Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 193 of 226
Found at i:58281231 original size:24 final size:24
Alignment explanation
Indices: 58281202--58281248 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
58281192 TATATATACC
58281202 AATTCAATCA-ATA-TAAATTCAATA
1 AATTC-ATCACATATTAAA-TCAATA
58281226 AATTCATCACATATTAAATCAAT
1 AATTCATCACATATTAAATCAAT
58281249 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCATCACATATTAAATCAATA
Found at i:58281935 original size:16 final size:15
Alignment explanation
Indices: 58281914--58281945 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
58281904 ACTTTTCTCC
58281914 TTCTTTCTTCCTCTTT
1 TTCTTTCTTCCT-TTT
58281930 TTCTTTCTTCCTTTT
1 TTCTTTCTTCCTTTT
58281945 T
1 T
58281946 CCCCCTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTCTTTCTTCCTTTT
Found at i:58282068 original size:19 final size:20
Alignment explanation
Indices: 58282044--58282082 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
58282034 ATTAATAAGT
58282044 AATACATAT-TTTATTATTA
1 AATACATATATTTATTATTA
58282063 AATACATATATTTATTATTA
1 AATACATATATTTATTATTA
58282083 TTACACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
AATACATATATTTATTATTA
Found at i:58282090 original size:21 final size:20
Alignment explanation
Indices: 58282047--58282097 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
58282037 AATAAGTAAT
*
58282047 ACATAT-TTTATTATTAAAT
1 ACATATATTTATTATTAAAC
*
58282066 ACATATATTTATTATTATTAC
1 ACATATATTTATTATTA-AAC
*
58282087 ACATGTATTTA
1 ACATATATTTA
58282098 CCAACACCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 6 0.22
20 10 0.37
21 11 0.41
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (20 bp):
ACATATATTTATTATTAAAC
Found at i:58282446 original size:21 final size:21
Alignment explanation
Indices: 58282406--58282446 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
58282396 TTTAACATCT
*
58282406 AATTTTTTAAATTTATCTTTC
1 AATTTTTTAAATTTACCTTTC
* *
58282427 AATTTTTTTAATTTGCCTTT
1 AATTTTTTAAATTTACCTTT
58282447 ATTTTTATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (21 bp):
AATTTTTTAAATTTACCTTTC
Found at i:58283114 original size:23 final size:22
Alignment explanation
Indices: 58283088--58283154 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
58283078 TATGATTTTG
*
58283088 ATTTATTTAATTTTATATTATT
1 ATTTATTTTATTTTATATTATT
*
58283110 AATTT-TTTTATTTTCATAATATT
1 -ATTTATTTTATTTT-ATATTATT
* *
58283133 ATTAATTTTATTGTATATTATT
1 ATTTATTTTATTTTATATTATT
58283155 TATAATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 18 0.49
23 19 0.51
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (22 bp):
ATTTATTTTATTTTATATTATT
Found at i:58283157 original size:23 final size:23
Alignment explanation
Indices: 58283092--58283165 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 23
58283082 ATTTTGATTT
* *
58283092 ATTTAATTTTATATTATTAATT-
1 ATTTTATTTTATATTATTTATTA
* *
58283114 TTTTTATTTTCATAATA-TTATTA
1 ATTTTATTTT-ATATTATTTATTA
*
58283137 ATTTTATTGTATATTATTTA-TA
1 ATTTTATTTTATATTATTTATTA
58283159 ATTTTAT
1 ATTTTAT
58283166 AAATTTTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
22 26 0.62
23 16 0.38
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (23 bp):
ATTTTATTTTATATTATTTATTA
Found at i:58290897 original size:11 final size:11
Alignment explanation
Indices: 58290881--58290915 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
58290871 CCCTTCCCCC
58290881 CTCCCTTCTCT
1 CTCCCTTCTCT
58290892 CTCCCTTCTCT
1 CTCCCTTCTCT
58290903 CTTCCC-TCTCT
1 C-TCCCTTCTCT
58290914 CT
1 CT
58290916 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:58291402 original size:3 final size:3
Alignment explanation
Indices: 58291394--58291418 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
58291384 TGTATTTCAA
58291394 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
58291419 GTACATTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:58291518 original size:123 final size:123
Alignment explanation
Indices: 58291381--58291622 Score: 314
Period size: 123 Copynumber: 2.0 Consensus size: 123
58291371 AATATTACAT
* * * *
58291381 TTTTGTATTTCAATATTATTATTATTATTATTATTATTGTACATTAGTGTATA-TCTTCATGT-A
1 TTTTGTATTTCAATATTATTATT-TT-TTATTATCATT-AACATTACTATATATTCTT-AT-TAA
* * *
58291444 TGTATATATA-ATGTAGTAATGTTTTT-ATTACTTTATTTTAATAT-TTTTTATTATAATAGC
61 TGTATATATACATATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATAATAGC
58291504 TTTTGTATTTCAATATTATTATTTTTTATTATCATTAACATTACTATATATTCTTATTAGATGTA
1 TTTTGTATTTCAATATTATTATTTTTTATTATCATTAACATTACTATATATTCTTATTA-ATGTA
* *
58291569 TATATACATATATTACTGTTTTTAATGACTTTATTTTAATATCATTTTATTATA
65 TATATACATATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATA
58291623 TTTACTTTTT
Statistics
Matches: 104, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
119 1 0.01
120 13 0.12
121 25 0.24
122 15 0.14
123 40 0.38
124 10 0.10
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (123 bp):
TTTTGTATTTCAATATTATTATTTTTTATTATCATTAACATTACTATATATTCTTATTAATGTAT
ATATACATATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATAATAGC
Found at i:58302127 original size:71 final size:69
Alignment explanation
Indices: 58302005--58302179 Score: 192
Period size: 71 Copynumber: 2.5 Consensus size: 69
58301995 CTTTCCAAGG
* ** *
58302005 AAAATCAACTTATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT-AGTTT
* *
58302069 TTTTTT
64 ATGTTT
** *
58302075 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAGTTTA
58302140 TGTTT
65 TGTTT
** * *
58302145 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
58302180 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
68 31 0.34
70 8 0.09
71 49 0.54
72 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAGTTTAT
GTTT
Found at i:58302555 original size:76 final size:75
Alignment explanation
Indices: 58302196--58302535 Score: 429
Period size: 76 Copynumber: 4.5 Consensus size: 75
58302186 TTTTGTTTTC
* *
58302196 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
58302261 GTTGTTAAAAA
66 GTT-TTAAAAA
* ** *
58302272 AAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
58302337 GTTTT---CA
66 GTTTTAAAAA
* * * ** * *
58302344 AAATTCAAATTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
58302409 GTTTTCAAAAAA
66 GTTTT--AAAAA
* *
58302421 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
58302485 TCTGTTTT-AAAA
63 TCTGTTTTAAAAA
* *
58302497 AAGATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
58302536 ATTACACACT
Statistics
Matches: 232, Mismatches: 23, Indels: 17
0.85 0.08 0.06
Matches are distributed among these distances:
72 64 0.28
75 2 0.01
76 103 0.44
77 35 0.15
79 28 0.12
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTAAAAA
Found at i:58303085 original size:73 final size:72
Alignment explanation
Indices: 58302842--58303174 Score: 384
Period size: 73 Copynumber: 4.5 Consensus size: 72
58302832 GTTTTTCAAA
* * ** * * * * *
58302842 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
*
58302907 TGTTTTC
66 TCTTTTC
* *
58302914 ATTATTATGTCAACTCATATTGCGAGAAATGAGTTGAGTCCTCAAGACACATTGAGGTAATTTCA
1 A--A-AAT-TCAACTCATATTGCGAGAAATGAGTTGAG-CCTCAAGACACACTGAGGTAATTTCA
58302979 A-TT-TCTTTTC
61 ATTTCTCTTTTC
** *
58302989 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
58303054 TACTTTTC
66 T-CTTTTC
* *
58303062 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
* *
58303127 TGTTGTC
66 TCTTTTC
*
58303134 AAAAAAATCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 --AAAATTCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
58303175 GTTCACATGT
Statistics
Matches: 229, Mismatches: 21, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
70 25 0.11
71 31 0.14
72 8 0.03
73 73 0.32
74 35 0.15
75 8 0.03
76 28 0.12
77 21 0.09
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (72 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
TCTTTTC
Found at i:58303145 original size:147 final size:149
Alignment explanation
Indices: 58302826--58303174 Score: 444
Period size: 147 Copynumber: 2.3 Consensus size: 149
58302816 AAGCCTTTTG
* ** * *
58302826 ATTTCTGTTTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACCG
1 ATTTCTG--TTTC-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACCG
* * *
58302891 AGGTATTTTCCATTTCTGTTTTCATTATTATGTCAACTCATATTGCGAGAAATGAGTTGAGTCCT
63 AGGTATTTTCAATTTCTCTTTTCA-TATAATGTCAACTCATATTGCGAGAAATGAGTTGAGTCCT
*
58302956 CAAGACACATTGAGGTAATTTCA
127 CAAGACACACTGAGGTAATTTCA
* ***
58302979 ATTTCT-TTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACCGAGG
*
58303041 TATTTTCAATTTCTACTTTTCA-A-AAT-TCAACTCATATTGCGAGAAATGAGTTGAG-CCTCAG
66 TATTTTCAATTTCT-CTTTTCATATAATGTCAACTCATATTGCGAGAAATGAGTTGAGTCCTCAA
*
58303102 GACACGCTGAGGTAATTTCA
130 GACACACTGAGGTAATTTCA
58303122 ATTTCTGTTGTCAAAAAAATCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 ATTTCTGTT-TCAAAAAAATCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
58303175 GTTCACATGT
Statistics
Matches: 174, Mismatches: 16, Indels: 18
0.84 0.08 0.09
Matches are distributed among these distances:
