Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001736.1 Hibiscus syriacus cultivar Beakdansim tig00003507_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1778036
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 9
Found at i:421465 original size:299 final size:299
Alignment explanation
Indices: 420921--421519 Score: 1092
Period size: 299 Copynumber: 2.0 Consensus size: 299
420911 AGGAGTCGCC
* *
420921 ACCGACCACTTTAAAACGAATTTAGGTGGGTCGGACACCATCTTACCTGATCTGCATTTTTACTA
1 ACCGACCACTTTAAAACGAATTTAGATGGGTCGGACACCATCTTACCTGATCTGCATTTTTACCA
*
420986 GAAATGTGTCAGGTTCGGGAGTCGATTACGGTCAATGAAGGATTAACACCATTGAACCGCCTTTT
66 GAAATGTGTCAGGTTCGGGAGTCGATTACGGTCAAGGAAGGATTAACACCATTGAACCGCCTTTT
421051 CGGTACCAATTAATTTGCCAGTTGTCTTAAATTAAGAAAATTGTAATTTAAAATTAAAAGGTAAA
131 CGGTACCAATTAATTTGCCAGTTGTCTTAAATTAAGAAAATTGTAATTTAAAATTAAAAGGTAAA
*
421116 AATACGATCACAATTACTTACCTTAGATAGTTTTAAAGGTGTGGCCTTAAGAAGGTCAAAAAACC
196 AATACGATCACAATTACTTACCTTAGATAGTTTTAAAGGTGTGACCTTAAGAAGGTCAAAAAACC
*
421181 ATGTTAGATAAAAAGGTAAGAAATAAATTAATTAATTAA
261 ATGTTAGATAAAAAGGTAAGAAATAAATAAATTAATTAA
421220 ACCGACCACTTTAAAACGAATTTAGATGGGTCGGACACCATCTTACCTGATCTGCATTTTTACCA
1 ACCGACCACTTTAAAACGAATTTAGATGGGTCGGACACCATCTTACCTGATCTGCATTTTTACCA
* *
421285 GAAATGTGTCAGGTTCGGGAGTCGGTTACGGTCAAGGAAGGATTAACACCCTTGAACCG-CTCTT
66 GAAATGTGTCAGGTTCGGGAGTCGATTACGGTCAAGGAAGGATTAACACCATTGAACCGCCT-TT
*
421349 TCGGTACCAATTAATTTGCCGGTTGTCTTAAATTAAGAAAATTGTAATTTAAAATTAAAAGGTAA
130 TCGGTACCAATTAATTTGCCAGTTGTCTTAAATTAAGAAAATTGTAATTTAAAATTAAAAGGTAA
*
421414 AAATACGATCACAATTACTTACCTTAGATAGTTTTAATGGTGTGACCTTAAGAAGGTCAAAAAAC
195 AAATACGATCACAATTACTTACCTTAGATAGTTTTAAAGGTGTGACCTTAAGAAGGTCAAAAAAC
*
421479 CATGTTAGATAAAAATGTAAGAAATAAATAAATTAATTAA
260 CATGTTAGATAAAAAGGTAAGAAATAAATAAATTAATTAA
421519 A
1 A
421520 TTAAAATGAA
Statistics
Matches: 289, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
298 2 0.01
299 287 0.99
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (299 bp):
ACCGACCACTTTAAAACGAATTTAGATGGGTCGGACACCATCTTACCTGATCTGCATTTTTACCA
GAAATGTGTCAGGTTCGGGAGTCGATTACGGTCAAGGAAGGATTAACACCATTGAACCGCCTTTT
CGGTACCAATTAATTTGCCAGTTGTCTTAAATTAAGAAAATTGTAATTTAAAATTAAAAGGTAAA
AATACGATCACAATTACTTACCTTAGATAGTTTTAAAGGTGTGACCTTAAGAAGGTCAAAAAACC
ATGTTAGATAAAAAGGTAAGAAATAAATAAATTAATTAA
Found at i:421555 original size:24 final size:26
Alignment explanation
Indices: 421513--421575 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
421503 TAAATAAATT
*
421513 AATTAAATTAAAATGAAGA-AAA-AA
1 AATTAAATAAAAATGAAGATAAAGAA
421537 AATTAAATAAAAGAT-AAGATAAAGAA
1 AATTAAATAAAA-ATGAAGATAAAGAA
*
421563 AATAAAGATAAAA
1 AATTAA-ATAAAA
421576 TAGTAAGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 15 0.45
25 5 0.15
26 7 0.21
27 6 0.18
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (26 bp):
AATTAAATAAAAATGAAGATAAAGAA
Found at i:421668 original size:43 final size:42
Alignment explanation
Indices: 421602--421753 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 42
421592 AAGAAAACAA
* *
421602 ATATATAAATAAAACAAATAAAAATAATAAAAATAATATATAT
1 ATATATATATAAAA-AAAAAAAAATAATAAAAATAATATATAT
* *
421645 ATATATATATAATAAAAAAAAAAAAAATAGTAAAT-ATATATAT
1 ATATATATATAA-AAAAAAAAAAATAATA-AAAATAATATATAT
* * *
421688 ATATATATATAAAAATTAATAAAACTGATAATAAA-AA-ATA-AT
1 ATATATATATAAAAA--AAAAAAAATAATAA-AAATAATATATAT
* *
421730 ATATA-ATCTAAAAAAATAAAAATA
1 ATATATATATAAAAAAAAAAAAATA
421754 TATACTAAAG
Statistics
Matches: 91, Mismatches: 12, Indels: 16
0.76 0.10 0.13
Matches are distributed among these distances:
39 8 0.09
41 8 0.09
42 10 0.11
43 46 0.51
44 19 0.21
ACGTcount: A:0.68, C:0.02, G:0.01, T:0.29
Consensus pattern (42 bp):
ATATATATATAAAAAAAAAAAAATAATAAAAATAATATATAT
Found at i:421750 original size:26 final size:26
Alignment explanation
Indices: 421721--421771 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
421711 ACTGATAATA
*
421721 AAAAATAATATA-TAATCTAAAAAAAT
1 AAAAAT-ATATACTAAACTAAAAAAAT
*
421747 AAAAATATATACTAAAGTAAAAAAA
1 AAAAATATATACTAAACTAAAAAAA
421772 ATGCATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (26 bp):
AAAAATATATACTAAACTAAAAAAAT
Found at i:421771 original size:21 final size:22
Alignment explanation
Indices: 421717--421773 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
421707 TAAAACTGAT
421717 AATAAAAAATAATATATAATCTA
1 AATAAAAAA-AATATATAATCTA
*
421740 AAAAAATAAAAATATAT-A-CTA
1 AATAAA-AAAAATATATAATCTA
421761 AAGTAAAAAAAAT
1 AA-TAAAAAAAAT
421774 GCATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 11 0.37
22 4 0.13
23 12 0.40
24 3 0.10
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (22 bp):
AATAAAAAAAATATATAATCTA
Found at i:422957 original size:38 final size:39
Alignment explanation
Indices: 422868--422960 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 39
422858 CGAGGGTTTG
*
422868 GTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTGTGTGT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTGTGTGT
* * * *
422907 GTGTTTCAAGAGAAATAATTTCGAGGGTGTTTTT-T-TTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGT-TTTTTGTGTGT
422945 GTGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
422961 CGTCTCAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 17 0.36
39 25 0.53
40 5 0.11
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.42
Consensus pattern (39 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTGTGTGT
Found at i:422995 original size:36 final size:36
Alignment explanation
Indices: 422946--423179 Score: 159
Period size: 36 Copynumber: 6.6 Consensus size: 36
422936 TTTTTTTTTG
* *
422946 TGTTTCAAGAGAAACCGTCTCAAGAGGGACAAAATT
1 TGTTTCAAAAGAAACTGTCTCAAGAGGGACAAAATT
*
422982 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAAAGAAACTGTCTCAAGAGGGACAAAA-TT
* *
423019 AG-TTCTAAAAGAAACTGTCTCAAG-GGAGACGAAATT
1 TGTTTC-AAAAGAAACTGTCTCAAGAGG-GACAAAATT
* *
423055 TGTTTCAAGGAA-AAGA-TAT-TCAA-A--G----ATTT
1 TGTTTCAA--AAGAA-ACTGTCTCAAGAGGGACAAAATT
** * * *
423084 TGTTTCAAGGGAAACTGTCTTAAGAGAGATAAAATT
1 TGTTTCAAAAGAAACTGTCTCAAGAGGGACAAAATT
** * *
423120 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAAAGAAACTGTCTCAAGAGGGACAA-AATT
**
423157 TGTTTCAAGGGAAACTGTCTCAA
1 TGTTTCAAAAGAAACTGTCTCAA
423180 AACTCGTTTT
Statistics
Matches: 162, Mismatches: 17, Indels: 37
0.75 0.08 0.17
Matches are distributed among these distances:
27 1 0.01
28 4 0.02
29 14 0.09
30 1 0.01
32 1 0.01
33 1 0.01
36 77 0.48
37 60 0.37
38 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (36 bp):
TGTTTCAAAAGAAACTGTCTCAAGAGGGACAAAATT
Found at i:423180 original size:102 final size:102
Alignment explanation
Indices: 422980--423166 Score: 254
Period size: 102 Copynumber: 1.8 Consensus size: 102
422970 AGGGACAAAA
*
422980 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAG
423045 AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
66 AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
** * * * **
423082 TTTGTTTCAAGGGAAACTGTCTTAAGAGAGATAAAA-TTTGTT-TCAAGGGAAACTGTCTCAAGA
1 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCT-AAAAGAAACTGTCTCAAGA
423145 GAGAC-AAGATTTTGTTTCAAGG
65 GAGACGAA-A-TTTGTTTCAAGG
423167 GAAACTGTCT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 3 0.04
101 27 0.36
102 44 0.59
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.29
Consensus pattern (102 bp):
TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAG
AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
Found at i:423323 original size:36 final size:37
Alignment explanation
Indices: 423255--423330 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
423245 GTTTTAAGAA
* ** *
423255 AAACTATCTCAAGGGAGACAAAAATTTGTTTCAAGGG
1 AAACTATCTCAAGAGAGACAAAAATTAATTTCAAAGG
423292 AAACTATCTCAAGAGAGAC-AAAATTAATTTCAAAGG
1 AAACTATCTCAAGAGAGACAAAAATTAATTTCAAAGG
423328 AAA
1 AAA
423331 TGTTTTCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
36 17 0.49
37 18 0.51
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.22
Consensus pattern (37 bp):
AAACTATCTCAAGAGAGACAAAAATTAATTTCAAAGG
Found at i:423338 original size:102 final size:102
Alignment explanation
Indices: 423217--423456 Score: 354
Period size: 102 Copynumber: 2.4 Consensus size: 102
423207 ATATTTTGTG
** * *
423217 TTTCAAGGGAAACATTTTCAAGGTTTATGTTTTAAGAAAAACTATCTCAAGGGAGACAAAAATTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAAAAACTATCTCAAGGGAGACAAAAATTT
* *
423282 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAA
66 GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
* * * *
423319 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAAAAACTATCTCAAGGGAGACAAAAATTT
* * * *
423384 GTTTCAATGGAAACTACCCCAAGCGAGATAAAATTTA
66 GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
423421 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
423457 GAGACAAAAT
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 123 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAAAAACTATCTCAAGGGAGACAAAAATTT
GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
Found at i:423432 original size:36 final size:37
Alignment explanation
Indices: 423348--423432 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
423338 AATGTTTATG
* ** * * *
423348 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG
1 TTTCAAGGGAAACTACCCCAAGCGAGACAAAATTTTA
* *
423385 TTTCAATGGAAACTACCCCAAGCGAGATAAAA-TTTA
1 TTTCAAGGGAAACTACCCCAAGCGAGACAAAATTTTA
423421 TTTCAAGGGAAA
1 TTTCAAGGGAAA
423433 TGTTTTCAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
36 14 0.36
37 25 0.64
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (37 bp):
TTTCAAGGGAAACTACCCCAAGCGAGACAAAATTTTA
Found at i:423482 original size:86 final size:86
Alignment explanation
Indices: 423365--423542 Score: 266
Period size: 86 Copynumber: 2.1 Consensus size: 86
423355 AGAAACTGTC
** * *
423365 TCAAGGGAGACAAAATTTTGTTTCAATGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGG
1 TCAA-GGAGACAAAATTTCATTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
423430 AAATGTTTTCAATGTTTATGTT
65 AAATGTTTTCAATGTTTATGTT
* * * **
423452 TCAAGGAGACAAAATTTCATTTCAAGGGAAATTATCTCAATTGAGATAAAATTCATTTCAAGGGA
1 TCAAGGAGACAAAATTTCATTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGGA
423517 AATGTTTTCAATGTTTATGTT
66 AATGTTTTCAATGTTTATGTT
423538 TCAAG
1 TCAAG
423543 AGAAATTGTC
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
86 78 0.95
87 4 0.05
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (86 bp):
TCAAGGAGACAAAATTTCATTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGGA
AATGTTTTCAATGTTTATGTT
Found at i:423606 original size:102 final size:101
Alignment explanation
Indices: 423452--423649 Score: 213
Period size: 102 Copynumber: 2.0 Consensus size: 101
423442 TGTTTATGTT
