Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 287 of 343
Found at i:94931470 original size:132 final size:132
Alignment explanation
Indices: 94931157--94931490 Score: 390
Period size: 132 Copynumber: 2.5 Consensus size: 132
94931147 CGTTTACAAG
* * * * * *
94931157 GAGCAGATCAAAGATAGA-AGATTTGGCATCTCTGTATTGTCAGAGAGCATATCGAAGATAGCAG
1 GAGCAGAACGAAGATA-ACAGATCTGGCGTCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCAG
* * * **
94931221 AATTGGTATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGTC
65 AATTGGTATATCTGTATTGTCAGAAAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTGTC
94931286 AAA
130 AAA
* * * *
94931289 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCATA
1 GAGCAGAACGAAGATAACAGATCTGGCGTCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCAGA
* * * *
94931354 TTTGGTATATCTGTATTGTCAGAAAGTAGATCGAAGATAACATATTTGACGTCTCTGTATTGTCA
66 ATTGGTATATCTGTATTGTCAGAAAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTGTCA
*
94931419 GA
131 AA
*
94931421 GAGCAGAACGAAGATAACAGATCTGGCGT-TCCTG-AGTT-TGCA-AGAAGCAGGTTGAAGATAG
1 GAGCAGAACGAAGATAACAGATCTGGCGTCT-CTGTA-TTGT-CAGAG-AGCAGATTGAAGATAG
94931482 CAGATATTG
62 CAGA-ATTG
94931491 CCTTCCTGAA
Statistics
Matches: 174, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
131 5 0.03
132 166 0.95
133 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (132 bp):
GAGCAGAACGAAGATAACAGATCTGGCGTCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCAGA
ATTGGTATATCTGTATTGTCAGAAAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTGTCA
AA
Found at i:94931478 original size:88 final size:87
Alignment explanation
Indices: 94931157--94931486 Score: 312
Period size: 88 Copynumber: 3.7 Consensus size: 87
94931147 CGTTTACAAG
* * * * * *
94931157 GAGCAGATCAAAGATAGAAGATTTGGCATCTCTGTATTGTC-AGAGAGCATATCGAAGATAGCAG
1 GAGCAGATCGAAGATAGCAGATTGGGTATC-CTGTATTGTCAAGA-AGCAGATCGAAGATAACAG
* ***
94931221 AATTGGTATCTCTGTATTGTCAGA
64 ATTTGACGTCTCTGTATTGTCAGA
* *
94931245 GAGCAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGTCAA-AGAGCAGATCGAAGATAGCAG
1 GAGCAGATCGAAGATAGCAGATTGGGTATC-CTGTATTGTCAAGA-AGCAGATCGAAGATAACAG
*
94931309 ATTTGGCGTCTCTGTATTGTCAGA
64 ATTTGACGTCTCTGTATTGTCAGA
* * * * * *
94931333 GAGCAGATTGAAGATAGCATATTTGGTATATCTGTATTGTC-AGAAAGTAGATCGAAGATAACAT
1 GAGCAGATCGAAGATAGCAGATTGGGTAT-CCTGTATTGTCAAG-AAGCAGATCGAAGATAACAG
94931397 ATTTGACGTCTCTGTATTGTCAGA
64 ATTTGACGTCTCTGTATTGTCAGA
* * * * *
94931421 GAGCAGAACGAAGATAACAGATCTGGCGT-TCCTG-AGTT-TGCAAGAAGCAGGTTGAAGATAGC
1 GAGCAGATCGAAGATAGCAGAT-TGG-GTATCCTGTA-TTGT-CAAGAAGCAGATCGAAGATAAC
94931483 AGAT
62 AGAT
94931487 ATTGCCTTCC
Statistics
Matches: 208, Mismatches: 25, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
87 3 0.01
88 196 0.94
89 7 0.03
90 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (87 bp):
GAGCAGATCGAAGATAGCAGATTGGGTATCCTGTATTGTCAAGAAGCAGATCGAAGATAACAGAT
TTGACGTCTCTGTATTGTCAGA
Found at i:94933053 original size:17 final size:16
Alignment explanation
Indices: 94933002--94933070 Score: 54
Period size: 16 Copynumber: 4.3 Consensus size: 16
94932992 TAATTTATTT
94933002 TAAATA-TTTTATATA
1 TAAATATTTTTATATA
** *
94933017 TTATTTATTTTTA-CTA
1 -TAAATATTTTTATATA
94933033 TAAATATTTTGTATATA
1 TAAATATTTT-TATATA
*
94933050 TAAATGATTTATAT-TA
1 TAAAT-ATTTTTATATA
94933066 TAAAT
1 TAAAT
94933071 GTTGTTTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
15 8 0.19
16 15 0.36
17 15 0.36
18 4 0.10
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (16 bp):
TAAATATTTTTATATA
Found at i:94933080 original size:16 final size:15
Alignment explanation
Indices: 94933024--94933082 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
94933014 ATATTATTTA
* *
94933024 TTTTTACTATAAATA
1 TTTTTATTATAAATG
94933039 TTTTGTATATATAAATG
1 TTTT-TAT-TATAAATG
*
94933056 ATTTATATTATAAATG
1 -TTTTTATTATAAATG
94933072 TTGTTTATTAT
1 TT-TTTATTAT
94933083 TATTATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
15 6 0.17
16 17 0.47
17 10 0.28
18 3 0.08
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (15 bp):
TTTTTATTATAAATG
Found at i:94934717 original size:21 final size:22
Alignment explanation
Indices: 94934693--94934750 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
94934683 AATGAGTATA
94934693 TCATAGCATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
*
94934714 TCATAACATATCATGTGCATAC
1 TCATAGCATATCATGTGCATAC
94934736 -CAT-GCCATATCATGT
1 TCATAG-CATATCATGT
94934751 ATAACAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:94937385 original size:18 final size:18
Alignment explanation
Indices: 94937359--94937394 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
94937349 ATATGATTTT
*
94937359 TATATCATCACATACATA
1 TATACCATCACATACATA
*
94937377 TATACCATCACATTCATA
1 TATACCATCACATACATA
94937395 CAATTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (18 bp):
TATACCATCACATACATA
Found at i:94947457 original size:16 final size:17
Alignment explanation
Indices: 94947419--94947457 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
94947409 AATATCTATT
*
94947419 TTAATATTTTTAATATA
1 TTAATATTTTTAATAAA
94947436 TT-ATATTTTTAA-AAA
1 TTAATATTTTTAATAAA
94947451 TTAATAT
1 TTAATAT
94947458 AAAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 14 0.70
17 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATATTTTTAATAAA
Found at i:94949731 original size:6 final size:6
Alignment explanation
Indices: 94949720--94949750 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
94949710 AATGAGGGGG
94949720 TTAAAA TTAAAA TTAAAA TTAAAA TATAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA T-TAAAA
94949751 AAAAATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
TTAAAA
Found at i:94953737 original size:12 final size:12
Alignment explanation
Indices: 94953706--94953738 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
94953696 TATATTTTTA
94953706 AAAAATTAATAT
1 AAAAATTAATAT
94953718 -AAAA-TAATAT
1 AAAAATTAATAT
94953728 AAAAATTAATA
1 AAAAATTAATA
94953739 CAAGCGGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.32
11 8 0.42
12 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAATTAATAT
Found at i:94957932 original size:2 final size:2
Alignment explanation
Indices: 94957927--94957965 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
94957917 TATATATATA
94957927 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
94957966 TAGAAATACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:94971066 original size:55 final size:53
Alignment explanation
Indices: 94970958--94971212 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 53
94970948 ATTAGGGTTT
* * *
94970958 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * * *
94971013 AAGGAAATCGTGTAAGACCATGTCAAGAAATGGCATTGATAAGTTACCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT--CATAAGGC
* * * *
94971068 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
94971121 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * * *
94971170 AAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
94971213 GTACCCGTGT
Statistics
Matches: 166, Mismatches: 28, Indels: 18
0.78 0.13 0.08
Matches are distributed among these distances:
49 38 0.23
51 1 0.01
52 8 0.05
53 43 0.26
54 8 0.05
55 64 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:94971164 original size:108 final size:110
Alignment explanation
Indices: 94970965--94971165 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
94970955 TTTAAGGATA
* *
94970965 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCGTGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
94971030 CCATGTCAAGAAATGGCATTGATAAGTTACCATAAGGCAAAGGTC
66 CCATGTCAAGAAATGGCAATGATAAGTTACCATAAGGCAAAGGTC
* * *
94971075 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* * *
94971137 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGAAATGGCAATGATAAGTT
94971166 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.56
109 7 0.09
110 26 0.32
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGAAATGGCAATGATAAGTTACCATAAGGCAAAGGTC
Found at i:94971307 original size:23 final size:24
Alignment explanation
Indices: 94971281--94971325 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
94971271 AAGGTAAGGT
*
94971281 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
94971304 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
94971326 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:94975872 original size:16 final size:16
Alignment explanation
Indices: 94975844--94975910 Score: 61
Period size: 15 Copynumber: 4.3 Consensus size: 16
94975834 CTTATTTTTA
94975844 TATTATATATTATAAAAT
1 TATT-TATATTAT-AAAT
*
94975862 TATTT-TATTATATAT
1 TATTTATATTATAAAT
*
94975877 TATTTATATTAT-TAT
1 TATTTATATTATAAAT
*
94975892 TA-TT-TATTATATAT
1 TATTTATATTATAAAT
