094096 AAAAGTTGTGGTGCCTCTAT
64 AAAAGTTATGGTGCCTCCAT
*
16094116 TTAGAAGAACATTTTATTTTTTCAAAGT
1 TTAGAAGAACAATTTATTTTTTCAAAGT
16094144 CATTGAACCT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
82 21 0.22
83 25 0.26
84 6 0.06
85 43 0.45
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.43
Consensus pattern (83 bp):
TTAGAAGAACAATTTATTTTTTCAAAGTTGTGATGCCTCCATTTAGAAAAGCAATTTATTTTCAA
AAGTTATGGTGCCTCCAT
Found at i:16094161 original size:85 final size:84
Alignment explanation
Indices: 16093988--16094186 Score: 193
Period size: 85 Copynumber: 2.3 Consensus size: 84
16093978 TGATGTCTCC
* * * * **
16093988 GTTTAGAAGAGCAA-TTTATTTTCCAAAGTTATGGTGCCTCCGTTTAGAGGTGCAATTTATTTTT
1 GTTTAGAAAAGCAATTTTATTTTCAAAAGTTATGGTGCCTCCATTTAGAAGAACAATTTATTTTT
** **
16094052 TCAAAGTTGTGGTGCCTCT
66 TCAAAGTCATGGAACCTCT
* * * *
16094071 ATTTAGAAAAGCAATTTTATTGTTCAAAAGTTGTGGTGCCTCTATTTAGAAGAACATTTTATTTT
1 GTTTAGAAAAGCAATTTTATT-TTCAAAAGTTATGGTGCCTCCATTTAGAAGAACAATTTATTTT
* *
16094136 TTCAAAGTCATTGAACCTTT
65 TTCAAAGTCATGGAACCTCT
* *
16094156 GTTTAGAGAAGCATTGTTTACTTTTTCAAAA
1 GTTTAGAAAAGCAAT-TTTA--TTTTCAAAA
16094187 AAAAAAAAAA
Statistics
Matches: 92, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
83 12 0.13
84 6 0.07
85 61 0.66
86 4 0.04
87 7 0.08
88 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.42
Consensus pattern (84 bp):
GTTTAGAAAAGCAATTTTATTTTCAAAAGTTATGGTGCCTCCATTTAGAAGAACAATTTATTTTT
TCAAAGTCATGGAACCTCT
Found at i:16102555 original size:214 final size:215
Alignment explanation
Indices: 16102151--16102574 Score: 706
Period size: 214 Copynumber: 2.0 Consensus size: 215
16102141 AGTGAAACAT
16102151 TTATGTATAACATATCTGTTAGCGTTCTTGAAGTTTACAACGAACAAATTAGAGACTTGTTATCT
1 TTATGTATAACATATCTGTTAGCGTTCTTGAAGTTTACAACGAACAAATTAGAGACTTGTTATCT
* *
16102216 ACATCACCGACATCGAAGAGGTGAGATAGCCATACTTTTTATTACATGCTTAACTAGTCAATTTT
66 ACATCACCGACATCAAAGAGGTGAGATAGCCATACTGTTTATTACATGCTTAACTAGTCAATTTT
* *
16102281 GAAACTTGGTATTCTGAATTTAGTGTAGACTGAATGTTGGCTTATCTCTCTGGCCTTGCCTTGCA
131 GAAACTTGGTATCCTGAATTTAGTGTAGACTGAATGTTGGCTTATCTATCTGGCCTTGCCTTGCA
16102346 ACATAAAACTTAATGTTGAC
196 ACATAAAACTTAATGTTGAC
* * *
16102366 TTATGTATAACATATCTGTTAGTGTTCTTGAAGTTTATAATGAACAAATTAGAGACTTGTTATCT
1 TTATGTATAACATATCTGTTAGCGTTCTTGAAGTTTACAACGAACAAATTAGAGACTTGTTATCT
* * *** * *
16102431 GCATCACTGACATCAAAGAGGTGAGATAGTTGTA-TGTTTATTACATGTTTAACTAGTCACTTTT
66 ACATCACCGACATCAAAGAGGTGAGATAGCCATACTGTTTATTACATGCTTAACTAGTCAATTTT
*
16102495 GAAACTTGGTATCCTGAATTTAGTGTAGACTGAATGTTGGCTTATCTATCTGGGCTTGCCTTGCA
131 GAAACTTGGTATCCTGAATTTAGTGTAGACTGAATGTTGGCTTATCTATCTGGCCTTGCCTTGCA
16102560 ACATAAAACTTAATG
196 ACATAAAACTTAATG
16102575 CATTAACTTG
Statistics
Matches: 194, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
214 104 0.54
215 90 0.46
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (215 bp):
TTATGTATAACATATCTGTTAGCGTTCTTGAAGTTTACAACGAACAAATTAGAGACTTGTTATCT
ACATCACCGACATCAAAGAGGTGAGATAGCCATACTGTTTATTACATGCTTAACTAGTCAATTTT
GAAACTTGGTATCCTGAATTTAGTGTAGACTGAATGTTGGCTTATCTATCTGGCCTTGCCTTGCA
ACATAAAACTTAATGTTGAC
Found at i:16106457 original size:20 final size:20
Alignment explanation
Indices: 16106421--16106482 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
16106411 CTATCCGATC
* *
16106421 TTAAATATATAAATAATTTT
1 TTAATTATATATATAATTTT
* *
16106441 TTAATTATTTATTTAATTTT
1 TTAATTATATATATAATTTT
*
16106461 ATAATTATATATAT-ATTTT
1 TTAATTATATATATAATTTT
16106480 TTA
1 TTA
16106483 TATATTTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 7 0.21
20 27 0.79
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTAATTATATATATAATTTT
Found at i:16106500 original size:12 final size:12
Alignment explanation
Indices: 16106440--16106502 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
16106430 TAAATAATTT
16106440 TTTAATTATT-TA
1 TTTAATT-TTATA
16106452 TTTAATTTTATA
1 TTTAATTTTATA
* *
16106464 ATT-ATATATATA
1 TTTAAT-TTTATA
16106476 TTT--TTTATATA
1 TTTAATTT-TATA
16106487 TTTAATTTTATA
1 TTTAATTTTATA
16106499 TTTA
1 TTTA
16106503 TATTAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 1 0.02
11 12 0.29
12 26 0.62
13 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:16106504 original size:20 final size:20
Alignment explanation
Indices: 16106434--16106505 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 20
16106424 AATATATAAA
* *
16106434 TAATTTTTTAATTATTTATT
1 TAATTTTATAATTATATATT
*
16106454 TAATTTTATAATTATATATA
1 TAATTTTATAATTATATATT
16106474 T-A-TTT-T--TTATATATT
1 TAATTTTATAATTATATATT
*
16106489 TAATTTTATATTTATAT
1 TAATTTTATAATTATAT
16106506 TAAAAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
15 9 0.21
16 1 0.02
17 4 0.09
18 4 0.09
19 1 0.02
20 24 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TAATTTTATAATTATATATT
Found at i:16106515 original size:23 final size:23
Alignment explanation
Indices: 16106489--16106532 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
16106479 TTTATATATT
*
16106489 TAAT-TTTATATTTATATTAAAAA
1 TAATATTT-TATTAATATTAAAAA
*
16106512 TAATATTTTATTAATTTTAAA
1 TAATATTTTATTAATATTAAA
16106533 TCAGATCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATATTTTATTAATATTAAAAA
Found at i:16109729 original size:2 final size:2
Alignment explanation
Indices: 16109722--16109748 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16109712 CCTAGGCATT
16109722 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
16109749 GGAAAGAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16109917 original size:8 final size:8
Alignment explanation
Indices: 16109906--16109942 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
16109896 AGGGAGAGAT
*
16109906 TGAGACAC
1 TGAGACAG
16109914 TGAGACAG
1 TGAGACAG
16109922 TGAGACAG
1 TGAGACAG
16109930 TGAGACAG
1 TGAGACAG
16109938 TGAGA
1 TGAGA
16109943 GTTTTGGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.35, T:0.14
Consensus pattern (8 bp):
TGAGACAG
Found at i:16125115 original size:33 final size:34
Alignment explanation
Indices: 16125074--16125199 Score: 114
Period size: 36 Copynumber: 3.6 Consensus size: 34
16125064 CTTAATGCAT
* *
16125074 TTTA-GGTGGATGATATATTTGAGG-ATGATACA
1 TTTATGGTGGAGGATACATTTGAGGAATGATACA
* * *
16125106 TTTGTGGTGGGGGATACATTTGTGGTAAATGATACA
1 TTTATGGTGGAGGATACATTTGAGG--AATGATACA
* **
16125142 TTTATGGTGGGGGATACATTTTTGGTAAATGATACA
1 TTTATGGTGGAGGATACATTTGAGG--AATGATACA
16125178 TTTGA-GGTGGAGGATACATTTG
1 TTT-ATGGTGGAGGATACATTTG
16125200 TGATGGATAA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
32 3 0.04
33 16 0.20
36 60 0.75
