Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 134 of 311
Found at i:45186533 original size:7 final size:7
Alignment explanation
Indices: 45186483--45186591 Score: 62
Period size: 7 Copynumber: 15.6 Consensus size: 7
45186473 CCCAAATCAC
*
45186483 AAACCCT
1 AAACCAT
*
45186490 AAACCAC
1 AAACCAT
**
45186497 AAACCCC
1 AAACCAT
45186504 AAACCAT
1 AAACCAT
*
45186511 AAATC-T
1 AAACCAT
*
45186517 CAAACTAT
1 -AAACCAT
45186525 AAACCAT
1 AAACCAT
45186532 AAACCCA-
1 AAA-CCAT
45186539 AAACTC-T
1 AAAC-CAT
* *
45186546 AAGCCCT
1 AAACCAT
*
45186553 AAACTAT
1 AAACCAT
*
45186560 AAACTAT
1 AAACCAT
*
45186567 AAACCCT
1 AAACCAT
45186574 AAACCAT
1 AAACCAT
*
45186581 AACCCAT
1 AAACCAT
45186588 AAAC
1 AAAC
45186592 TCTAATAACA
Statistics
Matches: 78, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
6 3 0.04
7 71 0.91
8 4 0.05
ACGTcount: A:0.50, C:0.33, G:0.01, T:0.16
Consensus pattern (7 bp):
AAACCAT
Found at i:45186582 original size:21 final size:21
Alignment explanation
Indices: 45186483--45186596 Score: 79
Period size: 21 Copynumber: 5.4 Consensus size: 21
45186473 CCCAAATCAC
* ***
45186483 AAACCCTAAACCACAAACCCC
1 AAACCCTAAACCATAAACTAT
* *
45186504 AAACCATAAATC-TCAAACTAT
1 AAACCCTAAACCAT-AAACTAT
* *
45186525 AAACCATAAACCCA-AAACTCT
1 AAACCCTAAA-CCATAAACTAT
* *
45186546 AAGCCCTAAACTATAAACTAT
1 AAACCCTAAACCATAAACTAT
* *
45186567 AAACCCTAAACCATAACCCAT
1 AAACCCTAAACCATAAACTAT
*
45186588 AAACTCTAA
1 AAACCCTAA
45186597 TAACAGTAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
20 2 0.03
21 69 0.96
22 1 0.01
ACGTcount: A:0.50, C:0.32, G:0.01, T:0.17
Consensus pattern (21 bp):
AAACCCTAAACCATAAACTAT
Found at i:45190954 original size:14 final size:14
Alignment explanation
Indices: 45190935--45190962 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45190925 TTGATCTTAG
45190935 TAAATTTAAATTAA
1 TAAATTTAAATTAA
45190949 TAAATTTAAATTAA
1 TAAATTTAAATTAA
45190963 ATATAAATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATTTAAATTAA
Found at i:45191314 original size:50 final size:50
Alignment explanation
Indices: 45191252--45191354 Score: 179
Period size: 50 Copynumber: 2.1 Consensus size: 50
45191242 AAAAGTATAA
45191252 TCATGTTATGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGTAAGC
1 TCATGTTATGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGTAAGC
* * *
45191302 TCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGGTGTGAGC
1 TCATGTTATGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGTAAGC
45191352 TCA
1 TCA
45191355 CTATATGATA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (50 bp):
TCATGTTATGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGTAAGC
Found at i:45192888 original size:49 final size:50
Alignment explanation
Indices: 45192819--45192959 Score: 187
Period size: 49 Copynumber: 2.9 Consensus size: 50
45192809 ACCATGGTTA
* * * *
45192819 ATGAGATCTCGTGTAAGACCATGTTTGGGACATGGTATCGGCATTC-GAG
1 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCAGTCTGAG
* *
45192868 ATGATATCCCGTGTAAGACCATGTCTGGGACATGGCATCAGC-GTCTGAG
1 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCAGTCTGAG
* **
45192917 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCA
1 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCA
45192960 CCAATATGTG
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
48 2 0.03
49 77 0.97
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCAGTCTGAG
Found at i:45193079 original size:42 final size:42
Alignment explanation
Indices: 45193022--45193180 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 42
45193012 TGAGTGATTT
* * *
45193022 CATATGAGACTATGTCTGGGACATGGCATCGATATGAGGTCC
1 CATATAAGACCATGTCTGGGACATGGCATCGATATGAGGACC
* * *
45193064 CGTATAAGACCATGTCTAGGATATAACATTGGCATCGATATGA-GACTT
1 CATATAAGACCATGTCT-GG----GACA-TGGCATCGATATGAGGAC-C
* *
45193112 CATATAAGACCATATCTGGGATATGGCATCGATAT-ACGGACC
1 CATATAAGACCATGTCTGGGACATGGCATCGATATGA-GGACC
*
45193154 CATGTAAGACCATGTCTGGGACATGGC
1 CATATAAGACCATGTCTGGGACATGGC
45193181 TTTGGTACTC
Statistics
Matches: 94, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.01
42 50 0.53
43 7 0.07
47 7 0.07
48 29 0.31
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (42 bp):
CATATAAGACCATGTCTGGGACATGGCATCGATATGAGGACC
Found at i:45193096 original size:90 final size:90
Alignment explanation
Indices: 45192930--45193170 Score: 218
Period size: 90 Copynumber: 2.6 Consensus size: 90
45192920 AGAGCCAATG
* * * * * *
45192930 TAAGACCATGTCTGGGACATGGCATCGGCACCAATATGTGATCCTGTATAAGACCATATCAAAGA
1 TAAGACCATATCTGGGACATGGCATC-G-A--TATACG-GA-CCCGTATAAGACCATGTCTAAGA
** * *
45192995 TATGGCTTTGGCATC-AT-TGAGTGATTTCATA
60 TATAACATTGGCATCGATATGA--GACTTCATA
* * * * *
45193026 TGAGACTATGTCTGGGACATGGCATCGATATGA-GGTCCCGTATAAGACCATGTCTAGGATATAA
1 TAAGACCATATCTGGGACATGGCATCGATAT-ACGGACCCGTATAAGACCATGTCTAAGATATAA
45193090 CATTGGCATCGATATGAGACTTCATA
65 CATTGGCATCGATATGAGACTTCATA
* * *
45193116 TAAGACCATATCTGGGATATGGCATCGATATACGGACCCATGTAAGACCATGTCT
1 TAAGACCATATCTGGGACATGGCATCGATATACGGACCCGTATAAGACCATGTCT
45193171 GGGACATGGC
Statistics
Matches: 122, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
89 1 0.01
90 85 0.70
91 3 0.02
92 6 0.05
93 1 0.01
94 1 0.01
95 1 0.01
96 24 0.20
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (90 bp):
TAAGACCATATCTGGGACATGGCATCGATATACGGACCCGTATAAGACCATGTCTAAGATATAAC
ATTGGCATCGATATGAGACTTCATA
Found at i:45195855 original size:11 final size:11
Alignment explanation
Indices: 45195827--45195859 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
45195817 TAAATTCTTG
45195827 TTATTAAATATT
1 TTATTAAA-ATT
45195839 TT-TTAAAATT
1 TTATTAAAATT
45195849 TTATTAAAATT
1 TTATTAAAATT
45195860 ATGGTGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.25
11 13 0.65
12 2 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTATTAAAATT
Found at i:45199712 original size:11 final size:11
Alignment explanation
Indices: 45199696--45199722 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45199686 TCAAAAGTAG
45199696 TTAATTTAAAT
1 TTAATTTAAAT
45199707 TTAATTTAAAT
1 TTAATTTAAAT
45199718 TTAAT
1 TTAAT
45199723 ATGCACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAATTTAAAT
Found at i:45201486 original size:24 final size:24
Alignment explanation
Indices: 45201434--45201593 Score: 117
Period size: 24 Copynumber: 6.5 Consensus size: 24
45201424 AATGACATTG
* *
45201434 GCACTAAGTGTGCGGATTTTGAATG
1 GCACTATGTGTGCGGA-TTTGAATA
*
45201459 GCACTATGTGTGCGGAATTGAATA
1 GCACTATGTGTGCGGATTTGAATA
*
45201483 GCACTATGTGTGCTGATTTGAAT-
1 GCACTATGTGTGCGGATTTGAATA
* * * * *
45201506 GTCAATACGAGTGTGTGGATTTCTAA-G
1 G-CACTA--TGTGTGCGGATTT-GAATA
* * * * *
45201533 GCACTATATGTGCGGGTTAGCATG
1 GCACTATGTGTGCGGATTTGAATA
* *
45201557 GCACTAAGTGTGCGAATTTGAATA
1 GCACTATGTGTGCGGATTTGAATA
45201581 GCACTATGTGTGC
1 GCACTATGTGTGC
45201594 CAAATCGATT
Statistics
Matches: 103, Mismatches: 26, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
23 2 0.02
24 69 0.67
25 15 0.15
26 14 0.14
27 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (24 bp):
GCACTATGTGTGCGGATTTGAATA
Found at i:45201562 original size:74 final size:75
Alignment explanation
Indices: 45201440--45201579 Score: 171
Period size: 74 Copynumber: 1.9 Consensus size: 75
45201430 ATTGGCACTA
* *
45201440 AGTGTGCGGATTTTGAATGGCACTATGTGTGCGGAATTGAATAGCACTATGTGTGCTG-ATTTGA
1 AGTGTGCGGATTTTGAATGGCACTATATGTGCGGAATTGAATAGCACTAAGTGTGC-GAATTTGA
45201504 ATGTCAATACG
65 ATGTCAATACG
* * * *
45201515 AGTGTGTGGATTTCT-AA-GGCACTATATGTGCGG-GTTAGCATGGCACTAAGTGTGCGAATTTG
1 AGTGTGCGGATTT-TGAATGGCACTATATGTGCGGAATT-GAATAGCACTAAGTGTGCGAATTTG
45201577 AAT
64 AAT
45201580 AGCACTATGT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
73 3 0.05
74 38 0.68
75 14 0.25
76 1 0.02
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (75 bp):
AGTGTGCGGATTTTGAATGGCACTATATGTGCGGAATTGAATAGCACTAAGTGTGCGAATTTGAA
TGTCAATACG
Found at i:45213645 original size:30 final size:30
Alignment explanation
Indices: 45213611--45213669 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
45213601 TACAATTTCA
*
45213611 TTTTATTTTTATTTCAATTTGGCCCTAATC
1 TTTTATTTTTATTTCAATTTAGCCCTAATC
* *
45213641 TTTTATTTTTGTTTCAATTTAGTCCTAAT
1 TTTTATTTTTATTTCAATTTAGCCCTAAT
45213670 GGCCATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.59
Consensus pattern (30 bp):
TTTTATTTTTATTTCAATTTAGCCCTAATC
Found at i:45213977 original size:14 final size:14
Alignment explanation
Indices: 45213960--45213986 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45213950 TATTTATAAA
45213960 TTTTATTATATATC
1 TTTTATTATATATC
45213974 TTTTATTATATAT
1 TTTTATTATATAT
45213987 ATCAACCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATTATATATC
Found at i:45213985 original size:28 final size:29
Alignment explanation
Indices: 45213930--45213985 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
45213920 TTACCATATT
*
45213930 ATTTATATTATCATATGTTCTATTTATAA
1 ATTTATATTATCATATCTTCTATTTATAA
*
45213959 ATTT-TATTAT-ATATCTTTTATTATATA
1 ATTTATATTATCATATCTTCTATT-TATA
45213986 TATCAACCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.42
28 10 0.42
29 4 0.17
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (29 bp):
ATTTATATTATCATATCTTCTATTTATAA
Found at i:45221866 original size:21 final size:21
Alignment explanation
Indices: 45221840--45221881 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
45221830 GTATGCAAAG
45221840 TAAGAATGATTTTTATTTTTA
1 TAAGAATGATTTTTATTTTTA
45221861 TAAGAATGATTTTTATTTTTA
1 TAAGAATGATTTTTATTTTTA
45221882 ACTCTGGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
TAAGAATGATTTTTATTTTTA
Found at i:45225353 original size:21 final size:21
Alignment explanation
Indices: 45225309--45225374 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
45225299 CATCCATGAA
* *
45225309 AAATTAGAAAAAAAAATGACT
1 AAATTAGAAAAAAAAATAAAT