143 29 0.17
144 31 0.18
145 4 0.02
146 4 0.02
147 90 0.52
148 6 0.03
150 4 0.02
153 6 0.03
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (149 bp):
ATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACCGAGG
TATTTTCAATTTCTCTTTTCATATAATGTCAACTCATATTGCGAGAAATGAGTTGAGTCCTCAAG
ACACACTGAGGTAATTTCA
Found at i:58304305 original size:10 final size:9
Alignment explanation
Indices: 58304278--58304320 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
58304268 TACATATATT
*
58304278 AAAACATAA
1 AAAAAATAA
58304287 AAGAAAATACA
1 AA-AAAATA-A
58304298 AAAAAATAA
1 AAAAAATAA
58304307 AAAAAATATA
1 AAAAAATA-A
58304317 AAAA
1 AAAA
58304321 TATAGCGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 11 0.37
10 16 0.53
11 3 0.10
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:58304312 original size:19 final size:20
Alignment explanation
Indices: 58304278--58304320 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
58304268 TACATATATT
*
58304278 AAAACATAAAAGAAAATACA
1 AAAAAATAAAAGAAAATACA
*
58304298 AAAAAATAAAA-AAAATATA
1 AAAAAATAAAAGAAAATACA
58304317 AAAA
1 AAAA
58304321 TATAGCGCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (20 bp):
AAAAAATAAAAGAAAATACA
Found at i:58304409 original size:11 final size:11
Alignment explanation
Indices: 58304393--58304427 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
58304383 CCCTTCCCCC
58304393 CTCCCTTCTCT
1 CTCCCTTCTCT
58304404 CTCCCTTCTCT
1 CTCCCTTCTCT
*
58304415 CTTCCTTCTCT
1 CTCCCTTCTCT
58304426 CT
1 CT
58304428 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:58305446 original size:11 final size:11
Alignment explanation
Indices: 58305430--58305456 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
58305420 GTACGTATTG
58305430 TATATGTTCTA
1 TATATGTTCTA
58305441 TATATGTTCTA
1 TATATGTTCTA
58305452 TATAT
1 TATAT
58305457 TTTTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (11 bp):
TATATGTTCTA
Found at i:58307204 original size:47 final size:47
Alignment explanation
Indices: 58307141--58307486 Score: 455
Period size: 47 Copynumber: 7.3 Consensus size: 47
58307131 CCCTTCGGGA
* * * *
58307141 CTTATCACATTTATACACT-TCCACATCCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
58307188 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
58307235 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
58307282 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
58307329 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * * *
58307376 CTTATCACACATACACATGTTCACCTTTATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
58307423 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
58307472 CCTATCACATATATA
1 CTTATCACATATATA
58307487 TACTTGTACA
Statistics
Matches: 274, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 234 0.85
49 38 0.14
50 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:58311565 original size:30 final size:32
Alignment explanation
Indices: 58311497--58311565 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
58311487 TATATATTGT
* *
58311497 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
58311530 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
58311560 AATATA
1 AATATA
58311566 ATAAAAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:58311632 original size:11 final size:11
Alignment explanation
Indices: 58311569--58311642 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
58311559 AAATATAATA
58311569 AAAG-AAAAAG
1 AAAGAAAAAAG
*
58311579 AAATAGAAAAAG
1 AAAGA-AAAAAG
* *
58311591 AAAGAAAGAAC
1 AAAGAAAAAAG
*
58311602 AAATG-AAATAG
1 AAA-GAAAAAAG
* *
58311613 AAGGGAAAAAG
1 AAAGAAAAAAG
*
58311624 AAAGAAAAAGG
1 AAAGAAAAAAG
58311635 AAAGAAAA
1 AAAGAAAA
58311643 GGAGAAAGAC
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
10 4 0.08
11 33 0.69
12 11 0.23
ACGTcount: A:0.73, C:0.01, G:0.22, T:0.04
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:58311649 original size:29 final size:29
Alignment explanation
Indices: 58311591--58311649 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
58311581 ATAGAAAAAG
* * *
58311591 AAAGAAAGAACAAATGAAATAGAAGGGAA
1 AAAGAAAGAACAAAGGAAAGAAAAGGGAA
58311620 AAAGAAAGAA-AAAGGAAAGAAAAGGAGAA
1 AAAGAAAGAACAAAGGAAAGAAAAGG-GAA
58311649 A
1 A
58311650 GACCAAAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.03
Consensus pattern (29 bp):
AAAGAAAGAACAAAGGAAAGAAAAGGGAA
Found at i:58312596 original size:40 final size:39
Alignment explanation
Indices: 58312473--58312613 Score: 110
Period size: 40 Copynumber: 3.6 Consensus size: 39
58312463 CAACTTCGAG
* * *
58312473 TCGATGAGACACT-GGATGTCAACTTACTACTTCGTATTAA
1 TCGATGAGACACTAGG-TGTCAAATTATTACTTCGAATT-A
* * * *
58312513 TTCGATGAGGCACTATGTGT-GAA-T-TTACTTCGATTTA
1 -TCGATGAGACACTAGGTGTCAAATTATTACTTCGAATTA
* *
58312550 GTCGATGAGACACTGGGTGTCAAATTATTACTTTGAATTA
1 -TCGATGAGACACTAGGTGTCAAATTATTACTTCGAATTA
* *
58312590 TCCGATGAGGCACTAGGTGCCAAA
1 T-CGATGAGACACTAGGTGTCAAA
58312614 CTAGTGTGTT
Statistics
Matches: 78, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
37 17 0.22
38 11 0.14
39 3 0.04
40 31 0.40
41 15 0.19
42 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (39 bp):
TCGATGAGACACTAGGTGTCAAATTATTACTTCGAATTA
Found at i:58316133 original size:13 final size:15
Alignment explanation
Indices: 58316105--58316148 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
58316095 AAAATATGTT
58316105 TATGAAAAAATAAAA
1 TATGAAAAAATAAAA
58316120 TATG-AAAAAT-AAA
1 TATGAAAAAATAAAA
58316133 TA--AAAAAATGAAAA
1 TATGAAAAAAT-AAAA
58316147 TA
1 TA
58316149 ATAAATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.23
13 5 0.19
14 11 0.42
15 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
TATGAAAAAATAAAA
Found at i:58316426 original size:157 final size:156
Alignment explanation
Indices: 58316125--58316534 Score: 587
Period size: 157 Copynumber: 2.6 Consensus size: 156
58316115 TAAAATATGA
* * ** * *
58316125 AAAAT-AAATAAAAAAATGAAAATAATAAATTTACTGAAAGTAATAAAATCCGAAAAAAAGAAAA
1 AAAATAAAATAAAAAAACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAA
58316189 ATACGAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAAT
66 ATACGAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAAT
*
58316254 ATATTTCAAACATTATGTACTAAAAT
131 ACATTTCAAACATTATGTACTAAAAT
*
58316280 AATATAAAATAATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAA
1 AAAATAAAATAA-AAAA-ACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAA
*
58316345 AAATACGAACAAA-GGCAAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATA
64 AAATACGAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATA
58316409 ATACATTTCGAAA-ATTATGTACTAAAAT
129 ATACATTTC-AAACATTATGTACTAAAAT
* * *
58316437 AAAATAAAATAAATAGACAC-AAAGATAGTATATATTTTGAAAGTAATAAAATCCT-AAAATAAG
1 AAAATAAAATAAA-A-AAACGAAA-ATAATATATTTTTTGAAAGTAATAAAAT-CTGAAAATAAG
* * *
58316500 AGAAATACGAACAAATGGCCAAAATGAGGGTTTTT
62 AAAAATACGAACAAAGGGCCAAAATAAGGGTTTTT
58316535 ACATAAAGTT
Statistics
Matches: 230, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
155 4 0.02
156 10 0.04
157 139 0.60
158 77 0.33
ACGTcount: A:0.56, C:0.09, G:0.10, T:0.26
Consensus pattern (156 bp):
AAAATAAAATAAAAAAACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAA
ATACGAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAAT
ACATTTCAAACATTATGTACTAAAAT
Found at i:58316635 original size:16 final size:16
Alignment explanation
Indices: 58316614--58316647 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58316604 ATTTGTTCGT
* *
58316614 AATTTTCTTATTTTCA
1 AATTTTATTACTTTCA
58316630 AATTTTATTACTTTCA
1 AATTTTATTACTTTCA
58316646 AA
1 AA
58316648 AAATATACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTTTATTACTTTCA
Found at i:58319734 original size:43 final size:44
Alignment explanation
Indices: 58319670--58319760 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 44
58319660 CATTACCCAA
58319670 ACACATAAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
1 ACACATAAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
*
58319714 ACACAT-AAAAAAAATCTACTAACTATGATTGGTTTTATCAAAC
1 ACACATAAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
58319757 ACAC
1 ACAC
58319761 GTAACATAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 40 0.87
44 6 0.13
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (44 bp):
ACACATAAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
Found at i:58323244 original size:73 final size:74
Alignment explanation
Indices: 58323157--58323329 Score: 214
Period size: 73 Copynumber: 2.4 Consensus size: 74
58323147 TTTGGAAGAT
*
58323157 GTAAAAGTTTTGGGGAGAAAGTAAAAGGAATAAAA-TTTGGGGGG-TTGGGAGGAAGTAAAATTC
1 GTAAAAGTTTTGGGGAGAAAGTAAAAGGAA-AAAAGTTTGGGGGGTTTGGGAGGAAATAAAATT-
58323220 TCTAGGGG-AA
64 TCTAGGGGAAA
* *
58323230 GTAAAAGTTTTGGGGAGAAAATAAAA--AAAAAAGTTTTGGGGGGTTTGGGGGGAAATAAAATTT
1 GTAAAAGTTTTGGGGAGAAAGTAAAAGGAAAAAAG-TTTGGGGGGTTTGGGAGGAAATAAAATTT
* *
58323293 TTTGGGGAAA
65 CTAGGGGAAA
* *
58323303 GTAAAATTTTTAGGG-GAAAGTAAAAGG
1 GTAAAAGTTTTGGGGAGAAAGTAAAAGG
58323330 GTTTAAAGAG
Statistics