* ** * ** * *
423452 TCAAGGAGACAAAATTTCATTTCAAGGGAAATTATCTCAATTGAGATAAAATTCA-TTTCAAGGG
1 TCAAGGAGACAAAATTTCATTCCAAAAGAAAATATCTCAAGGGAGACAAAATT-AGTTTCAAGGA
** * *
423516 AAATGTTTTC-AATGTTTATGTTTCAAGAGAAATTGTC
65 AAACATATTCAAATATTT-TGTTTCAAGAGAAATTGTC
* *
423553 TCAAGGGAGACAAAATTT-AGTTCCAAAAGAAAATATCTCAAGGGAGACGAAATTAGTTTCAATG
1 TCAA-GGAGACAAAATTTCA-TTCCAAAAGAAAATATCTCAAGGGAGACAAAATTAGTTTCAAGG
423617 AAAACATATTCAAATATTTTGTTTCAAGAGAAA
64 AAAACATATTCAAATATTTTGTTTCAAGAGAAA
423650 CTTGGAAACT
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
101 6 0.08
102 67 0.85
103 6 0.08
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (101 bp):
TCAAGGAGACAAAATTTCATTCCAAAAGAAAATATCTCAAGGGAGACAAAATTAGTTTCAAGGAA
AACATATTCAAATATTTTGTTTCAAGAGAAATTGTC
Found at i:423642 original size:188 final size:188
Alignment explanation
Indices: 423263--423644 Score: 491
Period size: 188 Copynumber: 2.0 Consensus size: 188
423253 AAAAACTATC
*
423263 TCAAGGGAGACAAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
1 TCAA-GGAGACAAAAATTTATTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
* * **
423328 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAATG
65 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
* * * ** * *
423393 GAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTATGTT
130 GAAAATACCCCAAGCGAGACAAAATTTATTTCAAGGAAAACATATTCAATATTTATGTT
* ** * * *
423452 TCAAGGAGAC-AAAATTTCATTTCAAGGGAAATTATCTCAATTGAGATAAAATTCATTTCAAGGG
1 TCAAGGAGACAAAAATTT-ATTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
*
423516 AAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
65 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
* * * * *
423581 GAAAATATCTCAAGGGAGACGAAA-TTAGTTTCAATGAAAACATATTCAAATATTT-TGTT
130 GAAAATACCCCAAGCGAGACAAAATTTA-TTTCAAGGAAAACATATTC-AATATTTATGTT
423640 TCAAG
1 TCAAG
423645 AGAAACTTGG
Statistics
Matches: 166, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
187 10 0.06
188 146 0.88
189 10 0.06
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (188 bp):
TCAAGGAGACAAAAATTTATTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGGA
AATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAAG
AAAATACCCCAAGCGAGACAAAATTTATTTCAAGGAAAACATATTCAATATTTATGTT
Found at i:423984 original size:106 final size:105
Alignment explanation
Indices: 423799--424121 Score: 434
Period size: 106 Copynumber: 3.0 Consensus size: 105
423789 TGTATTGTTC
* * * *
423799 CGAGTCCAATATCCTCCG-TCGTGAAGTTAAAATTGGCTCTGGAACTAT-GAAATTGTTTGTTGA
1 CGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTC-CGAAAT-TGGAAATTGTTTGTTGA
* ** * * * *
423862 CATCCAGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGCTATCT
63 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
423905 CGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGG-AAATTGTTTGTTGACA
* *
423970 ACTAGCCGTCCCTTCGTTGTGAAATTGAACTTGTGTTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
424011 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATT-GGAAATTGTTTGTTGACA
* *
424076 ACCAGTCGTCCCTTCGTTGTGGAGTTGAACTTGTGTTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
424117 CGAGT
1 CGAGT
424122 GGCACGACAT
Statistics
Matches: 193, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
104 1 0.01
105 5 0.03
106 184 0.95
107 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (105 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:424753 original size:32 final size:32
Alignment explanation
Indices: 424717--424811 Score: 145
Period size: 32 Copynumber: 2.9 Consensus size: 32
424707 ATTCCCAAAG
* *
424717 ATGCCCCAATATTCGATGTTGAATCTCAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTCAAAAA
* *
424749 ATGCCCCAACATTTGATGTTAAATCTAAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTCAAAAA
424781 ATGCCCCAACATTTGATGTTGAATCTTCAAA
1 ATGCCCCAACATTTGATGTTGAATC-TCAAA
424812 GATGCCCTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
32 52 0.93
33 4 0.07
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTCAAAAA
Found at i:424817 original size:32 final size:32
Alignment explanation
Indices: 424712--424818 Score: 135
Period size: 32 Copynumber: 3.3 Consensus size: 32
424702 GTTGAATTCC
* * *
424712 CAAAGATGCCCCAATATTCGATGTTGAATC-T
1 CAAAAATGCCCCAACATTTGATGTTGAATCTT
* *
424743 CAAAAAATGCCCCAACATTTGATGTTAAATCTA
1 C-AAAAATGCCCCAACATTTGATGTTGAATCTT
*
424776 AAAAAATGCCCCAACATTTGATGTTGAATCTT
1 CAAAAATGCCCCAACATTTGATGTTGAATCTT
*
424808 CAAAGATGCCC
1 CAAAAATGCCC
424819 TCATTGTTCC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
31 1 0.02
32 63 0.98
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (32 bp):
CAAAAATGCCCCAACATTTGATGTTGAATCTT
Found at i:425859 original size:69 final size:69
Alignment explanation
Indices: 425744--425881 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
425734 TGTCTCTCTC
* *
425744 TTGATGCTCTATGATCTTCGAGTGGAGTGATTCAGTAATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAATGAAGTGATTCAGTAATTCAGAAATGATTGTGCTTGATCAATC
425809 TCAT
66 TCAT
* * * *
425813 TTGATGCTCTATGATCTTCGAATGAAGTGGTTCAGTGATTCGGAAATTATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAATGAAGTGATTCAGTAATTCAGAAATGATTGTGCTTGATCAATC
425878 TCAT
66 TCAT
425882 AGTTTGAATC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAATGAAGTGATTCAGTAATTCAGAAATGATTGTGCTTGATCAATC
TCAT
Found at i:425971 original size:19 final size:19
Alignment explanation
Indices: 425944--425986 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
425934 TTGTCTTTTC
*
425944 CTTTGTTTTTTTCTCTTTG
1 CTTTGTTTTTCTCTCTTTG
* *
425963 CTTTTTTTTTCTCTTTTTG
1 CTTTGTTTTTCTCTCTTTG
425982 CTTTG
1 CTTTG
425987 ATTAAATCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.74
Consensus pattern (19 bp):
CTTTGTTTTTCTCTCTTTG
Found at i:429069 original size:23 final size:22
Alignment explanation
Indices: 429043--429097 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
429033 AAAAGGTAAG
* *
429043 AAATAAATAAATAAATTAAAATA
1 AAATAAAGAAAAAAATT-AAATA
*
429066 AAATGAAGAAAAAAATTAAATA
1 AAATAAAGAAAAAAATTAAATA
429088 AAATATAAGA
1 AAATA-AAGA
429098 TAAAGAAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (22 bp):
AAATAAAGAAAAAAATTAAATA
Found at i:429163 original size:45 final size:44
Alignment explanation
Indices: 429077--429245 Score: 144
Period size: 49 Copynumber: 3.5 Consensus size: 44
429067 AATGAAGAAA
*
429077 AAAATTAAATAAAATATAAGATAAAGAAAACAAAGATAAAAATAGTA-AGT
1 AAAA-TAAATAAAA-A-AA-ATAAA-AAAA-AAAGAAAAAAATA-TATAGT
*
429127 AAAATAAATATAAAAAAATAAAAAAAGAAGAAAAAAATATATAGAT
1 AAAATAAATA-AAAAAAATAAAAAAAAAAGAAAAAAATATATAG-T
* *
429173 AAAACAAATAAATAAAATAATAATAAAAAAGTAAAAATAATATATA-T
1 AAAATAAATAAAAAAAATAA-AA-AAAAAAG-AAAAA-AATATATAGT
*
429220 ATCAAATAAATAAAAAAAATTAAAAA
1 A--AAATAAATAAAAAAAATAAAAAA
429246 TAGTAAATAT
Statistics
Matches: 102, Mismatches: 8, Indels: 21
0.78 0.06 0.16
Matches are distributed among these distances:
44 2 0.02
45 22 0.22
46 16 0.16
47 15 0.15
48 9 0.09
49 31 0.30
50 7 0.07
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (44 bp):
AAAATAAATAAAAAAAATAAAAAAAAAAGAAAAAAATATATAGT
Found at i:429237 original size:36 final size:36
Alignment explanation
Indices: 429178--429257 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
429168 TAGATAAAAC
* *
429178 AAATAAATAAAATAATAATAAAAAAGTAAAAATAAT
1 AAATATATCAAATAATAATAAAAAAGTAAAAATAAT
* * *
429214 ATATATATCAAATAAATAA-AAAAAATTAAAAATAGT
1 AAATATATCAAAT-AATAATAAAAAAGTAAAAATAAT
429250 AAATATAT
1 AAATATAT
429258 ATATATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
36 32 0.86
37 5 0.14
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (36 bp):
AAATATATCAAATAATAATAAAAAAGTAAAAATAAT
Found at i:429257 original size:2 final size:2
Alignment explanation
Indices: 429252--429276 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
429242 AAAATAGTAA
429252 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 A
429277 AATTAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:429304 original size:20 final size:19
Alignment explanation
Indices: 429281--429339 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
429271 TATATAAATT
429281 AATAAAACTGATAA-TAAAAA
1 AATAAAA-T-ATAACTAAAAA
*
429301 AATAATATATAATCTAAAAA
1 AATAAAATATAA-CTAAAAA
429321 AATAAAAATATATACTAAA
1 AAT-AAAATATA-ACTAAA
429340 GTAAAAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 15 0.45
21 12 0.36
22 1 0.03
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (19 bp):
AATAAAATATAACTAAAAA
Found at i:429344 original size:26 final size:26
Alignment explanation
Indices: 429298--429347 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
429288 CTGATAATAA
*
429298 AAAAATAATATATAATCTAAAAAAAT
1 AAAAATAATATATAAACTAAAAAAAT
*
429324 AAAAAT-ATATACTAAAGTAAAAAA
1 AAAAATAATATA-TAAACTAAAAAA
429348 GAAAATGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (26 bp):
AAAAATAATATATAAACTAAAAAAAT
Found at i:429345 original size:23 final size:24
Alignment explanation
Indices: 429293--429347 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
429283 TAAAACTGAT
429293 AATAAAAAAATAATATATAATCTA
1 AATAAAAAAATAATATATAATCTA
429317 AA-AAAATAAA-AATATAT-A-CTA
1 AATAAAA-AAATAATATATAATCTA
429338 AAGTAAAAAA
1 AA-TAAAAAA
429348 GAAAATGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
21 5 0.18
22 3 0.11
23 15 0.54
24 5 0.18
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (24 bp):
AATAAAAAAATAATATATAATCTA
Found at i:441496 original size:34 final size:33
Alignment explanation
Indices: 441420--441526 Score: 85
Period size: 34 Copynumber: 3.1 Consensus size: 33
441410 GTGGTAAGAA
* *
441420 ATTTATTTTTATGTTAGTAT-TTT-TTTAAATAGTT
1 ATTT-TTTTTAT-TTAATATATTTATATAAATA-TT
*
441454 ATTATTTTTTATATTAATATATTTATGTAAATATT
1 ATT-TTTTTTAT-TTAATATATTTATATAAATATT
* *
441489 A-TTTTTTTATTAAAATAATATTTATATAATTATT
1 ATTTTTTTTATT-TAAT-ATATTTATATAAATATT
441523 ATTT
1 ATTT
441527 ATTTAGACTT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
32 1 0.02
33 11 0.18
34 33 0.54
35 9 0.15
36 7 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (33 bp):
ATTTTTTTTATTTAATATATTTATATAAATATT
Found at i:441508 original size:36 final size:34
Alignment explanation
Indices: 441453--441531 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
441443 TTTAAATAGT
*
441453 TATTATTTTTTATATT--AAT-ATATTTATGTAAA
1 TATTATTTTTT-TATTAAAATAATATTTATATAAA
*
441485 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATTAAAATAATATTTATATAAA
*
441519 TATTATTTATTTA
1 TATTATTTTTTTA
441532 GACTTATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 4 0.10
32 11 0.27
33 3 0.07
34 23 0.56
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTTATTAAAATAATATTTATATAAA
Found at i:441693 original size:17 final size:17
Alignment explanation