37 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.31, T:0.37
Consensus pattern (34 bp):
TTTATGGTGGAGGATACATTTGAGGAATGATACA
Found at i:16125123 original size:18 final size:18
Alignment explanation
Indices: 16125100--16125206 Score: 106
Period size: 18 Copynumber: 5.9 Consensus size: 18
16125090 ATTTGAGGAT
*
16125100 GATACATTTGTGGTGGGG
1 GATACATTTGTGGTGGAG
** *
16125118 GATACATTTGTGGTAAAT
1 GATACATTTGTGGTGGAG
* *
16125136 GATACATTTATGGTGGGG
1 GATACATTTGTGGTGGAG
* ** *
16125154 GATACATTTTTGGTAAAT
1 GATACATTTGTGGTGGAG
*
16125172 GATACATTTGAGGTGGAG
1 GATACATTTGTGGTGGAG
*
16125190 GATACATTTGTGATGGA
1 GATACATTTGTGGTGGA
16125207 TAATAACTAT
Statistics
Matches: 68, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.27, C:0.06, G:0.32, T:0.36
Consensus pattern (18 bp):
GATACATTTGTGGTGGAG
Found at i:16125143 original size:36 final size:36
Alignment explanation
Indices: 16125098--16125201 Score: 172
Period size: 36 Copynumber: 2.9 Consensus size: 36
16125088 ATATTTGAGG
16125098 ATGATACATTTGTGGTGGGGGATACATTTGTGGTAA
1 ATGATACATTTGTGGTGGGGGATACATTTGTGGTAA
* *
16125134 ATGATACATTTATGGTGGGGGATACATTTTTGGTAA
1 ATGATACATTTGTGGTGGGGGATACATTTGTGGTAA
* *
16125170 ATGATACATTTGAGGTGGAGGATACATTTGTG
1 ATGATACATTTGTGGTGGGGGATACATTTGTG
16125202 ATGGATAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 62 1.00
ACGTcount: A:0.27, C:0.06, G:0.31, T:0.37
Consensus pattern (36 bp):
ATGATACATTTGTGGTGGGGGATACATTTGTGGTAA
Found at i:16125561 original size:6 final size:6
Alignment explanation
Indices: 16125550--16125647 Score: 178
Period size: 6 Copynumber: 16.3 Consensus size: 6
16125540 TCAAAATTTG
*
16125550 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT TACCAT CACCAT
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
*
16125598 CACCAT CACCAT CACCAT CACCAT TACCAT CACCAT CACCAT CACCAT
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
16125646 CA
1 CA
16125648 TCTAGACTTA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 88 1.00
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.18
Consensus pattern (6 bp):
CACCAT
Found at i:16131573 original size:20 final size:20
Alignment explanation
Indices: 16131530--16131574 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16131520 TAATTATAAT
* *
16131530 AATTTATTTATGAATCAATT
1 AATTTATTCATGAATCAATA
**
16131550 AATTTATTCATGAATTGATA
1 AATTTATTCATGAATCAATA
16131570 AATTT
1 AATTT
16131575 TATTTTTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (20 bp):
AATTTATTCATGAATCAATA
Found at i:16136169 original size:16 final size:16
Alignment explanation
Indices: 16136144--16136174 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16136134 TTTAATTAAT
16136144 TAATTATATATTTATG
1 TAATTATATATTTATG
*
16136160 TAATTTTATATTTAT
1 TAATTATATATTTAT
16136175 ATTAAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TAATTATATATTTATG
Found at i:16136195 original size:20 final size:21
Alignment explanation
Indices: 16136170--16136216 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 21
16136160 TAATTTTATA
16136170 TTTATA-TTAAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
16136190 TTTATATTTTAAAAAATAATAT
1 TTTATA-TTTAAAAAATAATAT
16136212 TTTAT
1 TTTAT
16136217 TAATTTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 6 0.24
22 19 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:16137387 original size:40 final size:40
Alignment explanation
Indices: 16137332--16137409 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
16137322 CTGAAATTGC
*** *
16137332 TAATTCTAACCATTTCATCTGTGCATATGATATTTGACGT
1 TAATTCTAACCATTTCATCTACACATACGATATTTGACGT
*
16137372 TAATTCTAATCATTTCATCTACACATACGATATTTGAC
1 TAATTCTAACCATTTCATCTACACATACGATATTTGAC
16137410 TTATTTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (40 bp):
TAATTCTAACCATTTCATCTACACATACGATATTTGACGT
Found at i:16137433 original size:36 final size:39
Alignment explanation
Indices: 16137355--16137434 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 39
16137345 TTCATCTGTG
* *
16137355 CATATGATATTTGACGTTAATTCTAATCATTTCATCTACA
1 CATACGATATTTGACGTTAATTCTAAT-ATTTAATCTACA
*
16137395 CATACGATATTTGAC-TT-ATTTTAAT-TTTAATCTACA
1 CATACGATATTTGACGTTAATTCTAATATTTAATCTACA
16137431 CATA
1 CATA
16137435 ACTTGTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 14 0.38
38 7 0.19
39 2 0.05
40 14 0.38
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (39 bp):
CATACGATATTTGACGTTAATTCTAATATTTAATCTACA
Found at i:16137828 original size:27 final size:27
Alignment explanation
Indices: 16137741--16137829 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 27
16137731 TCAAAAAATC
*
16137741 AATAATTTATTATATATTATATGT-AT-
1 AATAATTTATTA-ATATAATATGTAATA
* * *
16137767 -A-AATTTATTAAAATAAATATTTATTA
1 AATAATTTATTAATAT-AATATGTAATA
**
16137793 TTTAA-TTATTAATATAATATGTAATA
1 AATAATTTATTAATATAATATGTAATA
16137819 AATAATTTATT
1 AATAATTTATT
16137830 TTTTCATAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
23 3 0.06
24 14 0.30
25 2 0.04
26 12 0.26
27 14 0.30
28 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
AATAATTTATTAATATAATATGTAATA
Found at i:16139461 original size:34 final size:34
Alignment explanation
Indices: 16139420--16139510 Score: 110
Period size: 34 Copynumber: 2.7 Consensus size: 34
16139410 AAAAATAAAG
*
16139420 ATATTTTTCAGATACAAACGTCACTAATATAACA
1 ATATTTTTCAGATACAAACGCCACTAATATAACA
* * * *
16139454 ATGTTTTTCAGATACAAATGCCGCTAATATAACG
1 ATATTTTTCAGATACAAACGCCACTAATATAACA
* * *
16139488 GTATTTTTCAAATACAAATGCCA
1 ATATTTTTCAGATACAAACGCCA
16139511 TTATTTTTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (34 bp):
ATATTTTTCAGATACAAACGCCACTAATATAACA
Found at i:16146437 original size:13 final size:13
Alignment explanation
Indices: 16146419--16146443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16146409 TATTAGACCA
16146419 AATGTATATAAAT
1 AATGTATATAAAT
16146432 AATGTATATAAA
1 AATGTATATAAA
16146444 AACAAACATG
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
AATGTATATAAAT
Found at i:16147756 original size:187 final size:187
Alignment explanation
Indices: 16147432--16148910 Score: 1533
Period size: 187 Copynumber: 8.0 Consensus size: 187
16147422 GTGTTTCTTG
* * * ** * ** *
16147432 AGAATAAACACCTTCAATAATTTTCTCTTAAAATTTTT-AGGATTATTAAAAGTATTTTTTAGTT
1 AGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGA-GATTATTAAAGGCGTCTTCCAGTG
* * * * * *
16147496 AAAAATGCCTTCAATATTTCACAACTCAAATTTTTAGACGGTTAGTTG-AGGCATTTA-T-TAAA
65 AAAAATACCTTCAATATTTCACAACTCAAATTTTGAGATGCTTAG-TGAAGGCGTTTATTCTAGA
* *
16147558 AAGAAATGCCTTCACTAATTTCTTCTAATTTACGTGCATAATTATTAAAGGTATTTTTTT