* *
45225330 AAATTGGAAATAAAAATAAAT
1 AAATTAGAAAAAAAAATAAAT
* *
45225351 AAAATATGATAAATAAAATAAAT
1 AAATTA-GA-AAAAAAAATAAAT
45225374 A
1 A
45225375 TTTAATATCA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 21 0.60
22 2 0.06
23 12 0.34
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.23
Consensus pattern (21 bp):
AAATTAGAAAAAAAAATAAAT
Found at i:45225898 original size:21 final size:21
Alignment explanation
Indices: 45225874--45225913 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45225864 GCCTAGGATG
*
45225874 TGAATTGAATTAAATTGAATA
1 TGAAATGAATTAAATTGAATA
* *
45225895 TGAAATGGATTAATTTGAA
1 TGAAATGAATTAAATTGAA
45225914 ATTAAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (21 bp):
TGAAATGAATTAAATTGAATA
Found at i:45226453 original size:24 final size:25
Alignment explanation
Indices: 45226408--45226471 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
45226398 TTTATGACCG
* * *
45226408 TCCTGATATAGGCTCTTCTTGAGCT
1 TCCTGATATAGGCTCGTATTGAACT
*
45226433 TCCTGATA-CGGCTCGTATTGAACT
1 TCCTGATATAGGCTCGTATTGAACT
*
45226457 TCCTGTTATATGGCT
1 TCCTGATATA-GGCT
45226472 ATCCGGAGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 19 0.61
25 8 0.26
26 4 0.13
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.39
Consensus pattern (25 bp):
TCCTGATATAGGCTCGTATTGAACT
Found at i:45232354 original size:43 final size:43
Alignment explanation
Indices: 45232306--45232392 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
45232296 CATTTTCTAC
45232306 AACTTTTACAAAATAGTCCTTAAAGCCTTTTTCATGAAAATCT
1 AACTTTTACAAAATAGTCCTTAAAGCCTTTTTCATGAAAATCT
45232349 AACTTTTACAAAATAGTCCTTAAAGCCTTTTTCATGAAAATCT
1 AACTTTTACAAAATAGTCCTTAAAGCCTTTTTCATGAAAATCT
45232392 A
1 A
45232393 CTTAGTAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (43 bp):
AACTTTTACAAAATAGTCCTTAAAGCCTTTTTCATGAAAATCT
Found at i:45236741 original size:21 final size:21
Alignment explanation
Indices: 45236717--45236765 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
45236707 TTTCCTAGGA
*
45236717 TGTGAATTGAATTAAATTGAG
1 TGTGAAATGAATTAAATTGAG
*
45236738 TGTGAAATGGATTAAATTGA-
1 TGTGAAATGAATTAAATTGAG
*
45236758 TGTCAAAT
1 TGTGAAAT
45236766 TCATTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (21 bp):
TGTGAAATGAATTAAATTGAG
Found at i:45237447 original size:25 final size:25
Alignment explanation
Indices: 45237419--45237484 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
45237409 CGGATAAGTT
45237419 TCCTGTTATATGGCTCACATAAACA
1 TCCTGTTATATGGCTCACATAAACA
45237444 TCCTGTTATATGGCTCACATAAACA
1 TCCTGTTATATGGCTCACATAAACA
* *
45237469 CCCTGTTATGTGGCTC
1 TCCTGTTATATGGCTC
45237485 GAGAGAGTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (25 bp):
TCCTGTTATATGGCTCACATAAACA
Found at i:45240334 original size:40 final size:39
Alignment explanation
Indices: 45240275--45240360 Score: 136
Period size: 40 Copynumber: 2.2 Consensus size: 39
45240265 TAACGACTTA
*
45240275 TCGGCTAAAATGGCACTTAGTGTGCAGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
* *
45240314 TCGGCTAAAAGTGGCACTTAGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCT
45240354 TCGGCTA
1 TCGGCTA
45240361 TATTTATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
39 10 0.23
40 33 0.77
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
Found at i:45243002 original size:68 final size:67
Alignment explanation
Indices: 45242930--45243079 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
45242920 TATCATGTGT
* * *
45242930 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGAGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGAGTGGATACAAGTGAAGGACACC
45242992 ATGTAG
62 ATGTAG
** * * *
45242998 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGAGTGGATACAAGTGAAGGACACCATGT
45243063 AG
66 AG
45243065 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
45243080 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGAGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:45243035 original size:64 final size:64
Alignment explanation
Indices: 45242954--45243125 Score: 177
Period size: 67 Copynumber: 2.7 Consensus size: 64
45242944 AGACATTATG
* *
45242954 ATGTAGCTAGGTCGCATGAGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGAGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
45243018 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGAGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
45243083 AA
63 AA
* * * * *
45243085 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGAGTGATACTATGTGTACACCATGT
45243126 GTGCAAGAGA
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
63 9 0.10
64 21 0.24
65 8 0.09
66 16 0.18
67 31 0.36
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGAGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:45254709 original size:52 final size:50
Alignment explanation
Indices: 45254581--45254710 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
45254571 ATGTTACACG
** *
45254581 CATAGTAGCCTATACTTAGTACTACACACGCGACCTAACAATATGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATATCGTACA
* * * *
45254631 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-AACTGTCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAA-TATCGT--ACA
*
45254683 CATAGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
45254711 TGTGTTCTCA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 2 0.03
50 37 0.54
52 29 0.43
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATATCGTACA
Found at i:45255094 original size:19 final size:20
Alignment explanation
Indices: 45255066--45255112 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
45255056 AAGAACATGT
45255066 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
45255087 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
45255106 TATATAT
1 TATATAT
45255113 ACTTACAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:45264952 original size:13 final size:13
Alignment explanation
Indices: 45264934--45264958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45264924 TGTTGGTTCA
45264934 CACGACCGTGTCG
1 CACGACCGTGTCG
45264947 CACGACCGTGTC
1 CACGACCGTGTC
45264959 TAGCTTCATT
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:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
CACGACCGTGTCG
Found at i:45265059 original size:55 final size:55
Alignment explanation
Indices: 45264999--45265114 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
45264989 GTTCAAGCCC
* * *
45264999 CACGCCCGTGTTAATTTGA-CAGGTTC-GCCTACGGGTGTTAGACATGGGCGTGTCG
1 CACGCCCGTGTT-ATTTGAGCAGGTTCAGCC-ACGGGTCTTACACACGGGCGTGTCG
* * * *
45265054 CACGCCCGTGTTGTTTGAGCAGGTTCATCCACGGTTCTTCCACACGGGCGTGTCG
1 CACGCCCGTGTTATTTGAGCAGGTTCAGCCACGGGTCTTACACACGGGCGTGTCG
45265109 CACGCC
1 CACGCC
45265115 TAAAATATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 5 0.10
55 45 0.87
56 2 0.04
ACGTcount: A:0.15, C:0.29, G:0.30, T:0.26
Consensus pattern (55 bp):
CACGCCCGTGTTATTTGAGCAGGTTCAGCCACGGGTCTTACACACGGGCGTGTCG
Found at i:45266114 original size:13 final size:13
Alignment explanation
Indices: 45266093--45266125 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
45266083 CGTGTGTAAG
45266093 CACACGGCCTACC
1 CACACGGCCTACC
*
45266106 CATACGGCCTACC
1 CACACGGCCTACC
45266119 CACACGG
1 CACACGG
45266126 GTATGTGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (13 bp):
CACACGGCCTACC
Found at i:45279598 original size:40 final size:40
Alignment explanation
Indices: 45279495--45279742 Score: 304
Period size: 40 Copynumber: 6.2 Consensus size: 40
45279485 TATTCGAATG
* * *
45279495 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
** *
45279536 ATATCCGTACTAAGAT-CTGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
* **
45279576 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
45279616 AAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
45279656 AAATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
45279696 CTAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG--AGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
45279735 ATATCCGG
1 ATATCCGG
45279743 TTAAATTCCA
Statistics
Matches: 179, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 8 0.04
40 143 0.80
41 26 0.15
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:45370761 original size:40 final size:40
Alignment explanation
Indices: 45370652--45370773 Score: 185
Period size: 39 Copynumber: 3.1 Consensus size: 40
45370642 CGGGCTTTAA
* *
45370652 CCGGATATAG-CACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
**
45370691 CCGGATATA-TAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
45370730 CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
45370770 CCGG
1 CCGG
45370774 TTATCATCCG
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 43 0.58
40 31 0.42
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45378816 original size:40 final size:40
Alignment explanation
Indices: 45378769--45378930 Score: 204
Period size: 40 Copynumber: 4.0 Consensus size: 40
45378759 CGGGCTTTAA
* *
45378769 CCGGATATAGCCACTCACTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCACACAAATGCCTTCGGGACTTAGC
* * *
45378809 CCGGATATAGT-AGTTCGCACAAATGCCTTCGAGACTTAGC
1 CCGGATATAGTCA-CTCACACAAATGCCTTCGGGACTTAGC
* *
45378849 CCGGATATAGTAAGTCACACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCACACAAATGCCTTCGGGACTTAGC
*
45378889 CCGGA-ATTAGTCACT-AGCACAAATGCCTTCGGGACATAGC
1 CCGGATA-TAGTCACTCA-CACAAATGCCTTCGGGACTTAGC
45378929 CC
1 CC
45378931 AGTTATCATC
Statistics
Matches: 107, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTCACTCACACAAATGCCTTCGGGACTTAGC
Found at i:45386625 original size:43 final size:43
Alignment explanation
Indices: 45386577--45386662 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
45386567 TGTTTTTTTA
45386577 AATCCATATGAAAATAGACTAATTAAGCTTCAATTTCATAACT
1 AATCCATATGAAAATAGACTAATTAAGCTTCAATTTCATAACT
