Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 159 of 190
Found at i:25834877 original size:12 final size:12
Alignment explanation
Indices: 25834862--25834903 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
25834852 ATAAATATCA
25834862 AATTAAATAAAT
1 AATTAAATAAAT
25834874 AATTAAA-AATAT
1 AATTAAATAA-AT
* *
25834886 AATTTAATATAT
1 AATTAAATAAAT
25834898 AATTAA
1 AATTAA
25834904 GGCAAGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 2 0.08
12 22 0.88
13 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTAAATAAAT
Found at i:25835269 original size:16 final size:16
Alignment explanation
Indices: 25835206--25835280 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 16
25835196 TTCAAAAAAT
*
25835206 AAAAAATTAAATAAAGA
1 AAAAAAATAAA-AAAGA
25835223 AAAAATAA-AAGGAAAAGA
1 AAAAA-AATAA--AAAAGA
**
25835241 TAAAAAAGCAAAAAAGA
1 -AAAAAAATAAAAAAGA
25835258 AAAAAAAT-AAAAAGA
1 AAAAAAATAAAAAAGA
*
25835273 AAGAAAAT
1 AAAAAAAT
25835281 TGAAATGCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 14 0.29
16 6 0.12
17 13 0.27
18 7 0.15
19 8 0.17
ACGTcount: A:0.79, C:0.01, G:0.11, T:0.09
Consensus pattern (16 bp):
AAAAAAATAAAAAAGA
Found at i:25839099 original size:2 final size:2
Alignment explanation
Indices: 25839065--25839090 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25839055 TTCCTTGATG
25839065 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
25839091 TCCTATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25841518 original size:12 final size:12
Alignment explanation
Indices: 25841485--25841542 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
25841475 AAAATAATAA
* *
25841485 ATTTTGATATAT
1 ATTTTAATAAAT
25841497 ATTTTAAATAAAT
1 ATTTT-AATAAAT
*
25841510 ATTTTAATAAAA
1 ATTTTAATAAAT
*
25841522 ATATTAATAAA-
1 ATTTTAATAAAT
*
25841533 ATTTTTATAA
1 ATTTTAATAA
25841543 TTAAATAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
11 8 0.21
12 21 0.54
13 10 0.26
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
ATTTTAATAAAT
Found at i:25841631 original size:22 final size:22
Alignment explanation
Indices: 25841601--25841646 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
25841591 TTTCTATATA
*
25841601 TTATTAATTTTTAAATTAAAAT
1 TTATCAATTTTTAAATTAAAAT
*
25841623 TTATCAATTTTTAATTTAAAAT
1 TTATCAATTTTTAAATTAAAAT
25841645 TT
1 TT
25841647 TTATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATCAATTTTTAAATTAAAAT
Found at i:25842488 original size:3 final size:3
Alignment explanation
Indices: 25842480--25842516 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
25842470 TATGATTTTG
25842480 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
25842517 ATAAGAGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25847465 original size:22 final size:22
Alignment explanation
Indices: 25847437--25847487 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
25847427 GGGCCGGACT
25847437 TATATTTGGTATTAATAACTTA
1 TATATTTGGTATTAATAACTTA
25847459 TATATTTGGTATTAATAACTTA
1 TATATTTGGTATTAATAACTTA
25847481 TATATTT
1 TATATTT
25847488 TTTCAAGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (22 bp):
TATATTTGGTATTAATAACTTA
Found at i:25851932 original size:3 final size:3
Alignment explanation
Indices: 25851926--25852000 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
25851916 AATAATAATA
* * * * *
25851926 ATG ATG ATG ATG ATG ATG ACG ATG ATG ATG TTG CTG CTG CTG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
* * *
25851974 ATG TTG CTG CTG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
25852001 TATGTAACTG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.24, C:0.08, G:0.33, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:25851950 original size:21 final size:21
Alignment explanation
Indices: 25851926--25852000 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
25851916 AATAATAATA
* *
25851926 ATGATGATGATGATGATGACG
1 ATGATGATGATGCTGCTGACG
*
25851947 ATGATGATGTTGCTGCTG-CTG
1 ATGATGATGATGCTGCTGAC-G
* *
25851968 ATGATGATGTTGCTGCTGATG
1 ATGATGATGATGCTGCTGACG
25851989 ATGATGATGATG
1 ATGATGATGATG
25852001 TATGTAACTG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 1 0.02
21 46 0.98
ACGTcount: A:0.24, C:0.08, G:0.33, T:0.35
Consensus pattern (21 bp):
ATGATGATGATGCTGCTGACG
Found at i:25855775 original size:8 final size:9
Alignment explanation
Indices: 25855753--25855781 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
25855743 TTTATAAAGA
25855753 AAATTTATG
1 AAATTTATG
25855762 AAATTTAT-
1 AAATTTATG
25855770 AAATTTATG
1 AAATTTATG
25855779 AAA
1 AAA
25855782 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (9 bp):
AAATTTATG
Found at i:25858446 original size:20 final size:20
Alignment explanation
Indices: 25858416--25858466 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
25858406 ATATAATTAT
*
25858416 ATATTTATATT-TAAAAAATA
1 ATATTTTTATTAT-AAAAATA
*
25858436 TTATTTTTATTATAAAAATA
1 ATATTTTTATTATAAAAATA
25858456 ATA-TTTTATTA
1 ATATTTTTATTA
25858467 ATTTCAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.30
20 18 0.67
21 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTTTTATTATAAAAATA
Found at i:25858712 original size:18 final size:18
Alignment explanation
Indices: 25858689--25858733 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
25858679 TATGGATAGA
* *
25858689 GCCAAGCCTTGTCACCAG
1 GCCAAGCCCTGTCAACAG
25858707 GCCAAGCCCTGTCAACAG
1 GCCAAGCCCTGTCAACAG
25858725 GCCAAGCCC
1 GCCAAGCCC
25858734 AGATCAGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.42, G:0.22, T:0.11
Consensus pattern (18 bp):
GCCAAGCCCTGTCAACAG
Found at i:25864143 original size:2 final size:2
Alignment explanation
Indices: 25864125--25864169 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
25864115 CCTTGGTACA
* * * *
25864125 AT AT AT TT AT AT TT AT AT AT AC AT AC 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 AT AT AT AT
25864167 AT A
1 AT A
25864170 GGAAGTAGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25872437 original size:6 final size:7
Alignment explanation
Indices: 25872419--25872445 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25872409 CTTTAGGTGA
25872419 TAAAAAT
1 TAAAAAT
25872426 TAAAAAT
1 TAAAAAT
25872433 TAAAAAT
1 TAAAAAT
25872440 TAAAAA
1 TAAAAA
25872446 AATGTGCCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAAAAT
Found at i:25873495 original size:59 final size:58
Alignment explanation
Indices: 25873424--25873553 Score: 136
Period size: 59 Copynumber: 2.2 Consensus size: 58
25873414 TGATCTCTTT
** * * *
25873424 AAAATAAAAAATTGAAAAAAAATATTTTTGAAGGAACGTTGAATGTATCAATTTTCTTTG
1 AAAAT-AAAAATTTTAAAAAAATATTTTT-AAGGAAAGTTGAAAGTATCAATTTTCCTTG
* * *
25873484 AACATAAAAATTTTTTAAAAAA-ATTTTTAAGAGAAAGTTGAAAGTATTAATTTTCCTTG
1 AAAATAAAAA-TTTTAAAAAAATATTTTTAAG-GAAAGTTGAAAGTATCAATTTTCCTTG
25873543 AAAATTAAAAA
1 AAAA-TAAAAA
25873554 AAAAAGATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
58 3 0.05
59 37 0.64
60 18 0.31
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (58 bp):
AAAATAAAAATTTTAAAAAAATATTTTTAAGGAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:25873592 original size:126 final size:125
Alignment explanation
Indices: 25873447--25873678 Score: 351
Period size: 126 Copynumber: 1.8 Consensus size: 125
25873437 GAAAAAAAAT
* * * * *
25873447 ATTTTTGAAGGAACGTTGAATGTATCAATTTTCTTTGAACATAAAAATTTTTTAAAAAA-ATTTT
1 ATTTTTGAAGGAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTTTAAAAAAATATTTT
*
25873511 TAAGAGAAAGTTGAAAGTATTAATTTTCCTTGAAAATTAAAAAAAAAAGATTTCAGGAAGGG
65 TAAGAGAAAGTTGAAAGTATCAATTTTCCTTGAAAA-TAAAAAAAAAAGATTTCAGGAAGGG
25873573 ATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTTAAAAAAATATTTT
1 ATTTTTGAAGG-AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTTAAAAAAATATTTT
* *
25873637 TGAGAGAAAGTTGAAAGTATCAATTTTCGTTGAAAATAAAAA
65 TAAGAGAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAA
25873679 TTTTCAAAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
125 25 0.26
126 71 0.74
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (125 bp):
ATTTTTGAAGGAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTTAAAAAAATATTTTT
AAGAGAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAAAAAAGATTTCAGGAAGGG
Found at i:25873670 original size:59 final size:59
Alignment explanation
Indices: 25873573--25873723 Score: 250
Period size: 59 Copynumber: 2.6 Consensus size: 59
25873563 TCAGGAAGGG
*
25873573 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTTAAAAAAAT
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTTAAAAAAAT
* * *
25873632 ATTTTTGA-GAGAAAGTTGAAAGTATCAATTTTCGTTGAAAATAAAAATTTTCAAAAAAT
1 ATTTTTAAGGA-AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTTAAAAAAAT
25873691 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTC
25873724 ATTGTATAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
58 2 0.02
59 81 0.95
60 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (59 bp):
ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTTAAAAAAAT
Found at i:25874830 original size:23 final size:23
Alignment explanation
Indices: 25874798--25874853 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
25874788 TTTTCATATT
25874798 ATCA-TATCATTTCATTCCATGC
1 ATCATTATCATTTCATTCCATGC
*
25874820 ATCATTATCATTTCATTCTATGC
1 ATCATTATCATTTCATTCCATGC
*
25874843 ATCATTTTCAT
1 ATCATTATCAT
25874854 GCTTATGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.27, C:0.23, G:0.04, T:0.46
Consensus pattern (23 bp):
ATCATTATCATTTCATTCCATGC
Found at i:25877606 original size:22 final size:22
Alignment explanation
Indices: 25877581--25877648 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 22
25877571 ATAATGGGTC
25877581 AAATATGAGAAAAAAAGAAAAA
1 AAATATGAGAAAAAAAGAAAAA
*
25877603 AAATGATG-G-AAAAATGAAAAA
1 AAAT-ATGAGAAAAAAAGAAAAA
25877624 AGGAA-A-GA-AAAAAAATGAAAAA
1 A--AATATGAGAAAAAAA-GAAAAA
25877646 AAA
1 AAA
25877649 GAAAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
20 3 0.08
21 18 0.47
22 12 0.32
23 5 0.13
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (22 bp):
AAATATGAGAAAAAAAGAAAAA
Found at i:25877638 original size:14 final size:13
Alignment explanation
Indices: 25877590--25877663 Score: 55
Period size: 14 Copynumber: 5.6 Consensus size: 13
25877580 CAAATATGAG
25877590 AAAAAAA-GAAAA
1 AAAAAAAGGAAAA
* *
25877602 AAAATGATGGAAAA
1 AAAA-AAAGGAAAA
25877616 ATGAAAAAAGGAAAGA
1 A--AAAAAAGGAAA-A
*
25877632 AAAAAAATGAAAA
1 AAAAAAAGGAAAA
*
25877645 AAAAGAA--AAAA
1 AAAAAAAGGAAAA
25877656 AAAAAAAG
1 AAAAAAAG
25877664 ACTCAAATTG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
11 10 0.20
12 4 0.08
13 8 0.16
14 16 0.33
15 6 0.12
16 5 0.10
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (13 bp):
AAAAAAAGGAAAA
Found at i:25877638 original size:23 final size:23
Alignment explanation
Indices: 25877612--25877661 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
25877602 AAAATGATGG
* *
