Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold122
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: 766530
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.29
Warning! 93190 characters in sequence are not A, C, G, or T
File 5 of 5
Found at i:722192 original size:19 final size:19
Alignment explanation
Indices: 722168--722252 Score: 101
Period size: 19 Copynumber: 4.7 Consensus size: 19
722158 TAGCTTACAT
722168 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
722187 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
722206 TGTATCGATAC---AC---
1 TGTATCGATACAAAACTTA
*
722219 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
722239 TGTATCGATACAAA
1 TGTATCGATACAAA
722253 TCGTTGAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.19
16 4 0.07
19 29 0.51
20 13 0.23
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:722224 original size:13 final size:13
Alignment explanation
Indices: 722206--722230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
722196 ACAACACTTA
722206 TGTATCGATACAC
1 TGTATCGATACAC
722219 TGTATCGATACA
1 TGTATCGATACA
722231 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:722228 original size:32 final size:33
Alignment explanation
Indices: 722187--722250 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
722177 ACAAAACTTA
722187 TGTATCGATACAACAC-TTATGTATCGATACAC
1 TGTATCGATACAACACTTTATGTATCGATACAC
722219 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
722251 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.33
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAC
Found at i:723108 original size:58 final size:53
Alignment explanation
Indices: 722999--723285 Score: 230
Period size: 52 Copynumber: 5.6 Consensus size: 53
722989 TGAAGAAAAA
* ** * *
722999 TGCCAATGTGCTGAGGCAAGGCCAGCGACATCGGGCTT-AAGAATGTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATG---AA-A-GAAGG
* * * *
723057 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACA-AAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGAAGG
* *
723109 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAA-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGAAGG
*
723161 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---A-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGAAGG
* * ** *
723204 TACCAATGTGCTGATTCAAGGCCAGTTACATTGAACTT-AA-A-G-AAGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGAAGG
* *
723253 TGCAAATATGCTGATTCAAGGCCAGCTACATTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTG
723286 AATTCGTCCC
Statistics
Matches: 197, Mismatches: 24, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
43 35 0.18
44 1 0.01
46 1 0.01
48 1 0.01
49 33 0.17
51 1 0.01
52 84 0.43
54 1 0.01
55 1 0.01
58 36 0.18
59 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (53 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGAAGG
Found at i:723188 original size:104 final size:92
Alignment explanation
Indices: 723111--723285 Score: 233
Period size: 92 Copynumber: 1.9 Consensus size: 92
723101 GACAAAGACG
* *
723111 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAAAGGTGCCAATATGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCGACATTGAACTT-AA-A-GAAAAAGGTGCCAATATGCTGAT
* *
723176 TCAAGGCCAGCGATATTGGACTTAAAGGTA
63 TCAAGGCCAGCGACATTGGACTTAAAGGGA
* ** * *
723206 CCAATGTGCTGATTCAAGGCCAGTTACATTGAACTTAAAGAAGAAGGTGCAAATATGCTGATTCA
1 CCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGAAAAAGGTGCCAATATGCTGATTCA
*
723271 AGGCCAGCTACATTG
66 AGGCCAGCGACATTG
723286 AATTCGTCCC
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
92 37 0.52
93 1 0.01
94 2 0.03
95 31 0.44
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (92 bp):
CCAATATGCTGATTCAAGGCCAGCGACATTGAACTTAAAGAAAAAGGTGCCAATATGCTGATTCA
AGGCCAGCGACATTGGACTTAAAGGGA
Found at i:723242 original size:43 final size:43
Alignment explanation
Indices: 723156--723287 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 43
723146 TAAAGATGAA
* * *
723156 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTACCAATATGCTGATTCAAGGCCAGCGACATTGAACTT
* **
723199 AAAGGTACCAATGTGCTGATTCAAGGCCAGTTACATTGAACTT
1 AAAGGTACCAATATGCTGATTCAAGGCCAGCGACATTGAACTT
* * *
723242 AAAGAAGAAGGTGCAAATATGCTGATTCAAGGCCAGCTACATTGAA
1 -----A-AAGGTACCAATATGCTGATTCAAGGCCAGCGACATTGAA
723288 TTCGTCCCCA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
43 37 0.51
48 1 0.01
49 35 0.48
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (43 bp):
AAAGGTACCAATATGCTGATTCAAGGCCAGCGACATTGAACTT
Found at i:723287 original size:49 final size:49
Alignment explanation
Indices: 723044--723285 Score: 244
Period size: 52 Copynumber: 4.9 Consensus size: 49
723034 CTTAAGAATG
** * *
723044 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGAC
1 TTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
** *
723093 TTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGA--A-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
*
723145 TTAAAGATGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AA-A-GAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * ** *
723197 TT------AAAGGTACCAATGTGCTGATTCAAGGCCAGTTACATTGAAC
1 TTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
723240 TTAAAGAAGAAGGTGCAAATATGCTGATTCAAGGCCAGCTACATTG
1 TTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
723286 AATTCGTCCC
Statistics
Matches: 161, Mismatches: 20, Indels: 24
0.79 0.10 0.12
Matches are distributed among these distances:
43 37 0.23
49 40 0.25
52 78 0.48
53 3 0.02
54 1 0.01
