Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 24 of 25
Found at i:3811596 original size:28 final size:28
Alignment explanation
Indices: 3811560--3811641 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
3811550 ATTTTTCACA
* *
3811560 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
3811588 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
3811616 --CGAGGGAACACTCCAACCCCGTTATT
1 ATCG-GGG-ATACTCCAACCCCGTTATT
3811642 ATCTCCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 42 0.89
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:3811609 original size:213 final size:213
Alignment explanation
Indices: 3811242--3811636 Score: 605
Period size: 213 Copynumber: 1.9 Consensus size: 213
3811232 AATTCTCCAC
* * * * *
3811242 AATCGGGGATATTCCAACTCTGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATACTC
* *
3811307 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTTA
66 CAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
* * * *
3811372 ATCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGCCTTGAACTTATT
131 ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGCCTTGAACTTATT
3811437 AAAATATTGATTTTTCAT
196 AAAATATTGATTTTTCAT
* *
3811455 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGAGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGAGGATACT
* * *
3811520 CCAACACCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAACCTCGTT
65 CCAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTT
*
3811583 ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCG
130 A-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCG
3811637 TTATTATCTC
Statistics
Matches: 163, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
212 27 0.17
213 102 0.63
214 34 0.21
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (213 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATACTC
CAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGCCTTGAACTTATT
AAAATATTGATTTTTCAT
Found at i:3813300 original size:21 final size:20
Alignment explanation
Indices: 3813253--3813306 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
3813243 CATTTTAGAC
3813253 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
3813273 ATGTATCGATACATT-ACCTT
1 ATGTATCGATACATTCA-CTT
3813293 ATTGTATCGATACA
1 A-TGTATCGATACA
3813307 AATTATTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 1 0.03
20 19 0.59
21 12 0.38
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:3815417 original size:79 final size:78
Alignment explanation
Indices: 3815190--3815422 Score: 236
Period size: 79 Copynumber: 3.0 Consensus size: 78
3815180 TTTGGGTCAA
* ** * * *
3815190 TAGGGTTATGTGGGTATTTTTGTATCAATACATGT-CTATTAAGGTCATTTAAGTAATAGTATAT
1 TAGGGTTATGTAGGTATTTTCATGTCAATACATGTCCT-TTAAGATCAATTAAGTAATAGTATAT
*
3815254 TAAAAGTAAGTCTT
65 TAAAACTAAGTCTT
* * * * * * *
3815268 TAAGGTTATGTAAGTATTTTCATGTCAATATATGTCCGTT-AGAGCGAATTTAAGTAATGGTACA
1 TAGGGTTATGTAGGTATTTTCATGTCAATACATGTCCTTTAAGATC-AA-TTAAGTAATAGTATA
*
3815332 TTAAAACCAAGTCTT
64 TTAAAACTAAGTCTT
* * * * *
3815347 TAGGGTCATGTTGGTATTTTCATGTCAATACATGTCCTTTAAGATCAATTAAGAAATACTATGTT
1 TAGGGTTATGTAGGTATTTTCATGTCAATACATGTCCTTTAAGATCAATTAAGTAATAGTATATT
3815412 AAAAACTAAGT
66 -AAAACTAAGT
3815423 GCCTACTATT
Statistics
Matches: 122, Mismatches: 28, Indels: 9
0.77 0.18 0.06
Matches are distributed among these distances:
77 3 0.02
78 43 0.35
79 72 0.59
80 4 0.03
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.39
Consensus pattern (78 bp):
TAGGGTTATGTAGGTATTTTCATGTCAATACATGTCCTTTAAGATCAATTAAGTAATAGTATATT
AAAACTAAGTCTT
Found at i:3817119 original size:39 final size:37
Alignment explanation
Indices: 3817016--3817120 Score: 88
Period size: 35 Copynumber: 2.8 Consensus size: 37
3817006 AGTCATTTTT
*
3817016 GTAATTTCATGCATAAACATGCCCGTTAGGGTTATTTAT
1 GTAATTTCATGCATAAACAT-CCC-TTAGGGTTATTTAG
* * ** * * *
3817055 GTTATTGCATAAAT-GA-ATCTCTTAGGGTTTTTTAG
1 GTAATTTCATGCATAAACATCCCTTAGGGTTATTTAG
3817090 GTAATTTCATGCATAAACATACCCATTAGGG
1 GTAATTTCATGCATAAACAT-CCC-TTAGGG
3817121 CCATTGAAGG
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
35 22 0.46
36 3 0.06
37 4 0.08
38 3 0.06
39 16 0.33
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (37 bp):
GTAATTTCATGCATAAACATCCCTTAGGGTTATTTAG
Found at i:3817262 original size:77 final size:77
Alignment explanation
Indices: 3817092--3817271 Score: 195
Period size: 77 Copynumber: 2.3 Consensus size: 77
3817082 TTTTTTAGGT
* * * * *
3817092 AATTTCATGCATAAACATACCCATTAGGGCCATTGAAGGAATTTTAGGCATATATGCATCCTTTA
1 AATTTCATGCATAAACATACTCATTAGGGCCATTGAACG-ATTTTAGGCATAAATGCATCATTCA
*
3817157 GGGTCACTTTGGT
65 GGGTCACTTTGGC
* * * *
3817170 AA-TTCTTACATAAACATACTCATTAGGGTCATTTTG-ACG-TTTTAGGCATAAATGCATTATTC
1 AATTTCATGCATAAACATACTCATTAGGGCCA--TTGAACGATTTTAGGCATAAATGCATCATTC
* *
3817232 GGGGTCATTTTGGC
64 AGGGTCACTTTGGC
*
3817246 AATTTCATGCATAAACATACTTATTA
1 AATTTCATGCATAAACATACTCATTA
3817272 AGGTTGTTAG
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
76 32 0.38
77 45 0.54
78 4 0.05
79 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (77 bp):
AATTTCATGCATAAACATACTCATTAGGGCCATTGAACGATTTTAGGCATAAATGCATCATTCAG
GGTCACTTTGGC
Found at i:3820365 original size:22 final size:23
Alignment explanation
Indices: 3820340--3820382 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
3820330 AAATCGTATC
3820340 ATTAATT-TTTTTAAAAAATTTT
1 ATTAATTATTTTTAAAAAATTTT
*
3820362 ATTAATTATTTTTAAATAATT
1 ATTAATTATTTTTAAAAAATT
3820383 GCAAATGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTAATTATTTTTAAAAAATTTT
Found at i:3829975 original size:16 final size:17
Alignment explanation
Indices: 3829954--3829990 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
3829944 ATTAAATATA
*
3829954 TTTA-TTAAAATTTAAT
1 TTTATTTAAAATATAAT
3829970 TTTATTTAAAATATAAT
1 TTTATTTAAAATATAAT
3829987 TTTA
1 TTTA
3829991 AATTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTATTTAAAATATAAT
Found at i:3829980 original size:17 final size:16
Alignment explanation
Indices: 3829943--3829990 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
3829933 ATAATATTAA
3829943 TATT-AAATAT-A-TT
1 TATTAAAATATAATTT
*
3829956 TATTAAAATTTAATTT
1 TATTAAAATATAATTT
3829972 TATTTAAAATATAATTT
1 TA-TTAAAATATAATTT
3829989 TA
1 TA
3829991 AATTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 4 0.14
14 5 0.17
15 1 0.03
16 4 0.14
17 15 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTAAAATATAATTT
Found at i:3830107 original size:16 final size:15
Alignment explanation
Indices: 3830059--3830127 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
3830049 TAGATATTAT
*
3830059 TTTTTTATAATTT-A
1 TTTTTTAAAATTTAA
*
3830073 TTTTTTAAAATATATA
1 TTTTTTAAAATTTA-A
3830089 TTTTTTAAAATTTTAA
1 TTTTTTAAAA-TTTAA
*
3830105 -TTTTTATTAATTTAA
1 TTTTTTA-AAATTTAA
3830120 TTATTTTA
1 TT-TTTTA
3830128 TTTTATTAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
14 11 0.24
15 11 0.24
16 15 0.33
17 8 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTTAAAATTTAA
Found at i:3830285 original size:20 final size:20
Alignment explanation
Indices: 3830260--3830297 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3830250 AATGAGTCAG
* *
3830260 ATTAAATTTAAACTTTAAAA
1 ATTAAAGTTAAAATTTAAAA
3830280 ATTAAAGTTAAAATTTAA
1 ATTAAAGTTAAAATTTAA
3830298 TTATTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTAAAGTTAAAATTTAAAA
Found at i:3830743 original size:17 final size:17
Alignment explanation
Indices: 3830723--3830769 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
3830713 AAATAATATT
3830723 ATTTATTAAATATCAAA
1 ATTTATTAAATATCAAA
* * *
3830740 ATTTATGAAAAATCTAA
1 ATTTATTAAATATCAAA
*
3830757 ATTTAATAAATAT
1 ATTTATTAAATAT
3830770 TTAATCATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTTATTAAATATCAAA
Found at i:3836012 original size:21 final size:20
Alignment explanation
Indices: 3835970--3836013 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
3835960 TTATGTGATT
* *
3835970 AAATTGATAAATGATGTTCA
1 AAATTGAAAAATGATGTACA
*
3835990 AAATTGAAATAATTATGTACA
1 AAATTGAAA-AATGATGTACA
3836011 AAA
1 AAA
3836014 GTTCTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (20 bp):
AAATTGAAAAATGATGTACA
Found at i:3837045 original size:14 final size:15
Alignment explanation
Indices: 3837004--3837046 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
3836994 CGAGTTTGGA
*
3837004 AAAAATTATTTAAATT
1 AAAAATTACTT-AATT
3837020 AAAAA-TACTTAATT
1 AAAAATTACTTAATT
3837034 AAAAATTA-TTAAT
1 AAAAATTACTTAAT
3837047 GATGATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 14 0.56
15 6 0.24
16 5 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAAATTACTTAATT
Found at i:3847983 original size:51 final size:50
Alignment explanation
Indices: 3847926--3848040 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 50
3847916 AATTAACTAT
*
3847926 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTGAAAAAATAGA
1 ATGTATCGATACATTGAAAAATATATCGATACATCTGGGT-AAAAAATAGA
* *
3847977 ATGTATCGATACATTGAAAAGTATATCGATACATTTGGGTAAAAAATAGA
1 ATGTATCGATACATTGAAAAATATATCGATACATCTGGGTAAAAAATAGA
3848027 ATGTATCGATACAT
1 ATGTATCGATACAT
3848041 GTACTGTTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
50 24 0.39
51 37 0.61
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.30
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATATATCGATACATCTGGGTAAAAAATAGA
Found at i:3847994 original size:26 final size:26
Alignment explanation
Indices: 3847965--3848040 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 26
3847955 TACATCTGGG
3847965 TGAAAAAATAGAATGTATCGATACAT
1 TGAAAAAATAGAATGTATCGATACAT
*
3847991 TG---AAA-AG--TATATCGATACATT
1 TGAAAAAATAGAATGTATCGATACA-T
3848012 TGGGTAAAAAATAGAATGTATCGATACAT
1 T--G-AAAAAATAGAATGTATCGATACAT
3848041 GTACTGTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 17
0.67 0.04 0.30
Matches are distributed among these distances:
20 11 0.29
21 2 0.05
22 2 0.05
23 4 0.11
26 2 0.05
27 3 0.08
28 2 0.05
29 1 0.03
30 11 0.29
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (26 bp):
TGAAAAAATAGAATGTATCGATACAT
Found at i:3854160 original size:20 final size:21
Alignment explanation
Indices: 3854137--3854176 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3854127 AAATTCCCAG
*
3854137 AATGTATTGATACAT-TGAAT
1 AATGTATCGATACATCTGAAT
3854157 AATGTATCGATACATCTGAA
1 AATGTATCGATACATCTGAA
3854177 AAACCCAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATCTGAAT
Found at i:3856896 original size:29 final size:30
Alignment explanation
Indices: 3856825--3856917 Score: 116
Period size: 29 Copynumber: 3.0 Consensus size: 30
3856815 TACAAACCCA
* *
3856825 AATGTATAGATACATATTACTTAGTATCGAT
1 AATGTATCGATACATGTT-CTTAGTATCGAT
* *
3856856 ACATTATATCGATACATGTTCTT-GTATCGGT
1 A-A-TGTATCGATACATGTTCTTAGTATCGAT
3856887 AATGTATCGATACATGTTCTTAGTATCGAT
1 AATGTATCGATACATGTTCTTAGTATCGAT
3856917 A
1 A
3856918 CACACTGAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
29 18 0.34
30 9 0.17
31 9 0.17
32 4 0.08
33 13 0.25
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (30 bp):
AATGTATCGATACATGTTCTTAGTATCGAT
Found at i:3857025 original size:20 final size:21
Alignment explanation
Indices: 3856978--3857034 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
3856968 AGTATCGATA
* *
3856978 CATTATATCGATACATACTTG
1 CATTGTATCGATACATACGTG
*
3856999 AATTGTATCGATACATA-GTG
1 CATTGTATCGATACATACGTG
*
3857019 CATTGTATCGACACAT
1 CATTGTATCGATACAT
3857035 TGAGCCCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (21 bp):
CATTGTATCGATACATACGTG
Found at i:3858513 original size:149 final size:149
Alignment explanation
Indices: 3858255--3858815 Score: 469
Period size: 149 Copynumber: 3.8 Consensus size: 149
3858245 AGTTTCACAA
* * * * * * *
3858255 GACTAGGTTTCAAGGCAAATGCTAATAA-AGTCCTTTAGGTCTACCAACAACTTAAAAGTGCGTG
1 GACTAGGTTTCAAAGAAAATACTAA-AATA-TCCCTAAGGTCTACCATCAACTTAAAAGTGCCTG
* ** * * *
3858319 ATGATCC-AAGAGGATTTGAAAAAG-TAAAAGTATA-CTACTCCTAATTCATATTTTCGGCATAA
64 ATGATCCTAA-AGGACTTGAAAAAGATAAAAACAAACCTACTCCTAATTCATA-TTTCAGCATAG
