Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 72 of 332
Found at i:22120049 original size:20 final size:20
Alignment explanation
Indices: 22120011--22120049 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22120001 TACTGATGAA
* *
22120011 CTACTGTTTATACAGACGAT
1 CTACTGGTTATACAAACGAT
*
22120031 CTACTGGTTATATAAACGA
1 CTACTGGTTATACAAACGA
22120050 ATTATAGTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (20 bp):
CTACTGGTTATACAAACGAT
Found at i:22120302 original size:127 final size:127
Alignment explanation
Indices: 22120076--22120329 Score: 499
Period size: 127 Copynumber: 2.0 Consensus size: 127
22120066 ATAGAAATTA
22120076 ATTGCCATAATGTTATGTGAATTACATGGTATTGATGATTTTACATGCTTATGCATTTGGCAAAT
1 ATTGCCATAATGTTATGTGAATTACATGGTATTGATGATTTTACATGCTTATGCATTTGGCAAAT
*
22120141 TTGGTTGGATTGTATTGAAATACGAACAAATGTTATATATGTGAATCGAGATATATGTGGTT
66 TTGGTTGGATTGTATTGAAATACGAACAAATGTTATATATGTGAATCGAGATATAGGTGGTT
22120203 ATTGCCATAATGTTATGTGAATTACATGGTATTGATGATTTTACATGCTTATGCATTTGGCAAAT
1 ATTGCCATAATGTTATGTGAATTACATGGTATTGATGATTTTACATGCTTATGCATTTGGCAAAT
22120268 TTGGTTGGATTGTATTGAAATACGAACAAATGTTATATATGTGAATCGAGATATAGGTGGTT
66 TTGGTTGGATTGTATTGAAATACGAACAAATGTTATATATGTGAATCGAGATATAGGTGGTT
22120330 TAATCACATA
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 126 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (127 bp):
ATTGCCATAATGTTATGTGAATTACATGGTATTGATGATTTTACATGCTTATGCATTTGGCAAAT
TTGGTTGGATTGTATTGAAATACGAACAAATGTTATATATGTGAATCGAGATATAGGTGGTT
Found at i:22122293 original size:90 final size:90
Alignment explanation
Indices: 22122140--22122321 Score: 337
Period size: 90 Copynumber: 2.0 Consensus size: 90
22122130 TTCGATGGAT
* *
22122140 AAACCATGACTTACATGTGACTTGAGATCTTGCATGTGTTGTAGAAAAGGATTTAGCCTGGACGG
1 AAACCATGACTTACATGTGACTTGAGATCTTACATGTGTTGTAGAAAAAGATTTAGCCTGGACGG
22122205 GTAATCCGTTGATCTCAAATATAGG
66 GTAATCCGTTGATCTCAAATATAGG
*
22122230 AAACCATGATTTACATGTGACTTGAGATCTTACATGTGTTGTAGAAAAAGATTTAGCCTGGACGG
1 AAACCATGACTTACATGTGACTTGAGATCTTACATGTGTTGTAGAAAAAGATTTAGCCTGGACGG
22122295 GTAATCCGTTGATCTCAAATATAGG
66 GTAATCCGTTGATCTCAAATATAGG
22122320 AA
1 AA
22122322 GGATCTAGCC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (90 bp):
AAACCATGACTTACATGTGACTTGAGATCTTACATGTGTTGTAGAAAAAGATTTAGCCTGGACGG
GTAATCCGTTGATCTCAAATATAGG
Found at i:22124970 original size:24 final size:25
Alignment explanation
Indices: 22124942--22125005 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
22124932 TCAACCGAAT
* * *
22124942 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
22124966 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
22124991 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
22125006 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:22125109 original size:26 final size:24
Alignment explanation
Indices: 22125037--22125102 Score: 132
Period size: 24 Copynumber: 2.8 Consensus size: 24
22125027 GACATTCAAA
22125037 TCCGCACACATAGTGCCATTTAAT
1 TCCGCACACATAGTGCCATTTAAT
22125061 TCCGCACACATAGTGCCATTTAAT
1 TCCGCACACATAGTGCCATTTAAT
22125085 TCCGCACACATAGTGCCA
1 TCCGCACACATAGTGCCA
22125103 ATGTTAACTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.26
Consensus pattern (24 bp):
TCCGCACACATAGTGCCATTTAAT
Found at i:22125179 original size:94 final size:94
Alignment explanation
Indices: 22125064--22125339 Score: 507
Period size: 94 Copynumber: 2.9 Consensus size: 94
22125054 ATTTAATTCC
* *
22125064 GCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAAT
1 GCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAAT
*
22125129 TTACTTAATTCAAATAGAATATAAAATCT
66 TTACTTAATTCAAATAGCATATAAAATCT
*
22125158 GCACACAAAGTGACATTTAATTCTGCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAAT
1 GCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAAT
22125223 TTACTTAATTCAAATAGCATATAAAATCT
66 TTACTTAATTCAAATAGCATATAAAATCT
*
22125252 GCACACAAAGTGACATTTAATTCCGCACATATAGTGCCAATGTTAACTCATTATAATAAGGCAAT
1 GCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAAT
22125317 TTACTTAATTCAAATAGCATATA
66 TTACTTAATTCAAATAGCATATA
22125340 CGGTCACATT
Statistics
Matches: 176, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 176 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (94 bp):
GCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAAT
TTACTTAATTCAAATAGCATATAAAATCT
Found at i:22131347 original size:28 final size:28
Alignment explanation
Indices: 22131307--22131361 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
22131297 CGGCCCCGCG
22131307 CTTCCTAATCAAATCCACAGGATGTTTT
1 CTTCCTAATCAAATCCACAGGATGTTTT
*
22131335 CTTCCTAATCAAATCTACAGGATGTTT
1 CTTCCTAATCAAATCCACAGGATGTTT
22131362 ACTCGGCCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (28 bp):
CTTCCTAATCAAATCCACAGGATGTTTT
Found at i:22132557 original size:24 final size:25
Alignment explanation
Indices: 22132529--22132592 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
22132519 TCAACCGAAT
* * *
22132529 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
*
22132553 TCGCACACATAATGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
22132578 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
22132593 TGGAATTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.31, G:0.14, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:22132738 original size:94 final size:94
Alignment explanation
Indices: 22132621--22132902 Score: 528
Period size: 94 Copynumber: 3.0 Consensus size: 94
22132611 ATCGACATTC
* * *
22132621 AAATCTGTACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
22132686 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
22132715 AAATCTGCACACAAAGTGACATTTAATTCTGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
22132780 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
22132809 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
22132874 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
22132903 CGGTCACATT
Statistics
Matches: 183, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 183 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:22143483 original size:39 final size:40
Alignment explanation
Indices: 22143379--22143543 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
22143369 AGACTAAGAT
* *
22143379 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
22143419 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
22143459 CCGAAGGCA-TTGTGTGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
22143498 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
22143537 CCGAAGG
1 CCGAAGG
22143544 TACTTGGGTT
Statistics
Matches: 118, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 53 0.45
40 65 0.55
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:22143504 original size:79 final size:78
Alignment explanation
Indices: 22143379--22143543 Score: 269
Period size: 79 Copynumber: 2.1 Consensus size: 78
22143369 AGACTAAGAT
22143379 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGC-AGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
*
22143444 TATCCGGGCTAAGTC
65 TATCC-GGCTAAATC
* *
22143459 CCGAAGGCATTGTGTG-AGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTA
1 CCGAAGGCATT-TGTGCAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
22143523 TATCCGGCTAAATC
65 TATCCGGCTAAATC
22143537 CCGAAGG
1 CCGAAGG
22143544 TACTTGGGTT
Statistics
Matches: 81, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
78 15 0.19
79 51 0.63
80 11 0.14
81 4 0.05
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
ATCCGGCTAAATC
Found at i:22144025 original size:15 final size:15
Alignment explanation
Indices: 22144005--22144034 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22143995 AGGACTGACC
22144005 CTTTTTGTAATGTAT
1 CTTTTTGTAATGTAT
22144020 CTTTTTGTAATGTAT
1 CTTTTTGTAATGTAT
22144035 ATTCGTATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
CTTTTTGTAATGTAT
Found at i:22151948 original size:48 final size:47
Alignment explanation
Indices: 22151892--22152112 Score: 203
Period size: 48 Copynumber: 4.6 Consensus size: 47
22151882 ATAAGGTCTC
* * * *
22151892 GTGTAAGACTATGTTTGGGATATGGCATC-GCCGTTGATATCTGAGTCA
1 GTGTAAGACAATGTCTGGGACATGGCATCAG-CGTTGATATGTGAG-CA
*
22151940 GTGTAAGACAATGTCTGGGACATGGCATCAGGGTTGATATGTGAGCCA
1 GTGTAAGACAATGTCTGGGACATGGCATCAGCGTTGATATGTGAG-CA
* * * * * *
22151988 GTGTAACACCATGTCTAGGTCATGGCATCAGTGTGGATATGTGAGCTA
1 GTGTAAGACAATGTCTGGGACATGGCATCAGCGTTGATATGTGAGC-A
* ** * * *
22152036 GTGTAAGACAATGTTTGGGACATGGCATTGGCGCTGACATGTGTGCTA
1 GTGTAAGACAATGTCTGGGACATGGCATCAGCGTTGATATGTGAGC-A
* *
22152084 GTATAAGATCAA-GTCTGAGACATGGCATC
1 GTGTAAGA-CAATGTCTGGGACATGGCATC
22152113 GGCACAGGCA
Statistics
Matches: 142, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.01
48 137 0.96
49 4 0.03
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTAAGACAATGTCTGGGACATGGCATCAGCGTTGATATGTGAGCA
Found at i:22158422 original size:27 final size:26
Alignment explanation
Indices: 22158386--22158497 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 26
22158376 AGCATGGCTG
** *
22158386 CCAGAATAGACGATGTGGCAGAGTCA
1 CCAGAATAGAAAATGTGGCAGAGCCA
*
22158412 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGA-ATAGAAAAT-GTGGCAGAGCCA
*
22158440 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAATAGAAA-ATGTGGCAGAGCCA
* * *
22158467 CCAG-ATCAGATAATTATGGCATAGCCA
1 CCAGAAT-AGA-AAATGTGGCAGAGCCA
22158494 CCAG
1 CCAG
22158498 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.08
27 46 0.64
28 20 0.28
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (26 bp):
CCAGAATAGAAAATGTGGCAGAGCCA
Found at i:22158432 original size:28 final size:29
Alignment explanation
Indices: 22158400--22158497 Score: 109
Period size: 27 Copynumber: 3.6 Consensus size: 29
22158390 AATAGACGAT
* *
22158400 GTGGCAGAGTCACCAGATATAGATAAT-C
1 GTGGCAGAGCCACCAGATACAGATAATAC
*
22158428 GTGGCAGAGCCACCAGA-ACAGA-AATAT
1 GTGGCAGAGCCACCAGATACAGATAATAC
22158455 GTGGCAGAGCCACCAGAT-CAGATAATTA-
1 GTGGCAGAGCCACCAGATACAGATAA-TAC
*
22158483 -TGGCATAGCCACCAG
1 GTGGCAGAGCCACCAG
22158498 GACGCTTCCT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
26 3 0.05
27 39 0.63
28 18 0.29
29 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.26, T:0.16
Consensus pattern (29 bp):
GTGGCAGAGCCACCAGATACAGATAATAC
Found at i:22159942 original size:24 final size:24
Alignment explanation
Indices: 22159915--22159985 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