Indices: 441671--441724 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
441661 AATGTTAATA
441671 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
441688 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
441705 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
441722 TTT
1 TTT
441725 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:443330 original size:21 final size:21
Alignment explanation
Indices: 443306--443378 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
443296 TATTCCATCT
*
443306 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
443327 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
443348 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
*
443369 CCACAGGGTT
1 CCGCAGGGTT
443379 TTATACCATA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
20 2 0.04
21 43 0.91
22 2 0.04
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:443951 original size:33 final size:34
Alignment explanation
Indices: 443892--443988 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
443882 AAATGTTTTT
*
443892 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
443926 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
443959 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
443989 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:443995 original size:34 final size:33
Alignment explanation
Indices: 443890--443995 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
443880 ATAAATGTTT
*
443890 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
443924 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
443956 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
443991 TTAAA
1 TTAAA
443996 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:444617 original size:128 final size:127
Alignment explanation
Indices: 444389--445142 Score: 1265
Period size: 128 Copynumber: 5.9 Consensus size: 127
444379 TTACCTGATT
* *
444389 TACTGATATATCTAGTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * ***
444454 TGACAAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATGAGAAATAATAGG
*
444517 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *
444582 TGATGAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTGAATAATGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATGA-GAAATAATAGG
444645 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
444710 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAAT-GAGAAATAATAGG
*
444773 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* ***
444838 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATGAGAAATAATAGG
444901 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *
444966 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGTCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAAT-GAGAAATAATAGG
*
445029 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
445094 TGACGAAATAATGGAAGGCGCGCCCCCGAGAACGCGCCTTCATGTGAAT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAAT
445143 AGTACTCCGA
Statistics
Matches: 590, Mismatches: 32, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
127 3 0.01
128 586 0.99
129 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (127 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATGAGAAATAATAGG
Found at i:445098 original size:384 final size:384
Alignment explanation
Indices: 444389--445145 Score: 1442
Period size: 384 Copynumber: 2.0 Consensus size: 384
444379 TTACCTGATT
*
444389 TACTGATATATCTAGTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
444454 TGACAAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTA
66 TGACAAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTA
444519 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTG
444584 ATGAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTGAATAATGAAATAATAGGTACT
196 ATGAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTGAATAATGAAATAATAGGTACT
444649 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
261 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
*
444714 GAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
326 GAAATAATGGAAGGCGCGCCCCCGAGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
444773 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
*
444838 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTA
66 TGACAAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTA
*
444903 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTG
* * *
444968 ATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGTCTTCATGTGAATAGTGAAATAATAGGTACT
196 ATGAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTGAATAATGAAATAATAGGTACT
*
445033 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTCTGAC
261 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
445098 GAAATAATGGAAGGCGCGCCCCCGAGAACGCGCCTTCATGTGAATAGT
326 GAAATAATGGAAGGCGCGCCCCCGAGAACGCGCCTTCATGTGAATAGT
445146 ACTCCGATTA
Statistics
Matches: 365, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
384 365 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (384 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
TGACAAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTA
CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTG
ATGAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTGAATAATGAAATAATAGGTACT
GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
GAAATAATGGAAGGCGCGCCCCCGAGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:445229 original size:8 final size:8
Alignment explanation
Indices: 445216--445256 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
445206 TCACAATCTT
445216 TCAAATTC
1 TCAAATTC
445224 TCAAATTC
1 TCAAATTC
* *
445232 CCAAACTC
1 TCAAATTC
445240 T-AAATTC
1 TCAAATTC
445247 TCAAATTC
1 TCAAATTC
445255 TC
1 TC
445257 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:449589 original size:19 final size:18
Alignment explanation
Indices: 449560--449596 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
449550 GAATTGAAAA
449560 AAATTTAAAATAAAATTT
1 AAATTTAAAATAAAATTT
*
449578 AAATTATAAAATAATATTT
1 AAATT-TAAAATAAAATTT
449597 GATAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTTAAAATAAAATTT
Found at i:451960 original size:32 final size:32
Alignment explanation
Indices: 451912--452058 Score: 133
Period size: 32 Copynumber: 4.6 Consensus size: 32
451902 TGATTTATAT
* *
451912 TATCTAAATGTGATACTGAAGCTC-TTGTGCAC
1 TATCTGAATGTAATACTGAA-CTCGTTGTGCAC
* *
451944 TATCGGAATGTAATACT-AACTCTGTTGTGCAT
1 TATCTGAATGTAATACTGAACTC-GTTGTGCAC
**
451976 TATCTGAATGCGATACTGAAGCTC-TTGTGCAC
1 TATCTGAATGTAATACTGAA-CTCGTTGTGCAC
*
452008 TAT-TAGAATGTAATACT-AACTCTGTTGTGCAT
1 TATCT-GAATGTAATACTGAACTC-GTTGTGCAC
* *
452040 TATCTGAATGCAACACTGA
1 TATCTGAATGTAATACTGA
452059 TACTACTATA
Statistics
Matches: 93, Mismatches: 13, Indels: 17
0.76 0.11 0.14
Matches are distributed among these distances:
30 6 0.06
31 5 0.05
32 75 0.81
33 4 0.04
34 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (32 bp):
TATCTGAATGTAATACTGAACTCGTTGTGCAC
Found at i:451995 original size:64 final size:64
Alignment explanation
Indices: 451910--452050 Score: 246
Period size: 64 Copynumber: 2.2 Consensus size: 64
451900 TTTGATTTAT
* * *
451910 ATTATCTAAATGTGATACTGAAGCTCTTGTGCACTATCGGAATGTAATACTAACTCTGTTGTGC
1 ATTATCTGAATGCGATACTGAAGCTCTTGTGCACTATCAGAATGTAATACTAACTCTGTTGTGC
*
451974 ATTATCTGAATGCGATACTGAAGCTCTTGTGCACTATTAGAATGTAATACTAACTCTGTTGTGC
1 ATTATCTGAATGCGATACTGAAGCTCTTGTGCACTATCAGAATGTAATACTAACTCTGTTGTGC
452038 ATTATCTGAATGC
1 ATTATCTGAATGC
452051 AACACTGATA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 73 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (64 bp):
ATTATCTGAATGCGATACTGAAGCTCTTGTGCACTATCAGAATGTAATACTAACTCTGTTGTGC
Found at i:456040 original size:20 final size:20
Alignment explanation
Indices: 456015--456054 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
456005 AGCCCTCAAG
*
456015 CAGCACAGTCGAGGAGGACC
1 CAGCACAGTCAAGGAGGACC
*
456035 CAGCACAGTCAAGTAGGACC
1 CAGCACAGTCAAGGAGGACC
456055 GCGCAGAGTT
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:0.33, C:0.30, G:0.30, T:0.07
Consensus pattern (20 bp):
CAGCACAGTCAAGGAGGACC
Found at i:460919 original size:19 final size:20
Alignment explanation
Indices: 460895--460945 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
460885 TAGCCTTTTC
*
460895 GGTATCGATACTCATATCA-
1 GGTATCGATACTCAGATCAG
*
460914 GGTATCGAGAC-CAGATCAG
1 GGTATCGATACTCAGATCAG
460933 GAGTATCGATACT
1 G-GTATCGATACT
460946 GAAGGGCCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.23
19 11 0.42
20 9 0.35
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (20 bp):
GGTATCGATACTCAGATCAG
Found at i:463530 original size:21 final size:21
Alignment explanation
Indices: 463465--463534 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
463455 AAATTTGACA
*
463465 TCCATAACAACAAACTTGATA-
1 TCCATAACAACCAACTTGA-AC
463486 TCCATAACAACCAACTTGAAC
1 TCCATAACAACCAACTTGAAC
*
463507 TCCATAACAACCAACTTGAGC
1 TCCATAACAACCAACTTGAAC
463528 TCCATAA
1 TCCATAA
463535 TAATAAATCA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 1 0.02
21 45 0.98
ACGTcount: A:0.43, C:0.30, G:0.06, T:0.21
Consensus pattern (21 bp):
TCCATAACAACCAACTTGAAC
Found at i:466358 original size:41 final size:41
Alignment explanation
Indices: 466301--466535 Score: 246
Period size: 41 Copynumber: 5.8 Consensus size: 41
466291 GCGACATTTG
* * * *
466301 GTATTAAAACGTCACTAAAGTTCGAGTATTTAGCGGCGTTT
1 GTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTT
* * *
466342 GTATAAAAACGCCACTAAAGTACGAGTCTATAGTGGCATTT
1 GTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTT
* * * *
466383 GTGTAAAAACGCCACTAAAGTACGAGTCTATAACGGTGTTT
1 GTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTT
466424 GTATAAAAA-GACCACTAAAGTACGAGT-TTATAGCGGCGTTT
1 GTATAAAAACG-CCACTAAAGTACGAGTCTT-TAGCGGCGTTT
* * *
466465 ATATAAAAACGCCACTACAA-TATGAGTCTTTAGCGGCATTT
1 GTATAAAAACGCCACTA-AAGTACGAGTCTTTAGCGGCGTTT
* * *
466506 ATATACAAACGCCA-AAAAGT-CTGAGTCTTT
1 GTATAAAAACGCCACTAAAGTAC-GAGTCTTT
466536 TGCGAAGTTT
Statistics
Matches: 165, Mismatches: 22, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.01
40 12 0.07
41 146 0.88
42 5 0.03
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (41 bp):
GTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTT
Found at i:466555 original size:123 final size:123
Alignment explanation
Indices: 466313--466547 Score: 289
Period size: 123 Copynumber: 1.9 Consensus size: 123
466303 ATTAAAACGT
* * *
466313 CACTAAAGTTCGAGTATTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGTGG
1 CACTAAAGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACGAGTCTATAGCGG
* * * **