94975906 TATTT
1 TATTT
94975911 TTCACAAGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
13 6 0.13
14 7 0.16
15 15 0.33
16 12 0.27
17 1 0.02
18 4 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTATATTATAAAT
Found at i:94975880 original size:3 final size:3
Alignment explanation
Indices: 94975860--94976086 Score: 73
Period size: 3 Copynumber: 73.3 Consensus size: 3
94975850 ATATTATAAA
94975860 ATT ATT -TT ATT ATAT ATT ATT -TAT ATT ATT ATT ATTT ATT ATAT ATT
1 ATT ATT ATT ATT AT-T ATT ATT AT-T ATT ATT ATT A-TT ATT AT-T ATT
* ** * *
94975907 ATT TTT CACA AGTT ATT ATT ATT -TT A-C ATC ATT ATTT ATAT ATT ATT
1 ATT ATT -ATT A-TT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT
* *
94975954 A-T ATT A-T ATGT -TT ATT ATAT ATT ATAT ATT ATT TTT A-T ATAT ATG
1 ATT ATT ATT AT-T ATT ATT AT-T ATT AT-T ATT ATT ATT ATT AT-T ATT
* * *
94975999 CTT -TT A-T ATT ATAT ATT ATA ATT ATT -TT ATAT ATT ATT AAGTC ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT-T ATT ATT -A-TT ATT
* * * *
94976045 TTT A-T ATT ATT ATAC ATT TTT ATCT ATAT ATT ATT ATC ATT A
1 ATT ATT ATT ATT AT-T ATT ATT AT-T AT-T ATT ATT ATT ATT A
94976087 AAGGTTTTAA
Statistics
Matches: 168, Mismatches: 26, Indels: 60
0.66 0.10 0.24
Matches are distributed among these distances:
2 21 0.12
3 103 0.61
4 43 0.26
5 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:94975953 original size:30 final size:30
Alignment explanation
Indices: 94975835--94976081 Score: 108
Period size: 29 Copynumber: 8.1 Consensus size: 30
94975825 ATTTTTAACC
* **
94975835 TTATTTT-TATATTATATATTA-TAAAATTA
1 TTATTTTATATATTATTTA-TACTATTATTA
*
94975864 TT-TTATTATATATTATTTATATTATTATTA
1 TTATT-TTATATATTATTTATACTATTATTA
* * *
94975894 TT-TATTATATATTATTTTTCACAAGTTATTA
1 TTATTTTATATATTATTTAT-ACTA-TTATTA
*
94975925 TTATTTTACATCATTATTTATA-TATTATTA
1 TTATTTTATAT-ATTATTTATACTATTATTA
* * *
94975955 -TATTATATGT-TTATTATATATTATATATTA
1 TTATTTTATATATTATT-TATACTAT-TATTA
*
94975985 TT-TTTATATATATGCTTTTATATTATA-TATTATAA
1 TTATTT-TATATA-----TTAT-TTATACTATTATTA
* *
94976020 TTATTTTATATATTA-TTA-AGTCATTTTTA
1 TTATTTTATATATTATTTATACT-ATTATTA
*
94976049 -TATTATTATACATT-TTTAT-CTATATATTA
1 TTATT-TTATATATTATTTATACTAT-TATTA
94976078 TTAT
1 TTAT
94976082 CATTAAAGGT
Statistics
Matches: 169, Mismatches: 22, Indels: 53
0.69 0.09 0.22
Matches are distributed among these distances:
27 6 0.04
28 16 0.09
29 51 0.30
30 40 0.24
31 14 0.08
32 7 0.04
33 8 0.05
35 12 0.07
36 6 0.04
37 8 0.05
38 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (30 bp):
TTATTTTATATATTATTTATACTATTATTA
Found at i:94976006 original size:25 final size:25
Alignment explanation
Indices: 94975942--94976030 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
94975932 ACATCATTAT
94975942 TTATATATTATTATATTATATGTTTA
1 TTATATATT-TTATATTATATGTTTA
*
94975968 TTATATATTATATATTAT-T-TTTA
1 TTATATATTTTATATTATATGTTTA
* *
94975991 TATATATGCTTTTATATTATAT-ATTA
1 T-TATAT-ATTTTATATTATATGTTTA
*
94976017 TAAT-TATTTTATAT
1 TTATATATTTTATAT
94976031 ATTATTAAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
23 13 0.24
24 7 0.13
25 20 0.37
26 14 0.26
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (25 bp):
TTATATATTTTATATTATATGTTTA
Found at i:94976052 original size:19 final size:19
Alignment explanation
Indices: 94976007--94976056 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
94975997 TGCTTTTATA
*
94976007 TTATATATTA-TAATTATT
1 TTATATATTATTAATCATT
94976025 TTATATATTATTAAGTCATT
1 TTATATATTATTAA-TCATT
94976045 TT-TATATTATTA
1 TTATATATTATTA
94976057 TACATTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.34
19 13 0.45
20 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATATATTATTAATCATT
Found at i:94976144 original size:24 final size:25
Alignment explanation
Indices: 94976102--94976151 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
94976092 TTTAAACTTG
*
94976102 TATTATATATTTATCTTTATTTATA
1 TATTATATAATTATCTTTATTTATA
*
94976127 TATTA-ATAATTATTTTTATTTATA
1 TATTATATAATTATCTTTATTTATA
94976151 T
1 T
94976152 TCTATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTATATAATTATCTTTATTTATA
Found at i:94976404 original size:26 final size:25
Alignment explanation
Indices: 94976357--94976405 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
94976347 TTATAAATAC
* * *
94976357 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
94976382 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
94976406 TATTATTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:94981175 original size:30 final size:30
Alignment explanation
Indices: 94981107--94981218 Score: 95
Period size: 30 Copynumber: 3.7 Consensus size: 30
94981097 ATAATATTAT
* * * *
94981107 TTTAATTTAATATTTATAT-TGATAATATAT
1 TTTAATTTAATATTTATGTGAGATATTA-AA
94981137 TATTAATTTAATATTTATGTGAGATATTAAA
1 T-TTAATTTAATATTTATGTGAGATATTAAA
* *
94981168 TTTAATTTAATATTTATCTTGATAATATT--A
1 TTTAATTTAATATTTAT-GTGA-GATATTAAA
* *
94981198 TTTAATTTAACATTAATGTGA
1 TTTAATTTAATATTTATGTGA
94981219 TTAATTCTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
29 3 0.04
30 33 0.48
31 22 0.32
32 11 0.16
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (30 bp):
TTTAATTTAATATTTATGTGAGATATTAAA
Found at i:94987176 original size:5 final size:5
Alignment explanation
Indices: 94987166--94987193 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
94987156 CAATTTGTGA
94987166 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
94987194 GAATACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:94987669 original size:65 final size:65
Alignment explanation
Indices: 94987565--94987691 Score: 227
Period size: 65 Copynumber: 2.0 Consensus size: 65
94987555 TACTCTGCAT
* *
94987565 AGTTTTACAATTAACAGAAACAATGATCAATTTCTTTGATTATAACAATGAATTATCTTCAACAC
1 AGTTTTACAAATAACAAAAACAATGATCAATTTCTTTGATTATAACAATGAATTATCTTCAACAC
*
94987630 AGTTTTACAAATAACAAAAACAATGATTAATTTCTTTGATTATAACAATGAATTATCTTCAA
1 AGTTTTACAAATAACAAAAACAATGATCAATTTCTTTGATTATAACAATGAATTATCTTCAA
94987692 TACACCTAAC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.36
Consensus pattern (65 bp):
AGTTTTACAAATAACAAAAACAATGATCAATTTCTTTGATTATAACAATGAATTATCTTCAACAC
Found at i:94989467 original size:21 final size:22
Alignment explanation
Indices: 94989441--94989485 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
94989431 GGGTTAGTTT
* *
94989441 TTTTAAT-TTTTAATGTTAGGG
1 TTTTAATATTTTAAGGGTAGGG
94989462 TTTTAATATTTTAAGGGTAGGG
1 TTTTAATATTTTAAGGGTAGGG
94989484 TT
1 TT
94989486 AGAGTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.53
Consensus pattern (22 bp):
TTTTAATATTTTAAGGGTAGGG
Found at i:94989486 original size:28 final size:29
Alignment explanation
Indices: 94989455--94989514 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
94989445 AATTTTTAAT
*
94989455 GTTAGGGTTTTAATATTTTAAGG-GTAGG
1 GTTAGAGTTTTAATATTTTAAGGTGTAGG
* *
94989483 GTTAGAGTTTTAATTTTTTAAGGTTTAGG
1 GTTAGAGTTTTAATATTTTAAGGTGTAGG
94989512 GTT
1 GTT
94989515 TTTTAATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.48
Consensus pattern (29 bp):
GTTAGAGTTTTAATATTTTAAGGTGTAGG
Found at i:94999163 original size:26 final size:26
Alignment explanation
Indices: 94999114--94999196 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 26
94999104 TGATAAAAAT
*
94999114 TGATAATGGGTTAAGGTAAATGTTTCA
1 TGATAATGGGTT-AGGTAAATGTTCCA
94999141 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
94999167 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
94999193 TGAT
1 TGAT
94999197 GGGCATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
26 42 0.78
27 12 0.22
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94999476 original size:41 final size:41
Alignment explanation
Indices: 94999431--94999610 Score: 290
Period size: 41 Copynumber: 4.4 Consensus size: 41
94999421 GCGTTTTACC
* *
94999431 AAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTAGTA
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTG-A
*
94999472 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGA
*
94999513 AATAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGA
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGA
* *
94999554 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGA
94999595 AAAAACGCCGCTAAAA
1 AAAAACGCCGCTAAAA
94999611 GTCATATAAC
Statistics
Matches: 129, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
41 109 0.84
42 20 0.16
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGA
Found at i:94999781 original size:14 final size:14
Alignment explanation
Indices: 94999759--94999852 Score: 52
Period size: 14 Copynumber: 6.7 Consensus size: 14
94999749 TTAATTATCA
*
94999759 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
94999773 TTATGGTTTAAGATGGT
1 TTATGGTTT-A-A-GGT
* *
94999790 ATAGGGTTTAAGGT
1 TTATGGTTTAAGGT