129 AA-AAATGCCTTCACTAATTTCTTCTAATTTACGTGCATAATTATTGAAGGCATTTTTTT
* * *
16147618 AGAACAAATGCCTTCAATAATTTT-T-TTAAAAAAATTTTTGAGATTATTAAAAGTGTCTTCCAG
1 AGAACAAACGCCTTCAATAATTTTCTCTT---AAAATTTTTGAGATTATTAAAGGCGTCTTCCAG
* * * *
16147681 TGAAAAATGCCTTTAATA-TTCGA-AACTCAAATTTTGAGACGCTTAATGAAGGCGTTTATTCTA
63 TGAAAAATACCTTCAATATTTC-ACAACTCAAATTTTGAGATGCTTAGTGAAGGCGTTTATTCTA
* * * *
16147744 GAAAAAATGCCTTCATTAATTGCTTCTAATTTATGTGCATAATTATTGAAAGCATTTTTTGT
127 GAAAAAATGCCTTCACTAATTTCTTCTAATTTACGTGCATAATTATTGAAGGCATTTTTT-T
* *
16147806 -GAACAAACGCCTTCAAAAAATTTT-TCTTAAAATTTTTGGGATTATTAAAGGCGTCTTCCAGT-
1 AGAACAAACGCCTTC-AATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTCCAGTG
* * * * * *
16147868 AGAAAATACCTTCAATATTTCACAACTCAATTTTTAAGATGGTTAGT-AGATGAGTTTATTCTAA
65 A-AAAATACCTTCAATATTTCACAACTCAAATTTTGAGATGCTTAGTGA-AGGCGTTTATTCTAG
* * * * *
16147932 AAAAAATACCTTCACTAA-TTCATTCTAATTTATGTGTATAATTATTGAAGGCATCTTTTG
128 AAAAAATGCCTTCACTAATTTC-TTCTAATTTACGTGCATAATTATTGAAGGCATTTTTTT
* * *
16147992 AGAACAAACACCTTCAATAA-TTTCTCTTTAAAATTTTTG-GCTTTATTAAAGGGGTCTTCCAGT
1 AGAACAAACGCCTTCAATAATTTTCTC-TTAAAATTTTTGAG-ATTATTAAAGGCGTCTTCCAGT
* * * *
16148055 GAAAAACACCTTCAATATTTCATAACTAAAATTTTGAAATGCTTAGTGAAGGCG----TT-TA-A
64 GAAAAATACCTTCAATATTTCACAACTCAAATTTTGAGATGCTTAGTGAAGGCGTTTATTCTAGA
* * * * * *
16148114 ATAAACGCCTTCACTAATTGCTTCTAATTTACGTGCATAAATATTGAAGGTATTTTTTG
129 AAAAATGCCTTCACTAATTTCTTCTAATTTACGTGCATAATTATTGAAGGCATTTTTTT
* * * * *
16148173 AGAACAAATGCTTTCAAAAATTTT-TGCTTAAAA-TTTTCAGGATTATTAAAGGCGTCTTTCAGT
1 AGAACAAACGCCTTCAATAATTTTCT-CTTAAAATTTTTGA-GATTATTAAAGGCGTCTTCCAGT
** * *
16148236 GAAAAATGTCTTCAATATTTCACAACTCAAATTTTGAGATGCTTAATGAAGGCGTTTATTTTAGA
64 GAAAAATACCTTCAATATTTCACAACTCAAATTTTGAGATGCTTAGTGAAGGCGTTTATTCTAGA
* * * ** * * **
16148301 ATAAATGCATTCACTAATTACTTCTAATTTATATGCCTAAATATTGAAGGTGTTTTTTTT
129 AAAAATGCCTTCACTAATTTCTTCTAATTTACGTGCATAATTATTGAAGG-CATTTTTTT
* * * *
16148361 AGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCATCTTTCAGTAA
1 AGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTCCAGTGA
* ** *
16148426 AAAATACCTTCAATA-TTCTACAACTCAAATTTTGATACACTTAGTGAAGGGGTTTATTCTAG-A
66 AAAATACCTTCAATATTTC-ACAACTCAAATTTTGAGATGCTTAGTGAAGGCGTTTATTCTAGAA
* *
16148489 AAAATACATTCACTAA-TTCTTTCTAATTTACGTGCATAATTATTGAAGGCATTTTTTT
130 AAAATGCCTTCACTAATTTC-TTCTAATTTACGTGCATAATTATTGAAGGCATTTTTTT
* * * * * *
16148547 AGAACAAACGTCTTTAATAATTTTCTCTTAAAATTTTTTAGATTATTAAAGGTGTCTTCAAATGA
1 AGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTCCAGTGA
* * * * * *
16148612 AAAACACCTTCAATATTCCACAACTCAAATTTTGAGATGCTTAGTGAAGACATTTATTCTATAAT
66 AAAATACCTTCAATATTTCACAACTCAAATTTTGAGATGCTTAGTGAAGGCGTTTATTCTAGAAA
* * * * *
16148677 AAATGTCTTCACTAATTCCTTCTAATTTATGTGCATAATTATTAAAGACATTTTTTT
131 AAATGCCTTCACTAATTTCTTCTAATTTACGTGCATAATTATTGAAGGCATTTTTTT
* * * * * *
16148734 AGAACAAACACCTTTAATAATTTTCTCTTAAAACTTTAG-GATTATTAAAGGCATCTTTCAGT-A
1 AGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTCCAGTGA
** * * * *
16148797 CAAAACGCCTTCAATATTTTAGAACTCAAATTTTGAGATGCTTAGTGAAGGTGTTTATTCAAG-A
66 -AAAATACCTTCAATATTTCACAACTCAAATTTTGAGATGCTTAGTGAAGGCGTTTATTCTAGAA
* * *
16148861 AAAATGCATTCATTAA-TTCTTTCTAATTTACGTACATAATTATTGAAGGC
130 AAAATGCCTTCACTAATTTC-TTCTAATTTACGTGCATAATTATTGAAGGC
16148911 GGTTATCTAC
Statistics
Matches: 1083, Mismatches: 167, Indels: 87
0.81 0.12 0.07
Matches are distributed among these distances:
180 4 0.00
181 137 0.13
182 9 0.01
183 2 0.00
184 4 0.00
185 49 0.05
186 294 0.27
187 450 0.42
188 127 0.12
189 7 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (187 bp):
AGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTCCAGTGA
AAAATACCTTCAATATTTCACAACTCAAATTTTGAGATGCTTAGTGAAGGCGTTTATTCTAGAAA
AAATGCCTTCACTAATTTCTTCTAATTTACGTGCATAATTATTGAAGGCATTTTTTT
Found at i:16148494 original size:555 final size:553
Alignment explanation
Indices: 16147429--16148890 Score: 1703
Period size: 555 Copynumber: 2.6 Consensus size: 553
16147419 AAGGTGTTTC
* * ** * **
16147429 TTGAGAATAAACACCTTCAATAATTTTCTCTTAAAA-TTTTTAGGATTATTAAAAGTATTTTTTA
1 TTGAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTTA-GATTATTAAAGGGGTCTTCAA
* * ** * * * * * * * * *
16147493 GTTAAAAATGCCTTCAATATTTCACAACTCAAATTTTTAGACGGTTAGTTGAGGCATTTATT-AA
65 ATGAAAAACACCTTCAATATTCCACAACTAAAATTTTGAAATGCTTAG-TGAAG-A-CTATTCTA
* * * *
16147557 AAAGAAATGCCTTCACTAATTTCTTCTAATTTACGTGCATAATTATTAAAGGTATTTTTTTAGAA
127 TAATAAACGCCTTCACTAATTCCTTCTAATTTACGTGCATAATTATTAAAGGTATTTTTTTAGAA
* * * * *
16147622 CAAATGCCTTCAATAATTTTT-TTAAAAAAATTTTTGAGATTATTAAAAGTGTCTTCCAGTGAAA
192 CAAATGCTTTCAATAATTTTTCTT---AAAATTTTAG-GATTATTAAAGGCGTCTTTCAGTGAAA
* *
16147686 AATGCCTTTAATA-TTCGAAACTCAAATTTTGAGACGCTTAATGAAGGCGTTTATTCTAGAAAAA
253 AATGCCTTCAATATTTC-AAACTCAAATTTTGAGATGCTTAATGAAGGCGTTTATTCTAG-AAAA
* * *
16147750 ATGCCTTCATTAATTGCTTCTAATTTATGTGCATAATTATTGAAAGCATTTTTTGTGAACAAACG
316 ATGCATTCATTAATT-CTTCTAATTTATATGCATAAATATTGAAAGCATTTTTTGTGAACAAACG
* *
16147815 CCTTCAAAAAATTTTTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTCCAGTAGAAAATACCTT
380 CCTTCAAAAAATTTTTCTTAAAATTTTTGGGATTATTAAAGGCATCTTCCAGTAAAAAATACCTT
* *** * *
16147880 CAATATTTCACAACTCAATTTTTAAGATGGTTAGTAGATGAGTTTATTCTAAAAAAAATACCTTC
445 CAATATTTCACAACTCAAATTTTAAGACACTTAGTAGAGGAGTTTATTCTAAAAAAAATACATTC
* *
16147945 ACTAATTCATTCTAATTTATGTGTATAATTATTGAAGGCATCTT
510 ACTAATTCATTCTAATTTACGTGCATAATTATTGAAGGCATCTT
* * *
16147989 TTGAGAACAAACACCTTCAATAA-TTTCTCTTTAAAA-TTTTTGGCTTTATTAAAGGGGTCTTCC
1 TTGAGAACAAACACCTTCAATAATTTTCTC-TTAAAATTTTTTAG-ATTATTAAAGGGGTCTTCA
* * * * *
16148052 AGTGAAAAACACCTTCAATATTTCATAACTAAAATTTTGAAATGCTTAGTGAAGGC-GTT-TA-A
64 AATGAAAAACACCTTCAATATTCCACAACTAAAATTTTGAAATGCTTAGTGAAGACTATTCTATA
* * * *
16148114 ATAAACGCCTTCACTAATTGCTTCTAATTTACGTGCATAAATATTGAAGGTATTTTTTGAGAACA
129 ATAAACGCCTTCACTAATTCCTTCTAATTTACGTGCATAATTATTAAAGGTATTTTTTTAGAACA
*
16148179 AATGCTTTCAAAAATTTTTGCTTAAAATTTTCAGGATTATTAAAGGCGTCTTTCAGTGAAAAATG
194 AATGCTTTCAATAATTTTT-CTTAAAATTTT-AGGATTATTAAAGGCGTCTTTCAGTGAAAAATG
* *
16148244 TCTTCAATATTTCACAACTCAAATTTTGAGATGCTTAATGAAGGCGTTTATTTTAGAATAAATGC
257 CCTTCAATATTTCA-AACTCAAATTTTGAGATGCTTAATGAAGGCGTTTATTCTAGAA-AAATGC
* * * ** *
16148309 ATTCACTAATTACTTCTAATTTATATGCCTAAATATTGAAGGTGTTTTTTTTAGAACAAACGCCT
320 ATTCATTAATT-CTTCTAATTTATATGCATAAATATTGAAAGCATTTTTTGT-GAACAAACGCCT
* *
16148374 TC-AATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCATCTTTCAGTAAAAAATACCTTCA
383 TCAAAAAATTTT-TCTTAAAATTTTTGGGATTATTAAAGGCATCTTCCAGTAAAAAATACCTTCA
* * * *