** *
3858381 AAATGGACTCGGTAATTTTGTAG
127 AAGCGGACTCGGTAATTTTATAG
** * *
3858404 GACTAGG-TTCAAAGAAAATACTAAAATATCCCTAAGGTCTACCATCAACTTTGAAGTTCCTGGT
1 GACTAGGTTTCAAAGAAAATACTAAAATATCCCTAAGGTCTACCATCAACTTAAAAGTGCCTGAT
* * * * * * *
3858468 GATCCTAAAGGACTTGAGAAAGATAAAAATAAACCTATTCCTAATTCATACTTCAACGTAGAGGC
66 GATCCTAAAGGACTTGAAAAAGATAAAAACAAACCTACTCCTAATTCATATTTCAGCATAGAAGC
* * ** * *
3858533 GAACCCTATAGA-TTTACAA
131 GGACTCGGTA-ATTTTATAG
** * * * * *
3858552 GACTAGGTTTCATGGAAAATACTAAATTATCCCTAAGGTTTACTATCCACTTAAAAGTGCCTGGT
1 GACTAGGTTTCAAAGAAAATACTAAAATATCCCTAAGGTCTACCATCAACTTAAAAGTGCCTGAT
* * * *
3858617 GATCCTAGAGGA-TTTAAAAAGATAAAAACAAATCTACTCCTAATTCATACCTTT-AGCACAGAA
66 GATCCTAAAGGACTTGAAAAAGATAAAAACAAACCTACTCCTAATTCATA--TTTCAGCATAGAA
*
3858680 GCGGACTCGGTAGTTTTATAG
129 GCGGACTCGGTAATTTTATAG
* * * * * *
3858701 GACTAGGTTTCGAGAAAAAAATGCTAGAAGATCCCTAAGGTCTACCATCAACCTAGAAGTG-CTA
1 GACTAGGTTTC-A-AAGAAAATACTAAAATATCCCTAAGGTCTACCATCAACTTAAAAGTGCCT-
* * *
3858765 GAAGATCCTAGAGGACTT-AAATAGAT-AAAACAAACCTACTCCTAATTCATA
63 GATGATCCTAAAGGACTTGAAAAAGATAAAAACAAACCTACTCCTAATTCATA
3858816 CGTTTGGCGT
Statistics
Matches: 325, Mismatches: 74, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
147 47 0.14
148 81 0.25
149 111 0.34
150 29 0.09
151 55 0.17
152 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (149 bp):
GACTAGGTTTCAAAGAAAATACTAAAATATCCCTAAGGTCTACCATCAACTTAAAAGTGCCTGAT
GATCCTAAAGGACTTGAAAAAGATAAAAACAAACCTACTCCTAATTCATATTTCAGCATAGAAGC
GGACTCGGTAATTTTATAG
Found at i:3859473 original size:21 final size:21
Alignment explanation
Indices: 3859447--3859498 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
3859437 AAAGGTTTTA
*
3859447 ATTATTCATTTTATTTTGATT
1 ATTATTCATTTAATTTTGATT
* *
3859468 ATTATTAATTTAATTTTTATT
1 ATTATTCATTTAATTTTGATT
3859489 -TTATTTCATT
1 ATTA-TTCATT
3859499 AAAAATCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTATTCATTTAATTTTGATT
Found at i:3861547 original size:167 final size:160
Alignment explanation
Indices: 3860992--3861560 Score: 474
Period size: 167 Copynumber: 3.5 Consensus size: 160
3860982 TTGTCTTATA
* * * * * * *
3860992 AAAAAATGCAAAACTCATAGAATAAATTGAATTTTGCAAAACTAATTTAATGTGAATTTAATTAC
1 AAAAAATGAAAAACTCATAAAATAAA-TGAATTTTGCAAAACTGATTTAATAT-AATTAAATAAT
*
3861057 AATATTAT-ATGAATTTTAAAAATTTTAAACTGAGAAAAAT-TCTCTCGAAAACATTTATGGAAT
64 AATATT-TGATGAATTTTAAAAATTTTAAACTGAGAAAAATCT-TCTCGAAAACATTTAT-GAGT
* * * * *
3861120 AAAAAACTAGGTTTTTCGAAAATAAAAAAATTTTAAGT
126 -AAAAACT-TGTTTTTCGAAAAT-AAGAGATTTCAAGG
* *
3861158 AAAAAATGAAAAACTCATGAAAATAAATGAA---T-CAAAACTGATTTACTATTAATTAAATGAT
1 AAAAAATGAAAAACTCAT-AAAATAAATGAATTTTGCAAAACTGATTTAATA-TAATTAAATAAT
* * * * *
3861219 GATATTTGATAAATTTTTAAAATTTTTGAATTGAGAAAAA-CTT-TCCGAAAACATTTATGAAGT
64 AATATTTGATGAA-TTTTAAAAATTTTAAACTGAGAAAAATCTTCT-CGAAAACATTTATG-AGT
* *
3861282 AGAAAGCTTCGTTTTTCGAAAATAGAGGGATTTCAA-G
126 A-AAAACTT-GTTTTTCGAAAATA-AGAGATTTCAAGG
* * * * * * *
3861319 AAAAATATAAAAAACTGAGGAAAATAATTGAATTTTTCAAAACTTATTTAATGCTAATTAAATAA
1 AAAAA-ATGAAAAACTCA-TAAAATAAATGAATTTTGCAAAACTGATTTAAT-ATAATTAAATAA
* * * * * *
3861384 TGATATTTGATGAATTTAAAAAAATTTTAAACCGAAAAAAATCTTCTCGAGAACATTTATAGTGT
63 TAATATTTGATGAATTT-TAAAAATTTTAAACTGAGAAAAATCTTCTCGAAAACATTTAT-GAGT
*
3861449 AACAAACTCTGTATTTC-AGAAATAATGAGATTTCAAGG
126 AA-AAACT-TGTTTTTCGA-AAATAA-GAGATTTCAAGG
* *
3861487 AAAAAATGAAAAACTCATAAAATAAAAAGAATTTTGAAAAACTGATTTAATATAAATTAAATAAT
1 AAAAAATGAAAAACTCATAAAAT-AAATGAATTTTGCAAAACTGATTTAATAT-AATTAAATAAT
*
3861552 AATTTTTGA
64 AATATTTGA
3861561 AAATTTTTGA
Statistics
Matches: 323, Mismatches: 52, Indels: 55
0.75 0.12 0.13
Matches are distributed among these distances:
161 10 0.03
162 92 0.28
163 26 0.08
165 4 0.01
166 83 0.26
167 99 0.31
168 9 0.03
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.33
Consensus pattern (160 bp):
AAAAAATGAAAAACTCATAAAATAAATGAATTTTGCAAAACTGATTTAATATAATTAAATAATAA
TATTTGATGAATTTTAAAAATTTTAAACTGAGAAAAATCTTCTCGAAAACATTTATGAGTAAAAA
CTTGTTTTTCGAAAATAAGAGATTTCAAGG
Found at i:3863506 original size:16 final size:16
Alignment explanation
Indices: 3863485--3863518 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3863475 CTTCCTTCCC
3863485 AATACCTAAATGGAAT
1 AATACCTAAATGGAAT
*
3863501 AATACCTTAATGGAAT
1 AATACCTAAATGGAAT
3863517 AA
1 AA
3863519 CAATGTCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (16 bp):
AATACCTAAATGGAAT
Found at i:3866683 original size:6 final size:7
Alignment explanation
Indices: 3866668--3866707 Score: 53
Period size: 7 Copynumber: 5.3 Consensus size: 7
3866658 TGATTCTTCC
3866668 TTTTCTT
1 TTTTCTT
3866675 TTTTCTT
1 TTTTCTT
3866682 TTTTCTT
1 TTTTCTT
3866689 TATTTCTATT
1 T-TTTC--TT
3866699 TTTTCTT
1 TTTTCTT
3866706 TT
1 TT
3866708 CCAAATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 19 0.63
8 4 0.13
9 4 0.13
10 3 0.10
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTCTT
Found at i:3869045 original size:162 final size:163
Alignment explanation
Indices: 3868608--3869081 Score: 941
Period size: 163 Copynumber: 2.9 Consensus size: 163
3868598 AGTATAGCAG
3868608 TGCTGGAAAGAAAGTTGATGTAAGGTTGAAGAAATGGATTTGATTCATTTGGGGATCTTGATGTT
1 TGCTGGAAAGAAAGTTGATGTAAGGTTGAAGAAATGGATTTGATTCATTTGGGGATCTTGATGTT
3868673 TTGGCAGAGAGAGATGGTAAGGAAGAAGATAAATAGATTAGCACAAATATTATTATTTATTTTTA
66 TTGGCAGAGAGAGATGGTAAGGAAGAAGATAAATAGATTAGCACAAATATTATTATTTATTTTTA
3868738 TTATAAATGAGCTAAGGACTATTATAAATGAGA
131 TTATAAATGAGCTAAGGACTATTATAAATGAGA
3868771 TGCTGGAAAGAAAGTTGATGTAAGGTTGAAGAAATGGATTTGATTCATTTGGGGATCTTGATGTT
1 TGCTGGAAAGAAAGTTGATGTAAGGTTGAAGAAATGGATTTGATTCATTTGGGGATCTTGATGTT
3868836 TTGGCAGAGAGAGATGGTAAGGAAGAAGATAAATAGATTAGCACAAATATTATTATTTATTTTTA
66 TTGGCAGAGAGAGATGGTAAGGAAGAAGATAAATAGATTAGCACAAATATTATTATTTATTTTTA
3868901 TTATAAATGAGCTAAGGACTATTATAAATGAGA
131 TTATAAATGAGCTAAGGACTATTATAAATGAGA
3868934 TGCTGG-AAGAAAGTTGATGTAAGGTTGAAGAAATGGATTTGATTCATTTGGGGATCTTGATGTT
1 TGCTGGAAAGAAAGTTGATGTAAGGTTGAAGAAATGGATTTGATTCATTTGGGGATCTTGATGTT
3868998 TTGGCAGAGAGAGATGGTAAGGAAGAAGATAAATAGATTAGCACAAATATTATTATTTATTTTTA
66 TTGGCAGAGAGAGATGGTAAGGAAGAAGATAAATAGATTAGCACAAATATTATTATTTATTTTTA
3869063 TTATAAATGAGCTAAGGAC
131 TTATAAATGAGCTAAGGAC
3869082 AGTTAATGTG
Statistics
Matches: 311, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
162 142 0.46
163 169 0.54
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (163 bp):
TGCTGGAAAGAAAGTTGATGTAAGGTTGAAGAAATGGATTTGATTCATTTGGGGATCTTGATGTT
TTGGCAGAGAGAGATGGTAAGGAAGAAGATAAATAGATTAGCACAAATATTATTATTTATTTTTA
TTATAAATGAGCTAAGGACTATTATAAATGAGA
Found at i:3869532 original size:19 final size:19
Alignment explanation
Indices: 3869508--3869552 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
3869498 TTTGAGCTCG
*
3869508 ATAATTTTA-AATATAATAT
1 ATAATTATATAATATAA-AT
3869527 ATAATTATATAATATAAAT
1 ATAATTATATAATATAAAT
3869546 ATAATTA
1 ATAATTA
3869553 AAAATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAATTATATAATATAAAT
Found at i:3869574 original size:23 final size:24
Alignment explanation
Indices: 3869548--3869593 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
3869538 ATATAAATAT
3869548 AATTAAAAAT-AATTTAAAAATTA
1 AATTAAAAATAAATTTAAAAATTA
**
3869571 AATTTTAAATAAATTTAAAAATT
1 AATTAAAAATAAATTTAAAAATT
3869594 GATTAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AATTAAAAATAAATTTAAAAATTA
Found at i:3869592 original size:12 final size:12
Alignment explanation
Indices: 3869550--3869592 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
3869540 ATAAATATAA
3869550 TTAAAAAT-AAT
1 TTAAAAATAAAT
3869561 TTAAAAATTAAAT
1 TTAAAAA-TAAAT
*
3869574 TT-TAAATAAAT
1 TTAAAAATAAAT
3869585 TTAAAAAT
1 TTAAAAAT
3869593 TGATTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 14 0.52
12 8 0.30
13 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TTAAAAATAAAT
Found at i:3871023 original size:13 final size:13
Alignment explanation
Indices: 3871005--3871044 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
3870995 CCCCTGCAAA
3871005 TAAAATTTTAAAT
1 TAAAATTTTAAAT
* *
3871018 TAAAATATTAATT
1 TAAAATTTTAAAT
*
3871031 TAAAATTTTTAAT
1 TAAAATTTTAAAT
3871044 T
1 T
3871045 TTTTTTTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAAATTTTAAAT
Found at i:3871313 original size:13 final size:13
Alignment explanation
Indices: 3871295--3871338 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
3871285 AATTGATATG
3871295 TTATTTTTATTAT
1 TTATTTTTATTAT
*
3871308 TTATTTTTATTTT
1 TTATTTTTATTAT
3871321 TTAAATTTTTAATTAT
1 TT--ATTTTT-ATTAT
3871337 TT
1 TT
3871339 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 14 0.54
15 6 0.23
16 6 0.23
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:3871356 original size:212 final size:213
Alignment explanation
Indices: 3870983--3871395 Score: 695
Period size: 212 Copynumber: 1.9 Consensus size: 213
3870973 AATACAACTT
*
3870983 ATTTTTCTCGTACCCCTGCAAATAAAATTTTAAATTAAAATATTAATTTAAAATTTTTAATTTTT
1 ATTTTTCTCGTACCCCTGCAAATAAAAATTTAAATTAAAATATTAATTTAAAATTTTTAA--TTT
* *
3871048 TTTTATAATTTATAAATTGATAATGAATTTATATGTTATTTATATTTTTTATTTTTATTTTTAAA
64 TTTTATAATTTATAAATTGATAATGAATTGATATGTTATTTATATTATTTATTTTTATTTTTAAA
* *
3871113 ATTTTTAATTATTTTTAATTTTTTGATATTAAATATTAAACAATAATTAAATTGATTAAATAAAA
129 ATTTTTAATTATTTTTAATTTTTTAATATTAAATATTAAACAATAATTAAACTGATTAAATAAAA
3871178 TCAATAGCTCGATATATTCG
194 TCAATAGCTCGATATATTCG
* **
3871198 ATTTTTCTGGTACCGTTGCAAATAAAAATTTAAAGTTAAAATATTAA-TTAAAATTTTTAA-TTT
1 ATTTTTCTCGTACCCCTGCAAATAAAAATTTAAA-TTAAAATATTAATTTAAAATTTTTAATTTT
* *
3871261 TTTATAATTTATAAATTGATAATGAATTGATATGTTATTTTTATTATTTATTTTTATTTTTTAAA
65 TTTATAATTTATAAATTGATAATGAATTGATATGTTATTTATATTATTTATTTTTATTTTTAAAA
3871326 TTTTTAATTATTTTTAATTTTTTAATATTAAATATTAAACAATAATTAAACTGATTAAATAAAAT
130 TTTTTAATTATTTTTAATTTTTTAATATTAAATATTAAACAATAATTAAACTGATTAAATAAAAT
3871391 CAATA
195 CAATA
3871396 ACTTAATGTA
Statistics
Matches: 187, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
212 132 0.71
215 43 0.23
216 12 0.06
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (213 bp):
ATTTTTCTCGTACCCCTGCAAATAAAAATTTAAATTAAAATATTAATTTAAAATTTTTAATTTTT
TTATAATTTATAAATTGATAATGAATTGATATGTTATTTATATTATTTATTTTTATTTTTAAAAT
TTTTAATTATTTTTAATTTTTTAATATTAAATATTAAACAATAATTAAACTGATTAAATAAAATC
AATAGCTCGATATATTCG
Found at i:3876493 original size:9 final size:11
Alignment explanation
Indices: 3876468--3876496 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
3876458 GGCCTTTTTA
3876468 GAAAAAATATT
1 GAAAAAATATT
3876479 GAAAAAAT-TT
1 GAAAAAATATT
3876489 GAAAAAAT
1 GAAAAAAT
3876497 CGTCTGCTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (11 bp):
GAAAAAATATT
Found at i:3878187 original size:20 final size:20
Alignment explanation
Indices: 3878162--3878208 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
3878152 GTATCGATAC
*
3878162 AATGTATCTATACATTGAGT
1 AATGTATCAATACATTGAGT
3878182 AATGTATCAATACATTGAGT
1 AATGTATCAATACATTGAGT
3878202 AATGTAT
1 AATGTAT
3878209 GCAGGATAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (20 bp):
AATGTATCAATACATTGAGT
Found at i:3878239 original size:13 final size:13
Alignment explanation
Indices: 3878221--3878246 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3878211 AGGATAGCTT
3878221 TTGTATCGATACA
1 TTGTATCGATACA
3878234 TTGTATCGATACA
1 TTGTATCGATACA
3878247 AAACTTATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3878259 original size:19 final size:20
Alignment explanation
Indices: 3878235--3878288 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
3878225 ATCGATACAT
3878235 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGTA
** *
3878254 TGTATCGATACATTCACTGTT
1 TGTATCGATACA-AAACTGTA
3878275 TGTATCGATACAAA
1 TGTATCGATACAAA
3878289 TTGTTAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAAAACTGTA
Found at i:3879130 original size:52 final size:48
Alignment explanation
Indices: 3879022--3879322 Score: 178
Period size: 52 Copynumber: 6.1 Consensus size: 48
3879012 TGAAGAATAA
* * * * * *
3879022 CAATGTGCTGATTCATGGCCAACGACATTAGACTTGAAGA-AGA-ATGC