94999804 TTATGAG-TTAA---
1 TTATG-GTTTAAGGT
* *
94999815 CTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
94999829 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
94999843 TTAAGGTTTA
1 TTATGGTTTA
94999853 GGATTTAACT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
10 1 0.02
11 8 0.13
14 37 0.61
15 3 0.05
16 2 0.03
17 10 0.16
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:94999972 original size:21 final size:21
Alignment explanation
Indices: 94999935--94999978 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
94999925 GGGTTGGAGT
*
94999935 TTAAGGTGTAAGGGTTTGGTG
1 TTAAGGTGTAAGGGTTTAGTG
94999956 TTAAGGAT-TAAGGGTTTAGTG
1 TTAAGG-TGTAAGGGTTTAGTG
94999977 TT
1 TT
94999979 TAGTGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (21 bp):
TTAAGGTGTAAGGGTTTAGTG
Found at i:95000017 original size:7 final size:7
Alignment explanation
Indices: 94999890--95000018 Score: 52
Period size: 7 Copynumber: 18.1 Consensus size: 7
94999880 GATGAATTAT
94999890 GGGTTTA
1 GGGTTTA
*
94999897 GGGATTA
1 GGGTTTA
* *
94999904 TGATTTA
1 GGGTTTA
94999911 GGGTTTA
1 GGGTTTA
94999918 GAGG-TTA
1 G-GGTTTA
94999925 GGG-TT-
1 GGGTTTA
94999930 GGAGTTTA
1 GG-GTTTA
* *
94999938 AGGTGTAA
1 GGGT-TTA
94999946 GGGTTT-
1 GGGTTTA
*
94999952 GGTGTTAA
1 GG-GTTTA
* *
94999960 GGATTAA
1 GGGTTTA
94999967 GGGTTTA
1 GGGTTTA
*
94999974 GTGTTTA
1 GGGTTTA
*
94999981 GTGTTTA
1 GGGTTTA
*
94999988 TGGG-ATA
1 -GGGTTTA
*
94999995 GGGGTTGA
1 -GGGTTTA
95000003 GAGGTTTA
1 G-GGTTTA
95000011 GGGTTTA
1 GGGTTTA
95000018 G
1 G
95000019 ATTAATTAGT
Statistics
Matches: 91, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
5 2 0.02
6 7 0.08
7 63 0.69
8 19 0.21
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.39
Consensus pattern (7 bp):
GGGTTTA
Found at i:95006991 original size:15 final size:15
Alignment explanation
Indices: 95006971--95006999 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
95006961 TTACAAGTGA
95006971 TTGTTGTTAAGATAC
1 TTGTTGTTAAGATAC
95006986 TTGTTGTTAAGATA
1 TTGTTGTTAAGATA
95007000 TTGAACCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (15 bp):
TTGTTGTTAAGATAC
Found at i:95007438 original size:14 final size:14
Alignment explanation
Indices: 95007419--95007448 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
95007409 TGACATCAAG
95007419 AATGGTTCAACTTA
1 AATGGTTCAACTTA
95007433 AATGGTTCAACTTA
1 AATGGTTCAACTTA
95007447 AA
1 AA
95007449 GATGCTTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (14 bp):
AATGGTTCAACTTA
Found at i:95007780 original size:15 final size:16
Alignment explanation
Indices: 95007749--95007795 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
95007739 CATAGAAAAT
*
95007749 AAATAT-TATTTAATTA
1 AAATATATATTT-TTTA
95007765 AAATATAT-TTTTTTA
1 AAATATATATTTTTTA
*
95007780 AAATTTATATTTTTTA
1 AAATATATATTTTTTA
95007796 GCGGCGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 10 0.37
16 16 0.59
17 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATATATATTTTTTA
Found at i:95007858 original size:42 final size:43
Alignment explanation
Indices: 95007794--95007891 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
95007784 TTATATTTTT
* * *
95007794 TAGCGGCGTTTATGAAAAAAGCGTCGCTAAAGGTC-TGTTATA
1 TAGCGGCGTTTTTGAAAAAAGCGTCGCTAAAGGCCATGGTATA
** * * *
95007836 TAGCGGCGTTTTTGGGAGAAGCGTCGCTAAAGGCCATGGTCTT
1 TAGCGGCGTTTTTGAAAAAAGCGTCGCTAAAGGCCATGGTATA
95007879 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
95007892 TTGAGTCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 30 0.64
43 17 0.36
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (43 bp):
TAGCGGCGTTTTTGAAAAAAGCGTCGCTAAAGGCCATGGTATA
Found at i:95011593 original size:13 final size:13
Alignment explanation
Indices: 95011577--95011611 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
95011567 AAAATTTGAC
* *
95011577 ATATAAATATTAT
1 ATATAAAAAATAT
95011590 ATATAAAAAATAT
1 ATATAAAAAATAT
95011603 ATATAAAAA
1 ATATAAAAA
95011612 GAATCAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATAAAAAATAT
Found at i:95013523 original size:16 final size:16
Alignment explanation
Indices: 95013502--95013561 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
95013492 TTTTCATTCT
95013502 GATTATA-ATTTATTTG
1 GATTATATA-TTATTTG
95013518 GATTATATATTATTTG
1 GATTATATATTATTTG
* * *
95013534 TAATTCTACTTTTATTTG
1 -GATTATA-TATTATTTG
95013552 GA-TATATATT
1 GATTATATATT
95013562 TTTTAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.09
16 17 0.49
17 7 0.20
18 8 0.23
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (16 bp):
GATTATATATTATTTG
Found at i:95016578 original size:26 final size:26
Alignment explanation
Indices: 95016549--95016604 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
95016539 TGATACAAAT
*
95016549 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
95016575 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
95016601 TGAT
1 TGAT
95016605 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGATAAATGTTCCA
Found at i:95018261 original size:27 final size:27
Alignment explanation
Indices: 95018223--95018360 Score: 183
Period size: 27 Copynumber: 5.1 Consensus size: 27
95018213 AAACGTCCTA
*
95018223 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
*
95018250 GTGGCTCTGCCAC-ATATATCTGTTCTG
1 GTGGCTCTGCCACAAT-TATCTGATCTG
*
95018277 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
*
95018304 GTGGCTCTGCCAC-ATATATCTGTTCTG
1 GTGGCTCTGCCACAAT-TATCTGATCTG
*
95018331 GTGGTTCTGCCACAA-TATCTGTATCTG
1 GTGGCTCTGCCACAATTATCTG-ATCTG
95018358 GTG
1 GTG
95018361 ACTTCGTCAT
Statistics
Matches: 98, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
26 10 0.10
27 85 0.87
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGATCTG
Found at i:95018305 original size:54 final size:54
Alignment explanation
Indices: 95018223--95018360 Score: 242
Period size: 54 Copynumber: 2.6 Consensus size: 54
95018213 AAACGTCCTA
95018223 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
95018277 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
* *
95018331 GTGGTTCTGCCACAA-TATCTGTATCTGGTG
1 GTGGCTATGCCACAATTATCTG-ATCTGGTG
95018361 ACTTCGTCAT
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
53 6 0.07
54 75 0.93
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
Found at i:95023659 original size:26 final size:26
Alignment explanation
Indices: 95023630--95023711 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
95023620 TGATACAAAT
95023630 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95023656 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95023682 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95023708 TGAT
1 TGAT
95023712 GGGAATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:95037453 original size:19 final size:19
Alignment explanation
Indices: 95037404--95037453 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
95037394 TCCAAGAACT
*
95037404 TGATAGAGCTTTGAGAGGA
1 TGATAGAGTTTTGAGAGGA
* *
95037423 TAATATGAGTTTTGAGAGGG
1 TGATA-GAGTTTTGAGAGGA
95037443 TGATAGAGTTT
1 TGATAGAGTTT
95037454 AGATCACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.30, C:0.02, G:0.34, T:0.34
Consensus pattern (19 bp):
TGATAGAGTTTTGAGAGGA
Found at i:95044427 original size:19 final size:18
Alignment explanation
Indices: 95044390--95044428 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
95044380 ATTATCCCTA
**
95044390 AATTTTAAAATAATTTTT
1 AATTTTAAAATAAAGTTT
95044408 AATTTTAAAAATAAAGTTT
1 AATTTT-AAAATAAAGTTT
95044427 AA
1 AA
95044429 AATATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
AATTTTAAAATAAAGTTT
Found at i:95044438 original size:30 final size:31
Alignment explanation
Indices: 95044388--95044449 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
95044378 TAATTATCCC
*
95044388 TAAATTTTAAAATAATTTTTAATTTTAAAAA
1 TAAAGTTTAAAATAATTTTTAATTTTAAAAA
*
95044419 TAAAGTTTAAAAT-ATTTTTAATTTTAGAAA
1 TAAAGTTTAAAATAATTTTTAATTTTAAAAA
95044449 T
1 T
95044450 CATAAATACC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 17 0.59
31 12 0.41
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (31 bp):
TAAAGTTTAAAATAATTTTTAATTTTAAAAA
Found at i:95049287 original size:10 final size:11
Alignment explanation
Indices: 95049261--95049290 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
95049251 GTTTAAATTT
95049261 ATTTTAATTAA
1 ATTTTAATTAA
95049272 ATTTTAATTAA
1 ATTTTAATTAA
95049283 A-TTTAATT
1 ATTTTAATT
95049291 TTATTTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTTAATTAA
Found at i:95049468 original size:14 final size:15
Alignment explanation
Indices: 95049451--95049479 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
95049441 TTAAATTTAT
95049451 AAATTAAAA-TAAAA
1 AAATTAAAATTAAAA
95049465 AAATTAAAATTAAAA
1 AAATTAAAATTAAAA