45386620 AATCCATATGAAAATAGACTAATTAAGCTTCAATTTCATAACT
1 AATCCATATGAAAATAGACTAATTAAGCTTCAATTTCATAACT
45386663 TACTCATCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (43 bp):
AATCCATATGAAAATAGACTAATTAAGCTTCAATTTCATAACT
Found at i:45387965 original size:30 final size:30
Alignment explanation
Indices: 45387929--45387986 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
45387919 CATTTAATAC
*
45387929 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
45387959 AAACTTTTGCATAATTACACTTTTGCCC
1 AAACTTTGGCAAAATTACACTTTTGCCC
45387987 TAGGCTCGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:45419520 original size:25 final size:25
Alignment explanation
Indices: 45419491--45419538 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
45419481 TTAAAATATG
* * *
45419491 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
45419516 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
45419539 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:45419600 original size:20 final size:20
Alignment explanation
Indices: 45419575--45419637 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
45419565 ATTTTGATAA
45419575 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
45419595 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
45419615 ACATAATATGTATGATATGC
1 ACATGATATGTATGATATGC
45419635 ACA
1 ACA
45419638 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:45419720 original size:24 final size:24
Alignment explanation
Indices: 45419691--45419857 Score: 234
Period size: 24 Copynumber: 7.0 Consensus size: 24
45419681 GAGGAAGTGC
45419691 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
45419715 AGAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
45419739 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
45419762 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
45419786 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
45419809 AAAAAAGGGCTT-TGCCTCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
45419834 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
45419858 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 7, Indels: 13
0.87 0.05 0.09
Matches are distributed among these distances:
23 50 0.39
24 51 0.40
25 19 0.15
26 9 0.07
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:45419747 original size:23 final size:23
Alignment explanation
Indices: 45419692--45419836 Score: 220
Period size: 23 Copynumber: 6.1 Consensus size: 23
45419682 AGGAAGTGCA
45419692 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
45419715 AGAAGGGCTTATGCCCCAGTTATT
1 A-AAGGGCTTATGCCCCAGTTATT
45419739 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
45419762 AAAAGGGCTTATGCCCCAATTATT
1 -AAAGGGCTTATGCCCCAGTTATT
45419786 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
45419809 AAAAAAGGGCTT-TGCCTCAGTTATT
1 ---AAAGGGCTTATGCCCCAGTTATT
45419834 AAA
1 AAA
45419837 AGAGGCTAGG
Statistics
Matches: 114, Mismatches: 3, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
22 3 0.03
23 45 0.39
24 45 0.39
25 12 0.11
26 9 0.08
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:45419761 original size:47 final size:47
Alignment explanation
Indices: 45419692--45419836 Score: 238
Period size: 47 Copynumber: 3.1 Consensus size: 47
45419682 AGGAAGTGCA
*
45419692 AAAGGGCTTATGCCCCAGTTATTAGAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
45419739 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
45419786 AAAGGGCTTATGCCCCAGTTATTAAAAAAGGGCTT-TGCCTCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT--AAAAGGGCTTATGCCCCAGTTATT
45419834 AAA
1 AAA
45419837 AGAGGCTAGG
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
47 68 0.74
48 14 0.15
49 10 0.11
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:45420085 original size:31 final size:31
Alignment explanation
Indices: 45420050--45420113 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
45420040 CGTTTACAGT
45420050 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
45420081 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
45420112 AA
1 AA
45420114 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:45427644 original size:25 final size:25
Alignment explanation
Indices: 45427615--45427662 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
45427605 TTAAAATATG
* *
45427615 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
45427640 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
45427663 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:45427713 original size:9 final size:9
Alignment explanation
Indices: 45427701--45427757 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
45427691 TTTGATAAAC
45427701 ATGATATGT
1 ATGATATGT
*
45427710 ATGATATGCAC
1 ATGATATG--T
*
45427721 ATGACATGT
1 ATGATATGT
*
45427730 ATGATATGCAC
1 ATGATATG--T
45427741 ATGATATGT
1 ATGATATGT
45427750 ATGATATG
1 ATGATATG
45427758 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:45427724 original size:20 final size:20
Alignment explanation
Indices: 45427699--45427761 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
45427689 ATTTTGATAA
45427699 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
45427719 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
45427739 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
45427759 ACA
1 ACA
45427762 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:45427849 original size:24 final size:24
Alignment explanation
Indices: 45427815--45427939 Score: 209
Period size: 24 Copynumber: 5.2 Consensus size: 24
45427805 GAGGAAGTGC
45427815 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
45427839 AGAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
45427863 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
45427886 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
45427910 AAAAAGGGGCTT-TGCCCCAGTTATT
1 -AAAA-GGGCTTATGCCCCAGTTATT
45427935 AAAAG
1 AAAAG
45427940 AAGCTAGGCC
Statistics
Matches: 96, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
23 23 0.24
24 50 0.52
25 17 0.18
26 6 0.06
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:45427885 original size:47 final size:48
Alignment explanation
Indices: 45427815--45427939 Score: 209
Period size: 47 Copynumber: 2.6 Consensus size: 48
45427805 GAGGAAGTGC
*
45427815 AAAAGGGCTTATGCCCCAGTTATTAGAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
45427863 -AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
45427910 AAAAAGGGGCTT-TGCCCCAGTTATTAAAAG
1 -AAAA-GGGCTTATGCCCCAGTTATTAAAAG
45427940 AAGCTAGGCC
Statistics
Matches: 73, Mismatches: 1, Indels: 5
0.92 0.01 0.06
Matches are distributed among these distances:
47 46 0.63
49 21 0.29
50 6 0.08
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:45429421 original size:40 final size:40
Alignment explanation
Indices: 45429361--45429659 Score: 401
Period size: 40 Copynumber: 7.5 Consensus size: 40
45429351 AAGCCAAGTA
* * *
45429361 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
45429400 CCTTC-GGATCATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCACAAATG
*
45429440 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
45429480 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
45429520 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
45429560 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45429600 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
45429641 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45429660 TTATCATCCA
Statistics
Matches: 235, Mismatches: 18, Indels: 12
0.89 0.07 0.05
Matches are distributed among these distances:
38 3 0.01
39 8 0.03
40 193 0.82
41 27 0.11
42 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:45431572 original size:31 final size:31
Alignment explanation
Indices: 45431537--45431600 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
45431527 CATTTACAGT
45431537 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
45431568 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
45431599 AA
1 AA
45431601 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:45437407 original size:20 final size:20
Alignment explanation
Indices: 45437382--45437420 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
45437372 CTTAATGAGT
45437382 CTATTTACAAAAGAAATAGA
1 CTATTTACAAAAGAAATAGA
*
45437402 CTATTTTCAAAAGAAATAG
1 CTATTTACAAAAGAAATAG
45437421 GCGGAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (20 bp):
CTATTTACAAAAGAAATAGA
Found at i:45443375 original size:43 final size:43
Alignment explanation
Indices: 45443314--45443414 Score: 143
Period size: 43 Copynumber: 2.3 Consensus size: 43
45443304 TACCCCAGGG
* *
45443314 GACACACGGCTGTGTAACGTGACCGTGTGTCGCACAC-GACTGA
1 GACACACCGCCGTGTAACGTGACCGTGTGTCGCACACGGA-TGA
*
45443357 GACACACCGCCGTGTAACGTGACCGTGTGTGGCACACGGATGA
1 GACACACCGCCGTGTAACGTGACCGTGTGTCGCACACGGATGA
45443400 GACACA-CGCCTGTGT
1 GACACACCGCC-GTGT
45443415 CTCTACCCGT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
42 4 0.08
43 47 0.89
44 2 0.04
ACGTcount: A:0.23, C:0.29, G:0.31, T:0.18
Consensus pattern (43 bp):
GACACACCGCCGTGTAACGTGACCGTGTGTCGCACACGGATGA
Found at i:45454005 original size:13 final size:14
Alignment explanation
Indices: 45453977--45454008 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
45453967 TCTTTCCTTA
45453977 CATAATGGGAATAT
1 CATAATGGGAATAT
45453991 CATAATGGG-ATAT
1 CATAATGGGAATAT
45454004 CATAA
1 CATAA
45454009 ACTTTCTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (14 bp):
CATAATGGGAATAT
Found at i:45458744 original size:406 final size:406
Alignment explanation
Indices: 45457992--45458799 Score: 1544
Period size: 406 Copynumber: 2.0 Consensus size: 406
45457982 ACCAATGTTT
* *
45457992 ATACAGTTGCCGAAAAACCTGATTTTTCAAGAGCAATATACCTGCATCAGTAACCATCTGCCATA
1 ATACAGTTGCCGAAAAACCTGATTTTTCAAGAACAACATACCTGCATCAGTAACCATCTGCCATA
