Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 52 of 187
Found at i:15446841 original size:19 final size:18
Alignment explanation
Indices: 15446805--15446853 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
15446795 AAAATTATAA
* *
15446805 AAAATATTAATTAAATTAT
1 AAAA-ATTAAATAAATTAG
15446824 AAAAATTAAATAATATTAG
1 AAAAATTAAATAA-ATTAG
*
15446843 AAAAATGAAAT
1 AAAAATTAAAT
15446854 TAACCCTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAAATTAAATAAATTAG
Found at i:15449598 original size:29 final size:29
Alignment explanation
Indices: 15449567--15449623 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
15449557 GTTTTTTGTT
*
15449567 TTTTTTTGT-ATATTTTGGTAAATAAAAA
1 TTTTTTTATAATATTTTGGTAAATAAAAA
15449595 TTTTTTTATAATATTTTGGTAAATAAAAA
1 TTTTTTTATAATATTTTGGTAAATAAAAA
15449624 AAAGTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.53
Consensus pattern (29 bp):
TTTTTTTATAATATTTTGGTAAATAAAAA
Found at i:15449632 original size:28 final size:29
Alignment explanation
Indices: 15449576--15449642 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
15449566 TTTTTTTTGT
****
15449576 ATATTTTGGTAAATAAAAATTTTTTTATA
1 ATATTTTGGTAAATAAAAATAAAGTTATA
15449605 ATATTTTGGTAAATAAAAA-AAAGTTATA
1 ATATTTTGGTAAATAAAAATAAAGTTATA
15449633 ATATTTTGGT
1 ATATTTTGGT
15449643 TTTTTTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 15 0.44
29 19 0.56
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.46
Consensus pattern (29 bp):
ATATTTTGGTAAATAAAAATAAAGTTATA
Found at i:15449769 original size:14 final size:14
Alignment explanation
Indices: 15449752--15449800 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
15449742 AATTTAAATT
* *
15449752 TATATTTATATTTA
1 TATATCTATATCTA
15449766 TATATCTATATC--
1 TATATCTATATCTA
15449778 TATATCTATAATCTA
1 TATATCTAT-ATCTA
15449793 TA-ATCTAT
1 TATATCTAT
15449801 TAATAAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 9 0.30
13 3 0.10
14 16 0.53
15 2 0.07
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATCTATATCTA
Found at i:15449793 original size:7 final size:7
Alignment explanation
Indices: 15449764--15449800 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
15449754 TATTTATATT
15449764 TATATATC
1 TATA-ATC
15449772 TAT-ATC
1 TATAATC
15449778 TAT-ATC
1 TATAATC
15449784 TATAATC
1 TATAATC
15449791 TATAATC
1 TATAATC
15449798 TAT
1 TAT
15449801 TAATAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 12 0.43
7 13 0.46
8 3 0.11
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.49
Consensus pattern (7 bp):
TATAATC
Found at i:15449798 original size:20 final size:20
Alignment explanation
Indices: 15449752--15449800 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
15449742 AATTTAAATT
* *
15449752 TATATTTATATTTATATATC
1 TATATCTATATCTATATATC
15449772 TATATCTATATCTATA-ATC
1 TATATCTATATCTATATATC
15449791 TATAATCTAT
1 TAT-ATCTAT
15449801 TAATAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATCTATATCTATATATC
Found at i:15450309 original size:14 final size:15
Alignment explanation
Indices: 15450284--15450312 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15450274 GTCTAAATAA
15450284 TAAAATATATTTCAT
1 TAAAATATATTTCAT
15450299 TAAAA-ATATTTCAT
1 TAAAATATATTTCAT
15450313 ATATAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAATATATTTCAT
Found at i:15477680 original size:58 final size:62
Alignment explanation
Indices: 15477618--15477767 Score: 170
Period size: 58 Copynumber: 2.5 Consensus size: 62
15477608 GGATACGACA
* * * *
15477618 TAATAATTCTTGAAAGCAAGCAAGATTGAAA-TGTTCATCCCTTCGTA-AA-GTTA-T-TAAG
1 TAATAATTCTTGAAAGTAAGCAAGATTCAAAGCGCTCATCCCTT-GTATAAGGTTATTATAAG
* * *
15477676 TAATAACTCTTGAAAGTAAGCATGA-TCAAAGCGCTCATCCCTTTTATAAGGTTATTATAAG
1 TAATAATTCTTGAAAGTAAGCAAGATTCAAAGCGCTCATCCCTTGTATAAGGTTATTATAAG
*
15477737 TAATAATTCTAGAAAGTAAGCAAGA-TCAAAG
1 TAATAATTCTTGAAAGTAAGCAAGATTCAAAG
15477768 TGTTAGAGGT
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
57 6 0.08
58 34 0.44
59 4 0.05
60 1 0.01
61 32 0.42
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (62 bp):
TAATAATTCTTGAAAGTAAGCAAGATTCAAAGCGCTCATCCCTTGTATAAGGTTATTATAAG
Found at i:15484511 original size:16 final size:16
Alignment explanation
Indices: 15484492--15484542 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
15484482 TTTTATAATT
15484492 TTTTTGAATATTTTTA
1 TTTTTGAATATTTTTA
15484508 TTTTTGAATATTTTTA
1 TTTTTGAATATTTTTA
*
15484524 TATTTTTAA-ATTATTTA
1 T-TTTTGAATATT-TTTA
15484541 TT
1 TT
15484543 GATATGTCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 21 0.66
17 11 0.34
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
TTTTTGAATATTTTTA
Found at i:15488347 original size:126 final size:126
Alignment explanation
Indices: 15488122--15488371 Score: 446
Period size: 126 Copynumber: 2.0 Consensus size: 126
15488112 TGACAAACGA
15488122 GTTTGGATTCAAGTCCTAACTGTAACATCCCAAATACCCACTAAGTCGAGAACAATGATAAATCG
1 GTTTGGATTCAAGTCCTAACTGTAACATCCCAAATACCCACTAAGTCGAGAACAATGATAAATCG
*
15488187 AGAGTAGATATGTTAGAAACTGAGATGGTAATAACATAAAAATTATTACTATTAGTAGTGG
66 AGAGTAGATATGTTAGAAACTGAGATGGTAATAACACAAAAATTATTACTATTAGTAGTGG
** *
15488248 GTTTGGATTCAAGTCCTAACTGTAACATCCTTAATACCCACTGAGTCGAGAACAATGATAAATCG
1 GTTTGGATTCAAGTCCTAACTGTAACATCCCAAATACCCACTAAGTCGAGAACAATGATAAATCG
* *
15488313 AGAGTAGATATGTTAGAAACTGATATGGTAATAACACAGAAATTATTACTATTAGTAGT
66 AGAGTAGATATGTTAGAAACTGAGATGGTAATAACACAAAAATTATTACTATTAGTAGT
15488372 AGGTAAAGAT
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 118 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (126 bp):
GTTTGGATTCAAGTCCTAACTGTAACATCCCAAATACCCACTAAGTCGAGAACAATGATAAATCG
AGAGTAGATATGTTAGAAACTGAGATGGTAATAACACAAAAATTATTACTATTAGTAGTGG
Found at i:15495422 original size:18 final size:20
Alignment explanation
Indices: 15495381--15495422 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
15495371 TTATATTAAC
*
15495381 TATTTAAAATGTATTTACAA
1 TATTTAAAATGTATGTACAA
15495401 -ATTT-AAATGTATGTA-AA
1 TATTTAAAATGTATGTACAA
15495418 TATTT
1 TATTT
15495423 CATCTATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 2 0.10
18 14 0.70
19 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (20 bp):
TATTTAAAATGTATGTACAA
Found at i:15495644 original size:28 final size:27
Alignment explanation
Indices: 15495612--15495702 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 27
15495602 ATAATTATAT
15495612 TTAAAATTCTAAAATATTTCATGTATCA
1 TTAAAATTCTAAAATATTT-ATGTATCA
*
15495640 TTAAAATTCTAAAGTATCATTTAT-TATTATA
1 TTAAAATTCTAAA--AT-ATTTATGTA-T-CA
15495671 TTTAAAATTCTAAAATATTTTATGTATCA
1 -TTAAAATTCTAAAATA-TTTATGTATCA
15495700 TTA
1 TTA
15495703 GATTTATAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
28 16 0.30
29 4 0.08
30 13 0.25
31 7 0.13
32 13 0.25
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (27 bp):
TTAAAATTCTAAAATATTTATGTATCA
Found at i:15495669 original size:60 final size:60
Alignment explanation
Indices: 15495572--15495702 Score: 208
Period size: 60 Copynumber: 2.2 Consensus size: 60
15495562 TGCCAACATT
15495572 ATGTATCATTAAAACTCAAAAACATCATTTATAATTATATTTAAAATTCTAAAATATTTC
1 ATGTATCATTAAAACTCAAAAACATCATTTATAATTATATTTAAAATTCTAAAATATTTC
* * ** * *
15495632 ATGTATCATTAAAATTCTAAAGTATCATTTATTATTATATTTAAAATTCTAAAATATTTT
1 ATGTATCATTAAAACTCAAAAACATCATTTATAATTATATTTAAAATTCTAAAATATTTC
15495692 ATGTATCATTA
1 ATGTATCATTA
15495703 GATTTATAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (60 bp):
ATGTATCATTAAAACTCAAAAACATCATTTATAATTATATTTAAAATTCTAAAATATTTC
Found at i:15495681 original size:32 final size:30
Alignment explanation
Indices: 15495595--15495690 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 30
15495585 ACTCAAAAAC
*
15495595 ATCATTTATAATTATATTTAAAATTCTAAA
1 ATCATTTATTATTATATTTAAAATTCTAAA
*
15495625 AT-ATTTCATGTA-T-CA-TTAAAATTCTAAA
1 ATCATTT-AT-TATTATATTTAAAATTCTAAA
15495653 GTATCATTTATTATTATATTTAAAATTCTAAA
1 --ATCATTTATTATTATATTTAAAATTCTAAA
15495685 AT-ATTT
1 ATCATTT
15495691 TATGTATCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
28 13 0.24
29 11 0.20
30 12 0.22
31 6 0.11
32 13 0.24
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (30 bp):
ATCATTTATTATTATATTTAAAATTCTAAA
Found at i:15497050 original size:13 final size:13
Alignment explanation
Indices: 15497032--15497057 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15497022 AGTTAGTAGT
15497032 TATTCTGTTAAAG
1 TATTCTGTTAAAG
15497045 TATTCTGTTAAAG
1 TATTCTGTTAAAG
15497058 AAGCTAACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TATTCTGTTAAAG
Found at i:15499828 original size:60 final size:60
Alignment explanation
Indices: 15499756--15499876 Score: 188
Period size: 60 Copynumber: 2.0 Consensus size: 60
15499746 GGTCCACATT
* * * *
15499756 ACCTACTCTCACACCTTCTCCTATGTCAACTACTTCTTTACCTGCCCATTCCACAATACA
1 ACCTACTCTCACACCTTCCCCTATGTCAACTAATCCTTTACCTGCCCAGTCCACAATACA
* *
15499816 ACCTACTCTCACACCTTCCCCTATGTCAACTAATCCTTTACCTGCTCAGTCTACAATACA
1 ACCTACTCTCACACCTTCCCCTATGTCAACTAATCCTTTACCTGCCCAGTCCACAATACA
15499876 A
1 A
15499877 TCTCCTTCTA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.26, C:0.39, G:0.04, T:0.31
Consensus pattern (60 bp):
ACCTACTCTCACACCTTCCCCTATGTCAACTAATCCTTTACCTGCCCAGTCCACAATACA
Found at i:15501677 original size:13 final size:13
Alignment explanation
Indices: 15501659--15501684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15501649 AGTTAGTAGT
15501659 TATTCTGTTAAAG
1 TATTCTGTTAAAG
15501672 TATTCTGTTAAAG
1 TATTCTGTTAAAG
15501685 AAGCTAACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TATTCTGTTAAAG
Found at i:15504949 original size:10 final size:11
Alignment explanation
Indices: 15504933--15504958 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15504923 TTTGCTGTTG
15504933 TTTTTTTACTA
1 TTTTTTTACTA
15504944 TTTTTTTACTA
1 TTTTTTTACTA
15504955 TTTT
