Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 11 of 160
Found at i:3383044 original size:26 final size:27
Alignment explanation
Indices: 3383003--3383057 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
3382993 TATAAATTTT
3383003 AAAAATCATAATTTTAATCAATAAATA
1 AAAAATCATAATTTTAATCAATAAATA
*
3383030 AAAAATTATAA-TTTAATCAATAAATA
1 AAAAATCATAATTTTAATCAATAAATA
3383056 AA
1 AA
3383058 TTATTTTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAAATCATAATTTTAATCAATAAATA
Found at i:3383461 original size:30 final size:30
Alignment explanation
Indices: 3383425--3383487 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
3383415 AGCCCTCGTT
*
3383425 ACCTCTGCTCTATAGATATTATCATAATTC
1 ACCTCTGCTCTATAGATATTATCATAATGC
3383455 ACCTCTGCTCTATAGATATTATCATAATGC
1 ACCTCTGCTCTATAGATATTATCATAATGC
3383485 ACC
1 ACC
3383488 AAAGGAGAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
ACCTCTGCTCTATAGATATTATCATAATGC
Found at i:3385845 original size:12 final size:12
Alignment explanation
Indices: 3385828--3385853 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3385818 ACCAATAATC
3385828 AAGCAAAATAGA
1 AAGCAAAATAGA
3385840 AAGCAAAATAGA
1 AAGCAAAATAGA
3385852 AA
1 AA
3385854 TACAATCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (12 bp):
AAGCAAAATAGA
Found at i:3394853 original size:20 final size:21
Alignment explanation
Indices: 3394828--3394869 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3394818 CTTTAACATG
3394828 TTTTTC-TCTTTATCACTTTT
1 TTTTTCTTCTTTATCACTTTT
* *
3394848 TTTTTCTTTTTTATCTCTTTT
1 TTTTTCTTCTTTATCACTTTT
3394869 T
1 T
3394870 CAACCTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTCTTCTTTATCACTTTT
Found at i:3394906 original size:2 final size:2
Alignment explanation
Indices: 3394899--3394926 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3394889 AGCGAAATCC
3394899 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
3394927 GTTACACTAA
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:3399587 original size:3 final size:3
Alignment explanation
Indices: 3399579--3399621 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
3399569 AGTGAAATGC
* *
3399579 TGA TGA TGA TGA TGA TGGA TGA TGGA TGG TGA TGA AGA TGA TG
1 TGA TGA TGA TGA TGA T-GA TGA T-GA TGA TGA TGA TGA TGA TG
3399622 TATGTCTGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
3 28 0.82
4 6 0.18
ACGTcount: A:0.30, C:0.00, G:0.40, T:0.30
Consensus pattern (3 bp):
TGA
Found at i:3402265 original size:16 final size:16
Alignment explanation
Indices: 3402244--3402274 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3402234 GCCCTTTACA
3402244 TATATATATATACATG
1 TATATATATATACATG
*
3402260 TATATATTTATACAT
1 TATATATATATACAT
3402275 AAAAATATAA
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:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (16 bp):
TATATATATATACATG
Found at i:3403161 original size:12 final size:13
Alignment explanation
Indices: 3403116--3403165 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
3403106 CATAATTAAT
* *
3403116 ATATAAGATTATG
1 ATATAATATTATA
*
3403129 ATA-ATATAATATA
1 ATATA-ATATTATA
3403142 ATATAATATTATA
1 ATATAATATTATA
3403155 A-ATAATATTAT
1 ATATAATATTAT
3403166 TTTATTTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 11 0.35
13 19 0.61
14 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (13 bp):
ATATAATATTATA
Found at i:3403229 original size:20 final size:20
Alignment explanation
Indices: 3403206--3403251 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
3403196 AAAATAAATT
* *
3403206 TATTTATTTTAATTTTTATA
1 TATTTATTTAAAATTTTATA
3403226 TATTT-TTTAAAATTTTATA
1 TATTTATTTAAAATTTTATA
3403245 TAATTTA
1 T-ATTTA
3403252 ATATGTAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTATTTAAAATTTTATA
Found at i:3404330 original size:34 final size:34
Alignment explanation
Indices: 3404255--3404330 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
3404245 AAAATAGAAT
* * * * *
3404255 TTCTCATAAATAAATATTCAAAAAGTTTTGAAAT
1 TTCTCAAAAATAAATATCCAAAAAGCTTTAAAAA
* *
3404289 TTTTCAAAAATAAATATCCAATAAGCTTTAAAAA
1 TTCTCAAAAATAAATATCCAAAAAGCTTTAAAAA
3404323 TTCTCAAA
1 TTCTCAAA
3404331 TATTCATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.36
Consensus pattern (34 bp):
TTCTCAAAAATAAATATCCAAAAAGCTTTAAAAA
Found at i:3405202 original size:21 final size:22
Alignment explanation
Indices: 3405160--3405204 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
3405150 ATTCCAACTT
***
3405160 TTATTTTAATATATATTTTTTA
1 TTATTTTAATATATAAAATTTA
3405182 TTATTTTAAT-TATAAAATTTA
1 TTATTTTAATATATAAAATTTA
3405203 TT
1 TT
3405205 TTTACCTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTTTAATATATAAAATTTA
Found at i:3408273 original size:110 final size:107
Alignment explanation
Indices: 3408160--3408750 Score: 440
Period size: 110 Copynumber: 5.4 Consensus size: 107
3408150 AAATTTTCAA
* * * *
3408160 AAAAATTATGATTAAAAATACAAATTTTGTTAAAAAGATAAAAAAATGATATTTTATAATTTAAT
1 AAAATTTATGATTAAAAATA-AATTTTTGTTAAAAATATAAAAAAAT-AT-TTTTAAAATTTAAT
**
3408225 -AAAATGATGTTTTTAAGATAAAAAATGGTTTTTGTTAAAAATAT
63 AAAAATGATGTTTTTAAGATAAAAAATAATTTTTGTTAAAAATAT
** **** *
3408269 AAAA-AAAT-ATTTTTCA-AAATTTATGTTAAAAATATAAAAAAATATTTTTCAAAATTT-ATCA
1 AAAATTTATGATTAAAAATAAATTTTTGTTAAAAATATAAAAAAATATTTTT-AAAATTTAAT-A
* * *
3408330 AAAATTACGTTTTTAAGATAAAAAATATAATTTTTGTTAAAAAAAT
64 AAAATGATGTTTTTAAGAT-AAAAA-ATAATTTTTGTTAAAAATAT
*** *
3408376 GATTGTTTATAAGA-TAAAAAT-AGTTTTTGTTAAAAATAT-AAAAAATATTTTTAAAAATTTAA
1 -AAAATTTAT--GATTAAAAATAAATTTTTGTTAAAAATATAAAAAAATATTTTT-AAAATTTAA
* * *
3408438 TAAAAATTATATTTTTAAGATAAAAAATATAATATTTGTTTTAAAAATAT
62 TAAAAATGATGTTTTTAAGAT-AAAAA-ATAAT-TTT-TGTTAAAAATAT
* * * *
3408488 ---TTTTAAGA-TAAAAATGAAGTTTTTGTTTAAAATATAAAAAAATATTTTATAAAATTTAATA
1 AAAATTTATGATTAAAAAT-AAATTTTTGTTAAAAATATAAAAAAATATTTT-TAAAATTTAATA
* * * *
3408549 AAGATGACAT-TTTTTAA-ATAAAAATATAATTTTTATTGAAAAGAT
64 AAAATG--ATGTTTTTAAGATAAAAA-ATAATTTTTGTTAAAAATAT
** * * *
3408594 AATTTTTAAGATAAAAAATACAATTTTTGTTAAAAATATAAAAAAATATTTTTTAAATTTAATAA
1 AAAATTTATGATTAAAAATA-AATTTTTGTTAAAAATATAAAAAAATATTTTTAAAATTTAATAA
* * *
3408659 AAATGATGTTTTTAAAATAAAAAATATAATCTTTGTTAAAAAGAT
65 AAATGATGTTTTTAAGAT-AAAAA-ATAATTTTTGTTAAAAATAT
* * * * **
3408704 -GACTTTTTTAAGAGAAAATATAATTTTTGTTAAAAA-ATAAAAAAATA
1 AAAATTTATGATTA-AAAATA-AATTTTTGTTAAAAATATAAAAAAATA
3408751 AAATATTTTT
Statistics
Matches: 397, Mismatches: 56, Indels: 58
0.78 0.11 0.11
Matches are distributed among these distances:
103 6 0.02
104 8 0.02
105 40 0.10
106 24 0.06
107 26 0.07
108 42 0.11
109 78 0.20
110 137 0.35
111 25 0.06
112 11 0.03
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.40
Consensus pattern (107 bp):
AAAATTTATGATTAAAAATAAATTTTTGTTAAAAATATAAAAAAATATTTTTAAAATTTAATAAA
AATGATGTTTTTAAGATAAAAAATAATTTTTGTTAAAAATAT
Found at i:3408296 original size:35 final size:35
Alignment explanation
Indices: 3408257--3408327 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
3408247 AAATGGTTTT
3408257 TGTTAAAAATATAAAAAAATATTTTTCAAAATTTA
1 TGTTAAAAATATAAAAAAATATTTTTCAAAATTTA
3408292 TGTTAAAAATATAAAAAAATATTTTTCAAAATTTA
1 TGTTAAAAATATAAAAAAATATTTTTCAAAATTTA
3408327 T
1 T
3408328 CAAAAATTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (35 bp):
TGTTAAAAATATAAAAAAATATTTTTCAAAATTTA
Found at i:3408542 original size:109 final size:110
Alignment explanation
Indices: 3408292--3408750 Score: 527
Period size: 110 Copynumber: 4.2 Consensus size: 110
3408282 TCAAAATTTA
* * *
3408292 TGTTAAAAATATAAAAAAATATTTTTCAAAATTT-ATCAAAAATTACGTTTTTAAGATAAAAAAT
1 TGTTAAAAATATAAAAAAATATTTTTAAAAATTTAAT-AAAAATGACATTTTTAAGATAAAAAAT
*
3408356 ATAATTTT-TGTTAAAAAAATGATTGTTTATAAGATAAAAAT-AGTTTT
65 ATAATTTTGT-TTAAAAAGATGATT-TTT-TAAGATAAAAATAAGTTTT
* *
3408403 TGTTAAAAATAT-AAAAAATATTTTTAAAAATTTAATAAAAATTATATTTTTAAGATAAAAAATA
1 TGTTAAAAATATAAAAAAATATTTTTAAAAATTTAATAAAAATGACATTTTTAAGATAAAAAATA
*
3408467 TAATATTTGTTTTAAAA-AT-A-TTTTTAAGATAAAAATGAAGTTTT
66 TAAT-TTTGTTTAAAAAGATGATTTTTTAAGATAAAAAT-AAGTTTT
* *
3408511 TGTTTAAAATATAAAAAAATA-TTTTATAAAATTTAATAAAGATGACATTTTTTAA-AT-AAAAA
1 TGTTAAAAATATAAAAAAATATTTTTA-AAAATTTAATAAAAATGACA-TTTTTAAGATAAAAAA
* * *
3408573 TATAATTTT-TATTGAAAAGAT-AATTTTTAAGATAAAAAATACAATTTT
64 TATAATTTTGT-TTAAAAAGATGATTTTTTAAGAT-AAAAATA-AGTTTT
* ** *
3408621 TGTTAAAAATATAAAAAAATATTTTT-TAAATTTAATAAAAATGATGTTTTTAAAATAAAAAATA
1 TGTTAAAAATATAAAAAAATATTTTTAAAAATTTAATAAAAATGACATTTTTAAGATAAAAAATA
*
3408685 TAATCTTTG-TTAAAAAGATGACTTTTTTAAGAGAAAATATAA-TTTT
66 TAAT-TTTGTTTAAAAAGATGA-TTTTTTAAGATAAAA-ATAAGTTTT
3408731 TGTTAAAAA-ATAAAAAAATA
1 TGTTAAAAATATAAAAAAATA
3408751 AAATATTTTT
Statistics
Matches: 309, Mismatches: 18, Indels: 44
0.83 0.05 0.12