45458057 ACAATCCTTGGGAGAATTTTAATATATGGTTTAGGATAAGAATAGTAATACTTTTTAGGCAGGAA
66 ACAATCCTTGGGAGAATTTTAATATATGGTTTAGGATAAGAATAGTAATACTTTTTAGGCAGGAA
45458122 TCTTACCAAACTCAAGTTATTACCATCAATTTTGAAACTGATTATCTTGTTAGATCTTTTACCTT
131 TCTTACCAAACTCAAGTTATTACCATCAATTTTGAAACTGATTATCTTGTTAGATCTTTTACCTT
* *
45458187 GATGGCTGAGTTTTGTTCCAATTGCCTTCTCTAGGGGTTGAGGCATATACTTTAAGCATAGATTC
196 GATGGCTGAGTTTTGTTCCAACTGCCTTCTCTAGGGGTTGAGGCATATACTTTAAGCATAGAATC
45458252 CTAAGAAATCTTGACTCATCATATTCTTTTCTTTCTTTCAAAAGGCATTTTAATGAGCATTTCAA
261 CTAAGAAATCTTGACTCATCATATTCTTTTCTTTCTTTCAAAAGGCATTTTAATGAGCATTTCAA
45458317 ACAATCCAGATGCTAGACTTTTGCTATTGCTAAAGTTGATTCAGGGTTGTAATTCAAGTTTCCAA
326 ACAATCCAGATGCTAGACTTTTGCTATTGCTAAAGTTGATTCAGGGTTGTAATTCAAGTTTCCAA
45458382 TGGATGCCTAAAGTTG
391 TGGATGCCTAAAGTTG
*
45458398 ATACAGTTGCCGAAAACCCTGATTTTTCAAGAACAACATACCTGCATCAGTAACCATCTGCCATA
1 ATACAGTTGCCGAAAAACCTGATTTTTCAAGAACAACATACCTGCATCAGTAACCATCTGCCATA
45458463 ACAATCCTTGGGAGAATTTTAATATATGGTTTAGGATAAGAATAGTAATACTTTTTAGGCAGGAA
66 ACAATCCTTGGGAGAATTTTAATATATGGTTTAGGATAAGAATAGTAATACTTTTTAGGCAGGAA
45458528 TCTTACCAAACTCAAGTTATTACCATCAATTTTGAAACTGATTATCTTGTTAGATCTTTTACCTT
131 TCTTACCAAACTCAAGTTATTACCATCAATTTTGAAACTGATTATCTTGTTAGATCTTTTACCTT
*
45458593 GATTGCTGAGTTTTGTTCCAACTGCCTTCTCTAGGGGTTGAGGCATATACTTTAAGCATAGAATC
196 GATGGCTGAGTTTTGTTCCAACTGCCTTCTCTAGGGGTTGAGGCATATACTTTAAGCATAGAATC
*
45458658 CTAAGAAATCTTGACTCGTCATATTCTTTTCTTTCTTTCAAAAGGCATTTTAATGAGCATTTCAA
261 CTAAGAAATCTTGACTCATCATATTCTTTTCTTTCTTTCAAAAGGCATTTTAATGAGCATTTCAA
*
45458723 ACAATCCAGGTGCTAGACTTTTGCTATTGCTAAAGTTGATTCAGGGTTGTAATTCAAGTTTCCAA
326 ACAATCCAGATGCTAGACTTTTGCTATTGCTAAAGTTGATTCAGGGTTGTAATTCAAGTTTCCAA
45458788 TGGATGCCTAAA
391 TGGATGCCTAAA
45458800 CCATATCAGG
Statistics
Matches: 394, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
406 394 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (406 bp):
ATACAGTTGCCGAAAAACCTGATTTTTCAAGAACAACATACCTGCATCAGTAACCATCTGCCATA
ACAATCCTTGGGAGAATTTTAATATATGGTTTAGGATAAGAATAGTAATACTTTTTAGGCAGGAA
TCTTACCAAACTCAAGTTATTACCATCAATTTTGAAACTGATTATCTTGTTAGATCTTTTACCTT
GATGGCTGAGTTTTGTTCCAACTGCCTTCTCTAGGGGTTGAGGCATATACTTTAAGCATAGAATC
CTAAGAAATCTTGACTCATCATATTCTTTTCTTTCTTTCAAAAGGCATTTTAATGAGCATTTCAA
ACAATCCAGATGCTAGACTTTTGCTATTGCTAAAGTTGATTCAGGGTTGTAATTCAAGTTTCCAA
TGGATGCCTAAAGTTG
Found at i:45459114 original size:15 final size:15
Alignment explanation
Indices: 45459094--45459134 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
45459084 AAGAAATCAT
45459094 CTTGCACTTATTTTC
1 CTTGCACTTATTTTC
45459109 CTTGCACTTATTTTC
1 CTTGCACTTATTTTC
45459124 CTTGCA-TTATT
1 CTTGCACTTATT
45459135 ATTTGTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.15, C:0.24, G:0.07, T:0.54
Consensus pattern (15 bp):
CTTGCACTTATTTTC
Found at i:45461800 original size:21 final size:23
Alignment explanation
Indices: 45461757--45461805 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
45461747 ATTATTATGC
*
45461757 ATTATAAAAATTAAAGTTTATAA
1 ATTATAAAAATTAAAGATTATAA
45461780 ATTAT-AAAATTAAA-ATTATAA
1 ATTATAAAAATTAAAGATTATAA
45461801 ATTAT
1 ATTAT
45461806 TAATTTGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 11 0.44
22 9 0.36
23 5 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTATAAAAATTAAAGATTATAA
Found at i:45461810 original size:14 final size:15
Alignment explanation
Indices: 45461774--45461810 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
45461764 AAATTAAAGT
45461774 TTATAAATTATAAAA
1 TTATAAATTATAAAA
45461789 TTA-AAATTAT-AAA
1 TTATAAATTATAAAA
*
45461802 TTATTAATT
1 TTATAAATT
45461811 TGAGCTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 6 0.30
14 11 0.55
15 3 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTATAAATTATAAAA
Found at i:45464691 original size:5 final size:5
Alignment explanation
Indices: 45464671--45464716 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
45464661 ATATATACAT
*
45464671 ATATC ATAT- GTA-C ATATC ATATC ATATC ATATC ATATC ATAT- ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATAT
45464717 TGTATATCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
4 8 0.22
5 29 0.78
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:45468209 original size:32 final size:32
Alignment explanation
Indices: 45468168--45468229 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
45468158 CATCTATTTT
*
45468168 CATTGTTCAACTCTTTGACTACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
* *
45468200 CATTGTTCAACTTTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
45468230 ACCAAAAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:45475865 original size:93 final size:93
Alignment explanation
Indices: 45475745--45475917 Score: 253
Period size: 93 Copynumber: 1.8 Consensus size: 93
45475735 CACATACCTG
45475745 TGCCGATGCCATGTCCCAGACATGGTCTTTACACTGACACATC-T-CGTAGCCA-ATGCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTC-TTACACTGACAC-TCATACGT-GCCAGATGCATGTCC
45475807 CAGACATGTCTTACACTGGTTCTCGTCTCAA
63 CAGACATGTCTTACACTGGTTCTCGTCTCAA
* * * *
45475838 TGCCGATGCCATGTCCCATACATGGTCTTACACTGACTCTCATAATGTGGCAGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCAT-ACGTGCCAGATGCATGTCCCA
45475903 GACATGTCTTACACT
65 GACATGTCTTACACT
45475918 AGCACACACA
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
91 2 0.03
92 12 0.17
93 29 0.40
94 29 0.40
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCATACGTGCCAGATGCATGTCCCAG
ACATGTCTTACACTGGTTCTCGTCTCAA
Found at i:45479396 original size:73 final size:74
Alignment explanation
Indices: 45479282--45479431 Score: 252
Period size: 72 Copynumber: 2.0 Consensus size: 74
45479272 GGAATTCTGT
45479282 GCATGTTGGCAAATTTAAAATTTATGTGTTCTGTCTGTGTGGGTGTAGGTTT-ATTATGTTAGGG
1 GCATGTTGGCAAATTTAAAATTTA-GTGTTCTGTCTGTGT-GGTGTAGGTTTAATTATGTTA-GG
45479346 GGCTTCTAGAAG
63 GGCTTCTAGAAG
45479358 GCATGTTGGC-AATTTAAAATTTA-TGTTCTGTCTGTGTGGTGTAGGTTTAATTATGTTAGGGGC
1 GCATGTTGGCAAATTTAAAATTTAGTGTTCTGTCTGTGTGGTGTAGGTTTAATTATGTTAGGGGC
45479421 TTCTAGAAG
66 TTCTAGAAG
45479430 GC
1 GC
45479432 CCAAGCGTAA
Statistics
Matches: 73, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
72 27 0.37
73 23 0.32
75 13 0.18
76 10 0.14
ACGTcount: A:0.21, C:0.09, G:0.29, T:0.41
Consensus pattern (74 bp):
GCATGTTGGCAAATTTAAAATTTAGTGTTCTGTCTGTGTGGTGTAGGTTTAATTATGTTAGGGGC
TTCTAGAAG
Found at i:45479447 original size:72 final size:73
Alignment explanation
Indices: 45479296--45479448 Score: 197
Period size: 72 Copynumber: 2.1 Consensus size: 73
45479286 GTTGGCAAAT
45479296 TTAAAATTTATGTGTTCTGTCTGTGTGGGTGTAGGTTTATTATGTTAGGGGGCTTCTAGAAGGCA
1 TTAAAATTTA-GTGTTCTGTCTGTGTGGGTGTAGGTTTATTATGTTAGGGGGCTTCTAGAAGGCA
* * *
45479361 TGTTGGCAAT
65 AG-TCGCAAG
45479371 TTAAAATTTA-TGTTCTGTCTGTGT-GGTGTAGGTTTAATTATGTTA-GGGGCTTCTAGAAGGCC
1 TTAAAATTTAGTGTTCTGTCTGTGTGGGTGTAGGTTT-ATTATGTTAGGGGGCTTCTAGAAGG--
*
45479433 CAAG-CGTAAG
63 CAAGTCGCAAG
45479443 TTAAAA
1 TTAAAA
45479449 CTCGGTAATT
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
72 35 0.49
73 23 0.32
74 3 0.04
75 10 0.14
ACGTcount: A:0.24, C:0.09, G:0.28, T:0.39
Consensus pattern (73 bp):
TTAAAATTTAGTGTTCTGTCTGTGTGGGTGTAGGTTTATTATGTTAGGGGGCTTCTAGAAGGCAA
GTCGCAAG
Found at i:45479485 original size:53 final size:53
Alignment explanation
Indices: 45479417--45479522 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
45479407 ATTATGTTAG
*
45479417 GGGCTTCTAGAAGGCCCAAGCGTAAGTTAAAACTCGGTAATTTTAGTTAATTC
1 GGGCCTCTAGAAGGCCCAAGCGTAAGTTAAAACTCGGTAATTTTAGTTAATTC
45479470 GGGCCTCTAGAAGGCCCAAGCGTAAGTTAAAACTCGGTAATTTTAGTTAATTC
1 GGGCCTCTAGAAGGCCCAAGCGTAAGTTAAAACTCGGTAATTTTAGTTAATTC
45479523 TAGTTCCATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (53 bp):
GGGCCTCTAGAAGGCCCAAGCGTAAGTTAAAACTCGGTAATTTTAGTTAATTC
Found at i:45481122 original size:1 final size:1
Alignment explanation
Indices: 45481111--45481152 Score: 75
Period size: 1 Copynumber: 42.0 Consensus size: 1
45481101 CGTACGTCTT
*
45481111 AAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
45481153 CTTCCGCAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.98, C:0.02, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:45481885 original size:1 final size:1
Alignment explanation
Indices: 45481879--45482005 Score: 227
Period size: 1 Copynumber: 127.0 Consensus size: 1
45481869 ATGTATTTCG
*
45481879 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
45481944 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACACAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
45482006 CCCGAATCGA
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 120 1.00
ACGTcount: A:0.98, C:0.02, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:45484994 original size:25 final size:25
Alignment explanation
Indices: 45484951--45485030 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 25
45484941 AAACAACTGT
45484951 CTCC-TAATACAGCTCCTAAATCCTC
1 CTCCTTAAT-CAGCTCCTAAATCCTC
45484976 CTCCCTT-ATCAG-TCACTAAATCCT-
1 CT-CCTTAATCAGCTC-CTAAATCCTC
45485000 CTCCTTAATCAGCTCCTAAATTCCTC
1 CTCCTTAATCAGCTCCTAAA-TCCTC
*
45485026 ATCCT
1 CTCCT
45485031 GACAGCTTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
23 4 0.09
24 14 0.30
25 20 0.43
26 8 0.17
27 1 0.02
ACGTcount: A:0.25, C:0.39, G:0.04, T:0.33
Consensus pattern (25 bp):
CTCCTTAATCAGCTCCTAAATCCTC
Found at i:45489100 original size:24 final size:24
Alignment explanation
Indices: 45489068--45489144 Score: 145
Period size: 24 Copynumber: 3.2 Consensus size: 24
45489058 AAGTCTGTCA
45489068 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
45489092 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
45489116 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
45489140 GGAGA
1 GGAGA
45489145 ACAGTGTTGG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.32, C:0.04, G:0.43, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:45490114 original size:8 final size:8