466378 CATTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAACGGTGTTTGTATAAAAAGAC
66 CATTTATATAAAAACGCCACAAAAGTACGAGTCTATAACGAAGTTTGTATAAAAAGAC
* *
466436 CACTAAAGTACGAGT-TTATAGCGGCGTTTATATAAAAACGCCACTACAA-TATGAGTCTTTAGC
1 CACTAAAGTACGAGTATT-TAGCGGCGTTTATATAAAAACGCCACTA-AAGTACGAGTCTATAGC
* * **
466499 GGCATTTATATACAAACGCCA-AAAAGT-CTGAGTCTTTTGCGAAGTTTGT
64 GGCATTTATATAAAAACGCCACAAAAGTAC-GAGTCTATAACGAAGTTTGT
466548 TCAAAAAACG
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
121 1 0.01
122 22 0.23
123 70 0.74
124 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (123 bp):
CACTAAAGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACGAGTCTATAGCGG
CATTTATATAAAAACGCCACAAAAGTACGAGTCTATAACGAAGTTTGTATAAAAAGAC
Found at i:466565 original size:123 final size:123
Alignment explanation
Indices: 466301--466565 Score: 281
Period size: 123 Copynumber: 2.2 Consensus size: 123
466291 GCGACATTTG
* * * *
466301 GTATTAAAACGTCACTAAAGTTCGAGTATTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACG
1 GTATAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACG
* * * * **
466366 AGTCTATAGTGGCATTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAACGGTGTTT
66 AGTCTATAGCGGCATTTATATAAAAACGCCACAAAAGTACGAGTCTATAACGAAGTTT
466424 GTATAAAAA-GACCACTAAAGTACGAGT-TTATAGCGGCGTTTATATAAAAACGCCACTACAA-T
1 GTATAAAAACG-CCACTAAAGTACGAGTATT-TAGCGGCGTTTATATAAAAACGCCACTA-AAGT
* * * * **
466486 ATGAGTCTTTAGCGGCATTTATATACAAACGCCA-AAAAGT-CTGAGTCTTTTGCGAAGTTT
63 ACGAGTCTATAGCGGCATTTATATAAAAACGCCACAAAAGTAC-GAGTCTATAACGAAGTTT
*
466546 GT-TCAAAAAACGCCGCTAAA
1 GTAT--AAAAACGCCACTAAA
466566 AATGCTTCAT
Statistics
Matches: 118, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
121 2 0.02
122 23 0.19
123 90 0.76
124 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (123 bp):
GTATAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACG
AGTCTATAGCGGCATTTATATAAAAACGCCACAAAAGTACGAGTCTATAACGAAGTTT
Found at i:469477 original size:126 final size:126
Alignment explanation
Indices: 469242--469478 Score: 271
Period size: 126 Copynumber: 1.9 Consensus size: 126
469232 TTCTAACAAC
* * * *
469242 AACAGGCTTTTCATCCAACAGTTTCTGGGTAGACACAACAGGTACTCGAGGTGGCAGTGAAGGAA
1 AACAGGCTTTTCATCCAACAGTTTATGGGTAGACACAACAGGCACTAGAGGAGGCAGTGAAGGAA
** *
469307 GCGAACAATCAAGAGCCTTCCCGCAAGAGACTTTACGAGTATCTTCCTCTGTTGTAACTCT
66 GCGAACAATCAAGAGCCTTCCCGCAAGAGACCGTACGAGCATCTTCCTCTGTTGTAACTCT
* * ** * * * *
469368 AACAGGCTTTTCATCGAGCAGTTTATGGGTAGTTACAACCGGCGCTATAGGAGTCAGTGAAGGAA
1 AACAGGCTTTTCATCCAACAGTTTATGGGTAGACACAACAGGCACTAGAGGAGGCAGTGAAGGAA
* * * *
469433 GCGAGTC-ATCAAGAG-CTTGGCCGCAAGGGACCGTACGGGCATCTTC
66 GCGA-ACAATCAAGAGCCTT-CCCGCAAGAGACCGTACGAGCATCTTC
469479 TTTACGAAAC
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
125 3 0.03
126 86 0.96
127 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (126 bp):
AACAGGCTTTTCATCCAACAGTTTATGGGTAGACACAACAGGCACTAGAGGAGGCAGTGAAGGAA
GCGAACAATCAAGAGCCTTCCCGCAAGAGACCGTACGAGCATCTTCCTCTGTTGTAACTCT
Found at i:473852 original size:10 final size:10
Alignment explanation
Indices: 473833--473885 Score: 57
Period size: 10 Copynumber: 6.0 Consensus size: 10
473823 CCTCCATTTG
473833 TAAT-TATAA
1 TAATATATAA
473842 TAATATATAA
1 TAATATATAA
473852 TAAT-T-T-A
1 TAATATATAA
473859 T-ATAT-TAA
1 TAATATATAA
473867 T-ATATATAA
1 TAATATATAA
473876 TAATATATAA
1 TAATATATAA
473886 CACTCGAACG
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
6 2 0.05
7 4 0.10
8 7 0.18
9 9 0.23
10 17 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
TAATATATAA
Found at i:473862 original size:12 final size:12
Alignment explanation
Indices: 473838--473884 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
473828 ATTTGTAATT
473838 ATAATAATATATA
1 ATAAT-ATATATA
*
473851 ATAATTTATATA
1 ATAATATATATA
*
473863 TTAATATATATA
1 ATAATATATATA
473875 ATAATATATA
1 ATAATATATA
473885 ACACTCGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 25 0.83
13 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATAATATATATA
Found at i:474442 original size:21 final size:20
Alignment explanation
Indices: 474410--474500 Score: 112
Period size: 20 Copynumber: 4.5 Consensus size: 20
474400 ACTAAAAGAT
*
474410 TTTACAAATTACCCGAAGGA
1 TTTACAAATTACCCGAAGGC
* *
474430 TTTACAATTTTACCCAAAGGC
1 TTTACAA-ATTACCCGAAGGC
474451 TTTACAAATTACCCGAAGGC
1 TTTACAAATTACCCGAAGGC
* *
474471 TTTACAAATTACAC-AGAGGA
1 TTTACAAATTACCCGA-AGGC
474491 TTTACAAATT
1 TTTACAAATT
474501 CGTGAGAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
19 1 0.02
20 44 0.71
21 17 0.27
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (20 bp):
TTTACAAATTACCCGAAGGC
Found at i:474467 original size:41 final size:40
Alignment explanation
Indices: 474410--474500 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 40
474400 ACTAAAAGAT
* * *
474410 TTTACAAATTACCCGAAGGATTTACAATTTTACCCAAAGGC
1 TTTACAAATTACCCGAAGGATTTACAA-ATTACACAAAGGA
* *
474451 TTTACAAATTACCCGAAGGCTTTACAAATTACACAGAGGA
1 TTTACAAATTACCCGAAGGATTTACAAATTACACAAAGGA
474491 TTTACAAATT
1 TTTACAAATT
474501 CGTGAGAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 19 0.42
41 26 0.58
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (40 bp):
TTTACAAATTACCCGAAGGATTTACAAATTACACAAAGGA
Found at i:474808 original size:229 final size:234
Alignment explanation
Indices: 474505--475062 Score: 745
Period size: 229 Copynumber: 2.4 Consensus size: 234
474495 CAAATTCGTG
* * * *
474505 AGAAATAAGTAAAAGACTTCTTATTTTTCAAAAATTTGATTTTCTAGAACATTAAATCAGAAACT
1 AGAAATAAGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTTTAGAACATTAAATAAGAAACT
*
474570 TTGAAAATCGCTTTCTCATTTTCATG-AGAAAATCATACGTGAACATCCTACACAAAGGTTTGAG
66 TTGAAAATCGCTTTCTCATTTTCATGCA-AAAATCATACGTGAACATCCTACACAAAGGTTTGAC
* * * *
474634 GGATGGCCCTAATAACTTATCATCTGGCTCGAAAGACTGAAAGATGAATCGAAGGTTTT-AACAT
130 GGATGGCCATAAGAACTTATCATCTGGATCGAAAGACTGAAAGATGAACCGAAGGTTTTAAACAT
*
474698 CATGCTCAAAAGATTTACAGATGACCCGAAGG-TT-C-A-
195 CATGCTCAAAAGACTTACAGATGACCCGAAGGATTACAAT
* * *
474734 CGAAATATGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTTTAGAACATTAAATAAGAAAAT
1 AGAAATAAGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTTTAGAACATTAAATAAGAAACT
* *
474799 TTGAAAATCGCTTTCTCATTTTCATGCAAAAATCATATGTGAACATCCTACCCAAAGGTTTGACG
66 TTGAAAATCGCTTTCTCATTTTCATGCAAAAATCATACGTGAACATCCTACACAAAGGTTTGACG
* * *
474864 GATGGCCATAAGGACTTATCATCTGGATCGAAAGACTGACAGATGACCCGAAGGTTTTAAACATC
131 GATGGCCATAAGAACTTATCATCTGGATCGAAAGACTGAAAGATGAACCGAAGGTTTTAAACATC
* *
474929 ATGCTCGAAAGACTTATAGATGACCCGAAGGATTTACAAATTTGT
196 ATGCTCAAAAGACTTACAGATGACCCGAAGGA-TTAC-AA----T
* * *
474974 GAGAAATAAGTAAGAGACTTCTTACTTTTCAAAAATTTCA-TTTTTAGCAAAGATTAAATGAGAA
1 -AGAAATAAGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTTTAG--AACATTAAATAAGAA
*
475038 ACGTTGAAAATCG-TGTTCTCATTTT
63 ACTTTGAAAATCGCT-TTCTCATTTT
475063 TCAAAACAAC
Statistics
Matches: 286, Mismatches: 27, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
229 169 0.59
230 35 0.12
232 2 0.01
233 1 0.00
235 1 0.00
240 7 0.02
241 37 0.13
242 34 0.12
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (234 bp):
AGAAATAAGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTTTAGAACATTAAATAAGAAACT
TTGAAAATCGCTTTCTCATTTTCATGCAAAAATCATACGTGAACATCCTACACAAAGGTTTGACG
GATGGCCATAAGAACTTATCATCTGGATCGAAAGACTGAAAGATGAACCGAAGGTTTTAAACATC
ATGCTCAAAAGACTTACAGATGACCCGAAGGATTACAAT
Found at i:475554 original size:22 final size:22
Alignment explanation
Indices: 475529--475581 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
475519 GATAAAGATT
475529 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
475551 TCATCTTTGGAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
475573 TCATCTTTG
1 TCATCTTTG
475582 CACAATGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:481690 original size:3 final size:3
Alignment explanation
Indices: 481682--481716 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
481672 GTCTCACAGG
481682 GAA GAA GAA GAAA GAA GAA GAAA GAA GAA GAA GAA
1 GAA GAA GAA G-AA GAA GAA G-AA GAA GAA GAA GAA
481717 AAATCTGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 24 0.80
4 6 0.20
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:481698 original size:10 final size:10
Alignment explanation
Indices: 481683--481713 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
481673 TCTCACAGGG
481683 AAGAAGAAGA
1 AAGAAGAAGA
481693 AAGAAGAAGA
1 AAGAAGAAGA
481703 AAGAAGAAGA
1 AAGAAGAAGA
481713 A
1 A
481714 GAAAAATCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AAGAAGAAGA
Found at i:481700 original size:13 final size:14
Alignment explanation
Indices: 481682--481717 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
481672 GTCTCACAGG
481682 GAAGAAG-AAGAAA
1 GAAGAAGAAAGAAA
481695 GAAGAAGAAAG-AA
1 GAAGAAGAAAGAAA
481708 GAAGAAGAAA
1 GAAGAAGAAA
481718 AATCTGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 19 0.86
14 3 0.14
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
GAAGAAGAAAGAAA
Found at i:487305 original size:23 final size:23
Alignment explanation
Indices: 487279--487347 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
487269 CACCACAGCT
*
487279 CGTATAAATGCACCGAAGTGCCA
1 CGTATAATTGCACCGAAGTGCCA
* * **
487302 CGTAGAATTGCACCAAAGTGCTG
1 CGTATAATTGCACCGAAGTGCCA
* *
487325 CATATAATTGCACCGTAGTGCCA
1 CGTATAATTGCACCGAAGTGCCA
487348 TATAAGATTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (23 bp):
CGTATAATTGCACCGAAGTGCCA
Found at i:487585 original size:30 final size:31
Alignment explanation
Indices: 487551--487610 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
487541 ATATTGTATA
487551 AACATATAAT-TTCCAT-ACCTTTATCACATG
1 AACATATAATGTTCCATCA-CTTTATCACATG
*
487581 AACATATCATGTTCCATCACTTTATCACAT
1 AACATATAATGTTCCATCACTTTATCACAT
487611 AGCTTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 9 0.33
31 17 0.63
32 1 0.04
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (31 bp):
AACATATAATGTTCCATCACTTTATCACATG
Found at i:491139 original size:14 final size:14
Alignment explanation
Indices: 491120--491156 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
491110 TATTTAAATT
491120 TAAATAATTTAATA
1 TAAATAATTTAATA
491134 TAAATAATTTAATA
1 TAAATAATTTAATA
491148 TAAATAATT
1 TAAATAATT
491157 ACTAAATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATTTAATA
Found at i:492487 original size:10 final size:10
Alignment explanation
Indices: 492472--492519 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
492462 TCTATTCGTA
492472 ATAATAATAT
1 ATAATAATAT
492482 ATAATAAT-T
1 ATAATAATAT
492491 -T-AT-ATAT
1 ATAATAATAT
492498 -TAAT-ATAT
1 ATAATAATAT
492506 ATAATAATAT
1 ATAATAATAT
492516 ATAA
1 ATAA
492520 CACGGATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 2 0.06