Matches are distributed among these distances:
106 13 0.04
107 12 0.04
108 44 0.14
109 68 0.22
110 123 0.40
111 36 0.12
112 13 0.04
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (110 bp):
TGTTAAAAATATAAAAAAATATTTTTAAAAATTTAATAAAAATGACATTTTTAAGATAAAAAATA
TAATTTTGTTTAAAAAGATGATTTTTTAAGATAAAAATAAGTTTT
Found at i:3408581 original size:19 final size:18
Alignment explanation
Indices: 3408559--3408634 Score: 62
Period size: 18 Copynumber: 4.0 Consensus size: 18
3408549 AAGATGACAT
3408559 TTTTTAAATAAAAATATAA
1 TTTTT-AATAAAAATATAA
* * *
3408578 TTTTTATTGAAAAGATAA
1 TTTTTAATAAAAATATAA
*
3408596 TTTTTAAGATAAAAAATACAA
1 TTTTT-A-AT-AAAAATATAA
**
3408617 TTTTTGTTAAAAATATAA
1 TTTTTAATAAAAATATAA
3408635 AAAAATATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
18 24 0.55
19 7 0.16
20 1 0.02
21 12 0.27
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.42
Consensus pattern (18 bp):
TTTTTAATAAAAATATAA
Found at i:3408645 original size:24 final size:24
Alignment explanation
Indices: 3408626--3408699 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
3408616 ATTTTTGTTA
3408626 AAAATATAAAAAAAT-AT-TTTTT
1 AAAATATAAAAAAATAATCTTTTT
* * *
3408648 -AAATTTAATAAAAATGATGTTTTT
1 AAAATATAA-AAAAATAATCTTTTT
*
3408672 AAAATA-AAAAATATAATCTTTGTT
1 AAAATATAAAAAAATAATCTTT-TT
3408696 AAAA
1 AAAA
3408700 AGATGACTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 7 0.17
22 6 0.14
23 12 0.29
24 13 0.31
25 4 0.10
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (24 bp):
AAAATATAAAAAAATAATCTTTTT
Found at i:3408698 original size:19 final size:19
Alignment explanation
Indices: 3408676--3408742 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 19
3408666 GTTTTTAAAA
3408676 TAAAAAATATAATCTTTGT
1 TAAAAAATATAATCTTTGT
* * *
3408695 T-AAAAAGATGA-CTTTTT
1 TAAAAAATATAATCTTTGT
*
3408712 TAAGAGAAAATATAATTTTTGT
1 T-A-A-AAAATATAATCTTTGT
3408734 TAAAAAATA
1 TAAAAAATA
3408743 AAAAAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
17 6 0.17
18 8 0.22
19 7 0.19
20 2 0.06
21 8 0.22
22 5 0.14
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.39
Consensus pattern (19 bp):
TAAAAAATATAATCTTTGT
Found at i:3408699 original size:39 final size:38
Alignment explanation
Indices: 3408656--3408739 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 38
3408646 TTAAATTTAA
*
3408656 TAAAAATGATG-TTTTTAAAATAAAAAATATAATCTTTGT
1 TAAAAA-GATGATTTTT-AAAGAAAAAATATAATCTTTGT
* * *
3408695 TAAAAAGATGACTTTTTTAAGAGAAAATATAATTTTTGT
1 TAAAAAGATGA-TTTTTAAAGAAAAAATATAATCTTTGT
3408734 TAAAAA
1 TAAAAA
3408740 ATAAAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 4 0.10
39 30 0.77
40 5 0.13
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (38 bp):
TAAAAAGATGATTTTTAAAGAAAAAATATAATCTTTGT
Found at i:3410347 original size:2 final size:2
Alignment explanation
Indices: 3410340--3410370 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3410330 TCAATCAAGC
3410340 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 T
3410371 CTTTGAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3411156 original size:16 final size:17
Alignment explanation
Indices: 3411135--3411175 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
3411125 GGGGGCAATT
*
3411135 AATATAAATAATAT-TA
1 AATATAAATAATATACA
*
3411151 AATATAGA-AATATACA
1 AATATAAATAATATACA
3411167 AATATAAAT
1 AATATAAAT
3411176 TAACTCAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
AATATAAATAATATACA
Found at i:3411837 original size:6 final size:6
Alignment explanation
Indices: 3411826--3411851 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3411816 ATCCACTTAT
3411826 AATATA AATATA AATATA AATATA AA
1 AATATA AATATA AATATA AATATA AA
3411852 CAAAATCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATA
Found at i:3413332 original size:2 final size:2
Alignment explanation
Indices: 3413325--3413355 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3413315 TCTTTGGCCA
3413325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3413356 GCTAGCAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3413914 original size:14 final size:14
Alignment explanation
Indices: 3413897--3413947 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
3413887 ATTTTTTTAC
3413897 TAAAAATTTTATTT
1 TAAAAATTTTATTT
3413911 T-AAAATTATTATTT
1 TAAAAATT-TTATTT
*
3413925 ATTAAAATTTTATATT
1 -TAAAAATTTTAT-TT
*
3413941 TATAAAT
1 TAAAAAT
3413948 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 6 0.19
14 7 0.23
15 10 0.32
16 8 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAAAAATTTTATTT
Found at i:3413946 original size:16 final size:16
Alignment explanation
Indices: 3413888--3413946 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
3413878 TATTCATACA
*
3413888 TTTT-TTTACTAAAAA
1 TTTTATTTACTAAAAT
3413903 TTTTATTT--TAAAAT
1 TTTTATTTACTAAAAT
* *
3413917 TATTATTTATTAAAAT
1 TTTTATTTACTAAAAT
3413933 TTTATATTTA-TAAA
1 TTT-TATTTACTAAA
3413947 TAATAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 12 0.32
15 4 0.11
16 15 0.41
17 6 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTATTTACTAAAAT
Found at i:3414180 original size:20 final size:20
Alignment explanation
Indices: 3414152--3414204 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
3414142 ATTATTTATT
*
3414152 TAATATTTTAAAATAATATG
1 TAATTTTTTAAAATAATATG
* *
3414172 TAATTTTTTAAATTGATATG
1 TAATTTTTTAAAATAATATG
*
3414192 GAATTTTTTAAAA
1 TAATTTTTTAAAA
3414205 AGATTTTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (20 bp):
TAATTTTTTAAAATAATATG
Found at i:3414215 original size:20 final size:20
Alignment explanation
Indices: 3414157--3414219 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
3414147 TTATTTAATA
*
3414157 TTTTAAAATA-ATATGTAATT
1 TTTTAAAA-AGATATGGAATT
**
3414177 TTTTAAATTGATATGGAATT
1 TTTTAAAAAGATATGGAATT
* *
3414197 TTTTAAAAAGATTTTGAATT
1 TTTTAAAAAGATATGGAATT
3414217 TTT
1 TTT
3414220 AACTTAATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (20 bp):
TTTTAAAAAGATATGGAATT
Found at i:3415132 original size:30 final size:30
Alignment explanation
Indices: 3415098--3415158 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
3415088 AATTTAAATA
3415098 AACTAAAAATAAAAATAAAGTCTATGTGAG
1 AACTAAAAATAAAAATAAAGTCTATGTGAG
3415128 AACTAAAAATAAAAATAAAGTCTATGTGAG
1 AACTAAAAATAAAAATAAAGTCTATGTGAG
3415158 A
1 A
3415159 TTAAACTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (30 bp):
AACTAAAAATAAAAATAAAGTCTATGTGAG
Found at i:3416969 original size:184 final size:184
Alignment explanation
Indices: 3416603--3416969 Score: 467
Period size: 184 Copynumber: 2.0 Consensus size: 184
3416593 ATAGATAACT
** *
3416603 TTTATCTTTTTCATGTGACAAAAAGAAAATTAATGCTATATGAGGTTTTGATGGAAATATATAGA
1 TTTATCTTTTTCATGTGACAAAAAG--AATTAATGCTATATGAGGTTTCAATGGAAATATATAAA
* * * * *
3416668 TGTATTGATTTCAAATTTCTTTAGGATTAACATGTAACTCTTTTATTAGGAGAAATATTGTATAT
64 TGTATTGATTTCAAATTTCTTTACGATCAACATGTAACTATTTTATTAGGAGAAACATTATATAT
*
3416733 CAATTCATTTTCTTCATTACATAAGTTAAAAAATATTCACGTTGTATAAAAATAGC
129 CAATTCATTTTCTTCATTACATAAGTTAAAAAATATTCACATTGTATAAAAATAGC
* * *
3416789 TTTATCTTTTTCATGTGACAAATAAG-GTTAATGTTATATGATGTTTCAAT-GAAAGTATATAAA
1 TTTATCTTTTTCATGTGACAAA-AAGAATTAATGCTATATGAGGTTTCAATGGAAA-TATATAAA
* * *
3416852 TGTATTGATTTCAAATTTTTTTACTATCAACATAG-AACTATTTTATTGGGAGAAACATTATATA
64 TGTATTGATTTCAAATTTCTTTACGATCAACAT-GTAACTATTTTATTAGGAGAAACATTATATA
* *
3416916 TC-CTTCATTTT-TTCCATTATATAAGTT-AAAAATATTCACTATTGTATTAAAAAT
128 TCAATTCATTTTCTT-CATTACATAAGTTAAAAAATATTCAC-ATTGTA-TAAAAAT
3416970 TTTAAAGTAA
Statistics
Matches: 158, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
182 14 0.09
183 29 0.18
184 89 0.56
185 1 0.01
186 22 0.14
187 3 0.02
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (184 bp):
TTTATCTTTTTCATGTGACAAAAAGAATTAATGCTATATGAGGTTTCAATGGAAATATATAAATG
TATTGATTTCAAATTTCTTTACGATCAACATGTAACTATTTTATTAGGAGAAACATTATATATCA
ATTCATTTTCTTCATTACATAAGTTAAAAAATATTCACATTGTATAAAAATAGC
Found at i:3420623 original size:25 final size:25
Alignment explanation
Indices: 3420582--3420631 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
3420572 AATATACATT
3420582 CAGTTTTACTCTTAA-TTTTTCACA
1 CAGTTTTACTCTTAATTTTTTCACA
*
3420606 CAGTTTTATTTCTTAATTTTTTCACA
1 CAGTTTTA-CTCTTAATTTTTTCACA
3420632 TGATATTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
25 6 0.26
26 9 0.39
ACGTcount: A:0.24, C:0.18, G:0.04, T:0.54
Consensus pattern (25 bp):
CAGTTTTACTCTTAATTTTTTCACA
Found at i:3421350 original size:75 final size:75
Alignment explanation
Indices: 3421217--3421371 Score: 231
Period size: 75 Copynumber: 2.1 Consensus size: 75
3421207 CTTAAAAATG
* *
3421217 TTTATGTTCATAGATTGTCTACTAATCTAATATCTATATAAAAACTTACCAAAAATATGAACTGC
1 TTTATGTTCATAGATTATCTACTAATCTAATATCTATACAAAAACTTACCAAAAATATGAACTGC