22159905 CTAGATTTCC
**
22159915 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
* *
22159939 TCCCTTTTCAACTCGTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
22159963 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
22159986 CTCCTGATAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.24, C:0.37, G:0.03, T:0.37
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:22166153 original size:27 final size:27
Alignment explanation
Indices: 22166091--22166200 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
22166081 AGCATGGCTG
* * *
22166091 CCAGAACAGACAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
22166117 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
*
22166145 CCAGAACAGA-AATATGTGGCAGAACCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
22166172 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
22166199 CC
1 CC
22166201 GGGACGCTTC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 45 0.63
28 18 0.25
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.15
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:22166182 original size:54 final size:54
Alignment explanation
Indices: 22166091--22166200 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
22166081 AGCATGGCTG
* **
22166091 CCAGAACAGACAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAACCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
22166145 CCAGAACAGAAATATGTGGCAGAACCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAACCACCAGATACAGATAATCGTGGCAGAGCCA
22166199 CC
1 CC
22166201 GGGACGCTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAACCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:22167577 original size:13 final size:13
Alignment explanation
Indices: 22167559--22167588 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
22167549 CTAGCCAAAT
22167559 TCCCATGCTAAAG
1 TCCCATGCTAAAG
22167572 TCCCATGCTAAAG
1 TCCCATGCTAAAG
22167585 TCCC
1 TCCC
22167589 TTGGCCGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.37, G:0.13, T:0.23
Consensus pattern (13 bp):
TCCCATGCTAAAG
Found at i:22167659 original size:24 final size:24
Alignment explanation
Indices: 22167632--22167678 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
22167622 CTAGATTTCC
** *
22167632 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTACTAAATCCTA
22167656 TCCCTTATCAACTACTAAATCCT
1 TCCCTTATCAACTACTAAATCCT
22167679 CTCCTGACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.36, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTACTAAATCCTA
Found at i:22169391 original size:48 final size:48
Alignment explanation
Indices: 22169288--22169454 Score: 163
Period size: 48 Copynumber: 3.5 Consensus size: 48
22169278 ATAAGGTCCC
* * * * * * * *
22169288 GTGTAAGACCATGTCTAGGACATGGCATCGGCATCGATATGAGACCCT
1 GTGTAAGACCATATCTGGGACATAGCATCGGCGTTGATATGTGAGCCA
* * * * *
22169336 GTATAAGACCATATCTTGGATATAGCATTGGCGTTGATATTTGAGCCA
1 GTGTAAGACCATATCTGGGACATAGCATCGGCGTTGATATGTGAGCCA
* * * *
22169384 GTGTAAGACCATGTCTGGGACATGGGATCGGCGTTGATATGTGAGGCA
1 GTGTAAGACCATATCTGGGACATAGCATCGGCGTTGATATGTGAGCCA
* *
22169432 GTGTAAGACCATGTCTGAGACAT
1 GTGTAAGACCATATCTGGGACAT
22169455 TATAATAGCC
Statistics
Matches: 97, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 97 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATATCTGGGACATAGCATCGGCGTTGATATGTGAGCCA
Found at i:22170250 original size:28 final size:28
Alignment explanation
Indices: 22170197--22170253 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
22170187 AATTCCAGCC
*
22170197 TAGGGGAAAAGTGTAAATATGCAAAGTT
1 TAGGGGAAAAGTGTAAATATGAAAAGTT
* *
22170225 TAGGGGCAAAATTGT-AATTTGAAAAGTT
1 TAGGGG-AAAAGTGTAAATATGAAAAGTT
22170253 T
1 T
22170254 GTGTTAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.30
Consensus pattern (28 bp):
TAGGGGAAAAGTGTAAATATGAAAAGTT
Found at i:22175393 original size:68 final size:66
Alignment explanation
Indices: 22175321--22175492 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
22175311 CATCATGTGT
* * * *
22175321 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
22175384 TGTAG
62 TGTAG
** * *
22175389 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
22175454 AG
65 AG
* * * *
22175456 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
22175493 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:22175426 original size:64 final size:64
Alignment explanation
Indices: 22175345--22175528 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
22175335 AGACATTATG
* * *
22175345 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
22175409 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
22175474 AA
63 AA
* * * *
22175476 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACTATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
22175529 CAAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 25 0.26
66 21 0.21
67 33 0.34
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:22177352 original size:48 final size:48
Alignment explanation
Indices: 22177296--22177403 Score: 153
Period size: 48 Copynumber: 2.2 Consensus size: 48
22177286 GGGTGTTACA
* * *
22177296 GACATGGCATCAATATGGATATGTGAGCTAGTGTAAGACCATGTCTGG
1 GACATGGCATCAACATGGATATGTGAGCTACTGTAAGACCATGTATGG
** * *
22177344 GACATGGCATCGGCATTGATATGTGAGCTACTTTAAGACCATGTATGG
1 GACATGGCATCAACATGGATATGTGAGCTACTGTAAGACCATGTATGG
22177392 GACATGGCATCA
1 GACATGGCATCA
22177404 GCACTGACAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (48 bp):
GACATGGCATCAACATGGATATGTGAGCTACTGTAAGACCATGTATGG
Found at i:22177433 original size:48 final size:48
Alignment explanation
Indices: 22177320--22177417 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
22177310 ATGGATATGT
* * * * * * *
22177320 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGT
1 GAGCTACTATAAGACCATGTATGGGACATGGCATCAGCACTGACATGA
*
22177368 GAGCTACTTTAAGACCATGTATGGGACATGGCATCAGCACTGACATGA
1 GAGCTACTATAAGACCATGTATGGGACATGGCATCAGCACTGACATGA
22177416 GA
1 GA
22177418 TTTTGTATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
GAGCTACTATAAGACCATGTATGGGACATGGCATCAGCACTGACATGA
Found at i:22181031 original size:40 final size:40
Alignment explanation
Indices: 22180983--22181178 Score: 315
Period size: 40 Copynumber: 4.9 Consensus size: 40
22180973 GGACTAAGAT
*
22180983 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
22181023 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
22181063 CCGAAGGCATTTGTGCTAGTGACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
22181103 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
22181143 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAA
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAA
22181179 ATTCCAAAGG
Statistics
Matches: 148, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 6 0.04
40 140 0.95
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:22191520 original size:43 final size:43
Alignment explanation
Indices: 22191472--22191635 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 43
22191462 GTTATCGAGA
* * * *
22191472 TGTGATTACATGAAAGACCATGTCTGGGACATTGGTATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACAATGGCATCGTAT
* * *
22191515 TGTGATT--GTGTAAGACCATGTGTGGGACACTGGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACAATGGCATCGTAT
* * * * *
22191556 TATGATTTCGTGTAAGACCCTGTCTGGGATAATGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACAATGGCATCGTAT
* * *
22191598 ATGTGATGACATGTAAGACCATATCTGGGA-TATGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACAATGGCAT
22191636 TGTGTGAACT
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 34 0.34
42 9 0.09
43 57 0.57
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACAATGGCATCGTAT
Found at i:22195502 original size:15 final size:15
Alignment explanation
Indices: 22195470--22195498 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22195460 ATTTTCTGTG
22195470 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
22195485 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
22195499 ATTTGCTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:22213265 original size:37 final size:37
Alignment explanation
Indices: 22213215--22213293 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
22213205 TTATTACGAA
* *
22213215 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
22213252 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
22213289 GTCTT
1 GTCTT
22213294 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:22213490 original size:47 final size:47
Alignment explanation
Indices: 22213412--22213565 Score: 236
Period size: 47 Copynumber: 3.3 Consensus size: 47
22213402 CCCTTCGGGA
* * * * * *
22213412 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22213459 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22213506 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22213553 CTTATCACATATA
1 CTTATCACATATA
22213566 CATCGGCCAT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 97 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22213570 original size:28 final size:28
Alignment explanation
Indices: 22213537--22213593 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
22213527 CACATTCATC
22213537 ACATCGGCCATTAGGCCTTATCACATAT
1 ACATCGGCCATTAGGCCTTATCACATAT
22213565 ACATCGGCCATTAGGCCTTATCACATAT
1 ACATCGGCCATTAGGCCTTATCACATAT
22213593 A
1 A
22213594 TACACTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
ACATCGGCCATTAGGCCTTATCACATAT
Found at i:22213576 original size:75 final size:75
Alignment explanation
Indices: 22213490--22213640 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
22213480 CACATTCATC
22213490 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
22213555 TATCACATAT
66 TATCACATAT
22213565 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
22213630 TATCACATAT
66 TATCACATAT
22213640 A
1 A
22213641 TACACTTTCA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (75 bp):
ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
TATCACATAT
Found at i:22213618 original size:47 final size:47
Alignment explanation
Indices: 22213565--22213903 Score: 642
Period size: 47 Copynumber: 7.1 Consensus size: 47
22213555 TATCACATAT
22213565 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
22213612 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
22213659 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
