Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 62 of 85
Found at i:21624348 original size:26 final size:26
Alignment explanation
Indices: 21624282--21624363 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
21624272 GGGTTAGGCA
21624282 AGCTGGGGTCGCCAGTGGGCCTGG-G
1 AGCTGGGGTCGCCAGTGGGCCTGGCG
* * *
21624307 AGCTAGGGTTCACCAGAGGGCCTGGCG
1 AGCT-GGGGTCGCCAGTGGGCCTGGCG
* *
21624334 AGCTGGGGTCGCCAGTGGGCTTGGCA
1 AGCTGGGGTCGCCAGTGGGCCTGGCG
21624360 AGCT
1 AGCT
21624364 ACAGTCGTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
25 4 0.09
26 38 0.81
27 5 0.11
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.17
Consensus pattern (26 bp):
AGCTGGGGTCGCCAGTGGGCCTGGCG
Found at i:21643337 original size:21 final size:21
Alignment explanation
Indices: 21643313--21643360 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
21643303 TGTTGTGAAG
*
21643313 GAAGTTGATGCTATAGAAGAA
1 GAAGTTGATGCTACAGAAGAA
* *
21643334 GAAGTTGTTGCTGCAGAAGAA
1 GAAGTTGATGCTACAGAAGAA
21643355 GAAGTT
1 GAAGTT
21643361 ACTGAAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (21 bp):
GAAGTTGATGCTACAGAAGAA
Found at i:21646256 original size:24 final size:25
Alignment explanation
Indices: 21646217--21646263 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
21646207 ATACAAAATA
*
21646217 TATTAATTTAATTCATGAATAATTT
1 TATTAATTCAATTCATGAATAATTT
21646242 TATTAA-TCAATTCATGAATAAT
1 TATTAATTCAATTCATGAATAAT
21646264 ACAAGTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (25 bp):
TATTAATTCAATTCATGAATAATTT
Found at i:21648684 original size:24 final size:23
Alignment explanation
Indices: 21648638--21648698 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
21648628 CAATTTATCT
* *
21648638 CATTTTTACTGGCAGCTTGTTTG
1 CATTTTTATTGGCAGATTGTTTG
*
21648661 CATTTTTATTGGCAGAATTTTTTG
1 CATTTTTATTGGCAG-ATTGTTTG
21648685 CATATTGTTATTGG
1 CAT-TT-TTATTGG
21648699 TGGTTTTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.44
24 9 0.28
25 2 0.06
26 7 0.22
ACGTcount: A:0.18, C:0.11, G:0.20, T:0.51
Consensus pattern (23 bp):
CATTTTTATTGGCAGATTGTTTG
Found at i:21662864 original size:17 final size:18
Alignment explanation
Indices: 21662828--21662864 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
21662818 AATGTCTCTA
21662828 ATTTTAGTTCTTTATATT
1 ATTTTAGTTCTTTATATT
21662846 ATTTTA-TT-TTTATTATT
1 ATTTTAGTTCTTTA-TATT
21662863 AT
1 AT
21662865 AAAAACCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
ATTTTAGTTCTTTATATT
Found at i:21669834 original size:36 final size:36
Alignment explanation
Indices: 21669794--21669863 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
21669784 GTTCTAAAAT
21669794 AAAGGTAAATTTATACTTTTTTAAGTTTCATATCAA
1 AAAGGTAAATTTATACTTTTTTAAGTTTCATATCAA
21669830 AAAGGTAAATTTATACTTTTTTAAGTTTCATATC
1 AAAGGTAAATTTATACTTTTTTAAGTTTCATATC
21669864 GAAACTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (36 bp):
AAAGGTAAATTTATACTTTTTTAAGTTTCATATCAA
Found at i:21672901 original size:22 final size:23
Alignment explanation
Indices: 21672858--21672908 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
21672848 CGATTTTTAA
*
21672858 ATTTTGAATTATTTAGTAATAAT
1 ATTTAGAATTATTTAGTAATAAT
*
21672881 ATTTAGAATTA-TTAGTGATAAT
1 ATTTAGAATTATTTAGTAATAAT
21672903 ATTTAG
1 ATTTAG
21672909 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTAATAAT
Found at i:21673402 original size:161 final size:162
Alignment explanation
Indices: 21673128--21673455 Score: 622
Period size: 161 Copynumber: 2.0 Consensus size: 162
21673118 CACTTTCCAT
21673128 AATTCCATTTAAACCATTTATTATGATTCTTTTCATGATTAACTAAATCCTTTTTAGCCTTAACC
1 AATTCCATTTAAACCATTTATTATGATTCTTTTCATGATTAACTAAATCCTTTTTAGCCTTAACC
* *
21673193 CGGTTATCACTCCGACAAAGTAATCATGAGATATGAACCCACACTAAATACTTTGCAATTCGGTA
66 CGGCTACCACTCCGACAAAGTAATCATGAGATATGAACCCACACTAAATACTTTGCAATTCGGTA
21673258 TTCGCTATCTCTCAAATATATGGGATAGTACA
131 TTCGCTATCTCTCAAATATATGGGATAGTACA
21673290 AATTCCATTTAAACCATTTATTATGATTCTTTTCATGATTAACTAAATCC-TTTTAGCCTTAACC
1 AATTCCATTTAAACCATTTATTATGATTCTTTTCATGATTAACTAAATCCTTTTTAGCCTTAACC
*
21673354 CGGCTACCACTCCGACAAAGTAATCATGAGATATGAACCCATACTAAATACTTTGCAATTCGGTA
66 CGGCTACCACTCCGACAAAGTAATCATGAGATATGAACCCACACTAAATACTTTGCAATTCGGTA
21673419 TTCGCTATCTCTCAAATATATGGGATAGTACA
131 TTCGCTATCTCTCAAATATATGGGATAGTACA
21673451 AATTC
1 AATTC
21673456 TTCCCTCAAA
Statistics
Matches: 163, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
161 113 0.69
162 50 0.31
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (162 bp):
AATTCCATTTAAACCATTTATTATGATTCTTTTCATGATTAACTAAATCCTTTTTAGCCTTAACC
CGGCTACCACTCCGACAAAGTAATCATGAGATATGAACCCACACTAAATACTTTGCAATTCGGTA
TTCGCTATCTCTCAAATATATGGGATAGTACA
Found at i:21673969 original size:5 final size:5
Alignment explanation
Indices: 21673959--21673985 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
21673949 TTGAATTTGT
21673959 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
21673986 ACACTTCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:21681107 original size:22 final size:22
Alignment explanation
Indices: 21681082--21681123 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
21681072 TTTTTTTACT
21681082 TTTATAATATAATTTGAATAAA
1 TTTATAATATAATTTGAATAAA
*
21681104 TTTATAATATCATTTGAATA
1 TTTATAATATAATTTGAATA
21681124 TAAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (22 bp):
TTTATAATATAATTTGAATAAA
Found at i:21682023 original size:16 final size:16
Alignment explanation
Indices: 21682002--21682057 Score: 71
Period size: 17 Copynumber: 3.6 Consensus size: 16
21681992 AAAATTAAAC
*
21682002 ATTTTAATAAAATAAT
1 ATTTTAATAAAATTAT
21682018 ATTTTAATTAAAATTAT
1 ATTTTAA-TAAAATTAT
*
21682035 TTTTTAAT-AAATTAT
1 ATTTTAATAAAATTAT
21682050 A-TTTAATA
1 ATTTTAATA
21682058 GGTATGTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 6 0.17
15 7 0.20
16 8 0.23
17 14 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTTAATAAAATTAT
Found at i:21695311 original size:24 final size:24
Alignment explanation
Indices: 21695249--21695311 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
21695239 CCATTTCATC
*
21695249 ATCAATTCATACCATATATCATTT
1 ATCAATTCATATCATATATCATTT
* *
21695273 ATCAATTCATGTCATTTATCATTT
1 ATCAATTCATATCATATATCATTT
*
21695297 ATTAATTCATATCAT
1 ATCAATTCATATCAT
21695312 GCTTGTTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (24 bp):
ATCAATTCATATCATATATCATTT
Found at i:21700662 original size:41 final size:41
Alignment explanation
Indices: 21700617--21700807 Score: 274
Period size: 41 Copynumber: 4.6 Consensus size: 41
21700607 GACAATACGT
* * *
21700617 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTAGAAAC
* * *
21700658 CTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTAGAAAC
* * *
21700699 CTTGCAGGCTAAGTGCTGGTGATCTGAATCAGGCTAGAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTAGAAAC
* *
21700740 CTAGCAGGCTAAGTGCTGGTGATCTGAATCAGGCTAGAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTAGAAAC
21700781 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
21700808 TTAAATTAAG
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
41 134 0.96
42 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTAGAAAC
Found at i:21710657 original size:41 final size:41
Alignment explanation
Indices: 21710595--21710785 Score: 292
Period size: 41 Copynumber: 4.6 Consensus size: 41
21710585 GACTATACGT
21710595 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
21710636 CTAGTAGGCTAAGTGTCGGTGATCTGAATTAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
21710677 CTAGCAGGCTAAGTGCTGGTGATCTGAATCAAGTTACAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
21710718 CTAGCAGGCTAAGTGCCGATGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
21710759 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
21710786 TTAAATTAAG
Statistics
Matches: 133, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
41 128 0.96
42 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:21712120 original size:20 final size:20
Alignment explanation
Indices: 21712095--21712133 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21712085 TGAGTTATTT
21712095 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
21712115 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
21712134 GATGAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:21718560 original size:17 final size:17
Alignment explanation
Indices: 21718538--21718576 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
21718528 GATTTTTTCT
21718538 ACTTTTCTGA-CTTTGTC
1 ACTTTT-TGACCTTTGTC
*
21718555 ACTTTTTGACCTTTTTC
1 ACTTTTTGACCTTTGTC
21718572 ACTTT
1 ACTTT
21718577 ATCTCACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.13, C:0.23, G:0.08, T:0.56
Consensus pattern (17 bp):
ACTTTTTGACCTTTGTC
Found at i:21725708 original size:14 final size:14
Alignment explanation
Indices: 21725689--21725721 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
21725679 AAAGTTTCCT
*
21725689 TTTTCTTCCTTTTA
1 TTTTCTTCCTTTGA
21725703 TTTTCTTCCTTTGA
1 TTTTCTTCCTTTGA
21725717 TTTTC
1 TTTTC
21725722 ATTTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.21, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTCTTCCTTTGA
Found at i:21732184 original size:21 final size:19
Alignment explanation
Indices: 21732138--21732193 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 19
21732128 AATCTTCGAG
*
21732138 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21732157 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21732176 GATATATGCAATCTTAGA
1 G--ATATGCAATCTTAGA
21732194 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21732215 original size:23 final size:24
Alignment explanation
Indices: 21732151--21732216 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 24
21732141 ATGTAATCTT
21732151 AGATATG--ATATGCAATCTT---
1 AGATATGATATATGCAATCTTAGA
21732170 AGATATGATATATGCAATCTTAGA
1 AGATATGATATATGCAATCTTAGA
* *
21732194 AGATATGAT-TTTGTAATCTTAGA
1 AGATATGATATATGCAATCTTAGA
21732217 GATTTAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.17
21 12 0.30
23 12 0.30
24 9 0.22
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (24 bp):
AGATATGATATATGCAATCTTAGA
Found at i:21736647 original size:19 final size:19
Alignment explanation
Indices: 21736620--21736656 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21736610 AGGGATGCTA
*
21736620 TTTCTAATTTGATATTGAG
1 TTTCGAATTTGATATTGAG
*
21736639 TTTCGAATTTGATTTTGA
1 TTTCGAATTTGATATTGA
21736657 TCTTGAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.54
Consensus pattern (19 bp):
TTTCGAATTTGATATTGAG
Found at i:21741124 original size:6 final size:6
Alignment explanation
Indices: 21741097--21741153 Score: 62
Period size: 6 Copynumber: 9.3 Consensus size: 6
21741087 GAAGTCTGAG
* * *
21741097 AAAATA AAAAAA AAGAACTA AAAATA AACAT- AAGATA AAAATA AAAATA