16148438 ATA-TTCTACAACTCAAATTTTGATACACTTAGT-GAAGGGGTTTATTCT-AGAAAAATACATTC
447 ATATTTC-ACAACTCAAATTTTAAGACACTTAGTAG-AGGAGTTTATTCTAAAAAAAATACATTC
* *
16148500 ACTAATTCTTTCTAATTTACGTGCATAATTATTGAAGGCATTTT
510 ACTAATTCATTCTAATTTACGTGCATAATTATTGAAGGCATCTT
* ** * *
16148544 TTTAGAACAAACGTCTTTAATAATTTTCTCTTAAAATTTTTTAGATTATTAAAGGTGTCTTCAAA
1 TTGAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTTAGATTATTAAAGGGGTCTTCAAA
* *
16148609 TGAAAAACACCTTCAATATTCCACAACTCAAATTTTGAGATGCTTAGTGAAGACATTTATTCTAT
66 TGAAAAACACCTTCAATATTCCACAACTAAAATTTTGAAATGCTTAGTGAAGAC---TATTCTAT
* * * **
16148674 AATAAATGTCTTCACTAATTCCTTCTAATTTATGTGCATAATTATTAAAGACATTTTTTTAGAAC
128 AATAAACGCCTTCACTAATTCCTTCTAATTTACGTGCATAATTATTAAAGGTATTTTTTTAGAAC
** * *
16148739 AAACACCTTT-AATAATTTTCTCTTAAAACTTTAGGATTATTAAAGGCATCTTTCAGT-ACAAAA
193 AAA-TGCTTTCAATAATTTT-TCTTAAAATTTTAGGATTATTAAAGGCGTCTTTCAGTGA-AAAA
* * * * *
16148802 CGCCTTCAATATTTTAGAACTCAAATTTTGAGATGCTTAGTGAAGGTGTTTATTCAAGAAAAATG
255 TGCCTTCAATATTTCA-AACTCAAATTTTGAGATGCTTAATGAAGGCGTTTATTCTAGAAAAATG
16148867 CATTCATTAATTCTTTCTAATTTA
319 CATTCATTAATTC-TTCTAATTTA
16148891 CGTACATAAT
Statistics
Matches: 773, Mismatches: 105, Indels: 49
0.83 0.11 0.05
Matches are distributed among these distances:
554 46 0.06
555 323 0.42
556 112 0.14
557 2 0.00
558 1 0.00
559 40 0.05
560 167 0.22
561 77 0.10
562 5 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (553 bp):
TTGAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTTAGATTATTAAAGGGGTCTTCAAA
TGAAAAACACCTTCAATATTCCACAACTAAAATTTTGAAATGCTTAGTGAAGACTATTCTATAAT
AAACGCCTTCACTAATTCCTTCTAATTTACGTGCATAATTATTAAAGGTATTTTTTTAGAACAAA
TGCTTTCAATAATTTTTCTTAAAATTTTAGGATTATTAAAGGCGTCTTTCAGTGAAAAATGCCTT
CAATATTTCAAACTCAAATTTTGAGATGCTTAATGAAGGCGTTTATTCTAGAAAAATGCATTCAT
TAATTCTTCTAATTTATATGCATAAATATTGAAAGCATTTTTTGTGAACAAACGCCTTCAAAAAA
TTTTTCTTAAAATTTTTGGGATTATTAAAGGCATCTTCCAGTAAAAAATACCTTCAATATTTCAC
AACTCAAATTTTAAGACACTTAGTAGAGGAGTTTATTCTAAAAAAAATACATTCACTAATTCATT
CTAATTTACGTGCATAATTATTGAAGGCATCTT
Found at i:16148526 original size:742 final size:738
Alignment explanation
Indices: 16147417--16148853 Score: 1852
Period size: 742 Copynumber: 1.9 Consensus size: 738
16147407 GGATGGTTAG
* * * *
16147417 TGAAGGTGTTTCTTGAGAATAAACACCTTCAATAATTTTCTCTTAAAATTTTTAGGATTATTAAA
1 TGAAGGTATTTCTTGAGAACAAACACCTTCAAAAATTTTCTCTTAAAATTTTCAGGATTATTAAA
* * * * * * *
16147482 AGTATTTTTTAGTTAAAAATGCCTTCAATATTTCACAACTCAAATTTTTAGACGGTTAGTTGAGG
66 AGCATCTTTCAGTGAAAAATGCCTTCAATATTTCACAACTCAAATTTTGAGACGCTTAGATGAGG
* * * *
16147547 CATTTATTAAAAAGAAATGCCTTCACTAATTTCTTCTAATTTACGTGCATAATTATTAAAGGTAT
131 CATTTATTAAAAAGAAATGCATTCACTAATTACTTCTAATTTACATGCATAAATATTAAAGGTAT
* **
16147612 TTTTTTAGAACAAATGCCTTCAATAATTTTTTTAAAAAAATTTTTGAGATTATTAAAAGTGTCTT
196 TTTTTTAGAACAAACGCCTTCAATAATTTTTTT--AAAAATTTTTGAGATTATTAAAAGCATCTT
* * * *
16147677 CCAGTGAAAAATGCCTTTAATATTCGAAACTCAAATTTTGAGACGCTTAATGAAGGCGTTTATTC
259 CCAGTAAAAAATACCTTCAATATTCGAAACTCAAATTTTGAGACACTTAATGAAGGCGTTTATTC
* * * *
16147742 TAGAAAAAATGCCTTCATTAATTGCTTCTAATTTATGTGCATAATTATTGAAAGCATTTTTTGT-
324 TAGAAAAAATACATTCACTAATTGCTTCTAATTTACGTGCATAATTATTGAAAGCATTTTTT-TA
* * *
16147806 GAACAAACGCCTTCAAAAAATTTT-TCTTAAAATTTTTGGGATTATTAAAGGCGTCTTCCAGT-A
388 GAACAAACGCCTT-AAAAAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTCAAATGA
* * * * * *
16147869 GAAAATACCTTCAATATTTCACAACTCAATTTTTAAGATGGTTAGTAGATGA-GTTTATTCTAAA
452 -AAAACACCTTCAATATTCCACAACTCAAATTTTAAGATGCTTAGT-GAAGACATTTATTCTAAA
* * *
16147933 AAAAATACCTTCACTAATTCATTCTAATTTATGTGTATAATTATTGAAGGCATCTTTTGAGAACA
515 AAAAATACCTTCACTAATTCATTCTAATTTATGTGCATAATTATTAAAGACATCTTTTGAGAACA
* * * **
16147998 AACACCTTCAATAA-TTTCTCTTTAAAATTTTTGGCTTTATTAAAGGGGTCTTCCAGTGA-AAAA
580 AACACCTTCAATAATTTTCTC-TTAAAACTTTAGG-ATTATTAAAGGCATCTTCCAGT-ACAAAA
*
16148061 CACCTTCAATATTTCATAACTAAAATTTTGAAATGCTTAGTGAAGGCGTTTAAATAAACGCCTTC
642 CACCTTCAATATTTCAGAACTAAAATTTTGAAATGCTTAGTGAAGGCGTTTAAATAAACGCCTTC
16148126 ACTAATTGCTTCTAATTTACGTGCATAAATAT
707 ACTAATTGCTTCTAATTTACGTGCATAAATAT
* ** *
16148158 TGAAGGTATTTTTTGAGAACAAATGCTTTCAAAAATTTT-TGCTTAAAATTTTCAGGATTATTAA
1 TGAAGGTATTTCTTGAGAACAAACACCTTCAAAAATTTTCT-CTTAAAATTTTCAGGATTATTAA
* * * *
16148222 AGGCGTCTTTCAGTGAAAAATGTCTTCAATATTTCACAACTCAAATTTTGAGATGCTTA-ATGAA
65 AAGCATCTTTCAGTGAAAAATGCCTTCAATATTTCACAACTCAAATTTTGAGACGCTTAGATG-A
* * * * * * *
16148286 GGCGTTTATTTTAGAATAAATGCATTCACTAATTACTTCTAATTTATATGCCTAAATATTGAAGG
129 GGCATTTA-TTAAAAAGAAATGCATTCACTAATTACTTCTAATTTACATGCATAAATATTAAAGG
* * *
16148351 TGTTTTTTTTAGAACAAACGCCTTCAATAATTTTCTCTT-AAAATTTTTGGGATTATTAAAGGCA
193 T-ATTTTTTTAGAACAAACGCCTTCAATAATTTT-T-TTAAAAATTTTTGAGATTATTAAAAGCA
* * * * *
16148415 TCTTTCAGTAAAAAATACCTTCAATATTCTACAACTCAAATTTTGATACACTTAGTGAAGGGGTT
255 TCTTCCAGTAAAAAATACCTTCAATATTCGA-AACTCAAATTTTGAGACACTTAATGAAGGCGTT
*
16148480 TATTCTAG-AAAAATACATTCACTAATT-CTTTCTAATTTACGTGCATAATTATTGAAGGCATTT
319 TATTCTAGAAAAAATACATTCACTAATTGC-TTCTAATTTACGTGCATAATTATTGAAAGCATTT
* * * * *
16148543 TTTTAGAACAAACGTCTTTAATAATTTTCTCTTAAAATTTTTTAGATTATTAAAGGTGTCTTCAA
383 TTTTAGAACAAACGCCTTAAAAAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTCAA
*
16148608 ATGAAAAACACCTTCAATATTCCACAACTCAAATTTTGAGATGCTTAGTGAAGACATTTATTCTA
448 ATGAAAAACACCTTCAATATTCCACAACTCAAATTTTAAGATGCTTAGTGAAGACATTTATTCTA
* * ** * * *
16148673 TAATAAATGTCTTCACTAATTCCTTCTAATTTATGTGCATAATTATTAAAGACATTTTTTTAGAA
513 AAAAAAATACCTTCACTAATTCATTCTAATTTATGTGCATAATTATTAAAGACATCTTTTGAGAA
* *
16148738 CAAACACCTTTAATAATTTTCTCTTAAAACTTTAGGATTATTAAAGGCATCTTTCAGTACAAAAC
578 CAAACACCTTCAATAATTTTCTCTTAAAACTTTAGGATTATTAAAGGCATCTTCCAGTACAAAAC
* * * * *
16148803 GCCTTCAATATTTTAGAACTCAAATTTTGAGATGCTTAGTGAAGGTGTTTA
643 ACCTTCAATATTTCAGAACTAAAATTTTGAAATGCTTAGTGAAGGCGTTTA
16148854 TTCAAGAAAA
Statistics
Matches: 594, Mismatches: 88, Indels: 28
0.84 0.12 0.04
Matches are distributed among these distances:
740 4 0.01
741 193 0.32
742 320 0.54
743 74 0.12
744 1 0.00
745 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (738 bp):
TGAAGGTATTTCTTGAGAACAAACACCTTCAAAAATTTTCTCTTAAAATTTTCAGGATTATTAAA
AGCATCTTTCAGTGAAAAATGCCTTCAATATTTCACAACTCAAATTTTGAGACGCTTAGATGAGG
CATTTATTAAAAAGAAATGCATTCACTAATTACTTCTAATTTACATGCATAAATATTAAAGGTAT
TTTTTTAGAACAAACGCCTTCAATAATTTTTTTAAAAATTTTTGAGATTATTAAAAGCATCTTCC
AGTAAAAAATACCTTCAATATTCGAAACTCAAATTTTGAGACACTTAATGAAGGCGTTTATTCTA
GAAAAAATACATTCACTAATTGCTTCTAATTTACGTGCATAATTATTGAAAGCATTTTTTTAGAA
CAAACGCCTTAAAAAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTCAAATGAAAAA
CACCTTCAATATTCCACAACTCAAATTTTAAGATGCTTAGTGAAGACATTTATTCTAAAAAAAAT