Alignment explanation
Indices: 45490101--45490130 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
45490091 CTAGATCGGC
45490101 AAAAGCCG
1 AAAAGCCG
45490109 AAAAGCCG
1 AAAAGCCG
*
45490117 AAATGCCG
1 AAAAGCCG
45490125 AAAAGC
1 AAAAGC
45490131 TGGTATTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:45490587 original size:27 final size:27
Alignment explanation
Indices: 45490549--45490651 Score: 147
Period size: 27 Copynumber: 3.8 Consensus size: 27
45490539 AAGCGTCCTG
*
45490549 GTGGCTATGCCACA-ATTATCTGATCTA
1 GTGGCTCTGCCACATA-TATCTGATCTA
45490576 GTGGCTCTGCCACATATATCTGATCTA
1 GTGGCTCTGCCACATATATCTGATCTA
* *
45490603 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACATATATCTGATCTA
45490630 GTGGCTCTGCCACGAT-TATCTG
1 GTGGCTCTGCCAC-ATATATCTG
45490652 TTCTGGCAGC
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
27 68 0.96
28 3 0.04
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
GTGGCTCTGCCACATATATCTGATCTA
Found at i:45496945 original size:24 final size:24
Alignment explanation
Indices: 45496912--45497012 Score: 166
Period size: 24 Copynumber: 4.2 Consensus size: 24
45496902 AAGTCTGTCA
*
45496912 GGAGAGGATTTAGAAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
45496936 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
45496960 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
45496984 GGAGAGGGTTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
45497008 GGAGA
1 GGAGA
45497013 ACAGTGTTGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.34, C:0.04, G:0.42, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:45498463 original size:27 final size:26
Alignment explanation
Indices: 45498425--45498553 Score: 150
Period size: 27 Copynumber: 4.8 Consensus size: 26
45498415 AAGCGTCCTG
*
45498425 GTGGCTATGCCACAATTATCTGATCTA
1 GTGGCTCTGCCAC-ATTATCTGATCTA
*
45498452 GTGGCTCTGCCACATATATCGGATCTA
1 GTGGCTCTGCCACAT-TATCTGATCTA
* *
45498479 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTA
* *
45498506 GTGGCTCTGCCACGATTATCTGTTCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTA
* *
45498533 GTGACTCTGTCACATTATCTG
1 GTGGCTCTGCCACATTATCTG
45498554 TTCTGGCAGC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
26 10 0.11
27 81 0.87
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTA
Found at i:45504755 original size:43 final size:43
Alignment explanation
Indices: 45504708--45504802 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
45504698 TCTCGTATAG
* * * *
45504708 GGTCTTACACGAAATC-GATTAACGATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAATCTCAAT-ACAAAGCCAATGTCCCAAACAT
* * *
45504751 GGTCTTACATGTAATCTCAATACAAAGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCTCAATACAAAGCCAATGTCCCAAACAT
45504794 GGTCTTACA
1 GGTCTTACA
45504803 TGTAATCACA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 42 0.95
44 2 0.05
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGAAATCTCAATACAAAGCCAATGTCCCAAACAT
Found at i:45505531 original size:33 final size:33
Alignment explanation
Indices: 45505494--45505592 Score: 189
Period size: 33 Copynumber: 3.0 Consensus size: 33
45505484 GGCTAGCTAG
45505494 AACATGAAGCAAGGATCATAAAAACATAGAAAT
1 AACATGAAGCAAGGATCATAAAAACATAGAAAT
45505527 AACATGAAGCAAGGATCATAAAAACATAGAAAT
1 AACATGAAGCAAGGATCATAAAAACATAGAAAT
*
45505560 GACATGAAGCAAGGATCATAAAAACATAGAAAT
1 AACATGAAGCAAGGATCATAAAAACATAGAAAT
45505593 CATCAAAAAC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.57, C:0.12, G:0.16, T:0.15
Consensus pattern (33 bp):
AACATGAAGCAAGGATCATAAAAACATAGAAAT
Found at i:45508521 original size:13 final size:13
Alignment explanation
Indices: 45508503--45508530 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45508493 ACATATTATA
45508503 AATATTTTGTGTT
1 AATATTTTGTGTT
45508516 AATATTTTGTGTT
1 AATATTTTGTGTT
45508529 AA
1 AA
45508531 AAAAAATAAA
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:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:45509996 original size:40 final size:40
Alignment explanation
Indices: 45509936--45510153 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
45509926 CGGATGATAA
45509936 CCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATAT
* *
45509976 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTTACTATAA
1 CCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATAT
*
45510016 CCGGACTAAGATCTGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATAT
* * *
45510056 CCGGGCTAAG-TCCCGAAGGCATTTGTGATAGTTACTATAA
1 CCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATAT
* *
45510096 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATAT
45510136 CC-GACTAA-ATCCTGAAGG
1 CCGGACTAAGATCC-GAAGG
45510154 TACTTGGGTT
Statistics
Matches: 159, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
38 4 0.03
39 13 0.08
40 140 0.88
41 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:45510065 original size:80 final size:80
Alignment explanation
Indices: 45509932--45510138 Score: 378
Period size: 80 Copynumber: 2.6 Consensus size: 80
45509922 TATTCGGATG
45509932 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
45509997 TTTGTGCTAGTTACT
66 TTTGTGATAGTTACT
*
45510012 ATAACCGGACTAAGATCTGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
45510077 TTTGTGATAGTTACT
66 TTTGTGATAGTTACT
* *
45510092 ATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCG
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCG
45510139 ACTAAATCCT
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 122 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (80 bp):
ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGATAGTTACT
Found at i:45525235 original size:50 final size:50
Alignment explanation
Indices: 45525119--45525400 Score: 232
Period size: 50 Copynumber: 5.6 Consensus size: 50
45525109 CTGGTATGCA
* * * *
45525119 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCT-AGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGA-TACACG
* * * *
45525168 TAGTAGCCTACAGTTAGTACTACACACGTGACCTGACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGATACACG
* * * * *
45525218 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAA--GTTGTCGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATT-T-GA-TACACG
* * * * * *
45525269 CAGTAGCCTGCGCTTAGTACTACACATGCGACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGATACACG
* ** * *
45525319 TAGTAGCCTGCACTTTGTACTACACACATGACCTAAAACCATCTT-AAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCAT-TTGATACACG
* *
45525371 TAGTAGCCTGCACATAGTACTATACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
45525401 TTCTTACAAT
Statistics
Matches: 180, Mismatches: 43, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
48 2 0.01
49 30 0.17
50 74 0.41
51 37 0.21
52 35 0.19
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGATACACG
Found at i:45525398 original size:153 final size:150
Alignment explanation
Indices: 45525120--45525400 Score: 402
Period size: 151 Copynumber: 1.9 Consensus size: 150
45525110 TGGTATGCAT
* *
45525120 AGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTAGTACATGTAGTAGCCTACAGTTAG
1 AGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTAGTACACGTAGTAGCCTACACTTAG
* * * * *
45525185 TACTACACACGTGACCTGACCATTTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGAT
66 TACTACACACATGACCTAACCATTTGAAACACATAGTAGCCTGCACATAGTACTACACATGTGAT
45525250 CGAAGTTGTCGAGTACGCAC
131 CGAAGTTGTCGAGTACGCAC
* * * * *
45525270 AGTAGCCTGCGCTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTGCACTTT
1 AGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCTAGTACACGTAGTAGCCTACACTTA
*
45525335 GTACTACACACATGACCTAAAACCATCTT-AAACACATAGTAGCCTGCACATAGTACTATACATG
65 GTACTACACACATGACCT--AACCAT-TTGAAACACATAGTAGCCTGCACATAGTACTACACATG
45525399 TG
127 TG
45525401 TTCTTACAAT
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
150 31 0.27
151 43 0.38
153 38 0.33
154 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (150 bp):
AGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTAGTACACGTAGTAGCCTACACTTAG
TACTACACACATGACCTAACCATTTGAAACACATAGTAGCCTGCACATAGTACTACACATGTGAT
CGAAGTTGTCGAGTACGCAC
Found at i:45527244 original size:22 final size:23
Alignment explanation
Indices: 45527196--45527245 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
45527186 ATACCATACA
* *
45527196 TTATTCTATATATTACATTTATT
1 TTATTCTAAATATTACATTTATC
45527219 TTATTCTAAA-ATATACA-TTATC
1 TTATTCTAAATAT-TACATTTATC
45527241 TTATT
1 TTATT
45527246 ACCTATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATTCTAAATATTACATTTATC
Found at i:45539420 original size:44 final size:44
Alignment explanation
Indices: 45539364--45539801 Score: 327
Period size: 44 Copynumber: 9.9 Consensus size: 44
45539354 AATCTAAGAT
* *
45539364 GATTTGGTGTCTCTGTATTGTCAGAGAGTAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
* *
45539408 GATTTGGCGTCTCTGTATTTGCCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTA-TTGTCAGAGAGCAGATCAAAGATAGCA
* * * * *
45539453 GATTTGGCGACCCTGTATTGTCAGGGAGTAGATCGAAGACATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATC-AA-AGATAGCA
* * * * *
45539499 GATTTGGCTTTCACGTGT-TTACG-CTGA-AGCAAATCTAAGAT----
1 GATTTGGC-GTCTC-TGTATT--GTCAGAGAGCAGATCAAAGATAGCA
* * *
45539540 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATTGTA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
* * * *
45539584 GATTTGGCGTCTCTGTATTTGTCAGGGAGCAGATCGAGGTTAGCA
1 GATTTGGCGTCTCTGTA-TTGTCAGAGAGCAGATCAAAGATAGCA
* * * * * *
45539629 GATTTGGCATCTCTGTATGGTCAGAGAGTAAATCAGAGATAGTA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
** * * * * * *
45539673 GATTTCACATCTATGTATTCGAC-GAGGAGCAAATCCAAGA-AACA
1 GATTTGGCGTCTCTGTATT-GTCAGA-GAGCAGATCAAAGATAGCA
** * * **
45539717 GATTTGGCAACCCTGTATTGTCAGGGAGCAGATTGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
* * *