3421282 AAAGTGACTT
66 AAAGTGACTT
* * * * *
3421292 TTTATGTTGC-TAGATTATCTACTAATCTGATATCTATACAAAAATTTACTAGAGATATGAACTG
1 TTTATGTT-CATAGATTATCTACTAATCTAATATCTATACAAAAACTTACCAAAAATATGAACTG
3421356 CAAAGTGACTT
65 CAAAGTGACTT
3421367 TTTAT
1 TTTAT
3421372 CTATTTTATT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
75 71 0.99
76 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (75 bp):
TTTATGTTCATAGATTATCTACTAATCTAATATCTATACAAAAACTTACCAAAAATATGAACTGC
AAAGTGACTT
Found at i:3427579 original size:34 final size:34
Alignment explanation
Indices: 3427541--3427606 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
3427531 TCCGAATCTC
3427541 TTAAAGATTTTT-AAATTTACATATTCAAAAATTT
1 TTAAA-ATTTTTCAAATTTACATATTCAAAAATTT
* * *
3427575 TTAAAATTTTTCAGATTTATATATTTAAAAAT
1 TTAAAATTTTTCAAATTTACATATTCAAAAAT
3427607 AAAAAGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 6 0.21
34 22 0.79
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (34 bp):
TTAAAATTTTTCAAATTTACATATTCAAAAATTT
Found at i:3428365 original size:6 final size:6
Alignment explanation
Indices: 3428354--3428380 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3428344 TAAAATATAG
3428354 TAATTA TAATTA TAATTA TAATTA TAA
1 TAATTA TAATTA TAATTA TAATTA TAA
3428381 ATTTTTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAATTA
Found at i:3430192 original size:30 final size:30
Alignment explanation
Indices: 3430158--3430264 Score: 97
Period size: 30 Copynumber: 3.6 Consensus size: 30
3430148 ATTAATATAT
*
3430158 ATTAAAAATTTATTTAGATACATATTAAAA
1 ATTAAAAATTTATTTAGATACAAATTAAAA
** * *
3430188 ATTAAGTACTTATTTATATACAAATTAAAA
1 ATTAAAAATTTATTTAGATACAAATTAAAA
* * ** **
3430218 TTTAAAAGTTTATTTACTTGTAAATTAAAA
1 ATTAAAAATTTATTTAGATACAAATTAAAA
* *
3430248 GTTAAAAAATTATTTAG
1 ATTAAAAATTTATTTAG
3430265 GTGTAATGAA
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (30 bp):
ATTAAAAATTTATTTAGATACAAATTAAAA
Found at i:3430767 original size:21 final size:21
Alignment explanation
Indices: 3430750--3430796 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
3430740 ATTTATTTTA
3430750 ATAATC-AATTATCATATTAT
1 ATAATCAAATTATCATATTAT
* *
3430770 ATAATCAAATTATAATTATTAA
1 ATAATCAAATTATCA-TATTAT
3430792 ATAAT
1 ATAAT
3430797 TAATTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 7 0.30
22 10 0.43
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAATCAAATTATCATATTAT
Found at i:3437145 original size:60 final size:60
Alignment explanation
Indices: 3437039--3437152 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
3437029 TTAAAAAAAT
* * *
3437039 AAAAATTATGTATCAAATACTGAATCAAATGTTCAGGTGCAAAAACTAATTTAATAAAGC
1 AAAAATTATGTATCAAATACTGAAACAAATGCTCAAGTGCAAAAACTAATTTAATAAAGC
* * * *
3437099 AAAAATTATGTATTAATTACT-AAACAACATGCTCAATTGCATAAACTAATTTAA
1 AAAAATTATGTATCAAATACTGAAACAA-ATGCTCAAGTGCAAAAACTAATTTAA
3437153 GTCATTTGCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
59 5 0.11
60 41 0.89
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (60 bp):
AAAAATTATGTATCAAATACTGAAACAAATGCTCAAGTGCAAAAACTAATTTAATAAAGC
Found at i:3443025 original size:23 final size:21
Alignment explanation
Indices: 3442932--3443026 Score: 63
Period size: 22 Copynumber: 4.4 Consensus size: 21
3442922 AGGATTTTTT
* * **
3442932 TAATAATTAATTATTATTTCA
1 TAATAATTAATAATTACTGAA
3442953 TAATCAAATT-ATAATTACTGAA
1 TAAT--AATTAATAATTACTGAA
*
3442975 TAATTAACTAATAAATTA-T-AA
1 TAA-TAATTAAT-AATTACTGAA
3442996 T-ATAATTAGATAATTACTGAA
1 TAATAATTA-ATAATTACTGAA
3443017 TAATCAATTA
1 TAAT-AATTA
3443027 TTAGATAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
19 10 0.17
20 4 0.07
21 13 0.22
22 16 0.28
23 15 0.26
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.41
Consensus pattern (21 bp):
TAATAATTAATAATTACTGAA
Found at i:3447107 original size:3 final size:3
Alignment explanation
Indices: 3447099--3447127 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3447089 ACAAAGACAC
3447099 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
3447128 TCAACGACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.31, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:3451438 original size:2 final size:2
Alignment explanation
Indices: 3451433--3451458 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3451423 AACCCACTAG
3451433 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
3451459 TTGCTTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3452749 original size:2 final size:2
Alignment explanation
Indices: 3452742--3452778 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3452732 AGGCGCAGAC
3452742 GA GA GA GA GA 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 GA GA GA GA GA G
3452779 GTGTTTCGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3455606 original size:23 final size:24
Alignment explanation
Indices: 3455569--3455619 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
3455559 AATTATATTT
*
3455569 TCAATCTTTTTAACGAATTTGAAC
1 TCAATCTTTTTAACGAATTCGAAC
3455593 TCAATC-TTTTAACGAATTCGAAC
1 TCAATCTTTTTAACGAATTCGAAC
3455616 TCAA
1 TCAA
3455620 AATAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (24 bp):
TCAATCTTTTTAACGAATTCGAAC
Found at i:3461140 original size:18 final size:19
Alignment explanation
Indices: 3461117--3461158 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
3461107 TAGAATAGAA
* *
3461117 TTATATTTATTT-TAATTT
1 TTATATATATTTAAAATTT
3461135 TTATATATATTTAAAATTT
1 TTATATATATTTAAAATTT
3461154 TTATA
1 TTATA
3461159 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATATATTTAAAATTT
Found at i:3462084 original size:2 final size:2
Alignment explanation
Indices: 3462079--3462110 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3462069 CAACCAACTC
3462079 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3462111 CCAAAATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3466054 original size:26 final size:27
Alignment explanation
Indices: 3466024--3466098 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 27
3466014 GTAGACACTT
*
3466024 ATTTGTGTTCGGGCCCAATTATG-CCC
1 ATTTGTGTTCGGGCCCAATTAGGACCC
*
3466050 ATTTGTG-TCTGGGCCTAATT-GGACCC
1 ATTTGTGTTC-GGGCCCAATTAGGACCC
** *
3466076 ATTTGCATTTGGGCCCAATTAGG
1 ATTTGTGTTCGGGCCCAATTAGG
3466099 CCAATTGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
25 3 0.08
26 33 0.85
27 3 0.08
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (27 bp):
ATTTGTGTTCGGGCCCAATTAGGACCC
Found at i:3466147 original size:14 final size:15
Alignment explanation
Indices: 3466128--3466169 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
3466118 GATTAGATAG
3466128 TTTTTTATT-TTTAT
1 TTTTTTATTATTTAT
3466142 TTTTTTATTATTTACT
1 TTTTTTATTATTTA-T
* *
3466158 ATTATTATTATT
1 TTTTTTATTATT
3466170 ATAATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 9 0.38
15 4 0.17
16 11 0.46
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTATTATTTAT
Found at i:3466152 original size:3 final size:3
Alignment explanation
Indices: 3466132--3466193 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
3466122 AGATAGTTTT
* * * *
3466132 TTA TTT TTA TT- TTT TTA TTA TTTA CTA TTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* *
3466177 TTA TAA TTT TTA TTA TT
1 TTA TTA TTA TTA TTA TT
3466194 TTTTTTTCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3466194 original size:9 final size:9
Alignment explanation
Indices: 3466128--3466196 Score: 61
Period size: 9 Copynumber: 7.4 Consensus size: 9
3466118 GATTAGATAG
3466128 TTTT-TTAT
1 TTTTATTAT
3466136 TTTTATT-T
1 TTTTATTAT
3466144 TTTTATTAT
1 TTTTATTAT
*
3466153 TTACTATTAT
1 TT-TTATTAT
*
3466163 TATTATTAT
1 TTTTATTAT
*
3466172 AATTATTATAAT
1 --TT-TTATTAT
3466184 TTTTATTAT
1 TTTTATTAT
3466193 TTTT
1 TTTT
3466197 TTTTCTTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
8 12 0.24
9 21 0.43
10 9 0.18
11 1 0.02
12 6 0.12
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTATTAT
Found at i:3467229 original size:21 final size:21
Alignment explanation
Indices: 3467185--3467231 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3467175 AGTATTTCTG
*
3467185 AAAAAAGAAAAAAATAATTCA
1 AAAAAAGAAAAAAATAATTAA
* **
3467206 AAAAAAGAGAAAAATTTTTAA
1 AAAAAAGAAAAAAATAATTAA
3467227 AAAAA
1 AAAAA
3467232 TTCTTCGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (21 bp):
AAAAAAGAAAAAAATAATTAA
Found at i:3467799 original size:19 final size:18
Alignment explanation
Indices: 3467764--3467828 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
3467754 TAAGTTTTAA
3467764 ATTATTT-TATTCACTTTT
1 ATTATTTATATTCAC-TTT
* *
3467782 ATTGTTTATATTCGCTTT
1 ATTATTTATATTCACTTT
* *
3467800 ATTATTTATTTTCATTTT
1 ATTATTTATATTCACTTT
*
3467818 CATTATGTATA
1 -ATTATTTATA