1 AAAATA AAAATA AA-AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
21741146 AAAATA AA
1 AAAATA AA
21741154 TAAACTCAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 4 0.09
6 32 0.74
7 4 0.09
8 3 0.07
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:21741137 original size:17 final size:16
Alignment explanation
Indices: 21741098--21741158 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 16
21741088 AAGTCTGAGA
*
21741098 AAATAAAAA-AAA-AG
1 AAATAAAAATAAACAT
*
21741112 AACTAAAAATAAACAT
1 AAATAAAAATAAACAT
*
21741128 AAGATAAAAATAAAAAT
1 AA-ATAAAAATAAACAT
21741145 AAA-AATAAATAAAC
1 AAATAA-AAATAAAC
21741159 TCAATGGTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 8 0.21
15 5 0.13
16 11 0.29
17 14 0.37
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (16 bp):
AAATAAAAATAAACAT
Found at i:21741145 original size:23 final size:22
Alignment explanation
Indices: 21741097--21741157 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
21741087 GAAGTCTGAG
* *
21741097 AAAATAAAAA-AAA-AGAACTA
1 AAAATAAAAATAAATAAAAATA
*
21741117 AAAATAAACATAAGATAAAAATA
1 AAAATAAAAATAA-ATAAAAATA
21741140 AAAATAAAAATAAATAAA
1 AAAATAAAAATAAATAAA
21741158 CTCAATGGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 6 0.18
23 17 0.50
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (22 bp):
AAAATAAAAATAAATAAAAATA
Found at i:21746849 original size:30 final size:29
Alignment explanation
Indices: 21746806--21746862 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
21746796 CCGAGCTGTG
21746806 GGGTAAAAGTGTAATTATGTAAAAGTTTA
1 GGGTAAAAGTGTAATTATGTAAAAGTTTA
* * *
21746835 GGGTCAAAATTGTAATTTTGTCAAAGTT
1 GGGT-AAAAGTGTAATTATGTAAAAGTT
21746863 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (29 bp):
GGGTAAAAGTGTAATTATGTAAAAGTTTA
Found at i:21747312 original size:50 final size:50
Alignment explanation
Indices: 21747201--21747731 Score: 427
Period size: 50 Copynumber: 10.6 Consensus size: 50
21747191 ATTTGGGTAA
*
21747201 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
21747257 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * * *
21747307 AGAGGTCCCATGTAAGAATATGTCTAGGACATAGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *** * *
21747357 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
21747407 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * * * * * **
21747456 AAACATCCCATGTAAGACTATGTTTGGGACATAGCTTTGGCA-TGTTAT-
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*** ** *
21747504 ATTCA-AACA-G-AAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
21747551 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * * *
21747601 AGCGATCCCCCGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * *
21747651 AGA-ACTCCCATGTAAGACTATATCTAGGATATGGCATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * *
21747700 AAACATCCCATGTAAGACTATGTCTGGGACAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACAT
21747732 AGTTTTGGCA
Statistics
Matches: 387, Mismatches: 76, Indels: 31
0.78 0.15 0.06
Matches are distributed among these distances:
45 25 0.06
46 4 0.01
47 3 0.01
48 7 0.02
49 68 0.18
50 236 0.61
53 3 0.01
55 1 0.00
56 40 0.10
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:21747527 original size:94 final size:94
Alignment explanation
Indices: 21747420--21747592 Score: 222
Period size: 95 Copynumber: 1.8 Consensus size: 94
21747410 ACTCCCATGT
* * *
21747420 AAGACCATATCTGGGATATGGCATTGGCA-GTACAAGAAACATCCCATGTAAGACTATGTTTGGG
1 AAGACCATATCTGGGACATGGCATTGGCACG-ACAAGAAACATCCCATGTAAGACCATGTCTGGG
*
21747484 ACATAGCTTTGGCATGTTATATTCAAACAG
65 ACATAGCGTTGGCATGTTATATTCAAACAG
* * * * * **
21747514 AAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGG
1 AAGACCATATCTGGGACATGGCATTGGCA-CGACAAGAAACATCCCATGTAAGACCATGTCTGGG
21747579 ACATAGCGTTGGCA
65 ACATAGCGTTGGCA
21747593 CCGAGATGAG
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
94 26 0.39
95 39 0.59
96 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (94 bp):
AAGACCATATCTGGGACATGGCATTGGCACGACAAGAAACATCCCATGTAAGACCATGTCTGGGA
CATAGCGTTGGCATGTTATATTCAAACAG
Found at i:21747645 original size:244 final size:244
Alignment explanation
Indices: 21747270--21747763 Score: 889
Period size: 244 Copynumber: 2.0 Consensus size: 244
21747260 GGTCCCATGT
*
21747270 AAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGAATATGTCTAGG
1 AAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGAACATGTCTAGG
* *
21747335 ACATAGCGTTGGCACCGAGATGAGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCAC
66 ACATAGCGTTGGCACCGAGATGAGAGATCCCCCATAAGACCATGTCTGGGACATAGCATGGGCAC
*
21747400 CGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAAGAAACATCCC
131 CGATATGAGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCAGTACAAGAAACATCCC
*
21747465 ATGTAAGACTATGTTTGGGACATAGCTTTGGCATGTTATATTCAAACAG
196 ATGTAAGACTATGTCTGGGACATAGCTTTGGCATGTTATATTCAAACAG
* *
21747514 AAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGG
1 AAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGAACATGTCTAGG
* *
21747579 ACATAGCGTTGGCACCGAGATGAGCGATCCCCCGTAAGACCATGTCTGGGACATAGCATGGGCAC
66 ACATAGCGTTGGCACCGAGATGAGAGATCCCCCATAAGACCATGTCTGGGACATAGCATGGGCAC
*
21747644 CGATATGAGAACTCCCATGTAAGACTATATCTAGGATATGGCATTGGCAGTACAAGAAACATCCC
131 CGATATGAGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCAGTACAAGAAACATCCC
*
21747709 ATGTAAGACTATGTCTGGGACATAGTTTTGGCATGTTATATTCAAACAG
196 ATGTAAGACTATGTCTGGGACATAGCTTTGGCATGTTATATTCAAACAG
21747758 AAGACC
1 AAGACC
21747764 CGAGTATCCT
Statistics
Matches: 239, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
244 239 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (244 bp):
AAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGAACATGTCTAGG
ACATAGCGTTGGCACCGAGATGAGAGATCCCCCATAAGACCATGTCTGGGACATAGCATGGGCAC
CGATATGAGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCAGTACAAGAAACATCCC
ATGTAAGACTATGTCTGGGACATAGCTTTGGCATGTTATATTCAAACAG
Found at i:21752264 original size:25 final size:25
Alignment explanation
Indices: 21752216--21752264 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
21752206 CAACACTAAT
**
21752216 CAGAGTTTAAGTTGGAAACTAAAAA
1 CAGAGTTTAAGTTGGAAAAGAAAAA
21752241 CAGAGTTTAA-TTGGAAGAAGAAAA
1 CAGAGTTTAAGTTGGAA-AAGAAAA
21752265 GCCAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.49, C:0.06, G:0.22, T:0.22
Consensus pattern (25 bp):
CAGAGTTTAAGTTGGAAAAGAAAAA
Found at i:21752507 original size:39 final size:39
Alignment explanation
Indices: 21752395--21752530 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 39
21752385 CGTTTGGATA
* * *
21752395 AAAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTACG
1 AAAAATGCCGCTAAAAA-TGAGCATTAGCGGCGTTTTTCG
* * *
21752435 -AAAATCGCCACTAAAGATCGAGCATTCGCGGCGTTTTTCG
1 AAAAAT-GCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTCG
*
21752475 AAAAATGCCGCTAAAAATGAGCATTAGCGGCGTTTTTCCC
1 AAAAATGCCGCTAAAAATGAGCATTAGCGGCGTTTTT-CG
21752515 AAAAATGCCG-TAAAAA
1 AAAAATGCCGCTAAAAA
21752531 ACTAAAGCCC
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
39 29 0.35
40 48 0.59
41 5 0.06
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (39 bp):
AAAAATGCCGCTAAAAATGAGCATTAGCGGCGTTTTTCG
Found at i:21752631 original size:41 final size:41
Alignment explanation
Indices: 21752570--21752886 Score: 397
Period size: 41 Copynumber: 7.8 Consensus size: 41
21752560 CTTTATGGTC
* ** *
21752570 TTTAGTGGCGTTTTAAAAAAAGCGCCGCTAATGCTCAGGGA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGA
* **
21752611 TTTAGCGGCGTTTTTGAAAAAGCACTACTAATGCTCGGGGA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGA
* *
21752652 TTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCTGGGA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGA
* * ** *
21752693 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATTCTCTAGTA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGA
* * *
21752734 TTTAGCGGCGTTTTTGAAAAAGCACCGCTAATTCTCGGGGT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGA
* * *
21752775 TTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGTTCGGGGT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGA
**
21752816 TTTAGCGGCGTTTCTT-AAAAAGCGCCGCTAATGCT-GTGGTC
1 TTTAGCGGCGTTT-TTGAAAAAGCGCCGCTAATGCTCG-GGGA
21752857 TTTAGCGGCGTTTTTG-AAAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
21752887 AAACATTTTA
Statistics
Matches: 244, Mismatches: 29, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
40 17 0.07
41 225 0.92
42 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGA
Found at i:21753235 original size:14 final size:14
Alignment explanation
Indices: 21753197--21753285 Score: 70
Period size: 14 Copynumber: 5.9 Consensus size: 14
21753187 CTAAGGTAAT
*
21753197 TTAGGGATTATGTGT
1 TTAGGGATTATG-GA
*
21753212 TTAGGGATTAGGGA
1 TTAGGGATTATGGA
*
21753226 TTATGGATTATGGA
1 TTAGGGATTATGGA
* *
21753240 TTGTTTAGGGAGTATGAA
1 ----TTAGGGATTATGGA
*
21753258 TTTATGGATTATGGA
1 -TTAGGGATTATGGA
21753273 TTAGGGATTATGG
1 TTAGGGATTATGG
21753286 TGTAAGGGTT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
14 25 0.42
15 23 0.39
18 11 0.19
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:21753250 original size:47 final size:47
Alignment explanation
Indices: 21753196--21753285 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 47
21753186 TCTAAGGTAA
* ** *
21753196 TTTAGGGATTATGTGTTTAGGGATTAGGGATTATGGATTATGGATTG
1 TTTAGGGAGTATGAATTTAGGGATTAGGGATTAGGGATTATGGATTG
* *
21753243 TTTAGGGAGTATGAATTTATGGATTATGGATTAGGGATTATGG
1 TTTAGGGAGTATGAATTTAGGGATTAGGGATTAGGGATTATGG
21753286 TGTAAGGGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (47 bp):
TTTAGGGAGTATGAATTTAGGGATTAGGGATTAGGGATTATGGATTG
Found at i:21753255 original size:25 final size:26
Alignment explanation
Indices: 21753219--21753267 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
21753209 TGTTTAGGGA
* *
21753219 TTAGGGATTATGGA-TTATGGATTGT
1 TTAGGGAGTATGAATTTATGGATTGT
21753244 TTAGGGAGTATGAATTTATGGATT
1 TTAGGGAGTATGAATTTATGGATT
21753268 ATGGATTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.43
Consensus pattern (26 bp):
TTAGGGAGTATGAATTTATGGATTGT
Found at i:21753297 original size:21 final size:22
Alignment explanation
Indices: 21753273--21753320 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
21753263 GGATTATGGA
*
21753273 TTAGGGA-TTATGGTGTAAGGG
1 TTAGGGATTTAAGGTGTAAGGG
* *
21753294 TTA-GGATTTAAGGTTTAGGGG
1 TTAGGGATTTAAGGTGTAAGGG
21753315 TTAGGG
1 TTAGGG
21753321 GTTAGGGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 17 0.77
22 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (22 bp):
TTAGGGATTTAAGGTGTAAGGG
Found at i:21753318 original size:7 final size:7
Alignment explanation
Indices: 21753308--21753344 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
21753298 GATTTAAGGT
21753308 TTAGGGG
1 TTAGGGG
21753315 TTAGGGG
1 TTAGGGG
21753322 TTAGGGG
1 TTAGGGG
*