55 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (49 bp):
TTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
Found at i:725748 original size:20 final size:21
Alignment explanation
Indices: 725669--725747 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
725659 AATGTCCAAA
*
725669 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
725689 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
725714 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
725734 TTGTATCGATACAT
1 ATGTATCGATACAT
725748 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:725752 original size:13 final size:13
Alignment explanation
Indices: 725734--725772 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
725724 ACATTTTTCT
725734 TTGTATCGATACA
1 TTGTATCGATACA
725747 TTGTATCGATACA
1 TTGTATCGATACA
*
725760 CTGTATCGATACA
1 TTGTATCGATACA
725773 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:728235 original size:20 final size:20
Alignment explanation
Indices: 728212--728284 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
728202 ACAATTCAAA
728212 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
728232 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
728253 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
728273 GTATCGATACAT
1 GTATCGATACAT
728285 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:728256 original size:21 final size:21
Alignment explanation
Indices: 728230--728305 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
728220 ACATGTTGCA
728230 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
728251 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
728271 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
728292 ATGTATCGATACAT
1 ATGTATCGATACAT
728306 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:728263 original size:41 final size:41
Alignment explanation
Indices: 728212--728305 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
728202 ACAATTCAAA
*
728212 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
728253 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
728294 GTATCGATACAT
1 GTATCGATACAT
728306 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:728362 original size:13 final size:13
Alignment explanation
Indices: 728344--728369 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
728334 TACAGCAAGT
728344 ATGTATCGATACA
1 ATGTATCGATACA
728357 ATGTATCGATACA
1 ATGTATCGATACA
728370 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:734431 original size:28 final size:28
Alignment explanation
Indices: 734357--735040 Score: 816
Period size: 28 Copynumber: 24.0 Consensus size: 28
734347 TGGCATTTCT
* * * *
734357 TTTCAAAGTCCACAACTCCGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
734385 TTT-TAAGTCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
734412 TTTCAAAGCCCACAAGTCAGTAGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
734440 TTTCAAAGCTCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
734468 -TTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* **
734495 TGTCAAAGCCCATGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
734523 TTTCAAAGCCCATATGTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
734552 TTTTAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
734581 TTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
734609 TTTCAAAGCTCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
734638 TTTCAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
734666 TTTCAAAGCCCACAAGTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
734695 TTTCAAAGCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
734723 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
734751 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
734780 TTTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
734809 TCTTCAAAGCCCACAAGTCAGTGGCACCC
1 T-TTCAAAGCCCACAAGTCAGTGGCACCC
734838 TTTCAAAGCCCACAAGTCAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
734865 TTTTAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
734893 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
734921 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * * ** *
734950 TTTCAAGGCCCACAAGCCAATGATAACTCT
1 TTTCAAAGCCCACAAGTCAGTG-GCAC-CC
* *
734980 TTTCAAAGCCCACACGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAGTGGC-AC-CC
*
735012 TTTCAAAGCCCACACAAGTTAGTGGCACC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACC
735041 TTTTTTTAAA
Statistics
Matches: 577, Mismatches: 63, Indels: 30
0.86 0.09 0.04
Matches are distributed among these distances:
27 73 0.13
28 275 0.48
29 152 0.26
30 43 0.07
31 2 0.00
32 26 0.05
33 2 0.00
34 4 0.01
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:734576 original size:57 final size:56
Alignment explanation
Indices: 734357--735040 Score: 775
Period size: 57 Copynumber: 12.0 Consensus size: 56
734347 TGGCATTTCT
* * * * *
734357 TTTCAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
734412 TTTCAAAGCCCACAAGTCAGTAGCA-CCTTTTCAAAGCTCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCC
* * **
734468 -TTCAAAGCCCACAAGTCAGTGGCACCCTGTCAAAGCCCATGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
734523 TTTCAAAGCCCATATGTTAGTGGCACTCCTTTTAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTTAAAGCCCACAAGTCAGTGGCAC-CC
* * * *
734581 TTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCTCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCAC-CC
*
734638 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCAC-CC
* *
