Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 75 of 117
Found at i:13531773 original size:24 final size:25
Alignment explanation
Indices: 13531743--13531798 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
13531733 TTTTGACTCA
*
13531743 TTATTTTTTC-ATTTTGTTACTTTT
1 TTATTTTTTCTATTTTGTGACTTTT
* *
13531767 TTATTTTTTCTTTTTTGTGATTTTT
1 TTATTTTTTCTATTTTGTGACTTTT
13531792 TTATTTT
1 TTATTTT
13531799 AAATTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (25 bp):
TTATTTTTTCTATTTTGTGACTTTT
Found at i:13531774 original size:8 final size:8
Alignment explanation
Indices: 13531743--13531798 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
13531733 TTTTGACTCA
13531743 TTATTTTT
1 TTATTTTT
* *
13531751 TCATTTTG
1 TTATTTTT
*
13531759 TTACTTTT
1 TTATTTTT
13531767 TTATTTTT
1 TTATTTTT
13531775 TCT-TTTTT
1 T-TATTTTT
*
13531783 GTGATTTTT
1 -TTATTTTT
13531792 TTATTTT
1 TTATTTT
13531799 AAATTTTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
8 30 0.81
9 7 0.19
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (8 bp):
TTATTTTT
Found at i:13531805 original size:25 final size:25
Alignment explanation
Indices: 13531754--13531807 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
13531744 TATTTTTTCA
* ***
13531754 TTTTGTTACTTTTTTATTTTTTCTT
1 TTTTGTGACTTTTTTATTTTAAATT
*
13531779 TTTTGTGATTTTTTTATTTTAAATT
1 TTTTGTGACTTTTTTATTTTAAATT
13531804 TTTT
1 TTTT
13531808 TCTCGTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.78
Consensus pattern (25 bp):
TTTTGTGACTTTTTTATTTTAAATT
Found at i:13531878 original size:15 final size:14
Alignment explanation
Indices: 13531860--13531893 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
13531850 ATATTTTCTC
13531860 TTTTTGTATTTCTTG
1 TTTTTGTATTT-TTG
*
13531875 TTTTTTTATTTTTG
1 TTTTTGTATTTTTG
13531889 TTTTT
1 TTTTT
13531894 CTATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.06, C:0.03, G:0.09, T:0.82
Consensus pattern (14 bp):
TTTTTGTATTTTTG
Found at i:13532026 original size:12 final size:12
Alignment explanation
Indices: 13532009--13532058 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
13531999 AATTAAGATC
*
13532009 ATCTTGTATTTT
1 ATCTTGTAATTT
*
13532021 ATCTTGAAATTT
1 ATCTTGTAATTT
*
13532033 A-CTT-TTATTT
1 ATCTTGTAATTT
*
13532043 ATCGTGTAATTT
1 ATCTTGTAATTT
13532055 ATCT
1 ATCT
13532059 AATTAACAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 5 0.17
11 5 0.17
12 19 0.66
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.58
Consensus pattern (12 bp):
ATCTTGTAATTT
Found at i:13532128 original size:18 final size:19
Alignment explanation
Indices: 13532107--13532149 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
13532097 TATGCTTTCA
13532107 TTTTTATTTGTTTT--AAT
1 TTTTTATTTGTTTTAAAAT
13532124 TTTTTCA-TTGTTTTAAAAT
1 TTTTT-ATTTGTTTTAAAAT
13532143 TTTTTAT
1 TTTTTAT
13532150 ATTTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 12 0.55
18 2 0.09
19 8 0.36
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (19 bp):
TTTTTATTTGTTTTAAAAT
Found at i:13532427 original size:7 final size:7
Alignment explanation
Indices: 13532414--13532499 Score: 66
Period size: 7 Copynumber: 11.7 Consensus size: 7
13532404 TTTTTGTTCA
13532414 ATTTTTT
1 ATTTTTT
*
13532421 CTTTTTT
1 ATTTTTT
13532428 ATTTTTT
1 ATTTTTT
13532435 ATTTTCTT
1 ATTTT-TT
*
13532443 ACTTTTT
1 ATTTTTT
*
13532450 ATATTTT
1 ATTTTTT
13532457 ATTGTCTTT
1 ATT-T-TTT
*
13532466 -TTGTTT
1 ATTTTTT
13532472 ATTTTTT
1 ATTTTTT
*
13532479 CTTTTTTT
1 -ATTTTTT
*
13532487 CTTATTTT
1 ATT-TTTT
13532495 ATTTT
1 ATTTT
13532500 GCTTTATTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
6 3 0.05
7 35 0.56
8 21 0.34
9 3 0.05
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (7 bp):
ATTTTTT
Found at i:13532451 original size:22 final size:21
Alignment explanation
Indices: 13532414--13532499 Score: 75
Period size: 22 Copynumber: 3.9 Consensus size: 21
13532404 TTTTTGTTCA
13532414 ATTTT-TTCTTTTTTATTTTTT
1 ATTTTCTTC-TTTTTATTTTTT
*