21753329 TTAGAGG
1 TTAGGGG
*
21753336 TTAGAGG
1 TTAGGGG
21753343 TT
1 TT
21753345 TAAGGGTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.19, C:0.00, G:0.49, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:21753332 original size:21 final size:22
Alignment explanation
Indices: 21753301--21753353 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
21753291 GGGTTAGGAT
* *
21753301 TTAAGGTTTAGGGGTTAG-GGG
1 TTAAGGGTTAGAGGTTAGAGGG
* *
21753322 TTAGGGGTTAGAGGTTAGAGGT
1 TTAAGGGTTAGAGGTTAGAGGG
21753344 TTAAGGGTTA
1 TTAAGGGTTA
21753354 AGAGTTAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.34
Consensus pattern (22 bp):
TTAAGGGTTAGAGGTTAGAGGG
Found at i:21753659 original size:21 final size:20
Alignment explanation
Indices: 21753635--21753710 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 20
21753625 TAGGGATTAT
*
21753635 GGTTTAAGGGTTGAGATTTAA
1 GGTTTAAGGGTT-AGATTTAG
* *
21753656 GGTTTAGGGGTTAGGAGTTAGG
1 GGTTTAAGGGTTA-GATTTA-G
*
21753678 GGGTTAAGGGTTAAGATTTAG
1 GGTTTAAGGGTT-AGATTTAG
21753699 GGATTT-AGGGTT
1 GG-TTTAAGGGTT
21753711 TCAAGGATCG
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 1 0.02
21 25 0.57
22 17 0.39
23 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.36
Consensus pattern (20 bp):
GGTTTAAGGGTTAGATTTAG
Found at i:21756528 original size:28 final size:28
Alignment explanation
Indices: 21756486--21756546 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
21756476 ATTCTTTTCT
*
21756486 TTTGACAAAGAACTT-GAGGTTGAACTGA
1 TTTGACAAAGAACTTGGA-GTTGAACTAA
* *
21756514 TTTGACTAAGGACTTGGAGTTGAACTAA
1 TTTGACAAAGAACTTGGAGTTGAACTAA
21756542 TTTGA
1 TTTGA
21756547 TTCTTGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.33
Consensus pattern (28 bp):
TTTGACAAAGAACTTGGAGTTGAACTAA
Found at i:21758043 original size:43 final size:42
Alignment explanation
Indices: 21757897--21758082 Score: 160
Period size: 43 Copynumber: 4.4 Consensus size: 42
21757887 TTATTTATTA
* * * * * * *
21757897 AAAAGTGCCGCTAAAGGTCACGATCTATAGTGGCGTTTGTGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTAG
* * * *
21757939 TAAAAGCGCCGCTAAAGCTCTTGAG-CTATAGCGGCGTTTTTGG
1 -AAAAGCGCCGCTAAAGGTCATG-GTCTTTAGCGGCGTTTTTAG
* *
21757982 TAAAGCGCCGCTAAAGGTCAAT-GTTTTTAGCGGCGTTTGTTAG
1 AAAAGCGCCGCTAAAGGTC-ATGGTCTTTAGCGGCGTTT-TTAG
* * **
21758025 AAAAGCGCCGCTATAGGTCATGGTCTTTAGCGGCGCTTTTCC
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTAG
*
21758067 AAAAACGCCGCTAAAG
1 AAAAGCGCCGCTAAAG
21758083 TTAGTGACGC
Statistics
Matches: 117, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 47 0.40
43 69 0.59
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTAG
Found at i:21762495 original size:13 final size:13
Alignment explanation
Indices: 21762477--21762510 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
21762467 TCCGACAGTG
21762477 TTCTTCGAGTGTT
1 TTCTTCGAGTGTT
21762490 TTCTTCGAGTGTT
1 TTCTTCGAGTGTT
21762503 TTCTTCGA
1 TTCTTCGA
21762511 TCTTCTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.09, C:0.18, G:0.21, T:0.53
Consensus pattern (13 bp):
TTCTTCGAGTGTT
Found at i:21763064 original size:104 final size:105
Alignment explanation
Indices: 21762874--21763083 Score: 413
Period size: 104 Copynumber: 2.0 Consensus size: 105
21762864 AGAATGAGAT
21762874 TAAAATATGTTACTTTTATAGCTTATCACACGCACTCATCATTGGTAGCGTGCACCAAAACATCT
1 TAAAATATGTTACTTTTATAGCTTATCACACGCACTCATCATTGGTAGCGTGCACCAAAACATCT
21762939 AACTGGGGATACAGTTCATAAGCACATTCTACGGATATAC
66 AACTGGGGATACAGTTCATAAGCACATTCTACGGATATAC
21762979 TAAAATATG-TACTTTTATAGCTTATCACACGCACTCATCATTGGTAGCGTGCACCAAAACATCT
1 TAAAATATGTTACTTTTATAGCTTATCACACGCACTCATCATTGGTAGCGTGCACCAAAACATCT
21763043 AACTGGGGATACAGTTCATAAGCACATTCTACGGATATAC
66 AACTGGGGATACAGTTCATAAGCACATTCTACGGATATAC
21763083 T
1 T
21763084 CCGCATTTCA
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 96 0.91
105 9 0.09
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (105 bp):
TAAAATATGTTACTTTTATAGCTTATCACACGCACTCATCATTGGTAGCGTGCACCAAAACATCT
AACTGGGGATACAGTTCATAAGCACATTCTACGGATATAC
Found at i:21774129 original size:41 final size:41
Alignment explanation
Indices: 21774069--21774151 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
21774059 TAACCTAATT
**
21774069 AGGAAAATAATTCTTTTATTCTAATAAACTAATAAAACATA
1 AGGAAAATAATTCCCTTATTCTAATAAACTAATAAAACATA
* *
21774110 AGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATA
1 AGGAAAATAATTCCCTTATTCTAATAAACTAATAAAACATA
21774151 A
1 A
21774152 AATAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (41 bp):
AGGAAAATAATTCCCTTATTCTAATAAACTAATAAAACATA
Found at i:21774217 original size:19 final size:19
Alignment explanation
Indices: 21774189--21774226 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
21774179 TGATTTATTC
21774189 TAAGACTTATCTACCTAAA
1 TAAGACTTATCTACCTAAA
*
21774208 TAAGATTTATCTACCTAAA
1 TAAGACTTATCTACCTAAA
21774227 AACATATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.34
Consensus pattern (19 bp):
TAAGACTTATCTACCTAAA
Found at i:21774814 original size:24 final size:24
Alignment explanation
Indices: 21774781--21774831 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
21774771 TTTAAAGAAT
21774781 AAGCCATTTCCAGGTGAACTCTTC
1 AAGCCATTTCCAGGTGAACTCTTC
* *
21774805 AAGCCCTTTCTAGGTGAACTCTTC
1 AAGCCATTTCCAGGTGAACTCTTC
21774829 AAG
1 AAG
21774832 TATCTCAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (24 bp):
AAGCCATTTCCAGGTGAACTCTTC
Found at i:21778029 original size:41 final size:41
Alignment explanation
Indices: 21777972--21778053 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
21777962 AACCTAATTG
*
21777972 GGAAAATAATTCCCTTATTCTAATAAGCTACTAAAACATAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
*
21778013 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
21778054 AATAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (41 bp):
GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
Found at i:21792884 original size:22 final size:23
Alignment explanation
Indices: 21792854--21792899 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
21792844 AAGGTGTTCG
* *
21792854 GGGTGGTGA-TTTAGGGGGTTAA
1 GGGTGGTGACCTTAAGGGGTTAA
*
21792876 GGGTTGTGACCTTAAGGGGTTAA
1 GGGTGGTGACCTTAAGGGGTTAA
21792899 G
1 G
21792900 TGAGATGCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.20, C:0.04, G:0.46, T:0.30
Consensus pattern (23 bp):
GGGTGGTGACCTTAAGGGGTTAA
Found at i:21816773 original size:11 final size:10
Alignment explanation
Indices: 21816745--21816787 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
21816735 CCAATTAAGC
21816745 AAACATAAAAGA
1 AAAC-TAAAA-A
21816757 AAACTAAAAA
1 AAACTAAAAA
*
21816767 AACACTAAAGA
1 AA-ACTAAAAA
21816778 AAACTAAAAA
1 AAACTAAAAA
21816788 TCTAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 10 0.36
11 14 0.50
12 4 0.14
ACGTcount: A:0.74, C:0.12, G:0.05, T:0.09
Consensus pattern (10 bp):
AAACTAAAAA
Found at i:21816785 original size:10 final size:10
Alignment explanation
Indices: 21816752--21816785 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
21816742 AGCAAACATA
21816752 AAAGAAAACT
1 AAAGAAAACT
*
21816762 AAAAAAACACT
1 AAAGAAA-ACT
21816773 AAAGAAAACT
1 AAAGAAAACT
21816783 AAA
1 AAA
21816786 AATCTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.74, C:0.12, G:0.06, T:0.09
Consensus pattern (10 bp):
AAAGAAAACT
Found at i:21818574 original size:72 final size:72
Alignment explanation
Indices: 21818488--21818635 Score: 278
Period size: 72 Copynumber: 2.1 Consensus size: 72
21818478 TGCAGTATGA
* *
21818488 TTCACGTTTCCATCATCATCATCTTTTCACTATAGATTTTGTGTCATTGACAACTCTAGAATAAG
1 TTCACGTTTCCATCATCATCATCTTTTCACTATAGATTATGTGTCATTGACAACTCTAGAATAAA
21818553 AGTTATC
66 AGTTATC
21818560 TTCACGTTTCCATCATCATCATCTTTTCACTATAGATTATGTGTCATTGACAACTCTAGAATAAA
1 TTCACGTTTCCATCATCATCATCTTTTCACTATAGATTATGTGTCATTGACAACTCTAGAATAAA
21818625 AGTTATC
66 AGTTATC
21818632 TTCA
1 TTCA
21818636 ACACTTCTAG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (72 bp):
TTCACGTTTCCATCATCATCATCTTTTCACTATAGATTATGTGTCATTGACAACTCTAGAATAAA
AGTTATC
Found at i:21821720 original size:13 final size:13
Alignment explanation
Indices: 21821702--21821726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21821692 CATTTCCAAG
21821702 TCATTTTCATTTT
1 TCATTTTCATTTT
21821715 TCATTTTCATTT
1 TCATTTTCATTT
21821727 AGAAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:21825925 original size:13 final size:14
Alignment explanation
Indices: 21825907--21825936 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
21825897 AACTTTAAAA
21825907 TTTTAAAAAAT-AT
1 TTTTAAAAAATCAT
21825920 TTTTAAAAAATCAT
1 TTTTAAAAAATCAT
21825934 TTT
1 TTT
21825937 AGCCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTAAAAAATCAT
Found at i:21834793 original size:221 final size:221
Alignment explanation
Indices: 21834398--21834836 Score: 641
Period size: 221 Copynumber: 2.0 Consensus size: 221
21834388 AGAAACAATA
* * * * * *
21834398 TATAACCTTTTAAAAAAATCCAAGTTGTATGGAGTTGGAAGCTTTGCTTTAGGTTTGTGTTATGG
1 TATAACCTTTTAAAAAAATCCAAATTATATGAAGCTGAAAGCTTTGCTTTAGGTTTATGTTATGG
*
21834463 TTTTTTATGCTATGGGATTTTGTACTTGATCTCTTATCTGCATGCATTTTGCTCAGAATTTGGAG
66 TTTTTTATGCTATGGGATTGTGTACTTGATCTCTTATCTGCATGCATTTTGCTCAGAATTTGGAG
* * * * *
21834528 AAGTACTTAGTACTGACAGTTCGCTAATTCCTTATTTTTGCTTTTAGGTACGTTCACTGAGTGGA
131 AAGTACTTAGTACTGACAGTTCGCTAATTCCATATGTGTGCTTTTAAGTACGTTCACTGAATGGA
*
21834593 GTGA-TCAAAGATATTGGAAACCCCTT
196 GTGAGT-AAAGAGATTGGAAACCCCTT
* * *
21834619 TATAACCTTTTAAAAAAATGCAAATTATATGAAGCTGAAAGCTTTGCTTTTGTTTTATGTTATGG
1 TATAACCTTTTAAAAAAATCCAAATTATATGAAGCTGAAAGCTTTGCTTTAGGTTTATGTTATGG
* * *
21834684 TTTTTTATGGTATGGGATTGTGTATTTGATCTCTTATTTGCATGCATTTTGCTCCA-AATTTGGA
66 TTTTTTATGCTATGGGATTGTGTACTTGATCTCTTATCTGCATGCATTTTGCT-CAGAATTTGGA
* *
21834748 -ATAGTACTTAGTACTGACTGTTTGCTAATTCCATATGTGTGCTTTTAAGTACGTTCACTGAATG
130 GA-AGTACTTAGTACTGACAGTTCGCTAATTCCATATGTGTGCTTTTAAGTACGTTCACTGAATG
21834812 GAGTGAGTAAAGAGATTGGAAACCC
194 GAGTGAGTAAAGAGATTGGAAACCC
21834837 TTCTTGGAAG
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
220 1 0.01
221 190 0.98
222 3 0.02
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (221 bp):
TATAACCTTTTAAAAAAATCCAAATTATATGAAGCTGAAAGCTTTGCTTTAGGTTTATGTTATGG
TTTTTTATGCTATGGGATTGTGTACTTGATCTCTTATCTGCATGCATTTTGCTCAGAATTTGGAG
AAGTACTTAGTACTGACAGTTCGCTAATTCCATATGTGTGCTTTTAAGTACGTTCACTGAATGGA
GTGAGTAAAGAGATTGGAAACCCCTT
Found at i:21838307 original size:13 final size:13
Alignment explanation
Indices: 21838289--21838316 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21838279 TTGTAGTACA
21838289 ATGTTGACACTTC
1 ATGTTGACACTTC
21838302 ATGTTGACACTTC
1 ATGTTGACACTTC
21838315 AT
1 AT
21838317 ATGATTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.39
Consensus pattern (13 bp):
ATGTTGACACTTC
Found at i:21844096 original size:13 final size:13
Alignment explanation