ACCTTCACTAATTCATTCTAATTTATGTGCATAATTATTAAAGACATCTTTTGAGAACAAACACC
TTCAATAATTTTCTCTTAAAACTTTAGGATTATTAAAGGCATCTTCCAGTACAAAACACCTTCAA
TATTTCAGAACTAAAATTTTGAAATGCTTAGTGAAGGCGTTTAAATAAACGCCTTCACTAATTGC
TTCTAATTTACGTGCATAAATAT
Found at i:16149101 original size:742 final size:732
Alignment explanation
Indices: 16147596--16149123 Score: 1545
Period size: 742 Copynumber: 2.1 Consensus size: 732
16147586 TTTACGTGCA
* *
16147596 TAATTATTAAAGGTATTTTTTTAGAACAAATGCCTTCAATAATTTTTTTAAAAAAATTTTTGAGA
1 TAATTATTGAAGGTTTTTTTTTAGAACAAATGCCTTCAATAATTTTTTT--AAAAATTTTTGAGA
** * * * *
16147661 TTATTAAAAGTGTCTTCCAGTGAAAAATGCCTTTAATATTCGAAACTCAAATTTTGAGACGCTTA
64 TTATTAAAAGCATCTTCCAGTAAAAAATACCTTCAATATTCGAAACTCAAATTTTGAGACACTTA
* * * *
16147726 ATGAAGGCGTTTATTCTAGAAAAAATGCCTTCATTAATTGCTTCTAATTTATGTGCATAATTATT
129 ATGAAGGCGTTTATTCTAGAAAAAATACATTCACTAATTGCTTCTAATTTACGTGCATAATTATT
*
16147791 GAAAGCATTTTTTGTGAACAAACGCCTTCAAAAAATTTTTCTTAAAATTTTTGGGATTATTAAAG
194 GAAAGCATTTTTTGTGAACAAACGCCTTCAAAAAATTTTTCTTAAAATTTTTGAGATTATTAAAG
* * * * * * *
16147856 GCGTCTTCCAGTAGAAAATACCTTCAATATTTCACAACTCAATTTTTAAGATGGTTAGTAGATGA
259 GCGTCTTCAAATAGAAAACACCTTCAATATTCCACAACTCAAATTTTAAGATGCTTAGTAGAAGA
* * * *
16147921 GTTTATTCTAAAAAAAATACCTTCACTAATTCATTCTAATTTATGTGTATAATTATTGAAGGCAT
324 ATTTATTCTAAAAAAAATACCTTCACTAATTCATTCTAATTTATGTGCATAATTATTAAAGACAT
* * * **
16147986 CTTTTGAGAACAAACACCTTCAATAATTTCTCTTTAAAATTTTTGGCTTTATTAAAGGGGTCTTC
389 CTTTTGAGAACAAACACCTTCAATAATTTCTCTTTAAAACTTTAGGCATTATTAAAGGCATCTTC
* *
16148051 CAGTGAAAAACACCTTCAATATTTCATAACTAAAATTTTGAAATGCTTAGTGAAGGCGTTTAAAT
454 CAGTGAAAAACACCTTCAATATTTCAGAACTAAAATTTTGAAATGCTTAGTGAAGGCGTTTAAAA
* * * * *
16148116 AAACGCCTTCACTAATTGCTTCTAATTTACGTGCATAAATATTGAAGGTATTTTTTGAGAACAAA
519 AAACGCATTCACTAATTGCTTCTAATTTACGTACATAAATATTGAAGGGATTATCTGAGAACAAA
* * * * * *
16148181 TGCTTTCAAAAATTTTTGCTTAAAATTTTCAGGATTATTAAAGGCGTCTTTCAGTGAAAAATGTC
584 TGCCTTCAAAAATTTTTG------A--TTCAGAATTATCAAAGGCCTCTTTCAGTGAAAAACGCC
* * * * * * * * * * **
16148246 TTCAATATTTCACAACTCAAATTTTGAGATGCTTAATGAAGGCGTTTATTTTAGAATAAATGCAT
641 TTAAAAATTTCACAAATCAAATTTTGAGATACTAAAAGAAGGCGTTTATGTAAAAAAAAAAACAT
* * *
16148311 TCACTAATTACTTCTAATTTATATGCC
706 TCAATAATTACTTATAATTTATAAGCC
* * *
16148338 TAAATATTGAAGGTGTTTTTTTTAGAACAAACGCCTTCAATAATTTTCTCTT-AAAATTTTTGGG
1 TAATTATTGAAGGT-TTTTTTTTAGAACAAATGCCTTCAATAATTTT-T-TTAAAAATTTTTGAG
* * * *
16148402 ATTATTAAAGGCATCTTTCAGTAAAAAATACCTTCAATATTCTACAACTCAAATTTTGATACACT
63 ATTATTAAAAGCATCTTCCAGTAAAAAATACCTTCAATATTCGA-AACTCAAATTTTGAGACACT
* *
16148467 TAGTGAAGGGGTTTATTCTAG-AAAAATACATTCACTAATT-CTTTCTAATTTACGTGCATAATT
127 TAATGAAGGCGTTTATTCTAGAAAAAATACATTCACTAATTGC-TTCTAATTTACGTGCATAATT
* * * * *
16148530 ATTGAAGGCATTTTTT-TAGAACAAACGTCTT-TAATAATTTTCTCTTAAAATTTTTTAGATTAT
191 ATTGAAAGCATTTTTTGT-GAACAAACGCCTTCAAAAAATTTT-TCTTAAAATTTTTGAGATTAT
* *
16148593 TAAAGGTGTCTTCAAAT-GAAAAACACCTTCAATATTCCACAACTCAAATTTTGAGATGCTTAGT
254 TAAAGGCGTCTTCAAATAG-AAAACACCTTCAATATTCCACAACTCAAATTTTAAGATGCTTAGT
* * ** *
16148657 -GAAGACATTTATTCTATAATAAATGTCTTCACTAATTCCTTCTAATTTATGTGCATAATTATTA
318 AGAAGA-ATTTATTCTAAAAAAAATACCTTCACTAATTCATTCTAATTTATGTGCATAATTATTA
* * *
16148721 AAGACATTTTTTTAGAACAAACACCTTTAATAATTT-TCTCTTAAAACTTTAGG-ATTATTAAAG
382 AAGACATCTTTTGAGAACAAACACCTTCAATAATTTCTCT-TTAAAACTTTAGGCATTATTAAAG
* * * * *
16148784 GCATCTTTCAGT-ACAAAACGCCTTCAATATTTTAGAACTCAAATTTTGAGATGCTTAGTGAAGG
446 GCATCTTCCAGTGA-AAAACACCTTCAATATTTCAGAACTAAAATTTTGAAATGCTTAGTGAAGG
* * * *
16148848 TGTTTATTCAAGAAAAATGCATTCATTAATT-CTTTCTAATTTACGTACATAATTATTGAAGGCG
510 CG--T-TT-AA-AAAAACGCATTCACTAATTGC-TTCTAATTTACGTACATAAATATTGAAGG-G
* * * *
16148912 GTTATCT-ACTG-A-AAATGCCTTCAATAATTTTTG-TTCAGAATTATCAAAGGCACTTTTTTAG
568 ATTATCTGA--GAACAAATGCCTTCAAAAATTTTTGATTCAGAATTATCAAAGGC-CTCTTTCAG
* * * * * * * *
16148973 T-AGAAACGCCTTTAAAAATTTCTTTTCAAAAT-TATTTTTTAGATTACTAAAAGCA-TCTTTTA
630 TGAAAAACGCC-TTAAAAATTTC---AC-AAATCAAATTTTGAGA-TACTAAAAGAAGGCGTTTA
* **
16149035 -GTAAAAAAAAAAACATATTTAATAATCT-CTAAGTATAATTT-TAAGGG
689 TGTAAAAAAAAAAAC--ATTCAATAAT-TACT---TATAATTTATAAGCC
*
16149082 T-ATTATTGAAGGTTTTTTTTTTAGAA-AAATGCCTTTAATAAT
1 TAATTATTGAAGG-TTTTTTTTTAGAACAAATGCCTTCAATAAT
16149124 AAATTTTATA
Statistics
Matches: 644, Mismatches: 108, Indels: 68
0.79 0.13 0.08
Matches are distributed among these distances:
737 22 0.03
738 16 0.02
740 9 0.01
741 96 0.15
742 322 0.50
743 91 0.14
744 8 0.01
745 12 0.02
746 62 0.10
747 5 0.01
748 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (732 bp):
TAATTATTGAAGGTTTTTTTTTAGAACAAATGCCTTCAATAATTTTTTTAAAAATTTTTGAGATT
ATTAAAAGCATCTTCCAGTAAAAAATACCTTCAATATTCGAAACTCAAATTTTGAGACACTTAAT
GAAGGCGTTTATTCTAGAAAAAATACATTCACTAATTGCTTCTAATTTACGTGCATAATTATTGA
AAGCATTTTTTGTGAACAAACGCCTTCAAAAAATTTTTCTTAAAATTTTTGAGATTATTAAAGGC
GTCTTCAAATAGAAAACACCTTCAATATTCCACAACTCAAATTTTAAGATGCTTAGTAGAAGAAT
TTATTCTAAAAAAAATACCTTCACTAATTCATTCTAATTTATGTGCATAATTATTAAAGACATCT
TTTGAGAACAAACACCTTCAATAATTTCTCTTTAAAACTTTAGGCATTATTAAAGGCATCTTCCA
GTGAAAAACACCTTCAATATTTCAGAACTAAAATTTTGAAATGCTTAGTGAAGGCGTTTAAAAAA
ACGCATTCACTAATTGCTTCTAATTTACGTACATAAATATTGAAGGGATTATCTGAGAACAAATG
CCTTCAAAAATTTTTGATTCAGAATTATCAAAGGCCTCTTTCAGTGAAAAACGCCTTAAAAATTT
CACAAATCAAATTTTGAGATACTAAAAGAAGGCGTTTATGTAAAAAAAAAAACATTCAATAATTA
CTTATAATTTATAAGCC
Found at i:16149555 original size:28 final size:24
Alignment explanation
Indices: 16149524--16149574 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 24
16149514 TATTATTTTG
16149524 CTGAATGGTATTGTATGATATTGGTGTC
1 CTGAATGGT-TTG-ATGA-A-TGGTGTC
16149552 CTGAATGGTTTGATGAATGGTGT
1 CTGAATGGTTTGATGAATGGTGT
16149575 TTTTGAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.26
25 1 0.04
26 4 0.17
27 3 0.13
28 9 0.39
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.41
Consensus pattern (24 bp):
CTGAATGGTTTGATGAATGGTGTC
Found at i:16152755 original size:35 final size:35
Alignment explanation
Indices: 16152709--16152776 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
16152699 CATATATAAA
*
16152709 TCAAATATTTTCTGGGCATAAATATACAACTGACT
1 TCAAATATTTTCTAGGCATAAATATACAACTGACT
* *
16152744 TCAAATGTTTTCTAGGCATAAATCTACAACTGA
1 TCAAATATTTTCTAGGCATAAATATACAACTGA
16152777 TTTGACATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (35 bp):
TCAAATATTTTCTAGGCATAAATATACAACTGACT
Found at i:16154757 original size:11 final size:11
Alignment explanation
Indices: 16154743--16154767 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16154733 TTTTAAATAC
16154743 GTGCAATGTAT
1 GTGCAATGTAT
16154754 GTGCAATGTAT
1 GTGCAATGTAT
16154765 GTG