25877612 AAAAATG-AAAAAAGGAAAGAAA
1 AAAAATGAAAAAAAAGAAAAAAA
25877634 AAAAATGAAAAAAAAGAAAAAAA
1 AAAAATGAAAAAAAAGAAAAAAA
25877657 AAAAA
1 AAAAA
25877662 AGACTCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (23 bp):
AAAAATGAAAAAAAAGAAAAAAA
Found at i:25877643 original size:29 final size:29
Alignment explanation
Indices: 25877589--25877662 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
25877579 TCAAATATGA
**
25877589 GAAAAAAAGAAAAAAAATGATGGAAAAAT
1 GAAAAAAAGAAAAAAAAAAATGGAAAAAT
* * *
25877618 GAAAAAAGGAAAGAAAAAAAATGAAAAAAAA
1 GAAAAAAAGAAA-AAAAAAAATG-GAAAAAT
25877649 GAAAAAAA-AAAAAA
1 GAAAAAAAGAAAAAA
25877663 GACTCAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
29 14 0.38
30 11 0.30
31 12 0.32
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (29 bp):
GAAAAAAAGAAAAAAAAAAATGGAAAAAT
Found at i:25877664 original size:33 final size:32
Alignment explanation
Indices: 25877590--25877660 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
25877580 CAAATATGAG
* *
25877590 AAAAAAAGAAAAAAAATGATGGAAAAATGAAAA
1 AAAAAAAGAAAAAAAATGA-GAAAAAAAGAAAA
**
25877623 AAGGAAAGAAAAAAAATGA-AAAAAAAGAAAA
1 AAAAAAAGAAAAAAAATGAGAAAAAAAGAAAA
25877654 AAAAAAA
1 AAAAAAA
25877661 AAGACTCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 15 0.47
33 17 0.53
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (32 bp):
AAAAAAAGAAAAAAAATGAGAAAAAAAGAAAA
Found at i:25878973 original size:25 final size:24
Alignment explanation
Indices: 25878921--25879146 Score: 108
Period size: 21 Copynumber: 9.9 Consensus size: 24
25878911 ATTGTGAGCC
*
25878921 CTCAAATGAGAATCTTTAAG---T
1 CTCAAATGAAAATCTTTAAGAATT
*
25878942 CTTAAATGAAAATCTTTAAGAAATT
1 CTCAAATGAAAATCTTTAAG-AATT
*
25878967 CTCAAATAAAAATCTTTAAG---T
1 CTCAAATGAAAATCTTTAAGAATT
* * *
25878988 CAT-AAATGAGAATATTTAAGAAAT
1 C-TCAAATGAAAATCTTTAAGAATT
*
25879012 CTTCAAAT-AAGAATCTTT--G-AGT
1 C-TCAAATGAA-AATCTTTAAGAATT
* *
25879034 CTTAAATGAAAATTTTTAAGATATT
1 CTCAAATGAAAATCTTTAAGA-ATT
* * *
25879059 TTTAAATGAAAATCTTT--GAGTT
1 CTCAAATGAAAATCTTTAAGAATT
* * *
25879081 AT-AAATGAGAATCTTTAAGAAATC
1 CTCAAATGAAAATCTTTAAG-AATT
* *
25879105 CTCAAATGAGAATCTTT--G-AGT
1 CTCAAATGAAAATCTTTAAGAATT
* *
25879126 CTTAAATGAGAATCTTTAAGA
1 CTCAAATGAAAATCTTTAAGA
25879147 CGTTTTCAAA
Statistics
Matches: 158, Mismatches: 25, Indels: 41
0.71 0.11 0.18
Matches are distributed among these distances:
21 75 0.47
22 9 0.06
23 7 0.04
24 7 0.04
25 60 0.38
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.35
Consensus pattern (24 bp):
CTCAAATGAAAATCTTTAAGAATT
Found at i:25878973 original size:46 final size:46
Alignment explanation
Indices: 25878921--25879259 Score: 353
Period size: 46 Copynumber: 7.4 Consensus size: 46
25878911 ATTGTGAGCC
*
25878921 CTCAAATGAGAATCTTTAAGTCTTAAATGAAAATCTTTAAGAAATT
1 CTCAAATGAGAATCTTTAAGTCTTAAATGAGAATCTTTAAGAAATT
* * * *
25878967 CTCAAATAAAAATCTTTAAGTCATAAATGAGAATATTTAAGAAA-T
1 CTCAAATGAGAATCTTTAAGTCTTAAATGAGAATCTTTAAGAAATT
* * * * *
25879012 CTTCAAATAAGAATCTTTGAGTCTTAAATGAAAATTTTTAAGATATT
1 C-TCAAATGAGAATCTTTAAGTCTTAAATGAGAATCTTTAAGAAATT
* * * * *
25879059 TTTAAATGAAAATCTTTGAGT-TATAAATGAGAATCTTTAAGAAATC
1 CTCAAATGAGAATCTTTAAGTCT-TAAATGAGAATCTTTAAGAAATT
* **
25879105 CTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACGTT
1 CTCAAATGAGAATCTTTAAGTCTTAAATGAGAATCTTTAAGAAATT
* * * * **
25879151 TTCAAAAGAGAACCTTTGAA-TCTAAAATGAGAATCTTTAAGATGTT
1 CTCAAATGAGAATCTTT-AAGTCTTAAATGAGAATCTTTAAGAAATT
* * * * *
25879197 TTAAAATGAGAACCTTGAAGTCTTAAATGATAATCTTTAAGATAATT
1 CTCAAATGAGAATCTTTAAGTCTTAAATGAGAATCTTTAAGA-AATT
25879244 -TCAAATGAGAATCTTT
1 CTCAAATGAGAATCTTT
25879260 GAGTTTTGAG
Statistics
Matches: 245, Mismatches: 41, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
45 5 0.02
46 235 0.96
47 5 0.02
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (46 bp):
CTCAAATGAGAATCTTTAAGTCTTAAATGAGAATCTTTAAGAAATT
Found at i:25879179 original size:138 final size:137
Alignment explanation
Indices: 25878924--25879263 Score: 416
Period size: 138 Copynumber: 2.5 Consensus size: 137
25878914 GTGAGCCCTC
* * * *
25878924 AAATGAGAATCTTTAAGTCTTAAATGAAAATCTTTAAGAAATTCTCAAATAAAAATCTTTAAGTC
1 AAATGAGAATCTTTGAGTCTTAAATGAAAATCTTTAAGAAA-TCTCAAATGAGAATCTTTGAGTC
* * * *
25878989 ATAAATGAGAATATTTAAGAAATCTTCAAATAAGAATCTTTGAGTCTTAAATGAAAATTTTTAAG
65 ATAAATGAGAATATTTAAGAAATCTTCAAATAAGAACCTTTGAATCTAAAATGAAAATCTTTAAG
*
25879054 ATATTTTT
130 ATATTTTA
* *
25879062 AAATGAAAATCTTTGAGT-TATAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGT
1 AAATGAGAATCTTTGAGTCT-TAAATGAAAATCTTTAAGAAAT-CTCAAATGAGAATCTTTGAGT
* * ** * *
25879126 CTTAAATGAGAATCTTTAAGACGTTTTCAAA-AGAGAACCTTTGAATCTAAAATGAGAATCTTTA
64 CATAAATGAGAATATTTAAGAAATCTTCAAATA-AGAACCTTTGAATCTAAAATGAAAATCTTTA
*
25879190 AGATGTTTTA
128 AGATATTTTA
* * *
25879200 AAATGAGAA-CCTTGAAGTCTTAAATGATAATCTTTAAGATAATTTCAAATGAGAATCTTTGAGT
1 AAATGAGAATCTTTG-AGTCTTAAATGAAAATCTTTAAGA-AATCTCAAATGAGAATCTTTGAGT
25879264 TTTGAGTTTC
Statistics
Matches: 174, Mismatches: 22, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
137 7 0.04
138 163 0.94
139 4 0.02
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.35
Consensus pattern (137 bp):
AAATGAGAATCTTTGAGTCTTAAATGAAAATCTTTAAGAAATCTCAAATGAGAATCTTTGAGTCA
TAAATGAGAATATTTAAGAAATCTTCAAATAAGAACCTTTGAATCTAAAATGAAAATCTTTAAGA
TATTTTA
Found at i:25879458 original size:42 final size:44
Alignment explanation
Indices: 25879403--25879486 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
25879393 TCAACTTTTG
* *
25879403 GATGCGAATCTCTAA-ATTT-TTGAGTGAGAACCTTTGAACTTA
1 GATGCGAAACTCTAATATTTCTTGAATGAGAACCTTTGAACTTA
* * *
25879445 GATGTGAAACTCTAATATTTCTTGAATGTGAACTTTTGAACT
1 GATGCGAAACTCTAATATTTCTTGAATGAGAACCTTTGAACT
25879487 CGAATAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 13 0.37
43 4 0.11
44 18 0.51
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (44 bp):
GATGCGAAACTCTAATATTTCTTGAATGAGAACCTTTGAACTTA
Found at i:25879556 original size:21 final size:20
Alignment explanation
Indices: 25879517--25879564 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
25879507 TTTGGATATG
* * *
25879517 AATCTCTAAAATTTGAATGAC
1 AATCTTTAAAAGTTAAATG-C
25879538 AATCTTTAAAAGTTAAATGC
1 AATCTTTAAAAGTTAAATGC
25879558 AAGTCTT
1 AA-TCTT
25879565 GCAATTTGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (20 bp):
AATCTTTAAAAGTTAAATGC
Found at i:25879829 original size:41 final size:41
Alignment explanation
Indices: 25879772--25879859 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
25879762 CATGATTGTC
* * ** *
25879772 GAGGAGCATTTTATTTTTTAAAATTGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTATTTTTCAAAATTGTGGAACCTCTATTTA
*
25879813 GAGGAGCAATTTATTTTTCAAAGTTGTGGAACCTCTATTTA
1 GAGGAGCAATTTATTTTTCAAAATTGTGGAACCTCTATTTA
25879854 GAGGAG
1 GAGGAG
25879860 TTTTGTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (41 bp):
GAGGAGCAATTTATTTTTCAAAATTGTGGAACCTCTATTTA
Found at i:25881327 original size:121 final size:116
Alignment explanation
Indices: 25881122--25881399 Score: 335
Period size: 121 Copynumber: 2.3 Consensus size: 116
25881112 AAAATTTGAA
* * * ** *
25881122 AAAAAAATATTTTTAAGGGAAAGTTGAAAGTATTAATTTCTCTTAAAAATAAAAATTTTTGAAAA
1 AAAAAAATATTTTTAA-GGAAAGTTGAAAGTATCAATTTCCCTTAAAAAAAAAAAAATTTCAAAA
* *
25881187 ATATTTTTAAGAAAAAGTTGAAAGTATCAA-TTTTCATTGAAAATAAAATTTTC
65 AGATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAAA-TTTC
*
25881240 AAAAAAATATTTTTGAGAGAAAGTTGAAAG-ATCAATTTCCCTTGAAAATAAAAAAAAATTTCAA
1 AAAAAAATATTTTTAAG-GAAAGTTGAAAGTATCAATTTCCCTT-AAAA-AAAAAAAAATTTCAA
* * * *
25881304 GAAGGGATTTTTAAGGAAAAGTTGAAATTATCAATTTTTCTTAAAAATAAAATTTG
63 -AA-AGATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
25881360 AAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTT
1 AA-AAAAATATTTTTAAGG-AAAGTTGAAAGTATCAATTT
25881400 TTTTCATATA
Statistics
Matches: 137, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
117 12 0.09
118 31 0.23
119 11 0.08
120 8 0.06
121 62 0.45
122 13 0.09
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (116 bp):
AAAAAAATATTTTTAAGGAAAGTTGAAAGTATCAATTTCCCTTAAAAAAAAAAAAATTTCAAAAA
GATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
Found at i:25881400 original size:59 final size:59
Alignment explanation
Indices: 25881101--25881401 Score: 290
Period size: 59 Copynumber: 5.0 Consensus size: 59
25881091 TTTAATGATC
* * * * * *
25881101 TCTTTAAAATGAAAATTTGAAAAAAAAATATTTTTAAGGGAAAGTTGAAAGTATTAATTTC
1 TCTTAAAAAT-AAAATTT-CAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
** *
25881162 TCTTAAAAATAAAAATTT-TTGAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAA-TTT
1 TCTTAAAAAT-AAAATTTCAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
* * *
25881220 TCATTGAAAATAAAATTTTCAA-AAAAATATTTTTGA-GAGAAAGTTGAAAG-ATCAATTTC
1 TC-TTAAAAATAAAA-TTTCAAGAAAAATATTTTTAAGGA-AAAGTTGAAAGTATCAATTTT
* * *** *
25881279 CCTTGAAAATAAAAAAAAATTTCAAG-AAGGGATTTTTAAGGAAAAGTTGAAATTATCAATTTT
1 TCTT----A-AAAATAAAATTTCAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
*
25881342 TCTTAAAAATAAAATTTGAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
1 TCTTAAAAATAAAATTTCAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
25881401 T
1 T
25881402 TTCATATAAA
Statistics
Matches: 195, Mismatches: 31, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
58 30 0.15
59 103 0.53
61 16 0.08
62 25 0.13
63 21 0.11
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (59 bp):
TCTTAAAAATAAAATTTCAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
Found at i:25884720 original size:30 final size:30
Alignment explanation
Indices: 25884684--25884797 Score: 131
Period size: 30 Copynumber: 3.8 Consensus size: 30
25884674 CCGTCAAACC
*
25884684 CTAAACCTTGAACTAACCTTATACACTAAA
1 CTAAACCTTGAACTAACCTTAAACACTAAA
*
25884714 CTAAACCCTGAACTAACCTTAAACACTAAA
1 CTAAACCTTGAACTAACCTTAAACACTAAA
* * *
25884744 CTAAATCC-TAAATCGAACCTTAAACCCTAAA
1 CTAAA-CCTTGAA-CTAACCTTAAACACTAAA
* * *
25884775 CTAAACCTTTAACCAAACTTAAA
1 CTAAACCTTGAACTAACCTTAAA
25884798 GCTTCCAACC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
30 47 0.64
31 26 0.36
ACGTcount: A:0.46, C:0.28, G:0.03, T:0.24
Consensus pattern (30 bp):
CTAAACCTTGAACTAACCTTAAACACTAAA
Found at i:25884828 original size:26 final size:25
Alignment explanation
Indices: 25884794--25884858 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
25884784 TAACCAAACT
* * *
25884794 TAAAGCTTCCAACCTGAACTGATCC
1 TAAACCTTCCAACCAGAACTGAGCC
* *
25884819 TAAACCCTTCTAACCAGAACTGAGCT
1 TAAA-CCTTCCAACCAGAACTGAGCC
25884845 TAAACCTT-CAACCA
1 TAAACCTTCCAACCA
25884859 ACCCCAACCA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 5 0.15
25 8 0.24
26 20 0.61
ACGTcount: A:0.35, C:0.32, G:0.09, T:0.23
Consensus pattern (25 bp):
TAAACCTTCCAACCAGAACTGAGCC
Found at i:25884918 original size:13 final size:13
Alignment explanation
Indices: 25884885--25884920 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
25884875 CAACCTTAAC
*