45539761 GATTTGGCGTCTCTGTATTGTCAAAGAGTAGATCGAAGATA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATA
45539802 ATATGGTGTC
Statistics
Matches: 305, Mismatches: 70, Indels: 38
0.74 0.17 0.09
Matches are distributed among these distances:
38 1 0.00
39 6 0.02
40 17 0.06
41 8 0.03
43 13 0.04
44 135 0.44
45 93 0.30
46 16 0.05
47 10 0.03
48 5 0.02
49 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
Found at i:45539575 original size:176 final size:175
Alignment explanation
Indices: 45539301--45539801 Score: 580
Period size: 176 Copynumber: 2.8 Consensus size: 175
45539291 ATGTTTACAA
* * *
45539301 GGAGCAGATCAAAGACGTAGCAAATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGA
1 GGAGTAGATC-AAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGA
** * *
45539366 TTTGGTGTCTCTGTATTGTCAGAGAGTAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTTGCC
65 TTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTTGTC
*
45539431 AGAGAGCAGATCGAAGATAGCAGATTTGGCGA-CCCTGTATTGTCAG
130 AGAGAGCAGATCGAAGATAGCAGATTTGGC-ATCCCTGTATGGTCAG
45539477 GGAGTAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGA
1 GGAGTAGATC-AAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGA
* *
45539542 TTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATTGTAGATTTGGCGTCTCTGTATTTGTC
65 TTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTTGTC
* * * *
45539607 AGGGAGCAGATCGAGGTTAGCAGATTTGGCATCTCTGTATGGTCAG
130 AGAGAGCAGATCGAAGATAGCAGATTTGGCATCCCTGTATGGTCAG
* * * * ** * * * * * * *
45539653 AGAGTAAATC-AGAGATAGTAGATTTCAC-ATCTATGTATTCGACG-AGGAGCAAATCCAAGAAA
1 GGAGTAGATCAAGACATAGCAGATTTGGCTTTC-ACGTGTT-TACGCTGAAGCAAATCTAAG--A
* * * * **
45539715 CAGATTTGGCAACCCTGTATTGTCAGGGAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTA-T
62 -TGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
* *
45539779 TGTCAAAGAGTAGATCGAAGATA
126 TGTCAGAGAGCAGATCGAAGATA
45539802 ATATGGTGTC
Statistics
Matches: 278, Mismatches: 41, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
173 2 0.01
174 31 0.11
175 4 0.01
176 187 0.67
177 54 0.19
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (175 bp):
GGAGTAGATCAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTTGTCA
GAGAGCAGATCGAAGATAGCAGATTTGGCATCCCTGTATGGTCAG
Found at i:45561217 original size:40 final size:40
Alignment explanation
Indices: 45561193--45561277 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
45561183 ACTTTAAGCT
*
45561193 TGGATATA-GTACCAGTACGAAGCCTGCAGACCTTAAGTC
1 TGGATATAGGTACCAGTACGAAGCCTACAGACCTTAAGTC
* * *
45561232 TGGATATAGGTACCAGTACGAAGCCTGCGGATCTTAAGTC
1 TGGATATAGGTACCAGTACGAAGCCTACAGACCTTAAGTC
*
45561272 TAGATA
1 TGGATA
45561278 CAATTCCAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 8 0.19
40 34 0.81
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (40 bp):
TGGATATAGGTACCAGTACGAAGCCTACAGACCTTAAGTC
Found at i:45561236 original size:39 final size:39
Alignment explanation
Indices: 45561204--45561407 Score: 228
Period size: 40 Copynumber: 5.2 Consensus size: 39
45561194 GGATATAGTA
* * * * *
45561204 CCAGTACGAAGCCTGCAGACCTTAAGTCTGGATATAGGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCTGGATACA-ATT
* * *
45561244 CCAGTACGAAGCCTGCGGATCTTAAGTCTAGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCTGGATACAATT
* * * *
45561283 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCTGGATACAATT
*
45561323 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCTGGATACAATT
* * * *
45561362 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCTGGATACAATT
45561402 CCAGCA
1 CCAGCA
45561408 TATAGCCTGC
Statistics
Matches: 143, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
39 52 0.36
40 91 0.64
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCTGGATACAATT
Found at i:45561296 original size:79 final size:79
Alignment explanation
Indices: 45561204--45561407 Score: 239
Period size: 79 Copynumber: 2.6 Consensus size: 79
45561194 GGATATAGTA
* * * * * * *
45561204 CCAGTACGAAGCCTGC-AGACCTTAAGTCTGGATATAGGTACCAGTACGAAGCCTGCGGATCTTA
1 CCAGCACGAAGCCTGCGAGACCTTAAGCCCGGATACA-ATACCAGCACGAAGCCTGCGGACCTTA
*
45561268 AGTCTAGATACAATT
65 AGTCCAGATACAATT
* * * *
45561283 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAA
1 CCAGCACGAAGCCTGCGAGACCTTAAGCCCGGATACAATACCAGCACGAAGCCTGCGGACCTTAA
*
45561348 GTCCGGATACAATT
66 GTCCAGATACAATT
* * * *
45561362 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCA
1 CCAGCACGAAGCCTGCGAGACCTTAAGCCCGGATACAATACCAGCA
45561408 TATAGCCTGC
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 97 0.87
80 14 0.13
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (79 bp):
CCAGCACGAAGCCTGCGAGACCTTAAGCCCGGATACAATACCAGCACGAAGCCTGCGGACCTTAA
GTCCAGATACAATT
Found at i:45561309 original size:40 final size:40
Alignment explanation
Indices: 45561244--45561438 Score: 270
Period size: 40 Copynumber: 4.9 Consensus size: 40
45561234 GATATAGGTA
* * * **
45561244 CCAGTACGAAGCCTGCGGATC-TTAAGTCTAGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
45561283 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * *
45561323 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
45561362 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* *
45561402 CCAGCA-TATAGCCTGCAGGTCTTTAAGCCCGGATACA
1 CCAGCACGA-AGCCTGCGGGTCTTTAAGCCCGGATACA
45561439 CATCAAATAT
Statistics
Matches: 140, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 56 0.40
40 84 0.60
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
Found at i:45561388 original size:119 final size:118
Alignment explanation
Indices: 45561172--45561438 Score: 320
Period size: 119 Copynumber: 2.2 Consensus size: 118
45561162 CACCAACACA
* * ** * * * *
45561172 AAGCCTACGGGACTTTAAGCTTGGATATAGTACCAGTACGAAGCCTGCAGACCTTAAGTCTGGAT
1 AAGCCTGCGGGTCTTTAAGCCCGGATACAATACCAGCACGAAGCCTGCAGACCTTAAGTCCGGAT
* * * * *
45561237 ATAGGTACCAGTACGAAGCCTGCGGATCTTAAGTCTAGATACAATTCCAGCACG
66 ACAGATACCAGCACGAAGCCTGCGGATCTTAAGCCCAGATACAATTCCAGCA-G
* *
45561291 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGCGGGTCTTTAAGCCCGGATACAATACCAGCACGAAGCCTGCAGACCTTAAGTCCGGAT
* * * *
45561356 ACA-ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCAT
66 ACAGATACCAGCACGAAGCCTGCGGATC-TTAAGCCCAGATACAATTCCAGCAG
*
45561409 ATAGCCTGCAGGTCTTTAAGCCCGGATACA
1 A-AGCCTGCGGGTCTTTAAGCCCGGATACA
45561439 CATCAAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
118 21 0.17
119 105 0.83
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (118 bp):
AAGCCTGCGGGTCTTTAAGCCCGGATACAATACCAGCACGAAGCCTGCAGACCTTAAGTCCGGAT
ACAGATACCAGCACGAAGCCTGCGGATCTTAAGCCCAGATACAATTCCAGCAG
Found at i:45561415 original size:79 final size:79
Alignment explanation
Indices: 45561244--45561438 Score: 293
Period size: 79 Copynumber: 2.5 Consensus size: 79
45561234 GATATAGGTA
* * **
45561244 CCAGTACGAAGCCTGCGGATCTTAAGTCTAGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
45561309 GCCCGGATACAATT
66 GCCCGGATACAATT
45561323 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
45561388 GCCCGGATACAATT
66 GCCCGGATACAATT
* * * *
45561402 CCAGCA-TATAGCCTGCAGGTCTTTAAGCCCGGATACA
1 CCAGCACGA-AGCCTGC-GGACCTTAAGTCCGGATACA
45561439 CATCAAATAT
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 88 0.83
80 17 0.16
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (79 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
GCCCGGATACAATT
Found at i:45568022 original size:40 final size:40
Alignment explanation
Indices: 45567972--45568223 Score: 278
Period size: 40 Copynumber: 6.3 Consensus size: 40
45567962 TCTTCGGAAT
* * * *
45567972 TTAG-CCGGATATAACCACAAGCACAAATACCTTCGGATC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * * *
45568011 TCAGCCCGGATATATCAACTCGCACAAATGCCTTTGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
45568051 TTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
* * * *
45568091 TTAACCCGGGTATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
45568131 TTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
* * *
45568171 TTAACCCGGGTATATCAACTCA-CACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACT-AGCACAAATGCCTTCGGGTC
45568211 TTAGCCCGGATAT
1 TTAGCCCGGATAT
45568224 CATTCAAATG
Statistics
Matches: 174, Mismatches: 33, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
39 5 0.03
40 166 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:45568109 original size:80 final size:80
Alignment explanation
Indices: 45567972--45568222 Score: 396
Period size: 80 Copynumber: 3.1 Consensus size: 80
45567962 TCTTCGGAAT
* * * * * * * * *
45567972 TTAG-CCGGATATAACCACAAGCACAAATACCTTCGGATCTCAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATATCAACTCGCAC
*
45568036 AAATGCCTTTGGGTC
66 AAATGCCTTCGGGTC
45568051 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATATCAACTCGCAC
45568116 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
45568131 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATATCAACTCACAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATATCAACTCGCAC
45568196 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
45568211 TTAGCCCGGATA
1 TTAGCCCGGATA
45568223 TCATTCAAAT
Statistics
Matches: 160, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 4 0.03
80 156 0.98
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATATCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:45576140 original size:40 final size:40
Alignment explanation
Indices: 45576096--45576247 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 40
45576086 ATAACCACAA
* *
45576096 GCACAAATGCCTTTGGGTCTTAGCCCAGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
45576136 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
45576176 GCACAATTGCCTTCGGGTCTTAACCCGGGTATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
45576216 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
45576248 CATTCAAATG