7 4 0.12
8 7 0.21
9 5 0.15
10 16 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATAATAATAT
Found at i:492496 original size:12 final size:12
Alignment explanation
Indices: 492470--492518 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
492460 CCTCTATTCG
492470 TAATAATAATATA
1 TAATAAT-ATATA
*
492483 TAATAATTTATA
1 TAATAATATATA
*
492495 TATTAATATATA
1 TAATAATATATA
492507 TAATAATATATA
1 TAATAATATATA
492519 ACACGGATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 25 0.78
13 7 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAATAATATATA
Found at i:493065 original size:20 final size:20
Alignment explanation
Indices: 493040--493150 Score: 177
Period size: 20 Copynumber: 5.5 Consensus size: 20
493030 GACTCAAAGA
493040 ATTTACAAATTACCCGAAGG
1 ATTTACAAATTACCCGAAGG
493060 ATTTACAAATTACCCGAAGG
1 ATTTACAAATTACCCGAAGG
*
493080 CTTTACAAATTACCCGAAGG
1 ATTTACAAATTACCCGAAGG
* *
493100 TTTTACAAATTACCCAAAGG
1 ATTTACAAATTACCCGAAGG
* *
493120 CTTTACAAATTACCCGGAGG
1 ATTTACAAATTACCCGAAGG
493140 ATTTACAAATT
1 ATTTACAAATT
493151 CGTGAGAAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 84 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (20 bp):
ATTTACAAATTACCCGAAGG
Found at i:493385 original size:20 final size:20
Alignment explanation
Indices: 493323--493386 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
493313 CGAATGACTG
493323 ACAGATGAC-CTGAAGGTTTT
1 ACAGATGACTC-GAAGGTTTT
* * **
493343 AACATCAT-ACTCGAAAGACTT
1 -ACA-GATGACTCGAAGGTTTT
493364 ACAGATGACTCGAAGGTTTT
1 ACAGATGACTCGAAGGTTTT
493384 ACA
1 ACA
493387 AATTCGTGAG
Statistics
Matches: 32, Mismatches: 8, Indels: 7
0.68 0.17 0.15
Matches are distributed among these distances:
19 2 0.06
20 16 0.50
21 11 0.34
22 3 0.09
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (20 bp):
ACAGATGACTCGAAGGTTTT
Found at i:493564 original size:240 final size:242
Alignment explanation
Indices: 493122--493669 Score: 841
Period size: 240 Copynumber: 2.3 Consensus size: 242
493112 CCCAAAGGCT
* * *
493122 TTACAAATTACCCGGAGGATTTACAAATTCGTGAGAAATAAGTAAGAGACTTCTTACTTTTC-AA
1 TTACAGATGACCCGAAGGATTTACAAATTCGTGAGAAATAAGTAAGAGACTTCTTACTTTTCAAA
* * * **
493186 AAATTTGATTTTCAAGAACATTAAATAAGATACTTTGAAAATCGCTTTATCATTTTCACGTGAAA
66 AAAATTGATTTTCAAGAACATTAAATAAGAAACTTTGAAAATCACTTTATCATTTTCACGCAAAA
* *
493251 ATCATACGTGAACATCCTACCCAAAGGTTTGACGGATGGCTCTAAGGACTTATCATCTGGCTCGA
131 ATCATACGTGAACATCCTACCCAAAGGTCTGACGGATGGCCCTAAGGACTTATCATCTGGCTCGA
* *
493316 ATGACTGACAGATGACCTGAAGGTTTT-AACATCATACTCGAAAGAC
196 AAGACTGACAGATGACCCGAAGGTTTTAAACATCATACTCGAAAGAC
* *
493362 TTACAGATGACTCGAAGGTTTTACAAATTCGTGAGAAATAAGTAAGAGACTTCTTACTTTTCAAA
1 TTACAGATGACCCGAAGGATTTACAAATTCGTGAGAAATAAGTAAGAGACTTCTTACTTTTCAAA
* * *
493427 AAAATT-ATTTTCTAGAACATTAAATAAGAAACTTTGAAAATCACTTTCTCATTTTCATGCAAAA
66 AAAATTGATTTTCAAGAACATTAAATAAGAAACTTTGAAAATCACTTTATCATTTTCACGCAAAA
* * *
493491 ATCATATGTGAACATCTTACCCAAAGGTCTGACGGATGGCCCTAAGGACTTTTCATCTGGCTCGA
131 ATCATACGTGAACATCCTACCCAAAGGTCTGACGGATGGCCCTAAGGACTTATCATCTGGCTCGA
* * *
493556 AAGACTGACAGATGACCCGAAGGTTTTAAATATCATGCTCGAAGGAC
196 AAGACTGACAGATGACCCGAAGGTTTTAAACATCATACTCGAAAGAC
* * *
493603 TTACAGATGACCCGAATGATTTACAAATTCATGAGAGATAAGTAAGAGACTTCTTACTTTTCAAA
1 TTACAGATGACCCGAAGGATTTACAAATTCGTGAGAAATAAGTAAGAGACTTCTTACTTTTCAAA
493668 AA
66 AA
493670 TTTCATTTTT
Statistics
Matches: 278, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
240 193 0.69
241 85 0.31
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (242 bp):
TTACAGATGACCCGAAGGATTTACAAATTCGTGAGAAATAAGTAAGAGACTTCTTACTTTTCAAA
AAAATTGATTTTCAAGAACATTAAATAAGAAACTTTGAAAATCACTTTATCATTTTCACGCAAAA
ATCATACGTGAACATCCTACCCAAAGGTCTGACGGATGGCCCTAAGGACTTATCATCTGGCTCGA
AAGACTGACAGATGACCCGAAGGTTTTAAACATCATACTCGAAAGAC
Found at i:493809 original size:16 final size:16
Alignment explanation
Indices: 493788--493828 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
493778 GTTCATCTAT
493788 TCTTCAAATGTTTGCC
1 TCTTCAAATGTTTGCC
493804 TCTTCAAATGTTTGCC
1 TCTTCAAATGTTTGCC
*
493820 TCTCCAAAT
1 TCTTCAAAT
493829 TTGATTCCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (16 bp):
TCTTCAAATGTTTGCC
Found at i:499045 original size:75 final size:75
Alignment explanation
Indices: 498874--499071 Score: 280
Period size: 74 Copynumber: 2.7 Consensus size: 75
498864 GTATCACATT
* * **
498874 ATTAAGAATCAC-TTATACAAAAATAGTACTAATAAGAATATTAAAG-AAATAAAATTATATTCA
1 ATTAAGAAACACTTTATACAAAAATAGTAATAATAAGAATATTAGTGAAAATAAAATTATATTCA
498937 TTTTTATATG
66 TTTTTATATG
* **
498947 ATTAAGAATCACTTTATACAAAAATAGTAATAATAAGAATATTAGTGAAAATAAAATTATATTGG
1 ATTAAGAAACACTTTATACAAAAATAGTAATAATAAGAATATTAGTGAAAATAAAATTATATTCA
499012 TTTTTATATG
66 TTTTTATATG
* *
499022 GTTAATAAACA-TTTATACAAAAA-A-TAATAATAAGAATATTAGTGAAAATA
1 ATTAAGAAACACTTTATACAAAAATAGTAATAATAAGAATATTAGTGAAAATA
499072 TATATTTTAA
Statistics
Matches: 115, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
72 26 0.23
73 13 0.11
74 43 0.37
75 33 0.29
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.35
Consensus pattern (75 bp):
ATTAAGAAACACTTTATACAAAAATAGTAATAATAAGAATATTAGTGAAAATAAAATTATATTCA
TTTTTATATG
Found at i:499114 original size:16 final size:14
Alignment explanation
Indices: 499070--499109 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
499060 TTAGTGAAAA
499070 TATATATTTTAATT
1 TATATATTTTAATT
499084 TATATATTTTAATT
1 TATATATTTTAATT
499098 TATATATTTTAA
1 TATATATTTTAA
499110 AATTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATATATTTTAATT
Found at i:504366 original size:23 final size:23
Alignment explanation
Indices: 504338--504392 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
504328 TGACATGTTA
504338 TCTGCCTTTATGACACGTTTATC
1 TCTGCCTTTATGACACGTTTATC
504361 TCTGCCTTTATGACACGTTTATC
1 TCTGCCTTTATGACACGTTTATC
504384 TCTGCCTTT
1 TCTGCCTTT
504393 TGGTAACTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.15, C:0.27, G:0.13, T:0.45
Consensus pattern (23 bp):
TCTGCCTTTATGACACGTTTATC
Found at i:505923 original size:7 final size:6
Alignment explanation
Indices: 505915--506027 Score: 84
Period size: 5 Copynumber: 19.7 Consensus size: 6
505905 TCTGAGATAG
*
505915 TATATA GTATATA T-TAT- TTTATA TAT-TA TATAT- TATATA TCATATA
1 TATATA -TATATA TATATA TATATA TATATA TATATA TATATA T-ATATA
* *
505961 GTATATA TAT-TA TAGTATA TAT-TA TAAATA TTTATA T-TATA T-TATA
1 -TATATA TATATA TA-TATA TATATA TATATA TATATA TATATA TATATA
506007 TAT-TA TAGTATA TATAT- TATA
1 TATATA TA-TATA TATATA TATA
506028 GTCACGTTTA
Statistics
Matches: 90, Mismatches: 4, Indels: 26
0.75 0.03 0.22
Matches are distributed among these distances:
4 1 0.01
5 42 0.47
6 22 0.24
7 24 0.27
8 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (6 bp):
TATATA
Found at i:505939 original size:12 final size:13
Alignment explanation
Indices: 505922--506027 Score: 85
Period size: 12 Copynumber: 7.8 Consensus size: 13
505912 TAGTATATAG
505922 TATATATTAT-TT
1 TATATATTATATT
505934 TATATATTATATAT
1 TATATATTATAT-T
*
505948 TATATATCATATAGTA
1 TATATAT--TATA-TT
*
505964 TATATATTATA-G
1 TATATATTATATT
505976 TATATATTATAAATAT
1 TATATATTAT--AT-T
505992 T-TATATTATA-T
1 TATATATTATATT
*
506003 TATATATTATAGTA
1 TATATATTATA-TT
506017 TATATATTATA
1 TATATATTATA
506028 GTCACGTTTA
Statistics
Matches: 78, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
11 2 0.03
12 29 0.37
13 2 0.03
14 24 0.31
15 8 0.10
16 12 0.15
17 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (13 bp):
TATATATTATATT
Found at i:506028 original size:14 final size:14
Alignment explanation
Indices: 505917--506029 Score: 107
Period size: 14 Copynumber: 8.4 Consensus size: 14
505907 TGAGATAGTA
505917 TATAGTATATATTAT
1 TATAGTATATA-TAT
*
505932 TTTA-TATAT-TA-
1 TATAGTATATATAT
*
505943 TATATTATATATCA-
1 TATAGTATATAT-AT
505957 TATAGTATATATAT
1 TATAGTATATATAT
505971 TATAG--TATATAT
1 TATAGTATATATAT
* *
505983 TATAAATATTTATAT
1 TAT-AGTATATATAT
505998 TATA-T-TATATAT
1 TATAGTATATATAT
506010 TATAGTATATATAT
1 TATAGTATATATAT
506024 TATAGT
1 TATAGT
506030 CACGTTTATC
Statistics
Matches: 83, Mismatches: 6, Indels: 19
0.77 0.06 0.18
Matches are distributed among these distances:
11 3 0.04
12 27 0.33
13 5 0.06
14 36 0.43
15 12 0.14
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (14 bp):
TATAGTATATATAT
Found at i:509500 original size:7 final size:7
Alignment explanation
Indices: 509486--509678 Score: 132
Period size: 7 Copynumber: 27.6 Consensus size: 7
509476 TCTGGGATAG
509486 TATATAT
1 TATATAT
*
509493 TTTATATT
1 TATATA-T
509501 ATATATAT
1 -TATATAT
509509 TATATAT
1 TATATAT
509516 TATATAT
1 TATATAT
*
509523 CATATATAA
1 --TATATAT
509532 TATATAT
1 TATATAT
509539 TATATAT
1 TATATAT
* *
509546 AACATAT
1 TATATAT
509553 TATATAT
1 TATATAT
* *
509560 CACATAT
1 TATATAT
* *
509567 AACATAT
1 TATATAT
509574 TATATAT
1 TATATAT
* *
509581 CATATAG
1 TATATAT
509588 TATATAT
1 TATATAT
509595 TATATA-
1 TATATAT
509601 TAT-TA-
1 TATATAT
*
509606 TAAATAT
1 TATATAT
509613 T-TATA-
1 TATATAT
509618 T-TATAT
1 TATATAT
509624 TATATTAT
1 TATA-TAT
509632 ATATTATAT
1 -TA-TATAT
*
509641 TATATAA
1 TATATAT
509648 TATA-AT
1 TATATAT
*
509654 ATAAATAT
1 -TATATAT
509662 T-TATAT
1 TATATAT
*
509668 TATATAA
1 TATATAT
509675 TATA
1 TATA
509679 AACATAATAT
Statistics
Matches: 148, Mismatches: 24, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
5 9 0.06
6 15 0.10
7 97 0.66
8 9 0.06
9 16 0.11
10 2 0.01
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (7 bp):
TATATAT
Found at i:509504 original size:5 final size:5
Alignment explanation
Indices: 509494--509677 Score: 82
Period size: 5 Copynumber: 36.2 Consensus size: 5
509484 AGTATATATT
*
509494 TTATA TTATA -TATA TTATA -TAT- TATATA TCATA -TATAA TATATA
1 TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTAT-A T-TATA
** * **
509538 TTATA -TATA ACATA TTATA -TATCA CATATA ACATA TTATA -TATCA
1 TTATA TTATA TTATA TTATA TTAT-A -TTATA TTATA TTATA TTAT-A
*
509583 -TATA GTATATA TTATA -TATA TTATA -AATA TTTATA TTATA TTATA
1 TTATA -T-TATA TTATA TTATA TTATA TTATA -TTATA TTATA TTATA
* * * *
509628 TTATATA TTATA TTATA TAATA TAATA TAAATA TTTATA TTATA TAATA
1 -T-TATA TTATA TTATA TTATA TTATA T-TATA -TTATA TTATA TTATA
509677 T
1 T
509678 AAACATAATA
Statistics
Matches: 144, Mismatches: 13, Indels: 44
0.72 0.06 0.22
Matches are distributed among these distances:
4 27 0.19
5 85 0.59
6 17 0.12
7 15 0.10
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (5 bp):
TTATA
Found at i:509505 original size:2 final size:2
Alignment explanation
Indices: 509486--509715 Score: 137
Period size: 2 Copynumber: 124.0 Consensus size: 2
509476 TCTGGGATAG
*
509486 TA TA TA T- TT TA TA T- TA TA TA TA T- TA TA TA T- TA TA TA TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