3467829 CCTGCTTACT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
18 23 0.62
19 14 0.38
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.63
Consensus pattern (18 bp):
ATTATTTATATTCACTTT
Found at i:3470466 original size:4 final size:4
Alignment explanation
Indices: 3470457--3470486 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
3470447 TGTATCACCC
3470457 TCAT TCAT TCAT TCAT TCAT TCAT TACAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T-CAT T
3470487 ATCATTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (4 bp):
TCAT
Found at i:3480694 original size:52 final size:52
Alignment explanation
Indices: 3480615--3480761 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 52
3480605 TATAACCATA
* * * * *
3480615 CAAACTTGCCCATTAAGAATCTATTTCCTCTTAAAATTTTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCTCTTTCCTCTTAGAATTTTTCTCCTGCAAGT
* * * *
3480667 CAAACTTACTTATTAAGAATCCCTTTCCTTTTAGAATTTTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCTCTTTCCTCTTAGAATTTTTCTCCTGCAAGT
*
3480719 CAAACTTACCTATTAAGAATCATCTTT-CTCTTAGAATTCTTCT
1 CAAACTTACCTATTAAGAATC-TCTTTCCTCTTAGAATTTTTCT
3480762 TTTACAAGTC
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 77 0.95
53 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTCTTTCCTCTTAGAATTTTTCTCCTGCAAGT
Found at i:3481119 original size:25 final size:25
Alignment explanation
Indices: 3481051--3481156 Score: 83
Period size: 25 Copynumber: 4.2 Consensus size: 25
3481041 TCAAACTAAG
* *
3481051 CTCTTCCCATATCTCGAA-CTGTCAA
1 CTCTTCCCACATCTCGAACCT-TCGA
* *
3481076 CTCTTCCTA-AGTCTTGAACCTTCGA
1 CTCTTCCCACA-TCTCGAACCTTCGA
3481101 CTCTTCCCACATCTCGAACCTTC-A
1 CTCTTCCCACATCTCGAACCTTCGA
* * * *
3481125 GCTTTTCCCTCATCTTGAACCTTTGA
1 -CTCTTCCCACATCTCGAACCTTCGA
*
3481151 CCCTTC
1 CTCTTC
3481157 TCATGTTTTG
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
24 2 0.03
25 59 0.91
26 4 0.06
ACGTcount: A:0.19, C:0.38, G:0.08, T:0.35
Consensus pattern (25 bp):
CTCTTCCCACATCTCGAACCTTCGA
Found at i:3484714 original size:24 final size:24
Alignment explanation
Indices: 3484687--3484733 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
3484677 AATGCAGCAG
*
3484687 AGTACAATCTTCCCACGTTATCAC
1 AGTACAATCTTCCAACGTTATCAC
3484711 AGTACAATCTTCCAACGTTATCA
1 AGTACAATCTTCCAACGTTATCA
3484734 TTTTCTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.30
Consensus pattern (24 bp):
AGTACAATCTTCCAACGTTATCAC
Found at i:3487578 original size:22 final size:20
Alignment explanation
Indices: 3487553--3487601 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
3487543 ATCTGAATGC
3487553 GAATTAAATTTACATATAATTT
1 GAATTAAATTT-CAT-TAATTT
* *
3487575 GAATTGAATTTTATTAATTT
1 GAATTAAATTTCATTAATTT
*
3487595 GATTTAA
1 GAATTAA
3487602 TTTGTAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 11 0.48
21 2 0.09
22 10 0.43
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (20 bp):
GAATTAAATTTCATTAATTT
Found at i:3491537 original size:2 final size:2
Alignment explanation
Indices: 3491532--3491562 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3491522 AAAAAAAAAA
3491532 AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3491563 GTTCAGACAG
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3493607 original size:22 final size:21
Alignment explanation
Indices: 3493581--3493662 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 21
3493571 ATTCGAACCT
*
3493581 AATTAATTTAAAATTAATAAA
1 AATTAATTTAAAATAAATAAA
* *
3493602 ATATTATTTTAATATAAATAAA
1 A-ATTAATTTAAAATAAATAAA
3493624 AATTACA--TAAATATAAAAGTAAA
1 AATTA-ATTTAAA-AT-AAA-TAAA
*
3493647 TAATTAATTAAAAATA
1 -AATTAATTTAAAATA
3493663 TTTTATATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
20 3 0.06
21 7 0.15
22 21 0.45
23 6 0.13
24 7 0.15
25 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (21 bp):
AATTAATTTAAAATAAATAAA
Found at i:3494941 original size:21 final size:21
Alignment explanation
Indices: 3494917--3494962 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3494907 TATACATCAT
*
3494917 TATTTAT-TTTTTAATATTTAA
1 TATTTATCATTTTAA-ATTTAA
*
3494938 TATTTATCATTTTGAATTTAA
1 TATTTATCATTTTAAATTTAA
3494959 TATT
1 TATT
3494963 AAAAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TATTTATCATTTTAAATTTAA
Found at i:3506784 original size:50 final size:51
Alignment explanation
Indices: 3506720--3506852 Score: 146
Period size: 52 Copynumber: 2.6 Consensus size: 51
3506710 ACTTTGCCCA
* *
3506720 TAAGAATCTATTTCCTCTAGAATTTTTCTCCTGTAAGTCAAACTTA-CTAT
1 TAAGAATCTCTTTCCTCTAGAATTTTTCTCCTGCAAGTCAAACTTACCTAT
* * *
3506770 TAAGAATCCCTTTCCTTTGTAGAA-TTTTCGTCTTGCAAGTCAAACTTACCTAT
1 TAAGAATCTCTTTCC--TCTAGAATTTTTC-TCCTGCAAGTCAAACTTACCTAT
*
3506823 TAAGAATCATCTTT-CTCTTAGAATTCTTCT
1 TAAGAATC-TCTTTCCTC-TAGAATTTTTCT
3506853 TTTACAAGTC
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
50 13 0.19
51 6 0.09
52 28 0.41
53 17 0.25
54 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (51 bp):
TAAGAATCTCTTTCCTCTAGAATTTTTCTCCTGCAAGTCAAACTTACCTAT
Found at i:3507210 original size:25 final size:25
Alignment explanation
Indices: 3507142--3507247 Score: 83
Period size: 25 Copynumber: 4.2 Consensus size: 25
3507132 TCAAACTAAG
* *
3507142 CTCTTCCCATATCTCGAA-CTGTCAA
1 CTCTTCCCACATCTCGAACCT-TCGA
* *
3507167 CTCTTCCTA-AGTCTTGAACCTTCGA
1 CTCTTCCCACA-TCTCGAACCTTCGA
3507192 CTCTTCCCACATCTCGAACCTTC-A
1 CTCTTCCCACATCTCGAACCTTCGA
* * * *
3507216 GCTTTTCCCTCATCTTGAACCTTTGA
1 -CTCTTCCCACATCTCGAACCTTCGA
*
3507242 CCCTTC
1 CTCTTC
3507248 TCATGTTTTG
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
24 2 0.03
25 59 0.91
26 4 0.06
ACGTcount: A:0.19, C:0.38, G:0.08, T:0.35
Consensus pattern (25 bp):
CTCTTCCCACATCTCGAACCTTCGA
Found at i:3510804 original size:24 final size:24
Alignment explanation
Indices: 3510777--3510823 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
3510767 AATGCAGCAG
*
3510777 AGTACAATCTTCCCACGTTATCAC
1 AGTACAATCTTCCAACGTTATCAC
3510801 AGTACAATCTTCCAACGTTATCA
1 AGTACAATCTTCCAACGTTATCA
3510824 TTTTCTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.30
Consensus pattern (24 bp):
AGTACAATCTTCCAACGTTATCAC
Found at i:3519682 original size:17 final size:19
Alignment explanation
Indices: 3519662--3519711 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
3519652 TGATCTAAAA
3519662 TTAATA-AAATATTATTTT
1 TTAATATAAATATTATTTT
*
3519680 TAAATATAAATTATTATTTT
1 TTAATATAAA-TATTATTTT
3519700 TTAATATAAATA
1 TTAATATAAATA
3519712 AAAATTACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.18
19 5 0.18
20 18 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATATAAATATTATTTT
Found at i:3519683 original size:23 final size:24
Alignment explanation
Indices: 3519657--3519718 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 24
3519647 TAATCTGATC
3519657 TAAAATTAATAAAATATTA-TTTT
1 TAAAATTAATAAAATATTATTTTT
*
3519680 T-AAA-T-ATAAATTATTATTTTT
1 TAAAATTAATAAAATATTATTTTT
* *
3519701 TAATATAAATAAAA-ATTA
1 TAAAATTAATAAAATATTA
3519719 CATAAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
20 10 0.32
21 6 0.19
22 5 0.16
23 5 0.16
24 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAAATTAATAAAATATTATTTTT
Found at i:3520266 original size:15 final size:15
Alignment explanation
Indices: 3520220--3520271 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
3520210 TCTCATAAAC
3520220 AATAAATAAA-CTATA
1 AATAAATAAATCT-TA
* *
3520235 ACTTAATAAAT-TTA
1 AATAAATAAATCTTA
3520249 AATAAATAAATCTTA
1 AATAAATAAATCTTA
*
3520264 AATGAATA
1 AATAAATA
3520272 TAAACAAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.33
Consensus pattern (15 bp):
AATAAATAAATCTTA
Found at i:3520275 original size:25 final size:24
Alignment explanation
Indices: 3520221--3520280 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
3520211 CTCATAAACA
3520221 ATAAATAAACTATAACTTAATAAAT
1 ATAAATAAA-TATAACTTAATAAAT
* *
3520246 TTAAATAAATA-AATCTTAAATGAAT
1 ATAAATAAATATAA-CTT-AATAAAT
*
3520271 ATAAACAAAT
1 ATAAATAAAT
3520281 CTTAAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 2 0.07
24 5 0.17
25 22 0.76
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (24 bp):
ATAAATAAATATAACTTAATAAAT
Found at i:3520503 original size:41 final size:42
Alignment explanation
Indices: 3520418--3520511 Score: 111
Period size: 41 Copynumber: 2.2 Consensus size: 42
3520408 ATAAACGAAG
* * * *
3520418 TAAATAAAATTTTATTCATATTTGATTTGTTTAATAAATTAA
1 TAAATAAAATTTTATTCAAAATTGATTTGTTAAATAAATAAA
*
3520460 TAAA-AAAATTTTATTCAAAATT-ATTTGTTAAATTTAATAAA
1 TAAATAAAATTTTATTCAAAATTGATTTGTTAAA-TAAATAAA
3520501 TAAATACAAAT
1 TAAATA-AAAT
3520512 GAATAAACAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
40 9 0.20
41 26 0.59
42 5 0.11
43 4 0.09
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (42 bp):