22213708 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
22213755 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
22213802 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
22213851 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
22213898 ACATCG
1 ACATCG
22213904 AATCCTAAAT
Statistics
Matches: 288, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
47 194 0.67
49 94 0.33
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
Found at i:22213727 original size:96 final size:94
Alignment explanation
Indices: 22213565--22213903 Score: 642
Period size: 96 Copynumber: 3.6 Consensus size: 94
22213555 TATCACATAT
22213565 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
22213630 TATCACATATATACACTTTCACATTCATC
66 TATCACATATATACACTTTCACATTCATC
22213659 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 ACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22213724 CTTATCACATATATACACTTTCACATTCATC
64 CTTATCACATATATACACTTTCACATTCATC
22213755 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
22213820 TATCACATATATATACACTTTCACATTCATC
66 TATCAC--ATATATACACTTTCACATTCATC
22213851 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
22213904 AATCCTAAAT
Statistics
Matches: 241, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
94 71 0.29
96 170 0.71
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (94 bp):
ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
TATCACATATATACACTTTCACATTCATC
Found at i:22213728 original size:143 final size:143
Alignment explanation
Indices: 22213565--22213903 Score: 678
Period size: 143 Copynumber: 2.4 Consensus size: 143
22213555 TATCACATAT
22213565 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
22213630 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
66 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
22213695 TTTCACATTCATC
131 TTTCACATTCATC
22213708 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
22213773 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
66 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
22213838 TTTCACATTCATC
131 TTTCACATTCATC
22213851 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
22213904 AATCCTAAAT
Statistics
Matches: 196, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 196 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (143 bp):
ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
TTTCACATTCATC
Found at i:22217362 original size:24 final size:24
Alignment explanation
Indices: 22217334--22217385 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
22217324 GTGCAGATGG
22217334 CTTGAGTTATTGAAAGATTATGAT
1 CTTGAGTTATTGAAAGATTATGAT
22217358 CTTGAGTTATTGAAAGATTATGAT
1 CTTGAGTTATTGAAAGATTATGAT
22217382 CTTG
1 CTTG
22217386 TCATTGACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (24 bp):
CTTGAGTTATTGAAAGATTATGAT
Found at i:22219707 original size:20 final size:21
Alignment explanation
Indices: 22219674--22219716 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
22219664 GGACTAAAAT
22219674 AAAAAGTTCCAAAATTTGATG
1 AAAAAGTTCCAAAATTTGATG
* *
22219695 AAAAA-TTCTAAAATTTTATG
1 AAAAAGTTCCAAAATTTGATG
22219715 AA
1 AA
22219717 TAATGTGCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (21 bp):
AAAAAGTTCCAAAATTTGATG
Found at i:22223158 original size:40 final size:40
Alignment explanation
Indices: 22222950--22223147 Score: 191
Period size: 40 Copynumber: 5.0 Consensus size: 40
22222940 TAATTATTGA
* * * *
22222950 TGATTGCACATAGGTGCCCTTGTTTGTACTTCTGTACCCC
1 TGATTGCACATACGTGCCCATGTTTGTAATTCGGTACCCC
* *
22222990 TGATTGCACATACGTGCCCATGTTTGTAATTCAGTGCCCC
1 TGATTGCACATACGTGCCCATGTTTGTAATTCGGTACCCC
* * * * * *
22223030 TGATTACATATACATGCCCATGTTTATAATTTGGTACCCT
1 TGATTGCACATACGTGCCCATGTTTGTAATTCGGTACCCC
** * *
22223070 TGATTGCACATATATGCCC-TAGTTTGTAGTTTGGTACCCC
1 TGATTGCACATACGTGCCCAT-GTTTGTAATTCGGTACCCC
* * * * *
22223110 TAAATGCACATACGTGCCCTTATTTGTACTTCGGTACC
1 TGATTGCACATACGTGCCCATGTTTGTAATTCGGTACC
22223148 ACTAAATGCA
Statistics
Matches: 130, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 128 0.98
41 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCATGTTTGTAATTCGGTACCCC
Found at i:22223177 original size:120 final size:120
Alignment explanation
Indices: 22222950--22223192 Score: 254
Period size: 120 Copynumber: 2.0 Consensus size: 120
22222940 TAATTATTGA
* * * * *
22222950 TGATTGCACATAGGTGCCCTTGTTTGTACTTCTGTACCCCTGATTGCACATACGTGCCCATGTTT
1 TGATTGCACATAGATGCCCTAGTTTGTACTTCTGTACCCCTAAATGCACATACGTGCCCATATTT
* * * * * * * *
22223015 GTAATTCAGTGCCCCTGATTACATATACATGCCCATGTTTATAATTTGGTACCCT
66 GTAATTCAGTACCACTAAATACACATACATGCCCATGATTATAATCTGGTAACCT
* * *
22223070 TGATTGCACATATATGCCCTAGTTTGTAGTT-TGGTACCCCTAAATGCACATACGTGCCCTTATT
1 TGATTGCACATAGATGCCCTAGTTTGTACTTCT-GTACCCCTAAATGCACATACGTGCCCATATT
* * * * * * * *
22223134 TGTACTTCGGTACCACTAAATGCACCTACGTTCCCCTGATTATACTCTGGTAACCT
65 TGTAATTCAGTACCACTAAATACACATACATGCCCATGATTATAATCTGGTAACCT
22223190 TGA
1 TGA
22223193 ATCAAATAGT
Statistics
Matches: 98, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
119 1 0.01
120 97 0.99
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (120 bp):
TGATTGCACATAGATGCCCTAGTTTGTACTTCTGTACCCCTAAATGCACATACGTGCCCATATTT
GTAATTCAGTACCACTAAATACACATACATGCCCATGATTATAATCTGGTAACCT
Found at i:22224662 original size:40 final size:40
Alignment explanation
Indices: 22224584--22224807 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
22224574 ACCCAAGTAT
* *
22224584 CTTCGGGATTTAG-CCGGATATAG-CATCTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCA-CTAGCACAAATGC
* **
22224623 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
22224663 CTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
22224703 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
22224746 CTTCGGGACTTAGCCTGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
22224786 CTTCGAGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
22224808 CATCCGAATA
Statistics
Matches: 161, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 12 0.07
40 112 0.70
41 2 0.01
43 35 0.22
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:22224780 original size:83 final size:79
Alignment explanation
Indices: 22224584--22224807 Score: 279
Period size: 83 Copynumber: 2.8 Consensus size: 79
22224574 ACCCAAGTAT
* * * * *
22224584 CTTCGGGATTTAGCCGGATATAGCATCTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
**
22224649 ACTAGCATGAATGC
66 ACTAGCACAAATGC
* * *
22224663 CTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAG-CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
22224727 CAACTACTCGCACAAATGC
65 C-ACTA---GCACAAATGC
* *
22224746 CTTCGGGACTTAGCCTGGATATAGTAACTTGCACAAATGCCTTCGAGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCC-GGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
22224808 CATCCGAATA
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
79 13 0.10
80 47 0.38
82 2 0.02
83 62 0.50
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:22232889 original size:40 final size:40
Alignment explanation
Indices: 22232814--22233031 Score: 280
Period size: 40 Copynumber: 5.4 Consensus size: 40
22232804 CAAGTATCTA
* *
22232814 CGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTT
* **
22232853 CGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTT
22232893 CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTT
* * *
22232933 CGGGACTTAGCTCGGGTATAG-CAACTACTCGTACAAATGCCTT
1 CGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGCCTT
* *
22232976 CGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTT
22233016 CGGGACTTAGCCCGGA
1 CGGGACTTAGCCCGGA
22233032 AATCATCCGA
Statistics
Matches: 156, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 9 0.06
40 112 0.72
41 1 0.01
43 34 0.22
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTT
Found at i:22232995 original size:83 final size:80
Alignment explanation
Indices: 22232814--22233031 Score: 280
Period size: 83 Copynumber: 2.7 Consensus size: 80
22232804 CAAGTATCTA
* * *
22232814 CGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCA
1 CGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCA
**
22232877 CTAGCATGAATGCCTT
65 CTAGCACAAATGCCTT
* *
22232893 CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCTCGGGTATAG-CAA
1 CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC-A
*
22232957 CTACTCGTACAAATGCCTT
65 CTA---GCACAAATGCCTT
* *
22232976 CGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGA
1 CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
22233032 AATCATCCGA
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
79 10 0.08
80 48 0.40
81 1 0.01
83 62 0.51
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (80 bp):
CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAC
TAGCACAAATGCCTT
Found at i:22238248 original size:7 final size:7
Alignment explanation
Indices: 22238221--22238275 Score: 74
Period size: 7 Copynumber: 7.7 Consensus size: 7
22238211 GGTCGTCCTA
22238221 AAACCCT
1 AAACCCT
*
22238228 AAACCTT
1 AAACCCT
*
22238235 AATCCCT
1 AAACCCT
22238242 AAACCCT
1 AAACCCT
*
22238249 AAACCTT
1 AAACCCT
22238256 AAAACCCT
1 -AAACCCT
22238264 AAACCCT
1 AAACCCT
22238271 AAACC
1 AAACC
22238276 AGCGTTGATA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
7 35 0.85
8 6 0.15
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:22238263 original size:22 final size:21
Alignment explanation
Indices: 22238221--22238275 Score: 92
Period size: 22 Copynumber: 2.6 Consensus size: 21
22238211 GGTCGTCCTA
*
22238221 AAACCCTAAACCTTAATCCCT
1 AAACCCTAAACCTTAAACCCT
22238242 AAACCCTAAACCTTAAAACCCT
1 AAACCCTAAACCTT-AAACCCT
22238264 AAACCCTAAACC
1 AAACCCTAAACC
22238276 AGCGTTGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (21 bp):
AAACCCTAAACCTTAAACCCT
Found at i:22240672 original size:17 final size:17
Alignment explanation
Indices: 22240650--22240699 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
22240640 TAGAGAGAAA
22240650 AGTGGTTCATAGTAAGT
1 AGTGGTTCATAGTAAGT
22240667 AGTGGTTCATAGT-A--
1 AGTGGTTCATAGTAAGT
22240681 AGTGGTTCATAGTAAGT
1 AGTGGTTCATAGTAAGT
22240698 AG
1 AG
22240700 AAAATACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 13 0.43
15 1 0.03
16 1 0.03
17 15 0.50
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.34
Consensus pattern (17 bp):
AGTGGTTCATAGTAAGT