25884885 CCTAAACAAAAAA
1 CCTAAACCAAAAA
*
25884898 CCTAAACCATAAA
1 CCTAAACCAAAAA
25884911 CCTAAACCAA
1 CCTAAACCAA
25884921 CCCCTTAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.58, C:0.31, G:0.00, T:0.11
Consensus pattern (13 bp):
CCTAAACCAAAAA
Found at i:25885128 original size:26 final size:26
Alignment explanation
Indices: 25885099--25885158 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
25885089 CATTCTAAAA
*
25885099 TTGTCATTACTTTCATGCATTTATAT
1 TTGTCATTACATTCATGCATTTATAT
*
25885125 TTGTCATTGCATTCATGCATTTATAT
1 TTGTCATTACATTCATGCATTTATAT
25885151 TTGTCATT
1 TTGTCATT
25885159 TTCTCTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.22, C:0.15, G:0.10, T:0.53
Consensus pattern (26 bp):
TTGTCATTACATTCATGCATTTATAT
Found at i:25885529 original size:29 final size:29
Alignment explanation
Indices: 25885492--25885548 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
25885482 CAAGAATTCA
25885492 AAAAAATAATAA-TAAAATGATTTGTTTGT
1 AAAAAATAA-AATTAAAATGATTTGTTTGT
* *
25885521 AAAACATAAAATTTAAAGTGATTTGTTT
1 AAAAAATAAAA-TTAAAATGATTTGTTT
25885549 CAACAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 8 0.33
30 14 0.58
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.39
Consensus pattern (29 bp):
AAAAAATAAAATTAAAATGATTTGTTTGT
Found at i:25886568 original size:19 final size:16
Alignment explanation
Indices: 25886532--25886565 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
25886522 ATAAATAAAT
25886532 AAAAAGAGAAAAAAAG
1 AAAAAGAGAAAAAAAG
*
25886548 AAAAAGA-AGAAAAAG
1 AAAAAGAGAAAAAAAG
25886563 AAA
1 AAA
25886566 GAAGGAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAGAGAAAAAAAG
Found at i:25891535 original size:16 final size:16
Alignment explanation
Indices: 25891496--25891538 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
25891486 TAAAACCAAC
* * *
25891496 AAAGAAAGATAAAGCA
1 AAAGAAATAAAAAACA
25891512 AAAGAAATAAAAAACA
1 AAAGAAATAAAAAACA
25891528 AAAGAAATAAA
1 AAAGAAATAAA
25891539 GAAGAGAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.77, C:0.05, G:0.12, T:0.07
Consensus pattern (16 bp):
AAAGAAATAAAAAACA
Found at i:25895454 original size:4 final size:4
Alignment explanation
Indices: 25895447--25895472 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
25895437 TATGTTTTTT
25895447 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
25895473 TTATTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:25908075 original size:10 final size:11
Alignment explanation
Indices: 25908049--25908075 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25908039 CTTGCGGAGC
25908049 ATTTTTCTTAT
1 ATTTTTCTTAT
25908060 ATTTTTCTTAT
1 ATTTTTCTTAT
25908071 ATTTT
1 ATTTT
25908076 AATAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTTTTCTTAT
Found at i:25908172 original size:45 final size:44
Alignment explanation
Indices: 25908085--25908202 Score: 105
Period size: 44 Copynumber: 2.5 Consensus size: 44
25908075 TAATAATTAT
*
25908085 TTAATTATTATAAAAATTATAAAAATTTTTATCACTTATAAATA
1 TTAATTATTATAAAAATTATAAAAATTTTTATCAATTATAAATA
* * *
25908129 TTAATT-TTATATAAAATTTTAATGAA-TTTTATACAATTTTAAATTATAA
1 TTAATTATTATA-AAAATTATAA-AAATTTTTAT-CAATTAT-AA--AT-A
25908178 TTAATTATTATATAATAATTATAAA
1 TTAATTATTATA-AA-AATTATAAA
25908203 TAATATACTC
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
43 5 0.08
44 21 0.36
45 7 0.12
46 2 0.03
48 2 0.03
49 7 0.12
50 8 0.14
51 7 0.12
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (44 bp):
TTAATTATTATAAAAATTATAAAAATTTTTATCAATTATAAATA
Found at i:25910012 original size:17 final size:17
Alignment explanation
Indices: 25909990--25910028 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
25909980 AAAAACATCT
* *
25909990 TAAATAATTTTAAAAAA
1 TAAATAATCTCAAAAAA
25910007 TAAATAATCTCAAAAAA
1 TAAATAATCTCAAAAAA
25910024 TAAAT
1 TAAAT
25910029 GCTAAAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAATAATCTCAAAAAA
Found at i:25910254 original size:62 final size:63
Alignment explanation
Indices: 25910141--25910266 Score: 168
Period size: 62 Copynumber: 2.0 Consensus size: 63
25910131 TAATGAAATG
*
25910141 ATTATTTAAGACGTTTTTAGTTAAAAATATCTTAAATAATACAGTCT-AAAAA-ATTAAAAGGT
1 ATTATTTAAGACGTTTTTAGTCAAAAATATCTTAAATAATACA-TCTAAAAAATATTAAAAGGT
* * *
25910203 ATTATTTAAGGCGTTTTTAGTCAAAAATATTTTAAATAATTC-TCTTAAAAAAATATTAAAAGGT
1 ATTATTTAAGACGTTTTTAGTCAAAAATATCTTAAATAATACATC-T-AAAAAATATTAAAAGGT
25910267 TAGAAGAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
60 2 0.04
61 1 0.02
62 38 0.68
63 5 0.09
64 10 0.18
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (63 bp):
ATTATTTAAGACGTTTTTAGTCAAAAATATCTTAAATAATACATCTAAAAAATATTAAAAGGT
Found at i:25911023 original size:15 final size:15
Alignment explanation
Indices: 25911003--25911034 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25910993 TAAAGGCACC
25911003 ATTTATCATTTGAAT
1 ATTTATCATTTGAAT
*
25911018 ATTTATTATTTGAAT
1 ATTTATCATTTGAAT
25911033 AT
1 AT
25911035 CTATTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (15 bp):
ATTTATCATTTGAAT
Found at i:25911039 original size:15 final size:15
Alignment explanation
Indices: 25911010--25911042 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
25911000 ACCATTTATC
*
25911010 ATTTGAATATTTATT
1 ATTTGAATATCTATT
25911025 ATTTGAATATCTATT
1 ATTTGAATATCTATT
25911040 ATT
1 ATT
25911043 AATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (15 bp):
ATTTGAATATCTATT
Found at i:25915997 original size:36 final size:36
Alignment explanation
Indices: 25915956--25916024 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
25915946 AAAAGACTAT
25915956 TTTACCATTAGTGCAAAGTTTTCGATATTTAGGCCA
1 TTTACCATTAGTGCAAAGTTTTCGATATTTAGGCCA
* * *
25915992 TTTACCCTTAGTGTAAAGTTTTCGGTATTTAGG
1 TTTACCATTAGTGCAAAGTTTTCGATATTTAGG
25916025 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (36 bp):
TTTACCATTAGTGCAAAGTTTTCGATATTTAGGCCA
Found at i:25916338 original size:145 final size:145
Alignment explanation
Indices: 25916068--25916480 Score: 451
Period size: 147 Copynumber: 2.8 Consensus size: 145
25916058 TTTTTAGGAT
* * *
25916068 TTTAAAA--CACCAAAATTCATGAAATATTATAAAATTGAGATATAAAAAGTTTCATGAAAATCT
1 TTTAAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATATAAAAAGTTTCATAAAAATCT
* * * * * * * *
25916131 GAGCTCAAAAAGGTTAAATTACGAAAATATCTTTATAGGGGTATTGTGATAATTTCATACTTTT-
66 GAGCTC-AAAAGATCAAATTACAAAAATA-CTTTATAGGGATATTTTGGTAATTTTACACTTTTC
** *
25916195 T-GGGGTACTACTATGA
129 TCAAGATACTACTATGA
* * * *
25916211 TTTAAAATGCACCAAAAATCGTTAAATATTATGAAATTAAGATCTAAAAAGTTTCATAAAAAT-T
1 TTTAAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATATAAAAAGTTTCATAAAAATCT
*
25916275 CAAGCTCAAGAAGATCAAATTACAAAAATACCTTTATAGGGATATTTTGGTAATTTTACACTTTT
66 -GAGCTCAA-AAGATCAAATTACAAAAATA-CTTTATAGGGATATTTTGGTAATTTTACACTTTT
* *
25916340 CTCAAGATACTATTGTGA
128 CTCAAGATACTACTATGA
* *** * *
25916358 TTTCAAATGCGTAAAAAATCATGAAATATTATTAAATTCAGATATAAAAAGTTTCATAAAAATCT
1 TTTAAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATATAAAAAGTTTCATAAAAATCT
**
25916423 GAGCTCGAAAAGATCAAATTACAAAAATACTCTTATA-AAAGTATTTTGGTAATTTTAC
66 GAGCTC-AAAAGATCAAATTACAAAAATACT-TTATAGGGA-TATTTTGGTAATTTTAC
25916481 CCTTCTTTAG
Statistics
Matches: 226, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
143 7 0.03
144 3 0.01
145 98 0.43
146 4 0.02
147 111 0.49
148 3 0.01
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (145 bp):
TTTAAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATATAAAAAGTTTCATAAAAATCT
GAGCTCAAAAGATCAAATTACAAAAATACTTTATAGGGATATTTTGGTAATTTTACACTTTTCTC
AAGATACTACTATGA
Found at i:25916969 original size:18 final size:19
Alignment explanation
Indices: 25916946--25916986 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
25916936 CAAATGATGC
25916946 TTTTG-ATTTTTTTTTTAA
1 TTTTGAATTTTTTTTTTAA
*
25916964 TTTTGAATTTTTTTTTTGA
1 TTTTGAATTTTTTTTTTAA
25916983 TTTT
1 TTTT
25916987 TTGTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (19 bp):
TTTTGAATTTTTTTTTTAA
Found at i:25916993 original size:19 final size:19
Alignment explanation
Indices: 25916946--25917002 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
25916936 CAAATGATGC
25916946 TTTTGATTTTTTTTTTAATT
1 TTTTG-TTTTTTTTTTAATT
*** *
25916966 TTGAATTTTTTTTTTGATT
1 TTTTGTTTTTTTTTTAATT
*
25916985 TTTTGTTTTTTATTTAAT
1 TTTTGTTTTTTTTTTAAT
25917003 AAACTTGACC
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 26 0.93
20 2 0.07
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (19 bp):
TTTTGTTTTTTTTTTAATT
Found at i:25917300 original size:98 final size:95
Alignment explanation
Indices: 25917132--25917456 Score: 318
Period size: 97 Copynumber: 3.4 Consensus size: 95
25917122 TCTTGCATAG
* ** *
25917132 AGGTCTTAGAAATTATGACCGAAA-GTCTTTGAAATCTTTGAATGCT-CTCTATATCAGAGGCTT
1 AGGTCTTAGAAATTATG-CCCAAAGGTCTTAAAAATCTTTGAATGCTCCT-TATATCAGAGGCAT
*
25917195 TAAAACTTTAAAAATTTAAAACT-TTTTACTCA
64 TGAAACTTTAAAAATTTAAAA-TATTTTACTCA
* *
25917227 ATGGTCTTAGAAATTATATGCCCAAAGGTCTTAAAAATCTTTGAATGCTCCTTGTATCACAGGCA
1 A-GGTCTTAGAAA-T-TATGCCCAAAGGTCTTAAAAATCTTTGAATGCTCCTTATATCAGAGGCA
* *
25917292 TTGAAACTTTAAAAATTTAGAAATAATTTGCTCGA
63 TTGAAACTTTAAAAATTTA-AAATATTTTACTC-A
* * * ** * * ** *
25917327 AGGTCTT-GAAAATCATGCTCAGATTTCATAAAAATCTTCGAATGCTCCCCATATCAGAGGCGTT
1 AGGTCTTAG-AAATTATGCCCAAAGGTCTTAAAAATCTTTGAATGCTCCTTATATCAGAGGCATT
* *
25917391 GAAACTTTAAAATTTTAAAATATTTTACCTGA
65 GAAACTTTAAAAATTTAAAATATTTTA-CTCA
* *
25917423 A-GTCTTAAAAATTATGCCCAGAGGTCTTAAAAAT
1 AGGTCTTAGAAATTATGCCCAAAGGTCTTAAAAAT
25917457 TATGCTCAGA
Statistics
Matches: 188, Mismatches: 31, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
95 27 0.14
96 21 0.11
97 63 0.34
98 55 0.29
99 20 0.11
100 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (95 bp):
AGGTCTTAGAAATTATGCCCAAAGGTCTTAAAAATCTTTGAATGCTCCTTATATCAGAGGCATTG
AAACTTTAAAAATTTAAAATATTTTACTCA
Found at i:25917449 original size:22 final size:22
Alignment explanation
Indices: 25917424--25917478 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
25917414 TTTACCTGAA
25917424 GTCTTAAAAATTATGCCCAGAG
1 GTCTTAAAAATTATGCCCAGAG
*
25917446 GTCTTAAAAATTATGCTCAGAG
1 GTCTTAAAAATTATGCCCAGAG
* *
25917468 ATCTTACAAAT
1 GTCTTAAAAAT
25917479 CTCAAAATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (22 bp):
GTCTTAAAAATTATGCCCAGAG
Found at i:25917547 original size:125 final size:126
Alignment explanation
Indices: 25917357--25917582 Score: 312
Period size: 125 Copynumber: 1.8 Consensus size: 126
25917347 AGATTTCATA
* *
25917357 AAAATCTTCGAATGCTCCCCATATCAGAGGCGTTGAAACTTTAAAATTTTAAAATATTTTACCTG
1 AAAATCTTCGAATGCTCCCCATATCAGAGGCATTGAAACTTTAAAAATTTAAAATATTTTACCTG
*
25917422 AA-GTCTTAAAAATTATGCCCAGAGGTCTTAAAAATTATGCTCAGAGATCTTACAAATCTC
66 AAGGTCTTAAAAATTATGCCCAGAAGTCTTAAAAATTATGCTCAGAGATCTTACAAATCTC
* * * * *
25917482 AAAATCTTTGAATGCTCCTC-TAATTAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGCCT
1 AAAATCTTCGAATGCTCCCCAT-ATCAGAGGCATTGAAACTTTAAAAATTTAAAATATTTTACCT