TAAATAAAATTTTATTCAAAATTGATTTGTTAAATAAATAAA
Found at i:3521208 original size:25 final size:23
Alignment explanation
Indices: 3521153--3521208 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
3521143 ATGAGTATTA
*
3521153 AAATTTTTTATTTTTTAATATAT
1 AAATTTTTTATTTATTAATATAT
*
3521176 ATGTATTTTTTATATTATTAATATAT
1 A--AATTTTTTAT-TTATTAATATAT
3521202 CAAATTT
1 -AAATTT
3521209 ATTACGTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
23 1 0.04
25 13 0.50
26 11 0.42
27 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
AAATTTTTTATTTATTAATATAT
Found at i:3521322 original size:31 final size:31
Alignment explanation
Indices: 3521264--3521323 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
3521254 ATCATATTTT
* *
3521264 TATATATATTCACGTTAGTTATATTTATTCA
1 TATATATATACACATTAGTTATATTTATTCA
* * *
3521295 TATATATATACATATTATTTATGTTTATT
1 TATATATATACACATTAGTTATATTTATT
3521324 TGTCACATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (31 bp):
TATATATATACACATTAGTTATATTTATTCA
Found at i:3522200 original size:3 final size:3
Alignment explanation
Indices: 3522192--3522230 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
3522182 AATTTTGATT
3522192 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3522231 AGTTTCTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3537495 original size:37 final size:37
Alignment explanation
Indices: 3537416--3537495 Score: 85
Period size: 37 Copynumber: 2.2 Consensus size: 37
3537406 TATTCACGAG
** *
3537416 TTTAATTATTTATAAATATATAATATTTATGAATTCAA
1 TTTAATTATAAATAAATATATAATATTTA-GAAATCAA
3537454 -TTAATTATAAATAAATATACTTAATATTTA-AAAT-AA
1 TTTAATTATAAATAAATATA--TAATATTTAGAAATCAA
3537490 TTTAAT
1 TTTAAT
3537496 ATTAACATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
36 2 0.06
37 25 0.69
39 9 0.25
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
TTTAATTATAAATAAATATATAATATTTAGAAATCAA
Found at i:3542282 original size:11 final size:12
Alignment explanation
Indices: 3542258--3542295 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
3542248 TTTGAGCCTA
*
3542258 TTTAGAATTTTT
1 TTTAAAATTTTT
3542270 TTTAAAATTTTT
1 TTTAAAATTTTT
3542282 TTTAAAATTTTT
1 TTTAAAATTTTT
3542294 TT
1 TT
3542296 CACCATTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (12 bp):
TTTAAAATTTTT
Found at i:3545552 original size:18 final size:17
Alignment explanation
Indices: 3545495--3545556 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
3545485 ATTGACCTAT
*
3545495 TTTTATATTTATTTATTTA
1 TTTT-TATTTAATTA-TTA
* *
3545514 TTTTTATTT-GTTATGA
1 TTTTTATTTAATTATTA
*
3545530 ATTTTACTTTAATTATTA
1 TTTTTA-TTTAATTATTA
3545548 TTTTTATTT
1 TTTTTATTT
3545557 CTAGAAGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 7 0.20
17 9 0.26
18 15 0.43
19 4 0.11
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTTATTTAATTATTA
Found at i:3545813 original size:24 final size:23
Alignment explanation
Indices: 3545782--3545830 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
3545772 AAAGAAAACA
*
3545782 TTTTTG-AATTTTATTTGGAAAAT
1 TTTTTGAAAATTT-TTTGGAAAAT
3545805 TTTTCTGAAAATTTTTTGGAAAAT
1 TTTT-TGAAAATTTTTTGGAAAAT
3545829 TT
1 TT
3545831 CTAGATTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (23 bp):
TTTTTGAAAATTTTTTGGAAAAT
Found at i:3545816 original size:12 final size:12
Alignment explanation
Indices: 3545795--3545830 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
3545785 TTGAATTTTA
3545795 TTTGGAAAATTT
1 TTTGGAAAATTT
3545807 TTCT-GAAAATTT
1 TT-TGGAAAATTT
3545819 TTTGGAAAATTT
1 TTTGGAAAATTT
3545831 CTAGATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.05
12 20 0.91
13 1 0.05
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (12 bp):
TTTGGAAAATTT
Found at i:3546368 original size:23 final size:23
Alignment explanation
Indices: 3546322--3546399 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
3546312 GAGTCATTTT
* *
3546322 TTTATTTTTCTTTGGTATTATTTA
1 TTTATTTTTC-TTAGTATTCTTTA
* *
3546346 TTTATTTTAT-TTAGTTTTTTTTA
1 TTTATTTT-TCTTAGTATTCTTTA
**
3546369 AATATTTTTCTTAGTATTCTTT-
1 TTTATTTTTCTTAGTATTCTTTA
3546391 TTTATTTTT
1 TTTATTTTT
3546400 TTTCATGATT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
22 8 0.19
23 26 0.60
24 8 0.19
25 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.05, T:0.73
Consensus pattern (23 bp):
TTTATTTTTCTTAGTATTCTTTA
Found at i:3546761 original size:200 final size:199
Alignment explanation
Indices: 3546420--3546791 Score: 477
Period size: 200 Copynumber: 1.9 Consensus size: 199
3546410 AAATTTAGGA
**
3546420 AAAAATAAAAAAATAAAAAAAATAAAATTTGAGAATAAATATTAATTATCCAAGGATGAAATTTA
1 AAAAATAAAAAAATAAAAAAAATAAAATTTGAGAATAAATACAAATTATCCAAGGATGAAATTTA
* * * * *
3546485 TAGAATTTTCAAATGAAAAATTTCTATAAAATTCCTATGTGAAAAATTTTGTCTAAATTTGTCCA
66 TAGAAATTTCAAATGAAAAATTTCTATAAAAATCCTAGGTGAAAAATTTTCTCTAAATTTGACCA
* *
3546550 AAATGGTGAAATAATTTAGATAAAATTTTAATAATAATAATTAATATTTATTTTCAAACAAAAAA
131 AAATGGTGAAATAATTTAGATAAAATTTCAATAAAAATAATTAATATTTATTTTCAAACAAAAAA
3546615 AATG
196 AATG
* *
3546619 AAAAA-AAATAAAT-AAAAAAATAAAAATTTTG-GAATTAAATACAAATTA-CCTAAGGATGATA
1 AAAAATAAAAAAATAAAAAAAAT-AAAA-TTTGAGAA-TAAATACAAATTATCC-AAGGATGAAA
* ** * *
3546680 -TTATTTGAAATTTCAAATGGTAAATTT-TTTAAGAAATCTCTAGGTGAAAAATTTTCTTTAAAT
62 TTTA-TAGAAATTTCAAATGAAAAATTTCTATAA-AAATC-CTAGGTGAAAAATTTTCTCTAAAT
* *
3546743 TTGACCCAAATGGTGAAATAATTTAGATGAAATTTCAATAAAAATAATT
124 TTGACCAAAATGGTGAAATAATTTAGATAAAATTTCAATAAAAATAATT
3546792 GTCATACTAT
Statistics
Matches: 148, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
197 8 0.05
198 23 0.16
199 52 0.35
200 65 0.44
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (199 bp):
AAAAATAAAAAAATAAAAAAAATAAAATTTGAGAATAAATACAAATTATCCAAGGATGAAATTTA
TAGAAATTTCAAATGAAAAATTTCTATAAAAATCCTAGGTGAAAAATTTTCTCTAAATTTGACCA
AAATGGTGAAATAATTTAGATAAAATTTCAATAAAAATAATTAATATTTATTTTCAAACAAAAAA
AATG
Found at i:3547995 original size:15 final size:15
Alignment explanation
Indices: 3547975--3548009 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
3547965 CATGTTTTAA
3547975 CATTATCATTTGCAT-
1 CATTATCATTT-CATC
3547990 CATTATCATTTCATC
1 CATTATCATTTCATC
3548005 CATTA
1 CATTA
3548010 AAATGTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.46
Consensus pattern (15 bp):
CATTATCATTTCATC
Found at i:3551760 original size:23 final size:23
Alignment explanation
Indices: 3551729--3551772 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
3551719 GAAACCTCCG
*
3551729 AATGGTGATCAAG-TGATGAAAAT
1 AATGATGATC-AGTTGATGAAAAT
3551752 AATGATGATCAGTTGATGAAA
1 AATGATGATCAGTTGATGAAA
3551773 CTTGTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.27
Consensus pattern (23 bp):
AATGATGATCAGTTGATGAAAAT
Found at i:3552577 original size:42 final size:41
Alignment explanation
Indices: 3552499--3553038 Score: 636
Period size: 42 Copynumber: 13.0 Consensus size: 41
3552489 AAAGAGTGAT
* *
3552499 TTTATTTTTCAAAGTTGTAGTTGCCTTTATTTAGAGGAGCAA
1 TTTATTTTTCAAAGTT-TTGTTGCCTCTATTTAGAGGAGCAA
3552541 TTTTATTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
1 -TTTATTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
*
3552583 TTTTATTTTTCAAAGTTTTGTTGCCTTTATTTAGAGGAGCAA
1 -TTTATTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
* * *
3552625 TTTATTTTTCAAAGTTTTGTTGCCTCTATTTAAATGAGTAA
1 TTTATTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
* * **
3552666 TTTATTTTTTCAAAGTTTCGTTGCCTTTATTTAGAGGATAAA
1 TTTA-TTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
* * *
3552708 TTTATTTTTTCAAAGTTTTATTACCTCTATTTAGAGAAGCAA
1 TTTA-TTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
* * * *
3552750 TTTTATTTTTCAAAGTTCTGTTGCTTCTATTTAGAAGAGTAA
1 -TTTATTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
* *
3552792 TTTATTTTTTCAAAG---TGTTGCCTTTATTTAGAGGAGTAA
1 TTTA-TTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
* * * *
3552831 TTTTATTTTTCAAAGTTCTGTTGCTTTTATTTAGAAGAGCAA
1 -TTTATTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
* * *
3552873 TTTATTTTTTCAAAGTTCTGTTGCCTTTATTTAGAGGAGTAA
1 TTTA-TTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
* * *
3552915 TTTTATTTTTCAAAGTTTTGTTGCCTCTATTTATAAGAGTAA
1 -TTTATTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
* * * * *
3552957 TTTATTTTTTCAAAGTTCTGTTACTTCAATTTAGATGAGCAA
1 TTTA-TTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
*
3552999 TTTATTTTTTCAAAGTTTTGTTGTCTCTATTTAGAGGAGC
1 TTTA-TTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGC
3553039 TTAATTTACT
Statistics
Matches: 434, Mismatches: 53, Indels: 21
0.85 0.10 0.04
Matches are distributed among these distances:
39 31 0.07
40 4 0.01
41 53 0.12
42 322 0.74
43 24 0.06
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (41 bp):