95049480 TTGTGTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATTAAAATTAAAA
Found at i:95050660 original size:26 final size:26
Alignment explanation
Indices: 95050631--95050684 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
95050621 ATAAAAATTA
95050631 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
95050657 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
95050683 AT
1 AT
95050685 GGGCATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:95054257 original size:70 final size:71
Alignment explanation
Indices: 95054171--95054310 Score: 212
Period size: 71 Copynumber: 2.0 Consensus size: 71
95054161 GTGGATAGAG
* *
95054171 TTTGTTGCCTTTTTATATG-CT-ATCCATGGTTGTTTAAATGGATTAGATAGAGAATCGATTGAT
1 TTTGTTGCCTTTTTATATGTCTAAT-CATGATTGTTTAAATGAATTAGATAGAGAATCGATTGAT
95054234 ATATCAA
65 ATATCAA
* * *
95054241 TTTGTTGCCTTTTTATATGTCTAATCATGATTGTTTAAATGAATTAGATCGAGAATTGATTGATT
1 TTTGTTGCCTTTTTATATGTCTAATCATGATTGTTTAAATGAATTAGATAGAGAATCGATTGATA
95054306 TATCA
66 TATCA
95054311 GTTCGATAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
70 19 0.30
71 42 0.67
72 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (71 bp):
TTTGTTGCCTTTTTATATGTCTAATCATGATTGTTTAAATGAATTAGATAGAGAATCGATTGATA
TATCAA
Found at i:95054774 original size:17 final size:17
Alignment explanation
Indices: 95054749--95054786 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
95054739 AAGCAATATT
*
95054749 TTTAAA-AAATAA-TAA
1 TTTAAAGAAAAAACTAA
95054764 TTTAAAGAAAAAACTAA
1 TTTAAAGAAAAAACTAA
95054781 TTTAAA
1 TTTAAA
95054787 ATAAAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 5 0.25
17 9 0.45
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
TTTAAAGAAAAAACTAA
Found at i:95054792 original size:17 final size:15
Alignment explanation
Indices: 95054749--95054793 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
95054739 AAGCAATATT
*
95054749 TTTAAAAAATAATAA
1 TTTAAAAAAAAATAA
95054764 TTTAAAGAAAAAACTAA
1 TTTAAA-AAAAAA-TAA
*
95054781 TTTAAAATAAAAT
1 TTTAAAAAAAAAT
95054794 TGGGGTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 7 0.27
16 10 0.38
17 9 0.35
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
TTTAAAAAAAAATAA
Found at i:95062829 original size:25 final size:25
Alignment explanation
Indices: 95062775--95062826 Score: 68
Period size: 29 Copynumber: 1.9 Consensus size: 25
95062765 CAAAATTCTA
95062775 ATATCATGGCCCGAAGCCAAATCAGCCG
1 ATATCATGGCCCGAAGCCAAAT---CCG
95062803 ATATGCATGGCCCGAAGCCAAATC
1 ATAT-CATGGCCCGAAGCCAAATC
95062827 GATTTATCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 1 0.04
28 4 0.17
29 18 0.78
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.15
Consensus pattern (25 bp):
ATATCATGGCCCGAAGCCAAATCCG
Found at i:95064983 original size:19 final size:20
Alignment explanation
Indices: 95064956--95064993 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
95064946 CAGTTTCAGA
*
95064956 TTCAGATTCAGATA-ACAGC
1 TTCAAATTCAGATATACAGC
95064975 TTCAAATTCAGATATACAG
1 TTCAAATTCAGATATACAG
95064994 AATCCTACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (20 bp):
TTCAAATTCAGATATACAGC
Found at i:95065517 original size:70 final size:70
Alignment explanation
Indices: 95065437--95065581 Score: 247
Period size: 70 Copynumber: 2.1 Consensus size: 70
95065427 ATGGGCCCAT
95065437 ATGCCCGTGTGGCCCACACGCCCAGATTGGCCTTA-CCAGTGTAGCCCACACAGCCTGGCCCAAA
1 ATGCCCGTGTGGCCCACACGCCCAGATTGGCCTTACCCA-TGTAGCCCACACAGCCTGGCCCAAA
95065501 ATTCAC
65 ATTCAC
* *
95065507 ATGCCCGTGTGGCCCACACGCCCAGATTGGCCTTACCCATGTAGCCCACATAGCCTGGCCTAAAA
1 ATGCCCGTGTGGCCCACACGCCCAGATTGGCCTTACCCATGTAGCCCACACAGCCTGGCCCAAAA
*
95065572 TTCGC
66 TTCAC
95065577 ATGCC
1 ATGCC
95065582 TGTGCGACAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 68 0.96
71 3 0.04
ACGTcount: A:0.22, C:0.38, G:0.21, T:0.19
Consensus pattern (70 bp):
ATGCCCGTGTGGCCCACACGCCCAGATTGGCCTTACCCATGTAGCCCACACAGCCTGGCCCAAAA
TTCAC
Found at i:95070592 original size:20 final size:18
Alignment explanation
Indices: 95070536--95070597 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 18
95070526 GTTTTTAGAG
95070536 TATTTTATGATGTTTTATAA
1 TATTTTATGA--TTTTATAA
*
95070556 TATTTTACTTGATTTTATTA
1 TATTTTA--TGATTTTATAA
*
95070576 TATTTTTATGATATTTAAAA
1 TA-TTTTATGAT-TTTATAA
95070596 TA
1 TA
95070598 ATTCAGGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
19 4 0.11
20 23 0.66
21 5 0.14
22 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (18 bp):
TATTTTATGATTTTATAA
Found at i:95070707 original size:6 final size:6
Alignment explanation
Indices: 95070696--95070720 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
95070686 CATTATCAAC
95070696 ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA A
95070721 AGGGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:95073327 original size:20 final size:21
Alignment explanation
Indices: 95073287--95073330 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
95073277 ATTGATTTTG
*
95073287 TATTTTTTTTAAATTCAATAT
1 TATTTTTATTAAATTCAATAT
95073308 TATTTTTATTAAATTC-ATAT
1 TATTTTTATTAAATTCAATAT
95073328 TAT
1 TAT
95073331 ATCATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTTTATTAAATTCAATAT
Found at i:95078777 original size:20 final size:20
Alignment explanation
Indices: 95078754--95078793 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
95078744 GGGACTTTGG
* *
95078754 TCTTTTTCTTTTTTTTTTCT
1 TCTTTTCCTTCTTTTTTTCT
95078774 TCTTTTCCTTCTTTTTTTCT
1 TCTTTTCCTTCTTTTTTTCT
95078794 GGTCTAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TCTTTTCCTTCTTTTTTTCT
Found at i:95083551 original size:16 final size:16
Alignment explanation
Indices: 95083511--95083554 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
95083501 AAAAATAGAC
95083511 ATAATAACAAAAATTAT
1 ATAATAA-AAAAATTAT
*
95083528 AAAATAAAATAAATT-T
1 ATAATAAAA-AAATTAT
95083544 ATAATAAAAAA
1 ATAATAAAAAA
95083555 TCAAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 11 0.46
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAATAAAAAAATTAT
Found at i:95085883 original size:19 final size:19
Alignment explanation
Indices: 95085861--95085898 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
95085851 AATAACACTT
95085861 TTTATAATTTTTATTTATA
1 TTTATAATTTTTATTTATA
95085880 TTTATAATTTTTATTTATA
1 TTTATAATTTTTATTTATA
95085899 CTTTTTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATAATTTTTATTTATA
Found at i:95091916 original size:19 final size:19
Alignment explanation
Indices: 95091867--95091946 Score: 119
Period size: 19 Copynumber: 4.3 Consensus size: 19
95091857 CATATCCTAT
95091867 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
*
95091886 --TGTCATATCTAAGATTG
1 CATATCATATCTAAGATTG
*
95091903 CATATCACATCTAAGATTG
1 CATATCATATCTAAGATTG
*
95091922 CATATCAAATCTAAGATTG
1 CATATCATATCTAAGATTG
95091941 CATATC
1 CATATC
95091947 CTTAAGGATT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
17 16 0.29
19 39 0.71
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.35
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:95092359 original size:82 final size:82
Alignment explanation
Indices: 95092268--95093020 Score: 1211
Period size: 82 Copynumber: 9.2 Consensus size: 82
95092258 AGATGCCAAA
* * * * ** * *
95092268 TCATCTTGGATCTGTCTCAATGAAGGTCAAATCTGCTATGTCTTTAATCTGCT-CCTCGTCAAAT
1 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCT-GCCGAAT
95092332 ACAGAGAGATAAGATCTG
65 ACAGAGAGATAAGATCTG
95092350 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGCCGAATA
1 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGCCGAATA
95092415 CAGAGAGATAAGATCTG
66 CAGAGAGATAAGATCTG
* *
95092432 TCATCTTGGATCTGCCCCGATGAAGGTTAGATCTGCTATGTCTTTGATCTGCTCCCTGCCGAATA
1 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGCCGAATA
95092497 CAGAGAGATAAGATCTG
66 CAGAGAGATAAGATCTG
* * *
95092514 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATTTGTTCCCTACCGAATA
1 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGCCGAATA
95092579 CAGAGAGATAAGATCTG
66 CAGAGAGATAAGATCTG
* * *
95092596 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTACTATGTCTTCGATCTACTCCCTTCCGAATA
1 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGCCGAATA
95092661 CAGAGAGATAAGATCTG
66 CAGAGAGATAAGATCTG
* * *
95092678 TCATCTTGGATCTGCCCCAATGAAGGTTAGATCTGCTATGTCTTCAATCTGCTCCCTGCCGAATA
1 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGCCGAATA
*
95092743 TAGAGAGATAAGATCTG
66 CAGAGAGATAAGATCTG
* * * * *
95092760 TCATCTTGGATCTGCCCTGATGAAGGTCAGTTCTGCTATGTCTTTGATCTGCTCCTTGCCAAATA
1 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGCCGAATA
95092825 CAGAGAGATAAGATCTG
66 CAGAGAGATAAGATCTG
*
95092842 TCATCTTGGATCTACCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGCCGAATA
1 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGCCGAATA
95092907 CAGAGAGATAAGATCTG
66 CAGAGAGATAAGATCTG
* * * *
95092924 TCATCTTGGATCTACCCCGATGAAGGTCATATCTGCTATGTCTTCAATCTGCTCCCTGCCGAATT
1 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGCCGAATA
95092989 CAGAGAGATAAGATCTG
66 CAGAGAGATAAGATCTG
*
95093006 TTATCTTGGATCTGC
1 TCATCTTGGATCTGC
95093021 TCCCCGTCTA
Statistics
Matches: 623, Mismatches: 47, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
82 620 1.00
83 3 0.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (82 bp):
TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGCCGAATA
CAGAGAGATAAGATCTG
Found at i:95100417 original size:19 final size:19
Alignment explanation
Indices: 95100368--95100447 Score: 110
Period size: 19 Copynumber: 4.3 Consensus size: 19
95100358 CATATCCTAT
95100368 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
*
95100387 --TGTCATATCTAAGATTG
1 CATATCATATCTAAGATTG
*
95100404 CATATCACATCTAAGATTG
1 CATATCATATCTAAGATTG
*
95100423 CATATCAAATCTAAGATTG
1 CATATCATATCTAAGATTG
*
95100442 TATATC
1 CATATC
95100448 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
17 16 0.30
19 38 0.70
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:95103050 original size:21 final size:21
Alignment explanation
Indices: 95103024--95103083 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
95103014 ATTGCCGAGC
* *
95103024 AGGCACTTTATGTGTTGTTTT
1 AGGCACTTTATGTGTCGTTCT
* *
95103045 AGGCACCTTGTGTGTCGTTCT
1 AGGCACTTTATGTGTCGTTCT
95103066 AGGCACTTTATGTGTCGT
1 AGGCACTTTATGTGTCGT
95103084 ATACTGCTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.13, C:0.17, G:0.27, T:0.43
Consensus pattern (21 bp):
AGGCACTTTATGTGTCGTTCT
Found at i:95105999 original size:18 final size:18
Alignment explanation
Indices: 95105976--95106258 Score: 176
Period size: 18 Copynumber: 15.3 Consensus size: 18
95105966 GAATAATTAT
*
95105976 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAG
*
95105994 TTATTCAGTAACAATCAA
1 TTATTCAGTAACAATCAG
* * *
95106012 TTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAG
* *
95106030 TTATTCAATATCGATCAATTAATCGG
1 TTATTC---A--G-T-AA-CAATCAG
* * *
95106056 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAG
95106074 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAATCAG
* * *
95106091 ATATTCAGTAACTATTAAG
1 TTATTCAGTAAC-AATCAG
* *
95106110 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAATCAG
*
95106127 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAG
* *
95106146 TTATTCAGTAATAATCAA
1 TTATTCAGTAACAATCAG
* * *
95106164 TTATTCGGTAATATTCAG
1 TTATTCAGTAACAATCAG
*
95106182 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAATC-AG
* * * *
95106200 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAG
* * *
95106218 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAG
*
95106236 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAG
95106254 TTATT
1 TTATT
95106259 TTATACCTTT
Statistics
Matches: 208, Mismatches: 43, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
17 17 0.08
18 155 0.75
19 19 0.09
20 1 0.00
21 2 0.01
23 1 0.00
24 1 0.00
25 2 0.01
26 10 0.05
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAG
Found at i:95106018 original size:36 final size:36
Alignment explanation
Indices: 95105976--95106258 Score: 205
Period size: 36 Copynumber: 7.6 Consensus size: 36
95105966 GAATAATTAT
*
95105976 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
95106012 TTATTCAATAATAACCAGTTATTCAATATCGATCAATTAA
1 TTATTCAGTAACAATCAGTTATTCAGTA---A-CAATCAA
* * *
95106052 TCGGTTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 ----TTATTCAGTAACAATCAGTTATTCAGTAACAATCA-A
* * * *
95106092 -TATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* *
95106127 TTCATTCAGTGACAATCAGTTATTCAGTAATAATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * *
95106164 TTATTCGGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * *
95106201 -TATCCAGTAACAGTCAATTATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
95106236 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
95106259 TTATACCTTT
Statistics
Matches: 188, Mismatches: 43, Indels: 32
0.71 0.16 0.12
Matches are distributed among these distances:
35 13 0.07
36 124 0.66
37 17 0.09
39 5 0.03
40 7 0.04
41 1 0.01
44 21 0.11
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:95106034 original size:54 final size:54
Alignment explanation
Indices: 95105976--95106258 Score: 212
Period size: 54 Copynumber: 5.1 Consensus size: 54
95105966 GAATAATTAT
* * * * *
95105976 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAATTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAGTTATTCAGTAACAGTCAATTATTCAGTAACAATCAG
* * *
95106030 TTATTCAATATCGATCAATTAATCGGTTATCCAGTAACAGTCAATTATTCAGTAA-AATCAG
1 TTATTC---A--G-T-AA-CAATCAGTTATTCAGTAACAGTCAATTATTCAGTAACAATCAG
* * * * *
95106091 ATATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-ATTCATTCAGTGACAATCAG
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAGTCAATT-ATTCAGTAACAATCAG
* * * * * * *
95106146 TTATTCAGTAATAATCAATTATTCGGTAATATTCAGTTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAATCAGTTATTCAGTAACAGTCAATTATTCAGTAACAATC-AG
* * * * * *
95106200 ATATCCAGTAACAGTCAATTATCCAGTAACAGTCAATTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAGTTATTCAGTAACAGTCAATTATTCAGTAACAATCAG
95106254 TTATT
1 TTATT
95106259 TTATACCTTT
Statistics
Matches: 175, Mismatches: 40, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
53 4 0.02
54 104 0.59
55 20 0.11
56 1 0.01
57 1 0.01
58 1 0.01
59 1 0.01
60 1 0.01
61 12 0.07
62 30 0.17
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.35
Consensus pattern (54 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAGTCAATTATTCAGTAACAATCAG
Found at i:95106191 original size:72 final size:71
Alignment explanation
Indices: 95106057--95106258 Score: 237
Period size: 72 Copynumber: 2.8 Consensus size: 71
95106047 ATTAATCGGT
* * *
95106057 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
95106121 CAGTC-AT
64 CAGTCTAA
* * * *
95106128 TCATTCAGTGACAATCAGTTATTCAGTAATAATCAATTATTCGGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
95106193 CAGTCTAA
64 CAGTCTAA
* * * *
95106201 TATCCAGTAACAGTCAATTATCCAGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
95106259 TTATACCTTT
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
71 1 0.01
72 93 0.85
73 16 0.15
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:95106481 original size:45 final size:45
Alignment explanation
Indices: 95106432--95106683 Score: 306
Period size: 45 Copynumber: 5.5 Consensus size: 45
95106422 ATCCGGAATA
* * * *
95106432 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTACTGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
95106477 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * * *
95106522 GTAGCGGTAACAGTAACAATATTCGACACACACAGTGCCAAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
95106567 GTAACGGTAACGGTAACAGTAACAATATTCGACACACACAGTGCCAAATCG
1 GTAAC----A--GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
95106618 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGACGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * *
95106663 GTAACAATAGCAGTAGCAATA
1 GTAACAGTAACAGTAACAATA
95106684 ACAGTAACTA
Statistics
Matches: 183, Mismatches: 18, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
45 139 0.76
51 44 0.24
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.18
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:95106596 original size:96 final size:96
Alignment explanation
Indices: 95106475--95106667 Score: 332
Period size: 96 Copynumber: 2.0 Consensus size: 96
95106465 AGTACTGAAT
* *
95106475 CGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAGCGGTAACAGTAACA
1 CGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCAAATCGGTAACGGTAACAGTAACA
* *
95106540 ATATTCGACACACACAGTGCCAAATCGGTAA
66 ATATTCGACACACAAAGTGACAAATCGGTAA
*
95106571 CGGTAACGGTAACAGTAACAATATTCGACACACACAGTGCCAAATCGGTAACGGTAACAGTAACA
1 CGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCAAATCGGTAACGGTAACAGTAACA
*
95106636 ATATTCGACACACAAAGTGACGAATCGGTAA
66 ATATTCGACACACAAAGTGACAAATCGGTAA
95106667 C
1 C
95106668 AATAGCAGTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (96 bp):
CGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCAAATCGGTAACGGTAACAGTAACA
ATATTCGACACACAAAGTGACAAATCGGTAA
Found at i:95106686 original size:96 final size:93
Alignment explanation
Indices: 95106432--95106667 Score: 318
Period size: 96 Copynumber: 2.5 Consensus size: 93
95106422 ATCCGGAATA
* * *
95106432 GTAACAGTAACAGTAACAGTATTCAACACACAAAGT-ACTGAATCGGTAAC--G-GTAACAGTAA
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGAC-GAATCGGTAACTAGCGTAACAGTAA
*
95106493 CAATATTCGACACACAAAGTGCCGAATCG
65 CAATATTCGACACACAAAGTGCCAAATCG