1 TTTT
15504959 GTTGTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTACTA
Found at i:15508826 original size:52 final size:52
Alignment explanation
Indices: 15508764--15508872 Score: 209
Period size: 52 Copynumber: 2.1 Consensus size: 52
15508754 TTAACATTAA
15508764 AAACTAAAAATCAATAAGAAGTATTAAAAAGGCTCATAAATTGCTAGAGAAT
1 AAACTAAAAATCAATAAGAAGTATTAAAAAGGCTCATAAATTGCTAGAGAAT
*
15508816 AAACTAAAAATCAATAAGAAGTATTAAAAAGGCTCGTAAATTGCTAGAGAAT
1 AAACTAAAAATCAATAAGAAGTATTAAAAAGGCTCATAAATTGCTAGAGAAT
15508868 AAACT
1 AAACT
15508873 CGTCAAGTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.23
Consensus pattern (52 bp):
AAACTAAAAATCAATAAGAAGTATTAAAAAGGCTCATAAATTGCTAGAGAAT
Found at i:15509307 original size:24 final size:24
Alignment explanation
Indices: 15509258--15509307 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
15509248 AAAATGCATC
* *
15509258 AAAATAAAATATTATATACACAAT
1 AAAATAAAATATAAAATACACAAT
*
15509282 AAAATAAAAT-TAAAATTCACATAT
1 AAAATAAAATATAAAATACACA-AT
15509306 AA
1 AA
15509308 CATTACATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATAAAATATAAAATACACAAT
Found at i:15517546 original size:22 final size:22
Alignment explanation
Indices: 15517496--15517547 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
15517486 TCATTTGTTG
*
15517496 AATATGTTAAAATTGTTTTATTT
1 AATAT-TTAAAATTGTTCTATTT
*
15517519 ATTATTTAAAATT-TTCTATTAT
1 AATATTTAAAATTGTTCTATT-T
15517541 AATATTT
1 AATATTT
15517548 GAATGGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 6 0.24
22 15 0.60
23 4 0.16
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (22 bp):
AATATTTAAAATTGTTCTATTT
Found at i:15520514 original size:6 final size:6
Alignment explanation
Indices: 15520503--15520562 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
15520493 ATAATGTTAG
* * * *
15520503 AGATGA AGATGA AGATGA AAATTGA TG-TGG AGATGG AGATGA AGATGA
1 AGATGA AGATGA AGATGA AGA-TGA AGATGA AGATGA AGATGA AGATGA
* *
15520551 AAATGA CGATGA
1 AGATGA AGATGA
15520563 TAAGCTCAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
5 3 0.07
6 37 0.86
7 3 0.07
ACGTcount: A:0.45, C:0.02, G:0.33, T:0.20
Consensus pattern (6 bp):
AGATGA
Found at i:15522390 original size:30 final size:30
Alignment explanation
Indices: 15522354--15522423 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
15522344 TGAATATTGA
15522354 TAAAATTATTATAATTTTTGATACAATACT
1 TAAAATTATTATAATTTTTGATACAATACT
**
15522384 TAAAATTATTATAATTTTTGATTGAATACT
1 TAAAATTATTATAATTTTTGATACAATACT
15522414 TAAAATTATT
1 TAAAATTATT
15522424 TACAATCTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (30 bp):
TAAAATTATTATAATTTTTGATACAATACT
Found at i:15530683 original size:124 final size:123
Alignment explanation
Indices: 15530462--15530715 Score: 375
Period size: 124 Copynumber: 2.1 Consensus size: 123
15530452 AAATAGTGGG
** * * * * *
15530462 AAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGACACGATT
1 AAATCGCTGATACCAAGATGCTATATGAGAAAAAATTGTGAAATCGCGCCCTCGTGGACACGATT
15530527 TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAGTATA
66 TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTGACG-TTTCTGAGCAAATAGTATA
*
15530586 AAATCGCTGATACCAAGATGCTATATGAGAAAAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAAGATGCTATATGAGAAAAAATTGTGAAATCGCGCCCTCGTGGACACGATT
* * * *
15530651 TTGCTACAATTGGTCATGTAAGAAATAA-TTTTTTTGACGTTTCTGAGCAAATAGTGTC
66 TCGCTAC-AGTGGTCATGTAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
15530709 AAATCGC
1 AAATCGC
15530716 GCCCTCGTGG
Statistics
Matches: 117, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
123 24 0.21
124 74 0.63
125 19 0.16
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (123 bp):
AAATCGCTGATACCAAGATGCTATATGAGAAAAAATTGTGAAATCGCGCCCTCGTGGACACGATT
TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:15534064 original size:10 final size:10
Alignment explanation
Indices: 15534049--15534075 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
15534039 TAAAATTATC
15534049 AAATTATGTA
1 AAATTATGTA
15534059 AAATTATGTA
1 AAATTATGTA
15534069 AAATTAT
1 AAATTAT
15534076 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:15534120 original size:18 final size:18
Alignment explanation
Indices: 15534097--15534131 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15534087 AATTTTAATT
15534097 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
*
15534115 AAATTATGTAAAATTAT
1 AAATTAGGTAAAATTAT
15534132 TAAGTCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:15534168 original size:55 final size:55
Alignment explanation
Indices: 15534059--15534240 Score: 253
Period size: 55 Copynumber: 3.3 Consensus size: 55
15534049 AAATTATGTA
* **
15534059 AAATTATGTAAAATTATTAAG-CCAAAAAAAT-T-TTAATTAAATTAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCC-AAAAATTGTGTTAA-T-GGTTA-GTAAAATTATC
15534115 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
* * *
15534170 AAATTATGTAAAATTATTAATTCTAACAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
15534225 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
15534241 GGTTAGGGTT
Statistics
Matches: 117, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
55 79 0.68
56 30 0.26
57 4 0.03
58 4 0.03
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:15534300 original size:18 final size:17
Alignment explanation
Indices: 15534277--15534447 Score: 105
Period size: 18 Copynumber: 10.4 Consensus size: 17
15534267 TTAGGTTAGG
15534277 GTTAGGGTTTTTAATTAA
1 GTTAGGG-TTTTAATTAA
**
15534295 GTTAGGG-TTT-A--GG
1 GTTAGGGTTTTAATTAA
15534308 GTTAGGGTTTTTAATTAA
1 GTTAGGG-TTTTAATTAA
15534326 GTTAGGGTTTTAATTAA
1 GTTAGGGTTTTAATTAA
* *
15534343 ATTA--G-----ATTAGG
1 GTTAGGGTTTTAATTA-A
15534354 GTTAGGGTTTTTAATTAA
1 GTTAGGG-TTTTAATTAA
15534372 GTTAGGGTTTTTAATTAA
1 GTTAGGG-TTTTAATTAA
**** *
15534390 GTTA-GGTTAGGGTTAGG
1 GTTAGGGTTTTAATTA-A
15534407 GTTAGGGTTTTTAATTAA
1 GTTAGGG-TTTTAATTAA
15534425 GTTAGGGTTTTAATTAA
1 GTTAGGGTTTTAATTAA
*
15534442 ATTAGG
1 GTTAGG
15534448 TTAGGGTTAG
Statistics
Matches: 117, Mismatches: 19, Indels: 35
0.68 0.11 0.20
Matches are distributed among these distances:
10 4 0.03
11 3 0.03
13 8 0.07
15 5 0.04
16 9 0.08
17 34 0.29
18 45 0.38
19 9 0.08
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (17 bp):
GTTAGGGTTTTAATTAA
Found at i:15534310 original size:31 final size:31
Alignment explanation
Indices: 15534243--15534335 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
15534233 TAAAATTAGG
15534243 TTAGGGTTAGGGTTTTTAATTAAGTTA-GG-
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGGGT
15534272 TTAGGGTTAGGGTTTTTAATTAAGTTAGGGT
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGGGT
15534303 TTAGGGTTAGGGTTTTTAATTAAGTTAGGGT
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGGGT
15534334 TT
1 TT
15534336 TAATTAAATT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 27 0.44
30 2 0.03
31 33 0.53
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (31 bp):
TTAGGGTTAGGGTTTTTAATTAAGTTAGGGT
Found at i:15534346 original size:53 final size:52
Alignment explanation
Indices: 15534289--15534461 Score: 259
Period size: 53 Copynumber: 3.4 Consensus size: 52
15534279 TAGGGTTTTT
15534289 AATTAAGTTAGGGTTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTAATTA
1 AATTAAGTTAGGG-TTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTAATTA
15534342 AATT-AG--A---TTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTA
1 AATTAAGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGG-TTTTAATTA
* *
15534389 AGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTAATTA
1 AATTAAGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTAATTA
*
15534441 AATTAGGTTAGGGTTAGGGTT
1 AATTAAGTTAGGGTTAGGGTT
15534462 TTTAATTAAG
Statistics
Matches: 110, Mismatches: 3, Indels: 15
0.86 0.02 0.12
Matches are distributed among these distances:
46 30 0.27
47 12 0.11
48 1 0.01
50 2 0.02
52 31 0.28
53 34 0.31
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (52 bp):
AATTAAGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTAATTA
Found at i:15534359 original size:46 final size:48
Alignment explanation
Indices: 15534277--15534476 Score: 300
Period size: 46 Copynumber: 4.1 Consensus size: 48
15534267 TTAGGTTAGG
*
15534277 GTTAGGGTTTTTAATTAAGTTAGGGTTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGG-TTAGGGTTAGGGTTTTTAATTAA
*
15534326 GTTAGGG-TTTTAATTAAATTA-GATTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTAGGGTTTTTAATTAA
15534372 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA---A--TTAGGGTTAGGGTTAGGGTTTTTAATTAA
15534425 GTTAGGG-TTTTAATTAAATTA-GGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTAGGGTTTTTAATTAA
15534471 GTTAGG
1 GTTAGG
15534477 TNNNNNNNNN
Statistics
Matches: 141, Mismatches: 3, Indels: 17
0.88 0.02 0.11
Matches are distributed among these distances:
46 61 0.43
47 14 0.10
48 13 0.09
49 8 0.06
50 1 0.01
52 13 0.09
53 31 0.22
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.46
Consensus pattern (48 bp):
GTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:15534376 original size:29 final size:29
Alignment explanation
Indices: 15534238--15534331 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
15534228 TTATGTAAAA
15534238 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
15534267 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
15534296 TTAGGGTTTAGGGTTAGGGTTTTTAATTAAG
1 TTA-GG-TTAGGGTTAGGGTTTTTAATTAAG
15534327 TTAGG
1 TTAGG
15534332 GTTTTAATTA
Statistics
Matches: 63, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
29 32 0.51
30 4 0.06
31 27 0.43
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (29 bp):
TTAGGTTAGGGTTAGGGTTTTTAATTAAG
Found at i:15534446 original size:99 final size:95
Alignment explanation
Indices: 15534277--15534476 Score: 346