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
39 4 0.04
40 90 0.92
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:45576209 original size:80 final size:80
Alignment explanation
Indices: 45576076--45576246 Score: 263
Period size: 80 Copynumber: 2.1 Consensus size: 80
45576066 TCTTCGAAAT
* * *
45576076 TTAG-CCGGATATAACCACAAGCACAAATGCCTTTGGGTCTTAGCCCAGATATATCAACTCGCAC
1 TTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCAGATATATCAACTCGCAC
45576140 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * * *
45576155 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATATCAACTCGCAC
1 TTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCAGATATATCAACTCGCAC
45576220 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
45576235 TTAGCCCGGATA
1 TTAGCCCGGATA
45576247 TCATTCAAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 4 0.05
80 79 0.95
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCAGATATATCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:45592787 original size:33 final size:33
Alignment explanation
Indices: 45592739--45592827 Score: 81
Period size: 33 Copynumber: 2.6 Consensus size: 33
45592729 GTTAGGAGCA
* *
45592739 TTAACCCCTTTTCAGTAACAGTAGCAGTGT-GGCC
1 TTAA-CCCATTTCAGT-ACAGTAGCAATGTGGGCC
** *
45592773 TTAACCCATTTCAGTGACAAAAGCAATTTGGGCC
1 TTAACCCATTTCAGT-ACAGTAGCAATGTGGGCC
* *
45592807 TTAGCCCATATCAGTACAGTA
1 TTAACCCATTTCAGTACAGTA
45592828 TGTAGACAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
33 23 0.52
34 21 0.48
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (33 bp):
TTAACCCATTTCAGTACAGTAGCAATGTGGGCC
Found at i:45594834 original size:27 final size:26
Alignment explanation
Indices: 45594799--45594910 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
45594789 AGCATGGCTG
* *
45594799 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
45594825 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
45594853 CCAGAATAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
45594880 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
45594907 CCAG
1 CCAG
45594911 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:45602726 original size:28 final size:28
Alignment explanation
Indices: 45602676--45602782 Score: 132
Period size: 27 Copynumber: 3.9 Consensus size: 28
45602666 GGCTACCGAA
* *
45602676 ACAGATAA-TGTGACAGAGTCACCAGAT
1 ACAGATAATTGTGGCAGAGCCACCAGAT
*
45602703 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAATTGTGGCAGAGCCACCAGAT
*
45602730 ACAGA-AATATGTGGCAAAGCCACCAGAT
1 ACAGATAAT-TGTGGCAGAGCCACCAGAT
*
45602758 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAATTGTGGCAGAGCCACCAG
45602783 GATGCTTCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.04
27 49 0.70
28 18 0.26
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (28 bp):
ACAGATAATTGTGGCAGAGCCACCAGAT
Found at i:45611979 original size:26 final size:26
Alignment explanation
Indices: 45611949--45612059 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 26
45611939 AACATGGCTG
*
45611949 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
45611975 CCAGAACAGATAATCGTGACAGAGCCA
1 CCAGAACAGATAAT-GTGACAGAGCCA
* * *
45612002 CAAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * * *
45612029 ACAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
45612056 CCAG
1 CCAG
45612060 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 15 0.21
27 55 0.76
28 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:45612486 original size:8 final size:8
Alignment explanation
Indices: 45612470--45612501 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
45612460 CTCAAAATAC
45612470 CGGCTTTT
1 CGGCTTTT
*
45612478 CGGCATTT
1 CGGCTTTT
45612486 CGGCTTTT
1 CGGCTTTT
45612494 CGGCTTTT
1 CGGCTTTT
45612502 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:45613503 original size:24 final size:24
Alignment explanation
Indices: 45613471--45613536 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
45613461 CTGTTCTTCC
*
45613471 TCAGCTCCTAAATCGTCTCCCTTA
1 TCAGCTCCTAAATCCTCTCCCTTA
45613495 TCAGCTCCTAAATCCTCTCCCTTA
1 TCAGCTCCTAAATCCTCTCCCTTA
45613519 TCAGCTCCTAAATCCTCT
1 TCAGCTCCTAAATCCTCT
45613537 TCTGACAGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.21, C:0.39, G:0.06, T:0.33
Consensus pattern (24 bp):
TCAGCTCCTAAATCCTCTCCCTTA
Found at i:45617187 original size:46 final size:46
Alignment explanation
Indices: 45617133--45617308 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
45617123 TGGTTGAGCA
*
45617133 TCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
45617179 TCCAAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
45617224 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
45617272 CCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45617309 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45617289 original size:93 final size:93
Alignment explanation
Indices: 45617130--45617300 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
45617120 GGATGGTTGA
* * *
45617130 GCATCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
*
45617195 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
45617223 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
45617288 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45617301 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45622689 original size:40 final size:40
Alignment explanation
Indices: 45622625--45622845 Score: 240
Period size: 40 Copynumber: 5.6 Consensus size: 40
45622615 TTATTCGAAT
* * *
45622625 TATATCCGGGCTAAG-TCCCAAAGGCTTTTATGCTAGTGAC
1 TATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGAC
*
45622665 TATATCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTG-C
1 TATATCCGGGCTAAGATCCGAAGGCATTTGTGCT-AG-TGAC
* *
45622705 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGAC
1 TATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGAC
45622745 TATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGAC
1 TATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGAC
* * * * **
45622785 CATATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAGTGGT
1 TATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGAC
45622824 TATATCC-GGCTAA-ATTCCGAAG
1 TATATCCGGGCTAAGA-TCCGAAG
45622846 ATGCTTGGGT
Statistics
Matches: 156, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 18 0.12
40 121 0.78
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGAC
Found at i:45626113 original size:27 final size:26
Alignment explanation
Indices: 45626056--45626167 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
45626046 CAGCATGGCT
* * *
45626056 ACCAGAATAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
45626082 ACCAGAACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAAT-GTGGCAGAGCC
45626109 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
45626136 AACAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
45626163 ACCAG
1 ACCAG
45626168 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 59 0.78
28 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:45627611 original size:24 final size:24
Alignment explanation
Indices: 45627575--45627676 Score: 177
Period size: 24 Copynumber: 4.2 Consensus size: 24
45627565 GCCAACACTG
*
45627575 CTCTCCCTAATCAGCTCCTAAATC
1 CTCTCCCTTATCAGCTCCTAAATC
*
45627599 CTCTCCCTTATCAGCTTCTAAATC
1 CTCTCCCTTATCAGCTCCTAAATC
*
45627623 CTCTCCCTTATCAGCTTCTAAATC
1 CTCTCCCTTATCAGCTCCTAAATC
45627647 CTCTCCCTTATCAGCTCCTAAATC
1 CTCTCCCTTATCAGCTCCTAAATC
45627671 CTCTCC
1 CTCTCC
45627677 TGACAGACTT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 75 1.00
ACGTcount: A:0.21, C:0.41, G:0.04, T:0.34
Consensus pattern (24 bp):
CTCTCCCTTATCAGCTCCTAAATC
Found at i:45636275 original size:46 final size:46
Alignment explanation
Indices: 45636111--45636281 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
45636101 GGTTGAGCAT
* * *
45636111 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * * *
45636156 TCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
45636201 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
*
45636249 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45636282 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
42 5 0.05
44 3 0.03
45 27 0.26
46 32 0.30
47 27 0.26
48 5 0.05
50 6 0.06
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:45639644 original size:39 final size:40
Alignment explanation
Indices: 45639567--45639713 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
45639557 TAGCTCCTCG
* * *
45639567 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
45639607 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
45639646 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
45639686 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
45639714 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:45639724 original size:80 final size:80
Alignment explanation
Indices: 45639613--45639793 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
45639603 CTCATTCAAT
* * *
45639613 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
45639676 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
45639692 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
45639756 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
45639773 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
45639794 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:45639753 original size:40 final size:40
Alignment explanation
Indices: 45639610--45639793 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
45639600 TAACTCATTC
* *
45639610 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
45639650 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
45639690 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
45639730 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