* * * * *
25917546 GAAGGTTTTAGAGATTATGCCTAGAAGTCTTACAAAT
65 GAAGGTCTTAAAAATTATGCCCAGAAGTCTTAAAAAT
25917583 ATCAAAATCT
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
124 1 0.01
125 58 0.67
126 27 0.31
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (126 bp):
AAAATCTTCGAATGCTCCCCATATCAGAGGCATTGAAACTTTAAAAATTTAAAATATTTTACCTG
AAGGTCTTAAAAATTATGCCCAGAAGTCTTAAAAATTATGCTCAGAGATCTTACAAATCTC
Found at i:25918176 original size:18 final size:18
Alignment explanation
Indices: 25918132--25918177 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
25918122 TTATCAAATG
* *
25918132 ATGTGAATGCAATTGTTA
1 ATGTGAATGCAAATGTCA
**
25918150 ATGCAAATGCAAATGTCA
1 ATGTGAATGCAAATGTCA
25918168 ATGTGAATGC
1 ATGTGAATGC
25918178 TTGATGCAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (18 bp):
ATGTGAATGCAAATGTCA
Found at i:25918532 original size:42 final size:41
Alignment explanation
Indices: 25918463--25918546 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
25918453 GCAAGTATGA
* * * *
25918463 ATGCGAGTGATGTAAAAATGAATGTCTTTTTTTATGATGCAG
1 ATGCAAGTGATGCAAAAATGAAGGTCTTTTTGT-TGATGCAG
*
25918505 ATGCAAGTGATGCAAATATGAAGGTCTTTTTGTTGATGCAG
1 ATGCAAGTGATGCAAAAATGAAGGTCTTTTTGTTGATGCAG
25918546 A
1 A
25918547 GTAGAATGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 9 0.24
42 28 0.76
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (41 bp):
ATGCAAGTGATGCAAAAATGAAGGTCTTTTTGTTGATGCAG
Found at i:25920166 original size:24 final size:24
Alignment explanation
Indices: 25920129--25920175 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
25920119 AGTTATTATA
* * *
25920129 AGAAAATGTTATATGGAATGAACG
1 AGAAAAAGTCATATAGAATGAACG
25920153 AGAAAAAGTCATATAGAATGAAC
1 AGAAAAAGTCATATAGAATGAAC
25920176 CTGTTTGAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.51, C:0.06, G:0.21, T:0.21
Consensus pattern (24 bp):
AGAAAAAGTCATATAGAATGAACG
Found at i:25920806 original size:11 final size:11
Alignment explanation
Indices: 25920790--25920823 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
25920780 ACTCAAAATT
25920790 TTTTTTTTTAC
1 TTTTTTTTTAC
*
25920801 TTTTTTTTTAA
1 TTTTTTTTTAC
25920812 TTTTTATTTTAC
1 TTTTT-TTTTAC
25920824 CCTTAGAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTTTAC
Found at i:25938200 original size:157 final size:158
Alignment explanation
Indices: 25938023--25938314 Score: 398
Period size: 157 Copynumber: 1.8 Consensus size: 158
25938013 ATTTTTCATG
* * *
25938023 TGTTTGGCTTTTTTTCTTTTCCCTTTAGCTTGCTTCTTTGA-TCGAACTT-CCAAGCCAGCAAAC
1 TGTTTGGCTTTTTTTCTTTTCCCTTCAGCCTCCTTCTTTGACT-GAACTTCCCAA-CCAGCAAAC
* *
25938086 TCTTCACTTCTTTTTTCTT-TTTCTCTTCTCTTTCACCTATTCTA-GGCTAGCCCTTCTT-TTTT
64 ACTTCACTTCTTTTTTCTTCTTT-TCTTCTCTTTCACCTACTCTATGGCTAGCCCTT-TTCTTTT
25938148 TTTTTAATAGCCCTTCCCTTTCTTTCTTCACA
127 TTTTTAATAGCCCTTCCCTTTCTTTCTTCACA
*
25938180 TGTTTGGCTCTTTTTT-TTTTCCCTTCAGCCTCCTTCTTTGACTGAACTTCCCAACTAGCAAACA
1 TGTTTGGCT-TTTTTTCTTTTCCCTTCAGCCTCCTTCTTTGACTGAACTTCCCAACCAGCAAACA
* * *
25938244 CTTCTCTTTTTTTTTCTTCTTTTCTTTTCTTTCACCTACTCTATTCGGCTAGCCCTTTTCTTTTT
65 CTTCACTTCTTTTTTCTTCTTTTCTTCTCTTTCACCTACTCTA-T-GGCTAGCCCTTTTCTTTTT
25938309 TTTTAA
128 TTTTAA
25938315 CAGCTTCCTT
Statistics
Matches: 118, Mismatches: 9, Indels: 13
0.84 0.06 0.09
Matches are distributed among these distances:
157 80 0.68
158 14 0.12
159 2 0.02
160 22 0.19
ACGTcount: A:0.13, C:0.28, G:0.08, T:0.52
Consensus pattern (158 bp):
TGTTTGGCTTTTTTTCTTTTCCCTTCAGCCTCCTTCTTTGACTGAACTTCCCAACCAGCAAACAC
TTCACTTCTTTTTTCTTCTTTTCTTCTCTTTCACCTACTCTATGGCTAGCCCTTTTCTTTTTTTT
TAATAGCCCTTCCCTTTCTTTCTTCACA
Found at i:25938353 original size:157 final size:155
Alignment explanation
Indices: 25938024--25938361 Score: 359
Period size: 157 Copynumber: 2.1 Consensus size: 155
25938014 TTTTTCATGT
* * * * *
25938024 GTTTGGCTTTTTTTCTTTTCCCTTTAGCTTGCTTCTTTGATCGAACTTCCAAGCCAGCAAACTCT
1 GTTTGGC-CTTTTT-TTTTCCCTTCAGCCTCCTTCTTTGATCGAACTTCCAAGCCAGCAAACACT
*
25938089 TCACTTCTTTTTTCTTTTTCTCTTCTCTTTCACCTATTCTAGGCTAGCCCTTCTTTTTTTTTTTA
64 TCACTTCTTTTTTCTTTTTCTCTTCTCTTTCACCTACTCTAGGCTAGCCCTTCTTTTTTTTTTTA
* * * *
25938154 ATAGCCCTTCCCTTTCTTTCTTCACAT
129 ACAGCCCTTCCATTTCCTTCTTCACAC
*
25938181 GTTTGGCTCTTTTTTTTTTCCCTTCAGCCTCCTTCTTTGA-CTGAACTTCCCAA-CTAGCAAACA
1 GTTTGGC-C-TTTTTTTTTCCCTTCAGCCTCCTTCTTTGATC-GAACTT-CCAAGCCAGCAAACA
* * *
25938244 CTTCTCTTTTTTTTTCTTCTTT-TCTTTTCTTTCACCTACTCTATTCGGCTAGCCCTT-TTCTTT
62 CTTCACTTCTTTTTTCTT-TTTCTCTTCTCTTTCACCTACTCTA---GGCTAGCCCTTCTT-TTT
*
25938307 TTTTTTAACAGCTTCCTT-CATTTCCCTTC-TCACGC
122 TTTTTTAACAGC--CCTTCCATTT-CCTTCTTCACAC
25938342 GTTTGG-C-TTTTTTTTCCCTT
1 GTTTGGCCTTTTTTTTTCCCTT
25938362 TCCAGCCTTC
Statistics
Matches: 155, Mismatches: 15, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
156 1 0.01
157 92 0.59
158 12 0.08
159 3 0.02
160 25 0.16
161 14 0.09
162 8 0.05
ACGTcount: A:0.12, C:0.29, G:0.08, T:0.51
Consensus pattern (155 bp):
GTTTGGCCTTTTTTTTTCCCTTCAGCCTCCTTCTTTGATCGAACTTCCAAGCCAGCAAACACTTC
ACTTCTTTTTTCTTTTTCTCTTCTCTTTCACCTACTCTAGGCTAGCCCTTCTTTTTTTTTTTAAC
AGCCCTTCCATTTCCTTCTTCACAC
Found at i:25940237 original size:23 final size:23
Alignment explanation
Indices: 25940210--25940255 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
25940200 CATATCTTTT
25940210 GTATTTATTGTATCCAAATCATA
1 GTATTTATTGTATCCAAATCATA
25940233 GTATTTATTGTATCCAAATCATA
1 GTATTTATTGTATCCAAATCATA
25940256 TTTGTTGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (23 bp):
GTATTTATTGTATCCAAATCATA
Found at i:25948873 original size:37 final size:37
Alignment explanation
Indices: 25948814--25948897 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
25948804 ATCTGTAACC
* *
25948814 GAATCTCCCAGAATCATGCTCCAACGGATCC-GTGATT
1 GAATCACCAAGAATCATGCTCCAACGGATCCAGT-ATT
25948851 -AAGTCACCAAGAATCATGCTCCAACGGATCCAGTATT
1 GAA-TCACCAAGAATCATGCTCCAACGGATCCAGTATT
25948888 GAATCACCAA
1 GAATCACCAA
25948898 TTTCCTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
36 2 0.05
37 36 0.86
38 4 0.10
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (37 bp):
GAATCACCAAGAATCATGCTCCAACGGATCCAGTATT
Found at i:25953356 original size:20 final size:20
Alignment explanation
Indices: 25953302--25953433 Score: 119
Period size: 20 Copynumber: 6.7 Consensus size: 20
25953292 CCTTTCTATG
* **
25953302 AATCTTTGAAACCATTTTGTA
1 AATCTTTGAAATC-TTTTACA
*
25953323 AATATTTG-AATCTTTTACA
1 AATCTTTGAAATCTTTTACA
* *
25953342 TATCTTGGAAATCTTTTTA-A
1 AATCTTTGAAATC-TTTTACA
*
25953362 CAATCTTTG-AA-CTTTTGCA
1 -AATCTTTGAAATCTTTTACA
* *
25953381 AAACTTTGAAATCATTTACA
1 AATCTTTGAAATCTTTTACA
*
25953401 AATCTTTGAAATCATTTACA
1 AATCTTTGAAATCTTTTACA
25953421 AATCTTTGAAATC
1 AATCTTTGAAATC
25953434 ATTTGTGAGC
Statistics
Matches: 91, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
18 11 0.12
19 14 0.15
20 48 0.53
21 18 0.20
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (20 bp):
AATCTTTGAAATCTTTTACA
Found at i:25953371 original size:40 final size:39
Alignment explanation
Indices: 25953302--25953437 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 39
25953292 CCTTTCTATG
* ** *
25953302 AATCTTTGAAACCATTTTGTAAATATTTGAATCTTTTACA
1 AATCTTTGAAATCA-TTTACAAATCTTTGAATCTTTTACA
* * * *
25953342 TATCTTGGAAATCTTTTTA-ACAATCTTTGAA-CTTTTGCA
1 AATCTTTGAAATC-ATTTACA-AATCTTTGAATCTTTTACA
* *
25953381 AAACTTTGAAATCATTTACAAATCTTTGAAATCATTTACA
1 AATCTTTGAAATCATTTACAAATCTTTG-AATCTTTTACA
25953421 AATCTTTGAAATCATTT
1 AATCTTTGAAATCATTT
25953438 GTGAGCTTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
38 12 0.16
39 21 0.27
40 44 0.57
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.43
Consensus pattern (39 bp):
AATCTTTGAAATCATTTACAAATCTTTGAATCTTTTACA
Found at i:25953501 original size:21 final size:20
Alignment explanation
Indices: 25953458--25953551 Score: 68
Period size: 21 Copynumber: 4.5 Consensus size: 20
25953448 ACAAATCCTT
*
25953458 AATGTGAATCT-TAAACATTC
1 AATGTGAATCTCAAAAC-TTC
25953478 AATGTGAATCTCGAAAACTTC
1 AATGTGAATCTC-AAAACTTC
*
25953499 AATATGAATCT-AGAAACCCTT-
1 AATGTGAATCTCA-AAA--CTTC
* *
25953520 GATGTGAATCTCAAACCTTC
1 AATGTGAATCTCAAAACTTC
*
25953540 AAATGTAAATCT
1 -AATGTGAATCT
25953552 TTGTAAAACT
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
19 4 0.07
20 14 0.24
21 33 0.56
22 8 0.14
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (20 bp):
AATGTGAATCTCAAAACTTC
Found at i:25953757 original size:88 final size:88
Alignment explanation
Indices: 25953637--25953858 Score: 277
Period size: 88 Copynumber: 2.5 Consensus size: 88
25953627 ATGCGAATCT
* * * *
25953637 CTTCAAATGTGAAT-TTTTATTTTTAGATATGAATTTTTAAAATTTTCAAAT-AATAATCTTTTA
1 CTTCAAATGTGAATCTTTGATTTTTAGATATGAATCTATAAAATTTTCAAATGAA-AATCTTTGA
* * *
25953700 TTTTTGGATGTGAATCTTTGAACC
65 TTTTTAGATATGAATCTTTAAACC
* * *
25953724 TTTCAAATGAGAATCTTTGATTTTTAGATATGAATCTATAAATTTTTCAAATGAAAATCTTTGAT
1 CTTCAAATGTGAATCTTTGATTTTTAGATATGAATCTATAAAATTTTCAAATGAAAATCTTTGAT
25953789 TTTTAGATATGAATCTTTAAACC
66 TTTTAGATATGAATCTTTAAACC
* * * * * *
25953812 CTTCAAATGTGAAACTTTGATTGTCAAATGTGAATCTATGAAATTTT
1 CTTCAAATGTGAATCTTTGATTTTTAGATATGAATCTATAAAATTTT
25953859 TAGATGCGGA
Statistics
Matches: 114, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
87 12 0.11
88 100 0.88
89 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (88 bp):
CTTCAAATGTGAATCTTTGATTTTTAGATATGAATCTATAAAATTTTCAAATGAAAATCTTTGAT
TTTTAGATATGAATCTTTAAACC
Found at i:25953801 original size:23 final size:23
Alignment explanation
Indices: 25953730--25953801 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 23
25953720 AACCTTTCAA
*
25953730 ATGAGAATCTTTGATTTTTAGAT
1 ATGAAAATCTTTGATTTTTAGAT
**
25953753 ATG--AATCTATAAATTTTTCA-A-
1 ATGAAAATCT-TTGATTTTT-AGAT
25953774 ATGAAAATCTTTGATTTTTAGAT
1 ATGAAAATCTTTGATTTTTAGAT
25953797 ATGAA
1 ATGAA
25953802 TCTTTAAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
21 9 0.23
22 16 0.41
23 14 0.36
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (23 bp):
ATGAAAATCTTTGATTTTTAGAT
Found at i:25953817 original size:44 final size:44
Alignment explanation
Indices: 25953638--25953833 Score: 209
Period size: 44 Copynumber: 4.5 Consensus size: 44
25953628 TGCGAATCTC
** * * **
25953638 TTCAAATGTGAAT-TTTTATTTTTAGATATGAATTTTTAAAATT
1 TTCAAATGAAAATCTTTGATTTTTAGATATGAATCTTTAAACCT
* * * *
25953681 TTCAAAT-AATAATCTTTTATTTTTGGATGTGAATCTTTGAACCT
1 TTCAAATGAA-AATCTTTGATTTTTAGATATGAATCTTTAAACCT
* * **
25953725 TTCAAATGAGAATCTTTGATTTTTAGATATGAATCTATAAATTT
1 TTCAAATGAAAATCTTTGATTTTTAGATATGAATCTTTAAACCT
*
25953769 TTCAAATGAAAATCTTTGATTTTTAGATATGAATCTTTAAACCC
1 TTCAAATGAAAATCTTTGATTTTTAGATATGAATCTTTAAACCT
*
25953813 TTCAAATGTGAAA-CTTTGATT
1 TTCAAATG-AAAATCTTTGATT
25953834 GTCAAATGTG
Statistics
Matches: 127, Mismatches: 22, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
43 10 0.08
44 113 0.89
45 4 0.03
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (44 bp):
TTCAAATGAAAATCTTTGATTTTTAGATATGAATCTTTAAACCT
Found at i:25955158 original size:47 final size:49