Period size: 99 Copynumber: 2.1 Consensus size: 95
15534267 TTAGGTTAGG
*
15534277 GTTAGGGTTTTTAATTAAGTTAGGGTTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTAATTA
1 GTTAGGGTTTTTAATTAAGTTAGGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTAATTA
15534342 AATTAGATTAGGGTTAGGGTTTTTAATTAA
66 AATTAGATTAGGGTTAGGGTTTTTAATTAA
15534372 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTA
1 GTTAGGGTTTTTAATTAAGTTA-G---GGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTA
*
15534437 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
62 ATTAAATTAGATTAGGGTTAGGGTTTTTAATTAA
15534471 GTTAGG
1 GTTAGG
15534477 TNNNNNNNNN
Statistics
Matches: 99, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
95 22 0.22
96 1 0.01
99 76 0.77
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.46
Consensus pattern (95 bp):
GTTAGGGTTTTTAATTAAGTTAGGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTAATTA
AATTAGATTAGGGTTAGGGTTTTTAATTAA
Found at i:15534447 original size:35 final size:35
Alignment explanation
Indices: 15534354--15534447 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 35
15534344 TTAGATTAGG
15534354 GTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAA
1 GTTAGGG-TTTTAATTAAGTTAGGGTTTTTAATTAA
**** *
15534390 GTTA-GGTTAGGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTAATTA-AGTTAGGGTTTTTAATTAA
*
15534425 GTTAGGGTTTTAATTAAATTAGG
1 GTTAGGGTTTTAATTAAGTTAGG
15534448 TTAGGGTTAG
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
34 5 0.11
35 29 0.64
36 11 0.24
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.46
Consensus pattern (35 bp):
GTTAGGGTTTTAATTAAGTTAGGGTTTTTAATTAA
Found at i:15540554 original size:15 final size:15
Alignment explanation
Indices: 15540535--15540585 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
15540525 ATGCATATAT
15540535 AAAATATAAAATGTA
1 AAAATATAAAATGTA
* *
15540550 TAAATATTAGAAAAGTA
1 AAAATA-TA-AAATGTA
*
15540567 AAAATATAAAATATA
1 AAAATATAAAATGTA
15540582 AAAA
1 AAAA
15540586 AGTATGTATG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 14 0.48
16 4 0.14
17 11 0.38
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (15 bp):
AAAATATAAAATGTA
Found at i:15540637 original size:3 final size:3
Alignment explanation
Indices: 15540629--15540676 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
15540619 ATATGTACAG
15540629 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15540677 AGTCATAGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15542428 original size:31 final size:29
Alignment explanation
Indices: 15542393--15542467 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
15542383 GACGGCTCAA
*
15542393 TGACTAAAATGTTACAATACGATAACATAAG
1 TGACTAAAATGTAACAATAC-A-AACATAAG
* * *
15542424 TGACTAAAACGTAACATTTCAAACATAAG
1 TGACTAAAATGTAACAATACAAACATAAG
15542453 TGACTAAAATGTAAC
1 TGACTAAAATGTAAC
15542468 TGAGATAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 22 0.56
30 1 0.03
31 16 0.41
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (29 bp):
TGACTAAAATGTAACAATACAAACATAAG
Found at i:15544066 original size:23 final size:23
Alignment explanation
Indices: 15544040--15544096 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
15544030 TTGTGACGAT
*
15544040 AGGGGGTTCCTAGTCGCGATGTC
1 AGGGGGTTCCTAGTCACGATGTC
* *
15544063 AGGGGGTTCCTCGTCATGATGTC
1 AGGGGGTTCCTAGTCACGATGTC
15544086 AGGGGGTTCCT
1 AGGGGGTTCCT
15544097 TATCTTACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.12, C:0.21, G:0.39, T:0.28
Consensus pattern (23 bp):
AGGGGGTTCCTAGTCACGATGTC
Found at i:15545255 original size:21 final size:21
Alignment explanation
Indices: 15545231--15545273 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15545221 ACCTTTTCTA
**
15545231 AAGTTAAAAGTTAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
15545252 AAGTTAAAAGGCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
15545273 A
1 A
15545274 TGTTGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:15545983 original size:19 final size:19
Alignment explanation
Indices: 15545941--15546043 Score: 59
Period size: 20 Copynumber: 5.2 Consensus size: 19
15545931 AAAGATTACA
15545941 AAAAATTCAAAATAAATTT-T
1 AAAAATTCAAAAT--ATTTAT
15545961 -AAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
* *
15545979 AAAAAATCCAAAATATATATTT
1 -AAAAATTCAAAATAT-T-TAT
* *
15546001 AAAAATTTATAAA-ATTTAAA
1 AAAAATTCA-AAATATTT-AT
* *
15546021 AAAAATTCTAAAAAATATAT
1 AAAAATTC-AAAATATTTAT
15546041 AAA
1 AAA
15546044 GTAAGTTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 18
0.71 0.10 0.20
Matches are distributed among these distances:
17 4 0.06
18 1 0.02
19 13 0.20
20 28 0.43
21 14 0.22
22 5 0.08
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:15546004 original size:20 final size:20
Alignment explanation
Indices: 15545942--15546004 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
15545932 AAGATTACAA
*
15545942 AAAATTCAAAATAAAT-TTT
1 AAAATTCAAAATATATATTT
* **
15545961 AAAATTCAAAATATTTATAA
1 AAAATTCAAAATATATATTT
*
15545981 AAAATCCAAAATATATATTT
1 AAAATTCAAAATATATATTT
15546001 AAAA
1 AAAA
15546005 ATTTATAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 14 0.40
20 21 0.60
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTCAAAATATATATTT
Found at i:15546018 original size:41 final size:41
Alignment explanation
Indices: 15545940--15546040 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 41
15545930 CAAAGATTAC
* * *
15545940 AAAAAATTCAAAATA-A-ATTTTAAAATTCAAAATATTTAT
1 AAAAAATCCAAAATATATATTTAAAAATTCAAAATATTTAA
*
15545979 AAAAAATCCAAAATATATATTTAAAAATTTATAAA-ATTTAA
1 AAAAAATCCAAAATATATATTTAAAAATTCA-AAATATTTAA
* *
15546020 AAAAAATTCTAAAAAATATAT
1 AAAAAA-TCCAAAATATATAT
15546041 AAAGTAAGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
39 14 0.27
40 1 0.02
41 22 0.42
42 15 0.29
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (41 bp):
AAAAAATCCAAAATATATATTTAAAAATTCAAAATATTTAA
Found at i:15549094 original size:34 final size:34
Alignment explanation
Indices: 15549039--15549249 Score: 206
Period size: 34 Copynumber: 6.1 Consensus size: 34
15549029 AAATAATACC
* * * *
15549039 AGAATTGATGTATGAATATGAGAGATTCCCTGCA
1 AGAAATGATGTGTGAACATGAAAGATTCCCTGCA
* *
15549073 AGAAATGATGTGTGAACATGAGAGATTCCCTGTA
1 AGAAATGATGTGTGAACATGAAAGATTCCCTGCA
* * * *
15549107 ACAAAATAATGCGTGAACATGAAATATTCCCTGCA
1 A-GAAATGATGTGTGAACATGAAAGATTCCCTGCA
* * *
15549142 AGAAATGATATGTGAAGAGGAAAGATTCCCTGCA
1 AGAAATGATGTGTGAACATGAAAGATTCCCTGCA
* * *
15549176 AGAAATGATGTGTAAACATGAGAGATTCTCTGCA
1 AGAAATGATGTGTGAACATGAAAGATTCCCTGCA
* * * * * *
15549210 ACAAAATAATGCGTGAACAAGAAATATTCCTTGCA
1 A-GAAATGATGTGTGAACATGAAAGATTCCCTGCA
15549245 AGAAA
1 AGAAA
15549250 AGACAAGTGA
Statistics
Matches: 142, Mismatches: 33, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
34 89 0.63
35 53 0.37
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (34 bp):
AGAAATGATGTGTGAACATGAAAGATTCCCTGCA
Found at i:15549226 original size:69 final size:68
Alignment explanation
Indices: 15549056--15549249 Score: 208
Period size: 69 Copynumber: 2.8 Consensus size: 68
15549046 ATGTATGAAT
* * * *
15549056 ATGAGAGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCCCTGTAACAAAATAATGCGT
1 ATGAGAGATTCCCTGCAAGAAATGATGTGTGAACAAGAAAGATTCCCTGCAA-GAAATAATGCGT
*
15549121 GAAC
65 AAAC
* * * * * * *
15549125 ATGAAATATTCCCTGCAAGAAATGATATGTGAAGAGGAAAGATTCCCTGCAAGAAATGATGTGTA
1 ATGAGAGATTCCCTGCAAGAAATGATGTGTGAACAAGAAAGATTCCCTGCAAGAAATAATGCGTA
15549190 AAC
66 AAC
* * * * * *
15549193 ATGAGAGATTCTCTGCAACAAAATAATGCGTGAACAAGAAATATTCCTTGCAAGAAA
1 ATGAGAGATTCCCTGCAA-GAAATGATGTGTGAACAAGAAAGATTCCCTGCAAGAAA
15549250 AGACAAGTGA
Statistics
Matches: 102, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
68 27 0.26
69 75 0.74
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (68 bp):
ATGAGAGATTCCCTGCAAGAAATGATGTGTGAACAAGAAAGATTCCCTGCAAGAAATAATGCGTA
AAC
Found at i:15549245 original size:103 final size:103
Alignment explanation
Indices: 15549061--15549249 Score: 333
Period size: 103 Copynumber: 1.8 Consensus size: 103
15549051 TGAATATGAG
* *
15549061 AGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCCCTGTAACAAAATAATGCGTGAACA
1 AGATTCCCTGCAAGAAATGATGTGTAAACATGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
*
15549126 TGAAATATTCCCTGCAAGAAATGATATGTGAAGAGGAA
66 AGAAATATTCCCTGCAAGAAATGATATGTGAAGAGGAA
*
15549164 AGATTCCCTGCAAGAAATGATGTGTAAACATGAGAGATTCTCTGCAACAAAATAATGCGTGAACA
1 AGATTCCCTGCAAGAAATGATGTGTAAACATGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
*
15549229 AGAAATATTCCTTGCAAGAAA
66 AGAAATATTCCCTGCAAGAAA
15549250 AGACAAGTGA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 81 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (103 bp):
AGATTCCCTGCAAGAAATGATGTGTAAACATGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
AGAAATATTCCCTGCAAGAAATGATATGTGAAGAGGAA
Found at i:15549516 original size:14 final size:13
Alignment explanation
Indices: 15549486--15549523 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
15549476 AGTTTCCAAA
*
15549486 TTTTCAAATTAAG
1 TTTTCAAATTAAC
15549499 TTTTCAAACTTAAC
1 TTTTCAAA-TTAAC
15549513 TTTTCAAATTA
1 TTTTCAAATTA
15549524 CAAATATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAC
Found at i:15552187 original size:3 final size:3
Alignment explanation
Indices: 15552179--15552214 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
15552169 AATAAACATT
15552179 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
15552215 TTATTGCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15562672 original size:33 final size:33
Alignment explanation
Indices: 15562595--15562676 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
15562585 TTTCCCCCAA
* * * * *
15562595 TACTTAACCTGATTATTGAGGCATCATCGCTGC