Found at i:22240684 original size:14 final size:14
Alignment explanation
Indices: 22240649--22240697 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 14
22240639 ATAGAGAGAA
22240649 AAGTGGTTCATAGT
1 AAGTGGTTCATAGT
22240663 AAGTAGTGGTTCATAGT
1 -A--AGTGGTTCATAGT
22240680 AAGTGGTTCATAGT
1 AAGTGGTTCATAGT
22240694 AAGT
1 AAGT
22240698 AGAAAATACT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 17 0.53
15 1 0.03
16 1 0.03
17 13 0.41
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.35
Consensus pattern (14 bp):
AAGTGGTTCATAGT
Found at i:22253583 original size:18 final size:18
Alignment explanation
Indices: 22253560--22253599 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
22253550 CTCAGTTTTT
22253560 AATGATTTTTACGGTTTG
1 AATGATTTTTACGGTTTG
22253578 AATGATTTTTACGGTTTG
1 AATGATTTTTACGGTTTG
22253596 AATG
1 AATG
22253600 CTTAAGGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.47
Consensus pattern (18 bp):
AATGATTTTTACGGTTTG
Found at i:22257535 original size:6 final size:6
Alignment explanation
Indices: 22257524--22257557 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
22257514 ATACAAAAGT
22257524 TTTTAA TTTTAA TTTTAA TTTTGTAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA -TTT-TAA TTTTAA TT
22257558 GTCTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 17 0.65
7 6 0.23
8 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:22257552 original size:14 final size:13
Alignment explanation
Indices: 22257524--22257557 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
22257514 ATACAAAAGT
22257524 TTTTAA-TTTTAA
1 TTTTAATTTTTAA
22257536 TTTTAATTTTGTAA
1 TTTTAATTTT-TAA
22257550 TTTTAATT
1 TTTTAATT
22257558 GTCTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.30
13 3 0.15
14 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:22260064 original size:20 final size:20
Alignment explanation
Indices: 22260039--22260109 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
22260029 AAGCTTATGC
22260039 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGTAAG
** **
22260059 TAAGTAAATAAAATGAAAAG
1 TAAGTAAATGGAATGGTAAG
*
22260079 TAAGGAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGTAAG
22260099 TAAG-AAATGGA
1 TAAGTAAATGGA
22260110 GTTCTTCATA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 7 0.17
20 35 0.83
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGGAATGGTAAG
Found at i:22263772 original size:12 final size:12
Alignment explanation
Indices: 22263742--22263773 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22263732 TATAGTATCA
*
22263742 AGTTCTAATATG
1 AGTTCTGATATG
22263754 AGTTCTGATATG
1 AGTTCTGATATG
22263766 AGTTCTGA
1 AGTTCTGA
22263774 GTCGAGACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (12 bp):
AGTTCTGATATG
Found at i:22265723 original size:20 final size:20
Alignment explanation
Indices: 22265698--22265765 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
22265688 AAGCTTATGC
22265698 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
** *
22265718 TAAGTAAATAAAATGAAAAG
1 TAAGTAAATGGAATGGAAAG
* *
22265738 TAAGTAAATGGATTGGTAAG
1 TAAGTAAATGGAATGGAAAG
22265758 TAAG-AAAT
1 TAAGTAAAT
22265766 TGAGTGCTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 4 0.10
20 36 0.90
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:22267102 original size:124 final size:124
Alignment explanation
Indices: 22266877--22267124 Score: 363
Period size: 124 Copynumber: 2.0 Consensus size: 124
22266867 ATTAAAACCA
* * * *
22266877 ATTCAAAACATAGATATTTTACCTTATATGAGCCCTCGAGGCCCTAAATACACGTTAGAAACAAG
1 ATTCAAAACATAGAGATTTTACCTTATACGAGCCCTCGAGGCCCAAAATACACGTTAGAAAAAAG
* * * *
22266942 TTGGGACTAAATTGGGAAATCATAGAATTTTTCAAGAAACAAGGAAATTTTTCAAAACT
66 TTAGGACTAAATTGGGAAATCAGAGAATTTTACAAGAAACAAGGAAAATTTTCAAAACT
* * * **
22267001 ATTCAAAACATATAGATTTTCCCTTATACGAGCCCTCGAGTCCCAAAATACGTGTTAGAAAAAAG
1 ATTCAAAACATAGAGATTTTACCTTATACGAGCCCTCGAGGCCCAAAATACACGTTAGAAAAAAG
22267066 TTAGGACTAAATT-GGAAACTCAGAGAATTTTACAAGAAACAAGGAAAATTTTCAAAACT
66 TTAGGACTAAATTGGGAAA-TCAGAGAATTTTACAAGAAACAAGGAAAATTTTCAAAACT
22267125 GTAGAGTTCA
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
123 5 0.05
124 105 0.95
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (124 bp):
ATTCAAAACATAGAGATTTTACCTTATACGAGCCCTCGAGGCCCAAAATACACGTTAGAAAAAAG
TTAGGACTAAATTGGGAAATCAGAGAATTTTACAAGAAACAAGGAAAATTTTCAAAACT
Found at i:22269797 original size:46 final size:45
Alignment explanation
Indices: 22269741--22270005 Score: 204
Period size: 46 Copynumber: 5.7 Consensus size: 45
22269731 TGGGCATCCA
22269741 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCG
* * *
22269787 AACTCATTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGGCATCC-
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGGAA-T--G--TCCG
22269833 AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCG
* * * * * *
22269880 AACTCATTGAGTGGAATCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G--TCCG
* ** *
22269927 AGCTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGTGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCG
* *
22269973 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22270006 GTGGGTTACA
Statistics
Matches: 172, Mismatches: 25, Indels: 44
0.71 0.10 0.18
Matches are distributed among these distances:
42 8 0.05
43 10 0.06
45 5 0.03
46 79 0.46
47 47 0.27
48 5 0.03
50 10 0.06
51 8 0.05
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGTCCG
Found at i:22269900 original size:93 final size:93
Alignment explanation
Indices: 22269733--22269998 Score: 433
Period size: 93 Copynumber: 2.9 Consensus size: 93
22269723 GGGATATTTG
*
22269733 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
1 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
*
22269798 TTGAGTCCGAGTTTGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
22269826 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
1 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
* *
22269891 TGGAATCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* ** * * * *
22269919 GGCATCCGAGCTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGTGAATGCCCGAGCTCGTTGAG
1 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
22269984 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
22269999 CTTATGGGTG
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 160 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:22269951 original size:47 final size:47
Alignment explanation
Indices: 22269783--22269943 Score: 154
Period size: 47 Copynumber: 3.4 Consensus size: 47
22269773 GATGCGAATG
*
22269783 TCCGAACTCATTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * * *
22269830 TCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--
1 TCCGAA-CTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
* *
22269876 TCCGAACTCATTGAGTGGAATCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* *
22269923 TCCGAGCTCGTTGAGTTGAGT
1 TCCGAACTCATTGAGTTGAGT
22269944 TTGAGTTCAC
Statistics
Matches: 88, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
42 2 0.02
43 5 0.06
45 3 0.03
46 25 0.28
47 43 0.49
48 3 0.03
50 5 0.06
51 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:22272985 original size:15 final size:15
Alignment explanation
Indices: 22272948--22273018 Score: 60
Period size: 15 Copynumber: 4.7 Consensus size: 15
22272938 ATATCTTGGG
*
22272948 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
22272963 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
22272978 TTTCTTTATTCTAGG-
1 TTTCTTTATTCT-GGA
*
22272993 TTT-TTCTA-TCTTGAA
1 TTTCTT-TATTC-TGGA
22273008 TTTCTTTATTC
1 TTTCTTTATTC
22273019 GATTTTCTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
14 7 0.15
15 31 0.67
16 8 0.17
ACGTcount: A:0.14, C:0.15, G:0.10, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:22275836 original size:40 final size:40
Alignment explanation
Indices: 22275781--22275998 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
22275771 CGGATGATAA
22275781 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
22275821 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
22275861 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
22275901 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
22275941 CCAGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
22275981 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
22275999 TACTTGGCAT
Statistics
Matches: 167, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
39 15 0.09
40 152 0.91
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:22278532 original size:27 final size:27
Alignment explanation
Indices: 22278502--22278594 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
22278492 TGGATAACTT
*
22278502 GTAGAATTACCAAAATACCCTTGTAAG
1 GTAGAATTACCAAAATACCCTTGTAGG
* *
22278529 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCAAAATACCCTTGTAGG
** * *
22278556 GTAGAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCAAAATACCCTTGTAGG
*
22278583 GTAAAATTACCA
1 GTAGAATTACCA
22278595 TTTTGCCCCC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCTTGTAGG
Found at i:22282911 original size:27 final size:26
Alignment explanation
Indices: 22282859--22282918 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
22282849 ATATTTATAT
*
22282859 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
22282885 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
22282912 ATATCTG
1 ATATCTG
22282919 GTAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:22284197 original size:93 final size:93
Alignment explanation
Indices: 22284043--22284212 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
22284033 GATATTTTAA
* * *
22284043 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAACGCCCGAACTCGTTGAGTT
*
22284108 AAGTCTGAGTTCGTGAAATGTAACAAGG
66 AAGTCCGAGTTCGTGAAATGTAACAAGG
* *
22284136 CATCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCCAACGCCCGAGC-CAGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAACGCCCGAACTC-GTTGAGT
*
22284200 TGAGTCCGAGTTC
65 TAAGTCCGAGTTC
22284213 ACTTATGGGA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 68 0.99
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAACGCCCGAACTCGTTGAGTT
AAGTCCGAGTTCGTGAAATGTAACAAGG
Found at i:22406280 original size:43 final size:38
Alignment explanation
Indices: 22406171--22406334 Score: 166
Period size: 43 Copynumber: 3.9 Consensus size: 38