* *
509525 TA TA TA -A TA TA TA T- TA TA TA TA -A CA TA T- TA TA TA TCA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
*
509564 TA TA -A CA TA T- TA TA TA TCA TA TA GTA TA TA T- TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA T-A TA TA -TA TA TA TA TA TA TA TA TA
* *
509604 TA TA AA TA TT TA TA T- TA TA T- TA TA T- TA TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
509641 TA TA TA -A TA TA -A TA TA AA TA TT TA TA T- TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
509679 AA CA TA -A TA TA TA CTA TA CA -A TA TA AA TA AA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
509716 GTCATATAAT
Statistics
Matches: 179, Mismatches: 21, Indels: 56
0.70 0.08 0.22
Matches are distributed among these distances:
1 23 0.13
2 147 0.82
3 9 0.05
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:509678 original size:5 final size:5
Alignment explanation
Indices: 509495--509726 Score: 58
Period size: 5 Copynumber: 46.4 Consensus size: 5
509485 GTATATATTT
* * *
509495 TATAT TATATA TATTA TATAT TAT-A TATCATA TATAA TAT-A TATTATA
1 TATAA TATA-A TATAA TATAA TATAA TAT-A-A TATAA TATAA TA-TA-A
* * * * * *
509543 TATAA CATAT TAT-A TATCACA TATAA CATAT TAT-A TATCA TATAG TAT-A
1 TATAA TATAA TATAA TAT-A-A TATAA TATAA TATAA TATAA TATAA TATAA
* * * * * * *
509592 TATTA TAT-A TATTA TA-AA TAT-T TATAT TATAT TATAT TAT-A TATTA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * * *
509638 TATTA TATAA TATAA TATAAA TATTTA TATTA TATAA TATAAA CATAA
1 TATAA TATAA TATAA TAT-AA TA-TAA TATAA TATAA TAT-AA TATAA
* *
509686 TAT-A TACT-A TACAA TATAA -ATAA -ATATA TAGTCA TATAA TA
1 TATAA TA-TAA TATAA TATAA TATAA TATA-A TA-TAA TATAA TA
509727 CGCTTATACT
Statistics
Matches: 175, Mismatches: 28, Indels: 48
0.70 0.11 0.19
Matches are distributed among these distances:
4 38 0.22
5 102 0.58
6 22 0.13
7 13 0.07
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (5 bp):
TATAA
Found at i:509678 original size:22 final size:22
Alignment explanation
Indices: 509590--509707 Score: 101
Period size: 25 Copynumber: 4.9 Consensus size: 22
509580 TCATATAGTA
509590 TATATTATATATATTATAAATATT
1 TATATTATATA-A-TATAAATATT
*
509614 TATATTATATTATATTATATATTATAT
1 TATATTATA-TA-A-TATA-AATAT-T
*
509641 TATATAATATAATATAAATATT
1 TATATTATATAATATAAATATT
*
509663 TATATTATATAATATAAACATAATA
1 TATATTATATAATAT-AA-AT-ATT
* *
509688 TATACTATACAATATAAATA
1 TATATTATATAATATAAATA
509708 AATATATAGT
Statistics
Matches: 81, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
22 16 0.20
23 8 0.10
24 17 0.21
25 25 0.31
26 6 0.07
27 9 0.11
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
TATATTATATAATATAAATATT
Found at i:519870 original size:75 final size:74
Alignment explanation
Indices: 519699--519896 Score: 260
Period size: 74 Copynumber: 2.7 Consensus size: 74
519689 ATATCACATT
* * **
519699 ATTAAGAATCAC-TTATACAAAAATAGTACTAATAAGAATATTAAAGAAATAAAATTATATTCAT
1 ATTAAGAAACACTTTATACAAAAATAGTAATAATAAGAATATTAGTGAAATAAAATTATATTCAT
519763 TTTTATATG
66 TTTTATATG
* **
519772 ATTAAGAATCACTTTATACAAAAATAGTAATAATAAGAATATTAGTGAAAATAAAATTATATTTG
1 ATTAAGAAACACTTTATACAAAAATAGTAATAATAAGAATATTAGTG-AAATAAAATTATATTCA
519837 TTTTTATATG
65 TTTTTATATG
* * *
519847 GTTAATAAACA-TTTATACAAAAA-A-TAATAAGAAGAATATTAGTGTAAATA
1 ATTAAGAAACACTTTATACAAAAATAGTAATAATAAGAATATTAGTG-AAATA
519897 TATATTTTAA
Statistics
Matches: 113, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
72 24 0.21
73 13 0.12
74 43 0.38
75 33 0.29
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (74 bp):
ATTAAGAAACACTTTATACAAAAATAGTAATAATAAGAATATTAGTGAAATAAAATTATATTCAT
TTTTATATG
Found at i:521089 original size:23 final size:23
Alignment explanation
Indices: 521056--521112 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
521046 TGTGACATGT
*
521056 TCTCTGCCTTTATGACACGTTTA
1 TCTCTGTCTTTATGACACGTTTA
* * * *
521079 TCTCTGTCTTTGTGGCATGTTTT
1 TCTCTGTCTTTATGACACGTTTA
521102 TCTCTGTCTTT
1 TCTCTGTCTTT
521113 TGGTAACTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.09, C:0.23, G:0.16, T:0.53
Consensus pattern (23 bp):
TCTCTGTCTTTATGACACGTTTA
Found at i:522779 original size:7 final size:7
Alignment explanation
Indices: 522618--522833 Score: 166
Period size: 7 Copynumber: 31.3 Consensus size: 7
522608 TTTCATCCGG
*
522618 TATAGTA
1 TATATTA
*
522625 TATAGTA
1 TATATTA
*
522632 TATATTT
1 TATATTA
522639 TATA-TA
1 TATATTA
522645 TTATATTA
1 -TATATTA
522653 TATATTA
1 TATATTA
*
522660 TATATCA
1 TATATTA
*
522667 TATAGTA
1 TATATTA
522674 TATATTA
1 TATATTA
*
522681 TATATAA
1 TATATTA
*
522688 CATATTA
1 TATATTA
*
522695 TATATCA
1 TATATTA
522702 TATAGTATA
1 TATA-T-TA
522711 TATATTA
1 TATATTA
522718 TAGTA-TA
1 TA-TATTA
522725 TAT-TATA
1 TATAT-TA
522732 TATATTA
1 TATATTA
*
522739 TGTATTA
1 TATATTA
*
522746 GATATTA
1 TATATTA
*
522753 GATATTA
1 TATATTA
*
522760 TAATAGTA
1 T-ATATTA
522768 TATATTA
1 TATATTA
522775 TATA-TA
1 TATATTA
522781 T-TA-TA
1 TATATTA
*
522786 AATATT-
1 TATATTA
522792 TATA-T-
1 TATATTA
522797 TATATTA
1 TATATTA
522804 TATATTA
1 TATATTA
522811 -ATTATTA
1 TA-TATTA
522818 TAGTA-TA
1 TA-TATTA
522825 TATATTA
1 TATATTA
522832 TA
1 TA
522834 GTCACGTTTA
Statistics
Matches: 171, Mismatches: 22, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
5 9 0.05
6 14 0.08
7 127 0.74
8 16 0.09
9 5 0.03
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (7 bp):
TATATTA
Found at i:522860 original size:23 final size:23
Alignment explanation
Indices: 522829--522900 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
522819 AGTATATATA
522829 TTATAGTCACGTTTATCTCTACAT
1 TTAT-GTCACGTTTATCTCTACAT
* * * *
522853 TTGTGTCA-GGTTCT-TC-GCAT
1 TTATGTCACGTTTATCTCTACAT
* *
522873 TTATGGCACGTTTATCTCTACTT
1 TTATGTCACGTTTATCTCTACAT
522896 TTATG
1 TTATG
522901 GCATATTTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 7
0.67 0.19 0.13
Matches are distributed among these distances:
20 9 0.26
21 6 0.17
22 6 0.17
23 11 0.31
24 3 0.09
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.47
Consensus pattern (23 bp):
TTATGTCACGTTTATCTCTACAT
Found at i:523482 original size:23 final size:23
Alignment explanation
Indices: 523439--523482 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
523429 AAACATATAA
*
523439 AAAAGCATATGAATACATGTCGT
1 AAAAGCATATGAAAACATGTCGT
*
523462 AAAAGCATATGAAAACGTGTC
1 AAAAGCATATGAAAACATGTC
523483 ATACAGTCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (23 bp):
AAAAGCATATGAAAACATGTCGT
Found at i:524693 original size:24 final size:24
Alignment explanation
Indices: 524678--524792 Score: 151
Period size: 24 Copynumber: 4.8 Consensus size: 24
524668 CATAATTCAC
* *
524678 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCATATCAGAATCCAT
* * * *
524702 GTTAAGTATCAGATCAGAATACAA
1 GTCAAGTATCATATCAGAATCCAT
524726 GTCAAGTATCATATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAT
*
524750 GT-TAGATATCATATCAGAATCCAT
1 GTCAAG-TATCATATCAGAATCCAT
524774 GTCAAGTATCATATCAGAA
1 GTCAAGTATCATATCAGAA
524793 ATCAAATCGA
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.03
24 74 0.95
25 2 0.03
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAT
Found at i:524747 original size:48 final size:48
Alignment explanation
Indices: 524678--524792 Score: 169
Period size: 48 Copynumber: 2.4 Consensus size: 48
524668 CATAATTCAC
*
524678 GTCAAGTATCATATCAAAATCCAGGTTA-AGTATCAGATCAGAATACAA
1 GTCAAGTATCATATCAGAATCCAGGTTAGA-TATCAGATCAGAATACAA
* * * *
524726 GTCAAGTATCATATCAGAATCCATGTTAGATATCATATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAGGTTAGATATCAGATCAGAATACAA
524774 GTCAAGTATCATATCAGAA
1 GTCAAGTATCATATCAGAA
524793 ATCAAATCGA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 60 0.98
49 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (48 bp):
GTCAAGTATCATATCAGAATCCAGGTTAGATATCAGATCAGAATACAA
Found at i:529432 original size:24 final size:24
Alignment explanation
Indices: 529420--529528 Score: 139
Period size: 24 Copynumber: 4.5 Consensus size: 24
529410 AATTCACGTT
* * *
529420 AAGTATCATATCAAAATCCAGGTC
1 AAGTATCAGATCAGAATCCATGTC
* *
529444 AAGTATCAGATCAGAATACAAGTC
1 AAGTATCAGATCAGAATCCATGTC
529468 AAGTATCAGATCAGAATCCATGT-
1 AAGTATCAGATCAGAATCCATGTC
* *
529491 TAGATATCATATCAGAATCCATGTC
1 AAG-TATCAGATCAGAATCCATGTC
529516 AAGTATCAGATCA
1 AAGTATCAGATCA
529529 AAAATCAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
23 2 0.03
24 69 0.95
25 2 0.03
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (24 bp):
AAGTATCAGATCAGAATCCATGTC
Found at i:535290 original size:7 final size:7
Alignment explanation
Indices: 535282--535496 Score: 183
Period size: 7 Copynumber: 30.0 Consensus size: 7
535272 TTCGGGATAG
*
535282 TATATAG
1 TATATAT
535289 TATATAT
1 TATATAT
*
535296 TTTATATT
1 TATATA-T
535304 TGATATAT
1 T-ATATAT
535312 TATAT-T
1 TATATAT
535318 TATATAT
1 TATATAT
535325 TATATAT
1 TATATAT
* *
535332 CATATAG
1 TATATAT
535339 TATATAT
1 TATATAT
535346 TATATAT
1 TATATAT
535353 TATATAT
1 TATATAT
* *
535360 AACATAT
1 TATATAT
*
535367 TATATAA
1 TATATAT
535374 TATATAT
1 TATATAT
535381 TATATA-
1 TATATAT
535387 TATATTAT
1 TATA-TAT
*
535395 ATATGTAT
1 -TATATAT
*
535403 ATATAGTGT
1 -TATA-TAT
535412 TATAT-T
1 TATATAT
535418 TATATA-
1 TATATAT
535424 TATAT-T
1 TATATAT
535430 TATATAT
1 TATATAT
535437 ATATATATT
1 -TATATA-T
535446 TATATAT
1 TATATAT
535453 ATATATAT
1 -TATATAT
535461 ATATATAT
1 -TATATAT
*
535469 TATCTAT
1 TATATAT
535476 T-TATTAT
1 TATA-TAT
535483 ATATATAT
1 -TATATAT
535491 TA-ATAT
1 TATATAT
535497 AATTTTTGGT
Statistics
Matches: 174, Mismatches: 18, Indels: 33
0.77 0.08 0.15
Matches are distributed among these distances:
6 31 0.18
7 85 0.49
8 46 0.26
9 12 0.07
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (7 bp):
TATATAT
Found at i:535294 original size:2 final size:2
Alignment explanation
Indices: 535282--535490 Score: 183
Period size: 2 Copynumber: 108.5 Consensus size: 2
535272 TTCGGGATAG
* * *
535282 TA TA TA GTA TA TA T- TT TA TA TT TGA TA TA T- TA TA TT TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
*
535324 T- TA TA TA TCA TA TA GTA TA TA T- TA TA TA T- TA TA TA TA -A CA
1 TA TA TA TA T-A TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
535364 TA T- TA TA TA -A TA TA TA T- TA TA TA TA TA T- TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
535402 TA TA TA GTG T- TA TA TT TA TA TA TA TA TT TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
535444 TT TA TA TA TA TA TA TA TA TA TA TA T- TA TC TA TT TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
535484 TA TA TA T
1 TA TA TA T
535491 TAATATAATT
Statistics
Matches: 170, Mismatches: 19, Indels: 36
0.76 0.08 0.16
Matches are distributed among these distances:
1 13 0.08
2 149 0.88