Matches: 86, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
70 4 0.05
71 2 0.02
72 24 0.28
73 56 0.65
ACGTcount: A:0.40, C:0.01, G:0.34, T:0.25
Consensus pattern (74 bp):
GTAAAAGTTTTGGGGAGAAAGTAAAAGGAAAAAAGTTTGGGGGGTTTGGGAGGAAATAAAATTTC
TAGGGGAAA
Found at i:58323307 original size:19 final size:19
Alignment explanation
Indices: 58323278--58323327 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
58323268 GGGGGTTTGG
*
58323278 GGGGAAA-TAAAATTTTTT
1 GGGGAAAGTAAAATTTTTA
58323296 GGGGAAAGTAAAATTTTTA
1 GGGGAAAGTAAAATTTTTA
58323315 GGGGAAAGTAAAA
1 GGGGAAAGTAAAA
58323328 GGGTTTAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 7 0.23
19 23 0.77
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (19 bp):
GGGGAAAGTAAAATTTTTA
Found at i:58327017 original size:20 final size:20
Alignment explanation
Indices: 58326994--58327061 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
58326984 CATGGTATCA
* *
58326994 ATACTTTGAGGAAGGTATTG
1 ATACTTTGAGGAAAGTATAG
58327014 ATACTTTG-GGTAAAGTATAG
1 ATACTTTGAGG-AAAGTATAG
* * *
58327034 ATACTCTGAGTAAAGTATCG
1 ATACTTTGAGGAAAGTATAG
58327054 ATACTTTG
1 ATACTTTG
58327062 TTAAGGGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.05
20 37 0.93
21 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (20 bp):
ATACTTTGAGGAAAGTATAG
Found at i:58327078 original size:40 final size:40
Alignment explanation
Indices: 58326987--58327078 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
58326977 GGTGGGACAT
* * *
58326987 GGTATCAATACTTTGAGGAAGGTATTGATACTTTGGGTAA
1 GGTATCAATACTCTGAGGAAAGTATCGATACTTTGGGTAA
* * *
58327027 AGTAT-AGATACTCTGAGTAAAGTATCGATACTTT-GTTAA
1 GGTATCA-ATACTCTGAGGAAAGTATCGATACTTTGGGTAA
58327066 GGGTATCAATACT
1 -GGTATCAATACT
58327079 TTTTTATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
39 5 0.12
40 36 0.86
41 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (40 bp):
GGTATCAATACTCTGAGGAAAGTATCGATACTTTGGGTAA
Found at i:58328316 original size:20 final size:21
Alignment explanation
Indices: 58328291--58328332 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
58328281 CCTCACGTTC
58328291 CATTTTT-CTTTTCTTTCTTT
1 CATTTTTCCTTTTCTTTCTTT
*
58328311 CATTTTTCCTTTTGTTTCTTT
1 CATTTTTCCTTTTCTTTCTTT
58328332 C
1 C
58328333 TCTTTCTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.71
Consensus pattern (21 bp):
CATTTTTCCTTTTCTTTCTTT
Found at i:58332577 original size:18 final size:17
Alignment explanation
Indices: 58332551--58332586 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
58332541 TTTGGTTATA
58332551 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
58332569 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
58332586 T
1 T
58332587 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:58336641 original size:21 final size:21
Alignment explanation
Indices: 58336600--58336642 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
58336590 AATAAAGTAG
*
58336600 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
58336621 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
58336642 A
1 A
58336643 AATTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:58338172 original size:20 final size:21
Alignment explanation
Indices: 58338149--58338192 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
58338139 TATTATTATA
*
58338149 TTTAAAATTTT-AAAATGTTT
1 TTTAAAATTTTAAAAATATTT
58338169 TTT-AAATTTTAAAAATATTT
1 TTTAAAATTTTAAAAATATTT
58338189 TTTA
1 TTTA
58338193 TTAATTACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTAAAATTTTAAAAATATTT
Found at i:58339718 original size:20 final size:19
Alignment explanation
Indices: 58339682--58339720 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
58339672 AAAATATTTT
*
58339682 TATTTTTTTATTTTTAAAA
1 TATTTTTGTATTTTTAAAA
*
58339701 TATTTTTGTGTTTATTAAAA
1 TATTTTTGTATTT-TTAAAA
58339721 ATCGGGCTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TATTTTTGTATTTTTAAAA
Found at i:58350881 original size:16 final size:17
Alignment explanation
Indices: 58350852--58350884 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
58350842 CCAAATACAA
58350852 AAAATAACTATTAAAAT
1 AAAATAACTATTAAAAT
58350869 AAAATAA-TATTAAAAT
1 AAAATAACTATTAAAAT
58350885 CTAAAAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATAACTATTAAAAT
Found at i:58351466 original size:23 final size:23
Alignment explanation
Indices: 58351439--58351484 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
58351429 AACAAATACC
58351439 CATATTTATATAAT-TAAAACATT
1 CATATTT-TATAATATAAAACATT
*
58351462 CATATTTTATACTATAAAACATT
1 CATATTTTATAATATAAAACATT
58351485 TATTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (23 bp):
CATATTTTATAATATAAAACATT
Found at i:58351541 original size:24 final size:22
Alignment explanation
Indices: 58351484--58351543 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 22
58351474 TATAAAACAT
58351484 TTATTAT-TAAATATTTATAAA
1 TTATTATATAAATATTTATAAA
*
58351505 TT-TTA-ATATATATTTATTAAA
1 TTATTATATAAATATTTA-TAAA
58351526 TTATTGATATAAATATTT
1 TTATT-ATATAAATATTT
58351544 TTCAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 12 0.38
21 8 0.25
22 2 0.06
23 1 0.03
24 9 0.28
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTATTATATAAATATTTATAAA
Found at i:58352565 original size:16 final size:15
Alignment explanation
Indices: 58352539--58352597 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 15
58352529 AGAAAGTAAA
*
58352539 AGAGCTGTAATGAAAT
1 AGAGTTGTAATG-AAT
*
58352555 AGGGTTGTAATTGAAT
1 AGAGTTGTAA-TGAAT
58352571 AGAGTTGTAATGGAAT
1 AGAGTTGTAAT-GAAT
58352587 AGAGTTGTAAT
1 AGAGTTGTAAT
58352598 CAGTAATTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 1 0.03
16 35 0.92
17 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (15 bp):
AGAGTTGTAATGAAT
Found at i:58354891 original size:52 final size:51
Alignment explanation
Indices: 58354813--58354933 Score: 172
Period size: 52 Copynumber: 2.4 Consensus size: 51
58354803 GTAATGGGCC
* *
58354813 TAAATTACTGAAATACCCTCGATGGGTAAATTACCAAAATACCCTCGAT-GG
1 TAAATTACTGAAATACCCTCAATGGGTAAATTACCAAAATACCC-CCATAGG
* * *
58354864 TTAAATTACTCAAATACCCTCAATGGGTAAATTATCGAAATACCCCCATAGG
1 -TAAATTACTGAAATACCCTCAATGGGTAAATTACCAAAATACCCCCATAGG
58354916 TAAATTACTGAAATACCC
1 TAAATTACTGAAATACCC
58354934 CGTAGGAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
51 20 0.32
52 42 0.68
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.26
Consensus pattern (51 bp):
TAAATTACTGAAATACCCTCAATGGGTAAATTACCAAAATACCCCCATAGG
Found at i:58354934 original size:25 final size:26
Alignment explanation
Indices: 58354813--58354933 Score: 156
Period size: 26 Copynumber: 4.7 Consensus size: 26
58354803 GTAATGGGCC
58354813 TAAATTACTGAAATACCCTCGATGGG
1 TAAATTACTGAAATACCCTCGATGGG
** *
58354839 TAAATTACCAAAATACCCTCGATGGT
1 TAAATTACTGAAATACCCTCGATGGG
* *
58354865 TAAATTACTCAAATACCCTCAATGGG
1 TAAATTACTGAAATACCCTCGATGGG
* *
58354891 TAAATTA-TCGAAATACCC-CCATAGG
1 TAAATTACT-GAAATACCCTCGATGGG
58354916 TAAATTACTGAAATACCC
1 TAAATTACTGAAATACCC
58354934 CGTAGGAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
25 22 0.27
26 61 0.73
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.26
Consensus pattern (26 bp):
TAAATTACTGAAATACCCTCGATGGG
Found at i:58355366 original size:28 final size:28
Alignment explanation
Indices: 58355311--58355368 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
58355301 GATACTGTAA
*
58355311 TGGGCTTAAGCCCACACTATTATTATAT
1 TGGGCTTAAGCCCACACTATTATGATAT
* * * *
58355339 TGGGCTTAGGCCCGCACTGTTCTGATAT
1 TGGGCTTAAGCCCACACTATTATGATAT
58355367 TG
1 TG
58355369 TATTGGGCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (28 bp):
TGGGCTTAAGCCCACACTATTATGATAT
Found at i:58355709 original size:23 final size:24
Alignment explanation
Indices: 58355682--58355727 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
58355672 TACAAATAAG
58355682 TTTTCACA-ACAAACAC-TATTTTT
1 TTTTCA-AGACAAACACGTATTTTT
58355705 TTTTCAAGACAAACACGTATTTT
1 TTTTCAAGACAAACACGTATTTT
58355728 CAATTTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 1 0.05
23 14 0.67
24 6 0.29
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (24 bp):
TTTTCAAGACAAACACGTATTTTT
Found at i:58358994 original size:22 final size:21
Alignment explanation
Indices: 58358944--58358994 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
58358934 CAAACATTAT
58358944 AAAAA-TAAAATAAGATAACA
1 AAAAATTAAAATAAGATAACA
*
58358964 ATAATATTAAAATGAAG-TAATCA
1 A-AAAATTAAAAT-AAGATAA-CA
58358987 AAAAATTA
1 AAAAATTA
58358995 TATAAAGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 15 0.60
23 6 0.24
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.24
Consensus pattern (21 bp):
AAAAATTAAAATAAGATAACA
Found at i:58359779 original size:17 final size:17
Alignment explanation
Indices: 58359759--58359807 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
58359749 AATTTAATTT
*
58359759 TTTTTTTTATTTTTTTA
1 TTTTTTTTATTTTTATA
58359776 TTTTTTTATATTTTTATA
1 TTTTTTT-TATTTTTATA
* *
58359794 TGTTTTCTATTTTT
1 TTTTTTTTATTTTT