1 TACTTAACCTGCTTATGGGGGCACCATCACTGC
15562628 TACTTAACCTGCTTATGGGGGCACCATCACTGC
1 TACTTAACCTGCTTATGGGGGCACCATCACTGC
**
15562661 TACTTGGCCTGCTTAT
1 TACTTAACCTGCTTAT
15562677 TTGAACATCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.33
Consensus pattern (33 bp):
TACTTAACCTGCTTATGGGGGCACCATCACTGC
Found at i:15574626 original size:37 final size:37
Alignment explanation
Indices: 15574572--15574686 Score: 117
Period size: 37 Copynumber: 3.1 Consensus size: 37
15574562 AATTTTAAAT
*
15574572 ATAATGATAAATAATATTTAAATAATTTAATATAATG
1 ATAATAATAAATAATATTTAAATAATTTAATATAATG
* ** * * * *
15574609 ATATTTGTAAATGATATTTAAACATTTTTAGGA-AAAAT-
1 ATAATAATAAATAATATTTAAATA-ATTTA--ATATAATG
15574647 ATAATAATAAATAATATTTAAATAATTTAATATAATG
1 ATAATAATAAATAATATTTAAATAATTTAATATAATG
15574684 ATA
1 ATA
15574687 CATTAAATAA
Statistics
Matches: 59, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
35 1 0.02
36 4 0.07
37 26 0.44
38 23 0.39
39 4 0.07
40 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (37 bp):
ATAATAATAAATAATATTTAAATAATTTAATATAATG
Found at i:15574724 original size:75 final size:75
Alignment explanation
Indices: 15574565--15574724 Score: 178
Period size: 75 Copynumber: 2.1 Consensus size: 75
15574555 ATTTTAAAAT
* ** * * *
15574565 TTTAAATATAATGATAAATAATATTTAAATAATTTAATATAATGATATTTGTAAATGATATTTAA
1 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
** *
15574630 ACATTTTTAG
66 ACAAATTGAG
***
15574640 GAAAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACAT-TAAATAAAAATTAA
1 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
*
15574704 TATAAATTGAG
66 -ACAAATTGAG
*
15574715 TTTAGATATA
1 TTTAAATATA
15574725 CAAATACTTT
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
74 11 0.16
75 56 0.84
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (75 bp):
TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
ACAAATTGAG
Found at i:15575252 original size:21 final size:21
Alignment explanation
Indices: 15575211--15575254 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15575201 TAAAAAATTC
* *
15575211 AAATCAAATATTAATATTTTA
1 AAATCAAAAATTAATAATTTA
15575232 AAAT-AAAAATTAATAAATTTA
1 AAATCAAAAATTAAT-AATTTA
15575253 AA
1 AA
15575255 TTAATGCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATCAAAAATTAATAATTTA
Found at i:15575255 original size:20 final size:21
Alignment explanation
Indices: 15575205--15575255 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
15575195 CTTTAATAAA
* *
15575205 AAATTCAAATCAAATATTAAT
1 AAATTTAAATCAAAAATTAAT
*
15575226 -ATTTTAAAAT-AAAAATTAAT
1 AAATTT-AAATCAAAAATTAAT
15575246 AAATTTAAAT
1 AAATTTAAAT
15575256 TAATGCAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTTAAATCAAAAATTAAT
Found at i:15588328 original size:2 final size:2
Alignment explanation
Indices: 15588321--15588353 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15588311 AGGAAGAAGA
15588321 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15588354 AAGAGAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15589446 original size:280 final size:281
Alignment explanation
Indices: 15588931--15589490 Score: 883
Period size: 280 Copynumber: 2.0 Consensus size: 281
15588921 TAAAAAATTA
* * ** * *
15588931 GAAAATGGGGAGGTTTTCGAAATAGTCTATTAGAATTATCAGAGTTTTTGAAATAGTCATATTAA
1 GAAAATAGGGAGGTTTTCGAAATAGCCTACCAGAATTATCAGAGTTTTCGAAACAGTCATATTAA
* *
15588996 ATATTTGTTTATTATAGTAGAAAACTTAGTCAATTTTCAGAAAAGATAACAAGTTATAAAAAATC
66 ATATTTGTTTATTATAGTAGAAAACTTAGACAATTTTCAGAAAAGACAACAAGTTATAAAAAATC
* * *
15589061 ATTTTAGATTAACCTTCATATGTAATGGTGTCCGTTTTTAAGAAAAACTTAGTTAACTTTCTATT
131 ATTTTAAATTAACCTTCATATGTAACGGTGTCCGTTTTTAAGAAAAACTTAGTTAACTTTCCATT
*
15589126 TATTTATTACCCTCAATTTTAACTAAAAACTAGCAGCGGAAAAGTGACATTCAACTTCGTTTTAA
196 TATTTATTACCCTCAAATTTAACTAAAAACTAGCAGCGGAAAAGTGACATTCAACTTCGTTTTAA
15589191 TTTAA-AAAAATAAAATTTTC
261 TTTAATAAAAATAAAATTTTC
* * *
15589211 GAAAATAGGGAGGTTTTCGAAATGGCCTACCAGAATTATCGGAGTTTTCGAGACAGTCATATTAA
1 GAAAATAGGGAGGTTTTCGAAATAGCCTACCAGAATTATCAGAGTTTTCGAAACAGTCATATTAA
* *
15589276 ATATTTGTTTATTATAGTAGAAAACTTAGACAATTTTCAGAAAAGACAACAAGTTGTCAAAAA-C
66 ATATTTGTTTATTATAGTAGAAAACTTAGACAATTTTCAGAAAAGACAACAAGTTATAAAAAATC
*
15589340 TGTTTTAAATTAACCTTCATATGTAACGGTGAT-CGTTTTTAAGAAAAACTTAGTTAACTTTCCA
131 -ATTTTAAATTAACCTTCATATGTAACGGTG-TCCGTTTTTAAGAAAAACTTAGTTAACTTTCCA
* * *
15589404 TTTATTTATTACCCTTAAATTTAACTAAAAACTAGTAGCGGAAAAGTGACATTCAACTTGGTTTT
194 TTTATTTATTACCCTCAAATTTAACTAAAAACTAGCAGCGGAAAAGTGACATTCAACTTCGTTTT
*
15589469 AATTTAATAAAAATAAGATTTT
259 AATTTAATAAAAATAAAATTTT
15589491 ATGCATAATT
Statistics
Matches: 255, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
279 1 0.00
280 240 0.94
281 14 0.05
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (281 bp):
GAAAATAGGGAGGTTTTCGAAATAGCCTACCAGAATTATCAGAGTTTTCGAAACAGTCATATTAA
ATATTTGTTTATTATAGTAGAAAACTTAGACAATTTTCAGAAAAGACAACAAGTTATAAAAAATC
ATTTTAAATTAACCTTCATATGTAACGGTGTCCGTTTTTAAGAAAAACTTAGTTAACTTTCCATT
TATTTATTACCCTCAAATTTAACTAAAAACTAGCAGCGGAAAAGTGACATTCAACTTCGTTTTAA
TTTAATAAAAATAAAATTTTC
Found at i:15590259 original size:91 final size:90
Alignment explanation
Indices: 15590046--15590261 Score: 272
Period size: 90 Copynumber: 2.4 Consensus size: 90
15590036 AAATCACAAA
* * * * * *
15590046 GTTGTAGGTTAATATGTTGCCAGATGGTTGTGAATGCACAACACATTTGTAGATAAGAGCTACCA
1 GTTGCAGGTTAATACGCTGTCAGATAGTTGTGAATGCACAACACATTTGCAGATAAGAGCTACCA
* * *
15590111 AAATATGTGTGGATGAACCACCAGT
66 AAAAATGGGTGGATGAACCACAAGT
* * * *
15590136 GTTGCAGGTTAATACGTTGTCAGATAGTTGTGAATGCACAACATATTTGCATATAAGAGCTGCCA
1 GTTGCAGGTTAATACGCTGTCAGATAGTTGTGAATGCACAACACATTTGCAGATAAGAGCTACC-
*
15590201 AAAAAATGGGTAGG-TGTACCACAAGT
65 AAAAAATGGGT-GGATGAACCACAAGT
*
15590227 GTTGCAGGTTAATGCGCTGTCAGATAGTTGTGAAT
1 GTTGCAGGTTAATACGCTGTCAGATAGTTGTGAAT
15590262 TTTATAGATA
Statistics
Matches: 110, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
90 56 0.51
91 52 0.47
92 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (90 bp):
GTTGCAGGTTAATACGCTGTCAGATAGTTGTGAATGCACAACACATTTGCAGATAAGAGCTACCA
AAAAATGGGTGGATGAACCACAAGT
Found at i:15600989 original size:23 final size:23
Alignment explanation
Indices: 15600957--15601033 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
15600947 TAAACACATA
*
15600957 GGTTCACATGTAACAACATGTAG
1 GGTTCACATGTAACAACATTTAG
* * ** *
15600980 CGTTCGCATGTAGTAATATTTAG
1 GGTTCACATGTAACAACATTTAG
15601003 GGTTCACATGTAACAACATTTAG
1 GGTTCACATGTAACAACATTTAG
15601026 GGTTCACA
1 GGTTCACA
15601034 AGAAATATAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (23 bp):
GGTTCACATGTAACAACATTTAG
Found at i:15601164 original size:28 final size:28
Alignment explanation
Indices: 15601132--15601211 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 28
15601122 ATATAAGGGT
**
15601132 TCGCACATATGGGTTCACATGCATGGGC
1 TCGCACATATGGGTTTGCATGCATGGGC
* * * * *
15601160 TCGCATATAGGGGTTTGCTTGCAGGGGT
1 TCGCACATATGGGTTTGCATGCATGGGC
*
15601188 TCACACATATGGGTTTGCATGCAT
1 TCGCACATATGGGTTTGCATGCAT
15601212 TAGGGTTCAC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (28 bp):
TCGCACATATGGGTTTGCATGCATGGGC
Found at i:15601360 original size:30 final size:30
Alignment explanation
Indices: 15601311--15601435 Score: 110
Period size: 30 Copynumber: 4.1 Consensus size: 30
15601301 TTACATATGA
* *
15601311 GTTCACCTATAAGGG-TTCACATACAATGGG
1 GTTCGCCTAT-AGGGTTTCACATACAAGGGG
* *
15601341 GTTCGTCTATAGGGTTTCACATGCAAGGGG
1 GTTCGCCTATAGGGTTTCACATACAAGGGG
* * *
15601371 GTTCGCCTATAGGGTTTCATATGCAAGAGG
1 GTTCGCCTATAGGGTTTCACATACAAGGGG
* * * *
15601401 ATTCACCTATA-GGTGTTCGCATATACAGGGG
1 GTTCGCCTATAGGGT-TTCACATACA-AGGGG
15601432 GTTC
1 GTTC
15601436 TCTTAGGGAG
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
29 7 0.09
30 63 0.82
31 7 0.09
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (30 bp):
GTTCGCCTATAGGGTTTCACATACAAGGGG
Found at i:15613945 original size:39 final size:39
Alignment explanation
Indices: 15613891--15613968 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
15613881 AATTTAATTA
15613891 AAAATTATTTTAGCCTTAATTATATTTGTACAATTGGTC
1 AAAATTATTTTAGCCTTAATTATATTTGTACAATTGGTC
15613930 AAAATTATTTTAGCCTTAATTATATTTGTACAATTGGTC
1 AAAATTATTTTAGCCTTAATTATATTTGTACAATTGGTC
15613969 CTTCCACTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (39 bp):
AAAATTATTTTAGCCTTAATTATATTTGTACAATTGGTC
Found at i:15618583 original size:23 final size:22
Alignment explanation
Indices: 15618540--15618597 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
15618530 AAAGGGTATA
* *
15618540 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
15618561 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
15618584 TGCATATCATATCT
1 TACAAATCATATCT
15618598 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:15618613 original size:21 final size:19
Alignment explanation
Indices: 15618576--15618650 Score: 132
Period size: 19 Copynumber: 3.8 Consensus size: 19
15618566 AATCATATCT
15618576 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
15618595 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
15618616 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
15618635 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
15618651 CTTGAAGATT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
19 35 0.65
21 19 0.35
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15627125 original size:44 final size:43
Alignment explanation
Indices: 15627052--15627209 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
15627042 GATGTGTTAT
* * * *
15627052 CGTGTAAGACCACGTCTGGAACGTTGGCATCGATTTGTGATTTA
1 CGTGTAAGACCATGTCTGGGAC-ATGGCATCGATATGTGATTTA
*
15627096 CGTGTAAGACCATGTCTGGGACATCGGCATCG-TATATGATTT-
1 CGTGTAAGACCATGTCTGGGACAT-GGCATCGATATGTGATTTA
* * * *
15627138 CGTGTAAGACCCTATCTGGGACAGTAGCATCGATATGTGA-TAA