Alignment explanation
Indices: 25954991--25955160 Score: 141
Period size: 49 Copynumber: 3.5 Consensus size: 49
25954981 AGAAGCTTTC
* * ** * * * *
25954991 ATTTCAATTTACTTTTGATGTTGTGGAGCCTCTAG-TAAAGGGAGATTTC
1 ATTTCAATTTATTTTTAAAATTGTAGATCCTCTAGTTAAA-GGAGTTTTT
* * * * * *
25955040 ATTTTAATTTATTTTTAAAGTTGTAGATCCTTTGGTGAAAGAAGATTTTGT
1 ATTTCAATTTATTTTTAAAATTGTAGATCCTCTAGTTAAAGGAG-TTTT-T
* *
25955091 -TTTCGATCTATTTTTAAAATTGTA-A-CCTCTAGTTAAAGGAGTTTTT
1 ATTTCAATTTATTTTTAAAATTGTAGATCCTCTAGTTAAAGGAGTTTTT
25955137 ATTTCAATTTATTTTTAAAATTGT
1 ATTTCAATTTATTTTTAAAATTGT
25955161 GAAACATTTG
Statistics
Matches: 95, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
46 1 0.01
47 25 0.26
48 12 0.13
49 31 0.33
50 26 0.27
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (49 bp):
ATTTCAATTTATTTTTAAAATTGTAGATCCTCTAGTTAAAGGAGTTTTT
Found at i:25957146 original size:28 final size:25
Alignment explanation
Indices: 25957115--25957188 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 25
25957105 ATGAACACTT
25957115 TAAAAAAAAAATAATGGGAGATAAATGA
1 TAAAAAAAAAATAA---GAGATAAATGA
*
25957143 TAAAAAAATAATAAGAGATAAATGA
1 TAAAAAAAAAATAAGAGATAAATGA
25957168 T--AAAAAAAATAAGAGATAAAT
1 TAAAAAAAAAATAAGAGATAAAT
25957189 AAAATGCGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 19 0.43
25 12 0.27
28 13 0.30
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.19
Consensus pattern (25 bp):
TAAAAAAAAAATAAGAGATAAATGA
Found at i:25957153 original size:25 final size:25
Alignment explanation
Indices: 25957119--25957188 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
25957109 ACACTTTAAA
**
25957119 AAAAAAATAATGGGAGATAAATGAT
1 AAAAAAATAATAAGAGATAAATGAT
25957144 AAAAAAATAATAAGAGATAAATGAT
1 AAAAAAATAATAAGAGATAAATGAT
25957169 -AAAAAA-AATAAGAGATAAAT
1 AAAAAAATAATAAGAGATAAAT
25957189 AAAATGCGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.33
24 6 0.14
25 23 0.53
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (25 bp):
AAAAAAATAATAAGAGATAAATGAT
Found at i:25958726 original size:14 final size:14
Alignment explanation
Indices: 25958709--25958755 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
25958699 AATAAATAAT
25958709 TATTAATAATATCA
1 TATTAATAATATCA
* *
25958723 TATTTATAATATTA
1 TATTAATAATATCA
25958737 TTATT-ATAAT-TCA
1 -TATTAATAATATCA
25958750 TATTAA
1 TATTAA
25958756 ACAATTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 17 0.61
15 4 0.14
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (14 bp):
TATTAATAATATCA
Found at i:25958731 original size:32 final size:27
Alignment explanation
Indices: 25958700--25958775 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 27
25958690 TTTATTATAA
25958700 ATAA-ATAATTATTAATAATATCATATTT
1 ATAATATAATTATT-ATAAT-TCATATTT
* *
25958728 ATAATATTATTATTATAATTCATATTAA
1 ATAATATAATTATTATAATTCATATT-T
*
25958756 ACAATTATAA-TATTATAATT
1 ATAA-TATAATTATTATAATT
25958776 TAAATTAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 7 0.17
28 22 0.54
29 12 0.29
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
ATAATATAATTATTATAATTCATATTT
Found at i:25959375 original size:21 final size:22
Alignment explanation
Indices: 25959346--25959390 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
25959336 GTATCATATA
25959346 TTAACAAATATATATAA-ATTT
1 TTAACAAATATATATAAGATTT
* * *
25959367 TTAATAAATTTATGTAAGATTT
1 TTAACAAATATATATAAGATTT
25959389 TT
1 TT
25959391 TCTTATGGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
TTAACAAATATATATAAGATTT
Found at i:25959640 original size:17 final size:17
Alignment explanation
Indices: 25959618--25959676 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 17
25959608 ATTGTGGTAA
25959618 TTTTTAAAATTTAATAT
1 TTTTTAAAATTTAATAT
*
25959635 TTTTTAAAAATTAGATAT
1 TTTTTAAAATTTA-ATAT
*
25959653 TTTTTAAATTTTAAAATAT
1 TTTTTAAAATTT--AATAT
25959672 TTTTT
1 TTTTT
25959677 GTATTAGAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 12 0.33
18 14 0.39
19 9 0.25
20 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTTAAAATTTAATAT
Found at i:25959644 original size:18 final size:18
Alignment explanation
Indices: 25959618--25959660 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
25959608 ATTGTGGTAA
*
25959618 TTTTTAAAATTTA-ATAT
1 TTTTTAAAAATTAGATAT
25959635 TTTTTAAAAATTAGATAT
1 TTTTTAAAAATTAGATAT
25959653 TTTTTAAA
1 TTTTTAAA
25959661 TTTTAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TTTTTAAAAATTAGATAT
Found at i:25959728 original size:31 final size:31
Alignment explanation
Indices: 25959690--25959777 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
25959680 TTAGAGGGAT
*
25959690 TAAATTTCAGATTTTGTGTGAGTATAAAGAC
1 TAAATTTCAAATTTTGTGTGAGTATAAAGAC
* * * *
25959721 TAAATTTCAAATTTCGTGTAAGTATAAGGAT
1 TAAATTTCAAATTTTGTGTGAGTATAAAGAC
* *
25959752 TAAATATCAAATTTTGTATGAGTATA
1 TAAATTTCAAATTTTGTGTGAGTATA
25959778 GGTATTATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.40
Consensus pattern (31 bp):
TAAATTTCAAATTTTGTGTGAGTATAAAGAC
Found at i:25961729 original size:21 final size:23
Alignment explanation
Indices: 25961704--25961753 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 23
25961694 ATTTTATCTC
*
25961704 AAAATTTATTTAAAT-ATAT-TA
1 AAAATTTATTAAAATAATATATA
25961725 AAAATTTATTAAAATAATATATA
1 AAAATTTATTAAAATAATATATA
25961748 AAAATT
1 AAAATT
25961754 AAAAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 14 0.54
22 4 0.15
23 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAATTTATTAAAATAATATATA
Found at i:25963698 original size:2 final size:2
Alignment explanation
Indices: 25963691--25963725 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
25963681 CTTTAAAAAT
* *
25963691 TA TA TA TA TA TA TA TA TA CA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25963726 TATTAGAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:25963706 original size:10 final size:10
Alignment explanation
Indices: 25963691--25963725 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
25963681 CTTTAAAAAT
*
25963691 TATATATATA
1 TATATATACA
25963701 TATATATACA
1 TATATATACA
25963711 TATATATACA
1 TATATATACA
25963721 TATAT
1 TATAT
25963726 TATTAGAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (10 bp):
TATATATACA
Found at i:25963813 original size:16 final size:15
Alignment explanation
Indices: 25963788--25963835 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
25963778 ATTTTGGATA
25963788 ATTT-TTTTATTTATT
1 ATTTATTTTATTT-TT
25963803 ATTTATTTTATATTTT
1 ATTTATTTTAT-TTTT
*
25963819 AATTATTTTATTTTT
1 ATTTATTTTATTTTT
25963834 AT
1 AT
25963836 CTAAAGTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 9 0.31
16 18 0.62
17 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
ATTTATTTTATTTTT
Found at i:25970916 original size:48 final size:47
Alignment explanation
Indices: 25970845--25970936 Score: 132
Period size: 47 Copynumber: 1.9 Consensus size: 47
25970835 CTAATCAAAC
* *
25970845 CAAATCATGGATCAATCATTAAAAATCATTATAAATCATCTTTATATA
1 CAAATCATGGATCAATCATT-AAAATCATCATAAATCATCATTATATA
*
25970893 CAAATCATGGATCAAAT-TTTAAAATCATCATAAATCATCATTAT
1 CAAATCATGGATC-AATCATTAAAATCATCATAAATCATCATTAT
25970937 CATTAGTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
47 22 0.55
48 15 0.38
49 3 0.08
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (47 bp):
CAAATCATGGATCAATCATTAAAATCATCATAAATCATCATTATATA
Found at i:25971063 original size:34 final size:33
Alignment explanation
Indices: 25971015--25971083 Score: 102
Period size: 34 Copynumber: 2.1 Consensus size: 33
25971005 TCACGATCAT
* *
25971015 TGCTAACTATTATAACCCGCTAGCCAGGGCCTTA
1 TGCTAACTACTATAACCCGCTAG-CAGGGCCGTA
*
25971049 TGCTAACTACTATAACCCGTTAGCAGGGCCGTA
1 TGCTAACTACTATAACCCGCTAGCAGGGCCGTA
25971082 TG
1 TG
25971084 ATCATGTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (33 bp):
TGCTAACTACTATAACCCGCTAGCAGGGCCGTA
Found at i:25986910 original size:7 final size:7
Alignment explanation
Indices: 25986895--25986932 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
25986885 AGAAATTTTT
25986895 AAAATAA
1 AAAATAA
*
25986902 AATATAA
1 AAAATAA
25986909 AAAATAA
1 AAAATAA
25986916 GAAAA-AA
1 -AAAATAA
25986923 AAAATAA
1 AAAATAA
25986930 AAA
1 AAA
25986933 TAGATAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 4 0.15
7 19 0.70
8 4 0.15
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:25990326 original size:76 final size:76
Alignment explanation
Indices: 25990197--25990349 Score: 279
Period size: 76 Copynumber: 2.0 Consensus size: 76
25990187 AAATGGTGAA
25990197 TTATAAGAAGAAGTATATATGGAACAACTGAAAGGATTTATCATTCCAAGTCAAGAGCAAAATGC
1 TTATAAGAAGAAGTATATATGGAACAACTGAAAGGATTTATCATTCCAAGTCAAGAGCAAAATGC
25990262 TTGTAAGCTTG
66 TTGTAAGCTTG
* * *
25990273 TTATAAGAAGAAGTATATATGGAACAACTGAAAGGATTTATTATTCCAGGTCAAGAGCAAAATGT
1 TTATAAGAAGAAGTATATATGGAACAACTGAAAGGATTTATCATTCCAAGTCAAGAGCAAAATGC
25990338 TTGTAAGCTTG
66 TTGTAAGCTTG
25990349 T
1 T
25990350 AAAGTCTTTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.29
Consensus pattern (76 bp):
TTATAAGAAGAAGTATATATGGAACAACTGAAAGGATTTATCATTCCAAGTCAAGAGCAAAATGC
TTGTAAGCTTG
Found at i:25990996 original size:245 final size:245
Alignment explanation
Indices: 25990566--25991064 Score: 998
Period size: 245 Copynumber: 2.0 Consensus size: 245
25990556 AATTTGTATC
25990566 AAATAACTTTTCAATGAAAAATATGAGTGTAGCAGATGTTATTCTTAGAATTAGAATAATTCGAA
1 AAATAACTTTTCAATGAAAAATATGAGTGTAGCAGATGTTATTCTTAGAATTAGAATAATTCGAA
25990631 ATGATTGTGGCATAACCTTATCACAATCGCATTATATTAAAAAAGTACTTAAAAAGTTTGATCTT
66 ATGATTGTGGCATAACCTTATCACAATCGCATTATATTAAAAAAGTACTTAAAAAGTTTGATCTT
25990696 TTCAATTGTATTCTAGTATCTACACCCATGTATTTTTAACTAAATTTAGTATCTAATACTAGTAG
131 TTCAATTGTATTCTAGTATCTACACCCATGTATTTTTAACTAAATTTAGTATCTAATACTAGTAG
25990761 AATAAACGATCAATTGCAATATGCAAGAGTAATTGATTGTCTGATGTAGG
196 AATAAACGATCAATTGCAATATGCAAGAGTAATTGATTGTCTGATGTAGG
25990811 AAATAACTTTTCAATGAAAAATATGAGTGTAGCAGATGTTATTCTTAGAATTAGAATAATTCGAA
1 AAATAACTTTTCAATGAAAAATATGAGTGTAGCAGATGTTATTCTTAGAATTAGAATAATTCGAA
25990876 ATGATTGTGGCATAACCTTATCACAATCGCATTATATTAAAAAAGTACTTAAAAAGTTTGATCTT
66 ATGATTGTGGCATAACCTTATCACAATCGCATTATATTAAAAAAGTACTTAAAAAGTTTGATCTT
25990941 TTCAATTGTATTCTAGTATCTACACCCATGTATTTTTAACTAAATTTAGTATCTAATACTAGTAG
131 TTCAATTGTATTCTAGTATCTACACCCATGTATTTTTAACTAAATTTAGTATCTAATACTAGTAG
25991006 AATAAACGATCAATTGCAATATGCAAGAGTAATTGATTGTCTGATGTAGG
196 AATAAACGATCAATTGCAATATGCAAGAGTAATTGATTGTCTGATGTAGG
25991056 AAATAACTT
1 AAATAACTT
25991065 GTACAAGGTC
Statistics
Matches: 254, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
245 254 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (245 bp):
AAATAACTTTTCAATGAAAAATATGAGTGTAGCAGATGTTATTCTTAGAATTAGAATAATTCGAA
ATGATTGTGGCATAACCTTATCACAATCGCATTATATTAAAAAAGTACTTAAAAAGTTTGATCTT
TTCAATTGTATTCTAGTATCTACACCCATGTATTTTTAACTAAATTTAGTATCTAATACTAGTAG
AATAAACGATCAATTGCAATATGCAAGAGTAATTGATTGTCTGATGTAGG
Found at i:25993475 original size:112 final size:111
Alignment explanation