22406161 TCGCCTTCTA
* *
22406171 TCGGACTTAGCCCGGATTATAGTAACTCGCACCAATGCCT
1 TCGGACTTAGCCC-GA-TATAATAACTCGCACAAATGCCT
* *
22406211 TAGGACTGTAGCCCGATATTAGTAACTCGCATCAAAAATGCCT
1 TCGGACT-TAGCCCGATA-TAATAACTCGCA-C--AAATGCCT
22406254 TCGCGGACTTAGCCCGATATAATAACTCGCACAAATGCCT
1 T--CGGACTTAGCCCGATATAATAACTCGCACAAATGCCT
22406294 TCGGACTTAAGACTCCGCTATATAATAACTCGCACAAATGC
1 TCGGACTT-AG-C-CCG--ATATAATAACTCGCACAAATGC
22406335 ACTTTCGGGG
Statistics
Matches: 108, Mismatches: 4, Indels: 21
0.81 0.03 0.16
Matches are distributed among these distances:
38 7 0.06
39 4 0.04
40 30 0.28
41 10 0.09
42 1 0.01
43 41 0.38
44 10 0.09
45 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (38 bp):
TCGGACTTAGCCCGATATAATAACTCGCACAAATGCCT
Found at i:22406333 original size:83 final size:85
Alignment explanation
Indices: 22406172--22406355 Score: 209
Period size: 83 Copynumber: 2.2 Consensus size: 85
22406162 CGCCTTCTAT
* * *
22406172 CGGACTTAGCCCGGATTATAGTAACTCGCACCAATGCCTTAGGACTGTAGCCCGATATTAGTAAC
1 CGGACTTAGCCC-GATTATAATAACTCGCACAAATGCCTTAGGACTGTAGCCCGATATTAATAAC
22406237 TCGCATCAAAAATGC-C-TTCG
65 TCGCATC-AAAATGCACTTTCG
* *
22406257 CGGACTTAGCCCGA-TATAATAACTCGCACAAATGCCTTCGGACT-TAAGACTCCGCTATATAAT
1 CGGACTTAGCCCGATTATAATAACTCGCACAAATGCCTTAGGACTGT-AG-C-CCGATAT-TAAT
22406320 AACTCGCA-C-AAATGCACTTTCG
62 AACTCGCATCAAAATGCACTTTCG
*
22406342 GGGACTTTAGCCCG
1 CGGAC-TTAGCCCG
22406356 GGAAAGCTAG
Statistics
Matches: 86, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
82 1 0.01
83 35 0.41
84 4 0.05
85 27 0.31
86 19 0.22
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (85 bp):
CGGACTTAGCCCGATTATAATAACTCGCACAAATGCCTTAGGACTGTAGCCCGATATTAATAACT
CGCATCAAAATGCACTTTCG
Found at i:22415203 original size:40 final size:40
Alignment explanation
Indices: 22415096--22415311 Score: 347
Period size: 40 Copynumber: 5.5 Consensus size: 40
22415086 ACTCCGTCGC
22415096 ATGCCTTCGGGAC-TAGCCCGGATATAGTAA-TCGCAC-A
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
22415133 ATG-CTTCGGGACTTAG-CCGGATATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
22415171 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-A
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
22415210 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
* * *
22415250 ATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAA
1 ATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAA
22415290 ATGCCTTCGGGACTTAGCCCGG
1 ATGCCTTCGGGACTTAGCCCGG
22415312 TTATCATCCA
Statistics
Matches: 169, Mismatches: 3, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
36 22 0.13
37 12 0.07
38 4 0.02
39 53 0.31
40 78 0.46
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
Found at i:22415244 original size:79 final size:79
Alignment explanation
Indices: 22415096--22415311 Score: 354
Period size: 79 Copynumber: 2.8 Consensus size: 79
22415086 ACTCCGTCGC
22415096 ATGCCTTCGGGAC-TAGCCCGGATATAGTAA-TCGCACAATG-CTTCGGGACTTAG-CCGGATAT
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGATAT
22415157 AGTAACTCGCACAA
66 AGTAACTCGCACAA
22415171 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGATAT
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGATAT
22415236 AGTAACTCGCACAA
66 AGTAACTCGCACAA
*
22415250 ATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AATGCCTTCGGGACTTAGCCCGG
1 ATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAATGCCTTCGGGACTTAGCCCGG
22415312 TTATCATCCA
Statistics
Matches: 133, Mismatches: 1, Indels: 9
0.93 0.01 0.06
Matches are distributed among these distances:
75 13 0.10
76 17 0.13
77 10 0.08
78 14 0.11
79 52 0.39
80 23 0.17
81 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (79 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGATAT
AGTAACTCGCACAA
Found at i:22416581 original size:16 final size:16
Alignment explanation
Indices: 22416560--22416598 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
22416550 CATGAGAGCC
* *
22416560 TTTCTTTTTTTTTCTT
1 TTTCTTTCTCTTTCTT
22416576 TTTCTTTCTCTTTCTT
1 TTTCTTTCTCTTTCTT
22416592 TTT-TTTC
1 TTTCTTTC
22416599 ATCATCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTCTTTCTCTTTCTT
Found at i:22423237 original size:40 final size:40
Alignment explanation
Indices: 22423193--22423415 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
22423183 TACTCACTCG
* * *
22423193 AATGCCTTCGGGACATAGCCCGGATATTGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
22423233 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGTACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* **
22423273 AATGCCTTCGGGACTTGGCCCAAATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
22423313 AATGCTTTCGGGACTTAGCCCGGATATAGGAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
22423353 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
22423393 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
22423416 TTATCATCCA
Statistics
Matches: 164, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 1 0.01
40 163 0.99
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:22424703 original size:11 final size:10
Alignment explanation
Indices: 22424673--22424713 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
22424663 ACATGAGAGC
22424673 CTTTCTTTTT
1 CTTTCTTTTT
*
22424683 TTTTCTTTTT
1 CTTTCTTTTT
22424693 CTTTCTCTTTT
1 CTTTCT-TTTT
22424704 CTTT-TTTTT
1 CTTTCTTTTT
22424713 C
1 C
22424714 ATCATCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 5 0.18
10 15 0.54
11 8 0.29
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:22427679 original size:93 final size:93
Alignment explanation
Indices: 22427571--22427742 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
22427561 GCCCATAAGT
* * *
22427571 GAACTCGGACTCAACTCAACGAGCTAGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22427636 CGAGCTCAGATGCCTAGTTGCATCTCTC
66 CGAGCTCAGATGCCTAGTTGCATCTCTC
* *
22427664 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
22427729 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
22427743 CAATTATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTGCATCTCTC
Found at i:22427733 original size:46 final size:46
Alignment explanation
Indices: 22427563--22427738 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
22427553 TGTAACCCGC
* * *
22427563 CCATAAGTGAACTCGGACTCAACTCAACGAGCTAGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
22427609 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTT-GCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC-A-TTCGCAT
* * *
22427659 CTC-T---CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
22427702 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
22427739 TGCCCAATTA
Statistics
Matches: 110, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 2 0.02
46 62 0.56
47 25 0.23
49 2 0.02
50 6 0.05
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:22427757 original size:46 final size:47
Alignment explanation
Indices: 22427614--22427757 Score: 124
Period size: 46 Copynumber: 3.1 Consensus size: 47
22427604 CGCATCCATA
* * * *
22427614 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTGCATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT-CATC-CT
* *
22427663 --CGAACTCAGACTCAACTCAACGAGTTCGGA----C-ATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT--CATCC-T
22427706 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT-ATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTCATCCT
22427753 AGTGA
1 AGTGA
22427758 CATGTCACTT
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
42 3 0.04
43 6 0.08
46 33 0.43
47 27 0.35
48 4 0.05
50 1 0.01
51 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTCATCCT
Found at i:22429155 original size:30 final size:30
Alignment explanation
Indices: 22429100--22429170 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
22429090 GTGTGTGGAT
**
22429100 AGCCCGTGTGGATCACACGGGCATGTTGC-C
1 AGCCCGTGTGGATCACACGACCATG-TGCTC
*
22429130 AGCCTGTGTGGATCACACGACCATGTGCTC
1 AGCCCGTGTGGATCACACGACCATGTGCTC
*
22429160 AGCCCATGTGG
1 AGCCCGTGTGG
22429171 GAATGGTCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 3 0.09
30 32 0.91
ACGTcount: A:0.18, C:0.30, G:0.31, T:0.21
Consensus pattern (30 bp):
AGCCCGTGTGGATCACACGACCATGTGCTC
Found at i:22431024 original size:19 final size:18
Alignment explanation
Indices: 22431000--22431038 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
22430990 AAACACACTT
*
22431000 AAACAAAAAAATATAAATA
1 AAAC-AAAAAATAAAAATA
22431019 AAACAAAAAATAAAAATA
1 AAACAAAAAATAAAAATA
22431037 AA
1 AA
22431039 TGGACTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (18 bp):
AAACAAAAAATAAAAATA
Found at i:22432606 original size:18 final size:18
Alignment explanation
Indices: 22432579--22432625 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
22432569 AAGAATGAAT
22432579 AAAT-AAATAAATAAAAC
1 AAATAAAATAAATAAAAC
* * * *
22432596 AAGTAAAATAAGTAAGAG
1 AAATAAAATAAATAAAAC
22432614 AAATAAAATAAA
1 AAATAAAATAAA
22432626 ATAATATCAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (18 bp):
AAATAAAATAAATAAAAC
Found at i:22452199 original size:21 final size:21
Alignment explanation
Indices: 22452165--22452208 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
22452155 TCAATCTCTC
*
22452165 TTTCAATATCCTCTATTTTTCT
1 TTTCAATATCCTCT-TTTATCT
*
22452187 TTTCAGTAT-CTCTTTTATCT
1 TTTCAATATCCTCTTTTATCT
22452207 TT
1 TT
22452209 GCTTTACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 4 0.20
22 8 0.40
ACGTcount: A:0.16, C:0.20, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTCAATATCCTCTTTTATCT
Found at i:22468925 original size:38 final size:38
Alignment explanation
Indices: 22468865--22469198 Score: 461
Period size: 38 Copynumber: 8.7 Consensus size: 38
22468855 AAAGGCCTGA
* * * *
22468865 ATATAATACCAGTACTAGGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
22468903 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
22468941 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
22468979 ATATATTACCAGCACGAAGCCTGCGGGATTTAACTCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * * ** *
22469017 ATATAATACTAGTACGAAGCCTGCGAAATTTAACCCGA
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
22469055 ATATAATACCAGCACGAAGCCTACGGGTCTTTAAGCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
* **
22469095 ATATATTACCAGCACGATGCCTAAGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
22469133 ATATATTACCAGCACGAAGCCTGCGGGTCTTTAACCCAG