45639771 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
45639794 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:45647544 original size:80 final size:81
Alignment explanation
Indices: 45647433--45647615 Score: 225
Period size: 80 Copynumber: 2.3 Consensus size: 81
45647423 CTCATTCAAT
* * * *
45647433 GCCTTCGGGACTTAACCTGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
45647496 TAGT-ATCTT-GCACAAAG
64 TAGTCA-CTTAGCACAAAG
**
45647513 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATAT
45647577 AGTCACTTAGCACAAAG
65 AGTCACTTAGCACAAAG
*
45647594 G-CTTCGGGACTTAGCCCGGATA
1 GCCTTCGGGACTTAACCCGGATA
45647616 GCATTCAATT
Statistics
Matches: 90, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
79 7 0.08
80 71 0.79
81 12 0.13
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (81 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAAG
Found at i:45647573 original size:40 final size:40
Alignment explanation
Indices: 45647430--45647560 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
45647420 TAACTCATTC
* * *
45647430 AATGCCTTCGGGACTTAACCTGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* * *
45647470 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTTGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
45647510 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
45647550 AATACCTTCGG
1 AATGCCTTCGG
45647561 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:45651081 original size:40 final size:40
Alignment explanation
Indices: 45651033--45651108 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
45651023 GCTAAAAAAA
*
45651033 TGGCACTTAATGTGCGGTTCGAAATAGCTTCGGCTAAATG
1 TGGCACTTAATGTGCGATTCGAAATAGCTTCGGCTAAATG
* * *
45651073 TGGCACTTAGTGTGCGATTGGAGATAGCTTCGGCTA
1 TGGCACTTAATGTGCGATTCGAAATAGCTTCGGCTA
45651109 TATATGTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (40 bp):
TGGCACTTAATGTGCGATTCGAAATAGCTTCGGCTAAATG
Found at i:45653709 original size:37 final size:37
Alignment explanation
Indices: 45653661--45653761 Score: 150
Period size: 37 Copynumber: 2.7 Consensus size: 37
45653651 ATGTGGTACG
45653661 TGTAAGACCATAGCTGGGCTATGGCATCATAAT-AGCA
1 TGTAAGACCATAGCTGGGCTATGGCATCATAATGA-CA
* * * *
45653698 TGTAAGACCATAGCTGGACTAGGGCATCCTGATGACA
1 TGTAAGACCATAGCTGGGCTATGGCATCATAATGACA
45653735 TGTAAGACCATAGCTGGGCTATGGCAT
1 TGTAAGACCATAGCTGGGCTATGGCAT
45653762 TGTGATATGT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 56 0.98
38 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (37 bp):
TGTAAGACCATAGCTGGGCTATGGCATCATAATGACA
Found at i:45653865 original size:48 final size:48
Alignment explanation
Indices: 45653794--45654075 Score: 406
Period size: 48 Copynumber: 5.9 Consensus size: 48
45653784 CTGGGACATG
* *
45653794 GCATCGATATGAGATCATGTGTAAGACCATATCTGGGATATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
*
45653842 GCATCAATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
* * *
45653890 GCATCGATATGAGATCTTGTGTAAGATCATACCTGGGGTATGACATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
* * * * * *
45653938 GCATCAATATGAGATCTTATGTAAAACCATATTTGGGATATGGCATTA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
45653986 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATC-
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
* *
45654033 GACATCGATATGAGAT-TACGTGTAAGACCATATCTAGGATATG
1 G-CATCGATATGAGATCT-TGTGTAAGACCATATCTGGGATATG
45654076 GCTTCGGTAT
Statistics
Matches: 208, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
47 2 0.01
48 206 0.99
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (48 bp):
GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
Found at i:45670086 original size:14 final size:14
Alignment explanation
Indices: 45670067--45670097 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45670057 CTATTTGAAC
45670067 CTTTCTTAACCTTT
1 CTTTCTTAACCTTT
*
45670081 CTTTCTTAGCCTTT
1 CTTTCTTAACCTTT
45670095 CTT
1 CTT
45670098 CAACTATCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.29, G:0.03, T:0.58
Consensus pattern (14 bp):
CTTTCTTAACCTTT
Found at i:45674007 original size:12 final size:12
Alignment explanation
Indices: 45673990--45674016 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45673980 CATTACTTAA
45673990 TCAACTTATATG
1 TCAACTTATATG
45674002 TCAACTTATATG
1 TCAACTTATATG
45674014 TCA
1 TCA
45674017 TTTGCCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (12 bp):
TCAACTTATATG
Found at i:45684206 original size:17 final size:17
Alignment explanation
Indices: 45684160--45684207 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
45684150 TCTTTTATGT
*
45684160 TTCAATTGCATTTATATA
1 TTCAATTG-ATTGATATA
*
45684178 TCCAATAT-ATTGATATA
1 TTCAAT-TGATTGATATA
45684195 TTCAATTGATTGA
1 TTCAATTGATTGA
45684208 GTATTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 1 0.04
17 18 0.72
18 5 0.20
19 1 0.04
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (17 bp):
TTCAATTGATTGATATA
Found at i:45684296 original size:29 final size:29
Alignment explanation
Indices: 45684264--45684321 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
45684254 GTATGTGGTA
45684264 AAAAAATTTTAAGGATTAGGTGAAATGGG
1 AAAAAATTTTAAGGATTAGGTGAAATGGG
45684293 AAAAAATTTTAAGGATTAGGTGAAATGGG
1 AAAAAATTTTAAGGATTAGGTGAAATGGG
45684322 CTGAGGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (29 bp):
AAAAAATTTTAAGGATTAGGTGAAATGGG
Found at i:45696890 original size:38 final size:38
Alignment explanation
Indices: 45696832--45696944 Score: 163
Period size: 38 Copynumber: 3.0 Consensus size: 38
45696822 ATACTTTTTA
* *
45696832 TTTGGCGTTTCGATTGGATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTTTCGGTTCGATCAGCTCTTATGAGCTTCTG
*
45696870 TTTGGCATTTCGGTTCGATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTTTCGGTTCGATCAGCTCTTATGAGCTTCTG
* * * *
45696908 ATTGGCGTTTCGGTTCGATCAACTATCATGAGCTTCT
1 TTTGGCGTTTCGGTTCGATCAGCTCTTATGAGCTTCT
45696945 ACTTGATGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (38 bp):
TTTGGCGTTTCGGTTCGATCAGCTCTTATGAGCTTCTG
Found at i:45696966 original size:38 final size:38
Alignment explanation
Indices: 45696859--45696985 Score: 121
Period size: 38 Copynumber: 3.3 Consensus size: 38
45696849 ATCAGCTCTT
* * * * * *
45696859 ATGAGCTTCTGTTTGGCATTTCGGTTCGATCAGCTCTT
1 ATGAGCTTCTGATTGACGTTTCGGTTCGATCAACTATC
*
45696897 ATGAGCTTCTGATTGGCGTTTCGGTTCGATCAACTATC
1 ATGAGCTTCTGATTGACGTTTCGGTTCGATCAACTATC
* * * *
45696935 ATGAGCTTCT-ACTTGATGTTTTGGTTGGATCAACTATT
1 ATGAGCTTCTGA-TTGACGTTTCGGTTCGATCAACTATC
* *
45696973 ATGATCTTTTGAT
1 ATGAGCTTCTGAT
45696986 GTTTCATTTG
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
37 1 0.01
38 73 0.97
39 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (38 bp):
ATGAGCTTCTGATTGACGTTTCGGTTCGATCAACTATC
Found at i:45707156 original size:40 final size:40
Alignment explanation
Indices: 45707072--45707296 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
45707062 TTGAATGATG
* * * *
45707072 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
45707112 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45707152 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45707191 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45707231 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
45707272 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45707297 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45707318 original size:119 final size:119
Alignment explanation
Indices: 45707072--45707329 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
45707062 TTGAATGATG
* *
45707072 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
45707137 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
45707191 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
45707254 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
45707311 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
45707330 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:45715357 original size:40 final size:40
Alignment explanation
Indices: 45715267--45715451 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
45715257 TTGAATGATG
* * *
45715267 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
**
45715306 ATCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
45715347 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
45715386 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
45715425 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
45715452 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:45715473 original size:79 final size:79
Alignment explanation
Indices: 45715320--45715484 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
45715310 GAACTAAGAT
* **
45715320 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
45715385 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
45715399 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
45715462 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
45715478 CCGAAGG
1 CCGAAGG
45715485 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:45718572 original size:20 final size:20
Alignment explanation
Indices: 45718547--45718584 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45718537 GACTAAACTG
45718547 ACAACTT-GAGAAATTTTTAC
1 ACAACTTAGA-AAATTTTTAC
45718567 ACAACTTAGAAAATTTTT
1 ACAACTTAGAAAATTTTT
45718585 GCTATGAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (20 bp):
ACAACTTAGAAAATTTTTAC
Found at i:45724599 original size:20 final size:20
Alignment explanation
Indices: 45724574--45724618 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
45724564 TTTACCAGAG
45724574 TTTACAGTTAATTCATATCA
1 TTTACAGTTAATTCATATCA
45724594 TTTACAGTTAATTCATATCA
1 TTTACAGTTAATTCATATCA
45724614 TTTAC
1 TTTAC
45724619 TATTCATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.04, T:0.47
Consensus pattern (20 bp):
TTTACAGTTAATTCATATCA
Done.