Indices: 25993258--25993592 Score: 474
Period size: 112 Copynumber: 3.0 Consensus size: 111
25993248 TCTTTGAAAG
* * * *
25993258 CACATTT-TTTAAGGGGTAATGCATTTATAATAGCTACCTCTTCATGTAGGAAAATCTCTTGAAT
1 CACATTTGTTT-AGGGGCAATGCACTTATAATAGCTGCCTCTTCATGTAGGAAAATCTTTTGAAT
* **
25993322 TAAATCCTAGTTCCAACAATGTGAATCTTCTTTAATCAATTCCAAAA
65 TAAATCCTAGTTCCAATAGCGTGAATCTTCTTTAATCAATTCCAAAA
* * **
25993369 CACATTTGTTTAGGGGCAATACACTTAGAATAGCTGCCTCTTCATGTAGGAAAATCTTTTTTTAT
1 CACATTTGTTTAGGGGCAATGCACTTATAATAGCTGCCTCTTCATGTAGGAAAATC-TTTTGAAT
25993434 TAAATCCTAGTTCCAATAGCGTGAATCTTCTTTAATCAATTCCAAAA
65 TAAATCCTAGTTCCAATAGCGTGAATCTTCTTTAATCAATTCCAAAA
* ** * *
25993481 CACATTTGTTTAAGGGCAATGCACTTATAATATATGCCTTTTCATGTAGGAAAATATTTTGAATT
1 CACATTTGTTTAGGGGCAATGCACTTATAATAGCTGCCTCTTCATGTAGGAAAATCTTTTGAATT
* * *
25993546 AAATCCTAGCTCCAATAGCATGAATCTTTTTTAATCAATTCCAAAA
66 AAATCCTAGTTCCAATAGCGTGAATCTTCTTTAATCAATTCCAAAA
25993592 C
1 C
25993593 CAAGTTGTTC
Statistics
Matches: 199, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
111 98 0.49
112 101 0.51
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (111 bp):
CACATTTGTTTAGGGGCAATGCACTTATAATAGCTGCCTCTTCATGTAGGAAAATCTTTTGAATT
AAATCCTAGTTCCAATAGCGTGAATCTTCTTTAATCAATTCCAAAA
Found at i:25995000 original size:13 final size:13
Alignment explanation
Indices: 25994982--25995006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25994972 TTTCAAACAT
25994982 ATGCAATGAATGC
1 ATGCAATGAATGC
25994995 ATGCAATGAATG
1 ATGCAATGAATG
25995007 AAAACTTTCA
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:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGCAATGAATGC
Found at i:25996278 original size:15 final size:15
Alignment explanation
Indices: 25996258--25996287 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25996248 TTAAGTCTTC
*
25996258 CTTTTTTTCTTTTTT
1 CTTTTTTACTTTTTT
25996273 CTTTTTTACTTTTTT
1 CTTTTTTACTTTTTT
25996288 TTTGCATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTTTACTTTTTT
Found at i:26000101 original size:8 final size:8
Alignment explanation
Indices: 26000088--26000139 Score: 79
Period size: 8 Copynumber: 6.6 Consensus size: 8
26000078 AAAAATATTT
26000088 ATGTATGA
1 ATGTATGA
26000096 ATGTATGA
1 ATGTATGA
26000104 ATGTATGA
1 ATGTATGA
*
26000112 ATGCATGA
1 ATGTATGA
26000120 ATG-ATGA
1 ATGTATGA
*
26000127 ATGCATGA
1 ATGTATGA
26000135 ATGTA
1 ATGTA
26000140 ATAAGGAGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
7 7 0.17
8 34 0.83
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (8 bp):
ATGTATGA
Found at i:26003435 original size:16 final size:17
Alignment explanation
Indices: 26003404--26003435 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26003394 AAATATATAA
26003404 TATCATGCAA-ACATAT
1 TATCATGCAATACATAT
26003420 TATCATGCAATA-ATAT
1 TATCATGCAATACATAT
26003436 AAAATACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 14 0.93
17 1 0.07
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (17 bp):
TATCATGCAATACATAT
Found at i:26003455 original size:20 final size:23
Alignment explanation
Indices: 26003424--26003482 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
26003414 ACATATTATC
26003424 ATGC-AATAATATAA-AA-TACTA
1 ATGCAAAT-ATATAATAACTACTA
*
26003445 A-GCAAATATATTAATAACTAGTA
1 ATGCAAATATA-TAATAACTACTA
26003468 ATGCAAATATATAAT
1 ATGCAAATATATAAT
26003483 CATAAAATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
20 5 0.16
21 7 0.22
22 2 0.06
23 9 0.28
24 9 0.28
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (23 bp):
ATGCAAATATATAATAACTACTA
Found at i:26003630 original size:25 final size:24
Alignment explanation
Indices: 26003595--26003643 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
26003585 TATAATACTA
* *
26003595 ATCATGTAATAACATATAATATCAT
1 ATCATGCAATAA-ATATAAAATCAT
26003620 ATCATGCAATAAATATAAAATCAT
1 ATCATGCAATAAATATAAAATCAT
26003644 GCAATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (24 bp):
ATCATGCAATAAATATAAAATCAT
Found at i:26003727 original size:32 final size:31
Alignment explanation
Indices: 26003666--26003731 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 31
26003656 AATAACTATG
** *
26003666 CAAATAAATATGTTAATAATCATATAATTACA
1 CAAATAAATAAATTAATAATCATACAATTA-A
*
26003698 CAAATAAATAAATTAATAATCATGCAATTAA
1 CAAATAAATAAATTAATAATCATACAATTAA
26003729 CAA
1 CAA
26003732 TGTAAATCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 4 0.13
32 26 0.87
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (31 bp):
CAAATAAATAAATTAATAATCATACAATTAA
Found at i:26003738 original size:32 final size:30
Alignment explanation
Indices: 26003666--26003761 Score: 84
Period size: 32 Copynumber: 3.0 Consensus size: 30
26003656 AATAACTATG
* **
26003666 CAAATAAATATGTTAATAATCATATAATTACA
1 CAAATAAATA-ATTAATAATCATGCAATTA-A
26003698 CAAATAAATAAATTAATAATCATGCAATTAA
1 CAAATAAAT-AATTAATAATCATGCAATTAA
* * *
26003729 CAATGTAAATCATGTAAATAAACATGCAATTAA
1 CAA-ATAAATAAT-T-AATAATCATGCAATTAA
26003762 ATATATAAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
31 6 0.11
32 31 0.57
33 17 0.31
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.30
Consensus pattern (30 bp):
CAAATAAATAATTAATAATCATGCAATTAA
Found at i:26003755 original size:33 final size:33
Alignment explanation
Indices: 26003712--26003935 Score: 124
Period size: 33 Copynumber: 7.2 Consensus size: 33
26003702 TAAATAAATT
* * * *
26003712 AATAATCATGCAATTAACA-ATGTAAATCATGTA
1 AATAAACATGCAATTAA-ATATATAAACCATGCA
26003745 AATAAACATGCAATTAAATATATAAACCATGCA
1 AATAAACATGCAATTAAATATATAAACCATGCA
* ** *
26003778 AATAAATATAAAATTAAATATAT-AATCATGC-
1 AATAAACATGCAATTAAATATATAAACCATGCA
* * * * *
26003809 GAT-CACA--CAAATAAATAAATTAATAATCATGCA
1 AATAAACATGCAATTAAATATA-T-A-AACCATGCA
* **
26003842 ATTAAACATGCAATTAAATATAT-AATTATGCA
1 AATAAACATGCAATTAAATATATAAACCATGCA
26003874 AATAATA-AT---ATT-AATA-AT----CATGCA
1 AATAA-ACATGCAATTAAATATATAAACCATGCA
*
26003898 AATAAACATGCAATTAAATATAT-AATCATGCA
1 AATAAACATGCAATTAAATATATAAACCATGCA
26003930 AATAAA
1 AATAAA
26003936 AATATATAAA
Statistics
Matches: 150, Mismatches: 22, Indels: 39
0.71 0.10 0.18
Matches are distributed among these distances:
23 1 0.01
24 12 0.08
27 5 0.03
28 17 0.11
29 6 0.04
30 2 0.01
31 2 0.01
32 42 0.28
33 49 0.33
34 3 0.02
35 1 0.01
36 10 0.07
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (33 bp):
AATAAACATGCAATTAAATATATAAACCATGCA
Found at i:26003755 original size:110 final size:115
Alignment explanation
Indices: 26003641--26003846 Score: 271
Period size: 118 Copynumber: 1.8 Consensus size: 115
26003631 AATATAAAAT
* * * *
26003641 CATGCAATAATAATAAAT-AACTATGCAAATAAATAT-GTT-AATA-ATCAT-AT-AATTACACA
1 CATGCAATAA-AATAAATAAACCATGCAAATAAATATAATTAAATATATAATCATCAATCACACA
26003700 AATAAATAAATTAATAATCATGCAATTAACAATGTAAATCATGTAAATAAA
65 AATAAATAAATTAATAATCATGCAATTAACAATGTAAATCATGTAAATAAA
* * *
26003751 CATGCAATTAAATATATAAACCATGCAAATAAATATAAAATTAAATATATAATCATGCGATCACA
1 CATGCAATAAAATAAATAAACCATGCAAATAAATAT--AATTAAATATATAATCAT-CAATCACA
26003816 CAAATAAATAAATTAATAATCATGCAATTAA
63 CAAATAAATAAATTAATAATCATGCAATTAA
26003847 ACATGCAATT
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
109 6 0.08
110 26 0.32
113 2 0.03
114 4 0.05
115 4 0.05
116 2 0.03
118 36 0.45
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.29
Consensus pattern (115 bp):
CATGCAATAAAATAAATAAACCATGCAAATAAATATAATTAAATATATAATCATCAATCACACAA
ATAAATAAATTAATAATCATGCAATTAACAATGTAAATCATGTAAATAAA
Found at i:26003777 original size:21 final size:20
Alignment explanation
Indices: 26003746--26003787 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
26003736 AATCATGTAA
*
26003746 ATAAACATGCAATTAAATAT
1 ATAAACATGCAAATAAATAT
26003766 ATAAACCATGCAAATAAATAT
1 ATAAA-CATGCAAATAAATAT
26003787 A
1 A
26003788 AAATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAAACATGCAAATAAATAT
Found at i:26003860 original size:32 final size:32
Alignment explanation
Indices: 26003712--26003935 Score: 182
Period size: 32 Copynumber: 7.2 Consensus size: 32
26003702 TAAATAAATT
* * *
26003712 AATAATCATGCAATTAACA-ATGTAAATCATGTA
1 AATAAACATGCAATTAA-ATATAT-AATCATGCA
*
26003745 AATAAACATGCAATTAAATATATAAACCATGCA
1 AATAAACATGCAATTAAATATAT-AATCATGCA
* **
26003778 AATAAATATAAAATTAAATATATAATCATGC-
1 AATAAACATGCAATTAAATATATAATCATGCA
* * *** *
26003809 GATCACACAAATAAATAAAT-TAATAATCATGCA
1 AAT-AAACATGCAATTAAATAT-ATAATCATGCA
* *
26003842 ATTAAACATGCAATTAAATATATAATTATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
*
26003874 AAT--A-AT--AA-T-ATTA-ATAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
26003898 AATAAACATGCAATTAAATATATAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
26003930 AATAAA
1 AATAAA
26003936 AATATATAAA
Statistics
Matches: 152, Mismatches: 26, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
24 13 0.09
25 3 0.02
26 2 0.01
27 4 0.03
29 4 0.03
30 2 0.01
31 6 0.04
32 69 0.45
33 49 0.32
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (32 bp):
AATAAACATGCAATTAAATATATAATCATGCA
Found at i:26003874 original size:20 final size:20
Alignment explanation
Indices: 26003848--26003954 Score: 73
Period size: 20 Copynumber: 5.4 Consensus size: 20
26003838 TGCAATTAAA
26003848 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
* *
26003868 TATGCAAAT-AATAATATTAAT
1 CATGCAATTAAAT-ATA-TAAT
* **
26003889 AAT-C-ATGCAA-ATA-AA-
1 CATGCAATTAAATATATAAT
26003904 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
*
26003924 CATGCAAATAAAAATATATAAAT
1 CATGC-AAT-TAAATATAT-AAT
26003947 CATGCAAT
1 CATGCAAT
26003955 CATGTAAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
15 2 0.03
16 3 0.04
17 4 0.06
18 6 0.09
19 6 0.09
20 18 0.27
21 9 0.13
22 11 0.16
23 8 0.12
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:26003904 original size:56 final size:56
Alignment explanation
Indices: 26003816--26003953 Score: 210
Period size: 56 Copynumber: 2.5 Consensus size: 56
26003806 TGCGATCACA
* *
26003816 CAAATAAATAA-ATTAATAATCATGCAATTAAACATGCAATTAAATATATAATTATG
1 CAAAT-AATAATATTAATAATCATGCAAATAAACATGCAATTAAATATATAATCATG
26003872 CAAATAATAATATTAATAATCATGCAAATAAACATGCAATTAAATATATAATCATG
1 CAAATAATAATATTAATAATCATGCAAATAAACATGCAATTAAATATATAATCATG
*
26003928 CAAATAAAAATA-T-ATAAATCATGCAA
1 CAAATAATAATATTAAT-AATCATGCAA
26003954 TCATGTAAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
54 2 0.03
55 16 0.21
56 59 0.77
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (56 bp):
CAAATAATAATATTAATAATCATGCAAATAAACATGCAATTAAATATATAATCATG
Found at i:26003956 original size:31 final size:31
Alignment explanation
Indices: 26003921--26003984 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
26003911 TTAAATATAT
*
26003921 AATCATGCAAATAAAAATATATAAATCATGC
1 AATCATGCAAATAAAAATATATAAACCATGC
* *
26003952 AATCATGTAAATAATAATATATAAACCATGC
1 AATCATGCAAATAAAAATATATAAACCATGC
26003983 AA
1 AA
26003985 AATATGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (31 bp):
AATCATGCAAATAAAAATATATAAACCATGC