* * * * *
95106522 GTAGCGGTAACAGTAACAATATTCGACACACACAGTGCCAAATCGGTAACGGTAACGGTAACAGT
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGACGAATCGGTAAC--TAGC-GTAACAGT
*
95106587 AACAATATTCGACACACACAGTGCCAAATCG
63 AACAATATTCGACACACAAAGTGCCAAATCG
95106618 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGACGAATCGGTAAC
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGACGAATCGGTAAC
95106668 AATAGCAGTA
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
90 41 0.33
91 1 0.01
96 83 0.66
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (93 bp):
GTAACGGTAACAGTAACAATATTCGACACACAAAGTGACGAATCGGTAACTAGCGTAACAGTAAC
AATATTCGACACACAAAGTGCCAAATCG
Found at i:95107097 original size:5 final size:5
Alignment explanation
Indices: 95107086--95107127 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
95107076 AATTAATCAT
* *
95107086 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
95107128 CCCTTCAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:95108402 original size:9 final size:9
Alignment explanation
Indices: 95108384--95108418 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
95108374 TTTCTTTTTC
*
95108384 ATTTCTTTT
1 ATTTCATTT
95108393 ATTTCATTT
1 ATTTCATTT
95108402 ATTTCA-TT
1 ATTTCATTT
95108410 ATTTCATTT
1 ATTTCATTT
95108419 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTCATTT
Found at i:95108425 original size:21 final size:22
Alignment explanation
Indices: 95108393--95108433 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
95108383 CATTTCTTTT
95108393 ATTTCATTTATTTCATTATTTC
1 ATTTCATTTATTTCATTATTTC
*
95108415 ATTTC-TTTATTTTATTATT
1 ATTTCATTTATTTCATTATT
95108434 AAACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTTCATTTATTTCATTATTTC
Found at i:95111722 original size:13 final size:12
Alignment explanation
Indices: 95111684--95111722 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
95111674 GAAACCGTTG
95111684 AAATAGATAAAAA
1 AAATAGA-AAAAA
*
95111697 AAATTGAAAAAA
1 AAATAGAAAAAA
*
95111709 AAATAGAAATAA
1 AAATAGAAAAAA
95111721 AA
1 AA
95111723 GTGGTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
AAATAGAAAAAA
Found at i:95112196 original size:71 final size:73
Alignment explanation
Indices: 95112036--95112196 Score: 168
Period size: 71 Copynumber: 2.2 Consensus size: 73
95112026 AAAAAAAGAG
* * * * *
95112036 ATTCCCATTAAATATCTTTTCCTTTTAAATAATTTTTGAAAAAGTTGTTATCAAATTTTAAAATT
1 ATTCCCATTAAATATTTTTTCCTTTTAAATAATTTTTGAAAAAATTATCATCAAACTTTAAAATT
**
95112101 TTCAGTTA
66 CCCAGTTA
* * * *
95112109 ATTCTCATCAAATATTTTTTTC-TTTAAATATATTTTT-AAAAAATTATCA-GAAACTTTATAAA
1 ATTCCCATTAAATATTTTTTCCTTTTAAATA-ATTTTTGAAAAAATTATCATCAAACTTTA-AAA
*
95112171 -TCCCATTTA
64 TTCCCAGTTA
95112180 ATTCCCATTAAATATTT
1 ATTCCCATTAAATATTT
95112197 ATTTAAAAGT
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
71 28 0.39
72 20 0.28
73 24 0.33
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.47
Consensus pattern (73 bp):
ATTCCCATTAAATATTTTTTCCTTTTAAATAATTTTTGAAAAAATTATCATCAAACTTTAAAATT
CCCAGTTA
Found at i:95112363 original size:16 final size:17
Alignment explanation
Indices: 95112344--95112381 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
95112334 TAATTTTCCA
95112344 TTAAATA-TTTT-TTTAT
1 TTAAATAGTTTTATTT-T
95112360 TTAAATAGTTTTATTTT
1 TTAAATAGTTTTATTTT
95112377 TTAAA
1 TTAAA
95112382 AATTGTCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 10 0.50
18 3 0.15
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTAAATAGTTTTATTTT
Found at i:95112783 original size:13 final size:14
Alignment explanation
Indices: 95112754--95112788 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
95112744 TTTTTTATTT
95112754 AAAAATGTGACATAA
1 AAAAAT-TGACATAA
95112769 AAAAATTGACA-AA
1 AAAAATTGACATAA
95112782 AAAAATT
1 AAAAATT
95112789 AACGATGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
14 5 0.25
15 6 0.30
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.20
Consensus pattern (14 bp):
AAAAATTGACATAA
Found at i:95112950 original size:15 final size:15
Alignment explanation
Indices: 95112930--95112983 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
95112920 ATACTACAAA
95112930 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
95112945 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
95112962 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
95112979 ATATT
1 ATATT
95112984 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:95113041 original size:16 final size:16
Alignment explanation
Indices: 95113010--95113046 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
95113000 AATATTCACA
95113010 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
95113026 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
95113042 TATTA
1 TATTA
95113047 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:95113097 original size:22 final size:22
Alignment explanation
Indices: 95113071--95113114 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
95113061 TATTTAAATA
95113071 ATTTATTAAAATAATAAATTAT
1 ATTTATTAAAATAATAAATTAT
* * *
95113093 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAAATTAT
95113115 TATATGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTAAAATAATAAATTAT
Found at i:95120713 original size:25 final size:26
Alignment explanation
Indices: 95120685--95120738 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
95120675 TGAGATTTTT
*
95120685 TTAAAAAAAT-AATAATTAA-ATTTAA
1 TTAAAAAAATAAAT-ATTAACATATAA
*
95120710 TTAAAAATATAAATATTAACATATAA
1 TTAAAAAAATAAATATTAACATATAA
95120736 TTA
1 TTA
95120739 TATTTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
TTAAAAAAATAAATATTAACATATAA
Found at i:95121667 original size:26 final size:26
Alignment explanation
Indices: 95121630--95121713 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
95121620 TGATACAAAT
* *
95121630 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95121656 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
95121682 TGATAATGGGTTAGGCAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95121708 TGATAA
1 TGATAA
95121714 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:95128677 original size:26 final size:26
Alignment explanation
Indices: 95128640--95128723 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
95128630 TGATACAAAT
* *
95128640 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95128666 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95128692 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95128718 TGATAA
1 TGATAA
95128724 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:95133456 original size:12 final size:12
Alignment explanation
Indices: 95133439--95133463 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95133429 CACAACGTGC
95133439 ATGGTATTAAAA
1 ATGGTATTAAAA
95133451 ATGGTATTAAAA
1 ATGGTATTAAAA
95133463 A
1 A
95133464 ACATGATGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGGTATTAAAA
Found at i:95133727 original size:12 final size:12
Alignment explanation
Indices: 95133710--95133737 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
95133700 TATATGAAAT
95133710 TAATTAGTTTAA
1 TAATTAGTTTAA
95133722 TAATTAGTTTAA
1 TAATTAGTTTAA
95133734 TAAT
1 TAAT
95133738 AAGATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
TAATTAGTTTAA
Found at i:95139125 original size:37 final size:40
Alignment explanation
Indices: 95139082--95139157 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
95139072 GTTGATAAGT
95139082 GCTGGGTACAA-AT-TTTACTTC-GATTATACTGATGAGC
1 GCTGGGTACAATATATTTACTTCAGATTATACTGATGAGC
* * *
95139119 GCTGGGTACAATTTATTTACTTCAGATTTTTCTGATGAG
1 GCTGGGTACAATATATTTACTTCAGATTATACTGATGAG
95139158 ACACTAGGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 11 0.33
38 1 0.03
39 8 0.24
40 13 0.39
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (40 bp):
GCTGGGTACAATATATTTACTTCAGATTATACTGATGAGC
Found at i:95140808 original size:28 final size:28
Alignment explanation
Indices: 95140770--95140825 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
95140760 ACTACATCTA
95140770 TTTAAAGTTTAAAAAATATTATTTTAAT
1 TTTAAAGTTTAAAAAATATTATTTTAAT
95140798 TTTAAAGTTTAAAAAATATTATTTTAAT
1 TTTAAAGTTTAAAAAATATTATTTTAAT
95140826 CAATGTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (28 bp):
TTTAAAGTTTAAAAAATATTATTTTAAT
Found at i:95143432 original size:21 final size:21
Alignment explanation
Indices: 95143389--95143432 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
95143379 TTATTTGTTT
95143389 AATTAATAAATTAACCTTCAAA
1 AATTAATAAATT-ACCTTCAAA
*
95143411 AATTAATCAAATT-CCTTTAAA
1 AATTAAT-AAATTACCTTCAAA
95143432 A
1 A
95143433 TAAAGCCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 7 0.35
23 5 0.25
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (21 bp):