TTTATTTTTCAAAGTTTTGTTGCCTCTATTTAGAGGAGCAA
Found at i:3552906 original size:165 final size:165
Alignment explanation
Indices: 3552492--3553038 Score: 683
Period size: 165 Copynumber: 3.3 Consensus size: 165
3552482 GATTGTCAAA
*
3552492 GAGTGATTTTATTTTTCAAAGTTGTAGTTGCCTTTATTTAGAGGAGCAATTT-TATTTTTCAAAG
1 GAGTAATTTTATTTTTCAAAGTT-TAGTTGCCTTTATTTAGAGGAGCAATTTAT-TTTTTCAAAG
*
3552556 TTTTGTTGCCTCTATTTAGAGGAGCAATTTTATTTTTCAAAGTTTTGTTGCCTT-TATTTAGAGG
64 TTTTGTTGCCTCTATTTAGAGGAGCAATTTTATTTTTCAAAGTTTTGTTG-CTTCTATTTAGAAG
* *
3552620 AGCAATTTA-TTTTTCAAAGTTTTGTTGCCTCTATTTAAAT
128 AGTAATTTATTTTTTCAAAG---TGTTGCCTCTATTTAAAG
* **
3552660 GAGTAA-TTTATTTTTTCAAAGTTTCGTTGCCTTTATTTAGAGGATAAATTTATTTTTTCAAAGT
1 GAGTAATTTTA-TTTTTCAAAGTTTAGTTGCCTTTATTTAGAGGAGCAATTTATTTTTTCAAAGT
* * * *
3552724 TTTATTACCTCTATTTAGAGAAGCAATTTTATTTTTCAAAGTTCTGTTGCTTCTATTTAGAAGAG
65 TTTGTTGCCTCTATTTAGAGGAGCAATTTTATTTTTCAAAGTTTTGTTGCTTCTATTTAGAAGAG
* *
3552789 TAATTTATTTTTTCAAAGTGTTGCCTTTATTTAGAG
130 TAATTTATTTTTTCAAAGTGTTGCCTCTATTTAAAG
* *
3552825 GAGTAATTTTATTTTTCAAAGTTCT-GTTGCTTTTATTTAGAAGAGCAATTTATTTTTTCAAAGT
1 GAGTAATTTTATTTTTCAAAGTT-TAGTTGCCTTTATTTAGAGGAGCAATTTATTTTTTCAAAGT
* * * * *
3552889 TCTGTTGCCTTTATTTAGAGGAGTAATTTTATTTTTCAAAGTTTTGTTGCCTCTATTTATAAGAG
65 TTTGTTGCCTCTATTTAGAGGAGCAATTTTATTTTTCAAAGTTTTGTTGCTTCTATTTAGAAGAG
* * * * *
3552954 TAATTTATTTTTTCAAAGTTCTGTTACTTCAATTTAGAT
130 TAATTTATTTTTTCAAAG---TGTTGCCTCTATTTAAAG
* * * *
3552993 GAGCAA-TTTATTTTTTCAAAGTTTTGTTGTCTCTATTTAGAGGAGC
1 GAGTAATTTTA-TTTTTCAAAGTTTAGTTGCCTTTATTTAGAGGAGC
3553039 TTAATTTACT
Statistics
Matches: 332, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
165 142 0.43
166 8 0.02
167 107 0.32
168 75 0.23
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (165 bp):
GAGTAATTTTATTTTTCAAAGTTTAGTTGCCTTTATTTAGAGGAGCAATTTATTTTTTCAAAGTT
TTGTTGCCTCTATTTAGAGGAGCAATTTTATTTTTCAAAGTTTTGTTGCTTCTATTTAGAAGAGT
AATTTATTTTTTCAAAGTGTTGCCTCTATTTAAAG
Found at i:3553526 original size:22 final size:21
Alignment explanation
Indices: 3553480--3553536 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
3553470 TAGGCTGGAT
* *
3553480 CACAGAAAA-AAAGACACGAA
1 CACAGAAAACAAAAACACAAA
*
3553500 GACAGAAAACAAAAACACAAAA
1 CACAGAAAACAAAAACAC-AAA
* *
3553522 CACAGCAAGCAAAAA
1 CACAGAAAACAAAAA
3553537 GAAAGAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 8 0.28
21 7 0.24
22 14 0.48
ACGTcount: A:0.67, C:0.21, G:0.12, T:0.00
Consensus pattern (21 bp):
CACAGAAAACAAAAACACAAA
Found at i:3557495 original size:133 final size:136
Alignment explanation
Indices: 3557345--3557595 Score: 384
Period size: 136 Copynumber: 1.9 Consensus size: 136
3557335 TTATCGTGAT
* * *
3557345 AAAGTGCATGTTAGTTGAATTTTTTT-CTTTTATTTATTTATT-TTT-ATTTAAAACAAGATAAC
1 AAAGTGCATCTTAGTTGAATTTTTTTCCTTTCATCTATTT-TTCTTTCATTTAAAACAAGATAAC
**
3557407 ATTAGGCTGCATATA-TTTTTGCATTCACTTCACATGTGTTGACTTGAAATCTTAATGGTTGAAA
65 ATTAGGCTGCATATAGTTTTTGCATTCACTTCACATGTGTAAACTTGAAATCTTAATGGTTGAAA
3557471 TCATGTA
130 TCATGTA
* *
3557478 AAAGTGCATCTTAGTTGAATTTTTTTCCTTTCATCTATTTTTCTTTCATTTAAAGCAAGATGACA
1 AAAGTGCATCTTAGTTGAATTTTTTTCCTTTCATCTATTTTTCTTTCATTTAAAACAAGATAACA
* *
3557543 TTAGGCTGTATATAGTTTTTGCATTCATTTCACATGTGTAAACTTGAAATCTT
66 TTAGGCTGCATATAGTTTTTGCATTCACTTCACATGTGTAAACTTGAAATCTT
3557596 GGTGGTTGCA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
133 27 0.26
134 14 0.13
135 29 0.28
136 35 0.33
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (136 bp):
AAAGTGCATCTTAGTTGAATTTTTTTCCTTTCATCTATTTTTCTTTCATTTAAAACAAGATAACA
TTAGGCTGCATATAGTTTTTGCATTCACTTCACATGTGTAAACTTGAAATCTTAATGGTTGAAAT
CATGTA
Found at i:3561730 original size:16 final size:17
Alignment explanation
Indices: 3561699--3561731 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3561689 ATGAACTGAA
*
3561699 AAATCTTCAGTTCTTAC
1 AAATCTTCAATTCTTAC
3561716 AAATCTT-AATTCTTAC
1 AAATCTTCAATTCTTAC
3561732 GAATTTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.42
Consensus pattern (17 bp):
AAATCTTCAATTCTTAC
Found at i:3561895 original size:17 final size:17
Alignment explanation
Indices: 3561858--3561910 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
3561848 CGATCTTTCT
*
3561858 ATTTTTATAAATC-TGA
1 ATTTTTATAAATCTTCA
* *
3561874 GTTTTTTTAAATCTTCA
1 ATTTTTATAAATCTTCA
*
3561891 ATTTTTATGAATCTTCA
1 ATTTTTATAAATCTTCA
3561908 ATT
1 ATT
3561911 CTTGCGAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 11 0.37
17 19 0.63
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTTTTATAAATCTTCA
Found at i:3561919 original size:17 final size:17
Alignment explanation
Indices: 3561883--3561921 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
3561873 AGTTTTTTTA
* *
3561883 AATCTTCAATTTTTATG
1 AATCTTCAATTCTTACG
*
3561900 AATCTTCAATTCTTGCG
1 AATCTTCAATTCTTACG
3561917 AATCT
1 AATCT
3561922 AAAAATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (17 bp):
AATCTTCAATTCTTACG
Found at i:3561933 original size:18 final size:18
Alignment explanation
Indices: 3561907--3561948 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
3561897 ATGAATCTTC
* *
3561907 AATTCTTGCGAATCTAAA
1 AATTTTTGCGAAGCTAAA
3561925 AATTTTTGCGAAGCTAAA
1 AATTTTTGCGAAGCTAAA
3561943 AATTTT
1 AATTTT
3561949 ATGAATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AATTTTTGCGAAGCTAAA
Found at i:3561979 original size:17 final size:18
Alignment explanation
Indices: 3561959--3562041 Score: 75
Period size: 17 Copynumber: 4.8 Consensus size: 18
3561949 ATGAATATGA
3561959 AATTCTTGTGAAT-TTCT
1 AATTCTTGTGAATCTTCT
***
3561976 AATTCTTACAAATCTT-T
1 AATTCTTGTGAATCTTCT
*
3561993 AATTCTTATGAAT-TTCT
1 AATTCTTGTGAATCTTCT
* *
3562010 AATTTTTGTAAATCTTC-
1 AATTCTTGTGAATCTTCT
*
3562027 AATTCTTGAGAATCT
1 AATTCTTGTGAATCT
3562042 GTGTTCTTAC
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
16 2 0.04
17 45 0.87
18 5 0.10
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.49
Consensus pattern (18 bp):
AATTCTTGTGAATCTTCT
Found at i:3562005 original size:34 final size:34
Alignment explanation
Indices: 3561959--3562033 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
3561949 ATGAATATGA
* *
3561959 AATTCTTGTGAATTTCTAATTCTTACAAATCTTT
1 AATTCTTATGAATTTCTAATTCTTACAAATCTTC
* **
3561993 AATTCTTATGAATTTCTAATTTTTGTAAATCTTC
1 AATTCTTATGAATTTCTAATTCTTACAAATCTTC
3562027 AATTCTT
1 AATTCTT
3562034 GAGAATCTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.13, G:0.05, T:0.52
Consensus pattern (34 bp):
AATTCTTATGAATTTCTAATTCTTACAAATCTTC
Found at i:3566834 original size:9 final size:9
Alignment explanation
Indices: 3566820--3566848 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3566810 TTCTTTTTTA
3566820 TATCTTATT
1 TATCTTATT
3566829 TATCTTATT
1 TATCTTATT
3566838 TAT-TTATT
1 TATCTTATT
3566846 TAT
1 TAT
3566849 GTTTTAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (9 bp):
TATCTTATT
Found at i:3567633 original size:21 final size:21
Alignment explanation
Indices: 3567593--3567639 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
3567583 ATGGTTTTTC
3567593 TTTTTTGTTTTTTTCATA-TTA
1 TTTTTTGTTTTTTT-ATATTTA
3567614 TTTTTTGTTTTGATTT-TATTTA
1 TTTTTTGTTTT--TTTATATTTA
3567636 TTTT
1 TTTT
3567640 ACTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 13 0.57
22 7 0.30
23 3 0.13
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (21 bp):
TTTTTTGTTTTTTTATATTTA
Found at i:3567654 original size:19 final size:21
Alignment explanation
Indices: 3567630--3567672 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
3567620 GTTTTGATTT
3567630 TATTT-ATTTT-ACTTTT-TTC
1 TATTTAATTTTCA-TTTTATTC
3567649 TATTTAATTTTCATTTTATTC
1 TATTTAATTTTCATTTTATTC
3567670 TAT
1 TAT
3567673 CATTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.24
20 9 0.43
21 7 0.33
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTTAATTTTCATTTTATTC
Found at i:3584439 original size:14 final size:14
Alignment explanation
Indices: 3584420--3584454 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3584410 GTTTGGTGAG
*
3584420 ATTTTTTGCTGAAA
1 ATTTTTTGATGAAA
*
3584434 ATTTTTTTATGAAA
1 ATTTTTTGATGAAA
3584448 ATTTTTT
1 ATTTTTT
3584455 TAAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.60
Consensus pattern (14 bp):
ATTTTTTGATGAAA
Found at i:3584455 original size:14 final size:14
Alignment explanation
Indices: 3584429--3584456 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3584419 GATTTTTTGC
3584429 TGAAAATTTTTTTA
1 TGAAAATTTTTTTA
3584443 TGAAAATTTTTTTA
1 TGAAAATTTTTTTA
3584457 AAAAATAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TGAAAATTTTTTTA
Found at i:3585480 original size:52 final size:52
Alignment explanation
Indices: 3585416--3585528 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 52
3585406 AGTAAATTTT