734695 TTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
734751 TTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCA-CCC
*
734809 TCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CC
1 T-TTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * *
734865 TTTTAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * * ** *
734921 TTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAGGCCCACAAGCCAATGATAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTG-GCAC-CC
* * *
734980 TTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCACC
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACCCTTTT-AAAG-CC-CACAAGTCAGTGGCACC
735041 TTTTTTTAAA
Statistics
Matches: 540, Mismatches: 69, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
54 6 0.01
55 113 0.21
56 113 0.21
57 179 0.33
58 52 0.10
59 43 0.08
61 8 0.01
62 13 0.02
63 4 0.01
64 9 0.02
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
Found at i:735167 original size:45 final size:48
Alignment explanation
Indices: 735103--735234 Score: 137
Period size: 49 Copynumber: 2.8 Consensus size: 48
735093 TTGTCTGACA
* * *
735103 TCGCTAGCATTGAATCAGCATATT-G-ACACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGTACACCTTTCATTAGCCCAATG
* * *
735148 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGTACACCTTT-CATTAGCCCAATG
* * *
735197 TCGCTGGCCTTGAAT-TGACACATTGGCACTCCTTTCAT
1 TCGCTGGCCTTGAATCAG-CACATTGGTACACCTTTCAT
735235 CTCTAAGTCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
45 21 0.30
46 1 0.01
47 6 0.09
48 3 0.04
49 39 0.56
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32
Consensus pattern (48 bp):
TCGCTGGCCTTGAATCAGCACATTGGTACACCTTTCATTAGCCCAATG
Found at i:738834 original size:13 final size:13
Alignment explanation
Indices: 738816--738843 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
738806 CATTACTCAA
738816 TGTATCGATACAT
1 TGTATCGATACAT
738829 TGTATCGATACAT
1 TGTATCGATACAT
738842 TG
1 TG
738844 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:738838 original size:33 final size:33
Alignment explanation
Indices: 738796--738862 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
738786 GCCAAGGAAA
738796 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
738829 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
738862 T
1 T
738863 TGGGAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:739735 original size:73 final size:73
Alignment explanation
Indices: 739616--739767 Score: 304
Period size: 73 Copynumber: 2.1 Consensus size: 73
739606 TTTATCATCA
739616 TTTTAGTGATCCTAACATGTTTCTATGACCTGCCTAGGATCATCATGCATGATTGTGGCTTTGGA
1 TTTTAGTGATCCTAACATGTTTCTATGACCTGCCTAGGATCATCATGCATGATTGTGGCTTTGGA
739681 TGCGATAG
66 TGCGATAG
739689 TTTTAGTGATCCTAACATGTTTCTATGACCTGCCTAGGATCATCATGCATGATTGTGGCTTTGGA
1 TTTTAGTGATCCTAACATGTTTCTATGACCTGCCTAGGATCATCATGCATGATTGTGGCTTTGGA
739754 TGCGATAG
66 TGCGATAG
739762 TTTTAG
1 TTTTAG
739768 GATTATTGTG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 79 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (73 bp):
TTTTAGTGATCCTAACATGTTTCTATGACCTGCCTAGGATCATCATGCATGATTGTGGCTTTGGA
TGCGATAG
Found at i:745852 original size:17 final size:17
Alignment explanation
Indices: 745832--745864 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
745822 CCTCAAAAGT
*
745832 ACAAACACAAAAAAAAA
1 ACAAAAACAAAAAAAAA
745849 ACAAAAACAAAAAAAA
1 ACAAAAACAAAAAAAA
745865 GAGAGAGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (17 bp):
ACAAAAACAAAAAAAAA
Found at i:747184 original size:32 final size:31
Alignment explanation
Indices: 747147--747624 Score: 507
Period size: 32 Copynumber: 15.3 Consensus size: 31
747137 AATTCTTCAA
* *
747147 ATCTCTCTTCTCAAAGTCCATGACTCAATGGC
1 ATCTCT-TTCTCAAAGTCCACGACTCAGTGGC
* *
747179 ATCTCTTT-TCTAAGTCCACGACTTAGTGGC
1 ATCTCTTTCTCAAAGTCCACGACTCAGTGGC
*
747209 ATCAT-TTTCTTCAAAGTCCACGACTTAGTGGC
1 ATC-TCTTTC-TCAAAGTCCACGACTCAGTGGC
*
747241 ATCTCTTT-TCAAAGTCCACAACTCAGTGGC
1 ATCTCTTTCTCAAAGTCCACGACTCAGTGGC
*
747271 ATC-CTTTTCTTCAAAGTCCATGACTCAGTGGC
1 ATCTC-TTTC-TCAAAGTCCACGACTCAGTGGC
747303 ATC-CTTTTCTTCAAAGTCCACGACTCAGTGGC
1 ATCTC-TTTC-TCAAAGTCCACGACTCAGTGGC
747335 ATC-CTTTTCTTCAAAGTCCACGACTCAGTGGC
1 ATCTC-TTTC-TCAAAGTCCACGACTCAGTGGC
*
747367 ATCTCTTTC-CTAAAGTCCACGACTCAGTGCC
1 ATCTCTTTCTC-AAAGTCCACGACTCAGTGGC
*
747398 ATCTCTTTCCCAAAGTCCACGACTCAGTGGC
1 ATCTCTTTCTCAAAGTCCACGACTCAGTGGC
* *
747429 ATCTC-TTCCCAAGGTCCACGACTCAGTGGC
1 ATCTCTTTCTCAAAGTCCACGACTCAGTGGC
* *
747459 ATCT-TTTGCTTCAAAGTCCACAACTCAGTGGG
1 ATCTCTTT-C-TCAAAGTCCACGACTCAGTGGC
747491 ATCTCTTT-TCCAAAGTCCACGACTCAGTGGC
1 ATCTCTTTCT-CAAAGTCCACGACTCAGTGGC
*
747522 ATCTTTTTTCTCCAAAGTCCACGACTCAGTGGC
1 ATC-TCTTTCT-CAAAGTCCACGACTCAGTGGC
* * *
747555 ATCTTTTTTCTTCAATA-TCCATGACTCAGTAGC
1 ATC-TCTTTC-TCAA-AGTCCACGACTCAGTGGC
* * *
747588 ATCT-TTTC-CAAAAGCCCACAACTCCGTGGC
1 ATCTCTTTCTC-AAAGTCCACGACTCAGTGGC
747618 A-CTCTTT
1 ATCTCTTT
747625 TTCCTTTTAA
Statistics
Matches: 397, Mismatches: 27, Indels: 46
0.84 0.06 0.10
Matches are distributed among these distances:
29 5 0.01
30 99 0.25
31 83 0.21
32 151 0.38
33 57 0.14
34 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.32
Consensus pattern (31 bp):
ATCTCTTTCTCAAAGTCCACGACTCAGTGGC
Found at i:747256 original size:62 final size:61
Alignment explanation
Indices: 747157--747625 Score: 552
Period size: 62 Copynumber: 7.5 Consensus size: 61
747147 ATCTCTCTTC
* * * *
747157 TCAAAGTCCATGACTCAATGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATCATTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCATC-TTTTCT
* *
747219 TCAAAGTCCACGACTTAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCAT-CTTTTCT
* *
747281 TCAAAGTCCATGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCAT-CTCTT-TTCAAAGTCCACGACTCAGTGGCAT-CTTTTCT
* *
747345 TCAAAGTCCACGACTCAGTGGCATCTCTTTCCTAAAGTCCACGACTCAGTGCCATCTCTTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTC-AAAGTCCACGACTCAGTGGCATCT-TTTCT
* ** *
747407 CCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAGGTCCACGACTCAGTGGCATCTTTTGCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCATCTTTT-CT
* *
747469 TCAAAGTCCACAACTCAGTGGGATCTCTTTTCCAAAGTCCACGACTCAGTGGCATCTTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTT-CAAAGTCCACGACTCAGTGGCATC--TTTTCT
* * * *
747533 CCAAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAATA-TCCATGACTCAGTAGCATCTTTTC-
1 TCAAAGTCCACGACTCAGTGGCATC--TCTT-TTCAA-AGTCCACGACTCAGTGGCATCTTTTCT
* * *
747596 -CAAAAGCCCACAACTCCGTGGCA-CTCTTTT
1 TC-AAAGTCCACGACTCAGTGGCATCTCTTTT
747626 TCCTTTTAAG
Statistics
Matches: 358, Mismatches: 34, Indels: 33
0.84 0.08 0.08
Matches are distributed among these distances:
59 2 0.01
60 6 0.02
61 23 0.06
62 138 0.39
63 75 0.21
64 84 0.23
65 4 0.01
66 23 0.06
67 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.31
Consensus pattern (61 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:747474 original size:188 final size:186
Alignment explanation
Indices: 747147--747623 Score: 590
Period size: 188 Copynumber: 2.5 Consensus size: 186
747137 AATTCTTCAA
* * * * *
747147 ATCTCTCTTC-TCAAAGTCCATGACTCAATGGCATCTCTTTTCT-AAGTCCACGACTTAGTGGCA
1 ATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCTAAAGTCCACGACTCAGT-GCA
* * **
747210 TCATTTTCTTCAAAGTCCACGACTTAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATCC
65 TC-TTTTC-CCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACAACTCAGTGGCATCC
**
747275 TTTTCTTCAAAGTCCATGACTCAGTGGCATC-CTTTTCTTCAAAGTCCACGACTCAGTGGC
128 TTTTCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTC--CAAAGTCCACGACTCAGTGGC
747335 ATC-CTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCTAAAGTCCACGACTCAGTGCCA
1 ATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCTAAAGTCCACGACTCAGTG-CA
* *
747399 TCTCTTTCCCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAGGTCCACGACTCAGTGGCAT-CT
65 TCT-TTTCCCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACAACTCAGTGGCATCCT
*
747463 TTTGCTTCAAAGTCCACAACTCAGTGGGATCTCTTTTCCAAAGTCCACGACTCAGTGGC
129 TTT-CTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCCAAAGTCCACGACTCAGTGGC
* * * * *
747522 ATCTTTTTTCTCCAAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAATA-TCCATGACTCAGTA
1 ATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCATC-TCTTTCCT-AA-AGTCCACGACTCAGT-
* * * *
747586 GCATCTTTTCCAAAAGCCCACAACTCCGTGGCA-CTCTT
62 GCATCTTTTCCCAAAGTCCACGACTCAGTGGCATCTCTT
747624 TTTCCTTTTA
Statistics
Matches: 255, Mismatches: 23, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
187 34 0.13
188 142 0.56
189 58 0.23
190 19 0.07
191 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (186 bp):
ATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCTAAAGTCCACGACTCAGTGCAT
CTTTTCCCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACAACTCAGTGGCATCCTTT
TCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCCAAAGTCCACGACTCAGTGGC
Found at i:747665 original size:27 final size:27
Alignment explanation
Indices: 747627--747957 Score: 214
Period size: 27 Copynumber: 11.0 Consensus size: 27
747617 CACTCTTTTT
*
747627 CCTTTTAAGTCCACAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
747654 CCTTTTAAGTCCATAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
747681 CTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTC
1 C-----C-TTTT-AAGTCCACAACTCCGTGGCA--C
*
747717 TTTTTCCTTTTAAATCCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
*
747749 CCTTTCAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
747776 CCTTTCAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
747803 CTTTTTAAGCCCACAACTCCGTGGCATTC
1 CCTTTTAAGTCCACAACTCCGTGGCA--C
*
747832 TTTTTCCTTTTAAGTCCACAACTCCATGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
* *
747864 CTTTTTCTTTTTAAAG-CTCATAACTTCGTGGCACTC
1 C-----C-TTTT-AAGTC-CACAACTCCGTGGCA--C
747900 TTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
747932 CCTTTTAAGTCCACAACTCCGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
747958 TCTTTCTCCT
Statistics
Matches: 246, Mismatches: 21, Indels: 74
0.72 0.06 0.22
Matches are distributed among these distances:
27 127 0.52
29 1 0.00
32 5 0.02
33 9 0.04
34 89 0.36
35 9 0.04
36 4 0.02
41 2 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:747720 original size:95 final size:95
Alignment explanation
Indices: 747598--747997 Score: 461
Period size: 95 Copynumber: 4.3 Consensus size: 95
747588 ATCTTTTCCA
*
747598 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAG
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAG
* *
747663 TCCATAACTCTGTGGCACCTTTTTCTTTTT
66 TCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
747693 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAATCCACAACTCCGTGGCACCCTTTCAAG
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAG
747758 TCCACAACTCCGTGGCACC-----C--TTT
66 TCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
747781 CAAGTCCACAACTCCGTGGCAC-C----T--TTTTAAGCCCACAACTCCGTGGCATTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA--C-----CC
*
747839 TTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTT
59 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
747876 AAAGCTCATAACTTCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAG
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAG
* * *
747941 TCCACAACTCCGTGGCATCTTTCTCCTTTT
66 TCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
747971 -AAGCCCACAAGTCAGTGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTT
747998 CAAAAGCCCA
Statistics
Matches: 255, Mismatches: 29, Indels: 43
0.78 0.09 0.13
Matches are distributed among these distances:
81 22 0.09
83 2 0.01
87 1 0.00
88 48 0.19
90 1 0.00
93 1 0.00
94 21 0.08
95 133 0.52
96 1 0.00
100 2 0.01
102 23 0.09
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (95 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAG
TCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:747817 original size:54 final size:56
Alignment explanation
Indices: 747629--748020 Score: 234
Period size: 61 Copynumber: 6.4 Consensus size: 56
747619 CTCTTTTTCC
* * * *
747629 TTTTAAGTCCACAACTTCGTGGCA-C-CCTTTTAAGTCCATAACTCTGTGGCACCTTTTTCT
1 TTTTAAGCCCACAACTCCGTGGCATCTCCTTTTAAGTCCACAACTCCGTGGCA-C-----CT
* * *
747689 TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAATCCACAACTCCGTGGCACCC
1 TTTT-AAGCCCACAACTCCGTGGCA-TC----TCCTTTTAAGTCCACAACTCCGTGGCACCT
* * *
747751 TTTCAAGTCCACAACTCCGTGGCA-C-CCTTTCAAGTCCACAACTCCGTGGCACCT
1 TTTTAAGCCCACAACTCCGTGGCATCTCCTTTTAAGTCCACAACTCCGTGGCACCT
*
747805 TTTTAAGCCCACAACTCCGTGGCATTCTTTTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTT
1 TTTTAAGCCCACAACTCCGTGGCA-TC----TCCTTTTAAGTCCACAACTCCGTGGCA-C-----
747870 CT
55 CT
* * * *
747872 TTTTAAAGCTCATAACTTCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGCCCACAACTCCGTGGCA-TC----TCCTTTTAAGTCCACAACTCCGTGGCACCT
* * * *
747934 TTTTAAGTCCACAACTCCGTGGCATCTTTCTCCTTTTAAGCCCACAAGTCAGTGGCACCCT
1 TTTTAAGCCCACAACTCCGTGGCA----TCTCCTTTTAAGTCCACAACTCCGTGGCA-CCT
* * *
747995 TTTCAAAAGCCCACAAGTCGGTGGCA
1 TTT--TAAGCCCACAACTCCGTGGCA
748021 CCCCTTTCAA
Statistics
Matches: 268, Mismatches: 36, Indels: 53
0.75 0.10 0.15
Matches are distributed among these distances:
54 48 0.18
56 1 0.00
59 1 0.00
60 28 0.10
61 80 0.30
62 10 0.04
63 18 0.07
64 2 0.01
67 8 0.03
68 72 0.27
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.33
Consensus pattern (56 bp):
TTTTAAGCCCACAACTCCGTGGCATCTCCTTTTAAGTCCACAACTCCGTGGCACCT
Found at i:748047 original size:29 final size:30
Alignment explanation
Indices: 747971--748095 Score: 141
Period size: 29 Copynumber: 4.3 Consensus size: 30
747961 TTCTCCTTTT
*
747971 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
*
748001 AAGCCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
* *
748030 AAGCCCACAAGTTAGTGGCA-ACC-TTCAA
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
* ** * *
748058 AAGCACACAAGTTGGT-GCAACCCTTGCAA
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
748087 AAGCCCACA
1 AAGCCCACA
748096 CAAGTTGGTG
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.07
28 19 0.23
29 31 0.38
30 26 0.32
ACGTcount: A:0.32, C:0.33, G:0.18, T:0.17
Consensus pattern (30 bp):
AAGCCCACAAGTCAGTGGCACCCCTTTCAA
Found at i:748090 original size:57 final size:58
Alignment explanation
Indices: 747971--748095 Score: 164
Period size: 57 Copynumber: 2.2 Consensus size: 58
747961 TTCTCCTTTT
* * * *
747971 AAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCA
1 AAGCCCACAAGTCAGTGGCAACC-TTTCAAAAGCACACAAGTCGGTGGCAACCCTTGCA
* *
748030 AAGCCCACAAGTTAGTGGCAACC-TTCAAAAGCACACAAGTTGGT-GCAACCCTTGCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTCAAAAGCACACAAGTCGGTGGCAACCCTTGC-A
748087 AAGCCCACA
1 AAGCCCACA
748096 CAAGTTGGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
56 9 0.15
57 29 0.49
59 21 0.36
ACGTcount: A:0.32, C:0.33, G:0.18, T:0.17
Consensus pattern (58 bp):
AAGCCCACAAGTCAGTGGCAACCTTTCAAAAGCACACAAGTCGGTGGCAACCCTTGCA
Found at i:748229 original size:48 final size:48
Alignment explanation
Indices: 748112--748475 Score: 359
Period size: 48 Copynumber: 7.9 Consensus size: 48
748102 GGTGACGTCT
* * * * **
748112 TCTTCTAAGTCCAATGTCGTTGGCCTTGAATAAGCACATTGGTACCTTCA
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTTG
* * * *
748162 TCTTTAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACTTTG
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTG
* *
748210 TCTTTAAGACCAATGTCGCTAGCTTTGAATCAGCACATTGGCA-----
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTG
* * * *
748253 -C---AAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACTTTG
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTG
748297 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-----
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTG
* * * *
748340 -C---AAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACTTTG
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTG
* *
748384 TCTTTAAGACCAATGTCGCTGGCCTTGAATCATCATATTGGCACTTTG
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTG
* * *
748432 TCTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTAGCAC
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
748476 AAGCCCAATA
Statistics
Matches: 259, Mismatches: 37, Indels: 38
0.78 0.11 0.11
Matches are distributed among these distances:
39 66 0.25
42 2 0.01
45 2 0.01
48 152 0.59
49 33 0.13
50 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (48 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTG
Found at i:748277 original size:39 final size:39
Alignment explanation
Indices: 748219--748968 Score: 483
Period size: 39 Copynumber: 17.8 Consensus size: 39
748209 GTCTTTAAGA
* * * *