Indices: 21844078--21844122 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
21844068 TTTATCTGAC
21844078 CCTTGAAACTCTT
1 CCTTGAAACTCTT
** * *
21844091 CCTTGAGTCTGTC
1 CCTTGAAACTCTT
21844104 CCTTGAAACTCTT
1 CCTTGAAACTCTT
21844117 CCTTGA
1 CCTTGA
21844123 GTCTGTCCCA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.18, C:0.31, G:0.13, T:0.38
Consensus pattern (13 bp):
CCTTGAAACTCTT
Found at i:21844108 original size:26 final size:26
Alignment explanation
Indices: 21844072--21844131 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
21844062 TTTGGTTTTA
*
21844072 TCTGACCCTTGAAACTCTTCCTTGAG
1 TCTGTCCCTTGAAACTCTTCCTTGAG
21844098 TCTGTCCCTTGAAACTCTTCCTTGAG
1 TCTGTCCCTTGAAACTCTTCCTTGAG
21844124 TCTGTCCC
1 TCTGTCCC
21844132 AGACCTGCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.15, C:0.33, G:0.15, T:0.37
Consensus pattern (26 bp):
TCTGTCCCTTGAAACTCTTCCTTGAG
Found at i:21846353 original size:21 final size:21
Alignment explanation
Indices: 21846328--21846373 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
21846318 TGTTTGAATA
*
21846328 ATATATGCTAAACAAAAAATT
1 ATATATGATAAACAAAAAATT
* *
21846349 ATATATGATACACAATAAATT
1 ATATATGATAAACAAAAAATT
21846370 -TATA
1 ATATA
21846374 AATTAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (21 bp):
ATATATGATAAACAAAAAATT
Found at i:21849156 original size:9 final size:9
Alignment explanation
Indices: 21849131--21849167 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
21849121 ATTTAATTGA
21849131 TAAATTAAT
1 TAAATTAAT
* *
21849140 TTATTTAAT
1 TAAATTAAT
21849149 TAAATTAAT
1 TAAATTAAT
21849158 TAAATTAAT
1 TAAATTAAT
21849167 T
1 T
21849168 GATTAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TAAATTAAT
Found at i:21849172 original size:13 final size:13
Alignment explanation
Indices: 21849123--21849175 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
21849113 AGAAAATTAT
21849123 TTAATTGA-TAAA
1 TTAATTGATTAAA
* *
21849135 TTAATTTATTTAA
1 TTAATTGATTAAA
*
21849148 TTAAATTAATTAAA
1 TT-AATTGATTAAA
21849162 TTAATTGATTAAA
1 TTAATTGATTAAA
21849175 T
1 T
21849176 AAATAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
12 7 0.21
13 16 0.47
14 11 0.32
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (13 bp):
TTAATTGATTAAA
Found at i:21858613 original size:26 final size:26
Alignment explanation
Indices: 21858584--21858635 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
21858574 TTTAATTGCC
*
21858584 TTAATTATAGTTTCTTATTCTATAAA
1 TTAATTATAGTTTCTTAGTCTATAAA
*
21858610 TTAATTTTAGTTTCTTAGTCTATAAA
1 TTAATTATAGTTTCTTAGTCTATAAA
21858636 AATAGAACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (26 bp):
TTAATTATAGTTTCTTAGTCTATAAA
Found at i:21867063 original size:26 final size:27
Alignment explanation
Indices: 21867022--21867078 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 27
21867012 CACATGATTT
21867022 TATTTATTTATTAATTTATT-AAATAATA
1 TATTTATTTATTAATTT-TTAAAAT-ATA
21867050 TATTT-TTTA-TAATTTTTAAAATATA
1 TATTTATTTATTAATTTTTAAAATATA
21867075 TATT
1 TATT
21867079 CTAATTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 9 0.32
26 10 0.36
27 4 0.14
28 5 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TATTTATTTATTAATTTTTAAAATATA
Found at i:21869781 original size:29 final size:28
Alignment explanation
Indices: 21869732--21869787 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
21869722 ATGGATTTTT
21869732 ATAATTTTTAATTTATCTAATTATATTCA
1 ATAATTTTTAATTTA-CTAATTATATTCA
*
21869761 ATAATTTTATAGATTTA-TAATTTTATT
1 ATAATTTT-TA-ATTTACTAATTATATT
21869788 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 17 0.71
30 2 0.08
31 5 0.21
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (28 bp):
ATAATTTTTAATTTACTAATTATATTCA
Found at i:21871369 original size:17 final size:17
Alignment explanation
Indices: 21871347--21871381 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
21871337 CAACACATAG
21871347 ACATTCGAATGGAATTA
1 ACATTCGAATGGAATTA
21871364 ACATTCGAATGGAATTA
1 ACATTCGAATGGAATTA
21871381 A
1 A
21871382 ACATGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (17 bp):
ACATTCGAATGGAATTA
Found at i:21872513 original size:35 final size:37
Alignment explanation
Indices: 21872439--21872522 Score: 95
Period size: 35 Copynumber: 2.4 Consensus size: 37
21872429 ATATACTATT
* *
21872439 ATATTAATTAATATTATTTTATTATTATCACTTAGTA
1 ATATTAATTAATATTATTTTATTAATATCACTTAATA
* *
21872476 ATATTAA-TAA-ATTATTTT-TTAATGTCAATTTAATA
1 ATATTAATTAATATTATTTTATTAATATC-ACTTAATA
21872511 ATA-TAATTAATA
1 ATATTAATTAATA
21872523 ATAAATGGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
34 9 0.22
35 20 0.50
36 4 0.10
37 7 0.17
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (37 bp):
ATATTAATTAATATTATTTTATTAATATCACTTAATA
Found at i:21872888 original size:14 final size:14
Alignment explanation
Indices: 21872869--21872897 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21872859 TTTTCGTTTT
21872869 CATTTTGGAGAAAA
1 CATTTTGGAGAAAA
21872883 CATTTTGGAGAAAA
1 CATTTTGGAGAAAA
21872897 C
1 C
21872898 CATGATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (14 bp):
CATTTTGGAGAAAA
Found at i:21873096 original size:16 final size:16
Alignment explanation
Indices: 21873071--21873104 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21873061 TTTTCGACTA
*
21873071 TTAATTATAAACTCAT
1 TTAATCATAAACTCAT
*
21873087 TTAATCATAAAGTCAT
1 TTAATCATAAACTCAT
21873103 TT
1 TT
21873105 CACTATGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (16 bp):
TTAATCATAAACTCAT
Found at i:21874968 original size:19 final size:19
Alignment explanation
Indices: 21874930--21874969 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21874920 AAAATATCAT
*
21874930 ATTAATTTTAGTTGATTTG
1 ATTAATTTTAGTTGACTTG
* *
21874949 ATTAATTTTATTTTACTTG
1 ATTAATTTTAGTTGACTTG
21874968 AT
1 AT
21874970 CAAAATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAGTTGACTTG
Found at i:21885261 original size:42 final size:42
Alignment explanation
Indices: 21885186--21885299 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
21885176 TCCTTTGTAT
* * * *
21885186 GTAAGTCAGTGAGTTACACGACCTGGCACACGGGCATCTGGG
1 GTAAATCAGAGAGTTACACGGCCTGGCATACGGGCATCTGGG
* * ** *
21885228 GTAAATTAGAGAGTTACACGGCCTGACATACGGGTGTGTGGG
1 GTAAATCAGAGAGTTACACGGCCTGGCATACGGGCATCTGGG
* *
21885270 GTAACTCAGAGAGTAACACGGCCTGGCATA
1 GTAAATCAGAGAGTTACACGGCCTGGCATA
21885300 TGGACGTGTG
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.20
Consensus pattern (42 bp):
GTAAATCAGAGAGTTACACGGCCTGGCATACGGGCATCTGGG
Found at i:21885309 original size:42 final size:42
Alignment explanation
Indices: 21885224--21885309 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
21885214 CACGGGCATC
* * **
21885224 TGGGGTAAATTAGAGAGTTACACGGCCTGACATACGGGTGTG
1 TGGGGTAAATCAGAGAGTAACACGGCCTGACATACGGACGTG
* * *
21885266 TGGGGTAACTCAGAGAGTAACACGGCCTGGCATATGGACGTG
1 TGGGGTAAATCAGAGAGTAACACGGCCTGACATACGGACGTG
21885308 TG
1 TG
21885310 ACCTTACTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.26, C:0.16, G:0.36, T:0.22
Consensus pattern (42 bp):
TGGGGTAAATCAGAGAGTAACACGGCCTGACATACGGACGTG
Found at i:21886027 original size:61 final size:62
Alignment explanation
Indices: 21885752--21886034 Score: 310
Period size: 61 Copynumber: 4.6 Consensus size: 62
21885742 GGACAAGAAA
* * * * *
21885752 GCCTTTATGGAAAAAATAT-GGACAAGAAAGCCTTTGTGATGAGTACTGAATGTTAAGGAAC
1 GCCTTTGTGGAAAAACTCTAGGACAGGAAAGCCTTTGTGGTGAGTACTGAATGTTAAGGAAC
* * * *
21885813 GCTTTTGTGGCAAAAA-TCTAGG-CAGGAAAGCCTTTGCGGTGAGTATTGAATGTTAAGGAAT
1 GCCTTTGTGG-AAAAACTCTAGGACAGGAAAGCCTTTGTGGTGAGTACTGAATGTTAAGGAAC
** * * * *
21885874 GTTTTTGTGGAAAACCTCTA-GATAGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAAT
1 GCCTTTGTGGAAAAACTCTAGGACAGGAAAGCCTTTGTGGTGAGTACTGAATGTTAAGGAAC
* *
21885935 GCCTTTGTGGAAAAACTCT-GGACAGGAAAGCCTTTGTGGTGAGTATTAAATGTTAAGGAAC
1 GCCTTTGTGGAAAAACTCTAGGACAGGAAAGCCTTTGTGGTGAGTACTGAATGTTAAGGAAC
* * * *
21885996 ACCTTTATGGAAAAACT-TAGGGA-AGGTAAGCCTATGTGG
1 GCCTTTGTGGAAAAACTCTA-GGACAGGAAAGCCTTTGTGG
21886035 CGAACCTTTG
Statistics
Matches: 189, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
60 6 0.03
61 173 0.92
62 10 0.05
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (62 bp):
GCCTTTGTGGAAAAACTCTAGGACAGGAAAGCCTTTGTGGTGAGTACTGAATGTTAAGGAAC
Found at i:21888971 original size:25 final size:25
Alignment explanation
Indices: 21888942--21889009 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
21888932 GATACTCCAC
*
21888942 AGCTCGTGAGAGCATACTGATTTAT
1 AGCTCGTGAGAGCATACCGATTTAT
*
21888967 AGCTCGTAAGAGCATACCGATTTAT
1 AGCTCGTGAGAGCATACCGATTTAT
**
21888992 AGCTTATGAGAGCATACC
1 AGCTCGTGAGAGCATACC
21889010 AATCTACAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCGATTTAT
Found at i:21894969 original size:19 final size:19
Alignment explanation
Indices: 21894935--21894971 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21894925 ATTTGATCTC
* *
21894935 TTTCCTTTTGTTTTTTTAA
1 TTTCCTTTTATGTTTTTAA
21894954 TTTCCTTTTATGTTTTTA
1 TTTCCTTTTATGTTTTTA
21894972 GGATAGTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTCCTTTTATGTTTTTAA
Found at i:21906811 original size:20 final size:20
Alignment explanation
Indices: 21906786--21906827 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
21906776 TCAGAGTATT
21906786 TTCTAACTCTTTTAACATGA
1 TTCTAACTCTTTTAACATGA
*
21906806 TTCTAACTTTTTTAACATGA
1 TTCTAACTCTTTTAACATGA
21906826 TT
1 TT
21906828 AGAATGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.50
Consensus pattern (20 bp):
TTCTAACTCTTTTAACATGA
Found at i:21906852 original size:32 final size:31
Alignment explanation
Indices: 21906810--21906883 Score: 123
Period size: 32 Copynumber: 2.4 Consensus size: 31
21906800 ACATGATTCT
21906810 AACTTT-TTTAACATGATTAGAATGTTTGTA
1 AACTTTCTTTAACATGATTAGAATGTTTGTA
21906840 ATACTTTCTTTAACATGATTAGAATGTTTGTA
1 A-ACTTTCTTTAACATGATTAGAATGTTTGTA
*
21906872 AACTTACTTTAA
1 AACTTTCTTTAA
21906884 AGTTTTATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 1 0.02
31 15 0.37
32 25 0.61
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (31 bp):
AACTTTCTTTAACATGATTAGAATGTTTGTA
Found at i:21910668 original size:47 final size:48
Alignment explanation
Indices: 21910611--21910714 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 48
21910601 TTAAATTAAA
*
21910611 TAATAAAATATAATGTTATATTTTAATAATTCATTTTAAATATTTCAT
1 TAATAAAATATAATGTTATATTTTAATAATTAATTTTAAATATTTCAT
21910659 T-ATAAAATATAATGTTATATTTTAATAATTAATTTTAAATATTTCAT
1 TAATAAAATATAATGTTATATTTTAATAATTAATTTTAAATATTTCAT
21910706 TAATAAAAT
1 TAATAAAAT
21910715 TGGGTTTAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
47 46 0.85
48 8 0.15
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (48 bp):
TAATAAAATATAATGTTATATTTTAATAATTAATTTTAAATATTTCAT
Found at i:21911384 original size:47 final size:47
Alignment explanation