1 ATATATTACCAGCACGAAGCCTGCGGG-ATTTAACCCGG
22469172 ATATATTACCAGCACGAAGCCTGCGGG
1 ATATATTACCAGCACGAAGCCTGCGGG
22469199 TCTTTAAGCC
Statistics
Matches: 265, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
38 191 0.72
39 46 0.17
40 28 0.11
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:22469556 original size:43 final size:44
Alignment explanation
Indices: 22469495--22469578 Score: 134
Period size: 43 Copynumber: 1.9 Consensus size: 44
22469485 ACATTTCATT
*
22469495 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCG-ATATCGTC
1 TCACCGGCATTATAGCCTGCTAGGCCCAAAGCCCGAATATCGTC
* *
22469538 TCACCGGCATTATTGCCTGCTAGGCCCGAAGCCCGAATATC
1 TCACCGGCATTATAGCCTGCTAGGCCCAAAGCCCGAATATC
22469579 ATATTTCGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 32 0.86
44 5 0.14
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCCCAAAGCCCGAATATCGTC
Found at i:22473911 original size:27 final size:25
Alignment explanation
Indices: 22473881--22473956 Score: 89
Period size: 27 Copynumber: 2.9 Consensus size: 25
22473871 ACAGTAAACA
*
22473881 TGGCAAAGCCACCAGTATCAGTAATTG
1 TGGCATAGCCACCAGTA-CAGTAA-TG
22473908 TGGCATAGCCACCAGTAACAGTGAATG
1 TGGCATAGCCACCAGT-ACAGT-AATG
* *
22473935 TGACATAGTCACCAGTACAGTA
1 TGGCATAGCCACCAGTACAGTA
22473957 CTTCCTACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.02
26 5 0.11
27 35 0.80
28 3 0.07
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (25 bp):
TGGCATAGCCACCAGTACAGTAATG
Found at i:22474123 original size:27 final size:27
Alignment explanation
Indices: 22474093--22474207 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 27
22474083 GGGCATAATA
* *
22474093 GTCATTTTACCATACAAGGGTGTTACG
1 GTCATTTTACCCTACAAGGGTATTACG
* *
22474120 GTCATTTTACCCTAC-AGGACTATTACA
1 GTCATTTTACCCTACAAGG-GTATTACG
* *
22474147 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTACG
** * * *
22474174 GTCATTTTACTTTATAGGGGTATTACA
1 GTCATTTTACCCTACAAGGGTATTACG
22474201 GTCATTT
1 GTCATTT
22474208 AACTAACTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
26 3 0.04
27 70 0.93
28 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTACG
Found at i:22474156 original size:54 final size:54
Alignment explanation
Indices: 22474092--22474207 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
22474082 AGGGCATAAT
*
22474092 AGTCATTTTACCATACAAGGGTGTTACGGTCATTTTACCCTACAGGACTATTAC
1 AGTCATTTTACCATACAAGGGTATTACGGTCATTTTACCCTACAGGACTATTAC
* * * ** * **
22474146 AGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACTTTATAGGGGTATTAC
1 AGTCATTTTACCATACAAGGGTATTACGGTCATTTTACCCTACAGGACTATTAC
22474200 AGTCATTT
1 AGTCATTT
22474208 AACTAACTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (54 bp):
AGTCATTTTACCATACAAGGGTATTACGGTCATTTTACCCTACAGGACTATTAC
Found at i:22479857 original size:43 final size:43
Alignment explanation
Indices: 22479808--22479958 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 43
22479798 TATCCCAGAT
* *
22479808 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAAAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAAC
* * * * * *
22479851 AGGGTCTTACACGAAATCGA-TTAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATC-ACATATCGATGCCAATGTCCCAAAC
* * * * *
22479894 ATGGTCTTACATGTAATCTCA-ATACAATACCAATTTCCCATAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAAAC
* *
22479937 ATGGCCTTACATGTTATCACAT
1 ATGGTCTTACATGTAATCACAT
22479959 CTCGGTAACC
Statistics
Matches: 83, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
42 1 0.01
43 81 0.98
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAAC
Found at i:22481331 original size:12 final size:12
Alignment explanation
Indices: 22481314--22481338 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22481304 CTGCATTTTC
22481314 TATTGTTGTTGT
1 TATTGTTGTTGT
22481326 TATTGTTGTTGT
1 TATTGTTGTTGT
22481338 T
1 T
22481339 GTCGATGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (12 bp):
TATTGTTGTTGT
Found at i:22491160 original size:27 final size:26
Alignment explanation
Indices: 22491122--22491230 Score: 119
Period size: 27 Copynumber: 4.1 Consensus size: 26
22491112 CAGCATGGTT
*
22491122 ACCAGAACAGATATTGTGACAGAGTC
1 ACCAGAACAGATATTGTGACAGAGCC
*
22491148 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGA-ACAGATATTGTGACAGAGCC
* * *
22491175 ACCAGAACAGATATTTGTGGCATAACC
1 ACCAGAACAGATA-TTGTGACAGAGCC
* * *
22491202 ACCAGAATCAGATAATGTGGCAAAGCC
1 ACCAGAA-CAGATATTGTGACAGAGCC
22491229 AC
1 AC
22491231 TTAACAGAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 13 0.18
27 54 0.74
28 6 0.08
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGACAGAGCC
Found at i:22491214 original size:54 final size:53
Alignment explanation
Indices: 22491122--22491230 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 53
22491112 CAGCATGGTT
** * *
22491122 ACCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGAACAGATATTGTGACAGAACCACCAGATACAGATAATGTGGCAAAGCC
* *
22491175 ACCAGAACAGATATTTGTGGCATAACCACCAGA-ATCAGATAATGTGGCAAAGCC
1 ACCAGAACAGATA-TTGTGACAGAACCACCAGATA-CAGATAATGTGGCAAAGCC
22491229 AC
1 AC
22491231 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 14 0.29
54 34 0.71
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (53 bp):
ACCAGAACAGATATTGTGACAGAACCACCAGATACAGATAATGTGGCAAAGCC
Found at i:22491803 original size:27 final size:27
Alignment explanation
Indices: 22491773--22492237 Score: 553
Period size: 27 Copynumber: 17.2 Consensus size: 27
22491763 GGGCAAAATG
* *
22491773 GTAATTTTACCCTA-AGAGGGTATCTCA
1 GTAATTCTACCCTACAG-GGGTATTTCA
* **
22491800 GTAATTCTACCTTACAGGGGTAAATCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * **
22491827 GTATTTCTAACCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
22491854 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22491881 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22491908 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22491935 GTAATTCTACCCCAC-GAGGGTATTTC-
1 GTAATTCTACCCTACAG-GGGTATTTCA
*
22491961 GATAATTCTACCTTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
22491989 GTAATTATACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
22492015 GATAATTCTACCTTATAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
22492043 GTAATTATACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
22492070 GTAATTCTACCTTACAGGGATATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22492097 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22492124 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
22492151 ATAATTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
22492177 GATAATTCTACCTTACAAGGGTATTTCT
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
22492205 GTAATTATACCCTACAGAGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
22492232 GTAATT
1 GTAATT
22492238 TGGTAAACTA
Statistics
Matches: 375, Mismatches: 54, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.01
27 366 0.98
28 6 0.02
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:22491858 original size:54 final size:54
Alignment explanation
Indices: 22491773--22492237 Score: 610
Period size: 54 Copynumber: 8.6 Consensus size: 54
22491763 GGGCAAAATG
* * * **
22491773 GTAATTTTACCCTA-AGAGGGTATCTCAGTAATTCTACCTTACAGGGGTAAATCA
1 GTAATTCTACCCTACA-AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
* * * * * *
22491827 GTATTTCTAACCTACAAGGGTATTTTGGTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
*
22491881 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
* * *
22491935 GTAATTCTACCCCACGAGGGTATTTCGATAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
* * *
22491989 GTAATTATACCCTACAAGGGTATTTCGATAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
* * * * *
22492043 GTAATTATACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGATATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
* * *
22492097 GTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
* * * *
22492151 ATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCTTACAAGGGTATTTCT
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
* *
22492205 GTAATTATACCCTAC-AGAGGTATTTCAGTAATT
1 GTAATTCTACCCTACAAG-GGTATTTCGGTAATT
22492238 TGGTAAACTA
Statistics
Matches: 362, Mismatches: 47, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
53 2 0.01
54 359 0.99
55 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
Found at i:22494703 original size:18 final size:18
Alignment explanation
Indices: 22494669--22494711 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
22494659 ACAATGTCTT
*
22494669 GTACTTAACCAT-TTTTA
1 GTACTTAACCATGTTTAA
*
22494686 GTACTTGAACCCTGTTTAA
1 GTACTT-AACCATGTTTAA
22494705 GTACTTA
1 GTACTTA
22494712 CTATTTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 6 0.27
19 10 0.45
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.42
Consensus pattern (18 bp):
GTACTTAACCATGTTTAA
Found at i:22499784 original size:29 final size:29
Alignment explanation
Indices: 22499726--22499784 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
22499716 ACTTGATTAA
***
22499726 TAGATAGCCACAAAGGCATCCACTTGACT
1 TAGATAGCCACAAAGGCATCCACACAACT
* *
22499755 TAGATAGTCACAAGGGCATCCACACAACT
1 TAGATAGCCACAAAGGCATCCACACAACT
22499784 T
1 T
22499785 TTGGAAGCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (29 bp):
TAGATAGCCACAAAGGCATCCACACAACT
Found at i:22500505 original size:51 final size:51
Alignment explanation
Indices: 22500406--22500505 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
22500396 GTCTTCTCTT
* * *
22500406 GCCATATGATGCCATATCAAATGGCTAGGCCTTACACTATATTATCTTCTA
1 GCCATATAATGCCATAGCAAATGGCTAGGCCTTACACTATATGATCTTCTA
* * * *
22500457 GCCATATAATGCCATAGCAAATGGTTAGGCCTTATAGTATATGCTCTTC
1 GCCATATAATGCCATAGCAAATGGCTAGGCCTTACACTATATGATCTTC
22500506 ACTTATCATG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (51 bp):
GCCATATAATGCCATAGCAAATGGCTAGGCCTTACACTATATGATCTTCTA
Found at i:22506219 original size:68 final size:67
Alignment explanation
Indices: 22506147--22506296 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
22506137 CATCATGTGT
* * * *
22506147 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
22506209 ATGTAG
62 ATGTAG
** * *
22506215 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
22506280 AG
66 AG
22506282 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
22506297 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:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:22506252 original size:64 final size:64