748219 CCAATGTCGCTAGCTTTGAATCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
* *
748258 CCAATATCGCTGGCCTTGAATCAGTATATTGGCACTTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA------C---AAGC
* *
748306 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
* *
748345 CCAATATCGCTGGCCTTGAATCAGTATATTGGCACTTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA------C---AAGC
* * *
748393 CCAATGTCGCTGGCCTTGAATCATCATATTGGCACTTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA------C---AAGC
* * * * *
748441 CCAATGTCACTAGCCTTGAATCAGCACATTAGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
*
748480 CCAATATCACTGGCC-T---T--G-A-A-TGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
*
748510 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA------C---AAGC
* *
748558 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
*
748597 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
* *
748636 CCAATATCGCTGGCCTTGAATTAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
* *
748675 CCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA------C---AAGC
* *
748723 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
* ** * *
748762 CTAATATCATTGGCCTTGAATCAGCATTTTGGCACTTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA------C---AAGC
* *
748810 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
* *
748849 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA------C---AAGC
* * * * *
748897 CCAATGTTGCTAGCCTTGAATCAGCACATTGGCACAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
748936 CCAATATCGCTGGCCTTGAATCAGCATATTGGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGC
748969 GCCTTTGTCA
Statistics
Matches: 575, Mismatches: 73, Indels: 126
0.74 0.09 0.16
Matches are distributed among these distances:
30 23 0.04
31 2 0.00
32 1 0.00
33 1 0.00
34 1 0.00
35 1 0.00
36 1 0.00
37 1 0.00
38 2 0.00
39 287 0.50
42 6 0.01
45 6 0.01
48 243 0.42
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
Found at i:748313 original size:87 final size:87
Alignment explanation
Indices: 748167--749122 Score: 1129
Period size: 87 Copynumber: 11.0 Consensus size: 87
748157 CTTCATCTTT
* *
748167 AAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTAG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
*
748232 CTTTGAATCAGCACATTGGCAC
66 CCTTGAATCAGCACATTGGCAC
*
748254 AAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
748319 CCTTGAATCAGCACATTGGCAC
66 CCTTGAATCAGCACATTGGCAC
*
748341 AAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
* *
748406 CCTTGAATCATCATATTGGCACTTTGTC
66 CCTTGAATCAGCACATTGGCA------C
* * * * * * * * *
748434 TTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTAGCA------C---AAGCCCAATATCAC
1 ---AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGC
748490 TGGCCTT------G-A-A-TGGCAC
63 TGGCCTTGAATCAGCACATTGGCAC
748506 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
748571 CCTTGAATCAGCACATTGGCAC
66 CCTTGAATCAGCACATTGGCAC
* * *
748593 AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCA------C---AAGCCCAATATCGCTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
*
748649 CCTTGAATTAGCACATTGGCAC
66 CCTTGAATCAGCACATTGGCAC
*
748671 AAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
748736 CCTTGAATCAGCACATTGGCAC
66 CCTTGAATCAGCACATTGGCAC
* ** *
748758 AAGCCTAATATCATTGGCCTTGAATCAGCATTTTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
748823 CCTTGAATCAGCACATTGGCAC
66 CCTTGAATCAGCACATTGGCAC
* * * *
748845 AAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTTGCTAG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
748910 CCTTGAATCAGCACATTGGCAC
66 CCTTGAATCAGCACATTGGCAC
* * *
748932 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTCAAGTCCAATGTCG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACTTTGTC-T-TT-AAGACCAATGTCG
* **
748997 CTCGCCTTGAATCAATACATTGGCACCTTCATC
62 CTGGCCTTGAATCAGCACATTGG------CA-C
* * *
749030 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCTCCTTCGTCATCTTTAAGACCAATG
1 ---AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACTT--T-GTCTTTAAGACCAATG
*
749095 TCACTGGCCTTGAATCAGCACATTGGCA
59 TCGCTGGCCTTGAATCAGCACATTGGCA
749123 TCTTCAGCTT
Statistics
Matches: 752, Mismatches: 64, Indels: 98
0.82 0.07 0.11
Matches are distributed among these distances:
69 32 0.04
72 1 0.00
75 1 0.00
78 95 0.13
79 1 0.00
80 1 0.00
81 1 0.00
84 2 0.00
85 1 0.00
86 1 0.00
87 460 0.61
88 6 0.01
89 1 0.00
90 3 0.00
91 31 0.04
93 1 0.00
95 2 0.00
96 31 0.04
97 2 0.00
98 1 0.00
101 72 0.10
102 2 0.00
103 2 0.00
104 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (87 bp):
AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
CCTTGAATCAGCACATTGGCAC
Found at i:748397 original size:135 final size:135
Alignment explanation
Indices: 748258--748500 Score: 425
Period size: 135 Copynumber: 1.8 Consensus size: 135
748248 TGGCACAAGC
* *
748258 CCAATATCGCTGGCCTTGAATCAGT-ATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCA-TCATATTGGCACTTTGTCTTTAAGACCAATGTCACTAGCCT
* *
748322 TGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACTTTGTCT
65 TGAATCAGCACATTAGCACAAGCCCAATATCACTGGCCTTGAATCAGTATATTGGCACTTTGTCT
748387 TTAAGA
130 TTAAGA
*
748393 CCAATGTCGCTGGCCTTGAATCATCATATTGGCACTTTGTCTTTAAGACCAATGTCACTAGCCTT
1 CCAATATCGCTGGCCTTGAATCATCATATTGGCACTTTGTCTTTAAGACCAATGTCACTAGCCTT
748458 GAATCAGCACATTAGCACAAGCCCAATATCACTGGCCTTGAAT
66 GAATCAGCACATTAGCACAAGCCCAATATCACTGGCCTTGAAT
748501 GGCACAAGCC
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
134 1 0.01
135 101 0.99
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (135 bp):