58359808 GCACTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTTTTTATTTTTATA
Found at i:58359799 original size:10 final size:8
Alignment explanation
Indices: 58359756--58359807 Score: 61
Period size: 8 Copynumber: 6.2 Consensus size: 8
58359746 AAAAATTTAA
58359756 TTTT-TTT
1 TTTTATTT
58359763 TTTTATTT
1 TTTTATTT
58359771 TTTTATTT
1 TTTTATTT
58359779 TTTTATATT
1 TTTTAT-TT
58359788 TTTATATGTT
1 TTT-TAT-TT
*
58359798 TTCTATTT
1 TTTTATTT
58359806 TT
1 TT
58359808 GCACTATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
7 4 0.10
8 21 0.52
9 8 0.20
10 7 0.17
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTATTT
Found at i:58361286 original size:72 final size:72
Alignment explanation
Indices: 58361053--58361302 Score: 385
Period size: 72 Copynumber: 3.4 Consensus size: 72
58361043 GTGAACTGAT
* * * *
58361053 GCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATTACTTCAG
1 GCTCAACTCA-TTTCTCGCAATATGAGTTGA---ATTTTGAAAACAGAAATTGAAATTACCTCAA
*
58361117 CGTGTCCTGAG
62 CGTGTCTTGAG
*
58361128 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGT
1 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGT
58361193 GTCTTGAG
65 GTCTTGAG
*
58361201 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAATGTG
1 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTG
58361266 TCTTGAG
66 TCTTGAG
58361273 GCTCAACTCATTTCTCGCAATATGAGTTGA
1 GCTCAACTCATTTCTCGCAATATGAGTTGA
58361303 TTCTTTCAAA
Statistics
Matches: 165, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
72 68 0.41
73 68 0.41
74 3 0.02
75 26 0.16
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (72 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTG
TCTTGAG
Found at i:58361384 original size:88 final size:87
Alignment explanation
Indices: 58361235--58361481 Score: 291
Period size: 88 Copynumber: 2.8 Consensus size: 87
58361225 AGTTGAATTT
* ** * **
58361235 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
58361300 TGA-TTCTTTCAAAAACATAATAA
66 TGATTTCTTTCAAAAACA-AA-AA
* *
58361323 TGAAAACAGAAATAGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
58361388 TGATTTTTTTTTAAAAACAGAAA
66 TGA-TTTCTTTCAAAAACAAAAA
* **
58361411 TCAAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAA--CAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
58361475 GAGTTGA
62 GAGTTGA
58361482 AATTAAAACA
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
88 67 0.49
89 15 0.11
90 14 0.10
91 41 0.30
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (87 bp):
TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTCTTTCAAAAACAAAAA
Found at i:58361812 original size:76 final size:73
Alignment explanation
Indices: 58361703--58362060 Score: 391
Period size: 76 Copynumber: 4.8 Consensus size: 73
58361693 AGTGTGTAAT
* * *
58361703 CTGAAGCTCAACTCACCTCTCGTAAGATGAGTTGATCTTTTTAAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTTAAAAACAGAAATTGAAAATACCT
*
58361768 CAGCATGTGAAC
65 CAGC--GTG-TC
* * *
58361780 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAAAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTAAAAACAGAAATTGAAAATA
*
58361844 CCTCAACGTGTC
62 CCTCAGCGTGTC
* ** * * * *
58361856 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAATACCTC
58361920 AGCGTGTC
66 AGCGTGTC
** * *
58361928 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTAAAAACAGAAATTGAAAATAC
58361993 CTCAGCGTGTC
63 CTCAGCGTGTC
* * *
58362004 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAA
58362061 GGCTTAACTC
Statistics
Matches: 245, Mismatches: 27, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
71 3 0.01
72 81 0.33
76 96 0.39
77 35 0.14
79 29 0.12
80 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (73 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAATACCTC
AGCGTGTC
Found at i:58362012 original size:148 final size:149
Alignment explanation
Indices: 58361703--58362060 Score: 429
Period size: 148 Copynumber: 2.4 Consensus size: 149
58361693 AGTGTGTAAT
* * * * * *
58361703 CTGAAGCTCAACTCACCTCTCGTAAGATGAGTTGATCTTTTTAAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGA---TTTTGAAAACAGAAATTGAAAATACCT
58361768 CAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAAA
63 CAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAAA
58361833 AATTGAAAATACCTCAACGTGTC
127 AATTGAAAATACCTCAACGTGTC
* ** * *
58361856 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTG-ATTTTGAAAACAGAAATTGAAAATACCTCA
* ** * *
58361921 GC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTTT-AACAACAGAA
65 GCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAA-AACAAAA
* *
58361982 ATTGAAATTACCTCAGCGTGTC
128 ATTGAAAATACCTCAACGTGTC
* *
58362004 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTG-AAAACAGAAATTGAAAA
58362061 GGCTTAACTC
Statistics
Matches: 178, Mismatches: 23, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
147 11 0.06
148 77 0.43
149 33 0.19
151 29 0.16
153 27 0.15
154 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (149 bp):
CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAACAGAAATTGAAAATACCTCAG
CAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAAAAATT
GAAAATACCTCAACGTGTC
Found at i:58362208 original size:71 final size:70
Alignment explanation
Indices: 58362060--58362235 Score: 212
Period size: 71 Copynumber: 2.5 Consensus size: 70
58362050 AAAAATTAAA
* * * * * * **
58362060 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGTG
58362124 CCCCG
66 CCCCG
*
58362129 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAAAAAAAACTAAAAATACCTCAACGT
* **
58362194 GTCTTG
65 GCCCCG
58362200 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
58362236 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.07
71 60 0.65
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:58369157 original size:8 final size:8
Alignment explanation
Indices: 58369146--58369175 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
58369136 TTTTTATTTT
58369146 TTTTTATA
1 TTTTTATA
58369154 TTTTTATA
1 TTTTTATA
58369162 TGTTTTATA
1 T-TTTTATA
58369171 TTTTT
1 TTTTT
58369176 GCACTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:58370602 original size:140 final size:140
Alignment explanation
Indices: 58370421--58370700 Score: 499
Period size: 140 Copynumber: 2.0 Consensus size: 140
58370411 ACTTGAAAAC
* * *
58370421 AAACTCATAAAAAATAGAGATTTCAATATTCTCTAGTTGATGCATAAAATAGAGTGAAATTT-GG
1 AAACTCATAAAAAACAGAGATTTCAATATTCTCCAGCTGATGCATAAAATAGAGTGAAATTTCGG
58370485 ATAAAAAAAAGAAAAACATTTTACCTGAATTAACTCTGTTAACATGATGAGGCTGTCCAACTGAG
66 -TAAAAAAAAGAAAAACATTTTACCTGAATTAACTCTGTTAACATGATGAGGCTGTCCAACTGAG
58370550 CTGTCTTTAGT
130 CTGTCTTTAGT
58370561 AAACTCATAAAAAACAGAGATTTCAATATTCTCCAGCTGATGCATAAAATAGAGTGAAATTTCGG
1 AAACTCATAAAAAACAGAGATTTCAATATTCTCCAGCTGATGCATAAAATAGAGTGAAATTTCGG
* *
58370626 TAAGAAAAAGAAAAACATTTTACCTTAATTAACTCTGTTAACATGATGAGGCTGTCCAACTGAGC
66 TAAAAAAAAGAAAAACATTTTACCTGAATTAACTCTGTTAACATGATGAGGCTGTCCAACTGAGC
58370691 TGTCTTTAGT
131 TGTCTTTAGT
58370701 TGAATCCTTT
Statistics
Matches: 134, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
140 132 0.99
141 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (140 bp):
AAACTCATAAAAAACAGAGATTTCAATATTCTCCAGCTGATGCATAAAATAGAGTGAAATTTCGG
TAAAAAAAAGAAAAACATTTTACCTGAATTAACTCTGTTAACATGATGAGGCTGTCCAACTGAGC
TGTCTTTAGT
Found at i:58371494 original size:15 final size:15
Alignment explanation
Indices: 58371474--58371503 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58371464 TTAAATACCT
*
58371474 TTTTAGAATTTTATA
1 TTTTAGAATTCTATA
58371489 TTTTAGAATTCTATA
1 TTTTAGAATTCTATA
58371504 AAAAATTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTTAGAATTCTATA
Found at i:58374298 original size:13 final size:13
Alignment explanation
Indices: 58374280--58374306 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58374270 AAACCCAACA
58374280 TCTGAATTCACTG
1 TCTGAATTCACTG
58374293 TCTGAATTCACTG
1 TCTGAATTCACTG
58374306 T
1 T
58374307 ATTTTACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (13 bp):
TCTGAATTCACTG
Found at i:58377791 original size:19 final size:19
Alignment explanation
Indices: 58377767--58377805 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
58377757 TTCCAAACAG
58377767 TATGCTGCTTACCTGATAT
1 TATGCTGCTTACCTGATAT
58377786 TATGCTGCTTACCTGATAT
1 TATGCTGCTTACCTGATAT
58377805 T
1 T
58377806 TTCATACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (19 bp):
TATGCTGCTTACCTGATAT
Found at i:58380899 original size:16 final size:16
Alignment explanation
Indices: 58380878--58380917 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
58380868 TGAATTACTG
*
58380878 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCC
*
58380894 ATTACAACTTTATTCC
1 ATTACAACTCTATTCC
58380910 ATTACAAC
1 ATTACAAC
58380918 GAACCAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:58385864 original size:18 final size:18
Alignment explanation
Indices: 58385838--58385875 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
58385828 TGAATATTAC
58385838 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
* *
58385856 AATTTGAATAATTCGAAT