1 CAATGTGCTGA-GCAAGGCCAGCGACATTGGACTTAAAGATAAAGATGC
* * *
3879069 CAATGTGCTGAGACAAGGCTAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGAG-CAAGGCCAGCGACATTGGACTTA--AA-GATAAAGATGC
* * * *
3879121 CAATATGCTGATGCAAGGCCAACGATATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGA-GCAAGGCCAGCGACATTGGACTTAAAGATAAAGATGC
* * * * *
3879170 CAATGTGCTGATTCAAGGCCAGCGACGTTGGTCTTAAAGA-CAATATGC
1 CAATGTGCTGA-GCAAGGCCAGCGACATTGGACTTAAAGATAAAGATGC
* * * * ***
3879218 CAATATGCTGATTCAAGGCCAGCGATATTAGG-CTTAAATATGGTTGACGTGC
1 CAATGTGCTGA-GCAAGGCCAGCGACATT-GGACTTAAAGAT-AAAGA--TGC
* * * * * *
3879270 CGATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTTGC
1 CAATGTGCTGA-GCAAGGCCAGCGACATTGGACTTAAAGATAAAGATGC
3879319 CAAT
1 CAAT
3879323 ATATTGATTC
Statistics
Matches: 199, Mismatches: 42, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
47 28 0.14
48 38 0.19
49 53 0.27
50 4 0.02
51 6 0.03
52 69 0.35
53 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (48 bp):
CAATGTGCTGAGCAAGGCCAGCGACATTGGACTTAAAGATAAAGATGC
Found at i:3879179 original size:49 final size:48
Alignment explanation
Indices: 3879022--3879410 Score: 259
Period size: 49 Copynumber: 8.1 Consensus size: 48
3879012 TGAAGAATAA
* * * *
3879022 CAATGTGCTGATTCATGGCCAACGACATTAGACTTGAAGA-AGAA-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATA-AAGTGC
** * * *
3879069 CAATGTGCTGAGACAAGGCTAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATAAAG-TGC
* * * *
3879121 CAATATGCTGATGCAAGGCCAACGATATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAA-GTGC
* * *
3879170 CAATGTGCTGATTCAAGGCCAGCGACGTTGGTCTTAAAGACAATA-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAA-AGTGC
* * * * *
3879218 CAATATGCTGATTCAAGGCCAGCGATATTAGG-CTTAAATATGGTTGACGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTT-AA-A--GATAAAGTGC
* * * *
3879270 CGATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAG-TGC
* ** *
3879319 CAATATATTGATTCAAGGCCAGCGATATT-GAGC-T-----T--A-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATAAAGTGC
*
3879358 CAATGTGCTGATTCAAGGCCAGTGACATT-GATCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATAAA-GTGC
3879407 CAAT
1 CAAT
3879411 ATGAACGATA
Statistics
Matches: 265, Mismatches: 50, Indels: 52
0.72 0.14 0.14
Matches are distributed among these distances:
39 30 0.11
40 1 0.00
41 1 0.00
43 1 0.00
45 1 0.00
47 29 0.11
48 39 0.15
49 84 0.32
50 9 0.03
51 5 0.02
52 65 0.25
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGTGC
Found at i:3879236 original size:149 final size:148
Alignment explanation
Indices: 3879022--3879343 Score: 362
Period size: 149 Copynumber: 2.2 Consensus size: 148
3879012 TGAAGAATAA
* * * *
3879022 CAATGTGCTGATTCATGGCCAACGACATTAGACTTGAAGAAGAATGCCAATGTGCTGAGACAAGG
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGAAGAATGCCAATATGCTGAGACAAGG
* * * *
3879087 CTAGCGACATTGGGCTTAGGA-AT-GTTAAAGATGCCAATATGCTGATGCAAGGCCAACGATATT
66 CCAGCGACATTAGGCTTA-AATATGGTTAAAG-TGCCAATATGCTGATGCAAGGCCAACGACATT
3879150 GGACTTAAAGATAAAGGTGC
129 GGACTTAAAGATAAAGGTGC
* * * **
3879170 CAATGTGCTGATTCAAGGCCAGCGACGTTGGTCTTAAAGACA-ATATGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGA-AGA-ATGCCAATATGCTGAGACAA
* * * * * *
3879234 GGCCAGCGATATTAGGCTTAAATATGGTTGACGTGCCGATGTGCTGATTCAAGGCCAACGACATT
64 GGCCAGCGACATTAGGCTTAAATATGGTTAAAGTGCCAATATGCTGATGCAAGGCCAACGACATT
* * *
3879299 GGTCTTAAAGATGAAGTTGC
129 GGACTTAAAGATAAAGGTGC
* **
3879319 CAATATATTGATTCAAGGCCAGCGA
1 CAATGTGCTGATTCAAGGCCAGCGA
3879344 TATTGAGCTT
Statistics
Matches: 145, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
148 36 0.25
149 104 0.72
150 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (148 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGAAGAATGCCAATATGCTGAGACAAGG
CCAGCGACATTAGGCTTAAATATGGTTAAAGTGCCAATATGCTGATGCAAGGCCAACGACATTGG
ACTTAAAGATAAAGGTGC
Found at i:3879370 original size:39 final size:39
Alignment explanation
Indices: 3879327--3879549 Score: 125
Period size: 39 Copynumber: 5.6 Consensus size: 39
3879317 GCCAATATAT
3879327 TGATTCAAGGCCAGCGATATTGAGCTTATGCCAATGTGC
1 TGATTCAAGGCCAGCGATATTGAGCTTATGCCAATGTGC
* * * * ** *
3879366 TGATTCAAGGCCAGTGACATTGATCTTAAAGATAAAGGTGC
1 TGATTCAAGGCCAGCGATATTGAGCTT-ATG-CCAATGTGC
* * * * * *
3879407 -CAAT--ATG--AACGATATTGGGCTTATGCCAATGTGT
1 TGATTCAAGGCCAGCGATATTGAGCTTATGCCAATGTGC
* *
3879441 TGATTCAAGGCCAGCGATGTTG-GTCTTAAAGACAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCGATATTGAG-CTT-------A--TGCCAATGTGC
** *
3879489 TGATTCAAGGTAAGCGATATTGGGCTTATGCCAATGTGC
1 TGATTCAAGGCCAGCGATATTGAGCTTATGCCAATGTGC
*
3879528 TGATTCAAGGCCAGCGACATTG
1 TGATTCAAGGCCAGCGATATTG
3879550 GACTTGAAGA
Statistics
Matches: 132, Mismatches: 34, Indels: 36
0.65 0.17 0.18
Matches are distributed among these distances:
34 5 0.04
35 4 0.03
36 10 0.08
37 2 0.02
38 3 0.02
39 64 0.48
40 4 0.03
41 7 0.05
46 1 0.01
48 31 0.23
49 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (39 bp):
TGATTCAAGGCCAGCGATATTGAGCTTATGCCAATGTGC
Found at i:3879468 original size:75 final size:74
Alignment explanation
Indices: 3879341--3879487 Score: 222
Period size: 75 Copynumber: 2.0 Consensus size: 74
3879331 TCAAGGCCAG
*
3879341 CGATATTGAGCTTATGCCAATGTGCTGATTCAAGGCCAGTGACATTGATCTTAAAGATAAAGGTG
1 CGATATTGAGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGATCTTAAAGA-AAAGGTG
3879406 CCAATATGAA
65 CCAATATGAA
* * ** * *
3879416 CGATATTGGGCTTATGCCAATGTGTTGATTCAAGGCCAGCGATGTTGGTCTTAAAGACAAGGTGC
1 CGATATTGAGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGATCTTAAAGAAAAGGTGC
3879481 CAATATG
66 CAATATG
3879488 CTGATTCAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
74 14 0.22
75 51 0.78
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (74 bp):
CGATATTGAGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGATCTTAAAGAAAAGGTGC
CAATATGAA
Found at i:3879687 original size:49 final size:49
Alignment explanation
Indices: 3879517--3880076 Score: 326
Period size: 49 Copynumber: 11.4 Consensus size: 49
3879507 ATTGGGCTTA
* * * *
3879517 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTGAAGAAGAA--
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGG
* ** * * * *
3879564 TGCCAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGA
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA--AA-GATGAAGG
* * * * *
3879616 TGCCAATATACTAATGCAAGGCCAATGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGG
* * * * *
3879665 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGTCTTAAAGA-CAATG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGG
* * **
3879713 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGG-CTTAAAGATGGTTGGGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATT-GGACTTAAAGAT-G--AAGG
** * ** * *
3879765 TGCTGATGTGCTGATTCAAGGATAATGACA-TCGATCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGA-CTTAAAGATGAAGG
* * * *
3879814 TGCCAATATACTGATTCAAGGCCAGCGACATGGGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGG
* * *
3879863 TGCTAATATACTGATTCAAGGCCAACGATATT-GAGC-T-----T--A--
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGA-CTTAAAGATGAAGG
* * * * **
3879902 TGCCCATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGG
* * * * * *
3879951 TACCAATATGCTGATTCAAGGCCAGCGATATTAGG-CTTGAAGGTGCGAAGAA
1 TGCCAATATGCTGATTCAAGGCCAACGACATT-GGACTTAAAGAT--GAAG-G
* * * * * * *
3880003 TGACAGTGTGCTAATTTATGGCCAACGACATTGGATTTAAAGATGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG---AAGG
*
3880055 CGCCAATATGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGC
3880077 TAGTGATAGT
Statistics
Matches: 383, Mismatches: 97, Indels: 61
0.71 0.18 0.11
Matches are distributed among these distances:
39 27 0.07
40 2 0.01
41 1 0.00
43 1 0.00
47 35 0.09
48 43 0.11
49 147 0.38
50 10 0.03
51 7 0.02
52 107 0.28
53 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGG
Found at i:3879750 original size:149 final size:147
Alignment explanation
Indices: 3879517--3879894 Score: 384
Period size: 149 Copynumber: 2.5 Consensus size: 147
3879507 ATTGGGCTTA
* * * * **
3879517 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTGAAGAAGAATGCCAATGTGCTGAGACA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAA-AGTGCCAATATGCTGATTCA
* * * * *
3879582 AGGCCAACGACATTGGGCTT-AGGAAT-GTTAAAGATGCCAATATACTAATGCAAGGCCAATGAT
65 AGGCCAACGATATTAGGCTTAAAG-ATGGTT-AAGATGCCAATATACTAATGCAAGGACAATGAC
*
3879645 ATTGGA-CTTAAAGATGAAGG
128 A-TCGATCTTAAAGATGAAGG
* *
3879665 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGTCTTAAAGACAATGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AA-GTGCCAATATGCTGATTC
* ** * ** * * * * *
3879730 AAGGCCAGCGATATTAGGCTTAAAGATGGTTGGGGTGCTGATGTGCTGATTCAAGGATAATGACA
64 AAGGCCAACGATATTAGGCTTAAAGATGGTTAAGATGCCAATATACTAATGCAAGGACAATGACA
3879795 TCGATCTTAAAGATGAAGG
129 TCGATCTTAAAGATGAAGG
* * * * *
3879814 TGCCAATATACTGATTCAAGGCCAGCGACATGGGTCTTAAAGATGAAGGTGCTAATATACTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA--AA-GTGCCAATATGCTGATT
3879879 CAAGGCCAACGATATT
63 CAAGGCCAACGATATT
3879895 GAGCTTATGC
Statistics
Matches: 189, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
148 43 0.23
149 109 0.58
150 37 0.20
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.25
Consensus pattern (147 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAGTGCCAATATGCTGATTCAA
GGCCAACGATATTAGGCTTAAAGATGGTTAAGATGCCAATATACTAATGCAAGGACAATGACATC
GATCTTAAAGATGAAGG
Found at i:3880196 original size:30 final size:29
Alignment explanation
Indices: 3880115--3880209 Score: 149
Period size: 28 Copynumber: 3.3 Consensus size: 29
3880105 CACCAACTTG
3880115 TGTGGGCTTTTGAAA-GTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
*
3880143 TATGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
*
3880171 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
3880201 TGTGGGCTT
1 TGTGGGCTT
3880210 AAAAGGAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
27 2 0.03
28 35 0.57
30 24 0.39
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.35
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGTTGCCACTGACT
Found at i:3880321 original size:33 final size:33
Alignment explanation
Indices: 3880249--3880411 Score: 247
Period size: 33 Copynumber: 5.0 Consensus size: 33
3880239 GGCTTAAAAG
* * *
3880249 GGTGCCACGGAGTCGCGGACTTAAAAAGAA-AA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAATAA
3880281 GGTGCCACGGAGTTGTGGACTTAAAAGGAATAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAATAA
*
3880314 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAATAA
* * *
3880347 GATGCCACGGAGTTATGGACTTAAAAGGAACAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAATAA
*
3880380 GGTGCCACAGAGTTGTGGACTTAAAAGGAATA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAATA
3880412 TGCCACGGAT
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
32 27 0.23
33 92 0.77
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.18
Consensus pattern (33 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAATAA
Found at i:3880572 original size:38 final size:38
Alignment explanation
Indices: 3880524--3880598 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
3880514 TATGGGCTTT
* * *
3880524 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAA
1 AAAAAGAAAAAGATACCACGAAGTTGTGGACTTAAAAA
3880562 AAAAAGAAAAAGATACCACGAAGTTGTGGACTTAAAA
1 AAAAAGAAAAAGATACCACGAAGTTGTGGACTTAAAA
3880599 GGGTGCCACG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.51, C:0.11, G:0.23, T:0.16
Consensus pattern (38 bp):
AAAAAGAAAAAGATACCACGAAGTTGTGGACTTAAAAA
Found at i:3880708 original size:30 final size:31
Alignment explanation
Indices: 3880631--3880874 Score: 273
Period size: 30 Copynumber: 7.8 Consensus size: 31
3880621 TTAAACGGGA
**
3880631 AAAAGATGCCAC-GAAGTTATGGACTTTG-AG
1 AAAAGATGCCACTG-AGTCGTGGACTTTGAAG
* *
3880661 AAGAGATTGCCACTGAGTCGTGAACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAAG
*
3880693 AAAA-ATGCCATTGAGTCGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* *
3880723 AAAAGATGCCACTAAATCGTGGACTTTG-AG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* *