Found at i:26004004 original size:32 final size:31
Alignment explanation
Indices: 26003921--26004004 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
26003911 TTAAATATAT
* * *
26003921 AATCATGCAAATAAAAATATATAAATCATGC
1 AATCATGTAAATAAATATATATAAACCATGC
26003952 AATCATGTAAAT-AATAATATATAAACCATGC
1 AATCATGTAAATAAAT-ATATATAAACCATGC
*
26003983 AAAAT-ATGTAATTAAATATATA
1 --AATCATGTAAATAAATATATA
26004005 ATCATACAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
30 2 0.04
31 25 0.56
32 12 0.27
33 6 0.13
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.30
Consensus pattern (31 bp):
AATCATGTAAATAAATATATATAAACCATGC
Found at i:26004029 original size:24 final size:24
Alignment explanation
Indices: 26004002--26004110 Score: 111
Period size: 24 Copynumber: 4.6 Consensus size: 24
26003992 AATTAAATAT
26004002 ATAATCATACAAATAAATATATTA
1 ATAATCATACAAATAAATATATTA
*
26004026 ATAATCA-AGCAATTAAATATATTA
1 ATAATCATA-CAAATAAATATATTA
*
26004050 ATAATCATGC-AATCAAAT-TA--A
1 ATAATCATACAAAT-AAATATATTA
* *
26004071 ATATAACATATAAATAAATATATTA
1 ATA-ATCATACAAATAAATATATTA
*
26004096 ATAATCATGCAAATA
1 ATAATCATACAAATA
26004111 TATTAATAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
21 4 0.06
22 8 0.12
23 10 0.15
24 42 0.62
25 4 0.06
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (24 bp):
ATAATCATACAAATAAATATATTA
Found at i:26004298 original size:6 final size:6
Alignment explanation
Indices: 26004287--26004321 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
26004277 AAAAATCACA
26004287 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
26004322 CCAACATTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:26011928 original size:25 final size:25
Alignment explanation
Indices: 26011900--26011952 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
26011890 AACCAATTAT
26011900 TAAAATTTGCAGG-CTAATTATCAAA
1 TAAAATTTG-AGGCCTAATTATCAAA
* *
26011925 TAAAATTTGGGGCCTACTTATCAAA
1 TAAAATTTGAGGCCTAATTATCAAA
26011950 TAA
1 TAA
26011953 TTAGCACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (25 bp):
TAAAATTTGAGGCCTAATTATCAAA
Found at i:26015940 original size:29 final size:27
Alignment explanation
Indices: 26015898--26015959 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 27
26015888 AACAAAACAA
* *
26015898 ATTTTAAATTTTAATATCATGTTACACAT
1 ATTTAAAATTTTAATATCATATTA-A-AT
26015927 ATTTAAAATTTTAATATCATATTAAAT
1 ATTTAAAATTTTAATATCATATTAAAT
26015954 ATTTAA
1 ATTTAA
26015960 TTTAAAATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 8 0.26
28 1 0.03
29 22 0.71
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTTAAAATTTTAATATCATATTAAAT
Found at i:26021512 original size:22 final size:21
Alignment explanation
Indices: 26021452--26021512 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
26021442 ACCCCACAAA
26021452 AAAAAAAAACAC-AAAAA-AT
1 AAAAAAAAACACAAAAAACAT
* **
26021471 ACAAAAAAAACCCAGCAAACATT
1 A-AAAAAAAACACAAAAAACA-T
26021494 AAAAAAAAACACAAAAAAC
1 AAAAAAAAACACAAAAAAC
26021513 TCATCCCTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
19 1 0.03
20 10 0.31
21 3 0.09
22 16 0.50
23 2 0.06
ACGTcount: A:0.75, C:0.18, G:0.02, T:0.05
Consensus pattern (21 bp):
AAAAAAAAACACAAAAAACAT
Found at i:26022612 original size:20 final size:19
Alignment explanation
Indices: 26022533--26022638 Score: 71
Period size: 20 Copynumber: 5.6 Consensus size: 19
26022523 ATACAACTAT
*
26022533 TAATCATGCAAAAATATTAA
1 TAATCATGCAAATATA-TAA
* *
26022553 -AATCATACAAATA-A-CA
1 TAATCATGCAAATATATAA
* *
26022569 -AATAATGCAAATAGATAA
1 TAATCATGCAAATATATAA
26022587 TAAATCATGCAAATATATTAA
1 T-AATCATGCAAATATA-TAA
*
26022608 TAATCGA-GAAAATA-ATAA
1 TAATC-ATGCAAATATATAA
26022626 TTAATCATGCAAA
1 -TAATCATGCAAA
26022639 AACATAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
16 12 0.18
17 1 0.01
18 6 0.09
19 21 0.31
20 23 0.34
21 5 0.07
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (19 bp):
TAATCATGCAAATATATAA
Found at i:26022761 original size:45 final size:44
Alignment explanation
Indices: 26022709--26022795 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 44
26022699 GGAAAATATA
26022709 AGAAAAATAGAAACA-AAATTAAAAA-A-AAAACTAGAAAATAAAACC
1 AGAAAAATAGAAA-ATAAA-TAAAAATAGAAAA-TAG-AAATAAAACC
*
26022754 AGAAAAATGGAAAATAAATAAAAATAGAAAATAGAAATAAAA
1 AGAAAAATAGAAAATAAATAAAAATAGAAAATAGAAATAAAA
26022796 AATAAAGATC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
44 15 0.39
45 19 0.50
46 4 0.11
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.13
Consensus pattern (44 bp):
AGAAAAATAGAAAATAAATAAAAATAGAAAATAGAAATAAAACC
Found at i:26022778 original size:17 final size:18
Alignment explanation
Indices: 26022723--26022796 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 18
26022713 AAATAGAAAC
*
26022723 AAAATTAAAAAAAAAACTAG
1 AAAA-TAAAATAAAAA-TAG
* *
26022743 AAAATAAAACCAGAAAAATGG
1 AAAAT-AAA--ATAAAAATAG
26022764 AAAAT-AAATAAAAATAG
1 AAAATAAAATAAAAATAG
26022781 AAAATAGAAATAAAAA
1 AAAATA-AAATAAAAA
26022797 ATAAAGATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
17 13 0.29
19 12 0.27
20 7 0.16
21 7 0.16
22 6 0.13
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.14
Consensus pattern (18 bp):
AAAATAAAATAAAAATAG
Found at i:26023772 original size:6 final size:6
Alignment explanation
Indices: 26023763--26023865 Score: 80
Period size: 6 Copynumber: 17.0 Consensus size: 6
26023753 GATTTTGACC
* * * *
26023763 AAAATT AAAATT AAAATT AAAATC AAAATT AACATT AAAATC AAAATC
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* * ** * * * * *
26023811 AAAGTC AAAATT AAGTTT AACATT AAAATC AAACATT ACAATC AAAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAA-ATT AAAATT AAAATT
26023860 AAAATT
1 AAAATT
26023866 TTTTGGGCTT
Statistics
Matches: 75, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
6 71 0.95
7 4 0.05
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (6 bp):
AAAATT
Found at i:26023802 original size:30 final size:30
Alignment explanation
Indices: 26023766--26023843 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
26023756 TTTGACCAAA
*
26023766 ATTAAAATTAAAATTAAAATCAAAATTAAC
1 ATTAAAATTAAAATCAAAATCAAAATTAAC
* * *
26023796 ATTAAAATCAAAATCAAAGTCAAAATTAAG
1 ATTAAAATTAAAATCAAAATCAAAATTAAC
* *
26023826 TTTAACATTAAAATCAAA
1 ATTAAAATTAAAATCAAA
26023844 CATTACAATC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.28
Consensus pattern (30 bp):
ATTAAAATTAAAATCAAAATCAAAATTAAC
Found at i:26025627 original size:3 final size:3
Alignment explanation
Indices: 26025621--26025649 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26025611 ATAAAAAACT
26025621 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
26025650 TTATTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:26025654 original size:3 final size:3
Alignment explanation
Indices: 26025648--26025704 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
26025638 ATAATAATAA
26025648 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26025696 TAT TAT TAT
1 TAT TAT TAT
26025705 AGAGATCAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:26026168 original size:8 final size:8
Alignment explanation
Indices: 26026155--26026184 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
26026145 GTATTTCAAC
26026155 AAAAAAAG
1 AAAAAAAG
26026163 AAAAAAAG
1 AAAAAAAG
26026171 AAGAAAAAG
1 AA-AAAAAG
26026180 AAAAA
1 AAAAA
26026185 GAATTATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:26029660 original size:162 final size:160
Alignment explanation
Indices: 26028606--26030597 Score: 1423
Period size: 162 Copynumber: 12.3 Consensus size: 160
26028596 GATGTTTAAA
* * ** * * * * *
26028606 CATTCGGACAAATTTAATATCATGTATTGAAAATATCTAAATTATTAAAATAGAACAATAATTGT
1 CATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGC
* * *** * * * * *
26028671 AAATTTACATTTTTGCCTTTTAACATTGCAAAAAGTCTTAAATAGACATCAATCACAACTTATTC
66 AAAATTACATTTTTACCTTTTAACAGCACAAAAAGTCTTAAAAAGACATAAATGATAACTTTTTC
* ** * *
26028736 ATACATATCAAATCATGGTAACCAAATTCATT
131 ATACATATC-AA-CTTGAAAACCAAGTTCAAT
** * * * * * *
26028768 CATTTGGACAAGTTTAATATAATGTATTTAAG--ATATAAACTGTTAAAATATAA-ATATAACTA
1 CATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATA-ATAAATG
* * * * *
26028830 TAAAATTACATTTTTACCCTTTAA-TGTCACAATAAAGTCTTAAAGAGACATAAATGGTAACTTT
65 CAAAATTACATTTTTACCTTTTAACAG-CACAA-AAAGTCTTAAAAAGACATAAATGATAACTTT
* *
26028894 TTCATACATATCAACTGTGAAACCCAAATTCAAT
128 TTCATACATATCAACT-TGAAAACCAAGTTCAAT
* * * * *
26028928 CATTCGGACAAGTTTAATATAATGTATTAAAGCTATCTAAACTATTAAAATAGAATAATAAATAC
1 CATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGC
* * * * *
26028993 AAATTTATC-TTTTTGCCTTTTAA-GGCACAAAAAGTGC-TAAATAGATATAAAATGATAACTTT
66 AAAATTA-CATTTTTACCTTTTAACAGCACAAAAAGT-CTTAAAAAGACAT-AAATGATAACTTT
*
26029055 TTCATACATATCAATCGTGAAAACCAAGTTCAAT
128 TTCATACATATCAA-CTTGAAAACCAAGTTCAAT
** * * *
26029089 CATTGTGATAAGTTTAATATCATGTATTGAAGCTATCTAAATTGTTAAAACATAAATATAACTAA
1 CATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTT-AAA-ATAGA-ATAA-TAA
* ** * * *
26029154 A--AAAAATTACATTTTTGTCTTTTAACGGCACAAAAAGTAC-TAAACAA-AGATAAACGATAAC
62 ATGCAAAATTACATTTTTACCTTTTAACAGCACAAAAAGT-CTTAAA-AAGACATAAATGATAAC
* * * *
26029215 ATTTTCACACATATCAACTGTAAAAATCAAGTTCAAT
125 TTTTTCATACATATCAACT-TGAAAACCAAGTTCAAT
* * * * * *
26029252 AATCCAAACAAGTTTAATATCATATATTGAAGCTATCTAAACTGTTAAAATAAAATAATAAAT-A
1 CATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGC
* * * * * * * *
26029316 AAAATTTATATTTTTGTCTTTTAATAAAAGGAATAGAAGAAAAAGTGC-TAAACAGATATAAATG
66 AAAA-TTACATTTTT-ACCTTT--T------AACAGCACAAAAAGT-CTTAAAAAGACATAAATG
* * * * *
26029380 GTAA-ATTTTCACACATATCAGTCATGAAAACCAAGTTCAAT
120 ATAACTTTTTCATACATATCA-ACTTGAAAACCAAGTTCAAT
* * * * *
26029421 CATT-TGACAAGTTTAATATCATATA-TGTAAGCTATCTAAACTGTTAAAACA-TATATATAACT
1 CATTCAGACAAGTTTAATATCATGTATTG-AAGCTATCTAAACTGTTAAAATAGAATA-ATAAAT
* * * * * *
26029483 ACAAAATTATATTTTTATCTTTTAACAGCATAACAAAGTCTTAAAAAGACATAAACGATTACTTT
64 GCAAAATTACATTTTTACCTTTTAACAGCACAA-AAAGTCTTAAAAAGACATAAATGATAACTTT
* * *
26029548 TTCATACATATCAGCCTTTAAAACCAAGATCAAT
128 TTCATACATATCA-ACTTGAAAACCAAGTTCAAT
*** * * *
26029582 CATTTTTACAAATTTAATATCATGTATTGAAGCTATCTAAACAGTTAAAATAGAAGAATAAATGC
1 CATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGC
** ** * * *
26029647 AATTTTGTATTTTTACCTTTTAA-TG-ACAAAAAGT-TATAAACAGACA-CAA-GCAGTAACTTT
66 AAAATTACATTTTTACCTTTTAACAGCACAAAAAGTCT-TAAAAAGACATAAATG-A-TAACTTT
* * * *
26029707 TTCATACATAACAATTGTGGAAACCAAGTTTAAT
128 TTCATACATATCAACT-TGAAAACCAAGTTCAAT
* * * * *
26029741 AATTCAGATAAGTTTAATATTATGTATTTAAGCTATCTAAACTGTTAAAACATA-AAT-ATAACT
1 CATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTT-AAA-ATAGAATAATAAAT
* * * * * * * *
26029804 GTAAAATTATATTTTTGCCCTTTAACAACACAACAAAGTCTTAAAAAGACATAAACGGTAATTTT
64 GCAAAATTACATTTTTACCTTTTAACAGCACAA-AAAGTCTTAAAAAGACATAAATGATAACTTT
* * * *
26029869 TTCACATATAACAA-TTGTAAAAACCAAGTTTAAT
128 TTCATACATATCAACTTG--AAAACCAAGTTCAAT
* * * * *