Indices: 21911315--21911408 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
21911305 AATTGGGTTT
21911315 AATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGAGTTC
1 AATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGAGTTC
21911362 AATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGAGTTC
1 AATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGAGTTC
21911409 CCTGTTCTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.53
Consensus pattern (47 bp):
AATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGAGTTC
Found at i:21915175 original size:84 final size:85
Alignment explanation
Indices: 21915086--21915373 Score: 252
Period size: 84 Copynumber: 3.4 Consensus size: 85
21915076 TTGGCTTTAA
** * *
21915086 TCTGCTCCACTAAAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCT-CAACTTCAGGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTACCTGCAACTTCAGAAG
21915150 GATAAGACTTGCTTACTTAG
66 GATAAGACTTGCTTACTTAG
* * * * *
21915170 TCTGCTTCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGC--TCT--CTGCAAATTCA-
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGA-T--TTGCAATCTTCAGTCTACCTGCAACTTCAG
** *
21915230 AAGAGATAAGATCCAAAG-TT--TTAA
63 AAG-GATAAGA--C-TTGCTTACTTAG
* * * *
21915254 TCCGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAATCTTCAGTCTACCTCACTGCAACTTCA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTA---C-CTGCAACTTCA
21915319 GAAGGATAAGACTTGCTTACTTAG
62 GAAGGATAAGACTTGCTTACTTAG
* *
21915343 TATGCTCCACTGTAGCTTCAGGGAGATAAGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGA
21915374 CTAGATGGGA
Statistics
Matches: 156, Mismatches: 28, Indels: 35
0.71 0.13 0.16
Matches are distributed among these distances:
81 7 0.04
83 8 0.05
84 72 0.46
85 4 0.03
86 4 0.03
87 12 0.08
89 46 0.29
90 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (85 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTACCTGCAACTTCAGAAG
GATAAGACTTGCTTACTTAG
Found at i:21915367 original size:173 final size:168
Alignment explanation
Indices: 21915081--21915459 Score: 551
Period size: 173 Copynumber: 2.2 Consensus size: 168
21915071 AATTATTGGC
* ** *
21915081 TTTAATCTGCTCCACTAAAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCAACTTCA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTACCTCAACTTCA
* * *
21915146 GGAGGATAAGACTTGCTTACTTAGTCTGCTTCACTGTAACTTCAGGGAGATAAGACTAGATGCGA
66 GAAGGATAAGACTTGCTTACTTAGTATGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGA
* *
21915211 TCTGCTCTCTGCAAATTCAAAGAGATAAGATCCAAAGT
131 TCTACTCTATGCAAATTCAAAGAGATAAGATCCAAAGT
* *
21915249 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAATCTTCAGTCTACCTCACTGCAA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTA---C-CT-CAA
*
21915314 CTTCAGAAGGATAAGACTTGCTTACTTAGTATGCTCCACTGTAGCTTCAGGGAGATAAGACTAGA
61 CTTCAGAAGGATAAGACTTGCTTACTTAGTATGCTCCACTGTAACTTCAGGGAGATAAGACTAGA
* * * * *
21915379 TGGGATCTACTCTATGCAACTTCAGAGATATAAGATCCAAGGT
126 TGCGATCTACTCTATGCAAATTCAAAGAGATAAGATCCAAAGT
*
21915422 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATT
21915460 ATCGACTTTA
Statistics
Matches: 187, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
168 48 0.26
171 1 0.01
172 2 0.01
173 136 0.73
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (168 bp):
TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTACCTCAACTTCA
GAAGGATAAGACTTGCTTACTTAGTATGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGA
TCTACTCTATGCAAATTCAAAGAGATAAGATCCAAAGT
Found at i:21915435 original size:84 final size:84
Alignment explanation
Indices: 21915177--21915454 Score: 251
Period size: 84 Copynumber: 3.2 Consensus size: 84
21915167 TAGTCTGCTT
* * * * *
21915177 CACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAAATTCAAAGAGATAAGAT
1 CACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTATGCAACTTCAGAGAGATAAGAT
*
21915242 CCAAAGTTTTAATCCGCTC
66 CCAAGGTTTTAATCCGCTC
** * *
21915261 CACTGCAACTTCAGGGAGATAAGGTTTGTAAT-CTTCAGTCTAC-CTCACTGCAACTTCAGA-AG
1 CACTGCAACTTCAGGGAGATAAGACTAG--ATGC--GA-TCTACTCT-A-TGCAACTTCAGAGA-
** * * **
21915323 GATAAGA--CTTGCTTACTTAGTATGCTC
58 GATAAGATCCAAGGTT--TTAATCCGCTC
* * * *
21915350 CACTGTAGCTTCAGGGAGATAAGACTAGATGGGATCTACTCTATGCAACTTCAGAGATATAAGAT
1 CACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTATGCAACTTCAGAGAGATAAGAT
21915415 CCAAGGTTTTAATCCGCTC
66 CCAAGGTTTTAATCCGCTC
21915434 CACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGGAGATA
21915455 GGATTATCGA
Statistics
Matches: 147, Mismatches: 32, Indels: 30
0.70 0.15 0.14
Matches are distributed among these distances:
84 69 0.47
85 8 0.05
86 9 0.06
87 8 0.05
88 5 0.03
89 48 0.33
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (84 bp):
CACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTATGCAACTTCAGAGAGATAAGAT
CCAAGGTTTTAATCCGCTC
Found at i:21915470 original size:44 final size:44
Alignment explanation
Indices: 21915422--21915717 Score: 166
Period size: 44 Copynumber: 6.8 Consensus size: 44
21915412 GATCCAAGGT
*
21915422 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGAC
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGAC
* *
21915466 TTTAA-CCTGCTCCACTGCAACTTCAGGGAGATAAG-TTTTGCAATC
1 TTTAATCC-GCTCCACTGCAACTTCAGGGAGATAAGATTAT-CGA-C
* * * * * * *
21915511 TTCAGTCTGC-CTCATTGCAACTTCA-GGAGGATAAAACTT-GCTTAC
1 TTTAATCCGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTATC-GAC
* * * *
21915556 -TTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTA--GA-
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGAC
*** * * * * * **
21915596 TGGGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCA-AGGT
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGAC
* * * *
21915639 TTTAATCCGCTGCACTGCAACTTCAAGGAGATAGGATTATCGGC
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGAC
*
21915683 TTTAA-CCTGCTCCACTGCAACTTTAGGGAGATAAG
1 TTTAATCC-GCTCCACTGCAACTTCAGGGAGATAAG
21915718 GTTTGCAATC
Statistics
Matches: 192, Mismatches: 41, Indels: 38
0.71 0.15 0.14
Matches are distributed among these distances:
40 21 0.11
41 8 0.04
42 1 0.01
43 16 0.08
44 113 0.59
45 29 0.15
46 2 0.01
47 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGAC
Found at i:21915484 original size:217 final size:216
Alignment explanation
Indices: 21915249--21915895 Score: 1035
Period size: 217 Copynumber: 3.0 Consensus size: 216
21915239 GATCCAAAGT
* *
21915249 TTTAATCC-GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAATCTTCAGTCTACCTCACTGCA
1 TTTAA-CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCA
* * *
21915313 ACTTCAGAAGGATAAGACTTGCTTACTTAGTATGCTCCACTGTAGCTTCAGGGAGATAAGACTAG
65 ACTTCAG-AGGATAAAACTTGCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAG
* * * *
21915378 ATGGGATCTACTCTATGCAACTTCAGAGATATAAGATCCAAGGTTTTAATCCGCTCCACTGCAAC
129 ATGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTACACTGCAAC
21915443 TTCAGGGAGATAGGATTATCGAC
194 TTCAGGGAGATAGGATTATCGAC
* *
21915466 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGTTTTGCAATCTTCAGTCTGCCTCATTGCAA
1 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAA
* *
21915531 CTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGA
66 CTTCA-GAGGATAAAACTTGCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
*
21915596 TGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTGCACTGCAACT
130 TGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTACACTGCAACT
* *
21915661 TCAAGGAGATAGGATTATCGGC
195 TCAGGGAGATAGGATTATCGAC
*
21915683 TTTAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAA
1 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAA
* *
21915748 CTTCATGAGGATAAAACTTGCTTACTTAGTTTGCTCCCCTGCAACTTCAGGGAGATAAGACTAGA
66 CTTCA-GAGGATAAAACTTGCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
** * * *
21915813 TGAAATCTGCTATCTGTAACTTCAGAGAGATAAGATCCAATGTTTTAATCCGCTACACTGCAACT
130 TGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTACACTGCAACT
21915878 TCAGGGAGATAGGATTAT
195 TCAGGGAGATAGGATTAT
21915896 TGGCCATGGA
Statistics
Matches: 399, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
216 2 0.01
217 396 0.99
218 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (216 bp):
TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAA
CTTCAGAGGATAAAACTTGCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGAT
GGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTACACTGCAACTT
CAGGGAGATAGGATTATCGAC
Found at i:21915537 original size:173 final size:173
Alignment explanation
Indices: 21915138--21915537 Score: 479
Period size: 173 Copynumber: 2.3 Consensus size: 173
21915128 CAGTCTACCT
* * *
21915138 CAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTTCACTGTAACTTCAGGGAGATAAGACT
1 CAACTTCAGAAGGATAAGACTTGCATACTTAGTCTGCCTCACTGTAACTTCAGGGAGATAAGACT
* *
21915203 AGATGCGATCTGCTCTCTGCAAATTCAAAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGCA
66 AGATGCGATCTACTCTATGCAAATTCAAAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGCA
* * **
21915268 ACTTCAGGGAGATAAGGTTTGTAATCTTCAGTCTACCTCACTG
131 ACTTCAGGGAGATAAGGATTATAATCTTCAACCTACCTCACTG
* * *
21915311 CAACTTCAGAAGGATAAGACTTGCTTACTTAGTATG-CTCCACTGTAGCTTCAGGGAGATAAGAC
1 CAACTTCAGAAGGATAAGACTTGCATACTTAGTCTGCCT-CACTGTAACTTCAGGGAGATAAGAC
* * * * *
21915375 TAGATGGGATCTACTCTATGCAACTTCAGAGATATAAGATCCAAGGTTTTAATCCGCTCCACTGC
65 TAGATGCGATCTACTCTATGCAAATTCAAAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGC
* * *
21915440 AACTTCAGGGAGAT-AGGATTATCGA-CTTTAACCT-GCTCCACTG
130 AACTTCAGGGAGATAAGGATTAT-AATCTTCAACCTACCT-CACTG
* ** * *
21915483 CAACTTCAG-GGAGATAAGTTTTGCA-ATCTTCAGTCTGCCTCATTGCAACTTCAGG
1 CAACTTCAGAAG-GATAAGACTTGCATA-CTT-AGTCTGCCTCACTGTAACTTCAGG
21915538 AGGATAAAAC
Statistics
Matches: 194, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
171 4 0.02
172 40 0.21
173 148 0.76
174 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (173 bp):
CAACTTCAGAAGGATAAGACTTGCATACTTAGTCTGCCTCACTGTAACTTCAGGGAGATAAGACT
AGATGCGATCTACTCTATGCAAATTCAAAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGCA
ACTTCAGGGAGATAAGGATTATAATCTTCAACCTACCTCACTG
Found at i:21924039 original size:24 final size:24
Alignment explanation
Indices: 21924001--21924065 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
21923991 AATCTTCTCA
* *
21924001 AACTGCTTATTCATTTGCTGTT-G
1 AACTGCTTCTGCATTTGCTGTTGG
* *
21924024 AAGCTGCTTCTGCATTTCCTTTTGG
1 AA-CTGCTTCTGCATTTGCTGTTGG
21924049 AACTG-TTCTAGCATTTG
1 AACTGCTTCT-GCATTTG
21924066 GTCCATGTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
23 6 0.18
24 25 0.74
25 3 0.09
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (24 bp):
AACTGCTTCTGCATTTGCTGTTGG
Found at i:21927812 original size:17 final size:17
Alignment explanation
Indices: 21927792--21927826 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21927782 AATGGCATAG
21927792 AAATAATAT-AAACAAAT
1 AAATAA-ATGAAACAAAT
21927809 AAATAAATGAAACAAAT