1 CGTGTAAGACCATGTCTGGGACA-TGGCATCGATATGTGATTTA
* * * *
15627181 CATGTAAGACCATATATGGGATATGGCAT
1 CGTGTAAGACCATGTCTGGGACATGGCAT
15627210 TGTATGAGCT
Statistics
Matches: 95, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
42 33 0.35
43 35 0.37
44 27 0.28
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATGGCATCGATATGTGATTTA
Found at i:15627168 original size:42 final size:42
Alignment explanation
Indices: 15627089--15627201 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
15627079 CATCGATTTG
* *
15627089 TGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATA
1 TGATTTACGTGTAAGACCATATCTGGGACATCAGCATCG-ATA
*
15627132 TGATTT-CGTGTAAGACCCTATCTGGGACAGT-AGCATCGATA
1 TGATTTACGTGTAAGACCATATCTGGGACA-TCAGCATCGATA
* * *
15627173 TG-TGATAACATGTAAGACCATATATGGGA
1 TGAT--TTACGTGTAAGACCATATCTGGGA
15627202 TATGGCATTG
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
40 1 0.02
41 5 0.08
42 28 0.47
43 25 0.42
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
TGATTTACGTGTAAGACCATATCTGGGACATCAGCATCGATA
Found at i:15631191 original size:2 final size:2
Alignment explanation
Indices: 15631184--15631239 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
15631174 TGTTAATGTC
*
15631184 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15631226 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
15631240 TAACGTTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15633421 original size:47 final size:47
Alignment explanation
Indices: 15633343--15633560 Score: 262
Period size: 47 Copynumber: 4.6 Consensus size: 47
15633333 ATGACAGCTC
* *
15633343 GCACGTACATTGCAAAGACAGCTCA-CACATGCATGGTAAAACTGCTT
1 GCACATACATTTCAAAGACAGCT-AGCACATGCATGGTAAAACTGCTT
* * * * * *
15633390 GCACATACATTTCATATATAGTTAGCACATGCATGATAAAA-TAGCTC
1 GCACATACATTTCAAAGACAGCTAGCACATGCATGGTAAAACT-GCTT
*
15633437 GCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTT
1 GCACATACATTTCAAAGACAGCTAGCACATGCATGGTAAAACTGCTT
* * *
15633484 GCACATACATTTCAAAGACAACTAGCACATGCGTGGTAAAACAT-ATT
1 GCACATACATTTCAAAGACAGCTAGCACATGCATGGTAAAAC-TGCTT
* *
15633531 GCACATGCATTTCAAAGACAACTAGCACAT
1 GCACATACATTTCAAAGACAGCTAGCACAT
15633561 ACATTTAATC
Statistics
Matches: 147, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
46 2 0.01
47 143 0.97
48 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (47 bp):
GCACATACATTTCAAAGACAGCTAGCACATGCATGGTAAAACTGCTT
Found at i:15633510 original size:94 final size:94
Alignment explanation
Indices: 15633336--15633560 Score: 297
Period size: 94 Copynumber: 2.4 Consensus size: 94
15633326 TGTGACAATG
* * *
15633336 ACAGCTCGCACGTACATTGCAAAGACAGCTCACACATGCATGGTAAAACTGCTTGCACATACATT
1 ACAGCTCGCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTTGCACATACATT
* * * **
15633401 TCATATATAGTTAGCACATGCATGATAAA
66 TCAAAGACAACTAGCACATGCATGATAAA
*
15633430 ATAGCTCGCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTTGCACATACATT
1 ACAGCTCGCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTTGCACATACATT
* *
15633495 TCAAAGACAACTAGCACATGCGTGGTAAA
66 TCAAAGACAACTAGCACATGCATGATAAA
** * * * *
15633524 ACATATTGCACATGCATTTCAAAGACAACTAGCACAT
1 ACAGCTCGCACATACATTTCAAAGACAGCTCGCACAT
15633561 ACATTTAATC
Statistics
Matches: 113, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 113 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (94 bp):
ACAGCTCGCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTTGCACATACATT
TCAAAGACAACTAGCACATGCATGATAAA
Found at i:15634304 original size:21 final size:20
Alignment explanation
Indices: 15634230--15634308 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
15634220 AAGGGCATCG
* * * *
15634230 AAGTGCAACCAAGGACACCA
1 AAGTGCAATCAGGGGCACGA
*
15634250 AAGTGCAACCAGGGGCACGA
1 AAGTGCAATCAGGGGCACGA
*
15634270 AAGTACAATCAGGGGCACGA
1 AAGTGCAATCAGGGGCACGA
15634290 AAGTGCAATTCAGGGGCAC
1 AAGTGCAA-TCAGGGGCAC
15634309 TAGAGCGCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 42 0.81
21 10 0.19
ACGTcount: A:0.38, C:0.24, G:0.29, T:0.09
Consensus pattern (20 bp):
AAGTGCAATCAGGGGCACGA
Found at i:15634318 original size:21 final size:21
Alignment explanation
Indices: 15634259--15634318 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
15634249 AAAGTGCAAC
**
15634259 CAGGGGCACGAAAGTACAA-T
1 CAGGGGCACGAAAGCGCAATT
*
15634279 CAGGGGCACGAAAGTGCAATT
1 CAGGGGCACGAAAGCGCAATT
* *
15634300 CAGGGGCACTAGAGCGCAA
1 CAGGGGCACGAAAGCGCAA
15634319 ATCATACATC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
20 18 0.51
21 17 0.49
ACGTcount: A:0.35, C:0.22, G:0.33, T:0.10
Consensus pattern (21 bp):
CAGGGGCACGAAAGCGCAATT
Found at i:15652594 original size:15 final size:15
Alignment explanation
Indices: 15652557--15652594 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
15652547 GTTGTATTTG
15652557 ATTATATTTGAATAA
1 ATTATATTTGAATAA
15652572 ATTGATATTT-AATAA
1 ATT-ATATTTGAATAA
15652587 ATATATAT
1 AT-TATAT
15652595 GAAACGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (15 bp):
ATTATATTTGAATAA
Found at i:15652947 original size:29 final size:29
Alignment explanation
Indices: 15652914--15652969 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
15652904 ATAGAAGAAG
15652914 GAGAGGATTTAGATTTAAAGCTTGGTAAT
1 GAGAGGATTTAGATTTAAAGCTTGGTAAT
15652943 GAGAGGATTTAGATTTAAAGCTTGGTA
1 GAGAGGATTTAGATTTAAAGCTTGGTA
15652970 GGCCATGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.34
Consensus pattern (29 bp):
GAGAGGATTTAGATTTAAAGCTTGGTAAT
Found at i:15653401 original size:13 final size:13
Alignment explanation
Indices: 15653383--15653407 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15653373 AGAGGTAGCA
15653383 AAGAGATATTTTG
1 AAGAGATATTTTG
15653396 AAGAGATATTTT
1 AAGAGATATTTT
15653408 CGTCAAGTGG
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:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
AAGAGATATTTTG
Found at i:15662995 original size:19 final size:19
Alignment explanation
Indices: 15662972--15663012 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
15662962 TATGTTATTC
15662972 ATTTTTATT-TAATATTA-A
1 ATTTTTATTAT-ATATTATA
15662990 ATTTTTATTATATATTATA
1 ATTTTTATTATATATTATA
15663009 ATTT
1 ATTT
15663013 AGATTAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTATTATATATTATA
Found at i:15671052 original size:44 final size:46
Alignment explanation
Indices: 15670968--15671063 Score: 110
Period size: 46 Copynumber: 2.1 Consensus size: 46
15670958 TTATTATTTC
* * *
15670968 TATTTTTTAACTTATATATGTAATCATTATTTTCATAATATATATT
1 TATTTTATAACTTATATATGTAATCATTATTATCATAATATATATA
*
15671014 TATTTTATAACTTATATATGT-A-CA-TATATAT-ATAAATATTTATA
1 TATTTTATAACTTATATATGTAATCATTAT-TATCAT-AATATATATA
15671058 TATTTT
1 TATTTT
15671064 TAATACATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
43 5 0.11
44 18 0.41
45 1 0.02
46 20 0.45
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (46 bp):
TATTTTATAACTTATATATGTAATCATTATTATCATAATATATATA
Found at i:15671057 original size:14 final size:14
Alignment explanation
Indices: 15671037--15671105 Score: 50
Period size: 14 Copynumber: 4.7 Consensus size: 14
15671027 ATATATGTAC
15671037 ATATATATATAAAT
1 ATATATATATAAAT
* *
15671051 ATTTATATATTTTTAAT
1 A--TATATA-TATAAAT
* *
15671068 ACATAT-TTTATAAT
1 ATATATATATA-AAT
15671082 ATATATATATAAAT
1 ATATATATATAAAT
*
15671096 ATTTATATAT
1 ATATATATAT
15671106 TTTTCTTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
13 3 0.07
14 21 0.49
15 7 0.16
16 6 0.14
17 6 0.14
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATATATATAAAT
Found at i:15682213 original size:25 final size:26
Alignment explanation
Indices: 15682172--15682220 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
15682162 TGAATTTGTT
15682172 TGTTCTTGCAATACTTTATTCTTTGC
1 TGTTCTTGCAATACTTTATTCTTTGC
*
15682198 TGTTCTTG-AATACTTTTTTCTTT
1 TGTTCTTGCAATACTTTATTCTTT
15682221 TCAAGACACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.14, C:0.16, G:0.10, T:0.59
Consensus pattern (26 bp):
TGTTCTTGCAATACTTTATTCTTTGC
Found at i:15683292 original size:44 final size:44
Alignment explanation
Indices: 15683104--15683631 Score: 290
Period size: 44 Copynumber: 12.1 Consensus size: 44
15683094 GAGTGGATTG
*
15683104 GAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCAGTGG-GATAGACT
1 GAGTAAGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT
*
15683148 GAAG-ATGGCGAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T
1 G-AGTA-AGC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * * * *
15683192 TA--AAGTGATAGATCTTATCTCTCTAAAGTTGCAG-AGAGCA-AAT
1 GAGTAAG-CA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * * *
15683235 -CG-CATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACT
1 GAGTAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* *
15683277 GGGTAAGCAGGTCTTATC-CCCTTGAAGTTGCAGTGGAGCAGACT
1 GAGTAAGCAAGTCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACT
* * * *
15683321 CAAGAAAGCAAGTCTTATCCCCCTGAAATTGCAGTAGG-GCAGACT
1 -GAGTAAGCAAGTCTTATCTCCCTGAAGTTGCAGT-GGAGCAGACT
* * * * * **
15683366 GAATAAACAAATCTTATCTCCCTAAAGTTGTAGTGGAGTGGA-T
1 GAGTAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * *
15683409 TAG-AATG-ATGGATCTTATCTCTCTGAAGTTGCAGT-AAGGCAGA--
1 GAGTAA-GCA-AG-TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACT
* * *
15683452 GCA-T-ATCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACT
1 G-AGTAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * *
15683495 CAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCACACT
1 -GAGTAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * * * *
15683540 CAAGAAAGCAAGTCTTATCCCCCTGAAATTGCAATAGG-GCAGATT
1 -GAGTAAGCAAGTCTTATCTCCCTGAAGTTGCAGT-GGAGCAGACT
* ** * * * *
15683585 GAATAAATAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATT
1 GAGTAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