26029903 CATTTAAATAAGTTTAATATCATATATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGT
1 CATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGC
* ** *
26029968 AAAATTGCATTTTTGA-CTTTTAATGGCACAAAAA-TCATAAACAA-ACATAAATGATAACTTTT
66 AAAATTACATTTTT-ACCTTTTAACAGCACAAAAAGTCTTAAA-AAGACATAAATGATAACTTTT
* *
26030030 TCACACATATCAACTGTGAAAACTAAGTTCAAT
129 TCATACATATCAACT-TGAAAACCAAGTTCAAT
* * * * * *
26030063 CATT-ACGATAAGTTTAATATTATGTATTGAAGTTATCTAAACTGTTAAAACAAAATATTAAATG
1 CATTCA-GACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATG
* * * **
26030127 CAAATTTACATTTTTACCTTTTAAC-GACACAAAAAGTGTTTAACAA-ACATAAAATGGCAACTT
65 CAAAATTACATTTTTACCTTTTAACAG-CACAAAAAGT-CTTAAAAAGACAT-AAATGATAACTT
* * * *
26030190 TATCATATATATCAATCATGGAAACCAAGTTCAAT
127 TTTCATACATATCAA-CTTGAAAACCAAGTTCAAT
* ** * * * * *
26030225 AATTTGGACAAGTTTAATACCATGTATTTAAGCTATCTAAAATGTTAAAATATAA-ATATAATTG
1 CATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATA-ATAAATG
* * * * * * * * *
26030289 TAAAATTACATTTTTGCC-CTTAATAGCATAACAATGTCCTAAAAATAGATAAAT-AGTAACTTT
65 CAAAATTACATTTTTACCTTTTAACAGCACAA-AAAGTCTTAAAAAGACATAAATGA-TAACTTT
* *
26030352 TTCATGCATATCAATTGTGAAAACCAAGTTCAAT
128 TTCATACATATCAACT-TGAAAACCAAGTTCAAT
* * * **
26030386 CATTCAAACCAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAACACTTGC
1 CATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGC
* * * * * *
26030451 AAATTTGCATTTTTTTCCTTTTAACAGCATAAATAGTCTTAAACAA-ACATAAATGACAACTTTT
66 AAAATTACA-TTTTTACCTTTTAACAGCACAAAAAGTCTTAAA-AAGACATAAATGATAACTTTT
* * *
26030515 TCAGACATAT-ATAGTT-ATTAAACCAAGTTTAAT
129 TCATACATATCA-ACTTGA--AAACCAAGTTCAAT
* * * *
26030548 TATTCTGATC-AGTTTAATATCATGTATTGAAGTTATCTAAATTGTTAAAA
1 CATTCAGA-CAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAA
26030598 CAAAAAAATA
Statistics
Matches: 1473, Mismatches: 273, Indels: 168
0.77 0.14 0.09
Matches are distributed among these distances:
157 1 0.00
158 5 0.00
159 123 0.08
160 275 0.19
161 311 0.21
162 472 0.32
163 125 0.08
164 26 0.02
165 6 0.00
167 8 0.01
168 56 0.04
169 38 0.03
170 27 0.02
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (160 bp):
CATTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGC
AAAATTACATTTTTACCTTTTAACAGCACAAAAAGTCTTAAAAAGACATAAATGATAACTTTTTC
ATACATATCAACTTGAAAACCAAGTTCAAT
Found at i:26030240 original size:322 final size:321
Alignment explanation
Indices: 26028606--26030665 Score: 1550
Period size: 322 Copynumber: 6.4 Consensus size: 321
26028596 GATGTTTAAA
* * ** * * * *
26028606 CATTCGGACAAATTTAATATCATGTATTGAAAATATCTAAATTATTAAAATAGAACAATAATTGT
1 CATTTGGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGT
* * * * * * * *
26028671 AAATTTACATTTTTGCCTTTTAACATTG--CAAAAAGTCTTAAATAGACATCAATCACAACTTAT
66 AAAATTACATTTTTGACTTTT-A-ATGGCACAAAAAGTC-TAAACAGACATAAATGATAACTTTT
* * ** * * * * * *
26028734 TCATACATATCAAATCATGGTAACCAAATTCATTCATTTGGACAAGTTTAATATAATGTATTTAA
128 TCATACATATCAATTCGTGAAAACCAAGTTCAATCA-TTCGATAAGTTTAATATCATGTATTGAA
* * ** * * *
26028799 G--ATATAAACTGTTAAAATATAAATA-TAACTATAAAATTACATTTTTACCCTTTAATGTCACA
192 GCTATCTAAACTGTTAAAACATAAATATTAACTGCAAAATTACATTTTTACCTTTTAACGACACA
* * * * * * * * *
26028861 ATAAAGTCTTAAAGAGACATAAATGGTAACTTTTTCATACATATCAACTGTGAAACCCAAATTCA
257 ACAAAGTC-TAAACAAACATAAACGATAACTTTTTCACACATATCAA-TCTGAAAACCAAGTTCA
26028926 AT
320 AT
* * * * **
26028928 CATTCGGACAAGTTTAATATAATGTATTAAAGCTATCTAAACTATTAAAATAGAATAATAAATAC
1 CATTTGGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGT
* * * *
26028993 AAATTTATC-TTTTTGCCTTTTAA-GGCACAAAAAGTGCTAAATAGATATAAAATGATAACTTTT
66 AAAATTA-CATTTTTGACTTTTAATGGCACAAAAAGT-CTAAACAGACAT-AAATGATAACTTTT
*
26029056 TCATACATATCAA-TCGTGAAAACCAAGTTCAATCATTGTGATAAGTTTAATATCATGTATTGAA
128 TCATACATATCAATTCGTGAAAACCAAGTTCAATCATT-CGATAAGTTTAATATCATGTATTGAA
* ** ** *
26029120 GCTATCTAAATTGTTAAAACATAAATA-TAACTAAAAAAAATTACATTTTTGTCTTTTAACGGCA
192 GCTATCTAAACTGTTAAAACATAAATATTAACT--GCAAAATTACATTTTTACCTTTTAACGACA
* * *
26029184 CAA-AAAGTACTAAACAAAGATAAACGATAACATTTTCACACATATCAA-CTGTAAAAATCAAGT
255 CAACAAAGT-CTAAACAAACATAAACGATAACTTTTTCACACATATCAATCTG--AAAACCAAGT
26029247 TCAAT
317 TCAAT
* **** * * *
26029252 AATCCAAACAAGTTTAATATCATATATTGAAGCTATCTAAACTGTTAAAATAAAATAATAAAT-A
1 CATTTGGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGT
* * * * * *
26029316 AAAATTTATATTTTTGTCTTTTAATAAAAGGAATAGAAGAAAAAGTGCTAAACAGATATAAATGG
66 AAAA-TTACATTTTTGACTTTTAAT-----G----GCACAAAAAGT-CTAAACAGACATAAATGA
* * * * * * *
26029381 TAA-ATTTTCACACATATC-AGTCATGAAAACCAAGTTCAATCATTTGACAAGTTTAATATCATA
120 TAACTTTTTCATACATATCAATTCGTGAAAACCAAGTTCAATCATTCGATAAGTTTAATATCATG
* * * *
26029444 TA-TGTAAGCTATCTAAACTGTTAAAACATATATA-TAACTACAAAATTATATTTTTATCTTTTA
185 TATTG-AAGCTATCTAAACTGTTAAAACATAAATATTAACTGCAAAATTACATTTTTACCTTTTA
* * * ** *
26029507 AC-AGCATAACAAAGTCTTAAA-AAGACATAAACGATTACTTTTTCATACATATCAGCCTTTAAA
249 ACGA-CACAACAAAGTC-TAAACAA-ACATAAACGATAACTTTTTCACACATATCAATC-TGAAA
*
26029570 ACCAAGATCAAT
310 ACCAAGTTCAAT
** * * * *
26029582 CATTTTTACAAATTTAATATCATGTATTGAAGCTATCTAAACAGTTAAAATAGAAGAATAAATGC
1 CATTTGGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGT
** ** * *
26029647 AATTTTGTATTTTT-ACCTTTTAAT-G-ACAAAAAGTTATAAACAGACA-CAA-GCAGTAACTTT
66 AAAATTACATTTTTGA-CTTTTAATGGCACAAAAAG-TCTAAACAGACATAAATG-A-TAACTTT
* * * * * *
26029707 TTCATACATAACAATT-GTGGAAACCAAGTTTAATAATTCAGATAAGTTTAATATTATGTATTTA
127 TTCATACATATCAATTCGTGAAAACCAAGTTCAATCATTC-GATAAGTTTAATATCATGTATTGA
* * * * *
26029771 AGCTATCTAAACTGTTAAAACATAAATA-TAACTGTAAAATTATATTTTTGCCCTTTAACAACAC
191 AGCTATCTAAACTGTTAAAACATAAATATTAACTGCAAAATTACATTTTTACCTTTTAACGACAC
* * * *
26029835 AACAAAGTCTTAAA-AAGACATAAACGGTAATTTTTTCACATATAACAAT-TGTAAAAACCAAGT
256 AACAAAGTC-TAAACAA-ACATAAACGATAACTTTTTCACACATATCAATCTG--AAAACCAAGT
*
26029898 TTAAT
317 TCAAT
** * *
26029903 CATTTAAATAAGTTTAATATCATATATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGT
1 CATTTGGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGT
* *
26029968 AAAATTGCATTTTTGACTTTTAATGGCACAAAAA-TCATAAACAAACATAAATGATAACTTTTTC
66 AAAATTACATTTTTGACTTTTAATGGCACAAAAAGTC-TAAACAGACATAAATGATAACTTTTTC
* * * * *
26030032 ACACATATCAACT-GTGAAAACTAAGTTCAATCATTACGATAAGTTTAATATTATGTATTGAAGT
130 ATACATATCAATTCGTGAAAACCAAGTTCAATCATT-CGATAAGTTTAATATCATGTATTGAAGC
* *
26030096 TATCTAAACTGTTAAAACA-AAATATTAAATGCAAATTTACATTTTTACCTTTTAACGACACAA-
194 TATCTAAACTGTTAAAACATAAATATTAACTGCAAAATTACATTTTTACCTTTTAACGACACAAC
* * * ** * * * *
26030159 AAAGTGTTTAACAAACATAAAATGGCAACTTTATCATATATATCAATCATGGAAACCAAGTTCAA
259 AAAGT-CTAAACAAACAT-AAACGATAACTTTTTCACACATATCAATC-TGAAAACCAAGTTCAA
26030224 T
321 T
* * * * * *
26030225 AATTTGGACAAGTTTAATACCATGTATTTAAGCTATCTAAAATGTTAAAATATAA-ATATAATTG
1 CATTTGGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATA-ATAAATG
** * * * * * *
26030289 TAAAATTACATTTTTG-CCCTTAATAGCATAACAATGTCCTAAAAATAGATAAAT-AGTAACTTT
65 TAAAATTACATTTTTGACTTTTAATGGCACAA-AAAGT-CTAAACAGACATAAATGA-TAACTTT
* *
26030352 TTCATGCATATCAATT-GTGAAAACCAAGTTCAATCATTC-AAACCAGTTTAATATCATGTATTG
127 TTCATACATATCAATTCGTGAAAACCAAGTTCAATCATTCGATA--AGTTTAATATCATGTATTG
* * *
26030415 AAGCTATCTAAACTGTT-AAA-ATAGAATA--ACACTTGCAAATTTGCATTTTTTTCCTTTTAAC
190 AAGCTATCTAAACTGTTAAAACATA-AATATTA-AC-TGCAAAATTACA-TTTTTACCTTTTAAC
* * * * *
26030476 -AGCATAA-ATAGTCTTAAACAAACATAAATGACAACTTTTTCAGACATAT-ATAGT-T-ATTAA
251 GA-CACAACAAAGTC-TAAACAAACATAAACGATAACTTTTTCACACATATCA-A-TCTGA--AA
*
26030536 ACCAAGTTTAAT
310 ACCAAGTTCAAT
* * * * * * *
26030548 TATTCT-GATC-AGTTTAATATCATGTATTGAAGTTATCTAAATTGTTAAAACAAAAAAATAATT
1 CATT-TGGA-CAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAAT
* ** * ** * *
26030611 GTAAAATTTTCATTTTTTTCCTTTAATAACATAAAAAGTTCTAAAGAGACATAAA
64 GTAAAA-TTACATTTTTGACTTTTAATGGCACAAAAAG-TCTAAACAGACATAAA
26030666 CTACAAATAA
Statistics
Matches: 1429, Mismatches: 227, Indels: 162
0.79 0.12 0.09
Matches are distributed among these distances:
317 1 0.00
318 2 0.00
319 21 0.01
320 35 0.02
321 298 0.21
322 341 0.24
323 235 0.16
324 182 0.13
325 42 0.03
329 30 0.02
330 121 0.08
331 55 0.04
332 37 0.03
333 8 0.01
334 21 0.01
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (321 bp):
CATTTGGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATGT
AAAATTACATTTTTGACTTTTAATGGCACAAAAAGTCTAAACAGACATAAATGATAACTTTTTCA
TACATATCAATTCGTGAAAACCAAGTTCAATCATTCGATAAGTTTAATATCATGTATTGAAGCTA
TCTAAACTGTTAAAACATAAATATTAACTGCAAAATTACATTTTTACCTTTTAACGACACAACAA
AGTCTAAACAAACATAAACGATAACTTTTTCACACATATCAATCTGAAAACCAAGTTCAAT
Found at i:26033946 original size:108 final size:108
Alignment explanation
Indices: 26033809--26034024 Score: 315
Period size: 108 Copynumber: 2.0 Consensus size: 108
26033799 TTTGGATGAA
* * * *
26033809 GGTCAGGGTGAATCGCCATGTCAACTAGGTCAAGCCAACTCATTTAGTCATCCTTTCATCTTTTA
1 GGTCAAGGTGAATCACCATGTCAACTAGGTCAAGCCAACTCATTAAGTCATCATTTCATCTTTTA
* * *
26033874 TTCACATTGAGAATTGTCTTGATAAAATTTTCGCAAACATTTT
66 TTCACATTGAAAATTGTCTAGACAAAATTTTCGCAAACATTTT
*** *
26033917 GGTCAAGGTGAATCACCATGTCAACTAGGTCAAGTTGACTCATTAAGTCATCATTTGATCTTTTA
1 GGTCAAGGTGAATCACCATGTCAACTAGGTCAAGCCAACTCATTAAGTCATCATTTCATCTTTTA
* *
26033982 TTCACATTGAAAATTGTCTAGACAAAATTTTTGCAAATATTTT
66 TTCACATTGAAAATTGTCTAGACAAAATTTTCGCAAACATTTT
26034025 TTTGTATGTG
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 95 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (108 bp):
GGTCAAGGTGAATCACCATGTCAACTAGGTCAAGCCAACTCATTAAGTCATCATTTCATCTTTTA
TTCACATTGAAAATTGTCTAGACAAAATTTTCGCAAACATTTT
Found at i:26034187 original size:21 final size:21
Alignment explanation
Indices: 26034158--26034204 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
26034148 CTTCATCACT
*
26034158 TTGAATATCAATATCACCAAC
1 TTGAATATCAACATCACCAAC
* *
26034179 TTGAGTATCAGCATCACCAAC
1 TTGAATATCAACATCACCAAC
26034200 TTGAA
1 TTGAA
26034205 GAATAAGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (21 bp):
TTGAATATCAACATCACCAAC
Found at i:26038047 original size:15 final size:16
Alignment explanation
Indices: 26038023--26038060 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
26038013 TTTTGTTAAT
*
26038023 TAAAATAATGAAAA-A
1 TAAAAAAATGAAAACA
26038038 TAAAAAAATGAAAACA
1 TAAAAAAATGAAAACA
26038054 -AAAAAAA
1 TAAAAAAA
26038061 AAAGGTGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.95
16 1 0.05
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (16 bp):
TAAAAAAATGAAAACA
Found at i:26039521 original size:43 final size:44
Alignment explanation
Indices: 26039468--26039559 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 44
26039458 AAAAATAAAG
* *
26039468 AAAAAGATTTCTAAATAGACTAAAATGATGAAAATTTTAGAAAT
1 AAAAAGATTTCTAAATAGACCAAAATGATGAAAAATTTAGAAAT
* * * *
26039512 AAAAA-ATTTCTAAATTGACCCAATTGGTGAAAAATTTAGAAAT
1 AAAAAGATTTCTAAATAGACCAAAATGATGAAAAATTTAGAAAT
26039555 AAAAA
1 AAAAA
26039560 TAAAAAATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 37 0.88
44 5 0.12
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (44 bp):
AAAAAGATTTCTAAATAGACCAAAATGATGAAAAATTTAGAAAT
Done.