CCAATATCGCTGGCCTTGAATCATCATATTGGCACTTTGTCTTTAAGACCAATGTCACTAGCCTT
GAATCAGCACATTAGCACAAGCCCAATATCACTGGCCTTGAATCAGTATATTGGCACTTTGTCTT
TAAGA
Found at i:748508 original size:30 final size:30
Alignment explanation
Indices: 748472--748530 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
748462 CAGCACATTA
748472 GCACAAGCCCAATATCACTGGCCTTGAATG
1 GCACAAGCCCAATATCACTGGCCTTGAATG
*
748502 GCACAAGCCCAATATCGCTGGCCTTGAAT
1 GCACAAGCCCAATATCACTGGCCTTGAAT
748531 CAGCATATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (30 bp):
GCACAAGCCCAATATCACTGGCCTTGAATG
Found at i:748758 original size:252 final size:254
Alignment explanation
Indices: 748167--749122 Score: 1061
Period size: 252 Copynumber: 3.7 Consensus size: 254
748157 CTTCATCTTT
* *
748167 AAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTAG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
* *
748232 CTTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACTTTG
66 CCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTG
748297 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
131 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
* * *
748362 GAATCAGTATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCATCATATTGGCA
196 GAATCAGCATATTGGCA-----TC--TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
748427 CTTTGTC
254 ------C
* * * * * * * * *
748434 TTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTAGCA------C---AAGCCCAATATCAC
1 ---AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGC
748490 TGGCC-T---T--G-A-A-TGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACT
63 TGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACT
*
748546 TTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGTTGGC
128 TTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGC
* * *
748611 CTTGAATCAGCATATTGGCA-C-AAGCCCAATATCGCTGGCCTTGAATTAGCACATTGGCAC
193 CTTGAATCAGCATATTGGCATCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
*
748671 AAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
* ** *
748736 CCTTGAATCAGCACATTGGCACAAGCCTAATATCATTGGCCTTGAATCAGCATTTTGGCACTTTG
66 CCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTG
748801 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
131 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
* * *
748866 AAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTTGCTAGCCTTGAATCAGCACATTGGCA
196 GAATCAGCATATTGGCA-----TC--TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
748931 C
254 C
* * *
748932 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTCAAGTCCAATGTCG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACTTTGTC-T-TT-AAGACCAATGTCG
* ** *
748997 CTCGCCTTGAATCAATACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
62 CTGGCCTTGAATCAGCACATTGG------CA-C---AAGCCCAATATCGCTGGCCTTGAATCAGC
* * *
749062 ATATTGGCTCCTTCGTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCA
117 ATATTGGC-ACTT--T-GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
749123 TCTTCAGCTT
Statistics
Matches: 585, Mismatches: 56, Indels: 81
0.81 0.08 0.11
Matches are distributed among these distances:
234 31 0.05
237 1 0.00
240 1 0.00
243 49 0.08
244 1 0.00
246 1 0.00
247 1 0.00
249 1 0.00
250 1 0.00
251 1 0.00
252 253 0.43
253 1 0.00
254 1 0.00
255 1 0.00
257 1 0.00
258 1 0.00
260 1 0.00
261 83 0.14
262 7 0.01
263 1 0.00
264 3 0.01
265 32 0.05
270 31 0.05
271 2 0.00
272 1 0.00
275 32 0.05
276 3 0.01
278 1 0.00
279 42 0.07
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (254 bp):
AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
CCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTG
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
GAATCAGCATATTGGCATCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:749009 original size:52 final size:52
Alignment explanation
Indices: 748931--749300 Score: 244
Period size: 52 Copynumber: 7.3 Consensus size: 52
748921 CACATTGGCA
* *
748931 CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 CAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * **
748983 CAAGTCCAATGTCGCTCGCCTTGAATCAATACATTGGCACC--T-TCATCTT
1 CAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * * *
749032 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCTCCTTCGTCATCTT
1 CAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * * * * *
749084 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCA--TCT-TCAGCTT
1 CAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * *** * * * * **
749133 TAAGTCCGATATTATTGACCTTGAATCAACATATTGGCATCTTTAACATTCCTT
1 CAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCA-T-CTT
* * * ** * *
749187 -AAGCCCAATGTCGTTGGCCTTGTCTTAGCACATTGGCA----T-TCTTCTT
1 CAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * * * * *
749233 CAAGTCTAATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCG-CATCTT
1 CAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTTTGTCATCTT
* *
749285 CGAGCCCAATATCGCT
1 CAAGTCCAATATCGCT
749301 ACCTGCATGT
Statistics
Matches: 243, Mismatches: 60, Indels: 30
0.73 0.18 0.09
Matches are distributed among these distances:
46 3 0.01
47 31 0.13
48 1 0.00
49 79 0.33
50 2 0.01
51 2 0.01
52 95 0.39
53 27 0.11
54 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.33
Consensus pattern (52 bp):
CAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
Found at i:749053 original size:49 final size:51
Alignment explanation
Indices: 748932--749171 Score: 254
Period size: 49 Copynumber: 4.7 Consensus size: 51
748922 ACATTGGCAC