15683629 GAG
1 GAG
15683632 AAAACCAATC
Statistics
Matches: 368, Mismatches: 81, Indels: 70
0.71 0.16 0.13
Matches are distributed among these distances:
40 19 0.05
41 35 0.10
42 9 0.02
43 22 0.06
44 138 0.38
45 134 0.36
46 11 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
GAGTAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
Found at i:15683353 original size:45 final size:45
Alignment explanation
Indices: 15683108--15683622 Score: 324
Period size: 45 Copynumber: 11.8 Consensus size: 45
15683098 GGATTGGAGT
* *
15683108 AAGCAAGTCTTATC-CTCCTGAAGTTGCAGTGG-GATAGACTGAAGA
1 AAGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACTCAAGA
** *
15683153 TGGCGAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-A
1 AAGC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
** * * * *
15683196 GTG-ATAGATCTTATCTCTCTAAAGTTGCAG-AGAGCA-AATC--G-
1 AAGCA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
* * * * ** *
15683237 CATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-GGGT
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
*
15683281 AAGCAGGTCTTATC-CCCTTGAAGTTGCAGTGGAGCAGACTCAAGA
1 AAGCAAGTCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACTCAAGA
* * * *
15683326 AAGCAAGTCTTATCCCCCTGAAATTGCAGTAGG-GCAGACTGAATA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGT-GGAGCAGACTCAAGA
* * * ** *
15683371 AA-CAAATCTTATCTCCCTAAAGTTGTAGTGGAGTGGA-T-TAGA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
* * * * *
15683413 ATG-ATGGATCTTATCTCTCTGAAGTTGCAGT-AAGGCAGA-GC---A
1 AAGCA-AG-TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACTCAAGA
* * * *
15683455 TATCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTCAAGA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
*
15683500 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCACACTCAAGA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
* * * * * *
15683545 AAGCAAGTCTTATCCCCCTGAAATTGCAATAGG-GCAGATTGAATA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGT-GGAGCAGACTCAAGA
* * *
15683590 AA-TAAATCTTATCTCCCTAAAGTTGCAGTGGAG
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
15683623 TAGATTGAGA
Statistics
Matches: 361, Mismatches: 77, Indels: 65
0.72 0.15 0.13
Matches are distributed among these distances:
40 19 0.05
41 34 0.09
42 11 0.03
43 19 0.05
44 124 0.34
45 143 0.40
46 11 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (45 bp):
AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
Found at i:15683395 original size:173 final size:174
Alignment explanation
Indices: 15683076--15683395 Score: 391
Period size: 173 Copynumber: 1.8 Consensus size: 174
15683066 CAAATCTTGA
** *
15683076 CTCCCTGAAGTTACAATAGAGTGGATTGGAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGG
1 CTCCCTGAAGTTACAATAGAGCAGACTGGAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGG
* * ** * * * * * *
15683141 ATAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATC
66 ACAGACTCAAGAAAGCGAATCTTATCCCCCTGAAATTGCAGTGGAGCAGACTAAAGTAACAAATC
*
15683206 TTATCTCTCTAAAGTTGCAGAGAGCAAATCGCATCTAGTCTTAT
131 TTATCTCCCTAAAGTTGCAGAGAGCAAATCGCATCTAGTCTTAT
* * *
15683250 CTCCCTGAAGTTACAGTGGAGCAGACTGG-GTAAGCAGGTCTTATCC-CCTTGAAGTTGCAGT-G
1 CTCCCTGAAGTTACAATAGAGCAGACTGGAGTAAGCAAGTCTTATCCTCC-TGAAGTTGCAGTGG
*
15683312 GAGCAGACTCAAGAAAGC-AAGTCTTATCCCCCTGAAATTGCAGTAGG-GCAGACTGAA-TAAAC
65 GA-CAGACTCAAGAAAGCGAA-TCTTATCCCCCTGAAATTGCAGT-GGAGCAGACTAAAGT-AAC
15683374 AAATCTTATCTCCCTAAAGTTG
126 AAATCTTATCTCCCTAAAGTTG
15683396 TAGTGGAGTG
Statistics
Matches: 123, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
172 8 0.07
173 89 0.72
174 26 0.21
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (174 bp):
CTCCCTGAAGTTACAATAGAGCAGACTGGAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGG
ACAGACTCAAGAAAGCGAATCTTATCCCCCTGAAATTGCAGTGGAGCAGACTAAAGTAACAAATC
TTATCTCCCTAAAGTTGCAGAGAGCAAATCGCATCTAGTCTTAT
Found at i:15683558 original size:219 final size:218
Alignment explanation
Indices: 15683108--15683633 Score: 711
Period size: 219 Copynumber: 2.4 Consensus size: 218
15683098 GGATTGGAGT
* * * * ** *
15683108 AAGCAAGTCTTATCCTCCTGAAGTTGCAGT-GGGATAGACTGAAGATGGCGAATCTTATCTCCCT
1 AAGCAAGTCTTATCCCCCTGAAATTGCAGTAGGG-CAGACTGAATA-AACAAATCTTATCTCCCT
* * *
15683172 GAAGTTGCAGTGGAGCAGATTA-AAGTGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAAATC
64 AAAGTTGCAGTGGAGTAGATTAGAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAAAGC
* * * ** * *
15683236 GCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGGGTAAGCAGGTCTTATCCCCTTG
129 ACATCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGAAAGCAAGTCTTATCCCCTTG
*
15683301 AAGTTGCAGTGGAGCAGACTCAAGA
194 AAGTTGCAGTGGAGCACACTCAAGA
15683326 AAGCAAGTCTTATCCCCCTGAAATTGCAGTAGGGCAGACTGAATAAACAAATCTTATCTCCCTAA
1 AAGCAAGTCTTATCCCCCTGAAATTGCAGTAGGGCAGACTGAATAAACAAATCTTATCTCCCTAA
* * * * *
15683391 AGTTGTAGTGGAGTGGATTAGAA-TGATGGATCTTATCTCTCTGAAGTTGCAGTA-AGGCAGAGC
66 AGTTGCAGTGGAGTAGATTAGAAGTGATAGATCTTATCTCTCTAAAGTTGCAG-AGA-GCAAAGC
*
15683454 ATATCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCTCCC-
129 ACATCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-AAGAAAGCAAGTCTTATC-CCCT
15683518 TGAAGTTGCAGTGGAGCACACTCAAGA
192 TGAAGTTGCAGTGGAGCACACTCAAGA
* * *
15683545 AAGCAAGTCTTATCCCCCTGAAATTGCAATAGGGCAGATTGAATAAATAAATCTTATCTCCCTAA
1 AAGCAAGTCTTATCCCCCTGAAATTGCAGTAGGGCAGACTGAATAAACAAATCTTATCTCCCTAA
15683610 AGTTGCAGTGGAGTAGATTGAGAA
66 AGTTGCAGTGGAGTAGATT-AGAA
15683634 AACCAATCCA
Statistics
Matches: 272, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
217 61 0.22
218 82 0.30
219 122 0.45
220 7 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (218 bp):
AAGCAAGTCTTATCCCCCTGAAATTGCAGTAGGGCAGACTGAATAAACAAATCTTATCTCCCTAA
AGTTGCAGTGGAGTAGATTAGAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAAAGCAC
ATCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGAAAGCAAGTCTTATCCCCTTGAA
GTTGCAGTGGAGCACACTCAAGA
Found at i:15687359 original size:43 final size:43
Alignment explanation
Indices: 15687298--15687383 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
15687288 TAAGTGTACA
15687298 TAGACAAAAATACTACACTTAGGGCACCAAATCCAAAACTATG
1 TAGACAAAAATACTACACTTAGGGCACCAAATCCAAAACTATG
15687341 TAGACAAAAATACTACACTTAGGGCACCAAATCCAAAACTATG
1 TAGACAAAAATACTACACTTAGGGCACCAAATCCAAAACTATG
15687384 AGCATTCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.47, C:0.23, G:0.12, T:0.19
Consensus pattern (43 bp):
TAGACAAAAATACTACACTTAGGGCACCAAATCCAAAACTATG
Found at i:15700462 original size:25 final size:24
Alignment explanation
Indices: 15700428--15700539 Score: 91
Period size: 25 Copynumber: 4.5 Consensus size: 24
15700418 CATCGATTTC
*
15700428 AGCTCTTATGAGCTTACCGTTACTT
1 AGCTCGTATGAGCTTACCGTTA-TT
* *
15700453 AGCTCGTATGAGTTTACTGTTATT
1 AGCTCGTATGAGCTTACCGTTATT
* * *
15700477 CAGCTTGGAGGAGCTTACCGTTATTT
1 -AGCTCGTATGAGCTTACCGTTA-TT
* * * *
15700503 AGCTCGAAGGATCTTACCATTTATT
1 AGCTCGTATGAGCTTACC-GTTATT
15700528 -GCTCGTATGAGC
1 AGCTCGTATGAGC
15700540 ATACATGTAC
Statistics
Matches: 69, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
24 11 0.16
25 53 0.77
26 5 0.07
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (24 bp):
AGCTCGTATGAGCTTACCGTTATT
Found at i:15702880 original size:37 final size:37
Alignment explanation
Indices: 15702829--15702912 Score: 132
Period size: 37 Copynumber: 2.3 Consensus size: 37
15702819 TTCCAACTGA
*
15702829 AACACACCAAATGCTCATAAGAGCTAATCCACCCGAT
1 AACACACCAAATGCTCATAAGAGCCAATCCACCCGAT
* * *
15702866 AACACACCAGATGCTTATAAGAGCCAGTCCACCCGAT
1 AACACACCAAATGCTCATAAGAGCCAATCCACCCGAT
15702903 AACACACCAA
1 AACACACCAA
15702913 TGGCTCCGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.40, C:0.33, G:0.12, T:0.14
Consensus pattern (37 bp):
AACACACCAAATGCTCATAAGAGCCAATCCACCCGAT
Found at i:15705407 original size:72 final size:71
Alignment explanation
Indices: 15705287--15705422 Score: 218
Period size: 72 Copynumber: 1.9 Consensus size: 71
15705277 TCGGATTTTT
* * *
15705287 AAAAAAGGATCATGCCCAGTAATTTAGGATACGATCTCTTCTTAATTCTCGAGATCGTTTAAAAC
1 AAAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATCGTTTAAAAC
15705352 TTGAGA
66 TTGAGA
* *
15705358 AAAAAATGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTGATTCTCGGGATCGTTTAAAA
1 AAAAAA-GGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATCGTTTAAAA
15705423 TTTTAAGTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
71 6 0.10
72 53 0.90
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (71 bp):
AAAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATCGTTTAAAAC
TTGAGA
Found at i:15708491 original size:25 final size:25
Alignment explanation
Indices: 15708457--15708509 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
15708447 GACATGTATC
15708457 TAGATGTGGCAATATGTGCCACGAA
1 TAGATGTGGCAATATGTGCCACGAA
*
15708482 TAGATGTGGCAATATGTGCCACGGA
1 TAGATGTGGCAATATGTGCCACGAA
15708507 TAG
1 TAG
15708510 CCATTTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (25 bp):
TAGATGTGGCAATATGTGCCACGAA
Found at i:15709096 original size:13 final size:14
Alignment explanation
Indices: 15709066--15709099 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
15709056 ATCTAACCTG
15709066 AAATGAATTTGCTTA
1 AAATGAATTT-CTTA
15709081 AAATGAATTT-TTA
1 AAATGAATTTCTTA
15709094 AAATGA
1 AAATGA
15709100 GATCGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
15 10 0.53
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (14 bp):
AAATGAATTTCTTA
Found at i:15713785 original size:25 final size:26
Alignment explanation
Indices: 15713751--15713803 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
15713741 TTACCAAATA
* *
15713751 TATTTTTA-TTATTAAAAATATTTTT
1 TATTTCTATTTATCAAAAATATTTTT
*
15713776 TATTTCTATTTATCAAATATATTTTT
1 TATTTCTATTTATCAAAAATATTTTT