1 AATTCGAATAACTCGAAT
58385874 AA
1 AA
58385876 CAGATTGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:58386055 original size:9 final size:9
Alignment explanation
Indices: 58385954--58386058 Score: 50
Period size: 9 Copynumber: 11.0 Consensus size: 9
58385944 CAAAAATTAA
*
58385954 AAAAAATTC
1 AAAAAATTT
*
58385963 AAAATATTT
1 AAAAAATTT
58385972 ATAAAAATTT
1 A-AAAAATTT
*
58385982 -TAAAATTT
1 AAAAAATTT
* ***
58385990 ATATTTTTT
1 AAAAAATTT
*
58385999 AGAAAATTCT
1 AAAAAATT-T
58386009 AAAAAATTCT
1 AAAAAATT-T
*
58386019 AAAAAACATAT
1 -AAAAA-ATTT
*
58386030 AAAGAAAGTTA
1 AAA-AAA-TTT
58386041 AAAAAATTT
1 AAAAAATTT
58386050 AAAAAATTT
1 AAAAAATTT
58386059 CTAGAATAAT
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
8 7 0.10
9 28 0.38
10 24 0.33
11 12 0.16
12 2 0.03
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAAAATTT
Found at i:58394962 original size:15 final size:15
Alignment explanation
Indices: 58394942--58394970 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58394932 AACATCACTT
58394942 ATAGCAACTTTATTC
1 ATAGCAACTTTATTC
58394957 ATAGCAACTTTATT
1 ATAGCAACTTTATT
58394971 TAACTTGAAA
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:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (15 bp):
ATAGCAACTTTATTC
Found at i:58395901 original size:63 final size:63
Alignment explanation
Indices: 58395830--58395966 Score: 168
Period size: 63 Copynumber: 2.2 Consensus size: 63
58395820 ATGGGGCCCT
* * * * ** *
58395830 CCACCATTCGGGCCAA-GAGTTTGTGGCTTATACTCATGGCTTTCAACATTCGGCCTGGGCCAA
1 CCACCATTCGGCCCAATG-GTTTGTGGCCTATACGCATGACACTCAACATTCAGCCTGGGCCAA
* *
58395893 CCACCATTCGGCCCAATGGTTTGTGGCCTATACGCATGACACTCAACATTCAGCTTGGGCCCA
1 CCACCATTCGGCCCAATGGTTTGTGGCCTATACGCATGACACTCAACATTCAGCCTGGGCCAA
*
58395956 CCACCAATCGG
1 CCACCATTCGG
58395967 TCCTGCATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 62 0.98
64 1 0.02
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (63 bp):
CCACCATTCGGCCCAATGGTTTGTGGCCTATACGCATGACACTCAACATTCAGCCTGGGCCAA
Found at i:58397592 original size:19 final size:19
Alignment explanation
Indices: 58397554--58397591 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
58397544 TTCTCCATTT
*
58397554 TTAATGAAAATATTAAAAA
1 TTAATGAAAATAATAAAAA
58397573 TTAATGAAAAATAATAAAA
1 TTAATG-AAAATAATAAAA
58397592 TAATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
TTAATGAAAATAATAAAAA
Found at i:58400632 original size:4 final size:4
Alignment explanation
Indices: 58400623--58400649 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
58400613 TAGGAATGGT
58400623 ATGC ATGC ATGC ATGC ATGC ATGC ATG
1 ATGC ATGC ATGC ATGC ATGC ATGC ATG
58400650 TATATTGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (4 bp):
ATGC
Found at i:58408166 original size:86 final size:84
Alignment explanation
Indices: 58408033--58408236 Score: 218
Period size: 86 Copynumber: 2.4 Consensus size: 84
58408023 TGTGATTTTG
* ** * * *
58408033 TGTAAGACCACATTTGGGATGTTGGCATC-AATTTGAGATTTCGTGTAAGACCAC-GTTTGGGAC
1 TGTAAGACCACATCTGGGACATTGGCATCGTATAT--GATTTCGTGTAAGACC-CTGTCTGGGAC
*
58408096 -GTTGGCATCGAT-TTGAGATTTACG
63 AG-TGGCATCGATATT--GA-TTACA
**
58408120 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTCGTGTAAGACCCTGTCTGGGACAGT
1 TGTAAGACCACATCTGGGACATTGGCATCGTATATGATTTCGTGTAAGACCCTGTCTGGGACAGT
58408185 GGCATCGATAGTTGATTACA
66 GGCATCGATA-TTGATTACA
*
58408205 TGTAAGACCACATCTGGGACGTTGGCATCGTA
1 TGTAAGACCACATCTGGGACATTGGCATCGTA
58408237 CAAGCTTTTC
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
85 34 0.34
86 36 0.36
87 25 0.25
88 5 0.05
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (84 bp):
TGTAAGACCACATCTGGGACATTGGCATCGTATATGATTTCGTGTAAGACCCTGTCTGGGACAGT
GGCATCGATATTGATTACA
Found at i:58408234 original size:43 final size:43
Alignment explanation
Indices: 58408032--58408234 Score: 195
Period size: 43 Copynumber: 4.7 Consensus size: 43
58408022 TTGTGATTTT
* * * * *
58408032 GTGTAAGACCACATTTGGGATGTTGGCATCAAT-TTGAGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATT-AGATTAC
*
58408075 GTGTAAGACCACGTTTGGGACGTTGGCATCGAT-TTGAGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATT-AGA-TTAC
* * *
58408119 GTGTAAGACCATGTCTGGGACATTGGCATCG-TA-TATGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTA-GATTAC
58408161 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATAGTT-GATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATA-TTAGATTAC
* *
58408204 ATGTAAGACCACATCTGGGACGTTGGCATCG
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG
58408235 TACAAGCTTT
Statistics
Matches: 137, Mismatches: 13, Indels: 20
0.81 0.08 0.12
Matches are distributed among these distances:
42 32 0.23
43 72 0.53
44 32 0.23
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTAGATTAC
Found at i:58408247 original size:86 final size:85
Alignment explanation
Indices: 58408068--58408240 Score: 210
Period size: 85 Copynumber: 2.0 Consensus size: 85
58408058 CATCAATTTG
* * **
58408068 AGATTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGATTTGAGATTTACGTGTAAGACCATGT
1 AGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-AGATTTACATGTAAGACCACAT
*
58408133 CTGGGACATTGGCATCGTATA
65 CTGGGACATTGGCATCGTACA
*
58408154 TGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATAGTT-GA-TTACATGTAAGACCA
1 AGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT--TTAGATTTACATGTAAGACCA
*
58408215 CATCTGGGACGTTGGCATCGTACA
62 CATCTGGGACATTGGCATCGTACA
58408239 AG
1 AG
58408241 CTTTTCGAGC
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
85 36 0.48
86 36 0.48
87 1 0.01
88 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (85 bp):
AGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAGATTTACATGTAAGACCACATC
TGGGACATTGGCATCGTACA
Found at i:58412492 original size:16 final size:17
Alignment explanation
Indices: 58412471--58412507 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
58412461 ATTTAATTAG
58412471 AAAATACA-TATTTTTA
1 AAAATACATTATTTTTA
*
58412487 AAAATATATTATTTTTA
1 AAAATACATTATTTTTA
58412504 AAAA
1 AAAA
58412508 ATATATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATACATTATTTTTA
Found at i:58412501 original size:17 final size:18
Alignment explanation
Indices: 58412479--58412514 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
58412469 AGAAAATACA
58412479 TATTTTT-AAAAATATAT
1 TATTTTTAAAAAATATAT
58412496 TATTTTTAAAAAATATAT
1 TATTTTTAAAAAATATAT
58412514 T
1 T
58412515 CAATCCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTTTTAAAAAATATAT
Found at i:58415800 original size:3 final size:3
Alignment explanation
Indices: 58415792--58415835 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
58415782 GGAGAAACAG
*
58415792 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CCT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
58415836 ACCGCAGCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:58418799 original size:29 final size:29
Alignment explanation
Indices: 58418756--58418811 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
58418746 CTACCAATTA
58418756 GCTAGGTTGGCTTTGTTTTAAATTGGGAT
1 GCTAGGTTGGCTTTGTTTTAAATTGGGAT
* *
58418785 GCTAGGTTGGGTTTGTTTTAGATTGGG
1 GCTAGGTTGGCTTTGTTTTAAATTGGG
58418812 CGAATATGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.05, G:0.36, T:0.45
Consensus pattern (29 bp):
GCTAGGTTGGCTTTGTTTTAAATTGGGAT
Found at i:58425968 original size:24 final size:23
Alignment explanation
Indices: 58425924--58425968 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
58425914 ATTTTTACAC
*
58425924 TTTAATAGTTTGTTTTATGTGAT
1 TTTAATAGTTTGTATTATGTGAT
58425947 TTTAATAAGTTTGATATT-TGTG
1 TTTAAT-AGTTTG-TATTATGTG
58425969 TCACGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 10 0.53
25 3 0.16
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (23 bp):
TTTAATAGTTTGTATTATGTGAT
Found at i:58426042 original size:20 final size:19
Alignment explanation
Indices: 58426000--58426042 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
58425990 CGTTATCATA
*
58426000 TATTTTAATTATTTTACAT
1 TATTTTAATTATTTTAAAT
58426019 TATTTT-ATTATATCTTAAAT
1 TATTTTAATTAT-T-TTAAAT
58426039 TATT
1 TATT
58426043 CTGAAGTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 9 0.43
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTTTAATTATTTTAAAT
Found at i:58433185 original size:21 final size:19
Alignment explanation
Indices: 58433156--58433196 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
58433146 AATTTGACTA
58433156 TTTTATATTTAGTGATTTAAT
1 TTTTATATTTA--GATTTAAT
*
58433177 TTTTTTATTTAGATTTAAT
1 TTTTATATTTAGATTTAAT
58433196 T
1 T
58433197 AATTGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
21 10 0.53
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (19 bp):
TTTTATATTTAGATTTAAT
Found at i:58436842 original size:22 final size:20
Alignment explanation
Indices: 58436795--58436843 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
58436785 TTTATTATTT
* *
58436795 TATTTTTCATTATTTTACTA
1 TATTTTACATTATATTACTA
58436815 TCATTTTACTATTATATTACTA
1 T-ATTTTAC-ATTATATTACTA