* *
748932 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCATCTTT
* * ** *
748984 AAGTCCAATGTCGCTCGCCTTGAATCAATACATTGGCACC-T-TCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTT
*
749033 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCTCCTTCGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCATCTTT
* * * * * *
749085 AAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCATC-T-TCAGCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTT
* *** * *
749134 AAGTCCGATATTATTGACCTTGAATCAACATATTGGCA
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
749172 TCTTTAACAT
Statistics
Matches: 157, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
49 78 0.50
50 2 0.01
51 1 0.01
52 76 0.48
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (51 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTT
Found at i:749107 original size:101 final size:101
Alignment explanation
Indices: 748932--749170 Score: 334
Period size: 101 Copynumber: 2.4 Consensus size: 101
748922 ACATTGGCAC
* * *
748932 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTCAAGTCCAATGTCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTCAAGACCAATGTCA
* *
748997 CTCGCCTTGAATCAATACATTGGCACCTTCATCTTT
66 CTCGCCTTGAATCAACACATTGGCACCTTCAGCTTT
* *
749033 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCTCCTTCGTCATCTTTAAGACCAATGTCA
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTCAAGACCAATGTCA
* * *
749098 CTGGCCTTGAATCAGCACATTGGCATCTTCAGCTTT
66 CTCGCCTTGAATCAACACATTGGCACCTTCAGCTTT
* *** * *
749134 AAGTCCGATATTATTGACCTTGAATCAACATATTGGC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
749171 ATCTTTAACA
Statistics
Matches: 122, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 122 1.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (101 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTCAAGACCAATGTCA
CTCGCCTTGAATCAACACATTGGCACCTTCAGCTTT
Found at i:750161 original size:13 final size:13
Alignment explanation
Indices: 750143--750170 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
750133 CATTAATCAA
750143 TGTATCGATACAT
1 TGTATCGATACAT
750156 TGTATCGATACAT
1 TGTATCGATACAT
750169 TG
1 TG
750171 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:750165 original size:33 final size:33
Alignment explanation
Indices: 750123--750223 Score: 105
Period size: 33 Copynumber: 3.0 Consensus size: 33
750113 GCCGAGGAAA
750123 TGTATCGATACATTAATCAATGTATCGATACAT
1 TGTATCGATACATTAATCAATGTATCGATACAT
* ** ** *
750156 TGTATCGATACATTGATCTTTGTAT-TTTACCCAGA
1 TGTATCGATACATTAATCAATGTATCGATA--CA-T
*
750191 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTAATCAATGTATCGATACAT
750224 GCAGGCCAAT
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
32 2 0.04
33 22 0.43
34 4 0.08
35 21 0.41
36 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTAATCAATGTATCGATACAT
Found at i:760225 original size:19 final size:20
Alignment explanation
Indices: 760182--760233 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
760172 CACACCCAGA
* *
760182 TGTATCGATACATTATGCTT
1 TGTATCGATACATGATGCAT
*
760202 TGTATCGATACATGCT-CAT
1 TGTATCGATACATGATGCAT
760221 TGTATCGATACAT
1 TGTATCGATACAT
760234 ACCCAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATGATGCAT
Found at i:760244 original size:20 final size:19
Alignment explanation
Indices: 760163--760251 Score: 79
Period size: 20 Copynumber: 4.5 Consensus size: 19
760153 ACCTTTGAAA
* *
760163 GTATCGATACACACCCAGAT
1 GTATCGATACATACCCA-TT
** *
760183 GTATCGATACATTATGCTTT
1 GTATCGATACA-TACCCATT
* *
760203 GTATCGATACATGCTCATT
1 GTATCGATACATACCCATT
760222 GTATCGATACATACCCAATT
1 GTATCGATACATACCC-ATT
*
760242 GTATTGATAC
1 GTATCGATAC
760252 GTGAAACTGG
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
19 18 0.33
20 35 0.64
21 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (19 bp):
GTATCGATACATACCCATT
Found at i:760306 original size:20 final size:20
Alignment explanation
Indices: 760281--760348 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
760271 CGCTAGGTGA
760281 AATGTATCGATACATAGGAC
1 AATGTATCGATACATAGGAC
760301 AATGTATCGATACAT-----
1 AATGTATCGATACATAGGAC
760316 --TGTATCGATACATAGGAC
1 AATGTATCGATACATAGGAC
760334 AATGTATCGATACAT
1 AATGTATCGATACAT
760349 TGTATCGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 13 0.32
20 28 0.68
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATAGGAC
Found at i:760321 original size:13 final size:13
Alignment explanation
Indices: 760303--760361 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
760293 CATAGGACAA
760303 TGTATCGATACAT
1 TGTATCGATACAT
760316 TGTATCGATACA-
1 TGTATCGATACAT
* *
760328 --TA--G-GACAA
1 TGTATCGATACAT
760336 TGTATCGATACAT
1 TGTATCGATACAT
760349 TGTATCGATACAT
1 TGTATCGATACAT
760362 GAAGAATTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
7 3 0.08
8 1 0.03
10 4 0.11
12 1 0.03
13 28 0.76
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:760325 original size:33 final size:33
Alignment explanation
Indices: 760283--760385 Score: 163
Period size: 33 Copynumber: 3.1 Consensus size: 33
760273 CTAGGTGAAA
760283 TGTATCGATACATAGGACAATGTATCGATACAT
1 TGTATCGATACATAGGACAATGTATCGATACAT
760316 TGTATCGATACATAGGACAATGTATCGATACAT
1 TGTATCGATACATAGGACAATGTATCGATACAT
* * *
760349 TGTATCGATACATGAAGA-ATTGTATTGATACAT
1 TGTATCGATACAT-AGGACAATGTATCGATACAT
760382 TGTA
1 TGTA
760386 CCCAACGACT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
33 63 0.95
34 3 0.05
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATAGGACAATGTATCGATACAT
Done.