3 8 0.05
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:535705 original size:5 final size:5
Alignment explanation
Indices: 535695--535720 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
535685 TGACTTAGAA
535695 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
535721 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:544985 original size:34 final size:33
Alignment explanation
Indices: 544924--544994 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
544914 ACCTTACAAC
* *
544924 TCCCTAGTTTTTCACGGGTTAAACTAGAACCTT
1 TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
*
544957 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTACACGGGCTAAACTAGAACCTT
544991 TCCC
1 TCCC
544995 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 7 0.21
34 27 0.79
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
Found at i:545352 original size:8 final size:8
Alignment explanation
Indices: 545339--545416 Score: 52
Period size: 8 Copynumber: 11.1 Consensus size: 8
545329 TTGCAGCCTT
545339 GATGCATG
1 GATGCATG
545347 GATGCAT-
1 GATGCATG
545354 G--GCA-G
1 GATGCATG
545359 GATGCATG
1 GATGCATG
545367 GATGCAT-
1 GATGCATG
545374 G--GCA-G
1 GATGCATG
*
545379 GATGCATC
1 GATGCATG
545387 GATGCAT-
1 GATGCATG
*
545394 G--GCAAG
1 GATGCATG
*
545400 GATGCATC
1 GATGCATG
545408 GATGCATG
1 GATGCATG
545416 G
1 G
545417 CAATGATGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 22
0.67 0.06 0.27
Matches are distributed among these distances:
5 11 0.20
6 1 0.02
7 9 0.17
8 33 0.61
ACGTcount: A:0.26, C:0.17, G:0.37, T:0.21
Consensus pattern (8 bp):
GATGCATG
Found at i:545363 original size:12 final size:12
Alignment explanation
Indices: 545346--545406 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 12
545336 CTTGATGCAT
545346 GGATGCATGGCA
1 GGATGCATGGCA
545358 GGATGCAT----
1 GGATGCATGGCA
545366 GGATGCATGGCA
1 GGATGCATGGCA
545378 GGATGCAT--C-
1 GGATGCATGGCA
545387 -GATGCATGGCAA
1 GGATGCATGGC-A
545399 GGATGCAT
1 GGATGCAT
545407 CGATGCATGG
Statistics
Matches: 40, Mismatches: 0, Indels: 17
0.70 0.00 0.30
Matches are distributed among these distances:
8 15 0.38
10 2 0.05
12 16 0.40
13 7 0.17
ACGTcount: A:0.26, C:0.16, G:0.38, T:0.20
Consensus pattern (12 bp):
GGATGCATGGCA
Found at i:545403 original size:21 final size:20
Alignment explanation
Indices: 545339--545434 Score: 138
Period size: 20 Copynumber: 4.7 Consensus size: 20
545329 TTGCAGCCTT
*
545339 GATGCATGGATGCATGGCAG
1 GATGCATCGATGCATGGCAG
*
545359 GATGCATGGATGCATGGCAG
1 GATGCATCGATGCATGGCAG
545379 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATGGC-AG
*
545400 GATGCATCGATGCATGGCAAT
1 GATGCATCGATGCATGGC-AG
*
545421 GATGCATCAATGCA
1 GATGCATCGATGCA
545435 CTAATTGCAT
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
20 37 0.51
21 35 0.49
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.21
Consensus pattern (20 bp):
GATGCATCGATGCATGGCAG
Found at i:545523 original size:21 final size:21
Alignment explanation
Indices: 545497--545554 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
545487 CATTAGTGCA
545497 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
545518 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
545539 GATGCATGGATGCACT
1 GATGCATGGATGCACT
545555 TTGACACCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (21 bp):
GATGCATGGATGCACTGCAGG
Found at i:545670 original size:30 final size:30
Alignment explanation
Indices: 545636--545695 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
545626 AACTTTGAAT
**
545636 AAATTCAATTCAAATCCAAAATTATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
*
545666 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
545696 CTTAAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.33
Consensus pattern (30 bp):
AAATTCAATTCAAATCCAAAAACATTTTGC
Found at i:545829 original size:21 final size:21
Alignment explanation
Indices: 545805--545844 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
545795 ATGTTTAATG
545805 AAAAAGATATCAATTGTTAAC
1 AAAAAGATATCAATTGTTAAC
*
545826 AAAATGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
545845 CCAATTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAAGATATCAATTGTTAAC
Found at i:547933 original size:2 final size:2
Alignment explanation
Indices: 547926--547972 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
547916 AGATCTTTTA
547926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
547968 AT AT A
1 AT AT A
547973 CCCTCATCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:548167 original size:24 final size:24
Alignment explanation
Indices: 548140--548227 Score: 95
Period size: 24 Copynumber: 3.7 Consensus size: 24
548130 GATATCAGAA
* * *
548140 ATCAAAACAAAATTCAGAACATAT
1 ATCAGAACAGAATTCAGATCATAT
* * *
548164 ATCAGAACAGAATCCAGATCAGAA
1 ATCAGAACAGAATTCAGATCATAT
* *
548188 ATCAGAACAGAATTCAGGTCATGT
1 ATCAGAACAGAATTCAGATCATAT
*
548212 ATCAGAACATAATTCA
1 ATCAGAACAGAATTCA
548228 AGTCAGAAAT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.49, C:0.18, G:0.12, T:0.20
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATCATAT
Found at i:548189 original size:48 final size:47
Alignment explanation
Indices: 548133--548241 Score: 137
Period size: 48 Copynumber: 2.3 Consensus size: 47
548123 AAACGGAGAT
548133 ATCAGAAATCAAAACAAAATTCAGAACATATATCAGAACAGAATCCA
1 ATCAGAAATCAAAACAAAATTCAGAACATATATCAGAACAGAATCCA
* * ** * * *
548180 GATCAGAAATCAGAACAGAATTCAGGTCATGTATCAGAACATAATTCA
1 -ATCAGAAATCAAAACAAAATTCAGAACATATATCAGAACAGAATCCA
548228 AGTCAGAAATCAAA
1 A-TCAGAAATCAAA
548242 TAAAATATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 1 0.02
48 51 0.98
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.19
Consensus pattern (47 bp):
ATCAGAAATCAAAACAAAATTCAGAACATATATCAGAACAGAATCCA
Found at i:548204 original size:12 final size:12
Alignment explanation
Indices: 548135--548204 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
548125 ACGGAGATAT
* *
548135 CAGAAATCAAAA
1 CAGAATTCAGAA
*
548147 CAAAATTCAGAA
1 CAGAATTCAGAA
*
548159 CA-TATATCAGAA
1 CAGAAT-TCAGAA
* *
548171 CAGAATCCAGAT
1 CAGAATTCAGAA
*
548183 CAGAAATCAGAA
1 CAGAATTCAGAA
548195 CAGAATTCAG
1 CAGAATTCAG
548205 GTCATGTATC
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.91
13 2 0.04
ACGTcount: A:0.53, C:0.19, G:0.13, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:548239 original size:24 final size:24
Alignment explanation
Indices: 548164--548239 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
548154 CAGAACATAT
*
548164 ATCAGAACAGAA-TCCAGATCAGAA
1 ATCAGAACAGAATTCAAG-TCAGAA
* *
548188 ATCAGAACAGAATTCAGGTCATG-T
1 ATCAGAACAGAATTCAAGTCA-GAA
*
548212 ATCAGAACATAATTCAAGTCAGAA
1 ATCAGAACAGAATTCAAGTCAGAA
548236 ATCA
1 ATCA
548240 AATAAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 38 0.88
25 4 0.09
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (24 bp):
ATCAGAACAGAATTCAAGTCAGAA
Found at i:553280 original size:75 final size:75
Alignment explanation
Indices: 553137--553335 Score: 264
Period size: 74 Copynumber: 2.7 Consensus size: 75
553127 ATATCACATT
* * **
553137 ATTAAGAATCAC-TTATACAAAAAATAGTACTAATAAGAATATTAAAG-AAATAAAATTATATTC
1 ATTAAGAATCACTTTATAC-CAAAATAGTAATAATAAGAATATTAGTGAAAATAAAATTATATTC
553200 ATTTTTATATG
65 ATTTTTATATG
**
553211 ATTAAGAATCACTTTATACCAAAATAGTAATAATAAGAATATTAGTGAAAATAAAATTATATTGG
1 ATTAAGAATCACTTTATACCAAAATAGTAATAATAAGAATATTAGTGAAAATAAAATTATATTCA
553276 TTTTTATATG
66 TTTTTATATG
* * * *
553286 GTTAATAAACA-TTTATA-CAAAA-AATAATAATAAGAATATTAGTGAAAATA
1 ATTAAGAATCACTTTATACCAAAATAGTAATAATAAGAATATTAGTGAAAATA
553336 TATATTTTAA
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
72 27 0.24
73 5 0.04
74 42 0.37
75 39 0.35
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.35
Consensus pattern (75 bp):
ATTAAGAATCACTTTATACCAAAATAGTAATAATAAGAATATTAGTGAAAATAAAATTATATTCA
TTTTTATATG
Found at i:554556 original size:23 final size:23
Alignment explanation
Indices: 554485--554557 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
554475 AGAATGATTA
554485 TGTCTTTGTGACATG---TTCTC
1 TGTCTTTGTGACATGTTTTTCTC
* * * *
554505 TG-CTGTTATGACACGTTTATCTA
1 TGTCT-TTGTGACATGTTTTTCTC
*
554528 TTTCTTTGTGACATGTTTTTCTC
1 TGTCTTTGTGACATGTTTTTCTC
554551 TGTCTTT
1 TGTCTTT
554558 TGGTAACTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 7
0.69 0.18 0.13
Matches are distributed among these distances:
19 2 0.05
20 10 0.26
23 24 0.63
24 2 0.05
ACGTcount: A:0.12, C:0.18, G:0.16, T:0.53
Consensus pattern (23 bp):
TGTCTTTGTGACATGTTTTTCTC
Found at i:555963 original size:24 final size:24
Alignment explanation
Indices: 555931--555976 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
555921 GGTATCGCAA
*
555931 ATCAGTTTCCAGATTCGCAATGCG
1 ATCAGTTTCCAGATTCACAATGCG
555955 ATCAGTTTCCAGATTCACAATG
1 ATCAGTTTCCAGATTCACAATG
555977 TGATTCTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (24 bp):
ATCAGTTTCCAGATTCACAATGCG
Found at i:556013 original size:21 final size:21
Alignment explanation
Indices: 555989--556041 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
555979 ATTCTGACTA
555989 TCGCATTGCGATTTGCCAAAT
1 TCGCATTGCGATTTGCCAAAT
* * *
556010 TCGCATTGCAATTTTCCTAAT
1 TCGCATTGCGATTTGCCAAAT
*
556031 TCGCAATGCGA
1 TCGCATTGCGA
556042 ATATGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTGCCAAAT
Found at i:556056 original size:20 final size:20
Alignment explanation
Indices: 556031--556101 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
556021 TTTTCCTAAT
556031 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
* *
556051 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATATGTAAA
* *
556071 TCGCAATGCGAATCTG-ACTA
1 TCGCAATGCGAATATGTA-AA
556091 TCGCAATGCGA
1 TCGCAATGCGA
556102 TTTACATAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
19 1 0.02
20 43 0.98
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:556802 original size:20 final size:20
Alignment explanation
Indices: 556765--556822 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
556755 GATTCTTGTG
**
556765 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
**
556785 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGTCATTTTCGCA
**
556805 TTGCGATTTTCATTTTCG
1 TTGCGATAGTCATTTTCG
556823 TGTTGCGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:556823 original size:20 final size:20
Alignment explanation
Indices: 556794--556833 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
556784 ATTGCGATAG
556794 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
556814 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
556834 AAAGTTTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.55
Consensus pattern (20 bp):
TCATTTTCGTGTTGCGATTT