* * * *
3585416 AAAAATATAAAAATATGT-AACAGTCTCCTATAAACAGA-AGTTCAACAACTTG
1 AAAAATAAAAAAATATATAAAAAGT-TCCTATAAACAGAGA-CTCAACAACTTG
* * *
3585468 AAAAATAAAAAAATATATAAAAAGTTTCTTTAAATAGAGACTCAACAACTTG
1 AAAAATAAAAAAATATATAAAAAGTTCCTATAAACAGAGACTCAACAACTTG
3585520 AAAAATAAA
1 AAAAATAAA
3585529 GGTTTCTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 46 0.88
53 6 0.12
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.25
Consensus pattern (52 bp):
AAAAATAAAAAAATATATAAAAAGTTCCTATAAACAGAGACTCAACAACTTG
Found at i:3587618 original size:51 final size:51
Alignment explanation
Indices: 3587546--3587644 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 51
3587536 CTAGAAAAGC
* * *
3587546 CACCGAAAAGTTCAATCAAAAATTAAAAATCTCATCGATTTCT-AAAAATTT
1 CACCAAAAAATTCAATCAAAAATGAAAAA-CTCATCGATTTCTGAAAAATTT
3587597 CACCAAAAAATTCAA-CTAAAAATGAAAAACTCATCGATTTCTGAAAAA
1 CACCAAAAAATTCAATC-AAAAATGAAAAACTCATCGATTTCTGAAAAA
3587645 CCTATCGGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 14 0.33
51 29 0.67
ACGTcount: A:0.51, C:0.18, G:0.06, T:0.25
Consensus pattern (51 bp):
CACCAAAAAATTCAATCAAAAATGAAAAACTCATCGATTTCTGAAAAATTT
Found at i:3588302 original size:26 final size:26
Alignment explanation
Indices: 3588262--3588319 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
3588252 GCTCTGATTG
* * *
3588262 AATGGGCCTAATTAGGCCCATACCAA
1 AATGGGCCCAATTAGACCCAGACCAA
* *
3588288 AATGGGCCCAGTTAGACTCAGACCAA
1 AATGGGCCCAATTAGACCCAGACCAA
3588314 AATGGG
1 AATGGG
3588320 TGTTTATAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (26 bp):
AATGGGCCCAATTAGACCCAGACCAA
Found at i:3588782 original size:118 final size:118
Alignment explanation
Indices: 3588469--3589263 Score: 792
Period size: 119 Copynumber: 6.7 Consensus size: 118
3588459 TGAAAAGATT
* * ** * * * *
3588469 AGGACTGAGTCAAGGTCAAAAATGAATGATCAAGACGGAATCATGAATCATAAAAAATGATCTAG
1 AGGACCGAGTCAAGGT-AAAAATGAATGATCGAGATAGAACCACGAATCATAAGAAATGATCTGG
* * * *
3588534 ACTGAGCCAAGATCAAGTGATTGAGACGAAATCACAAGTCAAAATAAAAGTGACC
65 ACTAAGCCAAGATCAGGTGATTGAGACAAAACCACAAGTCAAAAT-AAAGTGACC
* * * * **
3588589 A-GACCGAGTCAAGATAAAAAATGAATGATCGGGATAAAACCACGAATCATAAGAAATGATTTAA
1 AGGACCGAGTCAAGGT-AAAAATGAATGATCGAGATAGAACCACGAATCATAAGAAATGATCTGG
* * * ** * *
3588653 ACTGAGCCAAGATCAGGTGATCGAAATGAAACCACAAGTTAAAATAAAGTGATC
65 ACTAAGCCAAGATCAGGTGATTGAGACAAAACCACAAGTCAAAATAAAGTGACC
** ** * * * *
3588707 AGGATTGAGTCAAGGTCGAAATGAATGATCGAGATAGAACCACAAATTATAAAAAATGATTTGGA
1 AGGACCGAGTCAAGGTAAAAATGAATGATCGAGATAGAACCACGAATCATAAGAAATGATCTGGA
* **
3588772 CTAAGCCAAGATCAGGTGATTGAGACGAAACCACAAGTTGAAATAAAGTGACC
66 CTAAGCCAAGATCAGGTGATTGAGACAAAACCACAAGTCAAAATAAAGTGACC
* * * * *
3588825 AGGACCGAGTCGAAGTTGAAAATGAATAATCAAGAT-GAAACCACGAATCATAAGAAATAATCTG
1 AGGACCGAGTC-AAGGTAAAAATGAATGATCGAGATAG-AACCACGAATCATAAGAAATGATCTG
* * * * * *
3588889 GACTAAGCCAAGATTAAGTGATCGAGATAAAACCAC-AGTCAAAATAAAATGGCC
64 GACTAAGCCAAGATCAGGTGATTGAGACAAAACCACAAGTCAAAATAAAGTGACC
* * *
3588943 AGGATCGAGTCAAGGTAAAAAATGAATGATCGAGAT-GAAACCACAAATCATAAGAAATGATCTA
1 AGGACCGAGTCAAGGT-AAAAATGAATGATCGAGATAG-AACCACGAATCATAAGAAATGATCTG
* * *
3589007 GATTAAGCCAAGATCAGGTGATTGAGACAAAATCACAAGTCAAAATAAAATGACC
64 GACTAAGCCAAGATCAGGTGATTGAGACAAAACCACAAGTCAAAATAAAGTGACC
* * * * * * *
3589062 AGGATCGAGTCGAGGTAAAAAATGAATTATC-AGAATGGATCTATGAATCATAAGAAATGATCTG
1 AGGACCGAGTCAAGGT-AAAAATGAATGATCGAG-ATAGAACCACGAATCATAAGAAATGATCTG
* * * *
3589126 GATTAAGCCAAGATCAGGTGAAT-AGGATAAAATCACAAGTCAAAATAAAGTGACC
64 GACTAAGCCAAGATCAGGTGATTGA-GACAAAACCACAAGTCAAAATAAAGTGACC
* * * ** *
3589181 AGGACCAAGTTAAGGTCAAAAATGAATGATCGAGATAGAATCATAAATCATAAAAAATGATCTGG
1 AGGACCGAGTCAAGGT-AAAAATGAATGATCGAGATAGAACCACGAATCATAAGAAATGATCTGG
** *
3589246 ACTGTGCCAAAATCAGGT
65 ACTAAGCCAAGATCAGGT
3589264 AAATGTAAAT
Statistics
Matches: 566, Mismatches: 100, Indels: 19
0.83 0.15 0.03
Matches are distributed among these distances:
117 4 0.01
118 204 0.36
119 354 0.63
120 4 0.01
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (118 bp):
AGGACCGAGTCAAGGTAAAAATGAATGATCGAGATAGAACCACGAATCATAAGAAATGATCTGGA
CTAAGCCAAGATCAGGTGATTGAGACAAAACCACAAGTCAAAATAAAGTGACC
Found at i:3588833 original size:237 final size:237
Alignment explanation
Indices: 3588469--3589263 Score: 943
Period size: 237 Copynumber: 3.4 Consensus size: 237
3588459 TGAAAAGATT
* * ** * **
3588469 AGGACTGAGTCAAGGTCAAAAATGAATGATCAAGACGGAATCATGAATCATAAAAAATGATCTAG
1 AGGACCGAGTCAAGGTCAAAAATGAATGATCGAGATAGAACCACAAATCATAAAAAATGATCTAG
* *
3588534 ACTGAGCCAAGATCAAGTGATTGAGACGAAATCACAAGTCAAAATAAAAGTGACCA-GACCGAGT
66 ACTAAGCCAAGATCAGGTGATTGAGACGAAATCACAAGTCAAAAT-AAAGTGACCAGGACCGAGT
* * * * ** *
3588598 CAAGATAAAAAATGAATGATCGGGATAAAACCACGAATCATAAGAAATGATTTAAACTGAGCCAA
130 CAAG-TAAAAAATGAATAATCAGGATGAAACCACGAATCATAAGAAATGATCTGGACTAAGCCAA
* * * *
3588663 GATCAGGTGATCGAAATGAAACCACAAGTTAAAATAAAGTGATC
194 GATCAGGTGATCGAGATAAAACCACAAGTCAAAATAAAGTGACC
** * * * *
3588707 AGGATTGAGTCAAGGTC-GAAATGAATGATCGAGATAGAACCACAAATTATAAAAAATGATTTGG
1 AGGACCGAGTCAAGGTCAAAAATGAATGATCGAGATAGAACCACAAATCATAAAAAATGATCTAG
* **
3588771 ACTAAGCCAAGATCAGGTGATTGAGACGAAACCACAAGTTGAAATAAAGTGACCAGGACCGAGTC
66 ACTAAGCCAAGATCAGGTGATTGAGACGAAATCACAAGTCAAAATAAAGTGACCAGGACCGAGTC
** * *
3588836 GAAGTTGAAAATGAATAATCAAGATGAAACCACGAATCATAAGAAATAATCTGGACTAAGCCAAG
131 -AAGTAAAAAATGAATAATCAGGATGAAACCACGAATCATAAGAAATGATCTGGACTAAGCCAAG
* * * *
3588901 ATTAAGTGATCGAGATAAAACCAC-AGTCAAAATAAAATGGCC
195 ATCAGGTGATCGAGATAAAACCACAAGTCAAAATAAAGTGACC
* * *
3588943 AGGATCGAGTCAAGGTAAAAAATGAATGATCGAGAT-GAAACCACAAATCATAAGAAATGATCTA
1 AGGACCGAGTCAAGGTCAAAAATGAATGATCGAGATAG-AACCACAAATCATAAAAAATGATCTA
* * * *
3589007 GATTAAGCCAAGATCAGGTGATTGAGACAAAATCACAAGTCAAAATAAAATGACCAGGATCGAGT
65 GACTAAGCCAAGATCAGGTGATTGAGACGAAATCACAAGTCAAAATAAAGTGACCAGGACCGAGT
* * * * * * * *
3589072 CGAGGTAAAAAATGAATTATCAGAATGGATCTATGAATCATAAGAAATGATCTGGATTAAGCCAA
130 C-AAGTAAAAAATGAATAATCAGGATGAAACCACGAATCATAAGAAATGATCTGGACTAAGCCAA
* *
3589137 GATCAGGTGAATAG-GATAAAATCACAAGTCAAAATAAAGTGACC
194 GATCAGGTG-ATCGAGATAAAACCACAAGTCAAAATAAAGTGACC
* * * * *
3589181 AGGACCAAGTTAAGGTCAAAAATGAATGATCGAGATAGAATCATAAATCATAAAAAATGATCTGG
1 AGGACCGAGTCAAGGTCAAAAATGAATGATCGAGATAGAACCACAAATCATAAAAAATGATCTAG
** *
3589246 ACTGTGCCAAAATCAGGT
66 ACTAAGCCAAGATCAGGT
3589264 AAATGTAAAT
Statistics
Matches: 471, Mismatches: 79, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
236 40 0.08
237 323 0.69
238 107 0.23
239 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (237 bp):
AGGACCGAGTCAAGGTCAAAAATGAATGATCGAGATAGAACCACAAATCATAAAAAATGATCTAG
ACTAAGCCAAGATCAGGTGATTGAGACGAAATCACAAGTCAAAATAAAGTGACCAGGACCGAGTC
AAGTAAAAAATGAATAATCAGGATGAAACCACGAATCATAAGAAATGATCTGGACTAAGCCAAGA
TCAGGTGATCGAGATAAAACCACAAGTCAAAATAAAGTGACC
Found at i:3589784 original size:33 final size:33
Alignment explanation
Indices: 3589747--3589817 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
3589737 TCTTTCATTC
*
3589747 ATGGCAAGATATAAAGAAGAAGAAAATAATAAG
1 ATGGCAAGATATAAAGAAGAAGAAAATAATAAA
*** * *
3589780 ATGGCTTTATATAAAGAGGAAGAGAATAATAAA
1 ATGGCAAGATATAAAGAAGAAGAAAATAATAAA
3589813 ATGGC
1 ATGGC
3589818 TTTCATTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.54, C:0.04, G:0.23, T:0.20
Consensus pattern (33 bp):
ATGGCAAGATATAAAGAAGAAGAAAATAATAAA
Found at i:3589818 original size:33 final size:33
Alignment explanation
Indices: 3589755--3589820 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3589745 TCATGGCAAG
*
3589755 ATATAAAGAAGAAGAAAATAATAAGATGGCTTT
1 ATATAAAGAAGAAGAAAATAATAAAATGGCTTT
* *
3589788 ATATAAAGAGGAAGAGAATAATAAAATGGCTTT
1 ATATAAAGAAGAAGAAAATAATAAAATGGCTTT
3589821 CATTTATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.24
Consensus pattern (33 bp):
ATATAAAGAAGAAGAAAATAATAAAATGGCTTT
Found at i:3590134 original size:21 final size:20
Alignment explanation
Indices: 3590089--3590133 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
3590079 TCTTTCTGGG
*
3590089 TTTTTGGCTTGAATTTTTCT
1 TTTTTAGCTTGAATTTTTCT
3590109 TTTTTAGCTTGAACTTTTT-T
1 TTTTTAGCTTGAA-TTTTTCT
3590129 TTTTT
1 TTTTT
3590134 TTTATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.69
Consensus pattern (20 bp):
TTTTTAGCTTGAATTTTTCT
Found at i:3590143 original size:12 final size:13
Alignment explanation
Indices: 3590125--3590154 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3590115 GCTTGAACTT
*
3590125 TTTTTTTTTTTTA
1 TTTTTTTTTTGTA
3590138 TTTTTTTTTTGTA
1 TTTTTTTTTTGTA
3590151 TTTT
1 TTTT
3590155 GAATCAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (13 bp):
TTTTTTTTTTGTA
Found at i:3600350 original size:6 final size:5
Alignment explanation
Indices: 3600323--3600367 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
3600313 AAAAAAAGGT
*