1 AAATAAATGAAACAAAT
21927826 A
1 A
21927827 TACATAAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (17 bp):
AAATAAATGAAACAAAT
Found at i:21928001 original size:15 final size:16
Alignment explanation
Indices: 21927981--21928021 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
21927971 GAATACACAT
21927981 GAATTTATATATAT-A
1 GAATTTATATATATAA
*
21927996 GAATTTAGAT-TATAA
1 GAATTTATATATATAA
*
21928011 AAATTTATATA
1 GAATTTATATA
21928022 AACAAAATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (16 bp):
GAATTTATATATATAA
Found at i:21936376 original size:17 final size:15
Alignment explanation
Indices: 21936362--21936413 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
21936352 CTTCTTCTTC
21936362 TTTTTTTATTTTTCTT
1 TTTTTTTATTTTT-TT
*
21936378 TTCTTTTTATTTTTAT
1 TT-TTTTTATTTTTTT
*
21936394 TTTTCTTATTTTTTT
1 TTTTTTTATTTTTTT
21936409 CTTTT
1 -TTTT
21936414 ATAACATTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 11 0.35
16 9 0.29
17 11 0.35
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTTTATTTTTTT
Found at i:21936390 original size:23 final size:24
Alignment explanation
Indices: 21936340--21936413 Score: 89
Period size: 23 Copynumber: 3.1 Consensus size: 24
21936330 TTTGTACTTA
* *
21936340 TTTATTTTTCTTCTTCTTCTTCTTTT
1 TTTATTTTTCTTATTCTT-TT-TATT
21936366 TTTATTTTTCTT-TTCTTTTTATT
1 TTTATTTTTCTTATTCTTTTTATT
*
21936389 TTTATTTTTCTTATT-TTTTTCTT
1 TTTATTTTTCTTATTCTTTTTATT
21936412 TT
1 TT
21936414 ATAACATTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
23 24 0.53
24 4 0.09
25 5 0.11
26 12 0.27
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTATTTTTCTTATTCTTTTTATT
Found at i:21936413 original size:6 final size:6
Alignment explanation
Indices: 21936344--21936413 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
21936334 TACTTATTTA
* * * * *
21936344 TTTTTC TTCTTC TTCTTC TTTTT- TTATTTT TCTTTTC TTTTTA TTTTTA
1 TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC T-TTTTC TTTTTC TTTTTC
*
21936393 TTTTTC TTATT- TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTT
21936414 ATAACATTAG
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
5 6 0.11
6 41 0.77
7 5 0.09
8 1 0.02
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:21946513 original size:50 final size:50
Alignment explanation
Indices: 21946456--21946830 Score: 258
Period size: 50 Copynumber: 7.5 Consensus size: 50
21946446 GTAATTAAAA
*
21946456 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTAGAAC
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCTTAGCAGTGCAGTAGAAC
* ** * ** * * * * *
21946506 AGATTGAAGCTATGACGGCAGATCTGGTTTCCCT-GATATTGCAATTA-AAA
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCTTAG-CAGTGC-AGTAGAAC
* * *
21946556 AGATTGAAGCCACAATGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCTTAGCAGTGCAGTAGAAC
* * * ** * * * * *
21946606 AGATTGAAGCTACGACGGCAGATCTGGTTTCCCT-GATATTGCAATTA-AAA
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCTTAG-CAGTGC-AGTAGAAC
* * *
21946656 AGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCTTAGCAGTGCAGTAGAAC
* * * ** * * * * *
21946706 AGATTAAAGCTACAATGGCGGATCTGGTTTCCCT-GATATTGCAATTA-AAA
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCTTAG-CAGTGC-AGTAGAAC
* *
21946756 AGACTGAAGCCACAACGGCGGATCTTATTTCCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTATTTCCTTAGCAGTGCAGTAGAAC
* * * *
21946806 AGATTAAAGCTACGACGGCAGATCT
1 AGATTGAAGCCACAACGGCGGATCT
21946831 GGTTTCCCCG
Statistics
Matches: 231, Mismatches: 82, Indels: 24
0.69 0.24 0.07
Matches are distributed among these distances:
49 9 0.04
50 212 0.92
51 10 0.04
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTTATTTCCTTAGCAGTGCAGTAGAAC
Found at i:21946864 original size:100 final size:100
Alignment explanation
Indices: 21946413--21946838 Score: 726
Period size: 100 Copynumber: 4.3 Consensus size: 100
21946403 GGTCATGTTC
* * *
21946413 AGCTACGACGACGGATCTGGTTTCCCTGATATTGTAATTAAAAAGATTGAAGCCACAACGGCGGA
1 AGCTACGACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGA
* *
21946478 TCTTACTTCCTTAGCAGTGCAGTAGAACAGATTGA
66 TCTTACTTCCTTAGCAGTGCAGTGGAACAGATTAA
* *
21946513 AGCTATGACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAATGGCGGA
1 AGCTACGACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGA
*
21946578 TCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGA
66 TCTTACTTCCTTAGCAGTGCAGTGGAACAGATTAA
*
21946613 AGCTACGACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGTGGA
1 AGCTACGACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGA
21946678 TCTTACTTCCTTAGCAGTGCAGTGGAACAGATTAA
66 TCTTACTTCCTTAGCAGTGCAGTGGAACAGATTAA
* * * *
21946713 AGCTACAATGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGACTGAAGCCACAACGGCGGA
1 AGCTACGACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGA
*
21946778 TCTTATTTCCTTAGCAGTGCAGTGGAACAGATTAA
66 TCTTACTTCCTTAGCAGTGCAGTGGAACAGATTAA
21946813 AGCTACGACGGCAGATCTGGTTTCCC
1 AGCTACGACGGCAGATCTGGTTTCCC
21946839 CGACATTGTA
Statistics
Matches: 307, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 307 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (100 bp):
AGCTACGACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGA
TCTTACTTCCTTAGCAGTGCAGTGGAACAGATTAA
Found at i:21947095 original size:132 final size:132
Alignment explanation
Indices: 21946912--21947398 Score: 760
Period size: 132 Copynumber: 3.7 Consensus size: 132
21946902 ATTAAAATCG
*
21946912 CAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGT
21946977 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCTTGGACAGCAGTGAAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCTTGGACAGCAGTGAAATAGATTGAAGAT
21947042 TT
131 TT
** * * *
21947044 CAGATCTTGCCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGTGGATTTTACCTCCCTGAAGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGT
*
21947109 TGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCTTGGACAGCAGTGAAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCTTGGACAGCAGTGAAATAGATTGAAGAT
21947174 TT
131 TT
* * * * * * *
21947176 CAGAACTTGTCTCCCTAAGCAGTAGTGGGGCAGATCAAAGATGATGAATTTTACCTCTCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGT
* * * *
21947241 TACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGG-CAGCAGTGGAATAGATTAAAGA
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTTCCTTGGACAGCAGTGAAATAGATTGAAGA
*
21947305 TTA
130 TTT
* *
21947308 CAGATCTTATCTCCCTAAGAAATAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGT
*
21947373 TACAGTGGAGTACGTTGAAGCCAGTA
66 TACAGTGGAGTACATTGAAGCCAGTA
21947399 TTCCTATCTC
Statistics
Matches: 321, Mismatches: 33, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
132 314 0.98
133 7 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGT
TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCTTGGACAGCAGTGAAATAGATTGAAGAT
TT
Found at i:21949087 original size:37 final size:39
Alignment explanation
Indices: 21949032--21949122 Score: 123
Period size: 37 Copynumber: 2.3 Consensus size: 39
21949022 ATTTTATATA
21949032 TATTCTAATTTCAAAAACGTTTT-AC-TTTTGTAAATGT
1 TATTCTAATTTCAAAAACGTTTTCACTTTTTGTAAATGT
*
21949069 TATTTTAATTTCAAAAACGTTTTCCACTTTTTGTAAATGT
1 TATTCTAATTTCAAAAACGTTTT-CACTTTTTGTAAATGT
21949109 ATAATTCTATATTT
1 -T-ATTCTA-ATTT
21949123 TATTATAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
37 22 0.48
39 2 0.04
40 12 0.26
41 1 0.02
42 5 0.11
43 4 0.09
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.51
Consensus pattern (39 bp):
TATTCTAATTTCAAAAACGTTTTCACTTTTTGTAAATGT
Found at i:21949256 original size:10 final size:10
Alignment explanation
Indices: 21949241--21949270 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
21949231 TACTTGCATA
21949241 ACTTTTATAT
1 ACTTTTATAT
21949251 ACTTTTATAT
1 ACTTTTATAT
*
21949261 ACATTTATAT
1 ACTTTTATAT
21949271 TTTATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (10 bp):
ACTTTTATAT
Found at i:21958004 original size:17 final size:17
Alignment explanation
Indices: 21957957--21957998 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
21957947 GAAATGAGCC
* * *
21957957 CACACGCCCATATGGTT
1 CACACGGCCATGTGGTG
21957974 CACACGGCCATGTGGTG
1 CACACGGCCATGTGGTG
21957991 CACACGGC
1 CACACGGC
21957999 AGTGTGACGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.17
Consensus pattern (17 bp):
CACACGGCCATGTGGTG
Found at i:21960269 original size:7 final size:7
Alignment explanation
Indices: 21960251--21960285 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
21960241 GTTTTGATGA
21960251 TTATAA-
1 TTATAAT
21960257 TTATAAT
1 TTATAAT
21960264 TTATAAT
1 TTATAAT
21960271 TTATAAT
1 TTATAAT
21960278 TTATAAT
1 TTATAAT
21960285 T
1 T
21960286 ATTAGTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTATAAT
Found at i:21962260 original size:425 final size:425
Alignment explanation
Indices: 21961470--21962319 Score: 1700
Period size: 425 Copynumber: 2.0 Consensus size: 425
21961460 AATGGTTTCA
21961470 GAGTTGGGTATGCAACTGATGTTATGTTGTTTCAGTATAGGGTTTAGGTTTATTTCATTTCGTCG
1 GAGTTGGGTATGCAACTGATGTTATGTTGTTTCAGTATAGGGTTTAGGTTTATTTCATTTCGTCG
21961535 TTGAAAGTGGTTTTCTTCATCTTCCTGCAGGTACACTGGTTTTATTTATGTTTGAAATTGTTTTT
66 TTGAAAGTGGTTTTCTTCATCTTCCTGCAGGTACACTGGTTTTATTTATGTTTGAAATTGTTTTT
21961600 CTCGAAATGGTTTCAGTGGGTGTCTTGATTTCATTTCATTTAACTGGTTTTAGGCAACGTTTCAC
131 CTCGAAATGGTTTCAGTGGGTGTCTTGATTTCATTTCATTTAACTGGTTTTAGGCAACGTTTCAC
21961665 AGACAATTGTTGTTGTGGATATGTTTCTGCATTTTTTAGGCATACTGGTCTGTTACTGTTTTTTC
196 AGACAATTGTTGTTGTGGATATGTTTCTGCATTTTTTAGGCATACTGGTCTGTTACTGTTTTTTC
21961730 CTCCATGTGTAAACTGTAGAAATCTTAAAGTATGCAGAAACATGAAATATCTAGCAACAGAGCCT
261 CTCCATGTGTAAACTGTAGAAATCTTAAAGTATGCAGAAACATGAAATATCTAGCAACAGAGCCT
21961795 GGATTTAATCTATTTTATTTTTATTAAATTATTACATGTACTTAGGTTAAATAATTTTTTAGTAT
326 GGATTTAATCTATTTTATTTTTATTAAATTATTACATGTACTTAGGTTAAATAATTTTTTAGTAT
21961860 AATGTGTGATAAGTTACAGAAATTGAAGGTAAAAT
391 AATGTGTGATAAGTTACAGAAATTGAAGGTAAAAT
21961895 GAGTTGGGTATGCAACTGATGTTATGTTGTTTCAGTATAGGGTTTAGGTTTATTTCATTTCGTCG
1 GAGTTGGGTATGCAACTGATGTTATGTTGTTTCAGTATAGGGTTTAGGTTTATTTCATTTCGTCG
21961960 TTGAAAGTGGTTTTCTTCATCTTCCTGCAGGTACACTGGTTTTATTTATGTTTGAAATTGTTTTT
66 TTGAAAGTGGTTTTCTTCATCTTCCTGCAGGTACACTGGTTTTATTTATGTTTGAAATTGTTTTT
21962025 CTCGAAATGGTTTCAGTGGGTGTCTTGATTTCATTTCATTTAACTGGTTTTAGGCAACGTTTCAC
131 CTCGAAATGGTTTCAGTGGGTGTCTTGATTTCATTTCATTTAACTGGTTTTAGGCAACGTTTCAC
21962090 AGACAATTGTTGTTGTGGATATGTTTCTGCATTTTTTAGGCATACTGGTCTGTTACTGTTTTTTC
196 AGACAATTGTTGTTGTGGATATGTTTCTGCATTTTTTAGGCATACTGGTCTGTTACTGTTTTTTC
21962155 CTCCATGTGTAAACTGTAGAAATCTTAAAGTATGCAGAAACATGAAATATCTAGCAACAGAGCCT
261 CTCCATGTGTAAACTGTAGAAATCTTAAAGTATGCAGAAACATGAAATATCTAGCAACAGAGCCT
21962220 GGATTTAATCTATTTTATTTTTATTAAATTATTACATGTACTTAGGTTAAATAATTTTTTAGTAT
326 GGATTTAATCTATTTTATTTTTATTAAATTATTACATGTACTTAGGTTAAATAATTTTTTAGTAT
21962285 AATGTGTGATAAGTTACAGAAATTGAAGGTAAAAT