AATTAATAAATTACCTTCAAA
Found at i:95159619 original size:22 final size:23
Alignment explanation
Indices: 95159594--95159642 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
95159584 AAAAACATAA
95159594 ACAGAAT-ATATCAG-GTACAGAT
1 ACAGAATCATATCAGAG-ACAGAT
95159616 ACAG-ATCATATCAGAGACAGAT
1 ACAGAATCATATCAGAGACAGAT
*
95159638 GCAGA
1 ACAGA
95159643 TTCCCTACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 2 0.09
22 20 0.87
23 1 0.04
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (23 bp):
ACAGAATCATATCAGAGACAGAT
Found at i:95159643 original size:22 final size:22
Alignment explanation
Indices: 95159601--95159643 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
95159591 TAAACAGAAT
95159601 ATATCAGGTACAGATACAGATC
1 ATATCAGGTACAGATACAGATC
*
95159623 ATATCAGAG-ACAGATGCAGAT
1 ATATCAG-GTACAGATACAGAT
95159644 TCCCTACCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (22 bp):
ATATCAGGTACAGATACAGATC
Found at i:95159827 original size:2 final size:2
Alignment explanation
Indices: 95159817--95159850 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
95159807 TATATATATA
*
95159817 TG TG GG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
95159851 CGGCTTAGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.53, T:0.47
Consensus pattern (2 bp):
TG
Found at i:95160232 original size:12 final size:12
Alignment explanation
Indices: 95160192--95160226 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
95160182 TCACTATGCC
95160192 TCACATTGTCTA
1 TCACATTGTCTA
95160204 TCACATTGTCTA
1 TCACATTGTCTA
95160216 TCACATTGTCT
1 TCACATTGTCT
95160227 GGCACACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.43
Consensus pattern (12 bp):
TCACATTGTCTA
Found at i:95161074 original size:24 final size:27
Alignment explanation
Indices: 95161027--95161078 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
95161017 ATGGGGAGCC
95161027 AAAATAAAAGAAGAAGAGAAGAGAAAA
1 AAAATAAAAGAAGAAGAGAAGAGAAAA
*
95161054 AAAAT-AAAG-AGAA-AGAGGAGAAAA
1 AAAATAAAAGAAGAAGAGAAGAGAAAA
95161078 A
1 A
95161079 GAGGGAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 11 0.46
25 4 0.17
26 4 0.17
27 5 0.21
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.04
Consensus pattern (27 bp):
AAAATAAAAGAAGAAGAGAAGAGAAAA
Found at i:95161970 original size:13 final size:13
Alignment explanation
Indices: 95161952--95161984 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
95161942 TCTACACTGT
95161952 CATGTGAACAGGC
1 CATGTGAACAGGC
95161965 CATGTG-ACAGGC
1 CATGTGAACAGGC
*
95161977 CGTGTGAA
1 CATGTGAA
95161985 GCATAGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.27, C:0.21, G:0.33, T:0.18
Consensus pattern (13 bp):
CATGTGAACAGGC
Found at i:95162975 original size:41 final size:41
Alignment explanation
Indices: 95162817--95162978 Score: 103
Period size: 41 Copynumber: 4.0 Consensus size: 41
95162807 TTAATATAGA
* * * * * *
95162817 CACGAAGCCTACAAGGCTGAAGGCTTGATTCGATACACCGA
1 CACGAAGCCTACTAGGCTCAAGGCTCGATACAATACACCGG
* * * * * * *
95162858 CATGAAGCCAACTAGGTTTAAGGAC-CAACACGATACACCGG
1 CACGAAGCCTACTAGGCTCAAGG-CTCGATACAATACACCGG
* * ** * * * *
95162899 TACAAAGATTTCTAGCCTCTAGGCAT-GATAGAATACACCGG
1 CACGAAGCCTACTAGGCTCAAGGC-TCGATACAATACACCGG
95162940 CACGAAGCCTACTAGGCTCAAGGCTCGATACAATACACC
1 CACGAAGCCTACTAGGCTCAAGGCTCGATACAATACACC
95162979 TAACACATTT
Statistics
Matches: 84, Mismatches: 33, Indels: 8
0.67 0.26 0.06
Matches are distributed among these distances:
40 2 0.02
41 81 0.96
42 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.18
Consensus pattern (41 bp):
CACGAAGCCTACTAGGCTCAAGGCTCGATACAATACACCGG
Found at i:95165211 original size:14 final size:16
Alignment explanation
Indices: 95165192--95165225 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
95165182 CTCCCGGCTT
95165192 ATAATGG-AACTCT-G
1 ATAATGGTAACTCTAG
95165206 ATAATGGTAACTCTAG
1 ATAATGGTAACTCTAG
95165222 ATAA
1 ATAA
95165226 ATATATAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 6 0.33
16 5 0.28
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (16 bp):
ATAATGGTAACTCTAG
Found at i:95165802 original size:14 final size:13
Alignment explanation
Indices: 95165762--95165803 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
95165752 TCATTTACTA
95165762 ATATTTAACATTT
1 ATATTTAACATTT
*
95165775 -TATTTAAACCTTT
1 ATATTT-AACATTT
95165788 ATATTATAACATTT
1 ATATT-TAACATTT
95165802 AT
1 AT
95165804 TTAGGTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 5 0.21
13 6 0.25
14 12 0.50
15 1 0.04
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATTTAACATTT
Found at i:95166361 original size:22 final size:22
Alignment explanation
Indices: 95166321--95166382 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
95166311 CTTTTGTCTC
**
95166321 TTTTTCTTTTCCTTTCTTTCCTT
1 TTTTTC-TTTCCTACCTTTCCTT
*
95166344 TTCTTTC-TTCCTACCTTTTCTT
1 TT-TTTCTTTCCTACCTTTCCTT
*
95166366 TTTTTCTTTCCTTCCTT
1 TTTTTCTTTCCTACCTT
95166383 CCCGTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 4 0.12
22 23 0.70
23 2 0.06
24 4 0.12
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTCTTTCCTACCTTTCCTT
Found at i:95178339 original size:10 final size:10
Alignment explanation
Indices: 95178324--95178355 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
95178314 TAAATACATT
95178324 TAATTAAAGA
1 TAATTAAAGA
95178334 TAATTAAAGA
1 TAATTAAAGA
95178344 TAATTAAA-A
1 TAATTAAAGA
95178353 TAA
1 TAA
95178356 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:95178453 original size:5 final size:5
Alignment explanation
Indices: 95178405--95178434 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
95178395 TAATTATCCT
95178405 AATATA AATAA AATAA AATAA AATAA AATA
1 AATA-A AATAA AATAA AATAA AATAA AATA
95178435 GAGTCTTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:95190309 original size:17 final size:17
Alignment explanation
Indices: 95190287--95190321 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
95190277 TTCAACATAG
95190287 TGAATTTTCTTCTCCTC
1 TGAATTTTCTTCTCCTC
95190304 TGAATTTTCTTCTCCTC
1 TGAATTTTCTTCTCCTC
95190321 T
1 T
95190322 TTCCCTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.29, G:0.06, T:0.54
Consensus pattern (17 bp):
TGAATTTTCTTCTCCTC
Found at i:95191557 original size:19 final size:19
Alignment explanation
Indices: 95191533--95191571 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
95191523 GTTAATGATT
95191533 AATTAATTAAAGA-TAATTA
1 AATTAATT-AAGATTAATTA
95191552 AATTAATTAAGATTAATTA
1 AATTAATTAAGATTAATTA
95191571 A
1 A
95191572 CTTATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AATTAATTAAGATTAATTA
Found at i:95191581 original size:15 final size:14
Alignment explanation
Indices: 95191532--95191583 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
95191522 TGTTAATGAT
**
95191532 TAATTAATTAAAGA
1 TAATTAATTAATTA
95191546 TAATTAAATTAATTA
1 TAATT-AATTAATTA
95191561 -AGATTAATTAACTTA
1 TA-ATTAATTAA-TTA
95191576 TAATTAAT
1 TAATTAAT
95191584 GTAACACCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 12 0.38
15 19 0.59
16 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (14 bp):
TAATTAATTAATTA
Found at i:95203962 original size:16 final size:17
Alignment explanation
Indices: 95203941--95203974 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
95203931 ACCATTTTCT
95203941 GTTAAAAA-GAAAAAAA
1 GTTAAAAACGAAAAAAA
95203957 GTTAAAAACGGAAAAAAA
1 GTTAAAAAC-GAAAAAAA
95203975 TAAAAAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.12
Consensus pattern (17 bp):
GTTAAAAACGAAAAAAA
Found at i:95204763 original size:152 final size:152
Alignment explanation
Indices: 95204551--95204867 Score: 537
Period size: 152 Copynumber: 2.1 Consensus size: 152
95204541 ATTTTTAAAG
* * * *
95204551 TTTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTTTAAAATTTTCAAATCTTATTTTTTAAAATATACTATTTTCCTATTTTATTTTTTATATTAT
*
95204616 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTTATATTAATTTAATAAATAACCA
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAATATTTTTTTATATTAATTTAATAAATAACCA
* *
95204681 TAATTTTGTCCATTTGTTTGTA
131 TAATTTTATCCATTTATTTGTA
95204703 TTTTTAAAATTTTCAAATCTTATTTTTTAAAATATACTATTTTCCTATTTT-TTATTTTATATTA
1 TTTTTAAAATTTTCAAATCTTATTTTTTAAAATATACTATTTTCCTATTTTATT-TTTTATATTA
95204767 TTTTAGTACATAATGTTTCAAATGTATTATTTTAATATTTTTTTATATTAATTTAATAAATAACC
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAATATTTTTTTATATTAATTTAATAAATAACC
* *
95204832 CTAATTTTATCCTTTTATTTGTA
130 ATAATTTTATCCATTTATTTGTA
95204855 TTTTTAAAATTTT
1 TTTTTAAAATTTT
95204868 GGATCTAGAT
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
151 2 0.01
152 153 0.99
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (152 bp):
TTTTTAAAATTTTCAAATCTTATTTTTTAAAATATACTATTTTCCTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAATATTTTTTTATATTAATTTAATAAATAACCA