15713802 TA
1 TA
15713804 ATTTTTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
TATTTCTATTTATCAAAAATATTTTT
Found at i:15715300 original size:18 final size:18
Alignment explanation
Indices: 15715277--15715331 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
15715267 TTTTAAATAT
*
15715277 TTTTTATAAATATAAAAA
1 TTTTTAAAAATATAAAAA
* *
15715295 TTTTTAAAAATATATAAT
1 TTTTTAAAAATATAAAAA
*
15715313 TTTTTAAAAATTTAAAAA
1 TTTTTAAAAATATAAAAA
15715331 T
1 T
15715332 CTATATATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTTAAAAATATAAAAA
Found at i:15715437 original size:21 final size:18
Alignment explanation
Indices: 15715394--15715444 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 18
15715384 ATTTTTTTAA
*
15715394 TTGAACTTTTTTCTATGT
1 TTGAATTTTTTTCTATGT
15715412 TTGAATTTTTTATCTATTGTT
1 TTGAATTTTTT-TCTA-TG-T
15715433 TTGAATTTTTTT
1 TTGAATTTTTTT
15715445 ATAATTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 10 0.34
19 4 0.14
20 3 0.10
21 12 0.41
ACGTcount: A:0.18, C:0.06, G:0.10, T:0.67
Consensus pattern (18 bp):
TTGAATTTTTTTCTATGT
Found at i:15718640 original size:25 final size:26
Alignment explanation
Indices: 15718593--15718645 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
15718583 TGTATTAATC
*
15718593 ATAATTAAAATATATGAATAATAAAA
1 ATAAATAAAATATATGAATAATAAAA
15718619 ATAAATAAAA-ATAT-AATCAATAAAA
1 ATAAATAAAATATATGAAT-AATAAAA
15718644 AT
1 AT
15718646 GTAATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (26 bp):
ATAAATAAAATATATGAATAATAAAA
Found at i:15722738 original size:14 final size:14
Alignment explanation
Indices: 15722721--15722758 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
15722711 CTTTCGTACG
15722721 ATTTC-TTTCACTTT
1 ATTTCATTTCA-TTT
15722735 ATTTCATTTCATTT
1 ATTTCATTTCATTT
*
15722749 ATTTTATTTC
1 ATTTCATTTC
15722759 TACTGATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTCATTTCATTT
Found at i:15725569 original size:3 final size:3
Alignment explanation
Indices: 15725543--15725600 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
15725533 TTTAAGTTTT
* * *
15725543 TTA TTA ATA TTG TTA TTG TTA TTA TTA TTA -TA TTA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
15725588 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
15725601 ACCTACATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:15725798 original size:29 final size:29
Alignment explanation
Indices: 15725720--15725822 Score: 88
Period size: 29 Copynumber: 3.6 Consensus size: 29
15725710 TCATAGTTTT
* *
15725720 TATATATTTATATTTATATTTTATAATAT-
1 TATATATATATATTCAT-TTTTATAATATA
* *
15725749 T-TATACAT-T-TTCCATATTTTATAATCTA
1 TATATATATATATT-CAT-TTTTATAATATA
* * *
15725777 TATATATGTTTATTCATTTTTATAATATG
1 TATATATATATATTCATTTTTATAATATA
15725806 TATATATATATATTCAT
1 TATATATATATATTCAT
15725823 ACACTATTCA
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
26 2 0.03
27 14 0.24
28 6 0.10
29 31 0.53
30 4 0.07
31 2 0.03
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (29 bp):
TATATATATATATTCATTTTTATAATATA
Found at i:15739964 original size:27 final size:28
Alignment explanation
Indices: 15739934--15740009 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 28
15739924 ATTTATATTT
* *
15739934 ATATTTTATAATATTTATACGTTT-TCC
1 ATATTTTATAATATATATACGTTTATAC
*
15739961 ATATTTTATAATCTATATATATGTTTATAC
1 ATATTTTATAA--TATATATACGTTTATAC
* *
15739991 ATTTTTTATAATATGTATA
1 ATATTTTATAATATATATA
15740010 TATATATTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 11 0.27
28 7 0.17
29 11 0.27
30 12 0.29
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (28 bp):
ATATTTTATAATATATATACGTTTATAC
Found at i:15746538 original size:16 final size:16
Alignment explanation
Indices: 15746514--15746551 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
15746504 TTTGGTTCGC
*
15746514 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
15746530 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
15746546 CGTAAT
1 TGTAAT
15746552 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.34, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:15746887 original size:38 final size:38
Alignment explanation
Indices: 15746840--15747006 Score: 108
Period size: 38 Copynumber: 4.2 Consensus size: 38
15746830 CAATATTCTT
*
15746840 ATATGAATTTACTCAAATCATAATATATGATACTATAAA
1 ATAT-AATTTACTAAAATCATAATATATGATACTATAAA
* * ** *
15746879 ATATAATTTAACATAATTATTATTAAATATATTTTAAT-TAAAA
1 ATATAATTT-AC-TAA-AATCA-T-AATATATGATACTAT-AAA
* * * ***
15746922 ATATAATTTAATAAAATTCTTAATA-ATCA-A-TATTCTT
1 ATATAATTTACTAAAA-TCATAATATATGATACTA-TAAA
15746959 ATATGAATTTACTAAAATCATAATATATGATACTATAAA
1 ATAT-AATTTACTAAAATCATAATATATGATACTATAAA
15746998 ATATAATTT
1 ATATAATTT
15747007 GAAATAATTA
Statistics
Matches: 94, Mismatches: 21, Indels: 27
0.66 0.15 0.19
Matches are distributed among these distances:
36 1 0.01
37 12 0.13
38 27 0.29
39 16 0.17
40 6 0.06
41 7 0.07
42 3 0.03
43 22 0.23
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (38 bp):
ATATAATTTACTAAAATCATAATATATGATACTATAAA
Found at i:15746909 original size:43 final size:41
Alignment explanation
Indices: 15746860--15747044 Score: 102
Period size: 43 Copynumber: 4.6 Consensus size: 41
15746850 ACTCAAATCA
15746860 TAATATATGATACTATAAAATATAATTTAACATAATTATTAT
1 TAATATATGATACT-TAAAATATAATTTAACATAATTATTAT
** * * * * *
15746902 TAAATATATTTTAATTAAAAATATAATTTAATAAAATTCTTAA
1 T-AATATATGATACTT-AAAATATAATTTAACATAATTATTAT
* * *
15746945 TAATCA-AT-ATTCTT---ATATGAATTT-AC-TAA-AATCA-
1 TAAT-ATATGATACTTAAAATAT-AATTTAACATAATTATTAT
*
15746979 TAATATATGATACTATAAAATATAATTTGAA-ATAATTAATAT
1 TAATATATGATACT-TAAAATATAATTT-AACATAATTATTAT
** *
15747021 TAAATATATTTTAATTAAAATATA
1 T-AATATATGATACTTAAAATATA
15747045 TGATTTAATA
Statistics
Matches: 105, Mismatches: 22, Indels: 32
0.66 0.14 0.20
Matches are distributed among these distances:
33 1 0.01
34 6 0.06
35 6 0.06
36 3 0.03
37 5 0.05
38 10 0.10
39 4 0.04
40 4 0.04
41 5 0.05
42 17 0.16
43 44 0.42
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (41 bp):
TAATATATGATACTTAAAATATAATTTAACATAATTATTAT
Found at i:15746925 original size:17 final size:16
Alignment explanation
Indices: 15746903--15746937 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
15746893 AATTATTATT
*
15746903 AAATATATTTTAATTAA
1 AAATATAATTTAA-TAA
15746920 AAATATAATTTAATAA
1 AAATATAATTTAATAA
15746936 AA
1 AA
15746938 TTCTTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:15746977 original size:119 final size:120
Alignment explanation
Indices: 15746765--15747059 Score: 522
Period size: 119 Copynumber: 2.5 Consensus size: 120
15746755 TTAATCATAT
* *
15746765 TTTAACATAATTATTATTAAATATATTATAACTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
15746830 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
15746885 TTTAACATAATTATTATTAAATATATTTTAATTAAAA-ATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
15746949 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* *
15747004 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
15747060 TAAAATAATT
Statistics
Matches: 168, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
119 114 0.68
120 54 0.32
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:15747110 original size:47 final size:46
Alignment explanation
Indices: 15747041--15747372 Score: 178
Period size: 47 Copynumber: 7.3 Consensus size: 46
15747031 TTAATTAAAA
*
15747041 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
15747088 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* ** * * *
15747133 TA-ATAAAAATATATAATTTCATAAA-ATTTTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-A-AAATAATTATAATAATAAATTTTCT
* *
15747179 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
** * * *
15747224 TA-AT-AATGACATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* * *
15747270 TATATGAATTTAAATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
15747315 TA-AT-AATGATATATAATTTCATAA-AATTCTTAATAATAAATGTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
15747361 TATATGAATTTA
1 TATATGAATTTA
15747373 CTAAAATCAT
Statistics
Matches: 215, Mismatches: 39, Indels: 62
0.68 0.12 0.20
Matches are distributed among these distances:
43 6 0.03
44 64 0.30
45 32 0.15
46 23 0.11
47 80 0.37
48 10 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:15747170 original size:91 final size:91
Alignment explanation
Indices: 15747075--15747372 Score: 515
Period size: 91 Copynumber: 3.3 Consensus size: 91
15747065 TAATTATAAC
* * *
15747075 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
15747140 AATATATAATTTCATAAAATTTTTGA
66 GATATATAATTTCATAAAATTCTTGA
15747166 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
15747231 GACATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
*
15747257 TAATAAATTTTCTTATATGAATTTAAATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
15747322 GATATATAATTTCATAAAATTCTTAA
66 GATATATAATTTCATAAAATTCTTGA
*
15747348 TAATAAATGTTCTTATATGAATTTA
1 TAATAAATTTTCTTATATGAATTTA
15747373 CTAAAATCAT
Statistics
Matches: 197, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 197 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:15750568 original size:6 final size:6
Alignment explanation
Indices: 15750557--15750582 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15750547 TAGTTTGAAC
15750557 ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
15750583 ATAATTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:15751386 original size:13 final size:13
Alignment explanation
Indices: 15751368--15751392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15751358 ATCAAATTTG
15751368 TATGTACTCTTTA
1 TATGTACTCTTTA
15751381 TATGTACTCTTT
1 TATGTACTCTTT
15751393 CACTAATAAA