58436837 CTATTTT
1 -TATTTT
58436844 GTTGTTATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.04
21 6 0.25
22 16 0.67
23 1 0.04
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTTACATTATATTACTA
Found at i:58444024 original size:24 final size:26
Alignment explanation
Indices: 58443966--58444024 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
58443956 ATTCGAAAAA
*
58443966 GACTTTGGTTAAATGCATTAGCTTAT
1 GACTTTGGTTAAATGCATTAGCTTAG
*
58443992 GACTGTGGTTAAATG-A-TATG-TTAG
1 GACTTTGGTTAAATGCATTA-GCTTAG
58444016 GACTTTGGT
1 GACTTTGGT
58444025 GTCACGCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 13 0.45
25 2 0.07
26 14 0.48
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.41
Consensus pattern (26 bp):
GACTTTGGTTAAATGCATTAGCTTAG
Found at i:58447795 original size:51 final size:49
Alignment explanation
Indices: 58447736--58447910 Score: 179
Period size: 51 Copynumber: 3.4 Consensus size: 49
58447726 GTCATGTGTC
* * *
58447736 TAGTACTATGGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCATATG
1 TAGTACTAT-GTGCAGGCTACTACGTGTACTGG-ATGATAGGTCACATGTG
* * * * * * * *
58447787 TAGTACTATGTGCAGACCACTATGCGTACTGGATAGCTTCGATCACGTGTG
1 TAGTACTATGTGCAGGCTACTACGTGTACTGGAT-G-ATAGGTCACATGTG
* *
58447838 TAGTACTATGTGCAGGCTACTACGTGTATTGGATGGTAATGGTCACATGTG
1 TAGTACTATGTGCAGGCTACTACGTGTACTGGATGAT-A-GGTCACATGTG
58447889 TAGTACTATGTGCAGGCTACTA
1 TAGTACTATGTGCAGGCTACTA
58447911 TGTGAACCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
49 3 0.03
50 20 0.20
51 77 0.77
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TAGTACTATGTGCAGGCTACTACGTGTACTGGATGATAGGTCACATGTG
Found at i:58447914 original size:26 final size:26
Alignment explanation
Indices: 58447834--58447914 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
58447824 TTCGATCACG
58447834 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *** *
58447860 CGTGTA-TTGGATG-GTAATGG-TCAC-A
1 TGTGTAGTACTATGTG-CA-GGCT-ACTA
58447885 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
58447911 TGTG
1 TGTG
58447915 AACCAAACAT
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.42
26 20 0.53
27 1 0.03
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:58447972 original size:45 final size:45
Alignment explanation
Indices: 58447916--58448008 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
58447906 TACTATGTGA
* * *
58447916 ACCAAACATCATTGATTAGTAACGTGGTTGCTATGTGCTGATTCC
1 ACCAAACATCATTGATTAATAACGTGGTTGCTATGTGCTAAATCC
* *
58447961 ACCAGACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCC
1 ACCAAACATCATTGATTAATAACGTGGTTGCTATGTGCTAAATCC
58448006 ACC
1 ACC
58448009 GAGTATCTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (45 bp):
ACCAAACATCATTGATTAATAACGTGGTTGCTATGTGCTAAATCC
Found at i:58451114 original size:4 final size:4
Alignment explanation
Indices: 58451105--58451137 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
58451095 TTGCTTGTAC
58451105 ATAA ATAA ATAAA ATAA A-AA ATAA ATAA ATAA A
1 ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA A
58451138 GGCTCAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 20 0.74
5 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:58455181 original size:11 final size:11
Alignment explanation
Indices: 58455165--58455257 Score: 86
Period size: 11 Copynumber: 8.8 Consensus size: 11
58455155 AAATAAATCA
58455165 TTCCTCTCAAT
1 TTCCTCTCAAT
58455176 TTCCTCTCAAT
1 TTCCTCTCAAT
*
58455187 TTGCTCTCAAT
1 TTCCTCTCAAT
58455198 TTCCTCTCAAT
1 TTCCTCTCAAT
**
58455209 TTTATCTCAA-
1 TTCCTCTCAAT
*
58455219 ATCC-CT--AT
1 TTCCTCTCAAT
**
58455227 TTAATCTCAAT
1 TTCCTCTCAAT
* *
58455238 TTGCTCTGAAT
1 TTCCTCTCAAT
58455249 TTCCTCTCA
1 TTCCTCTCA
58455258 GATCCCTATT
Statistics
Matches: 63, Mismatches: 15, Indels: 8
0.73 0.17 0.09
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 4 0.06
10 1 0.02
11 56 0.89
ACGTcount: A:0.22, C:0.30, G:0.03, T:0.45
Consensus pattern (11 bp):
TTCCTCTCAAT
Found at i:58455236 original size:40 final size:40
Alignment explanation
Indices: 58455191--58455270 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
58455181 CTCAATTTGC
*
58455191 TCTCAATTTCCTCTCAATTTTATCTCAAATCCCTATTTAA
1 TCTCAATTTCCTCTCAATTTCATCTCAAATCCCTATTTAA
* * * *
58455231 TCTCAATTTGCTCTGAATTTCCTCTCAGATCCCTATTTAA
1 TCTCAATTTCCTCTCAATTTCATCTCAAATCCCTATTTAA
58455271 AAGAGCTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.04, T:0.44
Consensus pattern (40 bp):
TCTCAATTTCCTCTCAATTTCATCTCAAATCCCTATTTAA
Found at i:58460347 original size:26 final size:25
Alignment explanation
Indices: 58460292--58460349 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
58460282 TAATATCTTA
* * *
58460292 AATATATTAAAATAATATTTTATTT
1 AATAAATTAAAAAAATATTTAATTT
58460317 AATAAATTAAAAAAATAATTTAAATTT
1 AATAAATTAAAAAAAT-ATTT-AATTT
58460344 -ATAAAT
1 AATAAAT
58460350 AAATTAATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 14 0.50
26 10 0.36
27 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AATAAATTAAAAAAATATTTAATTT
Found at i:58461570 original size:13 final size:13
Alignment explanation
Indices: 58461552--58461578 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58461542 CAATAAAGTC
58461552 CAATTACAATGGG
1 CAATTACAATGGG
58461565 CAATTACAATGGG
1 CAATTACAATGGG
58461578 C
1 C
58461579 CAAATTCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (13 bp):
CAATTACAATGGG
Found at i:58464243 original size:15 final size:15
Alignment explanation
Indices: 58464200--58464248 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
58464190 AAAAAATATC
*
58464200 ATAAATAACTAAAAT
1 ATAAATGACTAAAAT
** *
58464215 AT-AATGTTTTAAAT
1 ATAAATGACTAAAAT
58464229 ATAAATGACTAAAAT
1 ATAAATGACTAAAAT
58464244 ATAAA
1 ATAAA
58464249 CTAAACTAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (15 bp):
ATAAATGACTAAAAT
Found at i:58469153 original size:19 final size:21
Alignment explanation
Indices: 58469120--58469159 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
58469110 TCAACCTCCA
*
58469120 AAACTTTTTATTTTTC-CCCT
1 AAACTTTTTACTTTTCACCCT
58469140 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTACTTTTCACCCT
58469160 TTACCCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.50
Consensus pattern (21 bp):
AAACTTTTTACTTTTCACCCT
Found at i:58472861 original size:38 final size:38
Alignment explanation
Indices: 58472810--58472886 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
58472800 GCATGGTGGG
* *
58472810 GGAGTGTTGGAGTGATTTTCA-GAGGAAAATATGGGATT
1 GGAGTGTTGGAGTGACTTT-AGGAGGAAAATATGAGATT
*
58472848 GGAGTGTAT-GAGTGACTTTAGGAGGAGAATATGAGATT
1 GGAGTGT-TGGAGTGACTTTAGGAGGAAAATATGAGATT
58472886 G
1 G
58472887 TGGAGTTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 1 0.03
38 32 0.94
39 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.38, T:0.30
Consensus pattern (38 bp):
GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGAGATT
Found at i:58478897 original size:39 final size:37
Alignment explanation
Indices: 58478831--58478922 Score: 96
Period size: 39 Copynumber: 2.4 Consensus size: 37
58478821 CCAGTATGGA
* *
58478831 ACCCAGTGCCTCATCAGATAGTTCGAAGCAATAGTTGAC
1 ACCCAGTGCCTCATCAGAAAGTCCGAAG-AA-AGTTGAC
* **
58478870 ACCCAGTGTCTCATCAGCAAAG-CCGAAGAAAGTTGGT
1 ACCCAGTGCCTCATCAG-AAAGTCCGAAGAAAGTTGAC
*
58478907 ACCCAGTACCTCATCA
1 ACCCAGTGCCTCATCA
58478923 AATCTATCCG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
37 19 0.42
38 2 0.04
39 21 0.47
40 3 0.07
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (37 bp):
ACCCAGTGCCTCATCAGAAAGTCCGAAGAAAGTTGAC
Found at i:58482621 original size:38 final size:38
Alignment explanation
Indices: 58482579--58482653 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
58482569 ATGGTGGGGG
* * *
58482579 AGTGTTGGAGTGATTTTAGGAGGAAAATATGAGATTGA
1 AGTGTTAGAGTGACTTGAGGAGGAAAATATGAGATTGA
*
58482617 AGTGTTAGAGTGACTTGAGGAGGAAAATATGGGATTG
1 AGTGTTAGAGTGACTTGAGGAGGAAAATATGAGATTG
58482654 TGGAGTCATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.33, C:0.01, G:0.36, T:0.29
Consensus pattern (38 bp):
AGTGTTAGAGTGACTTGAGGAGGAAAATATGAGATTGA
Found at i:58483624 original size:11 final size:11
Alignment explanation
Indices: 58483605--58483648 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
58483595 AACATCGAAC
*
58483605 TTTTTGGGTAA
1 TTTTCGGGTAA
58483616 TTTTCGGGTAA
1 TTTTCGGGTAA
58483627 --TTCGGGTAA
1 TTTTCGGGTAA
58483636 TTTTCGGGTAA
1 TTTTCGGGTAA
58483647 TT
1 TT
58483649 CGGTTAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 9 0.30
11 21 0.70
ACGTcount: A:0.18, C:0.07, G:0.27, T:0.48
Consensus pattern (11 bp):
TTTTCGGGTAA
Found at i:58483632 original size:9 final size:9
Alignment explanation
Indices: 58483618--58483692 Score: 98
Period size: 9 Copynumber: 8.2 Consensus size: 9
58483608 TTGGGTAATT
58483618 TTCGGGTAA
1 TTCGGGTAA
58483627 TTCGGGTAA
1 TTCGGGTAA
58483636 TTTTCGGGTAA
1 --TTCGGGTAA
*
58483647 TTCGGTTAA
1 TTCGGGTAA
*
58483656 TTCGGTTAA
1 TTCGGGTAA
*
58483665 TTCGGTTAA
1 TTCGGGTAA
58483674 TT-GGGTAA
1 TTCGGGTAA
58483682 TTCGGGTAA
1 TTCGGGTAA
58483691 TT
1 TT