1 GTG
16154768 TGATACATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (11 bp):
GTGCAATGTAT
Found at i:16155132 original size:75 final size:78
Alignment explanation
Indices: 16155000--16155199 Score: 239
Period size: 78 Copynumber: 2.6 Consensus size: 78
16154990 TTCTTTTAAA
* * ** * *
16155000 ATTAAAATTAAATATTATTAATTTAATCAAAATCAAATTAAATTAAGAATTAAAATTAATT-A-A
1 ATTAAAAATAAATATAATTAATTTGGTTAAAATCAAA-TCAATTAAGAATTAAAATTAATTGATA
*
16155063 GAGAGA-TTTAATG-T
65 GA-AAATTTTAA-GCT
* * *
16155077 ATT-AAAGTAAATCTAATTAATTTTGTTAAAATCAAATCAATTAAGAATTAAAATTAATTGATAG
1 ATTAAAAATAAATATAATTAATTTGGTTAAAATCAAATCAATTAAGAATTAAAATTAATTGATAG
16155141 AAAATTTTAAGCT
66 AAAATTTTAAGCT
16155154 ATTAAAAATAAATATAATTAATTTGGTTAAAATCAAATCAAATTAA
1 ATTAAAAATAAATATAATTAATTTGGTTAAAATCAAATC-AATTAA
16155200 ATCAAATTTA
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
75 22 0.21
76 31 0.29
77 15 0.14
78 32 0.30
79 6 0.06
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37
Consensus pattern (78 bp):
ATTAAAAATAAATATAATTAATTTGGTTAAAATCAAATCAATTAAGAATTAAAATTAATTGATAG
AAAATTTTAAGCT
Found at i:16156487 original size:11 final size:11
Alignment explanation
Indices: 16156469--16156510 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
16156459 AATCTCATAA
16156469 GAGATTTGTTT
1 GAGATTTGTTT
* *
16156480 GGGATTTGTTA
1 GAGATTTGTTT
16156491 GAGATTTGTTT
1 GAGATTTGTTT
16156502 GAGATTTGT
1 GAGATTTGT
16156511 CAGATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:16156493 original size:22 final size:22
Alignment explanation
Indices: 16156468--16156510 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
16156458 AAATCTCATA
*
16156468 AGAGATTTGTTTGGGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
16156490 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
16156511 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:16156622 original size:52 final size:53
Alignment explanation
Indices: 16156535--16156691 Score: 203
Period size: 52 Copynumber: 3.0 Consensus size: 53
16156525 TGGACAAAAA
* *
16156535 GACTTGCAAAAGAAGAATTCTAAGA-GAAAAGAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGAGATTCTTAATAGGCAAGTTT
* *
16156587 GACTTGTAAGAGAAGAATTCTAAAAGGAAAA-AGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGAGATTCTTAATAGGCAAGTTT
* * * * * *
16156639 AACTTACAAGAGAAGAATTCTAAGAGG-AGAGGGATTTTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGAGATTCTTAATAGGCAAGTTT
16156691 G
1 G
16156692 TATGGTTATA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.92
53 5 0.06
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.27
Consensus pattern (53 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGAGATTCTTAATAGGCAAGTTT
Found at i:16157535 original size:11 final size:11
Alignment explanation
Indices: 16157517--16157558 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
16157507 AATCTTATAA
16157517 GAGATTTGTTT
1 GAGATTTGTTT
* *
16157528 GGGATTTGTTA
1 GAGATTTGTTT
16157539 GAGATTTGTTT
1 GAGATTTGTTT
16157550 GAGATTTGT
1 GAGATTTGT
16157559 CAGATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:16157544 original size:22 final size:22
Alignment explanation
Indices: 16157516--16157558 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
16157506 AAATCTTATA
*
16157516 AGAGATTTGTTTGGGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
16157538 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
16157559 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:16157672 original size:52 final size:53
Alignment explanation
Indices: 16157584--16157714 Score: 194
Period size: 52 Copynumber: 2.5 Consensus size: 53
16157574 GGACAAGAAG
* * * *
16157584 ACTTGCAAAAGAAGAATTCTAAGA-GAAAGAAGATTCTTAATAGATAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAGAGGAAAGAAGATTCTTAATAGACAAGTTTA
* *
16157636 ACTTATAAGAGAAGAATTCTAAAAGGAAAGAA-ATTCTTAATAGACAAGTTTA
1 ACTTACAAGAGAAGAATTCTAAGAGGAAAGAAGATTCTTAATAGACAAGTTTA
16157688 ACTTACAAGAGAAGAATTCTAAGAGGA
1 ACTTACAAGAGAAGAATTCTAAGAGGA
16157715 GAGGGGTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
52 63 0.90
53 7 0.10
ACGTcount: A:0.48, C:0.08, G:0.18, T:0.25
Consensus pattern (53 bp):
ACTTACAAGAGAAGAATTCTAAGAGGAAAGAAGATTCTTAATAGACAAGTTTA
Found at i:16157728 original size:52 final size:52
Alignment explanation
Indices: 16157584--16157738 Score: 186
Period size: 52 Copynumber: 3.0 Consensus size: 52
16157574 GGACAAGAAG
* * * *
16157584 ACTTGCAAAAGAAGAATTCTAAGA-GAAAGAAGATTCTTAATAGATAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAGAGGAAAG-AGATTCTTAATAGACAAGTTTA
* * *
16157636 ACTTATAAGAGAAGAATTCTAAAAGGAAAGAAATTCTTAATAGACAAGTTTA
1 ACTTACAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGACAAGTTTA
* * * * *
16157688 ACTTACAAGAGAAGAATTCTAAGAGGAGAGGGGTTTTTAATGGACAAGTTT
1 ACTTACAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGACAAGTTT
16157739 GTATGGTTAT
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 82 0.94
53 5 0.06
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.27
Consensus pattern (52 bp):
ACTTACAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGACAAGTTTA
Found at i:16159952 original size:27 final size:27
Alignment explanation
Indices: 16159914--16159969 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
16159904 ATAAAATTGC
16159914 TAACTTGGGAGCTACTTTTGGTAATGT
1 TAACTTGGGAGCTACTTTTGGTAATGT
16159941 TAACTTGGGAGCTACTTTTGGTAATGT
1 TAACTTGGGAGCTACTTTTGGTAATGT
16159968 TA
1 TA
16159970 GTTACGTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.41
Consensus pattern (27 bp):
TAACTTGGGAGCTACTTTTGGTAATGT
Found at i:16160213 original size:18 final size:18
Alignment explanation
Indices: 16160190--16160238 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
16160180 ATTGAACATA
* *
16160190 TAATAAAATTTATCAATT
1 TAATAAAATTTATAAAGT
16160208 TAATAAAATTT-TAAAGT
1 TAATAAAATTTATAAAGT
16160225 TAATTAAAATTTAT
1 TAA-TAAAATTTAT
16160239 TAAAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 19 0.70
19 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
TAATAAAATTTATAAAGT
Found at i:16161849 original size:33 final size:33
Alignment explanation
Indices: 16161762--16161849 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 33
16161752 CTACACTTGT
* *
16161762 TTTAAAAAATTATAATGAACAATTATTGCATATAA
1 TTTAAAAAA-AATAATG-ACAATAATTGCATATAA
*
16161797 CTTAAAAAAAA-AA-G-CAATAATTG-AT-TAA
1 TTTAAAAAAAATAATGACAATAATTGCATATAA
16161825 TTTAAAAAAAGATAATGTACAATAA
1 TTTAAAAAAA-ATAATG-ACAATAA
16161850 CTAAATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
28 12 0.27