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:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:15751412 original size:51 final size:51
Alignment explanation
Indices: 15751357--15751463 Score: 135
Period size: 53 Copynumber: 2.1 Consensus size: 51
15751347 TATATATTAG
* * *
15751357 TATCAAATTTGTATGT-ACTCTTTATATGTACTCTTTCACTAATAAATTATA
1 TATCAAATTTGTATCTAAAT-TTTATATGTACGCTTTCACTAATAAATTATA
* *
15751408 TATCAAATTTGTATCTAAAAATTTTTTTTGTACGCTTTCACTAATAAATTATA
1 TATCAAATTTGTATCT--AAATTTTATATGTACGCTTTCACTAATAAATTATA
15751461 TAT
1 TAT
15751464 TAGTAAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 15 0.31
53 31 0.65
54 2 0.04
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.48
Consensus pattern (51 bp):
TATCAAATTTGTATCTAAATTTTATATGTACGCTTTCACTAATAAATTATA
Found at i:15752071 original size:23 final size:24
Alignment explanation
Indices: 15752011--15752073 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
15752001 TCTACTCACT
15752011 AACAAATCAAGAACAATTTCCAGCG
1 AACAAATCAAGAACAATTTCCA-CG
* *
15752036 GAC-TATCAA-AACAATTTCCA-G
1 AACAAATCAAGAACAATTTCCACG
15752057 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
15752074 ATCAAAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 3 0.09
22 5 0.16
23 17 0.53
24 5 0.16
25 2 0.06
ACGTcount: A:0.51, C:0.22, G:0.10, T:0.17
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTCCACG
Found at i:15752082 original size:22 final size:22
Alignment explanation
Indices: 15752040--15752085 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
15752030 CCAGCGGACT
* *
15752040 ATCAAAACAATTTCCAGAACAA
1 ATCAAAACAATATCCAAAACAA
15752062 ATCAAGAACAATAT-CAAAACAA
1 ATCAA-AACAATATCCAAAACAA
15752084 AT
1 AT
15752086 GCAACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (22 bp):
ATCAAAACAATATCCAAAACAA
Found at i:15765089 original size:26 final size:26
Alignment explanation
Indices: 15765034--15765090 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
15765024 ATATATCATG
** *
15765034 TTTATTTTTTGAATTTAATTTAATTT
1 TTTATTTTTTGAAAATAATCTAATTT
*
15765060 TTTATTTTTT-AAAATAATCTATTTT
1 TTTATTTTTTGAAAATAATCTAATTT
15765085 ATTTAT
1 -TTTAT
15765091 AAAATTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTATTTTTTGAAAATAATCTAATTT
Found at i:15765151 original size:20 final size:20
Alignment explanation
Indices: 15765136--15765180 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
15765126 AATTTTAAAT
15765136 ATTTTATAATTTTTTTATAA
1 ATTTTATAATTTTTTTATAA
* *
15765156 ATTTTATGATTTTTTTGT-A
1 ATTTTATAATTTTTTTATAA
15765175 ATTTTA
1 ATTTTA
15765181 AGTGTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
ATTTTATAATTTTTTTATAA
Found at i:15769859 original size:9 final size:9
Alignment explanation
Indices: 15769845--15769908 Score: 94
Period size: 9 Copynumber: 7.2 Consensus size: 9
15769835 TTGGGTAATT
15769845 TTCGGGTAA
1 TTCGGGTAA
15769854 TTCGGGTAA
1 TTCGGGTAA
*
15769863 TTCGGTTAA
1 TTCGGGTAA
*
15769872 TTCGGTTAA
1 TTCGGGTAA
*
15769881 TTCGGTTAA
1 TTCGGGTAA
15769890 -TCGGGTAA
1 TTCGGGTAA
15769898 TTCGGGTAA
1 TTCGGGTAA
15769907 TT
1 TT
15769909 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
8 7 0.13
9 45 0.87
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:15782908 original size:23 final size:22
Alignment explanation
Indices: 15782880--15782925 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
15782870 TTATAATAAA
15782880 ATACATGTGTAATAAATATATAT
1 ATACATGTGTAAT-AATATATAT
* *
15782903 ATACATTTGTAATAATATGTAT
1 ATACATGTGTAATAATATATAT
15782925 A
1 A
15782926 ATTTACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (22 bp):
ATACATGTGTAATAATATATAT
Found at i:15790304 original size:44 final size:44
Alignment explanation
Indices: 15790256--15790489 Score: 212
Period size: 44 Copynumber: 5.5 Consensus size: 44
15790246 CGTTCCACTG
* * *
15790256 CAACTTCAGGGAGATAGGATTGGTCGCTTCAATCTGCTCGACTA
1 CAACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTA
* * * * * ** *
15790300 CAACTTCAGGGAGATAACATT--TGTCAT-GATATGCTTTACTG
1 CAACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTA
* * *
15790341 CAACTTCAGAGAGATAAGATTGGTGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTA
* *
15790385 CAACTTTAGGGAGATAAGATTTGTGGCTTCAATCTGCT-AATCTA
1 CAACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAA-CTA
* * * * *
15790429 CAACTTCAGGGAGATAAGATT--TGCCAT-GATCTGCTCTACTG
1 CAACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTA
*
15790470 CAACTTCAGAGAGATAAGAT
1 CAACTTCAGGGAGATAAGAT
15790490 ATGTGATTTG
Statistics
Matches: 155, Mismatches: 30, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
41 56 0.36
42 8 0.05
43 5 0.03
44 86 0.55
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTA
Found at i:15790362 original size:85 final size:85
Alignment explanation
Indices: 15790252--15790408 Score: 251
Period size: 85 Copynumber: 1.8 Consensus size: 85
15790242 AATTCGTTCC
* * *
15790252 ACTGCAACTTCAGGGAGATAGGATTGGTCGCTTCAATCTGCTCGACTACAACTTCAGGGAGATAA
1 ACTGCAACTTCAGAGAGATAAGATTGGTCGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAA
15790317 CATTTGTCATGATATGCTTT
66 CATTTGTCATGATATGCTTT
* * *
15790337 ACTGCAACTTCAGAGAGATAAGATTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
1 ACTGCAACTTCAGAGAGATAAGATTGGTCGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAA
*
15790402 GATTTGT
66 CATTTGT
15790409 GGCTTCAATC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (85 bp):
ACTGCAACTTCAGAGAGATAAGATTGGTCGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAA
CATTTGTCATGATATGCTTT
Found at i:15790437 original size:129 final size:129
Alignment explanation
Indices: 15790249--15790489 Score: 385
Period size: 129 Copynumber: 1.9 Consensus size: 129
15790239 TTTAATTCGT
* *
15790249 TCCACTGCAACTTCAGGGAGATAGGATTGGTCGCTTCAATCTGCTCGACTACAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTCGCTTCAATCTGCTCAACTACAACTTCAGGGAGA
* *
15790314 TAACATTTGTCATGATATGCTTTACTGCAACTTCAGAGAGATAAGATTGGTGGCTTCAATCTGC
66 TAACATTTGCCATGATATGCTCTACTGCAACTTCAGAGAGATAAGATTGGTGGCTTCAATCTGC
* * *
15790378 TCCACTGCAACTTTAGGGAGATAAGATTTGTGGCTTCAATCTGCT-AATCTACAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTCGCTTCAATCTGCTCAA-CTACAACTTCAGGGAG
* *
15790442 ATAAGATTTGCCATGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
65 ATAACATTTGCCATGATATGCTCTACTGCAACTTCAGAGAGATAAGAT
15790490 ATGTGATTTG
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
128 1 0.01
129 101 0.99
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (129 bp):
TCCACTGCAACTTCAGGGAGATAAGATTGGTCGCTTCAATCTGCTCAACTACAACTTCAGGGAGA
TAACATTTGCCATGATATGCTCTACTGCAACTTCAGAGAGATAAGATTGGTGGCTTCAATCTGC
Found at i:15805166 original size:23 final size:23
Alignment explanation
Indices: 15805135--15805185 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
15805125 ACCTACTTTC
* *
15805135 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
15805158 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
15805181 TTACA
1 TTACA
15805186 ATGATATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:15805661 original size:2 final size:2
Alignment explanation
Indices: 15805656--15805692 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
15805646 AAAAAACAGG
* *
15805656 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15805693 ATTATAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15805988 original size:2 final size:2
Alignment explanation
Indices: 15805981--15806014 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15805971 TGAAGTCTAA
15805981 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15806015 TAATTTGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15806970 original size:12 final size:13
Alignment explanation
Indices: 15806950--15806980 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15806940 GGGTTTCTGT
*
15806950 TTGGGGTTTGTTA
1 TTGGGTTTTGTTA
15806963 TTGGGTTTTGTTA
1 TTGGGTTTTGTTA
15806976 TTGGG
1 TTGGG
15806981 CTTGGGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.39, T:0.55
Consensus pattern (13 bp):
TTGGGTTTTGTTA
Found at i:15808232 original size:29 final size:30
Alignment explanation
Indices: 15808198--15808266 Score: 115
Period size: 28 Copynumber: 2.4 Consensus size: 30
15808188 ATATGCATTT
15808198 AATAATTTTAATAATTTTATATTTC-AAAA
1 AATAATTTTAATAATTTTATATTTCAAAAA
*
15808227 AATAA-TATAATAATTTTATATTTCAAAAA
1 AATAATTTTAATAATTTTATATTTCAAAAA
15808256 AATAATTTTAA
1 AATAATTTTAA
15808267 AATCATTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 18 0.50
29 14 0.39
30 4 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (30 bp):
AATAATTTTAATAATTTTATATTTCAAAAA
Found at i:15841104 original size:2 final size:2
Alignment explanation
Indices: 15841097--15841123 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15841087 TTATAAATGT
15841097 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15841124 TCAAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15841276 original size:27 final size:27
Alignment explanation
Indices: 15841246--15841319 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
15841236 AAACAAATTA
15841246 AAAATACATAAAGTTTATAAAAGAAAT
1 AAAATACATAAAGTTTATAAAAGAAAT
* ** *
15841273 AAAATATATAAAAATTAT-AAAGTAAT
1 AAAATACATAAAGTTTATAAAAGAAAT
* *
15841299 AAAAAACTTGAAAGTTT-TAAA
1 AAAATACAT-AAAGTTTATAAA
15841320 GATTTCAAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
26 14 0.39
27 22 0.61
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATACATAAAGTTTATAAAAGAAAT
Found at i:15843172 original size:15 final size:15
Alignment explanation
Indices: 15843152--15843183 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
15843142 AATTAAAAAA
15843152 TTTAAATAAATTATT
1 TTTAAATAAATTATT
15843167 TTTAAATAAATTATT
1 TTTAAATAAATTATT
15843182 TT
1 TT
15843184 ATGAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAAATAAATTATT
Done.