391 AATGTGTGATAAGTTACAGAAATTGAAGGTAAAAT
21962320 TGGTAATTTA
Statistics
Matches: 425, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
425 425 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.43
Consensus pattern (425 bp):
GAGTTGGGTATGCAACTGATGTTATGTTGTTTCAGTATAGGGTTTAGGTTTATTTCATTTCGTCG
TTGAAAGTGGTTTTCTTCATCTTCCTGCAGGTACACTGGTTTTATTTATGTTTGAAATTGTTTTT
CTCGAAATGGTTTCAGTGGGTGTCTTGATTTCATTTCATTTAACTGGTTTTAGGCAACGTTTCAC
AGACAATTGTTGTTGTGGATATGTTTCTGCATTTTTTAGGCATACTGGTCTGTTACTGTTTTTTC
CTCCATGTGTAAACTGTAGAAATCTTAAAGTATGCAGAAACATGAAATATCTAGCAACAGAGCCT
GGATTTAATCTATTTTATTTTTATTAAATTATTACATGTACTTAGGTTAAATAATTTTTTAGTAT
AATGTGTGATAAGTTACAGAAATTGAAGGTAAAAT
Found at i:21963273 original size:19 final size:19
Alignment explanation
Indices: 21963249--21963310 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
21963239 TTTAAAGTTA
21963249 TATTTTAAATATTTTATTT
1 TATTTTAAATATTTTATTT
** *
21963268 TATTTT-AATCA--CGAATT
1 TATTTTAAAT-ATTTTATTT
21963285 T-TTTTAAATATTTTATTT
1 TATTTTAAATATTTTATTT
21963303 TATTTTAA
1 TATTTTAA
21963311 TCACGAATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 5 0.16
17 7 0.22
18 7 0.22
19 13 0.41
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTTTAAATATTTTATTT
Found at i:21963295 original size:35 final size:35
Alignment explanation
Indices: 21963251--21963338 Score: 167
Period size: 35 Copynumber: 2.5 Consensus size: 35
21963241 TAAAGTTATA
21963251 TTTTAAATATTTTATTTTATTTTAATCACGAATTT
1 TTTTAAATATTTTATTTTATTTTAATCACGAATTT
21963286 TTTTAAATATTTTATTTTATTTTAATCACGAATTT
1 TTTTAAATATTTTATTTTATTTTAATCACGAATTT
*
21963321 TTTTAAATATTTAATTTT
1 TTTTAAATATTTTATTTT
21963339 TTTAAAGTTC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (35 bp):
TTTTAAATATTTTATTTTATTTTAATCACGAATTT
Found at i:21963338 original size:17 final size:17
Alignment explanation
Indices: 21963281--21963344 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
21963271 TTTAATCACG
21963281 AATTTTTTTAAATATTT
1 AATTTTTTTAAATATTT
* * **
21963298 TATTTTATTTTAATCA-CG
1 AATTTT-TTTAAAT-ATTT
21963316 AATTTTTTTAAATATTT
1 AATTTTTTTAAATATTT
21963333 AATTTTTTTAAA
1 AATTTTTTTAAA
21963345 GTTCAAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
16 1 0.03
17 23 0.64
18 11 0.31
19 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (17 bp):
AATTTTTTTAAATATTT
Found at i:21963424 original size:23 final size:22
Alignment explanation
Indices: 21963374--21963437 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
21963364 TTTAAAATTG
21963374 ATACATTACATAACTTACATAAC
1 ATACA-TACATAACTTACATAAC
*
21963397 CTACATACATAAACTTACAT---
1 ATACATACAT-AACTTACATAAC
*
21963417 ATA-ATACATAACTTATATAAC
1 ATACATACATAACTTACATAAC
21963438 TTAAATTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 2 0.06
22 5 0.15
23 13 0.38
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.31
Consensus pattern (22 bp):
ATACATACATAACTTACATAAC
Found at i:21963522 original size:12 final size:12
Alignment explanation
Indices: 21963498--21963538 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
21963488 CACAACTTAC
*
21963498 ATAACCAACATA
1 ATAACCTACATA
* *
21963510 ATGACTTACATA
1 ATAACCTACATA
21963522 ATAACCTACATA
1 ATAACCTACATA
21963534 ATAAC
1 ATAAC
21963539 TGACATTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.24
Consensus pattern (12 bp):
ATAACCTACATA
Found at i:21963532 original size:24 final size:24
Alignment explanation
Indices: 21963498--21963556 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
21963488 CACAACTTAC
* * *
21963498 ATAACCAACATAATGACTTACATA
1 ATAACCTACATAATAACTGACATA
*
21963522 ATAACCTACATAATAACTGACATT
1 ATAACCTACATAATAACTGACATA
21963546 ATAA--TACATAA
1 ATAACCTACATAA
21963557 CATACATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 7 0.23
24 24 0.77
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (24 bp):
ATAACCTACATAATAACTGACATA
Found at i:21963544 original size:12 final size:11
Alignment explanation
Indices: 21963505--21963556 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
21963495 TACATAACCA
*
21963505 ACATAATGACTT
1 ACATAATAAC-T
21963517 ACATAATAACCT
1 ACATAATAA-CT
21963529 ACATAATAACT
1 ACATAATAACT
*
21963540 GACATTATAA-T
1 -ACATAATAACT
21963551 ACATAA
1 ACATAA
21963557 CATACATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 5 0.14
11 3 0.09
12 26 0.74
13 1 0.03
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.29
Consensus pattern (11 bp):
ACATAATAACT
Found at i:21963584 original size:34 final size:34
Alignment explanation
Indices: 21963546--21963852 Score: 144
Period size: 34 Copynumber: 9.4 Consensus size: 34
21963536 AACTGACATT
*
21963546 ATAATACATAACATACATAAATTAAATAAGTTAC
1 ATAATACATAACATACATAAATTAAATAACTTAC
* * * *
21963580 ATAATACACAA-AAACAAAAACTTACATAACTTAC
1 ATAATACATAACATACATAAA-TTAAATAACTTAC
* *
21963614 ATAATATC-TTACATA-ATAACTT--AT-A--TA-
1 ATAATA-CATAACATACATAAATTAAATAACTTAC
* * *
21963641 ATAATACATACCCTACATAAATTAAATAAGTTAC
1 ATAATACATAACATACATAAATTAAATAACTTAC
* * * *
21963675 ATAATACACAA-AAACAAAAACTTACATAACTTAC
1 ATAATACATAACATACATAAA-TTAAATAACTTAC
** **
21963709 ATAATACATAAC-TACATAACCTACTTAA--TAC
1 ATAATACATAACATACATAAATTAAATAACTTAC
* * * *
21963740 ATAACTTGCATAACTTACAT-AA-TACACAACTTAC
1 ATAA--TACATAACATACATAAATTAAATAACTTAC
* * * * *
21963774 ATATGTAAAT-A-ATACACAATTTACATAACTTAC
1 ATA-ATACATAACATACATAAATTAAATAACTTAC
* * * * *
21963807 ATAATACACAACTTACATAACTTACATAACCTAC
1 ATAATACATAACATACATAAATTAAATAACTTAC
*
21963841 TTAATACATAAC
1 ATAATACATAAC
21963853 TTGCATAACT
Statistics
Matches: 203, Mismatches: 47, Indels: 46
0.69 0.16 0.16
Matches are distributed among these distances:
26 1 0.00
27 10 0.05
28 8 0.04
30 3 0.01
31 14 0.07
32 10 0.05
33 49 0.24
34 105 0.52
35 3 0.01
ACGTcount: A:0.51, C:0.19, G:0.01, T:0.29
Consensus pattern (34 bp):
ATAATACATAACATACATAAATTAAATAACTTAC
Found at i:21963612 original size:95 final size:95
Alignment explanation
Indices: 21963513--21963714 Score: 341
Period size: 95 Copynumber: 2.1 Consensus size: 95
21963503 CAACATAATG
*
21963513 ACTTACATAATAACCTACATAATAACTGACATTATAATACATAACATACATAAATTAAATAAGTT
1 ACTTACATAATAACCTACATAATAACTGACATAATAATACATAACATACATAAATTAAATAAGTT
21963578 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
* * * * * *
21963608 ACTTACATAATATCTTACATAATAACTTATATAATAATACATACCCTACATAAATTAAATAAGTT
1 ACTTACATAATAACCTACATAATAACTGACATAATAATACATAACATACATAAATTAAATAAGTT
21963673 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
21963703 ACTTACATAATA
1 ACTTACATAATA
21963715 CATAACTACA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 100 1.00
ACGTcount: A:0.53, C:0.17, G:0.01, T:0.28
Consensus pattern (95 bp):
ACTTACATAATAACCTACATAATAACTGACATAATAATACATAACATACATAAATTAAATAAGTT
ACATAATACACAAAAACAAAAACTTACATA
Found at i:21963626 original size:12 final size:12
Alignment explanation
Indices: 21963605--21963644 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
21963595 AAAAACTTAC
21963605 ATAACTTACATA
1 ATAACTTACATA
*
21963617 ATATCTTACATA
1 ATAACTTACATA
*
21963629 ATAACTTATATA
1 ATAACTTACATA
21963641 ATAA
1 ATAA
21963645 TACATACCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:21963721 original size:25 final size:23
Alignment explanation
Indices: 21963697--21964006 Score: 210
Period size: 25 Copynumber: 12.6 Consensus size: 23
21963687 AACAAAAACT
21963697 TACATAACTTACATAATACATAA
1 TACATAACTTACATAATACATAA
* *
21963720 CTACATAACCTACTTAATACATAA
1 -TACATAACTTACATAATACATAA
* *
21963744 CTTGCATAACTTACATAATACACAA
1 --TACATAACTTACATAATACATAA
* *
21963769 CTTACAT-A-TGTAAATAATACACAA
1 --TACATAACT-TACATAATACATAA
*
21963793 TTTACATAACTTACATAATACACAA
1 --TACATAACTTACATAATACATAA
*
21963818 CTTACATAACTTACATAACCTACTTAA
1 --TACATAACTTACATAA--TACATAA
* *
21963845 TACATAACTTGCATAACTTGCATAA
1 TACATAACTTACATAA--TACATAA
* ** *
21963870 TACACAACTTACATGTTTAAATAA
1 TACATAACTTACAT-AATACATAA
* *
21963894 TACACAATTTACATAACTTACATAA
1 TACATAACTTACATAA--TACATAA
*
21963919 TACACAACTTACATAACTTACATAA
1 TACATAACTTACATAA--TACATAA
*
21963944 TACATAACTTACATAACCTACTTAA
1 TACATAACTTACATAA--TACATAA
* *
21963969 GACATAACTTGCATAACTTACATAA
1 TACATAACTTACATAA--TACATAA
*
21963994 TACACAACTTACA
1 TACATAACTTACA
21964007 CAACTTACAT
Statistics
Matches: 238, Mismatches: 39, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
23 1 0.00
24 59 0.25
25 172 0.72
26 1 0.00
27 5 0.02
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (23 bp):
TACATAACTTACATAATACATAA
Found at i:21963836 original size:9 final size:9
Alignment explanation
Indices: 21963693--21964020 Score: 226
Period size: 9 Copynumber: 39.4 Consensus size: 9
21963683 CAAAAACAAA
21963693 AACTTACAT
1 AACTTACAT
21963702 AACTTACAT
1 AACTTACAT
21963711 AA--TACAT
1 AACTTACAT
21963718 AAC-TACAT
1 AACTTACAT
* *
21963726 AACCTACTT
1 AACTTACAT
21963735 AA--TACAT
1 AACTTACAT
*
21963742 AACTTGCAT
1 AACTTACAT
21963751 AACTTACAT
1 AACTTACAT
*
21963760 AA--TACAC
1 AACTTACAT
21963767 AACTTACAT
1 AACTTACAT
*
21963776 -A-TGTAAAT
1 AACT-TACAT
*
21963784 AA--TACAC
1 AACTTACAT
*
21963791 AATTTACAT
1 AACTTACAT
21963800 AACTTACAT
1 AACTTACAT
*
21963809 AA--TACAC
1 AACTTACAT
21963816 AACTTACAT
1 AACTTACAT
21963825 AACTTACAT
1 AACTTACAT
* *
21963834 AACCTACTT
1 AACTTACAT
21963843 AA--TACAT
1 AACTTACAT
*
21963850 AACTTGCAT
1 AACTTACAT
*
21963859 AACTTGCAT
1 AACTTACAT
*
21963868 AA--TACAC
1 AACTTACAT
21963875 AACTTACAT
1 AACTTACAT
** *
21963884 -GTTTAAAT
1 AACTTACAT
*
21963892 AA--TACAC
1 AACTTACAT
*
21963899 AATTTACAT
1 AACTTACAT
21963908 AACTTACAT
1 AACTTACAT
*
21963917 AA--TACAC
1 AACTTACAT
21963924 AACTTACAT
1 AACTTACAT
21963933 AACTTACAT
1 AACTTACAT
21963942 AA--TACAT
1 AACTTACAT
21963949 AACTTACAT
1 AACTTACAT
* *
21963958 AACCTACTT
1 AACTTACAT
*
21963967 AA--GACAT
1 AACTTACAT
*
21963974 AACTTGCAT
1 AACTTACAT
21963983 AACTTACAT
1 AACTTACAT
*
21963992 AA--TACAC
1 AACTTACAT
*
21963999 AACTTACAC
1 AACTTACAT
21964008 AACTTACAT
1 AACTTACAT
21964017 AACT
1 AACT
21964021 NNNNNNNNNN
Statistics
Matches: 253, Mismatches: 39, Indels: 54
0.73 0.11 0.16
Matches are distributed among these distances:
7 71 0.28
8 18 0.07
9 164 0.65
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:21963863 original size:108 final size:108
Alignment explanation
Indices: 21963713--21963943 Score: 428
Period size: 108 Copynumber: 2.1 Consensus size: 108
21963703 ACTTACATAA
21963713 TACATAAC-TACATAACCTACTTAATACATAACTTGCATAACTTACATAATACACAACTTACATA
1 TACATAACTTACATAACCTACTTAATACATAACTTGCATAACTTACATAATACACAACTTACATA
21963777 TGTAAATAATACACAATTTACATAACTTACATAATACACAACT
66 TGTAAATAATACACAATTTACATAACTTACATAATACACAACT
* *
21963820 TACATAACTTACATAACCTACTTAATACATAACTTGCATAACTTGCATAATACACAACTTACATG
1 TACATAACTTACATAACCTACTTAATACATAACTTGCATAACTTACATAATACACAACTTACATA
*
21963885 TTTAAATAATACACAATTTACATAACTTACATAATACACAACT
66 TGTAAATAATACACAATTTACATAACTTACATAATACACAACT
21963928 TACATAACTTACATAA