3880753 AAGAGATGCCACTGAGTCGTGGACGTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* * *
3880784 AAAAAAAGATGCTACTGAGTCATGGACTTGGAAG
1 ---AAAAGATGCCACTGAGTCGTGGACTTTGAAG
*
3880818 AAAAGGATGCCACTGAGTCGTGGACTTAGAA-
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAAG
*
3880849 AATAGATGCCACTGAGTCGTGGACTT
1 AAAAGATGCCACTGAGTCGTGGACTT
3880875 AGAAAAGAGA
Statistics
Matches: 182, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
30 80 0.44
31 47 0.26
32 29 0.16
34 26 0.14
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:3880715 original size:61 final size:61
Alignment explanation
Indices: 3880650--3880874 Score: 258
Period size: 61 Copynumber: 3.6 Consensus size: 61
3880640 CACGAAGTTA
* * *
3880650 TGGACTTTG-AGAAGAGATTGCCACTGAGTCGTGAACTTTGAAGAAAAATGCCATTGAGTCG
1 TGGACTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAATGCCACTGAGTCG
* * *
3880711 TGGACTTTGAAGAAAAGATGCCACTAAATCGTGGACTTTG-AGAAGAGATGCCACTGAGTCG
1 TGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAA-AAATGCCACTGAGTCG
* * * *
3880772 TGGACGTTGAAGAAAAAAAGATGCTACTGAGTCATGGACTTGGAAGAAAAGGATGCCACTGAGTC
1 TGGACTTTGAAG---AAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAA--ATGCCACTGAGTC
3880837 G
61 G
* *
3880838 TGGACTTAGAA-AATAGATGCCACTGAGTCGTGGACTT
1 TGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTT
3880875 AGAAAAGAGA
Statistics
Matches: 138, Mismatches: 18, Indels: 15
0.81 0.11 0.09
Matches are distributed among these distances:
60 4 0.03
61 53 0.38
62 30 0.22
64 24 0.17
65 4 0.03
66 23 0.17
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (61 bp):
TGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAATGCCACTGAGTCG
Found at i:3881851 original size:17 final size:16
Alignment explanation
Indices: 3881821--3881857 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
3881811 GAAAGGGGTT
*
3881821 TTTTTGTTTTTTTTTG
1 TTTTTATTTTTTTTTG
3881837 TTTTTATTTTCTTTTTG
1 TTTTTATTTT-TTTTTG
3881854 TTTT
1 TTTT
3881858 GGGAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.86
Consensus pattern (16 bp):
TTTTTATTTTTTTTTG
Found at i:3882126 original size:20 final size:21
Alignment explanation
Indices: 3882101--3882140 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3882091 TTTGCACTAT
3882101 TTTTTGTGTGTTTT-TTTTTA
1 TTTTTGTGTGTTTTGTTTTTA
*
3882121 TTTTTGTTTGTTTTGTTTTT
1 TTTTTGTGTGTTTTGTTTTT
3882141 TTATGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (21 bp):
TTTTTGTGTGTTTTGTTTTTA
Found at i:3889087 original size:13 final size:13
Alignment explanation
Indices: 3889069--3889096 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3889059 ATACAAAGAT
3889069 CAATGTATCGATA
1 CAATGTATCGATA
3889082 CAATGTATCGATA
1 CAATGTATCGATA
3889095 CA
1 CA
3889097 TTGAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3889092 original size:33 final size:33
Alignment explanation
Indices: 3889050--3889116 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
3889040 AAAATTCCCA
3889050 AATGTATCGATACAAAGA-TCAATGTATCGATAC
1 AATGTATCGATACAAAGAGT-AATGTATCGATAC
**
3889083 AATGTATCGATACATTGAGTAATGTATCGATAC
1 AATGTATCGATACAAAGAGTAATGTATCGATAC
3889116 A
1 A
3889117 TTTCCTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAAAGAGTAATGTATCGATAC
Found at i:3896429 original size:21 final size:19
Alignment explanation
Indices: 3896405--3896458 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 19
3896395 TTTCAACAAT
3896405 TTGTATCGATACAAACAG-G
1 TTGTATCGATACAAA-AGTG
*
3896424 AATTGTATCGATACATAAGTG
1 --TTGTATCGATACAAAAGTG
3896445 TTGTATCGATACAA
1 TTGTATCGATACAA
3896459 TGTATCGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 13 0.43
20 2 0.07
21 15 0.50
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (19 bp):
TTGTATCGATACAAAAGTG
Found at i:3896527 original size:13 final size:13
Alignment explanation
Indices: 3896509--3896536 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3896499 CATTACTCAA
3896509 TGTATCGATACAT
1 TGTATCGATACAT
3896522 TGTATCGATACAT
1 TGTATCGATACAT
3896535 TG
1 TG
3896537 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3896533 original size:33 final size:33
Alignment explanation
Indices: 3896490--3896555 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
3896480 CCAAGGAAAA
3896490 GTATCAATACATT-ACTCAATGTATCGATACATT
1 GTATCAATACATTGA-TCAATGTATCGATACATT
* **
3896523 GTATCGATACATTGATCTTTGTATCGATACATT
1 GTATCAATACATTGATCAATGTATCGATACATT
3896556 TGGGAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (33 bp):
GTATCAATACATTGATCAATGTATCGATACATT
Found at i:3901957 original size:6 final size:6
Alignment explanation
Indices: 3901948--3901986 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
3901938 TTTATTTTTA
3901948 TTAATT TTAA-T TTAATTT TTAATT TTAATT TTGAATT TT
1 TTAATT TTAATT TTAA-TT TTAATT TTAATT TT-AATT TT
3901987 TACAAGCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.17
6 14 0.47
7 11 0.37
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:3901971 original size:18 final size:20
Alignment explanation
Indices: 3901948--3901988 Score: 68
Period size: 18 Copynumber: 2.1 Consensus size: 20
3901938 TTTATTTTTA
3901948 TTAATTTTAA-TTT-AATTT
1 TTAATTTTAATTTTGAATTT
3901966 TTAATTTTAATTTTGAATTT
1 TTAATTTTAATTTTGAATTT
3901986 TTA
1 TTA
3901989 CAAGCCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTAATTTTAATTTTGAATTT
Found at i:3901976 original size:13 final size:13
Alignment explanation
Indices: 3901948--3901986 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
3901938 TTTATTTTTA
3901948 TTAA-TTTTAA-T
1 TTAATTTTTAATT
3901959 TTAATTTTTAATT
1 TTAATTTTTAATT
*
3901972 TTAATTTTGAATT
1 TTAATTTTTAATT
3901985 TT
1 TT
3901987 TACAAGCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 4 0.16
12 6 0.24
13 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (13 bp):
TTAATTTTTAATT
Found at i:3908355 original size:154 final size:155
Alignment explanation
Indices: 3907783--3908359 Score: 655
Period size: 155 Copynumber: 3.7 Consensus size: 155
3907773 AAAGATTTAA
*** * * * *
3907783 GATGGGGTGAACCTATCCTAAATACCCACCGAGGGCATGAAAA-CGGACTTGATGACAACCTAGG
1 GATGGGGTGAACCTATCCTAAATACCCACCTTTGGCAT-AAAAGCAGACTCGGTGACAACTTAGG
* * * * * * *
3907847 AGTT-GAATAT-AAAAAATTATGAAAATGCCTTTAGGAGATACCTACGATGTGAAAGTATCCTGA
65 A-TTCGATTCTAAAAAAATTATGAAAATACCTCTAGGAGATACCTTCGACGTAAAAGTAT-CTGA
* *
3907910 TACCCCTAAAGGACTTAAAAAGGATATG
128 TACCTCTAAAGGGCTTAAAAAGGATATG
* *
3907938 GATGGAGTGAATCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGGTGACAA-TCTAGG
1 GATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGGTGACAACT-TAGG
** * * * * * *
3908002 ACTT-GATTCTAGGAAAATTACGAAAATTCC-CTTAGGGGATTCCTTCGACATAAAAGTACCTGA
65 A-TTCGATTCTAAAAAAATTATGAAAATACCTC-TAGGAGATACCTTCGACGTAAAAGTATCTGA
*
3908065 TACCTCTAAAAGGCTTAAAAAGGATATG
128 TACCTCTAAAGGGCTTAAAAAGGATATG
* * *
3908093 GATAGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAACAAACTCGGTGACAACTTAGGA
1 GATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGGTGACAACTTAGGA
* * * * * **
3908158 CTCGGTTCTAAGAAAATTATGAAAATACCCCCAACAGATACCTTCGACGTAAAAGTATCTGATAC
66 TTCGATTCTAAAAAAATTATGAAAATACCTCTAGGAGATACCTTCGACGTAAAAGTATCTGATAC
*
3908223 CTCTAAAGGGCTTAAAAAGAATAT-
131 CTCTAAAGGGCTTAAAAAGGATATG
* * * *
3908247 GATGGGGTGAACCTATCCTAAATACCCACCTTTAGCATAAAAGTAGACCCGGTGACAACTTAAGA
1 GATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGGTGACAACTTAGGA
* *
3908312 TTCGATTCTAAAAAAATTATGAAAATACCTCTAGGGGACACCTTCGAC
66 TTCGATTCTAAAAAAATTATGAAAATACCTCTAGGAGATACCTTCGAC
3908360 CTAGAAATGC
Statistics
Matches: 353, Mismatches: 62, Indels: 15
0.82 0.14 0.03
Matches are distributed among these distances:
154 102 0.29
155 214 0.61
156 37 0.10
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (155 bp):
GATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGGTGACAACTTAGGA
TTCGATTCTAAAAAAATTATGAAAATACCTCTAGGAGATACCTTCGACGTAAAAGTATCTGATAC
CTCTAAAGGGCTTAAAAAGGATATG
Found at i:3908358 original size:309 final size:310
Alignment explanation
Indices: 3907787--3908359 Score: 733
Period size: 309 Copynumber: 1.9 Consensus size: 310
3907777 ATTTAAGATG
* ** * * *
3907787 GGGTGAACCTATCCTAAATACCCACCGAGGGCATGAAAACGGACTTGATGACAACCTAGGAGTTG
1 GGGTGAACCTATCCTAAATACCCACCGAGGGCATAAAAACAAACTCGATGACAACCTAGGACTCG
* *** ** * *
3907852 AATATAAAAAATTATGAAAATGCCTTTAGGAGATACCTACGATGTGAAAGTATCCTGATACCCCT
66 AATATAAAAAATTATGAAAATACCCCCAACAGATACCTACGACGTAAAAGTATCCTGATACCCCT
* * *
3907917 AAAGGACTTAAAAAGGATATGGATGGAGTGAATCTATCCTAAATACCCACCTTTGGCATAAAAGC
131 AAAGGACTTAAAAAGAATATGGATGGAGTGAACCTATCCTAAATACCCACCTTTAGCATAAAAGC
* * ** * **
3907982 AGACTCGGTGACAATCTAGGACTTGATTCTAGGAAAATTACGAAAATTCCCTTAGGGGATTCCTT
196 AGACCCGGTGACAATCTAAGACTTGATTCTAAAAAAATTACGAAAATACCCTTAGGGGACACCTT
3908047 CGACATAAAAGTACCTGATACCTCTAAAAGGCTTAAAAAGGATATGGATA
261 CGACATAAAAGTACCTGATACCTCTAAAAGGCTTAAAAAGGATATGGATA
*** * *
3908097 GGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAACAAACTCGGTGACAACTTAGGACTCG
1 GGGTGAACCTATCCTAAATACCCACCGAGGGCATAAAAACAAACTCGATGACAACCTAGGACTCG
** * * *
3908162 GTTCTAAGAAAATTATGAAAATACCCCCAACAGATACCTTCGACGTAAAAGTAT-CTGATACCTC
66 AATATAA-AAAATTATGAAAATACCCCCAACAGATACCTACGACGTAAAAGTATCCTGATACCCC
* *
3908226 TAAAGGGCTTAAAAAGAATAT-GATGGGGTGAACCTATCCTAAATACCCACCTTTAGCATAAAAG
130 TAAAGGACTTAAAAAGAATATGGATGGAGTGAACCTATCCTAAATACCCACCTTTAGCATAAAAG
* *
3908290 TAGACCCGGTGACAA-CTTAAGA-TTCGATTCTAAAAAAATTATGAAAATA-CCTCTAGGGGACA
195 CAGACCCGGTGACAATC-TAAGACTT-GATTCTAAAAAAATTACGAAAATACCCT-TAGGGGACA
3908352 CCTTCGAC
257 CCTTCGAC
3908360 CTAGAAATGC
Statistics
Matches: 221, Mismatches: 38, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
308 6 0.03
309 92 0.42
310 86 0.39
311 37 0.17
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (310 bp):
GGGTGAACCTATCCTAAATACCCACCGAGGGCATAAAAACAAACTCGATGACAACCTAGGACTCG
AATATAAAAAATTATGAAAATACCCCCAACAGATACCTACGACGTAAAAGTATCCTGATACCCCT
AAAGGACTTAAAAAGAATATGGATGGAGTGAACCTATCCTAAATACCCACCTTTAGCATAAAAGC
AGACCCGGTGACAATCTAAGACTTGATTCTAAAAAAATTACGAAAATACCCTTAGGGGACACCTT
CGACATAAAAGTACCTGATACCTCTAAAAGGCTTAAAAAGGATATGGATA
Found at i:3909841 original size:13 final size:13
Alignment explanation
Indices: 3909823--3909847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3909813 CATAAAGTGT
3909823 TGTATCGATACAA
1 TGTATCGATACAA
3909836 TGTATCGATACA
1 TGTATCGATACA
3909848 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3909863 original size:32 final size:33
Alignment explanation
Indices: 3909803--3909871 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
3909793 TTCAACGATT
3909803 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
3909836 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3909868 TGTA
1 TGTA
3909872 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3909986 original size:52 final size:52
Alignment explanation
Indices: 3909942--3910070 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
3909932 CACTGATCTT
*
3909942 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
*
3909994 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
3910046 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3910071 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:3914228 original size:168 final size:166
Alignment explanation
Indices: 3914054--3914494 Score: 606
Period size: 168 Copynumber: 2.6 Consensus size: 166
3914044 GGATTTTAAA
* * *
3914054 GAAAAAATTCAAACACTCATGGAAATGAATGAATTTTTAAAAAATGAATTAATATGAAATAAATA
1 GAAAAAA-TCAAAAACTCATGAAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATA
* * * *
3914119 ATAATCTTTGATGAATTTTAAAAATTGAAAACCAAGAAAGATC-CTCTCG-AAAAATTTACGGAG
65 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCT-TCGAAAAAATTTACGAAG
*
3914182 TAGAAAACATCGTATTTCAGAAAAAAAAGGAAGTTTCAAG
129 TAGAAAACACCGTATTTCA-AAAAAAAA-GAAGTTTCAAG
* * *
3914222 GAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACGGAATGAATATGAAATAAATA
1 G-AAAAAATCAAAAACTCATGAAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATA
* *
3914287 ATAATATTTAATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCTTCGAAAAAATTTACGAAGT
65 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCTTCGAAAAAATTTACGAAGT
3914352 AGAAAACACCGTATTTCAAAAAAAAAGAAGTTTCAAG
130 AGAAAACACCGTATTTCAAAAAAAAAGAAGTTTCAAG
* * * *
3914389 G-AAAAAT-AAAAAATGAATGAAAATGAATGAATTTTTAAAAACTAAATTAATATAAAATAAATA
1 GAAAAAATCAAAAACT-CATGAAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATA
*
3914452 ATAATGTTTGAT-ACATTTTAAAAATTAAAAACCAA-AAACAATC
65 ATAATATTTGATGA-ATTTTAAAAATTAAAAACCAAGAAA-AATC
3914495 CCTCTAAAAA
Statistics
Matches: 244, Mismatches: 23, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
164 10 0.04
165 82 0.34
167 12 0.05
168 101 0.41
169 39 0.16
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.27
Consensus pattern (166 bp):
GAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAA
TAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCTTCGAAAAAATTTACGAAGTA
GAAAACACCGTATTTCAAAAAAAAAGAAGTTTCAAG
Found at i:3914507 original size:165 final size:168
Alignment explanation
Indices: 3914076--3914508 Score: 585
Period size: 165 Copynumber: 2.6 Consensus size: 168
3914066 ACACTCATGG
* *
3914076 AAATGAATGAATTTTTAAAAAATGAATTAATATGAAATAAATAATAATCTTTGATGAATTTTAAA
1 AAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAA
* * ** * *
3914141 AATTGAAAACCAAGAAAGAT-CCTCTCGAAAAATTTACGGAGTAGAAAACATCGTATTTCAGAAA
66 AATTAAAAACCAAGAAAAATCCCTCTAAAAAAATTTACGAAGTAGAAAACACCGTATTTCAGAAA
* *
3914205 AAAAAGGAAGTTTCAAGGAAAAAAATCAAAAACTCATGA
131 AAAAAGGAAGTTTCAAGG-AAAAAATCAAAAAATAATGA
* * * *
3914244 AAATGAATGAATTTTTGAAAACGGAATGAATATGAAATAAATAATAATATTTAATGAATTTTAAA
1 AAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAA
* * *
3914309 AATTAAAAACTAAGAAAAATCTCT-TCGAAAAAATTTACGAAGTAGAAAACACCGTATTTCA-AA
66 AATTAAAAACCAAGAAAAATCCCTCT-AAAAAAATTTACGAAGTAGAAAACACCGTATTTCAGAA
3914372 AAAAAA-GAAGTTTCAAGG-AAAAAT-AAAAAATGAATGA
130 AAAAAAGGAAGTTTCAAGGAAAAAATCAAAAAAT-AATGA
* * *
3914409 AAATGAATGAATTTTTAAAAACTAAATTAATATAAAATAAATAATAATGTTTGAT-ACATTTTAA
1 AAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAATAATATTTGATGA-ATTTTAA
3914473 AAATTAAAAACCAA-AAACAATCCCTCTAAAAAAATT
65 AAATTAAAAACCAAGAAA-AATCCCTCTAAAAAAATT
3914509 ATGGAGAAGA
Statistics
Matches: 233, Mismatches: 26, Indels: 15
0.85 0.09 0.05
Matches are distributed among these distances:
164 10 0.04
165 92 0.39
166 1 0.00
167 12 0.05
168 85 0.36
169 33 0.14
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.27
Consensus pattern (168 bp):
AAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAA
AATTAAAAACCAAGAAAAATCCCTCTAAAAAAATTTACGAAGTAGAAAACACCGTATTTCAGAAA
AAAAAGGAAGTTTCAAGGAAAAAATCAAAAAATAATGA
Found at i:3914560 original size:165 final size:165
Alignment explanation
Indices: 3914076--3914563 Score: 562
Period size: 165 Copynumber: 2.9 Consensus size: 165
3914066 ACACTCATGG
* *
3914076 AAATGAATGAATTTTTAAAAAATGAATTAATATGAAATAAATAATAATCTTTGATGAATTTTAAA
1 AAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAA
* * * *
3914141 AATTGAAAACCAAGAAAGAT-CCTCTCGAAAAATTTACGGAGTAGAAAACATCGTATTTCAGAAA
66 AATTAAAAACCAAGAAAAATCCCTCT-AAAAAATTTACGGAGTAGAAAACACCGTATTTCAG-AA
* *
3914205 AAAAAGGAAGTTTCAAGGAA-AAAAATCAAAAACTCATGA
129 AAAAAGGAAG-TTC--GGAAGAAAAATCAAAAAATAATGA
* * * *
3914244 AAATGAATGAATTTTTGAAAACGGAATGAATATGAAATAAATAATAATATTTAATGAATTTTAAA
1 AAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAA
* * * *
3914309 AATTAAAAACTAAGAAAAATCTCTTCGAAAAAATTTACGAAGTAGAAAACACCGTATTTCA-AAA
66 AATTAAAAACCAAGAAAAATC-CCTCTAAAAAATTTACGGAGTAGAAAACACCGTATTTCAGAAA
*
3914373 AAAAAGAAGTTTC--AAGGAAAAAT-AAAAAATGAATGA
130 AAAAGGAAG-TTCGGAA-GAAAAATCAAAAAAT-AATGA
* * *
3914409 AAATGAATGAATTTTTAAAAACTAAATTAATATAAAATAAATAATAATGTTTGAT-ACATTTTAA
1 AAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAATAATATTTGATGA-ATTTTAA
* * * * *
3914473 AAATTAAAAACCAA-AAACAATCCCTCTAAAAAAATTATGGAGAAGAAAACCCCGTAATTTGAGA
65 AAATTAAAAACCAAGAAA-AATCCCTCTAAAAAATTTACGGAGTAGAAAACACCGT-ATTTCAGA
* *
3914537 ATAAGAGGAA-TTCGGAAGAAAAATCAA
128 AAAAAAGGAAGTTCGGAAGAAAAATCAA
3914564 TAACTCTAAA
Statistics
Matches: 272, Mismatches: 36, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
163 2 0.01
164 39 0.14
165 94 0.35
166 12 0.04
167 15 0.06
168 76 0.28
169 31 0.11
170 3 0.01
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.26
Consensus pattern (165 bp):
AAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAA
AATTAAAAACCAAGAAAAATCCCTCTAAAAAATTTACGGAGTAGAAAACACCGTATTTCAGAAAA
AAAGGAAGTTCGGAAGAAAAATCAAAAAATAATGA
Found at i:3915766 original size:85 final size:85
Alignment explanation
Indices: 3915668--3915831 Score: 256
Period size: 85 Copynumber: 1.9 Consensus size: 85
3915658 AGTTGACCGA
* *
3915668 TAGATGAGAGATGCAAAAGTTGACTTAGGTTAAACCGACAAGCCAACAAAGGATAAAAAGATTTA
1 TAGATGAAAGATGCAAAAGTTGACTTAGGTTAAACCAACAAGCCAACAAAGGATAAAAAGATTTA
*
3915733 CCCGGGACTAAGCTTATAGG
66 CCCAGGACTAAGCTTATAGG
* * * *
3915753 TAGATGAAAGATGCAAAGGTTGACTTGGGTTAAACTAACAAGCCAGCAAAGGATAAAAAGATTTA
1 TAGATGAAAGATGCAAAAGTTGACTTAGGTTAAACCAACAAGCCAACAAAGGATAAAAAGATTTA
*
3915818 CCTAGGACTAAGCT
66 CCCAGGACTAAGCT
3915832 GACAAGTAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (85 bp):
TAGATGAAAGATGCAAAAGTTGACTTAGGTTAAACCAACAAGCCAACAAAGGATAAAAAGATTTA
CCCAGGACTAAGCTTATAGG
Found at i:3915954 original size:83 final size:84
Alignment explanation
Indices: 3915799--3915954 Score: 181
Period size: 83 Copynumber: 1.9 Consensus size: 84
3915789 AACAAGCCAG
* * * ** * * **
3915799 CAAAGGATAAAAAGATTTACCTAGGACTAAGCTGACAAGTAAACGAGGGATGAAAAATTAATTAG
1 CAAAGGATAAAAAGAGTTACCTAGGACCAAACCAACAAGTAAACAAGGGATGAAAAATGAACCAG
*
3915864 GATTGAACCGATGAATTAA
66 GACTGAACCGATGAATTAA
* *
3915883 CAAAGGAT-AAAAGAGTTACTTAGGACCAAACCAACAAGTAAACAAGGGAT-AAAAAGTGGACCA
1 CAAAGGATAAAAAGAGTTACCTAGGACCAAACCAACAAGTAAACAAGGGATGAAAAA-TGAACCA
3915946 GGACTGAAC
65 GGACTGAAC
3915955 AAACAAGTCA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
82 5 0.08
83 46 0.78
84 8 0.14
ACGTcount: A:0.47, C:0.13, G:0.22, T:0.17
Consensus pattern (84 bp):
CAAAGGATAAAAAGAGTTACCTAGGACCAAACCAACAAGTAAACAAGGGATGAAAAATGAACCAG
GACTGAACCGATGAATTAA
Found at i:3916183 original size:42 final size:42
Alignment explanation
Indices: 3916137--3916240 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
3916127 CAACGAGCAA
* * *
3916137 ACAAAGGATAAAGAAGTCTCTCGGGTCTAAGCTGACAGGCAG
1 ACAAAGGATAAAAAAGTCTCTCAGGTCTAAGCCGACAGGCAG
* * ** * *
3916179 ACAAAAGAAAAAAAAACCTCTCAGGTCTGAGCCGACGGGCAG
1 ACAAAGGATAAAAAAGTCTCTCAGGTCTAAGCCGACAGGCAG
* *
3916221 ACAAAGGATCAATAAGTCTC
1 ACAAAGGATAAAAAAGTCTC
3916241 CTGGGCCTTA
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.14
Consensus pattern (42 bp):
ACAAAGGATAAAAAAGTCTCTCAGGTCTAAGCCGACAGGCAG
Found at i:3916326 original size:42 final size:42
Alignment explanation
Indices: 3916208--3916332 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 42
3916198 CTCAGGTCTG
* * * * * **
3916208 AGCCGACGGGCAGACAAAGGATCAATAAGTCT-CCTGGGCCTT
1 AGCCGACGGGCAGATAAAAGATGAAGAAATCTCCCT-GGTATT
* *
3916250 AGCCAATGGGCAGATAAAAGATGAAGAAATCTCCCTGGTATT
1 AGCCGACGGGCAGATAAAAGATGAAGAAATCTCCCTGGTATT
3916292 AGCCGACGGGCAGATAAAAGATGAAGAAATCTCCCTGGTAT
1 AGCCGACGGGCAGATAAAAGATGAAGAAATCTCCCTGGTAT
3916333 GATGAAGAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 68 0.96
43 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (42 bp):
AGCCGACGGGCAGATAAAAGATGAAGAAATCTCCCTGGTATT
Found at i:3916337 original size:22 final size:22
Alignment explanation
Indices: 3916311--3916356 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
3916301 GCAGATAAAA
*
3916311 GATGAAGAAATCTCCCTGGTAT
1 GATGAAGAAATCTCCCAGGTAT
*
3916333 GATGAAGAAGTCTCCCAGGTAT
1 GATGAAGAAATCTCCCAGGTAT
3916355 GA
1 GA
3916357 GCCAACAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (22 bp):
GATGAAGAAATCTCCCAGGTAT
Found at i:3916383 original size:64 final size:64
Alignment explanation
Indices: 3916269--3916390 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
3916259 GCAGATAAAA
* * * * *
3916269 GATGAAGAAATCTCCCTGGTATTAGCCGACGGGCAGATAAAAGATGAAGAAATCTCCCTGGTAT
1 GATGAAGAAATCTCCCAGGTATGAGCCAACAGGCAGACAAAAGATGAAGAAATCTCCCTGGTAT
* * * *
3916333 GATGAAGAAGTCTCCCAGGTATGAGCCAACAGGCAGACAAAGGATTAAGAAGTCTCCC
1 GATGAAGAAATCTCCCAGGTATGAGCCAACAGGCAGACAAAAGATGAAGAAATCTCCC
3916391 GAGTCTGAGC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (64 bp):
GATGAAGAAATCTCCCAGGTATGAGCCAACAGGCAGACAAAAGATGAAGAAATCTCCCTGGTAT
Found at i:3916400 original size:42 final size:42
Alignment explanation
Indices: 3916333--3916513 Score: 177
Period size: 42 Copynumber: 4.3 Consensus size: 42
3916323 TCCCTGGTAT
* * *
3916333 GATGAAGAAGTCTCCC-AGGTATGAGCCAACAGGCAGACAAAG
1 GATGAAGAAGTCTCCCGA-GTCTGAGCCGACAGGCAGACAAAA
* * * *
3916375 GATTAAGAAGTCTCCCGAGTCTGAGCCGACAAGTAGACAAAG
1 GATGAAGAAGTCTCCCGAGTCTGAGCCGACAGGCAGACAAAA
* * * * *
3916417 GATCAAGAAGTCTCCCAAGTCAGAGCCTAC-GAGCAAACAAAA
1 GATGAAGAAGTCTCCCGAGTCTGAGCCGACAG-GCAGACAAAA
* * * * *
3916459 GATGAAGAAGTCTCTCGGGTCTGAGTCGATAGGTAGACAAAA
1 GATGAAGAAGTCTCCCGAGTCTGAGCCGACAGGCAGACAAAA
3916501 GATGAAGAAGTCT
1 GATGAAGAAGTCT
3916514 TTTAGGTCGA
Statistics
Matches: 113, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
42 111 0.98
43 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.16
Consensus pattern (42 bp):
GATGAAGAAGTCTCCCGAGTCTGAGCCGACAGGCAGACAAAA
Found at i:3916481 original size:84 final size:84
Alignment explanation
Indices: 3916337--3916513 Score: 214
Period size: 84 Copynumber: 2.1 Consensus size: 84
3916327 TGGTATGATG
* * * *
3916337 AAGAAGTCTCCCAGGTATGAGCCAACAGGCAGACAAAGGATTAAGAAGTCTCCCGAGTCTGAGCC
1 AAGAAGTCTCCCAAGTATGAGCCAACAGGCAAACAAAAGATGAAGAAGTCTCCCGAGTCTGAGCC
*
3916402 GACAAGTAGACAAAGGATC
66 GACAAGTAGACAAAAGATC
* * *
3916421 AAGAAGTCTCCCAAGTCA-GAGCCTAC-GAGCAAACAAAAGATGAAGAAGTCTCTCGGGTCTGAG
1 AAGAAGTCTCCCAAGT-ATGAGCCAACAG-GCAAACAAAAGATGAAGAAGTCTCCCGAGTCTGAG
* * * *
3916484 TCGATAGGTAGACAAAAGATG
64 CCGACAAGTAGACAAAAGATC
3916505 AAGAAGTCT
1 AAGAAGTCT
3916514 TTTAGGTCGA
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
83 1 0.01
84 77 0.97
85 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (84 bp):
AAGAAGTCTCCCAAGTATGAGCCAACAGGCAAACAAAAGATGAAGAAGTCTCCCGAGTCTGAGCC
GACAAGTAGACAAAAGATC
Found at i:3916533 original size:84 final size:84
Alignment explanation
Indices: 3916337--3916558 Score: 209
Period size: 84 Copynumber: 2.6 Consensus size: 84
3916327 TGGTATGATG
* * * *
3916337 AAGAAGTCTCCCAGGT-ATGAGCCAAC-AGGCAGACAAAGGATTAAGAAGTCTCCCGAGTCTGAG
1 AAGAAGTCTCCCAAGTCA-GAGCCTACGA-GCAAACAAAGGATAAAGAAGTCTCCCGAGTCTGAG
*
3916400 CCGACAAGTAGACAAAGGATC
64 CCGACAAGTAGACAAAAGATC
* * * * *
3916421 AAGAAGTCTCCCAAGTCAGAGCCTACGAGCAAACAAAAGATGAAGAAGTCTCTCGGGTCTGAGTC
1 AAGAAGTCTCCCAAGTCAGAGCCTACGAGCAAACAAAGGATAAAGAAGTCTCCCGAGTCTGAGCC
* * *
3916486 GATAGGTAGACAAAAGATG
66 GACAAGTAGACAAAAGATC
*** * *
3916505 AAGAAGTCTTTTAGGTC-GAAG-CTGACGAGCAGACAAAGGATAAAGAAAGTCTCC
1 AAGAAGTCTCCCAAGTCAG-AGCCT-ACGAGCAAACAAAGGATAAAG-AAGTCTCC
3916559 TAGTTCTAAG
Statistics
Matches: 113, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
83 3 0.03
84 101 0.89
85 9 0.08
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (84 bp):
AAGAAGTCTCCCAAGTCAGAGCCTACGAGCAAACAAAGGATAAAGAAGTCTCCCGAGTCTGAGCC
GACAAGTAGACAAAAGATC
Found at i:3916539 original size:42 final size:43
Alignment explanation
Indices: 3916493--3916593 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
3916483 GTCGATAGGT
* **
3916493 AGACAAAAGATGAAG-AAGTCTTTTAGGTCGAAGCTGACGAGC
1 AGACAAAAGATAAAGAAAGTCTCCTAGGTCGAAGCTGACGAGC
* * * *
3916535 AGACAAAGGATAAAGAAAGTCTCCTAGTTCTAAGCTGACGGGC
1 AGACAAAAGATAAAGAAAGTCTCCTAGGTCGAAGCTGACGAGC
3916578 AGACAAAAGATCAAAG
1 AGACAAAAGAT-AAAG
3916594 GTATCATATA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 13 0.27
43 32 0.65
44 4 0.08
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.17
Consensus pattern (43 bp):
AGACAAAAGATAAAGAAAGTCTCCTAGGTCGAAGCTGACGAGC
Found at i:3916864 original size:44 final size:44
Alignment explanation
Indices: 3916810--3916913 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 44