Alignment explanation
Indices: 22506171--22506354 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
22506161 AGACATTATG
* *
22506171 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
22506235 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
22506300 AA
63 AA
* * * *
22506302 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
22506355 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:22510659 original size:68 final size:67
Alignment explanation
Indices: 22510587--22510736 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
22510577 CATCATGTGT
* * * *
22510587 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
22510649 ATGTAG
62 ATGTAG
** * *
22510655 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
22510720 AG
66 AG
22510722 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
22510737 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:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:22510692 original size:64 final size:64
Alignment explanation
Indices: 22510611--22510794 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
22510601 AGACATTATG
* *
22510611 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
22510675 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
22510740 AA
63 AA
* * * *
22510742 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
22510795 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:22513645 original size:45 final size:45
Alignment explanation
Indices: 22513580--22513752 Score: 194
Period size: 45 Copynumber: 3.9 Consensus size: 45
22513570 TATCGTACGG
* *
22513580 TACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
22513625 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
** * * * *
22513670 TGGTATT-GGGCCTTTGAGCCTAGTAGGCTATAGTGACAGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
22513714 TGA-TA-TCAGG-CTTTGAGCCTTGCAGGCGA-AATGCCGGTG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTG
22513753 GATGAATTCG
Statistics
Matches: 108, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
42 7 0.06
43 17 0.16
44 37 0.34
45 47 0.44
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:22527903 original size:27 final size:27
Alignment explanation
Indices: 22527865--22527917 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
22527855 CTCTAAGTTA
22527865 GCTTATTTGCTATCGCTACTCCAAATT
1 GCTTATTTGCTATCGCTACTCCAAATT
*
22527892 GCTTATTTGCTATTGCTACTCCAAAT
1 GCTTATTTGCTATCGCTACTCCAAAT
22527918 AGCTCGTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.42
Consensus pattern (27 bp):
GCTTATTTGCTATCGCTACTCCAAATT
Found at i:22528213 original size:130 final size:131
Alignment explanation
Indices: 22527896--22528218 Score: 371
Period size: 131 Copynumber: 2.5 Consensus size: 131
22527886 CAAATTGCTT
* * * * * *
22527896 ATTTGCTATTGCTACTCCAAATAGCTCGTTGATTTAATATCACAATTGGTATTATTAA-GCTTCG
1 ATTTACTATAGCTACTCCAAATAGCTCGATGATTTCATATCACAATTGATATTATTAAGGC-TCA
* * * * *** *
22527960 CTGATTTCTGATCATAACCTAAGTTCATTGATTTACTATCATGAACAATCTTTTTTTGAGTTAGT
65 CTGATTTATGATCACAACCTAAGTTCATTGATTTACCATAATGAACAATCTTTCCATGAGTTAGC
22528025 TG
130 TG
* * *
22528027 ATTTACTATCGCTACTCCAAATAGCTCGCTGATTTCATATCACAGTTGATATTATTAAGGCTCAC
1 ATTTACTATAGCTACTCCAAATAGCTCGATGATTTCATATCACAATTGATATTATTAAGGCTCAC
*** * * *
22528092 TGATTTATGATCACAGGTTAAGTTCATTGATTTACCATAATGAGCTATC-TTCCATGGGTTAGCT
66 TGATTTATGATCACAACCTAAGTTCATTGATTTACCATAATGAACAATCTTTCCATGAGTTAGCT
22528156 G
131 G
* * ** *
22528157 ATTTTCTATAGCTATTCTGAATAGCTCGATGATTTCATATCATAATTGATATTATTAAGGCT
1 ATTTACTATAGCTACTCCAAATAGCTCGATGATTTCATATCACAATTGATATTATTAAGGCT
22528219 AGTTTATTTA
Statistics
Matches: 162, Mismatches: 29, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
130 65 0.40
131 95 0.59
132 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (131 bp):
ATTTACTATAGCTACTCCAAATAGCTCGATGATTTCATATCACAATTGATATTATTAAGGCTCAC
TGATTTATGATCACAACCTAAGTTCATTGATTTACCATAATGAACAATCTTTCCATGAGTTAGCT
G
Found at i:22528228 original size:130 final size:131
Alignment explanation
Indices: 22527896--22528256 Score: 370
Period size: 131 Copynumber: 2.8 Consensus size: 131
22527886 CAAATTGCTT
* * * * * *
22527896 ATTTGCTATTGCTACTCCAAATAGCTCGTTGATTTAATATCACAATTGGTATTATTAA-GCTTCG
1 ATTTACTATAGCTACTCCAAATAGCTCGATGATTTCATATCACAATTGATATTATTAAGGC-TAG
* * * * *** *
22527960 CTGATTTCTGATCATAACCTAAGTTCATTGATTTACTATCATGAACAATCTTTTTTTGAGTTAGT
65 CTGATTTATGATCACAACCTAAGTTCATTGATTTACCATAATGAACAATCTTTCCATGAGTTAGC
22528025 TG
130 TG
* * *
22528027 ATTTACTATCGCTACTCCAAATAGCTCGCTGATTTCATATCACAGTTGATATTATTAAGGCTCA-
1 ATTTACTATAGCTACTCCAAATAGCTCGATGATTTCATATCACAATTGATATTATTAAGGCT-AG
*** * * *
22528091 CTGATTTATGATCACAGGTTAAGTTCATTGATTTACCATAATGAGCTATC-TTCCATGGGTTAGC
65 CTGATTTATGATCACAACCTAAGTTCATTGATTTACCATAATGAACAATCTTTCCATGAGTTAGC
22528155 TG
130 TG
* * ** * *
22528157 ATTTTCTATAGCTATTCTGAATAGCTCGATGATTTCATATCATAATTGATATTATTAAGGCTAGT
1 ATTTACTATAGCTACTCCAAATAGCTCGATGATTTCATATCACAATTGATATTATTAAGGCTAGC
* * * *
22528222 TTATTTATGATGATAGCCTAAG-TCTATTGATTTAC
66 TGATTTATGATCACAACCTAAGTTC-ATTGATTTAC
22528257 GAACTTGAAT
Statistics
Matches: 191, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
129 3 0.02
130 92 0.48
131 94 0.49
132 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (131 bp):
ATTTACTATAGCTACTCCAAATAGCTCGATGATTTCATATCACAATTGATATTATTAAGGCTAGC
TGATTTATGATCACAACCTAAGTTCATTGATTTACCATAATGAACAATCTTTCCATGAGTTAGCT
G
Found at i:22528272 original size:130 final size:130
Alignment explanation
Indices: 22527896--22528273 Score: 370
Period size: 130 Copynumber: 2.9 Consensus size: 130
22527886 CAAATTGCTT
* * * * * *
22527896 ATTTGCTATTGCTACTCCAAATAGCTCGTTGATTTAATATCACAATTGGTATTATTAA-GCTTCG
1 ATTTACTATAGCTACTCCAAATAGCTCGATGATTTCATATCACAATTGATATTATTAAGGC-TAG
* * * * * *** *
22527960 CTGATTTCTGATCATAACCTAAGTTCATTGATTTACTATCATGAACAATCTTTTTTTGAGTTAGT
65 CTGATTTATGATCATAGCCTAAGTTCATTGATTTACCAACATGAATAATC-TTCCATGAGTTAGC
22528025 TG
129 TG
* * *
22528027 ATTTACTATCGCTACTCCAAATAGCTCGCTGATTTCATATCACAGTTGATATTATTAAGGCTCA-
1 ATTTACTATAGCTACTCCAAATAGCTCGATGATTTCATATCACAATTGATATTATTAAGGCT-AG
* ** * *
22528091 CTGATTTATGATCACAGGTTAAGTTCATTGATTTACCATA-ATGAGCT-ATCTTCCATGGGTTAG
65 CTGATTTATGATCATAGCCTAAGTTCATTGATTTACCA-ACATGA-ATAATCTTCCATGAGTTAG
22528154 CTG
128 CTG
* * ** * *
22528157 ATTTTCTATAGCTATTCTGAATAGCTCGATGATTTCATATCATAATTGATATTATTAAGGCTAGT
1 ATTTACTATAGCTACTCCAAATAGCTCGATGATTTCATATCACAATTGATATTATTAAGGCTAGC
* * * *
22528222 TTATTTATGATGATAGCCTAAG-TCTATTGATTTACGAACTTGAATAATCTTC
66 TGATTTATGATCATAGCCTAAGTTC-ATTGATTTACCAACATGAATAATCTTC
22528274 TTAAGTTGAT
Statistics
Matches: 201, Mismatches: 38, Indels: 17
0.79 0.15 0.07
Matches are distributed among these distances:
129 5 0.02
130 102 0.51
131 92 0.46
132 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.41
Consensus pattern (130 bp):
ATTTACTATAGCTACTCCAAATAGCTCGATGATTTCATATCACAATTGATATTATTAAGGCTAGC
TGATTTATGATCATAGCCTAAGTTCATTGATTTACCAACATGAATAATCTTCCATGAGTTAGCTG
Found at i:22532824 original size:40 final size:40
Alignment explanation
Indices: 22532780--22532962 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
22532770 CCAGCATGAT
* * *
22532780 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
22532820 TGCTCTTCAGGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTC-GGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
22532860 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCAAGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
22532900 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
22532940 TGCTCTTTGGAACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
22532963 AACATCAGCC
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 2 0.02
40 123 0.96
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:22532987 original size:54 final size:54
Alignment explanation
Indices: 22532915--22533023 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
22532905 TTCGGAACTT
*
22532915 AGCCCGGATATATCACTAGCACGAATGCTCTTTGGAACTTAGCCCGGAA-ACATC
1 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC-GAATACATC
22532969 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGAATACATC
1 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGAATACATC
22533023 A
1 A
22533024 CTAGCACGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
53 3 0.06
54 50 0.94
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (54 bp):
AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGAATACATC
Found at i:22532988 original size:94 final size:94
Alignment explanation
Indices: 22532875--22533056 Score: 319
Period size: 94 Copynumber: 1.9 Consensus size: 94
22532865 TTCGGAACTT
* *
22532875 AGCCCGGATACATCACTAGCAAGAATGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 AGCCCGGATACATCACTAGCAAGAATGCTCTTCGGAACTTAGCCCGAATACATCACTAGCACGAA
*
22532940 TGCTCTTTGGAACTTAGCCCGGAAACATC
66 TGCTCTTCGGAACTTAGCCCGGAAACATC
* *
22532969 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGAATACATCACTAGCACGAA
1 AGCCCGGATACATCACTAGCAAGAATGCTCTTCGGAACTTAGCCCGAATACATCACTAGCACGAA
22533034 TGCTCTTCGGAACTTAGCCCGGA
66 TGCTCTTCGGAACTTAGCCCGGA
22533057 TATATCACTA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 83 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (94 bp):
AGCCCGGATACATCACTAGCAAGAATGCTCTTCGGAACTTAGCCCGAATACATCACTAGCACGAA
TGCTCTTCGGAACTTAGCCCGGAAACATC
Found at i:22533016 original size:23 final size:23
Alignment explanation
Indices: 22532985--22533051 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
22532975 GATATATCAC
22532985 TAGCACGAATGCTCTTCGGAACT
1 TAGCACGAATGCTCTTCGGAACT
* * *
22533008 TAGCCCGAAT--ACATC---AC-
1 TAGCACGAATGCTCTTCGGAACT
22533025 TAGCACGAATGCTCTTCGGAACT
1 TAGCACGAATGCTCTTCGGAACT
22533048 TAGC
1 TAGC
22533052 CCGGATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 9 0.28
18 2 0.06
19 3 0.09
21 3 0.09
22 2 0.06
23 13 0.41
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGAACT
Found at i:22533024 original size:40 final size:40
Alignment explanation
Indices: 22532969--22533224 Score: 433
Period size: 40 Copynumber: 6.4 Consensus size: 40
22532959 CGGAAACATC
22532969 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTT
1 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTT
* *
22533009 AGCCCGAATACATCACTAGCACGAATGCTCTTCGGAACTT
1 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTT
22533049 AGCCCGGATATATCACTAGCACGAATGCTCTTCGG-ACTT
1 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTT
*
22533088 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
1 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTT
* *
22533128 AGCCCGGATATATCACTAGCACGATTGCTCTTCGAAACTT
1 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTT
*
22533168 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
1 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTT
* *
22533208 AGCCCGGCTATACCACT
1 AGCCCGGATATATCACT
22533225 CTCAATTCTC
Statistics
Matches: 203, Mismatches: 12, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
39 39 0.19
40 164 0.81
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTT
Found at i:22533180 original size:119 final size:120
Alignment explanation
Indices: 22532969--22533224 Score: 442
Period size: 119 Copynumber: 2.1 Consensus size: 120
22532959 CGGAAACATC
22532969 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGAATACATCACTAGCACGAA
1 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGAATACATCACTAGCACGAA
*
22533034 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTC-GGACTT
66 TGCTCTTCGAAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
* * * *
22533088 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAT
1 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGAATACATCACTAGCACGAA
22533153 TGCTCTTCGAAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
66 TGCTCTTCGAAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
* *
22533208 AGCCCGGCTATACCACT
1 AGCCCGGATATATCACT
22533225 CTCAATTCTC
Statistics
Matches: 129, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 108 0.84
120 21 0.16
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (120 bp):
AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGAATACATCACTAGCACGAA
TGCTCTTCGAAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
Found at i:22547772 original size:23 final size:23
Alignment explanation
Indices: 22547746--22547792 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
22547736 CATTCTCTTG
*
22547746 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
22547769 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
22547792 T
1 T
22547793 AATGTCACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:22557192 original size:19 final size:19
Alignment explanation
Indices: 22557168--22557220 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
22557158 TGTGGGCACA
*
22557168 AGGACACGCCCGTTTGCCC
1 AGGACACGCCCGTGTGCCC
*
22557187 AGGACACGCCCGTGTGTCC
1 AGGACACGCCCGTGTGCCC
22557206 AGGACACGCCCGTGT
1 AGGACACGCCCGTGT
22557221 CCTCAAGCCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.17, C:0.38, G:0.30, T:0.15
Consensus pattern (19 bp):
AGGACACGCCCGTGTGCCC
Found at i:22559213 original size:49 final size:48
Alignment explanation
Indices: 22559153--22559416 Score: 174
Period size: 49 Copynumber: 5.6 Consensus size: 48
22559143 CATTAAATTC
*
22559153 GATGCAGTGTCCCAGACAAGTCTTACACTGACTTTCATATATGGAGGCT
1 GATGCA-TGTCCCAGACAGGTCTTACACTGACTTTCATATATGGAGGCT
* * ** * *
22559202 GATGCCATGTCCCA-ATCAGGTCTTACACTGGCTCTCACCTATCGGTGTC-
1 GATG-CATGTCCCAGA-CAGGTCTTACACTGACTTTCATATAT-GGAGGCT
* * * * * *
22559251 AATGCCATGTCCCAGACAGGTCTTCCACTGA----CACACA-GCAAGCT
1 GATG-CATGTCCCAGACAGGTCTTACACTGACTTTCATATATGGAGGCT
* * *
22559295 GATGACATGTCCCAGACAGGTCTTTCACT-AGCTTGT-ATATCTCGAGGCT
1 GATG-CATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATGGAGGCT
* * **
22559344 GATGCATGTCCTAGACATGTCTTACACT-AGCTTTCAT-TAT-TTGGCT
1 GATGCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATGGAGGCT
*
22559390 GATGCATGTCCCAGACATGTCTTACAC
1 GATGCATGTCCCAGACAGGTCTTACAC
22559417 CGGTTCACAT
Statistics
Matches: 170, Mismatches: 32, Indels: 29
0.74 0.14 0.13
Matches are distributed among these distances:
43 3 0.02
44 26 0.15
45 4 0.02
46 30 0.18
47 3 0.02
48 31 0.18
49 66 0.39
50 7 0.04
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCATGTCCCAGACAGGTCTTACACTGACTTTCATATATGGAGGCT
Found at i:22559406 original size:46 final size:47
Alignment explanation
Indices: 22559292--22559416 Score: 157
Period size: 46 Copynumber: 2.6 Consensus size: 47
22559282 CACACAGCAA
* *
22559292 GCTGATGACATGTCCCAGACAGGTCTTTCACTAGCTTGTATATCTCGAG
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTC-AG
* *
22559341 GCTGATGCATGTCCTAGACATGTCTTACACTAGCTT-TCATTAT-T-TG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTGT-A-TATCTCAG
22559387 GCTGATGCATGTCCCAGACATGTCTTACAC
1 GCTGATGCATGTCCCAGACATGTCTTACAC
22559417 CGGTTCACAT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 30 0.43
47 1 0.01
48 28 0.41
49 10 0.14
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (47 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAG
Found at i:22560108 original size:20 final size:20
Alignment explanation
Indices: 22560083--22560121 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22560073 AAAATTTCAA
22560083 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAACA-TTACAAC
*
22560103 TTATTTGACAACATTACAA
1 TTATTTCACAACATTACAA
22560122 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (20 bp):
TTATTTCACAACATTACAAC
Found at i:22576208 original size:24 final size:25
Alignment explanation
Indices: 22576180--22576243 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
22576170 TCAACCGAAT
* * *
22576180 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
22576204 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
22576229 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
22576244 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:22576294 original size:24 final size:24
Alignment explanation
Indices: 22576267--22576316 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
22576257 CATGCATCGA
*
22576267 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
22576291 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
22576315 CA
1 CA
22576317 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:22586189 original size:23 final size:23
Alignment explanation
Indices: 22586145--22586190 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
22586135 ATGTGGAGGG
*
22586145 AATCAAGGAGAGGATTGGGGAGA
1 AATCAAGGAGAGGATTAGGGAGA
*
22586168 AATCAAGGAGAGGATTATGGAGA
1 AATCAAGGAGAGGATTAGGGAGA
22586191 GATTTTAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.39, T:0.15
Consensus pattern (23 bp):
AATCAAGGAGAGGATTAGGGAGA
Found at i:22592302 original size:6 final size:6
Alignment explanation
Indices: 22592292--22592358 Score: 55
Period size: 6 Copynumber: 11.2 Consensus size: 6
22592282 CATAAAAAGC
* * * * *
22592292 AAAATA GAAATA AAAATA AAAAT- AAGATA AAAGATA AAAGTA AAGAGA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA AAAATA
* *
22592340 AACATA AACATA AAAATA A
1 AAAATA AAAATA AAAATA A
22592359 CCAGACTCAA
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
5 4 0.08
6 38 0.79
7 6 0.12
ACGTcount: A:0.73, C:0.03, G:0.09, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:22592304 original size:18 final size:17
Alignment explanation
Indices: 22592269--22592312 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
22592259 TCAAAATAGG
**
22592269 AAAACAAAATAGTCATA
1 AAAACAAAATAGAAATA
22592286 AAAAGCAAAATAGAAATA
1 AAAA-CAAAATAGAAATA
*
22592304 AAAATAAAA
1 AAAACAAAA
22592313 ATAAGATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.14
Consensus pattern (17 bp):
AAAACAAAATAGAAATA
Found at i:22594035 original size:20 final size:19
Alignment explanation
Indices: 22593976--22594046 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
22593966 TGAGTAAGCT
22593976 AGAAATAAAATAAT-AAATA
1 AGAAAT-AAATAATGAAATA
* * *
22593995 AGGAATAAAGAAAGCAAATA
1 AGAAATAAATAATG-AAATA
22594015 AGAAATAAATAATGAACATA
1 AGAAATAAATAATGAA-ATA
22594035 A-AAATAAGATAA
1 AGAAATAA-ATAA
22594047 AGTAAAAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 5 0.12
19 13 0.31
20 24 0.57
ACGTcount: A:0.69, C:0.03, G:0.11, T:0.17
Consensus pattern (19 bp):
AGAAATAAATAATGAAATA
Found at i:22594465 original size:13 final size:13
Alignment explanation
Indices: 22594447--22594476 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
22594437 GTTGTGTGTA
22594447 CACATGGTCGTGC
1 CACATGGTCGTGC
22594460 CACATGGTCGTGC
1 CACATGGTCGTGC
22594473 CACA
1 CACA
22594477 CGCCCTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (13 bp):
CACATGGTCGTGC
Found at i:22599781 original size:27 final size:27
Alignment explanation
Indices: 22599751--22599946 Score: 207
Period size: 27 Copynumber: 7.3 Consensus size: 27
22599741 CTTATAGTGA
*
22599751 AAAATGACCGTAATGCCCCTGTAAAGT
1 AAAATGACCGTAATGCCCCTGTAAGGT
* * *
22599778 AAAATGACCATAATACCCCTAT-AGGAT
1 AAAATGACCGTAATGCCCCTGTAAGG-T
** *
22599805 AAAATGACTATGATGCCCCTGTAAGGT
1 AAAATGACCGTAATGCCCCTGTAAGGT
* *
22599832 AAAATGACCGTAATTCCCCTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAAGGT
* * *
22599859 AAAATGACCGTGATTCCCTTGTAAGGT
1 AAAATGACCGTAATGCCCCTGTAAGGT
* * * * *
22599886 AAGATGGCCTTAATGCCCCTATAGGGT
1 AAAATGACCGTAATGCCCCTGTAAGGT
*
22599913 AAAATGACCGTAATGCCCCTGTAGGGT
1 AAAATGACCGTAATGCCCCTGTAAGGT
22599940 -AAATGAC
1 AAAATGAC
22599947 AATTATGCCT
Statistics
Matches: 139, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
26 9 0.06
27 127 0.91
28 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AAAATGACCGTAATGCCCCTGTAAGGT
Found at i:22599782 original size:54 final size:54
Alignment explanation
Indices: 22599723--22599946 Score: 236
Period size: 54 Copynumber: 4.2 Consensus size: 54
22599713 CCCTGATTTT
* * * * *
22599723 TAAAATTACCAAAATACCCTTATAGTGAAAAATGACCGTAATGCCCCTGTAAAG
1 TAAAATGACCATAATACCCCTATAGGGAAAAATGACCGTAATGCCCCTGTAAGG
** *
22599777 TAAAATGACCATAATACCCCTATA-GGATAAAATGACTATGATGCCCCTGTAAGG
1 TAAAATGACCATAATACCCCTATAGGGA-AAAATGACCGTAATGCCCCTGTAAGG
* * * * * * *
22599831 TAAAATGACCGTAATTCCCCTGTAGGGTAAAATGACCGTGATTCCCTTGTAAGG
1 TAAAATGACCATAATACCCCTATAGGGAAAAATGACCGTAATGCCCCTGTAAGG
* * * * * *
22599885 TAAGATGGCCTTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGG
1 TAAAATGACCATAATACCCCTATAGGGAAAAATGACCGTAATGCCCCTGTAAGG
22599939 T-AAATGAC
1 TAAAATGAC
22599947 AATTATGCCT
Statistics
Matches: 141, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
53 7 0.05
54 132 0.94
55 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (54 bp):
TAAAATGACCATAATACCCCTATAGGGAAAAATGACCGTAATGCCCCTGTAAGG
Done.