3600323 TAAAA TAAAA TAAAA T-AAA TCAAAA T-CAA -AAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA TA
3600368 GAAAAAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
4 8 0.24
5 22 0.65
6 4 0.12
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:3600638 original size:51 final size:52
Alignment explanation
Indices: 3600562--3600662 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 52
3600552 CTAAAAAAGC
*
3600562 CACCAAAAAGTTCAATCGAAAATTGAAAATCCCATCAATTTCT-GAAAACTT
1 CACCAAAAAGTTCAATCGAAAATTGAAAAACCCATCAATTTCTGGAAAACTT
* * *
3600613 CACCAAAAATTTCAATTGAAAATTGAAAAACCCATCGATTTCTGGAAAAC
1 CACCAAAAAGTTCAATCGAAAATTGAAAAACCCATCAATTTCTGGAAAAC
3600663 CTGTTGAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 39 0.87
52 6 0.13
ACGTcount: A:0.46, C:0.21, G:0.09, T:0.25
Consensus pattern (52 bp):
CACCAAAAAGTTCAATCGAAAATTGAAAAACCCATCAATTTCTGGAAAACTT
Found at i:3616748 original size:18 final size:20
Alignment explanation
Indices: 3616713--3616757 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
3616703 GAAAACAATT
*
3616713 TTTTTATTTTCATATTTTAA
1 TTTTTATTTTAATATTTTAA
3616733 TTTTT-TTTTAAT-TTTTAA
1 TTTTTATTTTAATATTTTAA
3616751 TTATTTA
1 TT-TTTA
3616758 ATACTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTATTTTAATATTTTAA
Found at i:3622540 original size:5 final size:5
Alignment explanation
Indices: 3622530--3622554 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3622520 TTCATACCTC
3622530 TGTTT TGTTT TGTTT TGTTT TGTTT
1 TGTTT TGTTT TGTTT TGTTT TGTTT
3622555 AATGAGTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TGTTT
Found at i:3626155 original size:3 final size:3
Alignment explanation
Indices: 3626147--3626171 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3626137 CACTATACCA
3626147 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
3626172 GACAAACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3628488 original size:23 final size:23
Alignment explanation
Indices: 3628445--3628488 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3628435 TTTTTATAAA
**
3628445 ATATAATAATAAAACTTATTTTT
1 ATATAATAATAAAACAAATTTTT
*
3628468 ATATATTAATAAAACAAATTT
1 ATATAATAATAAAACAAATTT
3628489 AAATAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATAATAATAAAACAAATTTTT
Found at i:3628571 original size:12 final size:12
Alignment explanation
Indices: 3628556--3628612 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
3628546 AAATCAAATT
3628556 TTAAATTTTAA-A
1 TTAAA-TTTAATA
3628568 TTAAATTTAATA
1 TTAAATTTAATA
*
3628580 TTAAACTTAATA
1 TTAAATTTAATA
* *
3628592 TTATA-TCAAT-
1 TTAAATTTAATA
3628602 TTAAATTTAAT
1 TTAAATTTAAT
3628613 CTATTACACC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
10 4 0.11
11 13 0.34
12 21 0.55
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (12 bp):
TTAAATTTAATA
Found at i:3631582 original size:18 final size:18
Alignment explanation
Indices: 3631556--3631590 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3631546 TTTTTTAATT
* *
3631556 AAAACATAATATAACAAC
1 AAAAAATAAAATAACAAC
3631574 AAAAAATAAAATAACAA
1 AAAAAATAAAATAACAA
3631591 TAAGATAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAAATAAAATAACAAC
Found at i:3632224 original size:1 final size:1
Alignment explanation
Indices: 3632218--3632243 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
3632208 GAACGTTGTT
3632218 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
3632244 GAACAAGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3646167 original size:22 final size:22
Alignment explanation
Indices: 3646139--3646182 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3646129 CTAAATCTTC
*
3646139 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
3646161 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
3646183 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:3649644 original size:18 final size:18
Alignment explanation
Indices: 3649618--3649652 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3649608 TAATCCATGA
*
3649618 GAACCAGAAGCTTTACCT
1 GAACCAGAAACTTTACCT
*
3649636 GAACTAGAAACTTTACC
1 GAACCAGAAACTTTACC
3649653 CAAAGAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (18 bp):
GAACCAGAAACTTTACCT
Found at i:3649879 original size:23 final size:23
Alignment explanation
Indices: 3649824--3649908 Score: 125
Period size: 23 Copynumber: 3.6 Consensus size: 23
3649814 TTGAAAGGGT
* *
3649824 TCGGCAATGAAGGCCTAAACAGGAT
1 TCGGCAATGAAGGCCTAAA-A-AAG
3649849 TCGGCAATGAAGGCCTAAAAAAG
1 TCGGCAATGAAGGCCTAAAAAAG
3649872 TCGGCAATGAAGGCCTAAAAAAG
1 TCGGCAATGAAGGCCTAAAAAAG
*
3649895 TCAGCAATGAAGGC
1 TCGGCAATGAAGGC
3649909 TGAAAATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
23 37 0.65
24 1 0.02
25 19 0.33
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (23 bp):
TCGGCAATGAAGGCCTAAAAAAG
Found at i:3650084 original size:22 final size:22
Alignment explanation
Indices: 3650056--3650099 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3650046 CTAAATCTTC
*
3650056 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
3650078 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
3650100 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:3655856 original size:86 final size:86
Alignment explanation
Indices: 3655711--3655887 Score: 347
Period size: 86 Copynumber: 2.1 Consensus size: 86
3655701 TATAAGAAGG
3655711 CAGGGAGGTGGAAGCACTCCATCGCCTTGTCAAAGAAGGACAATCATTACGGAGATGCGATGGAA
1 CAGGGAGGTGGAAGCACTCCATCGCCTTGTCAAAGAAGGACAATCATTACGGAGATGCGATGGAA
3655776 ACATGTTCACTGTCTGGTGAT
66 ACATGTTCACTGTCTGGTGAT
3655797 CAGGGAGGTGGAAGCACTCCATCGCCTTGTCAAAGAAGGACAATCATTACGGAGATGCGATGGAA
1 CAGGGAGGTGGAAGCACTCCATCGCCTTGTCAAAGAAGGACAATCATTACGGAGATGCGATGGAA
3655862 ACATGTTCACTGTCTGGTGAT
66 ACATGTTCACTGTCTGGTGAT
3655883 C-GGGA
1 CAGGGA
3655888 ACTTGTGGAG
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 87 0.96
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (86 bp):
CAGGGAGGTGGAAGCACTCCATCGCCTTGTCAAAGAAGGACAATCATTACGGAGATGCGATGGAA
ACATGTTCACTGTCTGGTGAT
Found at i:3670982 original size:18 final size:20
Alignment explanation
Indices: 3670944--3670987 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
3670934 ATGCATTAGG
*
3670944 TAATTAATCTTGCTATATAT
1 TAATTAATCTGGCTATATAT
3670964 TAATTAAT-TGGCT-TATAT
1 TAATTAATCTGGCTATATAT
*
3670982 TTATTA
1 TAATTA
3670988 TATTTTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 4 0.18
20 8 0.36
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (20 bp):
TAATTAATCTGGCTATATAT
Found at i:3673486 original size:20 final size:19
Alignment explanation
Indices: 3673452--3673507 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
3673442 TTATTTTTTT
**
3673452 AAAATTTATTTAATAAAAA
1 AAAATTTATAAAATAAAAA
*
3673471 ATAAATTTATAAAATACATAA
1 A-AAATTTATAAAATA-AAAA
*
3673492 AAAATTCA-AAAATAAA
1 AAAATTTATAAAATAAA
3673508 GTAAAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 7 0.23
20 18 0.60
21 4 0.13
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATTTATAAAATAAAAA
Found at i:3673512 original size:20 final size:20
Alignment explanation
Indices: 3673489--3673527 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3673479 ATAAAATACA
**
3673489 TAAAAAATTCAAAAATAAAG
1 TAAAAAATAAAAAAATAAAG
3673509 TAAAAAATAAAAAAATAAA
1 TAAAAAATAAAAAAATAAA
3673528 TTTTTTGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
TAAAAAATAAAAAAATAAAG
Found at i:3673561 original size:23 final size:23
Alignment explanation
Indices: 3673534--3673579 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3673524 TAAATTTTTT
**
3673534 GAAGAAATACGGGGTGTCACGTG
1 GAAGAAATACGGGACGTCACGTG
*
3673557 GAAGAAATATGGGACGTCACGTG
1 GAAGAAATACGGGACGTCACGTG
3673580 AACACCTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.37, T:0.17
Consensus pattern (23 bp):
GAAGAAATACGGGACGTCACGTG
Found at i:3674340 original size:19 final size:17
Alignment explanation
Indices: 3674313--3674359 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
3674303 GAAATATTTT
3674313 ATTAATTAAAATAATAAAA
1 ATTAATT-AAAT-ATAAAA
*
3674332 ATTATTTAAATATAAAA
1 ATTAATTAAATATAAAA
3674349 ATTTAATTAAA
1 A-TTAATTAAA
3674360 CTCGTAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 12 0.48
19 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTAATTAAATATAAAA
Found at i:3675138 original size:25 final size:24
Alignment explanation
Indices: 3675104--3675159 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
3675094 TATTTTTATA
*
3675104 TTTATATAAATTATAATATATAATT
1 TTTATATAAAATATAATATA-AATT
*
3675129 TTTATATAAAATATTATATAAATT
1 TTTATATAAAATATAATATAAATT
*
3675153 TTAATAT
1 TTTATAT
3675160 TTTATACCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTATATAAAATATAATATAAATT
Done.