3916800 AAACAGTGTG
* ** * *
3916810 CTAACTATACGTCAAATAGGAAT-AAGGCAGATTTGACCAAGGTA
1 CTAACCATACGTCAAATAGGAATGAA-AAAAATTTGACCAAAGTA
* *
3916854 CTAACCATACGTCAAATCGGAATGAAAAAAATTTGACCAAAGTG
1 CTAACCATACGTCAAATAGGAATGAAAAAAATTTGACCAAAGTA
*
3916898 GTAACCATACGTCAAA
1 CTAACCATACGTCAAA
3916914 CAGAAGAGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 49 0.96
45 2 0.04
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.21
Consensus pattern (44 bp):
CTAACCATACGTCAAATAGGAATGAAAAAAATTTGACCAAAGTA
Found at i:3917102 original size:35 final size:35
Alignment explanation
Indices: 3917052--3917137 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
3917042 TTAAACAAGG
* *
3917052 GATGAAAAGAGTTTGACTAGATACAAACAAATGAT
1 GATGGAAAGAGTTTGACTAGATACAAACAAACGAT
* ** *
3917087 GATGGAAAGAGTTTGACTAGATATAGTCCAACGAT
1 GATGGAAAGAGTTTGACTAGATACAAACAAACGAT
*
3917122 GATGGAAAGAGCTTGA
1 GATGGAAAGAGTTTGA
3917138 AAGAAAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (35 bp):
GATGGAAAGAGTTTGACTAGATACAAACAAACGAT
Found at i:3917497 original size:93 final size:92
Alignment explanation
Indices: 3917345--3917519 Score: 237
Period size: 93 Copynumber: 1.9 Consensus size: 92
3917335 TAGCTAAAAG
* *
3917345 AGAGGGATATGATTGGAAATGAATGGTCGGGATACCCTTGCCTCAGGAAAATCGAGCTTTGTGAT
1 AGAGGAATATGATTGGAAATGAATGGTCGGGATACCCTTGCCTCAGGAAAATAGAGCTTTGTGAT
3917410 GCATCAATACCATCTAGTAGTTAGGAA
66 GCATCAATACCATCTAGTAGTTAGGAA
** * *
3917437 AGAGGAATATGATTGGGGTATGAATGGTCGGGATATCCTTGCC-CTAGTAAAATTAG-GCTTTGT
1 AGAGGAATATGATT-GGAAATGAATGGTCGGGATACCCTTGCCTC-AGGAAAA-TAGAGCTTTGT
* *
3917500 GATGCATTAATTCCATCTAG
63 GATGCATCAATACCATCTAG
3917520 GGGTTAGATG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
92 14 0.19
93 56 0.78
94 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (92 bp):
AGAGGAATATGATTGGAAATGAATGGTCGGGATACCCTTGCCTCAGGAAAATAGAGCTTTGTGAT
GCATCAATACCATCTAGTAGTTAGGAA
Found at i:3917526 original size:93 final size:92
Alignment explanation
Indices: 3917345--3917547 Score: 234
Period size: 93 Copynumber: 2.2 Consensus size: 92
3917335 TAGCTAAAAG
* *
3917345 AGAGGGATATGATTGGAAATGAATGGTCGGGATACCCTTGCCTCAGGAAAATCGAGCTTTGTGAT
1 AGAGGAATATGATTGGAAATGAATGGTCGGGATACCCTTGCCTCAGGAAAATAGAGCTTTGTGAT
*
3917410 GCATCAATACCATCTAGTAGTTAGGAA
66 GCATCAATACCATCTAGGAGTTAGGAA
** * *
3917437 AGAGGAATATGATTGGGGTATGAATGGTCGGGATATCCTTGCC-CTAGTAAAATTAG-GCTTTGT
1 AGAGGAATATGATT-GGAAATGAATGGTCGGGATACCCTTGCCTC-AGGAAAA-TAGAGCTTTGT
* * *
3917500 GATGCATTAATTCCATCTAGGGGTTA-GATGA
63 GATGCATCAATACCATCTAGGAGTTAGGA--A
*
3917531 AG-GGGATATGATTGGAA
1 AGAGGAATATGATTGGAA
3917548 GTGTGTGGAC
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
92 18 0.19
93 70 0.75
94 5 0.05
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.29
Consensus pattern (92 bp):
AGAGGAATATGATTGGAAATGAATGGTCGGGATACCCTTGCCTCAGGAAAATAGAGCTTTGTGAT
GCATCAATACCATCTAGGAGTTAGGAA
Found at i:3918466 original size:6 final size:6
Alignment explanation
Indices: 3918455--3918494 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
3918445 TCAAAAAGTA
* * *
3918455 TTTTGT TTTTGT TGTTGT TTTTTT TTTTAT TTTTGT TTTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTT
3918495 TTTATAAGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:3918495 original size:18 final size:18
Alignment explanation
Indices: 3918455--3918497 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
3918445 TCAAAAAGTA
* *
3918455 TTTTGTTTTTGTTGTTGT
1 TTTTTTTTTTATTGTTGT
*
3918473 TTTTTTTTTTATTTTTGT
1 TTTTTTTTTTATTGTTGT
3918491 TTTTTTT
1 TTTTTTT
3918498 ATAAGCCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (18 bp):
TTTTTTTTTTATTGTTGT
Found at i:3919721 original size:21 final size:19
Alignment explanation
Indices: 3919697--3919744 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
3919687 TTCAATAATT
*
3919697 TGTATCGACACATTCAGTAAA
1 TGTATCGACACA-TAAGT-AA
*
3919718 TGTATCGATACATAAGTAA
1 TGTATCGACACATAAGTAA
3919737 TGTATCGA
1 TGTATCGA
3919745 TACAGTGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.40
20 4 0.16
21 11 0.44
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (19 bp):
TGTATCGACACATAAGTAA
Found at i:3919740 original size:19 final size:21
Alignment explanation
Indices: 3919697--3919748 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
3919687 TTCAATAATT
* *
3919697 TGTATCGACACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
3919718 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
3919737 TGTATCGATACA
1 TGTATCGATACA
3919749 GTGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.48
20 4 0.14
21 11 0.38
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:3920837 original size:51 final size:51
Alignment explanation
Indices: 3920781--3920968 Score: 216
Period size: 51 Copynumber: 3.6 Consensus size: 51
3920771 TTAAGTTTCT
*
3920781 CAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
* * *
3920832 TAATTTTTCACAATCGGAGATACTCCAACCTCGGTTTTATTT-TCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACAC
* ** * * * * * *
3920883 CAATTTTCCTTTAATCGGGGATGCTCCAACTCCGATTTCATTTCCAAAAATAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACAC
*
3920936 CAATTTTTCACAATCGAGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
3920969 TTAATCATCG
Statistics
Matches: 111, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 1 0.01
51 52 0.47
52 44 0.40
53 14 0.13
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
Found at i:3920974 original size:24 final size:26
Alignment explanation
Indices: 3920948--3920998 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
3920938 ATTTTTCACA
3920948 ATCGAGGATACTCCAACCCCGTTAATC
1 ATCGAGGATACTCCAACCCCGTTAA-C
3920975 ATCGAGGATACTCCAACCCCGTTA
1 ATCGAGGATACTCCAACCCCGTTA
3920999 TTTTCAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (26 bp):
ATCGAGGATACTCCAACCCCGTTAAC
Found at i:3921035 original size:107 final size:107
Alignment explanation
Indices: 3920899--3921102 Score: 320
Period size: 107 Copynumber: 1.9 Consensus size: 107
3920889 TCCTTTAATC
* *
3920899 GGGGATGCTCCAACTCCGATTTCATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTCATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
3920964 CCCCGTTAATCATCGA-GGATACTCCAACCCCGTTATTTTCAA
66 CCCCGTT-ATCATCGAGGGATACTCCAACCCCGTTATTTTCAA
* * *
3921006 GGGGATACTCCAACTTCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTCATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
**
3921071 CCCCGTTATTTTCGAGGGGATACTCCAACCCC
66 CCCCGTTATCATCGA-GGGATACTCCAACCCC
3921103 CGGTTTTATT
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
106 6 0.07
107 67 0.76
108 15 0.17
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (107 bp):
GGGGATACTCCAACTCCGATTTCATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
CCCCGTTATCATCGAGGGATACTCCAACCCCGTTATTTTCAA
Found at i:3921069 original size:52 final size:52
Alignment explanation
Indices: 3920781--3921075 Score: 235
Period size: 52 Copynumber: 5.6 Consensus size: 52
3920771 TTAAGTTTCT
* * *
3920781 CAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * * * *
3920832 TAATTTTTCACAATCGGAGATACTCCAACCTCGGTTTTATTTTC-AAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* ** * * * *
3920883 CAATTTTCCTTTAATCGGGGATGCTCCAACTCCGATTTCATTTCCAAAAATAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * * * * * *
3920936 CAATTTTTCACAATCGAGGATACTCCAACCCCG--TTAATCATCGAGGATACTC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTAT-TTCCA-AAAACAC
* **
3920988 CAACCCCGTTATTT-TCAA--GGGGATACTCCAACTTCGATTTTATTTCCAAAAACAC
1 CAA-----TT-TTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
3921043 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
3921076 TTATTTTCGA
Statistics
Matches: 186, Mismatches: 42, Indels: 31
0.72 0.16 0.12
Matches are distributed among these distances:
49 3 0.02
50 9 0.05
51 55 0.30
52 68 0.37
53 14 0.08
55 22 0.12
56 3 0.02
57 9 0.05
58 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (52 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:3921120 original size:80 final size:80
Alignment explanation
Indices: 3920975--3921168 Score: 264
Period size: 80 Copynumber: 2.4 Consensus size: 80
3920965 CCCGTTAATC
**
3920975 ATCGAGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACTTCGATTTTATTTCCAAAAA
1 ATCGAGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAAA
*
3921040 CACCAATTTTTCACA
66 CACCAATTTTCCACA
* * * *
3921055 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGGTTTTATTT-CTAAA
1 ATCGAGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAA-CCCCGATTTTATTTCCAAAA
*
3921119 ACACTAATTTTCCACA
65 ACACCAATTTTCCACA
*
3921135 ATCGAGGAAACTCCAACCCCAGTTTTATTTTCAA
1 ATCGAGGATACTCCAACCCC-G--TTATTTTCAA
3921169 AACACCAATT
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
80 78 0.79
81 12 0.12
83 9 0.09
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (80 bp):
ATCGAGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAAA
CACCAATTTTCCACA
Found at i:3921333 original size:291 final size:289
Alignment explanation
Indices: 3920796--3921735 Score: 1391
Period size: 291 Copynumber: 3.2 Consensus size: 289
3920786 TTTCATAATC
*
3920796 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATCGGAGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATCGG-GATACTCCAAC
* *
3920861 CTCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATGCTCCAACTCCGATTTCATTT
65 CCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATGCTCCAACTCTGATTTCATTT
* *
3920926 CCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGAGGATACTCCAA
130 CCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAATCATCGGGGATACTCCAA
*
3920991 CCCCGTTATTTTCAAGGGGATACTCCAACTTCGATTTTATTTCCAAAAACACCAATTTTTCACAA
195 CCCCGTTATTTTCAAGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAA
3921056 TCGGGGATACTCCAACCCCGTTATTTTCGA
260 TCGGGGATACTCCAACCCCGTTATTTTCGA
*
3921086 GGGGATACTCCAACCCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATCGAGGAAACTCCAA
1 GGGGATACTCCAA-CCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATCG-GGATACTCCAA
* *
3921151 CCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATGGTCCAACTCTGATTTCATT
64 CCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATGCTCCAACTCTGATTTCATT
*
3921216 TCCAAAAATACCAATTTTTCACAATCGAGGATACTCTAACCTCGTTAATCATCGGGGATACTCCA
129 TCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAATCATCGGGGATACTCCA
*
3921281 ACCCCGTTATTTTCGAGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACA
194 ACCCCGTTATTTTCAAGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACA
3921346 ATCGGGGATACTCCAACCCCGTTATTTTCGA
259 ATCGGGGATACTCCAACCCCGTTATTTTCGA
*
3921377 GGGGATACTCCAATCCCCAGTTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAA
1 GGGGATACTCCAA-CCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC-GGGATACTCCAA
* * *
3921442 CCCCGGTTTTATTTTCAAAATACCAATTTTCCTTTAATCGGGGATACTCCAACTCTGATTTTATT
64 CCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATGCTCCAACTCTGATTTCATT
* * * * *
3921507 TCC-AAAACACTAGTTTTTCACAATCGAGGATACTCCAACCTCGTTATTTAATCGGGGATACTCC
129 TCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTA-ATCATCGGGGATACTCC
** * * * ** * *** * *
3921571 AACCCCGTTACCTCCAAGAGGATACTCCAACCCCGGCTTTATTTCC-AAAATATTGATTTCTCAT
193 AACCCCGTTATTTTCAAGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
* * *
3921635 AATTGGGGATACTCCAACCCTGTTATTTCCGA
258 AATCGGGGATACTCCAACCCCGTTATTTTCGA
* ** * * * * *
3921667 GGGGATACTCCAATCCCAATTTTATTTCCT-AATCATTGATTTTTCACAACCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACTAATTTTCCACAATC-GGGATACTCCAA
3921731 CCCCG
64 CCCCG
3921736 TTATTACCTC
Statistics
Matches: 596, Mismatches: 49, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
289 46 0.08
290 108 0.18
291 440 0.74
292 2 0.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (289 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATCGGGATACTCCAACC
CCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATGCTCCAACTCTGATTTCATTTC
CAAAAATACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAATCATCGGGGATACTCCAAC
CCCGTTATTTTCAAGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAAT
CGGGGATACTCCAACCCCGTTATTTTCGA
Found at i:3921411 original size:80 final size:80
Alignment explanation
Indices: 3921266--3921446 Score: 294
Period size: 80 Copynumber: 2.3 Consensus size: 80
3921256 CTCGTTAATC
*
3921266 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGATTTTATTTCCAAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAAA
*
3921331 CACCAATTTTTCACA
66 CACCAATTTTCCACA
*
3921346 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCC-AGTTTTATTT-CTAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCCGA-TTTTATTTCCAAA
*
3921409 AACACTAATTTTCCACA
64 AACACCAATTTTCCACA
3921426 ATCGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
3921447 GTTTTATTTT
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
80 84 0.88
81 11 0.12
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAAA
CACCAATTTTCCACA
Found at i:3921470 original size:51 final size:51
Alignment explanation
Indices: 3921377--3921546 Score: 198
Period size: 52 Copynumber: 3.3 Consensus size: 51
3921367 TTATTTTCGA
*
3921377 GGGGATACTCCAATCCCCAGTTTTA-TTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAA-CCCCGGTTTTATTTTC-AAAACACTAATTTTCCACAATC
* * **
3921429 GGGGATACTCCAACCCCGGTTTTATTTTCAAAATACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCC-ACAATC
* * * * * *
3921481 GGGGATACTCCAACTCTGATTTTATTTCCAAAACACTAGTTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCCACAATC
*
3921532 GAGGATACTCCAACC
1 GGGGATACTCCAACC
3921547 TCGTTATTTA
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
51 41 0.41
52 58 0.59
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCCACAATC
Found at i:3921643 original size:79 final size:79
Alignment explanation
Indices: 3921555--3921738 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 79
3921545 CCTCGTTATT
**
3921555 TAATCGGGGATACTCCAACCCCGTTACCTCCAAGAGGATACTCCAACCCCGGCTTTATTTCCAAA
1 TAATCGGGGATACTCCAACCCCGTTACCTCCAAGAGGATACTCCAACCCCAACTTTATTTCC-AA
3921620 AT-ATTGATTTCTCA
65 ATCATTGATTTCTCA
* * ** * * * * *
3921634 TAATTGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAATCCCAATTTTATTTCCTAA
1 TAATCGGGGATACTCCAACCCCGTTACCTCCAAGAGGATACTCCAACCCCAACTTTATTTCCAAA
*
3921699 TCATTGATTTTTCA
66 TCATTGATTTCTCA
* *
3921713 CAACCGGGGATACTCCAACCCCGTTA
1 TAATCGGGGATACTCCAACCCCGTTA
3921739 TTACCTCCAA
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 3 0.03
79 85 0.97
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (79 bp):
TAATCGGGGATACTCCAACCCCGTTACCTCCAAGAGGATACTCCAACCCCAACTTTATTTCCAAA
TCATTGATTTCTCA
Found at i:3923802 original size:4 final size:4
Alignment explanation
Indices: 3923793--3923827 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
3923783 TTTTGAGGTG
*
3923793 TTTA TTTA TTTA TTTA TTTA TTTA TTGA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
3923828 GTTCTGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:3934133 original size:11 final size:11
Alignment explanation
Indices: 3934107--3934173 Score: 64
Period size: 11 Copynumber: 5.9 Consensus size: 11
3934097 CATTCTTTTT
3934107 CAAAAAATAAACA
1 CAAAAAA-AAA-A
3934120 CAAAAAAAAAA
1 CAAAAAAAAAA
3934131 C-AAAAAAAAA
1 CAAAAAAAAAA
3934141 CAAAAAAACAAA
1 CAAAAAAA-AAA
* * *
3934153 GAAAAAAGAGA
1 CAAAAAAAAAA
*
3934164 GAAAAAAAAA
1 CAAAAAAAAA
3934174 GAAGAATCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
10 10 0.21
11 18 0.38
12 12 0.26
13 7 0.15
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.01
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:3934137 original size:10 final size:10
Alignment explanation
Indices: 3934122--3934148 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3934112 AATAAACACA
3934122 AAAAAAAAAC
1 AAAAAAAAAC
3934132 AAAAAAAAAC
1 AAAAAAAAAC
3934142 AAAAAAA
1 AAAAAAA
3934149 CAAAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:3934145 original size:18 final size:19
Alignment explanation
Indices: 3934124--3934159 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
3934114 TAAACACAAA
3934124 AAAAAAACAAA-AAAAAAC
1 AAAAAAACAAAGAAAAAAC
3934142 AAAAAAACAAAGAAAAAA
1 AAAAAAACAAAGAAAAAA
3934160 GAGAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAGAAAAAAC
Found at i:3935306 original size:55 final size:55
Alignment explanation
Indices: 3935241--3935715 Score: 582
Period size: 55 Copynumber: 8.4 Consensus size: 55
3935231 CTCTTTTCGC
* * *
3935241 CCTTT-AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCATACAAGTTGGTGGCG
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
3935295 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
3935350 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
3935405 --TTTCCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTT--CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
3935460 -TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGTA
1 CCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
3935515 -TTTTCCAGGCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
** *
3935570 TTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCA
* **
3935631 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACG-C----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * *
3935692 CTTTTTAGTCCTTAAAGAGCAGGA
1 CCTTTCAGTCCTCAAAGAGCAGGA
3935716 TGCACTTTAT
Statistics
Matches: 379, Mismatches: 26, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
53 3 0.01
54 5 0.01
55 264 0.70
56 7 0.02
57 1 0.00
58 1 0.00
59 2 0.01
60 4 0.01
61 89 0.23
62 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:3935327 original size:26 final size:26
Alignment explanation
Indices: 3935293--3935380 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
3935283 AAGTTGGTGG
3935293 CGCCTTTCAGTCCTCAAAGAGCAGGA
1 CGCCTTTCAGTCCTCAAAGAGCAGGA
* * * **
3935319 CGCCTTTCAAAGCCCACACAAGTTGGTGG-
1 CGCCTTTC--AGTCCTCA-AAG-AGCAGGA
* *
3935348 CACCTTTTAGTCCTCAAAGAGCAGGA
1 CGCCTTTCAGTCCTCAAAGAGCAGGA
3935374 CGCCTTT
1 CGCCTTT
3935381 TAAAGCCCAC
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.39
27 6 0.14
28 6 0.14
29 9 0.20
30 3 0.07
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.23
Consensus pattern (26 bp):
CGCCTTTCAGTCCTCAAAGAGCAGGA
Found at i:3936490 original size:19 final size:21
Alignment explanation
Indices: 3936447--3936496 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
3936437 TTTAATCATT
* *
3936447 TGTATTGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
3936468 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
3936487 TGTATCGATA
1 TGTATCGATA
3936497 TAGTGTATCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 12 0.44
20 4 0.15
21 11 0.41
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:3936552 original size:21 final size:21
Alignment explanation
Indices: 3936528--3936585 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
3936518 CTGCCAAGAA
3936528 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
3936549 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
3936570 AATGTATCGATACATT
1 AATGTATCGATACATT
3936586 GTATCGATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:3936590 original size:13 final size:13
Alignment explanation
Indices: 3936572--3936597 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3936562 ATTTGTAGAA
3936572 TGTATCGATACAT
1 TGTATCGATACAT
3936585 TGTATCGATACAT
1 TGTATCGATACAT
3936598 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3936600 original size:42 final size:40
Alignment explanation
Indices: 3936528--3936608 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 40
3936518 CTGCCAAGAA
**
3936528 AATGTATCGATACATTTGTAGAATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAGAATACATCGAT-C-TTTGTAG
3936570 AATGTATCGATACA-TTGTATCG-ATACATCGATCTTTGTA
1 AATGTATCGATACATTTGTA--GAATACATCGATCTTTGTA
3936609 TCGATACATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
40 6 0.17
41 6 0.17
42 22 0.63
43 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (40 bp):
AATGTATCGATACATTTGTAGAATACATCGATCTTTGTAG
Found at i:3939012 original size:51 final size:50
Alignment explanation
Indices: 3938956--3939462 Score: 233
Period size: 52 Copynumber: 9.7 Consensus size: 50
3938946 TTAAGTTTCT
* * *
3938956 CAATTTTTCATAATCAGGGATACTCCAACCCCAGTTTTATTTCTAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCC-GTTTTATTTCTAAAACAC
* *
3939007 TAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAATAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCC-GTTTTATTTCT-AAAACAC
* * * *
3939058 CAATTTTCCTTCAATTGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ACAATCGGGGATACTCCAACCCCG-TTTTATTT-CTAAAACAC
* * * * * ** * *
3939111 CAATTTTTCACAATCTGGGATATTCCAACCCCG-TTAATCATCGGGGATACTC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGTTTTAT-TTC--TAAAACAC
* *** * *
3939163 CAACCCTGTT--ATTTTCGAGGGGATACTCCAACTCCGATTTTATTTCAAAAAACAC
1 CAA---TTTTCCACAATC--GGGGATACTCCAACCCCG-TTTTATTTC-TAAAACAC
* * * * ** *
3939218 CAATTTTTCACAATCGGAGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGTT--TTAT------TTCTAAAACAC
* *
3939276 CGTTATTTT---CGA--GGGGATACTCCAACCCCCGGTTTTATTTCTAAAACAC
1 C--AATTTTCCACAATCGGGGATACTCCAA-CCCC-GTTTTATTTCTAAAACAC
* * *
3939325 TAAGTTTCCATAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCC-GTTTTATTTCT-AAAACAC
* ** * *
3939376 CATTTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
1 CAATTTTCC-ACAATCGGGGATACTCCAACCCCG-TTTTATTTCTAAAACAC
* * * ** *
3939428 TAGTTTTTCACAATCGAAGATACTCCAACCTCGTT
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGTT
3939463 ATTTCATCGG
Statistics
Matches: 340, Mismatches: 78, Indels: 77
0.69 0.16 0.16
Matches are distributed among these distances:
47 4 0.01
49 7 0.02
50 10 0.03
51 101 0.30
52 128 0.38
53 20 0.06
54 3 0.01
55 40 0.12
56 6 0.02
57 9 0.03
58 5 0.01
59 2 0.01
60 5 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (50 bp):
CAATTTTCCACAATCGGGGATACTCCAACCCCGTTTTATTTCTAAAACAC
Found at i:3939214 original size:107 final size:105
Alignment explanation
Indices: 3939074--3939512 Score: 446
Period size: 107 Copynumber: 4.1 Consensus size: 105
3939064 TCCTTCAATT
*
3939074 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCTGGGATATTCCAA
1 GGGGATACTCCAACTCCGATTTTATTT-CAAAAACACCAATTTTTCACAATC-GGGATACTCCAA
*
3939139 CCCCGTTAATCATCGGGGATACTCCAACCCTGTTATTTTCGA
64 CCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
3939181 GGGGATACTCCAACTCCGATTTTATTTCAAAAAACACCAATTTTTCACAATCGGAGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTTC-AAAAACACCAATTTTTCACAATCGG-GATACTCCAA
3939246 CCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
64 CCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
* * * * * * *
3939288 GGGGATACTCCAACCCCCGGTTTTATTTCTAAAACACTAAGTTTCCATAATCGGGGATACTCCAA
1 GGGGATACTCCAA-CTCCGATTTTATTTCAAAAACACCAATTTTTCACAATC-GGGATACTCCAA
* ** * * * *** **
3939353 CCCCGGTTTTATTTTC---AAAACACCATTTTTCC-TT-TAATC--
64 CCCC-G-TTAATCATCGGGGATACTCCA--ACCCCGTTATTTTCGA
* * * *
3939392 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAGTTTTTCACAATCGAAGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTTCAAAAACACCAATTTTTCACAATCG-GGATACTCCAAC
* * *
3939457 CTCGTTATTTCATCGGGGATACTCCAACCTCGTTA-TTTC-A
65 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTATTTTCGA
3939497 TCGGGGATACTCCAAC
1 --GGGGATACTCCAAC
3939513 CCCGTTACCT
Statistics
Matches: 272, Mismatches: 42, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
101 2 0.01
102 5 0.02
103 45 0.17
104 17 0.06
105 6 0.02
106 12 0.04
107 161 0.59
108 18 0.07
109 6 0.02
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (105 bp):
GGGGATACTCCAACTCCGATTTTATTTCAAAAACACCAATTTTTCACAATCGGGATACTCCAACC
CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
Found at i:3939300 original size:28 final size:27
Alignment explanation
Indices: 3939230--3939304 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
3939220 ATTTTTCACA
*
3939230 ATCGGAGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
3939257 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