1 TACATAACTTACATAA
21963944 TACATAACTT
Statistics
Matches: 120, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 8 0.07
108 112 0.93
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (108 bp):
TACATAACTTACATAACCTACTTAATACATAACTTGCATAACTTACATAATACACAACTTACATA
TGTAAATAATACACAATTTACATAACTTACATAATACACAACT
Found at i:21963879 original size:50 final size:50
Alignment explanation
Indices: 21963796--21964018 Score: 241
Period size: 50 Copynumber: 4.3 Consensus size: 50
21963786 TACACAATTT
21963796 ACATAACTTACATAATACACAACTTACATAACTTACATAACCTACTTAATACATAACTT
1 ACATAACTTACATAATACACAACTTACATAACTTACATAA--TAC-----AC--AACTT
* * ** * *
21963855 GCATAACTTGCATAATACACAACTTACAT-GTTTAAATAATACACAATTT
1 ACATAACTTACATAATACACAACTTACATAACTTACATAATACACAACTT
*
21963904 ACATAACTTACATAATACACAACTTACATAACTTACATAATACATAACTT
1 ACATAACTTACATAATACACAACTTACATAACTTACATAATACACAACTT
* * * * *
21963954 ACATAACCTACTTAAGACATAACTTGCATAACTTACATAATACACAACTT
1 ACATAACTTACATAATACACAACTTACATAACTTACATAATACACAACTT
*
21964004 ACACAACTTACATAA
1 ACATAACTTACATAA
21964019 CTNNNNNNNN
Statistics
Matches: 141, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
49 31 0.22
50 71 0.50
51 2 0.01
56 3 0.02
58 7 0.05
59 27 0.19
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (50 bp):
ACATAACTTACATAATACACAACTTACATAACTTACATAATACACAACTT
Found at i:21969619 original size:21 final size:21
Alignment explanation
Indices: 21969580--21969647 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
21969570 CAACTTAAAA
* *
21969580 CAGAGGCGGCAGCGAGGGAAG
1 CAGAGGCTGCAGCAAGGGAAG
* *
21969601 CAGCGGCTGTAGCAAGGGAAG
1 CAGAGGCTGCAGCAAGGGAAG
* *
21969622 CAGAGGCTGCAGCGAGAGAAG
1 CAGAGGCTGCAGCAAGGGAAG
21969643 CAGAG
1 CAGAG
21969648 CAGAGCAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.31, C:0.19, G:0.46, T:0.04
Consensus pattern (21 bp):
CAGAGGCTGCAGCAAGGGAAG
Found at i:21970018 original size:42 final size:41
Alignment explanation
Indices: 21969970--21970249 Score: 317
Period size: 42 Copynumber: 6.7 Consensus size: 41
21969960 GTAAAAAAGT
*
21969970 GCCGCTAAAGAACATGTTCTTTAGTGGCGCTTAGAAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AAAAAAAC
*
21970012 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAGAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAA-AAAAAAC
* * * * * *** *
21970054 GCCGCTAAAGAGCATGATCTTTAGCGGTGTTTTTATCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAAAAAAAAC
* * *
21970096 GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTAGAAAGAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AAAAAAAC
* *
21970138 GCCGCTAAAGACCATGTTCTTTAGAGGCGCTTATAAAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGC-T-TAAAAAAAAC
* * *
21970181 GCCGCTAAAGACCATGTTCTTTAGCAGCGCTTAAGGAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAA-AAAAAAC
*
21970223 GCCGCTAAAGAACATGATCTTTAGCGG
1 GCCGCTAAAGAACATGTTCTTTAGCGG
21970250 TGTTTTTCTC
Statistics
Matches: 202, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
41 7 0.03
42 154 0.76
43 39 0.19
44 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (41 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAAAAAAAC
Found at i:21970060 original size:84 final size:84
Alignment explanation
Indices: 21969970--21970246 Score: 349
Period size: 84 Copynumber: 3.3 Consensus size: 84
21969960 GTAAAAAAGT
* * *
21969970 GCCGCTAAAGAACATGTTCTTTAGTGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTA
1 GCCGCTAAAGAACATGATCTTTAGAGGCGCTTAAAAAAAAACGCCGCTAAAGACCATGTTCTTTA
21970035 GCGGCGCTTAAGAAAAAAC
66 GCGGCGCTTAAGAAAAAAC
* * * * ** *** * * *
21970054 GCCGCTAAAGAGCATGATCTTTAGCGGTGTTTTTATCTAAGCGCCGCTAAAGAACATGGTCTTTA
1 GCCGCTAAAGAACATGATCTTTAGAGGCGCTTAAAAAAAAACGCCGCTAAAGACCATGTTCTTTA
*
21970119 GCGGCG-TTTAGAAAGAAAC
66 GCGGCGCTTAAGAAA-AAAC
* *
21970138 GCCGCTAAAGACCATGTTCTTTAGAGGCGCTTATAAAAAAAACGCCGCTAAAGACCATGTTCTTT
1 GCCGCTAAAGAACATGATCTTTAGAGGCGCTTA-AAAAAAAACGCCGCTAAAGACCATGTTCTTT
* *
21970203 AGCAGCGCTTAAGGAAAAAC
65 AGCGGCGCTTAAGAAAAAAC
21970223 GCCGCTAAAGAACATGATCTTTAG
1 GCCGCTAAAGAACATGATCTTTAG
21970247 CGGTGTTTTT
Statistics
Matches: 158, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
83 7 0.04
84 89 0.56
85 56 0.35
86 6 0.04
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (84 bp):
GCCGCTAAAGAACATGATCTTTAGAGGCGCTTAAAAAAAAACGCCGCTAAAGACCATGTTCTTTA
GCGGCGCTTAAGAAAAAAC
Found at i:21970248 original size:169 final size:168
Alignment explanation
Indices: 21969970--21970296 Score: 564
Period size: 169 Copynumber: 1.9 Consensus size: 168
21969960 GTAAAAAAGT
* *
21969970 GCCGCTAAAGAACATGTTCTTTAGTGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTA
1 GCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAAAAAAAAACGCCGCTAAAGACCATGTTCTTTA
* *
21970035 GCGGCGCTTAAGAAAAAACGCCGCTAAAGAGCATGATCTTTAGCGGTGTTTTTATCTAAGCGCCG
66 GCAGCGCTTAAGAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTATCTAAGCGCCG
21970100 CTAAAGAACATGGTCTTTAGCGGCGTTTAGAAAGAAAC
131 CTAAAGAACATGGTCTTTAGCGGCGTTTAGAAAGAAAC
*
21970138 GCCGCTAAAGACCATGTTCTTTAGAGGCGCTTATAAAAAAAACGCCGCTAAAGACCATGTTCTTT
1 GCCGCTAAAGAACATGTTCTTTAGAGGCGCTTA-AAAAAAAACGCCGCTAAAGACCATGTTCTTT
* *
21970203 AGCAGCGCTTAAGGAAAAACGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTCTCTAAGCGCC
65 AGCAGCGCTTAAGAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTATCTAAGCGCC
* *
21970268 TCTAATGAACATGGTCTTTAGCGGCGTTT
130 GCTAAAGAACATGGTCTTTAGCGGCGTTT
21970297 TTTTCTAAGC
Statistics
Matches: 149, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
168 31 0.21
169 118 0.79
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (168 bp):
GCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAAAAAAAAACGCCGCTAAAGACCATGTTCTTTA
GCAGCGCTTAAGAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTATCTAAGCGCCG
CTAAAGAACATGGTCTTTAGCGGCGTTTAGAAAGAAAC
Found at i:21970278 original size:42 final size:42
Alignment explanation
Indices: 21970222--21970340 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
21970212 TAAGGAAAAA
* * *
21970222 CGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTCTCTAAG
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAG
* * *
21970264 CGCCTCTAATGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAG
*
21970306 CACCACTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTT
21970341 GTTTGTAAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (42 bp):
CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAG
Found at i:21970288 original size:127 final size:126
Alignment explanation
Indices: 21969970--21970254 Score: 365
Period size: 126 Copynumber: 2.3 Consensus size: 126
21969960 GTAAAAAAGT
* * * * *
21969970 GCCGCTAAAGAACATGTTCTTTAGTGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTA
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTAGAAAGAAACGCCGCTAAAGAACATGTTCTTTA
* * * * * * *** *
21970035 GCGGCGCTTAAGAAAAAACGCCGCTAAAGAGCATGATCTTTAGCGGTGTTTTTATCTAAGC
66 GCGGCGCTTAAAAAAAAACGCCGCTAAAGACCATGATCTTTAGCAGCGTCTTAAGAAAAAC
* *
21970096 GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTAGAAAGAAACGCCGCTAAAGACCATGTTCTTTA
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTAGAAAGAAACGCCGCTAAAGAACATGTTCTTTA
* *
21970161 GAGGCGCTTATAAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCAGCG-CTTAAGGAAAAAC
66 GCGGCGCTTA-AAAAAAAACGCCGCTAAAGACCATGATCTTTAGCAGCGTCTTAA-GAAAAAC
*
21970223 GCCGCTAAAGAACATGATCTTTAGCGGTGTTT
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTT
21970255 TTCTCTAAGC
Statistics
Matches: 139, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
126 73 0.53
127 66 0.47
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (126 bp):
GCCGCTAAAGAACATGATCTTTAGCGGCGTTTAGAAAGAAACGCCGCTAAAGAACATGTTCTTTA
GCGGCGCTTAAAAAAAAACGCCGCTAAAGACCATGATCTTTAGCAGCGTCTTAAGAAAAAC
Found at i:21975977 original size:43 final size:43
Alignment explanation
Indices: 21975926--21976080 Score: 212
Period size: 43 Copynumber: 3.7 Consensus size: 43
21975916 TTTAAAAGCT
21975926 ACTAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGCGCC
1 ACTAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGCGCC
21975969 ACTAAAGGTCAT-ATCCTTTAGCGGCGTTTGTGATAAAAGCG--
1 ACTAAAGGTCATGAT-CTTTAGCGGCGTTTGTGATAAAAGCGCC
*
21976010 -CTAAAGGTCATGATCTTTAGCGGCGTTTGTAGGT-AAAGCGCC
1 ACTAAAGGTCATGATCTTTAGCGGCGTTTGT-GATAAAAGCGCC
* * * *
21976052 GCTAAAGATCATGTTCTATAGCGGCGTTT
1 ACTAAAGGTCATGATCTTTAGCGGCGTTT
21976081 TTCACATAAA
Statistics
Matches: 102, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
40 33 0.32
41 4 0.04
42 2 0.02
43 63 0.62
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
ACTAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGCGCC
Found at i:21976074 original size:83 final size:84
Alignment explanation
Indices: 21975918--21976080 Score: 240
Period size: 83 Copynumber: 2.0 Consensus size: 84
21975908 TAAATGTTTT
*
21975918 TAAAAGCTACTAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCATAT
1 TAAAAGCTACTAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGATCATAT
*
21975983 CCTTTAGCGGCGTTTGTGA
66 CCTATAGCGGCGTTTGTGA
* * * *
21976002 TAAAAGC-GCTAAAGGTCATGATCTTTAGCGGCGTTTGTAGGT-AAAGCGCCGCTAAAGATCATG
1 TAAAAGCTACTAAAGGTCATGATCTTTAGCGGCGTTTGT-GATAAAAGCGCCACTAAAGATCATA
*
21976065 TTCTATAGCGGCGTTT
65 TCCTATAGCGGCGTTT
21976081 TTCACATAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
83 62 0.87
84 9 0.13
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (84 bp):
TAAAAGCTACTAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGATCATAT
CCTATAGCGGCGTTTGTGA
Found at i:21979241 original size:11 final size:11
Alignment explanation
Indices: 21979225--21979272 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
21979215 ATTTTTTTAA
21979225 TTTTAAATTTT
1 TTTTAAATTTT
21979236 TTTTAAAATATTT
1 TTTT-AAAT-TTT
*
21979249 TTTAAAATTTT
1 TTTTAAATTTT
*
21979260 TGTTTTAATTTT
1 T-TTTAAATTTT
21979272 T
1 T
21979273 AAAATAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 8 0.26
12 17 0.55
13 6 0.19
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TTTTAAATTTT
Found at i:21979249 original size:12 final size:11
Alignment explanation
Indices: 21979225--21979260 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
21979215 ATTTTTTTAA
*
21979225 TTTTAAATTTT
1 TTTTAAAATTT
21979236 TTTTAAAATATT
1 TTTTAAAAT-TT
21979248 TTTTAAAATTT
1 TTTTAAAATTT
21979259 TT
1 TT
21979261 GTTTTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:21979925 original size:18 final size:18
Alignment explanation
Indices: 21979914--21979963 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
21979904 CCCAAGTATT
21979914 CAACCCAACCCAATTACC
1 CAACCCAACCCAATTACC
21979932 CAACCCAACCCAATTACC
1 CAACCCAACCCAATTACC
21979950 CAACCCAACCCAAT
1 CAACCCAACCCAAT
21979964 AATAAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.40, C:0.50, G:0.00, T:0.10
Consensus pattern (18 bp):
CAACCCAACCCAATTACC
Done.