58483693 TTTAACCAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
8 7 0.11
9 45 0.74
11 9 0.15
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.41
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:58483635 original size:20 final size:20
Alignment explanation
Indices: 58483610--58483694 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
58483600 CGAACTTTTT
58483610 GGGTAATTTTCGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
58483630 GGGTAATTTTCGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
* *
58483650 GGTTAA--TTCGGTTAATTC
1 GGGTAATTTTCGGGTAATTC
*
58483668 GGTTAA--TT-GGGTAATTC
1 GGGTAATTTTCGGGTAATTC
58483685 GGGTAATTTT
1 GGGTAATTTT
58483695 TAACCAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
17 13 0.22
18 19 0.32
19 2 0.03
20 25 0.42
ACGTcount: A:0.21, C:0.08, G:0.28, T:0.42
Consensus pattern (20 bp):
GGGTAATTTTCGGGTAATTC
Found at i:58493220 original size:22 final size:22
Alignment explanation
Indices: 58493192--58493246 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
58493182 GTCTAAACAG
58493192 AGAAGAAGATTGCAGAGCAAAC
1 AGAAGAAGATTGCAGAGCAAAC
58493214 AGAAGAAGATTGCAGAGCAAAC
1 AGAAGAAGATTGCAGAGCAAAC
* *
58493236 AAAAGCAGATT
1 AGAAGAAGATT
58493247 CAGCATTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.51, C:0.13, G:0.25, T:0.11
Consensus pattern (22 bp):
AGAAGAAGATTGCAGAGCAAAC
Found at i:58497354 original size:19 final size:19
Alignment explanation
Indices: 58497330--58497368 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
58497320 GTTTAAAAAT
58497330 AATATAT-AATAAATAATTA
1 AATATATGAATAAA-AATTA
*
58497349 AATATATGATTAAAAATTA
1 AATATATGAATAAAAATTA
58497368 A
1 A
58497369 TTAATTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AATATATGAATAAAAATTA
Found at i:58497408 original size:43 final size:40
Alignment explanation
Indices: 58497325--58497426 Score: 107
Period size: 43 Copynumber: 2.5 Consensus size: 40
58497315 TGTATGTTTA
*
58497325 AAAATAATATATAATAAATAATTAAATATATGATTAAAAAT
1 AAAATAAT-TATAATAAATAATAAAATATATGATTAAAAAT
* * *
58497366 TAATTAATTATAAT-AATATATAAAATATGTATGATATTAAAAT
1 AAAATAATTATAATAAATA-ATAAAATA--TATGAT-TAAAAAT
*
58497409 AAAATAATTAAAATAAAT
1 AAAATAATTATAATAAAT
58497427 TAGGAGTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
39 4 0.08
40 13 0.27
41 6 0.12
42 6 0.12
43 17 0.35
44 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (40 bp):
AAAATAATTATAATAAATAATAAAATATATGATTAAAAAT
Found at i:58498011 original size:11 final size:11
Alignment explanation
Indices: 58497995--58498184 Score: 65
Period size: 11 Copynumber: 18.2 Consensus size: 11
58497985 TTTTTATTTT
58497995 AAAAATTTTAA
1 AAAAATTTTAA
*
58498006 AAAAA-TTAAA
1 AAAAATTTTAA
*
58498016 AAAAGTATTTTTA
1 AAAA--ATTTTAA
* *
58498029 AAATATTTTTA
1 AAAAATTTTAA
*
58498040 AAATATTTT--
1 AAAAATTTTAA
58498049 -AAAA--TTAA
1 AAAAATTTTAA
*
58498057 AAAAATTTAAA
1 AAAAATTTTAA
58498068 AAAAGTATTTTAA
1 AAAA--ATTTTAA
*
58498081 AAATATTTT--
1 AAAAATTTTAA
58498090 -AAAA--TTAA
1 AAAAATTTTAA
*
58498098 AAAAA-TTAAA
1 AAAAATTTTAA
58498108 AAAAGTATTTTAA
1 AAAA--ATTTTAA
*
58498121 AAATATTTT--
1 AAAAATTTTAA
58498130 -AAAA-TTTAA
1 AAAAATTTTAA
*
58498139 AAAAA-ATTAA
1 AAAAATTTTAA
* *
58498149 AAAAGTATGTAA
1 AAAAAT-TTTAA
58498161 AAAATATTTT-A
1 AAAA-ATTTTAA
*
58498172 AAATATTTTAA
1 AAAAATTTTAA
58498183 AA
1 AA
58498185 TTAAAAAAAT
Statistics
Matches: 135, Mismatches: 20, Indels: 48
0.67 0.10 0.24
Matches are distributed among these distances:
6 4 0.03
7 3 0.02
8 9 0.07
9 8 0.06
10 32 0.24
11 45 0.33
12 11 0.08
13 23 0.17
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATTTTAA
Found at i:58498079 original size:40 final size:40
Alignment explanation
Indices: 58498028--58498193 Score: 228
Period size: 41 Copynumber: 4.1 Consensus size: 40
58498018 AAGTATTTTT
*
58498028 AAAA-TATTTTTAAAATATTTTAAAATTAAAAAAATTTAAA
1 AAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA-TTAAA
58498068 AAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAA
1 AAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAA
58498108 AAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAAATT-AA
1 AAAAGTATTTTAAAAATATTTTAAAA-TT-AAAAAAATTAAA
* * ***
58498149 AAAAGTATGTAAAAAATATTTTAAAATATTTTAAAATTAAA
1 AAAAGTATTTTAAAAATATTTTAAAAT-TAAAAAAATTAAA
58498190 AAAA
1 AAAA
58498194 TAAATATAAT
Statistics
Matches: 115, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
40 42 0.37
41 64 0.56
42 9 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (40 bp):
AAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAA
Found at i:58498082 original size:12 final size:11
Alignment explanation
Indices: 58498053--58498184 Score: 68
Period size: 11 Copynumber: 12.5 Consensus size: 11
58498043 TATTTTAAAA
*
58498053 TTAAAAAAATT
1 TTAAAAATATT
*
58498064 TAAAAAAAGTATT
1 T-TAAAAA-TATT
58498077 TTAAAAATATT
1 TTAAAAATATT
58498088 TT--AAA-A--
1 TTAAAAATATT
*
58498094 TTAAAAAAATT
1 TTAAAAATATT
**
58498105 AAAAAAAGTATT
1 TTAAAAA-TATT
58498117 TTAAAAATATT
1 TTAAAAATATT
58498128 TT--AAA-A-T
1 TTAAAAATATT
* *
58498135 TTAAAAAAAAT
1 TTAAAAATATT
* *
58498146 TAAAAAAGTATG
1 TTAAAAA-TATT
*
58498158 TAAAAAATATT
1 TTAAAAATATT
58498169 TT-AAAATATT
1 TTAAAAATATT
58498179 TTAAAA
1 TTAAAA
58498185 TTAAAAAAAT
Statistics
Matches: 93, Mismatches: 14, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
6 2 0.02
7 3 0.03
8 5 0.05
9 10 0.11
10 11 0.12
11 32 0.34
12 26 0.28
13 4 0.04
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:58498127 original size:81 final size:81
Alignment explanation
Indices: 58498028--58498195 Score: 241
Period size: 81 Copynumber: 2.1 Consensus size: 81
58498018 AAGTATTTTT
* * * *
58498028 AAAATATTTTTAAAATATTTTAAAA-TTAAAAAAATTTAAAAAAAGTATTTTAAAAATATTTTAA
1 AAAATATTTTAAAAATATTTTAAAATTTAAAAAAAATT-AAAAAAGTATGTAAAAAATATTTTAA
58498092 AAT-TAAAAAAATTAAA
65 AATATAAAAAAATTAAA
58498108 AAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAA
1 AAAA-TATTTTAAAAATATTTTAAAATTTAAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAA
***
58498173 AATATTTTAAAATTAAA
65 AATATAAAAAAATTAAA
58498190 AAAATA
1 AAAATA
58498196 AATATAATTA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
80 4 0.05
81 49 0.63
82 25 0.32
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (81 bp):
AAAATATTTTAAAAATATTTTAAAATTTAAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAAA
ATATAAAAAAATTAAA
Found at i:58498185 original size:51 final size:50
Alignment explanation
Indices: 58498090--58498193 Score: 151
Period size: 51 Copynumber: 2.1 Consensus size: 50
58498080 AAAATATTTT
58498090 AAAATTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAAAA
1 AAAATTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TTAAAA
58498141 AAAATTAAAAAAGTATGT-AAAAAA-TATTTT-AAAATATTTTAAAATTAAAA
1 AAAATTAAAAAA--AT-TAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
58498191 AAA
1 AAA
58498194 TAAATATAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
50 9 0.18
51 26 0.52
52 6 0.12
53 8 0.16
54 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (50 bp):
AAAATTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
Found at i:58507182 original size:22 final size:23
Alignment explanation
Indices: 58507148--58507205 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
58507138 TGGTCTTCAT
58507148 ATTTTTTCGTTTTAAGCT-ATTTA
1 ATTTTTTC-TTTTAAGCTCATTTA
* *
58507171 ATTTTTTCTTTTATGTTCATTTA
1 ATTTTTTCTTTTAAGCTCATTTA
*
58507194 ACTTTTT-TTTTA
1 ATTTTTTCTTTTA
58507206 TTATTTTCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (23 bp):
ATTTTTTCTTTTAAGCTCATTTA
Found at i:58511787 original size:11 final size:11
Alignment explanation
Indices: 58511771--58511816 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
58511761 GCGGTGCCGA
58511771 AAAAAGAGAAG
1 AAAAAGAGAAG
58511782 AAAAAGAG-AG
1 AAAAAGAGAAG
58511792 AAAGAAGA-AAG
1 AAA-AAGAGAAG
58511803 --AAAGAGAAG
1 AAAAAGAGAAG
58511812 AAAAA
1 AAAAA
58511817 AATAGAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
8 4 0.13
9 4 0.13
10 5 0.17
11 17 0.57
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAAAGAGAAG
Found at i:58511791 original size:13 final size:13
Alignment explanation
Indices: 58511769--58511816 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 13
58511759 GGGCGGTGCC
58511769 GAAAAA-AGAGAA
1 GAAAAAGAGAGAA
58511781 GAAAAAGAGAGAAA
1 GAAAAAGAGAG-AA
58511795 GAAGAAAGAAAGAGAA
1 GAA-AAAG--AGAGAA
58511811 GAAAAA
1 GAAAAA
58511817 AATAGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.19
13 4 0.13
14 5 0.16
15 7 0.23
16 5 0.16
17 4 0.13
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
GAAAAAGAGAGAA
Found at i:58511823 original size:13 final size:13
Alignment explanation
Indices: 58511770--58511827 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
58511760 GGCGGTGCCG
58511770 AAAAAAGAGAAGA
1 AAAAAAGAGAAGA
58511783 AAAAGAGAGAAAGAAGA
1 AAAA-A-AG--AGAAGA
*
58511800 AAGAAAGAGAAGA
1 AAAAAAGAGAAGA
*
58511813 AAAAAATAGAA-A
1 AAAAAAGAGAAGA
58511825 AAA
1 AAA
58511828 TAAGGTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 4 0.11