3939283 TTCGAGGGGATACTCCAACCCC
1 ATC--GGGGATACTCCAACCCC
3939305 CGGTTTTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.09
27 22 0.51
28 17 0.40
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:3939468 original size:31 final size:30
Alignment explanation
Indices: 3939433--3939519 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 30
3939423 AACACTAGTT
3939433 TTTCACAATCGAAGATACTCCAACCTCGTTA
1 TTTCAC-ATCGAAGATACTCCAACCTCGTTA
**
3939464 TTT--CATCGGGGATACTCCAACCTCGTTA
1 TTTCACATCGAAGATACTCCAACCTCGTTA
** *
3939492 TTT--CATCGGGGATACTCCAACCCCGTTA
1 TTTCACATCGAAGATACTCCAACCTCGTTA
3939520 CCTCCGAGGG
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 49 0.92
29 1 0.02
31 3 0.06
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (30 bp):
TTTCACATCGAAGATACTCCAACCTCGTTA
Found at i:3939477 original size:28 final size:28
Alignment explanation
Indices: 3939446--3939519 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 28
3939436 CACAATCGAA
3939446 GATACTCCAACCTCGTTATTTCATCGGG
1 GATACTCCAACCTCGTTATTTCATCGGG
3939474 GATACTCCAACCTCGTTATTTCATCGGG
1 GATACTCCAACCTCGTTATTTCATCGGG
*
3939502 GATACTCCAACCCCGTTA
1 GATACTCCAACCTCGTTA
3939520 CCTCCGAGGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (28 bp):
GATACTCCAACCTCGTTATTTCATCGGG
Found at i:3939530 original size:28 final size:28
Alignment explanation
Indices: 3939446--3939544 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 28
3939436 CACAATCGAA
* ** **
3939446 GATACTCCAACCTCGTTATTTCATCGGG
1 GATACTCCAACCCCGTTACCTCAGAGGG
* ** **
3939474 GATACTCCAACCTCGTTATTTCATCGGG
1 GATACTCCAACCCCGTTACCTCAGAGGG
*
3939502 GATACTCCAACCCCGTTACCTCCGAGGG
1 GATACTCCAACCCCGTTACCTCAGAGGG
*
3939530 GATAATCCAACCCCG
1 GATACTCCAACCCCG
3939545 GCTTTATTTC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.25
Consensus pattern (28 bp):
GATACTCCAACCCCGTTACCTCAGAGGG
Found at i:3939605 original size:79 final size:78
Alignment explanation
Indices: 3939498--3939679 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 78
3939488 GTTATTTCAT
** *
3939498 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATAATCCAACCCCGGCTTTATTTCCAAAAT-A
1 CGGGGATACTCCAA-CCCGTTATTTCCGAGGGGATAATCCAACCCCGACTTTATTTCC-AAATCA
* * *
3939562 TTGATTTCTCATAAT
64 TCGATTTCTCACAAC
* * * * * *
3939577 TGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAATCTCGATTTTATTTCCTAATCAT
1 CGGGGATACTCCAA-CCCGTTATTTCCGAGGGGATAATCCAACCCCGACTTTATTTCCAAATCAT
*
3939642 CGATTTTTCACAAC
65 CGATTTCTCACAAC
3939656 CGGGGATACTCCAACCCTGTTATT
1 CGGGGATACTCCAACCC-GTTATT
3939680 ACCTCCAAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 6 0.07
79 80 0.93
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (78 bp):
CGGGGATACTCCAACCCGTTATTTCCGAGGGGATAATCCAACCCCGACTTTATTTCCAAATCATC
GATTTCTCACAAC
Found at i:3944051 original size:153 final size:154
Alignment explanation
Indices: 3943841--3944200 Score: 492
Period size: 153 Copynumber: 2.3 Consensus size: 154
3943831 TAGAAAAAAC
* * *
3943841 GAAAATGCCCCTAAGGGATATCTTCAACGTAAAAGTACCTATTACCCCTAAAAGGCTTAAAAAGG
1 GAAAATG-CCCTAGGGGATACCTTTAACGTAAAAGTACCTATTACCCCTAAAAGGCTTAAAAAGG
* * * *
3943906 ATATGGATAGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACCTAGTGATATCC
65 ATATGGATAGGGTGAACCTATCCTAAATACCCACCTTTGGCAAAAAAGCAAACCTAGTGACAACC
*
3943971 TAGGACTCGATTC-TAAGAAAATTAT
130 TAGGACGCGATTCTTAA-AAAATTAT
* * *
3943996 GAAAATGCCCTAGGGGATACCTTTAACGTAAAAGTA-TTGA-TACCCTTAAAGGGCTTAAAAAGG
1 GAAAATGCCCTAGGGGATACCTTTAACGTAAAAGTACCT-ATTACCCCTAAAAGGCTTAAAAAGG
* * *
3944059 ATATGGATAGGGTGAACCTATCCTAAATACCTACCTTTGGCAAAAAAGCAAACCTGGTGGCAACC
65 ATATGGATAGGGTGAACCTATCCTAAATACCCACCTTTGGCAAAAAAGCAAACCTAGTGACAACC
*
3944124 TAGGACGCGGTTCTTAAAAAATTAT
130 TAGGACGCGATTCTTAAAAAATTAT
* * * *
3944149 GAAAATACCCTTAGGGGATACCTTTAACGTAGAAGTACCCAATACCCCTAAA
1 GAAAATGCCC-TAGGGGATACCTTTAACGTAAAAGTACCTATTACCCCTAAA
3944201 GGACTTTAAA
Statistics
Matches: 180, Mismatches: 20, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
153 108 0.60
154 56 0.31
155 16 0.09
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (154 bp):
GAAAATGCCCTAGGGGATACCTTTAACGTAAAAGTACCTATTACCCCTAAAAGGCTTAAAAAGGA
TATGGATAGGGTGAACCTATCCTAAATACCCACCTTTGGCAAAAAAGCAAACCTAGTGACAACCT
AGGACGCGATTCTTAAAAAATTAT
Found at i:3946472 original size:166 final size:166
Alignment explanation
Indices: 3946208--3946742 Score: 639
Period size: 167 Copynumber: 3.2 Consensus size: 166
3946198 TAGACTAAAG
* * * * * *
3946208 AAAAT-CCTTCGGAAAATATTTATAAAATAGAAAACTCAGTTTTTCGAAAAAATA-AAGATTTCA
1 AAAATCCCTTCGGAAAAAATTTACAAAGTAGAAAACACAGTATTTCGAAAAAAGAGAAG-TTTC-
* * * *
3946271 AAGAAAAAATTTAAAAACTTATGAAAATAAATGAATTTTTGAAAACTGAATTAATATGAAATAAA
64 AAGAAAAAA-ATAAAAAATAATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAA
* *
3946336 TAATGATGTTTGATGAATTTTAAAAACTGAAAACCAAGA
128 TAATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGA
* * * *
3946375 ACAATCCCTTC-GAAAAGATTTACAAAGTAGAAAACACCGTATTTCGGAAAAAGAGAAGTTTCAA
1 AAAATCCCTTCGGAAAAAATTTACAAAGTAGAAAACACAGTATTTCGAAAAAAGAGAAGTTTCAA
* *
3946439 GAAAAAAATCAAAAATAAATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGGAATAAATA
66 GAAAAAAATAAAAAAT-AATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
*
3946504 ATAATGTTTGATGAATTTTAAAAATTGGAAACCAAGA
130 ATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGA
* ** ** * *
3946541 AAAATCCC-CCTAAAAAAATTTACGGAGTAGAAAATACTGTATTTCGAAAAAAGAGAAGTTTCAA
1 AAAATCCCTTCGGAAAAAATTTACAAAGTAGAAAACACAGTATTTCGAAAAAAGAGAAGTTTCAA
* * * **
3946605 GGAAAAAATAAAAAAATGAATGAAAATGAATGAATTTTTGAAAAATAAATTAATACAAAATAAAT
66 GAAAAAAAT-AAAAAAT-AATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAAT
* *
3946670 AATAATGTTTGATGAATTTTAATAATTGAAAACCAAAA
129 AATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGA
* ** * *
3946708 AAAATCCC-CCTAAAAAAATTTACGAAGAAGAAAAC
1 AAAATCCCTTCGGAAAAAATTTACAAAGTAGAAAAC
3946743 TTCATTATTT
Statistics
Matches: 322, Mismatches: 41, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
165 7 0.02
166 149 0.46
167 158 0.49
168 8 0.02
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.27
Consensus pattern (166 bp):
AAAATCCCTTCGGAAAAAATTTACAAAGTAGAAAACACAGTATTTCGAAAAAAGAGAAGTTTCAA
GAAAAAAATAAAAAATAATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAA
TAATGTTTGATGAATTTTAAAAATTGAAAACCAAGA
Found at i:3948925 original size:165 final size:167
Alignment explanation
Indices: 3948489--3949092 Score: 642
Period size: 165 Copynumber: 3.6 Consensus size: 167
3948479 AATTACATGA
* * * *
3948489 TTTTCTTCTCCGTAGATTTTTTTC--AGGAGGA-TTTTCATGGGTTTAAAATTTTAAAAATTCAT
1 TTTTCTACTCCGTA-AATTTTTTCGGAGGA-GATTTTTC-TTGGTTTAAAATTTTTAAAATTCAT
* *
3948551 CAAATATTATTATTTATTTCTTATTAAATCAGTTTTAAAAAATAT-ATTCATTTTCATTAGTTTT
63 CAAATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAAT-TCATTCATTTTCATTAGTTTT
* * *
3948615 TGAATTTTTTCTTGAAATTTTTCTTTTTTTGAAATATAGAT
127 TGAATTTTTTCTTGAAATTTTTCTATTTTTAAAATATAGAG
** * * * ** *
3948656 TTTTCTACTTTGTAAATTTTTTTGG-GGTGATTTTTTTTGGTTTTCTAA-TTTTAAAATTTATCA
1 TTTTCTACTCCGTAAATTTTTTCGGAGGAGATTTTTCTTGG-TTTAAAATTTTTAAAATTCATCA
* * *
3948719 AATATTATTATTTATCTCATATTTAAT-AATTTTTCAAAAATTCATTCATTTTCATTAGTTTTTG
65 AATATTATTATTTATTTCATATTAAATCAGTTTTT-AAAAATTCATTCATTTTCATTAGTTTTTG
**
3948783 AATTTTTTCTTGAAATTCTTT-TATTTTTAAAATACGGAG
129 AATTTTTTCTTGAAATT-TTTCTATTTTTAAAATATAGAG
** *
3948822 TTTTCTACTCCGT-AATTTTTTCGGAGG-GATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAA
1 TTTTCTACTCCGTAAATTTTTTCGGAGGAGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAA
* * *
3948885 ATATTATTATTTATTTCAAATTGAATCAGTTTTTAAAAATTCATTCATTTTCATTCA-TTTTT-C
66 ATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAATTCATTCATTTTCATT-AGTTTTTGA
*
3948948 ATTTTTTCTTGACATTTTTCTATTTTTAAAATATAGAG
130 ATTTTTTCTTGAAATTTTTCTATTTTTAAAATATAGAG
* * * * * *
3948986 TTTT-TCACTTCGTAAATGTTTTC-AAGGAGATTTTTCTCGATTTAAAATTTTTAAAATTCATCT
1 TTTTCT-ACTCCGTAAATTTTTTCGGAGGAGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCA
* * * ** * * *
3949049 AATATTGTTATTAAATTCCCATTAAATCATTTTTTGAGAATTCA
65 AATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAATTCA
3949093 AATTATTTCA
Statistics
Matches: 369, Mismatches: 53, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
163 4 0.01
164 50 0.14
165 164 0.44
166 126 0.34
167 25 0.07
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.53
Consensus pattern (167 bp):
TTTTCTACTCCGTAAATTTTTTCGGAGGAGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAA
ATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAATTCATTCATTTTCATTAGTTTTTGAA
TTTTTTCTTGAAATTTTTCTATTTTTAAAATATAGAG
Found at i:3949202 original size:2 final size:2
Alignment explanation
Indices: 3949195--3949223 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3949185 TCATATCTTT
3949195 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3949224 TATCAACTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3949289 original size:25 final size:24
Alignment explanation
Indices: 3949247--3949293 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
3949237 TTGAGAATTG
*
3949247 ATTTTTTTTATATTTTTAATTTTTA
1 ATTTATTTTATATTTTT-ATTTTTA
3949272 ATTTATTTTAT-TTATTTATTTT
1 ATTTATTTTATATT-TTTATTTT
3949294 ACATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (24 bp):
ATTTATTTTATATTTTTATTTTTA
Found at i:3955232 original size:13 final size:13
Alignment explanation
Indices: 3955214--3955244 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3955204 ACGTTTCTTC
3955214 ATGTATCGATACA
1 ATGTATCGATACA
3955227 ATGTATCGATACA
1 ATGTATCGATACA
*
3955240 TTGTA
1 ATGTA
3955245 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3955334 original size:19 final size:20
Alignment explanation
Indices: 3955289--3955342 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
3955279 CTGCCAGTTT
**
3955289 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
3955310 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
3955329 CATGTATCGATACA
1 CATGTATCGATACA
3955343 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 16 0.52
21 15 0.48
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:3955349 original size:13 final size:13
Alignment explanation
Indices: 3955331--3955355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3955321 ACAATGAACA
3955331 TGTATCGATACAT
1 TGTATCGATACAT
3955344 TGTATCGATACA
1 TGTATCGATACA
3955356 AAGCAGCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3955371 original size:33 final size:32
Alignment explanation
Indices: 3955312--3955376 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
3955302 AATTTGTCCA
*
3955312 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
*
3955344 TGTATCGATACAAAGCAGCATGTATCGATACAT
1 TGTATCGATACAAAG-AACATGTATCGATACAT
3955377 CTGGGCGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:3955961 original size:41 final size:40
Alignment explanation
Indices: 3955905--3955981 Score: 127
Period size: 41 Copynumber: 1.9 Consensus size: 40
3955895 TTTCTCCCCT
*
3955905 TAAAAAAATTCTCCCCCTTAAACGATTATCTCCTCCTTTA
1 TAAAAAAATTCTCCCCCTTAAACAATTATCTCCTCCTTTA
*
3955945 TAAAAAATATTCTCCCCCTTAAACAATTATCTTCTCC
1 TAAAAAA-ATTCTCCCCCTTAAACAATTATCTCCTCC
3955982 CCCTTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 7 0.21
41 27 0.79
ACGTcount: A:0.34, C:0.30, G:0.01, T:0.35
Consensus pattern (40 bp):
TAAAAAAATTCTCCCCCTTAAACAATTATCTCCTCCTTTA
Found at i:3955967 original size:19 final size:19
Alignment explanation
Indices: 3955896--3955986 Score: 62
Period size: 22 Copynumber: 4.6 Consensus size: 19
3955886 GTTTTCATTT
3955896 TTCT-CCCCTTAAAAAA-A
1 TTCTCCCCCTTAAAAAATA
**
3955913 TTCTCCCCCTTAAACGAT-
1 TTCTCCCCCTTAAAAAATA
*
3955931 TATCTCCTCCTTTATAAAAAATA
1 T-TCTCC-CC-CT-TAAAAAATA
*
3955954 TTCTCCCCCTTAAACAATTATC
1 TTCTCCCCCTTAAA-AA--ATA
3955976 TTCTCCCCCTT
1 TTCTCCCCCTT
3955987 TTGTAAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
17 4 0.07
18 11 0.19
19 9 0.16
20 5 0.09
21 3 0.05
22 24 0.42
23 1 0.02
ACGTcount: A:0.29, C:0.34, G:0.01, T:0.36
Consensus pattern (19 bp):
TTCTCCCCCTTAAAAAATA
Done.