29 3 0.07
30 10 0.23
31 1 0.02
32 1 0.02
33 8 0.18
34 1 0.02
35 8 0.18
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.31
Consensus pattern (33 bp):
TTTAAAAAAAATAATGACAATAATTGCATATAA
Found at i:16164792 original size:6 final size:6
Alignment explanation
Indices: 16164778--16164905 Score: 85
Period size: 6 Copynumber: 21.7 Consensus size: 6
16164768 TAGGTATATG
*
16164778 TTTTT- TTTTTA -TTTT- TTTTTA -TTTTA TTTTTG TTTTTA TTATTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -T-TTTTA
* * *
16164824 TTATTT- TTTATTA TTTTTA -TTCTA TTTCTA -TTTTA TTTTTA TTATTA
1 TT-TTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
16164871 TTTTATA TTTTT- TTTCTT- CTTTTA TTTTTTA TTTT
1 TTTT-TA TTTTTA TTT-TTA TTTTTA -TTTTTA TTTT
16164906 AGCTATTTAC
Statistics
Matches: 100, Mismatches: 8, Indels: 29
0.73 0.06 0.21
Matches are distributed among these distances:
5 32 0.32
6 44 0.44
7 19 0.19
8 5 0.05
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:16164825 original size:35 final size:33
Alignment explanation
Indices: 16164778--16164900 Score: 117
Period size: 35 Copynumber: 3.5 Consensus size: 33
16164768 TAGGTATATG
16164778 TTTTTT-TTTTATTTTTTTTTATTTTATTTTTGT
1 TTTTTTATTTTATTTTTTTTTATTTTATTTTT-T
*
16164811 TTTTATTATTTTATTATTTTTTA--TTATTTTTAT
1 TTTT-TTATTTTATTTTTTTTTATTTTATTTTT-T
16164844 TCTATTTCTATTTTATTTTTATTATTATTTTATATTTTT
1 T-T-TTT-TATTTTATTTTT-TT-TTATTTTAT-TTTTT
* *
16164883 TTTCTTCTTTTATTTTTT
1 TTTTTTATTTTATTTTTT
16164901 ATTTTAGCTA
Statistics
Matches: 75, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
33 14 0.19
34 4 0.05
35 28 0.37
36 13 0.17
37 5 0.07
38 1 0.01
39 6 0.08
40 4 0.05
ACGTcount: A:0.15, C:0.03, G:0.01, T:0.80
Consensus pattern (33 bp):
TTTTTTATTTTATTTTTTTTTATTTTATTTTTT
Found at i:16164850 original size:44 final size:44
Alignment explanation
Indices: 16164782--16164903 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
16164772 TATATGTTTT
* *
16164782 TTTTTTATTTTTTTTTATTTTATTTTTGTTTTTATTATT-TTATTA
1 TTTTTTA-TTTTTTTTATTCTATTTAT-TTTTTATTATTATTATTA
* * * *
16164827 TTTTTTATTATTTTTATTCTATTTCTATTTTATTTTTATTATTA
1 TTTTTTATTTTTTTTATTCTATTTATTTTTTATTATTATTATTA
* *
16164871 TTTTATATTTTTTTTCTTCT-TTTATTTTTTATT
1 TTTTTTATTTTTTTTATTCTATTTATTTTTTATT
16164904 TTAGCTATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
43 20 0.30
44 39 0.59
45 7 0.11
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.80
Consensus pattern (44 bp):
TTTTTTATTTTTTTTATTCTATTTATTTTTTATTATTATTATTA
Found at i:16164863 original size:49 final size:50
Alignment explanation
Indices: 16164779--16164905 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 50
16164769 AGGTATATGT
* * *
16164779 TTTTTTTTTATTTTTTTTTATTTTATTTTTGTTTTTATTATT-TTAT-TA
1 TTTTTTATTATTTTTTTCTATTTTATTTTTATTTTTATTATTATTATATA
*
16164827 TTTTTTATTATTTTTATTCTATTTCTA-TTTTATTTTTATTATTATTTTATA
1 TTTTTTATTATTTTT-TTCTATTT-TATTTTTATTTTTATTATTATTATATA
* * * *
16164878 TTTTTT-TTCTTCTTTTATTTTTTATTTT
1 TTTTTTATTATTTTTTTCTATTTTATTTT
16164906 AGCTATTTAC
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
48 16 0.24
49 31 0.47
50 11 0.17
51 8 0.12
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.80
Consensus pattern (50 bp):
TTTTTTATTATTTTTTTCTATTTTATTTTTATTTTTATTATTATTATATA
Found at i:16164898 original size:41 final size:41
Alignment explanation
Indices: 16164782--16164887 Score: 115
Period size: 41 Copynumber: 2.5 Consensus size: 41
16164772 TATATGTTTT
* * * *
16164782 TTTTTTATTTTTTTTTATTTTATTTTTGTTTTTATTATTTTATTA
1 TTTTTTA-TTATTTTTATTCTATTTCT-ATTTTA-T-TTTTATTA
16164827 TTTTTTATTATTTTTATTCTATTTCTATTTTATTTTTATTA
1 TTTTTTATTATTTTTATTCTATTTCTATTTTATTTTTATTA
*
16164868 TTATTTTA-TATTTTTTTTCT
1 TT-TTTTATTATTTTTATTCT
16164888 TCTTTTATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
41 21 0.38
42 6 0.11
43 5 0.09
44 16 0.29
45 7 0.13
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (41 bp):
TTTTTTATTATTTTTATTCTATTTCTATTTTATTTTTATTA
Found at i:16165023 original size:20 final size:21
Alignment explanation
Indices: 16164994--16165038 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
16164984 ATGTATTTAA
16164994 TTTTAATTATCTG-TTAATTT
1 TTTTAATTATCTGATTAATTT
* *
16165014 TTTTATTTATCTGATTTATTT
1 TTTTAATTATCTGATTAATTT
16165035 TTTT
1 TTTT
16165039 TTGAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTAATTATCTGATTAATTT
Found at i:16165064 original size:13 final size:13
Alignment explanation
Indices: 16165027--16165069 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
16165017 TATTTATCTG
16165027 ATTTA-TTTTTTT
1 ATTTATTTTTTTT
* *
16165039 -TTGAATTTTTTT
1 ATTTATTTTTTTT
16165051 ATTTATTTTTTTT
1 ATTTATTTTTTTT
16165064 ATTTAT
1 ATTTAT
16165070 CTGGCTGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 3 0.12
12 7 0.27
13 16 0.62
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (13 bp):
ATTTATTTTTTTT
Found at i:16165517 original size:11 final size:11
Alignment explanation
Indices: 16165473--16165520 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
16165463 CAAAAATCGG
*
16165473 CGAACTTTCGA
1 CGAACTTCCGA
* *
16165484 TGAACTTCCGG
1 CGAACTTCCGA
*
16165495 TGAACTTCCGA
1 CGAACTTCCGA
16165506 CGAACTTCCGA
1 CGAACTTCCGA
16165517 CGAA
1 CGAA
16165521 AAAACCCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (11 bp):
CGAACTTCCGA
Found at i:16165928 original size:24 final size:23
Alignment explanation
Indices: 16165880--16165928 Score: 55
Period size: 24 Copynumber: 2.0 Consensus size: 23
16165870 ACCGCTCCAG
*
16165880 ATTTTTTTTTTGAATTTATTTATT
1 ATTTTTTTTTT-AATTTATTGATT
16165904 ATTTATTTTTTT-ATTTATTAGATT
1 ATTT-TTTTTTTAATTTATT-GATT
16165928 A
1 A
16165929 GGTTTAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 7 0.32
24 8 0.36
25 7 0.32
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (23 bp):
ATTTTTTTTTTAATTTATTGATT
Found at i:16165968 original size:22 final size:22
Alignment explanation
Indices: 16165940--16166003 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
16165930 GTTTAGTTAA
16165940 TTTTTTTATCTTTATTTTTTTT
1 TTTTTTTATCTTTATTTTTTTT
16165962 TTTTTTT-TACTTT-TCTTTATTTT
1 TTTTTTTAT-CTTTAT-TTT-TTTT
*
16165985 ATTTTTTAT-TTTCATTTTT
1 TTTTTTTATCTTT-ATTTTT
16166004 ATTTAGTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
21 2 0.06
22 18 0.51
23 13 0.37
24 2 0.06
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTTTATCTTTATTTTTTTT
Found at i:16165992 original size:12 final size:12
Alignment explanation
Indices: 16165941--16166007 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
16165931 TTTAGTTAAT