Found at i:556841 original size:20 final size:20
Alignment explanation
Indices: 556798--556841 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
556788 CGATAGTCAT
** *
556798 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
556818 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
556838 TTTC
1 TTTC
556842 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:558727 original size:20 final size:20
Alignment explanation
Indices: 558702--558805 Score: 130
Period size: 20 Copynumber: 5.5 Consensus size: 20
558692 AGAATACTTT
558702 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
558722 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
558742 ACTATCACAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
558758 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
558776 ACTATCGCAATGCGAATATG
1 ACTATCGCAATGCGAAAATG
558796 ACTATCGCAA
1 ACTATCGCAA
558806 CGAGTGAATC
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.08
16 4 0.06
17 4 0.06
18 4 0.06
20 54 0.75
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:558791 original size:54 final size:54
Alignment explanation
Indices: 558705--558843 Score: 208
Period size: 54 Copynumber: 2.6 Consensus size: 54
558695 ATACTTTACT
*
558705 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCACAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCACAACGAGAGA
* * *
558759 ATCGCAATGCGAAAATGACTATCGCAATGCGAATATGACTATCGCAACGAGTGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCACAACGAGAGA
** *
558813 ATCGCAATGCG-AAATGAAAATCGCATTGCGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGA
558844 TTCTCTCGTT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 17 0.22
54 61 0.78
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.18
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCACAACGAGAGA
Found at i:558877 original size:20 final size:20
Alignment explanation
Indices: 558852--558898 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
558842 GATTCTCTCG
558852 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
558872 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
558892 TTGCGAT
1 TTGCGAT
558899 TTTGTTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:558911 original size:87 final size:87
Alignment explanation
Indices: 558820--558985 Score: 260
Period size: 87 Copynumber: 1.9 Consensus size: 87
558810 TGAATCGCAA
558820 TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
*
558885 TTTCGCGTTGCGATTTTGTTGT
66 TTTCGCATTGCGATTTTGTTGT
** ** ** *
558907 TGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGGTAGTCAT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
558972 TTTCGCATTGCGAT
66 TTTCGCATTGCGAT
558986 AGCCATTTTC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (87 bp):
TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
TTTCGCATTGCGATTTTGTTGT
Found at i:558962 original size:34 final size:34
Alignment explanation
Indices: 558872--558963 Score: 105
Period size: 33 Copynumber: 2.7 Consensus size: 34
558862 CAAATTCGCA
* * * * *
558872 TTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTCAATTTCGCATTGCGATTCTCTCG
**
558906 TTGCGATTTTC-ATTTCGCATTGCGATTCTCTCG
1 TTGCGATAGTCAATTTCGCATTGCGATTCTCTCG
*
558939 TTGCGATAGTCAAATTCGCATTGCG
1 TTGCGATAGTCAATTTCGCATTGCG
558964 GTAGTCATTT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
33 26 0.55
34 21 0.45
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (34 bp):
TTGCGATAGTCAATTTCGCATTGCGATTCTCTCG
Found at i:558968 original size:20 final size:20
Alignment explanation
Indices: 558939--559045 Score: 151
Period size: 20 Copynumber: 5.3 Consensus size: 20
558929 GATTCTCTCG
**
558939 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
558959 TTGCGGTAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
558979 TTGCGATAGCCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
558999 TTGCGGTAGTCATTTTCGTA
1 TTGCGATAGTCATTTTCGCA
*
559019 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
559039 TTGCGAT
1 TTGCGAT
559046 TTTAAGTTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:559570 original size:18 final size:19
Alignment explanation
Indices: 559531--559572 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
559521 CTCACCTGTC
559531 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
559552 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
559570 ATC
1 ATC
559573 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:559626 original size:42 final size:42
Alignment explanation
Indices: 559526--559636 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
559516 CCCGACTCAC
* * * *
559526 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
559568 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
* *
559610 TTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
559637 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:561215 original size:34 final size:33
Alignment explanation
Indices: 561127--561222 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
561117 AAAACAGACT
* **
561127 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
* *
561161 ATCGCAATACGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
561194 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
561223 CGAAACTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:561297 original size:19 final size:19
Alignment explanation
Indices: 561273--561318 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
561263 GATTCACTCG
561273 TTGCGATTTTCATTTAGCA
1 TTGCGATTTTCATTTAGCA
*
561292 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTAGCA
561311 TTGCGATT
1 TTGCGATT
561319 CTCTCGTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTAGCA
Found at i:561338 original size:52 final size:53
Alignment explanation
Indices: 561242--561371 Score: 145
Period size: 52 Copynumber: 2.4 Consensus size: 53
561232 TTTCGCGTTA
* * **
561242 CGATTTTCATTTTCGCATTGTGATTCACTCGTTGCGATTTTCATTT-AGCATTG
1 CGATTTTCA-TTTCGCATTGCGATTCACTCGTTGAGATAGTCATTTCAGCATTG
* * *
561295 CGATTTTCATTTCGCATTGCGATTCTCTCGTTGAGATAGTCATTTCCGCTTTG
1 CGATTTTCATTTCGCATTGCGATTCACTCGTTGAGATAGTCATTTCAGCATTG
** *
561348 CGATACTCAATTCCGCATTGCGAT
1 CGATTTTC-ATTTCGCATTGCGAT
561372 AGTCATTTCT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 31 0.48
53 20 0.31
54 14 0.22
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (53 bp):
CGATTTTCATTTCGCATTGCGATTCACTCGTTGAGATAGTCATTTCAGCATTG
Found at i:561388 original size:20 final size:20
Alignment explanation
Indices: 561324--561391 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
561314 CGATTCTCTC
*
561324 GTTGAGATAGTCATTTCCGCT
1 GTTGCGATAGTCATTTCCG-T
* * *
561345 -TTGCGATACTCAATTCCGC
1 GTTGCGATAGTCATTTCCGT
* *
561364 ATTGCGATAGTCATTTCTGT
1 GTTGCGATAGTCATTTCCGT
561384 GTTGCGAT
1 GTTGCGAT
561392 TTCCACGTTG
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:564205 original size:7 final size:7
Alignment explanation
Indices: 564206--564538 Score: 205
Period size: 7 Copynumber: 48.0 Consensus size: 7
564196 GTATATAGTA
*
564206 TATATTT
1 TATATAT
564213 TATATAT
1 TATATAT
564220 TATATAT
1 TATATAT
564227 TATATAT
1 TATATAT
564234 TATAT-T
1 TATATAT
564240 TATATAT
1 TATATAT
564247 TATATAT
1 TATATAT
* *
564254 CATATAG
1 TATATAT
564261 TATATAT
1 TATATAT
564268 TATATAT
1 TATATAT
* *
564275 AACATAT
1 TATATAT
564282 TATATAT
1 TATATAT
564289 TATATAT
1 TATATAT
* *
564296 CATATAG
1 TATATAT
*
564303 TATATAG
1 TATATAT
*
564310 TATAT-G
1 TATATAT
*
564316 TATTATAG
1 TA-TATAT
564324 TATATAT
1 TATATAT
564331 TATATA-
1 TATATAT
564337 TA-ATA-
1 TATATAT
*
564342 TAAATAT
1 TATATAT
564349 T-TATA-
1 TATATAT
564354 T-TATAT
1 TATATAT
564360 TATATAT
1 TATATAT
564367 TATATA-
1 TATATAT
564373 TATTATAGT
1 TA-TATA-T
*
564382 ATATATGT
1 -TATATAT
*
564390 TATAGTGT
1 TATA-TAT
564398 TATAT-T
1 TATATAT
564404 TATATTAT
1 TATA-TAT
*
564412 ATATATGT
1 -TATATAT
*
564420 TATATTT
1 TATATAT
564427 TATCATAGT
1 TAT-ATA-T
*
564436 ATATACAT
1 -TATATAT
* *
564444 T-CAGAT
1 TATATAT
**
564450 GGTATAT
1 TATATAT
*
564457 TATATAC
1 TATATAT
564464 TATAT-T
1 TATATAT
564470 ATATATAT
1 -TATATAT
*
564478 TTTAT-T
1 TATATAT
564484 TATTATAT
1 TA-TATAT
564492 TATAT-T
1 TATATAT
*
564498 AATAGTAT
1 TATA-TAT
*
564506 CTATTTAT
1 -TATATAT
564514 TATATA-
1 TATATAT
564520 TATATA-
1 TATATAT
564526 TATATAT
1 TATATAT
564533 TA-ATAT
1 TATATAT
564539 AATTTTTGGT
Statistics
Matches: 265, Mismatches: 34, Indels: 55
0.75 0.10 0.16
Matches are distributed among these distances:
5 10 0.04
6 50 0.19
7 163 0.62
8 25 0.09
9 12 0.05
10 5 0.02
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:564209 original size:2 final size:2
Alignment explanation
Indices: 564197--564532 Score: 165
Period size: 2 Copynumber: 175.5 Consensus size: 2
564187 TCCGGGATAG
*
564197 TA TA TA GTA TA TA T- TT TA TA TA T- TA TA TA T- TA TA TA T- TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
564236 TA TT TA TA TA T- TA TA TA TCA TA TA GTA TA TA T- TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA T-A TA TA -TA TA TA TA TA TA TA TA TA
* *
564277 CA TA T- TA TA TA T- TA TA TA TCA TA TA GTA TA TA GTA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA -TA TA TA -TA TA TA TA
* *
564318 T- TA TA GTA TA TA T- TA TA TA TA -A TA TA AA TA TT TA TA T- TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
564357 TA T- TA TA TA T- TA TA TA TA T- TA TA GTA TA TA TG T- TA TA GTG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* * *
564397 T- TA TA TT TA TA T- TA TA TA TA TG T- TA TA T- TT TA TCA TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA
* * *
564437 TA TA CA T- TCA GA TGG TA TA T- TA TA TA CTA TA T- TA TA TA TA
1 TA TA TA TA T-A TA T-A TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * *
564477 T- TT TA TT TA T- TA TA T- TA TA T- TA -A TA GTA TC TA TT TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
564514 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
564533 TAATATAATT
Statistics
Matches: 260, Mismatches: 29, Indels: 90
0.69 0.08 0.24
Matches are distributed among these distances:
1 30 0.12
2 204 0.78
3 26 0.10
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (2 bp):
TA
Found at i:564490 original size:23 final size:24
Alignment explanation
Indices: 564464--564530 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 24
564454 TATTATATAC
*
564464 TATATTATATATAT-TTTATTTAT
1 TATATTATATATATATCTATTTAT
564487 TATATTATATTAATAGTATCTATTTAT
1 TATATTATA-T-ATA-TATCTATTTAT
564514 TATATATATATATATAT
1 TATAT-TATATATATAT
564531 ATTAATATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 9 0.24
24 1 0.03
25 6 0.16
26 4 0.11
27 14 0.37
28 4 0.11
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (24 bp):
TATATTATATATATATCTATTTAT
Done.