TAATTTTATCCATTTATTTGTA
Found at i:95204948 original size:15 final size:16
Alignment explanation
Indices: 95204930--95204959 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95204920 TTTTTTCAGC
95204930 TTTTT-ATTTTTTTTG
1 TTTTTAATTTTTTTTG
95204945 TTTTTAATTTTTTTT
1 TTTTTAATTTTTTTT
95204960 CTTCCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTTAATTTTTTTTG
Found at i:95206797 original size:25 final size:23
Alignment explanation
Indices: 95206745--95206793 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
95206735 AATGAAAATT
95206745 TCTTTCCCCCCGAATAAAAGAAG
1 TCTTTCCCCCCGAATAAAAGAAG
*
95206768 TCTTTCCCCCCGAATGAAAGAAG
1 TCTTTCCCCCCGAATAAAAGAAG
95206791 TCT
1 TCT
95206794 CTTTGACCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (23 bp):
TCTTTCCCCCCGAATAAAAGAAG
Found at i:95211101 original size:19 final size:20
Alignment explanation
Indices: 95211079--95211118 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
95211069 AAAATTTAAC
*
95211079 ATAATTTTTA-ATATTTTTA
1 ATAATTTATATATATTTTTA
*
95211098 ATAATTTATATTTATTTTTA
1 ATAATTTATATATATTTTTA
95211118 A
1 A
95211119 GATTCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATAATTTATATATATTTTTA
Found at i:95213968 original size:48 final size:48
Alignment explanation
Indices: 95213897--95214084 Score: 243
Period size: 48 Copynumber: 3.9 Consensus size: 48
95213887 CTTACACTGT
* * * *
95213897 CGATGCTACGTCCTAGACATGGTCTTACACTAGCGCACCTATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAACGC
* * * ***
95213945 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACAT-ATCAACGC
* *
95213993 CGATGCTATGACCCAGACATGGTCTTACACTAGCGCACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAACGC
*
95214041 CGATGCCATGTCCCAGACATGGTTTTACACTAGCGCACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
95214085 CCCCAATGTC
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 2 0.02
48 113 0.97
49 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.24
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAACGC
Found at i:95214009 original size:129 final size:129
Alignment explanation
Indices: 95213785--95214023 Score: 352
Period size: 129 Copynumber: 1.9 Consensus size: 129
95213775 ATGTCCCAAG
* * * * * * *
95213785 CATGGTCTTAAACTAGCTCTCGTCTCAATGCCAATACCATGTTCTAGACATGGTCTTACACTGGC
1 CATGGTCTTAAACTAGCGCACCTATCAACGCCAATACCATGTCCCAGACATGGTCTTACACTGGC
* **
95213850 TCTCGTAATGTGGCCGATGCCATGTTCCAGACATGGTCTTACACTGTCGATGCTACGTCCTAGA
66 TCTCATAATGTGGCCGATGCCATGACCCAGACATGGTCTTACACTGTCGATGCTACGTCCTAGA
* * *
95213914 CATGGTCTTACACTAGCGCACCTATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
1 CATGGTCTTAAACTAGCGCACCTATCAACGCCAATACCATGTCCCAGACATGGTCTTACACTGGC
*
95213979 TCTCATAATGTGGCCGATGCTATGACCCAGACATGGTCTTACACT
66 TCTCATAATGTGGCCGATGCCATGACCCAGACATGGTCTTACACT
95214024 AGCGCACATA
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
129 96 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (129 bp):
CATGGTCTTAAACTAGCGCACCTATCAACGCCAATACCATGTCCCAGACATGGTCTTACACTGGC
TCTCATAATGTGGCCGATGCCATGACCCAGACATGGTCTTACACTGTCGATGCTACGTCCTAGA
Found at i:95214061 original size:96 final size:96
Alignment explanation
Indices: 95213897--95214071 Score: 305
Period size: 96 Copynumber: 1.8 Consensus size: 96
95213887 CTTACACTGT
* * *
95213897 CGATGCTACGTCCTAGACATGGTCTTACACTAGCGCACCTATCAACGCCGATGCCATGTCCCAGA
1 CGATGCTACGACCCAGACATGGTCTTACACTAGCGCACATATCAACGCCGATGCCATGTCCCAGA
95213962 CATGGTCTTACACTGGCTCTCATAATGTGGC
66 CATGGTCTTACACTGGCTCTCATAATGTGGC
*
95213993 CGATGCTATGACCCAGACATGGTCTTACACTAGCGCACATATCAACGCCGATGCCATGTCCCAGA
1 CGATGCTACGACCCAGACATGGTCTTACACTAGCGCACATATCAACGCCGATGCCATGTCCCAGA
*
95214058 CATGGTTTTACACT
66 CATGGTCTTACACT
95214072 AGCGCACATA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (96 bp):
CGATGCTACGACCCAGACATGGTCTTACACTAGCGCACATATCAACGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCTCTCATAATGTGGC
Found at i:95214435 original size:30 final size:30
Alignment explanation
Indices: 95214401--95214458 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
95214391 ATAATTCATA
95214401 TTTTAAAAAATGATC-ATTTTACCCCTAGAC
1 TTTTAAAAAATGA-CGATTTTACCCCTAGAC
*
95214431 TTTTACAAAATGACGATTTTACCCCTAG
1 TTTTAAAAAATGACGATTTTACCCCTAG
95214459 GCTCGTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (30 bp):
TTTTAAAAAATGACGATTTTACCCCTAGAC
Found at i:95215401 original size:5 final size:6
Alignment explanation
Indices: 95215387--95215411 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
95215377 TTTAAACACA
95215387 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
95215412 GAAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:95220308 original size:22 final size:23
Alignment explanation
Indices: 95220260--95220308 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
95220250 TTTATTTTAA
* * *
95220260 AATATATTTACAATAAATATTAG
1 AATATATTTAAAATAAATATGAC
*
95220283 AATATA-TTAAAATAAGTATGAC
1 AATATATTTAAAATAAATATGAC
95220305 AATA
1 AATA
95220309 AACATATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (23 bp):
AATATATTTAAAATAAATATGAC
Found at i:95228845 original size:17 final size:17
Alignment explanation
Indices: 95228812--95228845 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
95228802 ATTACAAAAT
*
95228812 CAAATCTTATAATATTA
1 CAAATCTTATAAGATTA
*
95228829 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
95228846 GTTTCTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:95237619 original size:17 final size:16
Alignment explanation
Indices: 95237599--95237653 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
95237589 TTTCTTTTTG
95237599 TTTTATTTTCATATTTC
1 TTTT-TTTTCATATTTC
*
95237616 TTTTGTTT--T-TTTC
1 TTTTTTTTCATATTTC
95237629 TTTTATTTTCATATTTC
1 TTTT-TTTTCATATTTC
95237646 TTTTTTTT
1 TTTTTTTT
95237654 TACTTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 8 0.25
14 4 0.12
16 8 0.25
17 12 0.38
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTTTTTCATATTTC
Found at i:95237633 original size:30 final size:28
Alignment explanation
Indices: 95237588--95237667 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 28
95237578 CACCTTTTTG
* *
95237588 TTTTCTTTTTGTTTTATTTTCATATTTC
1 TTTTTTTTTTTTTTTATTTTCATATTTC
95237616 TTTTGTTTTTTTCTTTTATTTTCATATTTC
1 TTTT-TTTTTTT-TTTTATTTTCATATTTC
95237646 TTTTTTTTTACTTTTTTATTTT
1 TTTTTTTTT--TTTTTTATTTT
95237668 GTTCCTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
28 4 0.09
29 10 0.22
30 30 0.65
31 2 0.04
ACGTcount: A:0.10, C:0.09, G:0.03, T:0.79
Consensus pattern (28 bp):
TTTTTTTTTTTTTTTATTTTCATATTTC
Found at i:95237654 original size:17 final size:16
Alignment explanation
Indices: 95237581--95237654 Score: 55
Period size: 17 Copynumber: 4.6 Consensus size: 16
95237571 CTTCTGACAC
*
95237581 CTTTTTGTTTTCTTTTT
1 CTTTTT-TTTTCTATTT
* *
95237598 GTTTTATTTTCATATTT
1 CTTTTTTTTTC-TATTT
*
95237615 C-TTTTGTTT-T-TTT
1 CTTTTTTTTTCTATTT
*
95237628 CTTTTATTTTCATATTT
1 CTTTTTTTTTC-TATTT
95237645 CTTTTTTTTT
1 CTTTTTTTTT
95237655 ACTTTTTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
13 4 0.09
14 7 0.16
16 12 0.28
17 20 0.47
ACGTcount: A:0.08, C:0.09, G:0.04, T:0.78
Consensus pattern (16 bp):
CTTTTTTTTTCTATTT
Found at i:95237921 original size:14 final size:14
Alignment explanation
Indices: 95237904--95237930 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95237894 TTTTTTAAAA
95237904 TTTTAAATATTAAT
1 TTTTAAATATTAAT
95237918 TTTTAAATATTAA
1 TTTTAAATATTAA
95237931 CCATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAAATATTAAT
Found at i:95237930 original size:37 final size:37
Alignment explanation
Indices: 95237788--95237930 Score: 129
Period size: 37 Copynumber: 4.0 Consensus size: 37
95237778 TTTATAATAC
* *
95237788 TTTTTTAAAATTTTAATTA-T-TATTTTTAAAAAT-A
1 TTTTTTAAAATTTTAAATATTATATTTTTAAAATTAA
* * * * *
95237822 TTTTTT-TAACTTTAGATA-TATATTTGTGAAATTAA
1 TTTTTTAAAATTTTAAATATTATATTTTTAAAATTAA
* * *
95237857 TTTTTTATATATTTTAAA-AATATATTTTTCAAATTAA
1 TTTTTTA-AAATTTTAAATATTATATTTTTAAAATTAA
95237894 TTTTTTAAAATTTTAAATATTA-ATTTTTAAATATTAA
1 TTTTTTAAAATTTTAAATATTATATTTTTAAA-ATTAA
95237931 CCATATTTTT
Statistics
Matches: 86, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
33 9 0.10
34 16 0.19
35 7 0.08
36 18 0.21
37 36 0.42
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (37 bp):
TTTTTTAAAATTTTAAATATTATATTTTTAAAATTAA
Found at i:95237937 original size:23 final size:23
Alignment explanation
Indices: 95237889--95237930 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
95237879 TATTTTTCAA
*
95237889 ATTAATTTTTTAAAATTTTAAAT
1 ATTAATTTTTTAAAATATTAAAT
95237912 ATTAA-TTTTT-AAATATTAA
1 ATTAATTTTTTAAAATATTAA
95237931 CCATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAATTTTTTAAAATATTAAAT
Done.