13 19 0.50
14 1 0.03
15 4 0.11
16 1 0.03
17 9 0.24
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (13 bp):
AAAAAAGAGAAGA
Found at i:58512141 original size:40 final size:38
Alignment explanation
Indices: 58512074--58512171 Score: 121
Period size: 40 Copynumber: 2.6 Consensus size: 38
58512064 TTTTACATTA
**
58512074 TATTATTGTTAG-T-TATTATTTTTAGTAAAACCCTAAT
1 TATTATTGTTAGTTATATTATTTTTAGTAAAAAACT-AT
58512111 TATTATTGTTAGTTAGTATTATTTTTAGTAAAAAACTAT
1 TATTATTGTTAGTTA-TATTATTTTTAGTAAAAAACTAT
*
58512150 TATTATTATTA-TTATTATTATT
1 TATTATTGTTAGTTA-TATTATT
58512172 ATTATTGTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
37 12 0.22
38 11 0.20
39 12 0.22
40 19 0.35
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (38 bp):
TATTATTGTTAGTTATATTATTTTTAGTAAAAAACTAT
Found at i:58512155 original size:3 final size:3
Alignment explanation
Indices: 58512147--58512177 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
58512137 AGTAAAAAAC
58512147 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
58512178 GTGTTAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:58515083 original size:8 final size:8
Alignment explanation
Indices: 58515055--58515096 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
58515045 GAGCTTAGGC
*
58515055 TGTAAAGT
1 TGTAATGT
*
58515063 TGTTATG-
1 TGTAATGT
58515070 TGTAATGT
1 TGTAATGT
58515078 TGTAATGT
1 TGTAATGT
58515086 TGTAATGT
1 TGTAATGT
58515094 TGT
1 TGT
58515097 TGTAACACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (8 bp):
TGTAATGT
Found at i:58517670 original size:16 final size:15
Alignment explanation
Indices: 58517649--58517678 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
58517639 TAAAAAAATA
58517649 TATTATTTTCGTATTT
1 TATTATTTT-GTATTT
58517665 TATTATTTTGTATT
1 TATTATTTTGTATT
58517679 ATTTTAATAC
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:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (15 bp):
TATTATTTTGTATTT
Found at i:58517708 original size:160 final size:159
Alignment explanation
Indices: 58517414--58517827 Score: 618
Period size: 160 Copynumber: 2.6 Consensus size: 159
58517404 TCAAAACAAT
* *
58517414 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTC-TTTTTTCCTGGATTTTGTTAC
1 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTTCC-GAATTTTATTAC
* * *
58517478 TTTCAAAAAATATACTATTTTGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTAAAAT
65 TATAAAAAAATATACTATTTTGTATTTTATTATTTTATATTATTTTAATACATAATGTTTAAAAT
*
58517543 GTATTAATTTAGTGTG-TTTTTTATATAAA
130 GTATTAATTTAGTGTGAGTTTTTATATAAA
58517572 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTTTCCGAATTTTATTAC
1 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTC-TTTTTTTCCGAATTTTATTAC
* * *
58517637 TATAAAAAAATATATTATTTTCGTATTTTATTATTTTGTATTATTTTAATACATAATGTTTGAAA
65 TATAAAAAAATATACTATTTT-GTATTTTATTATTTTATATTATTTTAATACATAATGTTTAAAA
*
58517702 TGTATTATTTTAGTGTGAGTTTTTATATAAA
129 TGTATTAATTTAGTGTGAGTTTTTATATAAA
* *
58517733 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTAATTTTCTTATTTT-CGAATTTTATTACT
1 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTTCCGAATTTTATTACT
* * ** *
58517797 TTCAGTAAATATACTATTTTTGTTTTTTATT
66 ATAAAAAAATATACTA-TTTTGTATTTTATT
58517828 TCTTTTCGTA
Statistics
Matches: 233, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
158 43 0.18
159 62 0.27
160 74 0.32
161 54 0.23
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (159 bp):
TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTTCCGAATTTTATTACT
ATAAAAAAATATACTATTTTGTATTTTATTATTTTATATTATTTTAATACATAATGTTTAAAATG
TATTAATTTAGTGTGAGTTTTTATATAAA
Found at i:58517876 original size:16 final size:16
Alignment explanation
Indices: 58517830--58517879 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
58517820 TTTTTATTTC
58517830 TTTTC-GTATTTTATT
1 TTTTCAGTATTTTATT
***
58517845 TTTTCA-TAAACATATT
1 TTTTCAGT-ATTTTATT
58517861 TTTTCAGTATTTTATT
1 TTTTCAGTATTTTATT
58517877 TTT
1 TTT
58517880 AATGCTATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 6 0.23
16 19 0.73
17 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (16 bp):
TTTTCAGTATTTTATT
Found at i:58518212 original size:10 final size:10
Alignment explanation
Indices: 58518194--58518238 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
58518184 CTTCTTCTCA
*
58518194 TTTCCTTTTC
1 TTTCTTTTTC
58518204 TTTCTTTTTC
1 TTTCTTTTTC
* *
58518214 TTTCTTCTCC
1 TTTCTTTTTC
*
58518224 TTTCCTTTTC
1 TTTCTTTTTC
58518234 TTTCT
1 TTTCT
58518239 CCTCCTTCTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:58518224 original size:45 final size:43
Alignment explanation
Indices: 58518109--58518224 Score: 110
Period size: 45 Copynumber: 2.6 Consensus size: 43
58518099 TTTCCTTTTT
58518109 TTTTCTTTCTTTTTCCTTCATTC-CCTCCCTCTTCTTCTTCTCC
1 TTTTCTTTCTTTTTCCTTC-TTCTCCTCCCTCTTCTTCTTCTCC
* * ** *
58518152 TTCTCTTTCTCTTTTTCCTGCGCCTCCT-CCTCCTTCTTCTCATTTCC
1 TTTTC-TT-TCTTTTTCCTTCTTCTCCTCCCT-CTTCTTCT--TCTCC
*
58518199 TTTTCTTTCTTTTTCTTTCTTCTCCT
1 TTTTCTTTCTTTTTCCTTCTTCTCCT
58518225 TTCCTTTTCT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
43 4 0.07
44 6 0.11
45 37 0.65
46 2 0.04
47 8 0.14
ACGTcount: A:0.02, C:0.38, G:0.02, T:0.59
Consensus pattern (43 bp):
TTTTCTTTCTTTTTCCTTCTTCTCCTCCCTCTTCTTCTTCTCC
Found at i:58518243 original size:20 final size:20
Alignment explanation
Indices: 58518203--58518245 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
58518193 ATTTCCTTTT
* *
58518203 CTTTCTTTTTCTTTCTTCTC
1 CTTTCCTTTTCTTTCTCCTC
58518223 CTTTCCTTTTCTTTCTCCTC
1 CTTTCCTTTTCTTTCTCCTC
58518243 CTT
1 CTT
58518246 CTGCCGAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
CTTTCCTTTTCTTTCTCCTC
Found at i:58518338 original size:27 final size:27
Alignment explanation
Indices: 58518290--58518354 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
58518280 TCCCCCAAGG
* * * *
58518290 TGGTGCCGCCTGTGGCAGTGGCACATT
1 TGGTGCCGCCTCTGCCACTGGCACATC
*
58518317 TGGTGCCGCCTCTGCCACTGGCACCTC
1 TGGTGCCGCCTCTGCCACTGGCACATC
*
58518344 TAGTGCCGCCT
1 TGGTGCCGCCT
58518355 GTGGCAGGCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.09, C:0.35, G:0.31, T:0.25
Consensus pattern (27 bp):
TGGTGCCGCCTCTGCCACTGGCACATC
Found at i:58518583 original size:18 final size:18
Alignment explanation
Indices: 58518547--58518588 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
58518537 AAATAATGTT
58518547 AATTTTGAGTAGAATTTAA
1 AATTTTGAGTAGAATTT-A
58518566 AATTTTGATGT-G-ATTTA
1 AATTTTGA-GTAGAATTTA
58518583 AATTTT
1 AATTTT
58518589 AATTTACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 9 0.41
20 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (18 bp):
AATTTTGAGTAGAATTTA
Found at i:58523243 original size:31 final size:31
Alignment explanation
Indices: 58523205--58523274 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
58523195 TATAAAATGA
* *
58523205 TCACTAAACTATTTGAAAGTTTTTATTCAAG
1 TCACTAAACTATTCGAAAATTTTTATTCAAG
*
58523236 TCACTAAACTATTCGAAAATTTTTATTTAAG
1 TCACTAAACTATTCGAAAATTTTTATTCAAG
58523267 TCACTAAA
1 TCACTAAA
58523275 TTGTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (31 bp):
TCACTAAACTATTCGAAAATTTTTATTCAAG
Found at i:58525230 original size:2 final size:2
Alignment explanation
Indices: 58525223--58525255 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
58525213 GATACAATGA
58525223 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58525256 GTTGAAAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58528934 original size:26 final size:24
Alignment explanation
Indices: 58528902--58528951 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
58528892 CAATTCAGTT
*
58528902 AATAAAATTATAAAAATATTTTTTAA
1 AATAAAA-TA-AAAAATATTATTTAA
*
58528928 AATAAAATAAAATATATTATTTAA
1 AATAAAATAAAAAATATTATTTAA
58528952 GGATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.59
25 2 0.09
26 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AATAAAATAAAAAATATTATTTAA
Found at i:58530951 original size:19 final size:21
Alignment explanation
Indices: 58530928--58530974 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
58530918 GAATTTTTTT
* *
58530928 TTATTTGTT-TATTTTTTGAA
1 TTATTTGTTATAATTTTTAAA
58530948 -TATTT-TTATAATTTTTAAA
1 TTATTTGTTATAATTTTTAAA
58530967 TTATTTGT
1 TTATTTGT
58530975 AGACTTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.09
19 14 0.64
20 5 0.23
21 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (21 bp):
TTATTTGTTATAATTTTTAAA
Found at i:58531739 original size:37 final size:39
Alignment explanation
Indices: 58531692--58531765 Score: 98
Period size: 37 Copynumber: 1.9 Consensus size: 39
58531682 ACAAAATAAA
*
58531692 TTTTAAATTTTCAAAATATT-TA-TAAAAAATATATATT
1 TTTTAAATTTTCAAAAAATTATACTAAAAAATATATATT
* * *
58531729 TTTTATATTTTTAAAAAATTATACTAAAGAATATATA
1 TTTTAAATTTTCAAAAAATTATACTAAAAAATATATA
58531766 AAGAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 17 0.55
38 2 0.06
39 12 0.39
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (39 bp):
TTTTAAATTTTCAAAAAATTATACTAAAAAATATATATT
Done.