16165941 TTTTTTATCTTTA
1 TTTTTTAT-TTTA
16165954 TTTTTT-TTTT-
1 TTTTTTATTTTA
*
16165964 TTTTTTA-CTT-
1 TTTTTTATTTTA
*
16165974 TTCTTTATTTTA
1 TTTTTTATTTTA
16165986 TTTTTTATTTTCA
1 TTTTTTATTTT-A
16165999 -TTTTTATTT
1 TTTTTTATTT
16166008 AGTTTTATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
10 14 0.30
11 5 0.11
12 20 0.43
13 7 0.15
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:16166002 original size:27 final size:28
Alignment explanation
Indices: 16165948--16166016 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
16165938 AATTTTTTTA
* *
16165948 TCTTTATTTT-TTTTTTTTTTTTACTTT
1 TCTTTATTTTATTTTTTATTTTCACTTT
*
16165975 TCTTTATTTTATTTTTTATTTTCATTTT
1 TCTTTATTTTATTTTTTATTTTCACTTT
*
16166003 TATTTAGTTTTATT
1 TCTTTA-TTTTATT
16166017 ATTCAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 10 0.28
28 19 0.53
29 7 0.19
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.80
Consensus pattern (28 bp):
TCTTTATTTTATTTTTTATTTTCACTTT
Found at i:16166003 original size:7 final size:6
Alignment explanation
Indices: 16165942--16166007 Score: 53
Period size: 6 Copynumber: 10.5 Consensus size: 6
16165932 TTAGTTAATT
* * *
16165942 TTTTTA TCTTTA TTTTT- TTTTTT TTTTTA CTTTTCTT TATTTTA TTTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA T-TTTTA -TTTTTA
*
16165993 TTTTCA TTTTTA TTT
1 TTTTTA TTTTTA TTT
16166008 AGTTTTATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 5 0.10
6 27 0.56
7 11 0.23
8 5 0.10
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:16166021 original size:23 final size:22
Alignment explanation
Indices: 16165988--16166031 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
16165978 TTATTTTATT
*
16165988 TTTTATTTTCATTTTTATTTAG
1 TTTTATTTTCAATTTTATTTAG
*
16166010 TTTTATTATTCAATTTTCTTTA
1 TTTTATT-TTCAATTTTATTTA
16166032 AATAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTATTTTCAATTTTATTTAG
Found at i:16166090 original size:57 final size:56
Alignment explanation
Indices: 16166019--16166333 Score: 278
Period size: 58 Copynumber: 5.4 Consensus size: 56
16166009 GTTTTATTAT
* *
16166019 TCAATTTT-CTTTAAATAAAAATAAAAAATATATATTTTTGGGAAAAAGTTGAAAGTA
1 TCAATTTTCCTTAAAATAAAATTAAAAAA-A-ATATTTTTGGGAAAAAGTTGAAAGTA
* * *
16166076 TCAATTTTTCTTAAAAATAAAATTTCAAAAAAGT-TTTTTGAGG-AAAAGTTGAAAGTA
1 TCAATTTTCCTT-AAAATAAAA-TTAAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTA
* * ***
16166133 TCAATTTTCCTTAAAAATAAAATTTCAAAAAAATGTTTTTTTTTAAGAAAAGTTGAAAGTA
1 TCAATTTTCCTT-AAAATAAAA-TT-AAAAAAA-ATATTTTTGGGA-AAAAGTTGAAAGTA
* *** *
16166194 TCAATTTTCCTTGCAAATCAAAATTTTCAAAAATATTTTT-GAAGAAAAGTTGAAAGTA
1 TCAATTTTCCTT-AAAAT-AAAATTAAAAAAAATATTTTTGGGA-AAAAGTTGAAAGTA
*** *
16166252 TCAATTTTCCTTGAAAATCAAAATTTTCAAAAATATTTTTGAGAAAAAGTTGAAAGTA
1 TCAATTTTCCTT-AAAAT-AAAATTAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTA
*
16166310 TCAATTTTTCTTAAAAATAAAATT
1 TCAATTTTCCTT-AAAATAAAATT
16166334 TTCTTAAAAA
Statistics
Matches: 225, Mismatches: 22, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
57 58 0.26
58 98 0.44
59 18 0.08
60 15 0.07
61 32 0.14
62 4 0.02
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.38
Consensus pattern (56 bp):
TCAATTTTCCTTAAAATAAAATTAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTA
Found at i:16166352 original size:16 final size:17
Alignment explanation
Indices: 16166315--16166351 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
16166305 AAGTATCAAT
16166315 TTTTCTTAAAAATAAAA
1 TTTTCTTAAAAATAAAA
16166332 TTTTCTTAAAAATAAAA
1 TTTTCTTAAAAATAAAA
16166349 TTT
1 TTT
16166352 CAAAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTTCTTAAAAATAAAA
Found at i:16166357 original size:58 final size:58
Alignment explanation
Indices: 16166062--16166345 Score: 357
Period size: 58 Copynumber: 4.8 Consensus size: 58
16166052 ATTTTTGGGA
* *
16166062 AAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAA-TTTCAAAAA-AGTTTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTCAAAAATA--TTTTTGAAG
* *
16166119 AAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAA-TTTCAAAAAAATGTTTTTTTTTAAG
1 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTC--AAAAA---TATTTTTGAAG
**
16166180 AAAAGTTGAAAGTATCAATTTTCCTTGCAAATCAAAATTTTCAAAAATATTTTTGAAG
1 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTCAAAAATATTTTTGAAG
*
16166238 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAAAATATTTTTG-AG
1 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTCAAAAATATTTTTGAAG
*
16166295 AAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTTTCTTAAAAATA
1 -AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTC--AAAAATA
16166346 AAATTTCAAA
Statistics
Matches: 205, Mismatches: 11, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
57 50 0.24
58 93 0.45
59 12 0.06
61 42 0.20
62 4 0.02
63 4 0.02
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (58 bp):
AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTCAAAAATATTTTTGAAG
Found at i:16166358 original size:16 final size:17
Alignment explanation
Indices: 16166322--16166359 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16166312 AATTTTTCTT
**
16166322 AAAAATAAAATTTTCTT
1 AAAAATAAAATTTTCAA
16166339 AAAAATAAAA-TTTCAA
1 AAAAATAAAATTTTCAA
16166355 AAAAA
1 AAAAA
16166360 AGGTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATAAAATTTTCAA
Found at i:16166398 original size:61 final size:60
Alignment explanation
Indices: 16166332--16166578 Score: 322
Period size: 61 Copynumber: 4.1 Consensus size: 60
16166322 AAAAATAAAA
16166332 TTTTCTTAAAAATAAAATTTCAAAAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAATAAAATTTC-AAAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAAT
*
16166393 TTTTCTTAAAAATAAAATTTC-AAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATTAAT
1 TTTTCTTAAAAATAAAATTTCAAAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAAT
* * *
16166452 TTTTCTTGAAAATCAAAATTTTCAAAAAAA--TATTTCTTGGGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAAT-AAAA-TTTCAAAAAAAGGT-TTTTTTGAGGAAAAGTTGAAAGTATCAAT
* ** * *
16166513 TTTTCTTAAAAAAATAAATTT-AAAAAAAAATCAATTTTTGGGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAATA-AAATTTCAAAAAAAGGT--TTTTTTGAGGAAAAGTTGAAAGTATCAAT
16166575 TTTT
1 TTTT
16166579 TCTGCACAAG
Statistics
Matches: 169, Mismatches: 9, Indels: 15
0.88 0.05 0.08
Matches are distributed among these distances:
59 56 0.33
60 9 0.05
61 66 0.39
62 38 0.22
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (60 bp):
TTTTCTTAAAAATAAAATTTCAAAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAAT
Done.