13532435 ATTTTCTTACTTTTTATATTTT
1 ATTTTCTT-CTTTTTATTTTTT
* *
13532457 ATTGTCTTTTTGTTTATTTTTT
1 ATTTTCTTCTT-TTTATTTTTT
* *
13532479 CTTTTTTTCTTATTTTATTTT
1 ATTTTCTTC-T-TTTTATTTT
13532500 GCTTTATTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
21 7 0.13
22 34 0.65
23 10 0.19
24 1 0.02
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (21 bp):
ATTTTCTTCTTTTTATTTTTT
Found at i:13532492 original size:33 final size:36
Alignment explanation
Indices: 13532432--13532511 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 36
13532422 TTTTTTATTT
*
13532432 TTTATTTTCTTACTTTTTATATTTTATTGTCT-TTTTG-
1 TTTATTTT-TTACTTTTTATATCTTATT-T-TATTTTGC
13532469 TTTATTTTTT-CTTTTT-T-TCTTATTTTATTTTGC
1 TTTATTTTTTACTTTTTATATCTTATTTTATTTTGC
13532502 TTTATTTTTT
1 TTTATTTTTT
13532512 TATTTCTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
31 1 0.03
32 6 0.15
33 16 0.40
34 1 0.03
35 6 0.15
36 2 0.05
37 8 0.20
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (36 bp):
TTTATTTTTTACTTTTTATATCTTATTTTATTTTGC
Found at i:13532533 original size:18 final size:18
Alignment explanation
Indices: 13532484--13532534 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
13532474 TTTTTCTTTT
13532484 TTTC-TTATTTTATTTTGC
1 TTTCTTTATTTTA-TTTGC
*
13532502 TTTATTT-TTTTATTT-C
1 TTTCTTTATTTTATTTGC
13532518 TTTCTTTATTTATATTT
1 TTTCTTTATTT-TATTT
13532535 TCATATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 7 0.25
17 6 0.21
18 13 0.46
19 2 0.07
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTCTTTATTTTATTTGC
Found at i:13532546 original size:34 final size:34
Alignment explanation
Indices: 13532474--13532548 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
13532464 TTTTGTTTAT
* * * *
13532474 TTTTTCTTTTTTTCTTATTTTATTTTGCTTTATT
1 TTTTTATTTCTTTCTTATTTTATTTTGCTATATA
13532508 TTTTTATTTCTTTCTTTATTTATATTTT-C-ATATA
1 TTTTTATTTCTTTC-TTATTT-TATTTTGCTATATA
13532542 TTTTTAT
1 TTTTTAT
13532549 AATGTTTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
34 22 0.63
35 7 0.20
36 6 0.17
ACGTcount: A:0.15, C:0.08, G:0.01, T:0.76
Consensus pattern (34 bp):
TTTTTATTTCTTTCTTATTTTATTTTGCTATATA
Found at i:13533018 original size:18 final size:18
Alignment explanation
Indices: 13532991--13533026 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13532981 TTTGTCATCC
*
13532991 CTTTTCATTTTTTATCTT
1 CTTTTAATTTTTTATCTT
13533009 CTTTTAATTTTTTATCTT
1 CTTTTAATTTTTTATCTT
13533027 TGATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTAATTTTTTATCTT
Found at i:13533035 original size:16 final size:15
Alignment explanation
Indices: 13532997--13533047 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
13532987 ATCCCTTTTC
*
13532997 ATTTTTTATCTTCTTTT
1 ATTTTTTAT-ATC-TTT
*
13533014 AATTTTT-TATCTTT
1 ATTTTTTATATCTTT
13533028 GATTTTTTATATCTTT
1 -ATTTTTTATATCTTT
13533044 ATTT
1 ATTT
13533048 CTTGTTATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 3 0.10
15 12 0.41
16 8 0.28
17 6 0.21
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTTTTTATATCTTT
Found at i:13533333 original size:16 final size:15
Alignment explanation
Indices: 13533308--13533369 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
13533298 TTTTTTCTTC
*
13533308 CTTTAATTTTT-TAT
1 CTTTATTTTTTATAT
13533322 CTTTGATTTTTTATAT
1 CTTT-ATTTTTTATAT
*
13533338 CTTTATTTCTTATTATT
1 CTTTATTTTTTA-TA-T
13533355 CGTTATATTTTTTAT
1 C-TT-TATTTTTTAT
13533370 TTTTTGTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 4 0.10
15 13 0.33
16 9 0.23
17 2 0.05
18 3 0.08
19 8 0.21
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.69
Consensus pattern (15 bp):
CTTTATTTTTTATAT
Found at i:13533531 original size:25 final size:25
Alignment explanation
Indices: 13533484--13533532 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
13533474 TCCTTACTTT
* *
13533484 TTTATTTTTTTATTTTTTGTTTTTG
1 TTTATTTTTTAATTTTTTCTTTTTG
13533509 TTTA-TTTTTAATTTTTCTCTTTTT
1 TTTATTTTTTAATTTTT-TCTTTTT
13533533 TAGTACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (25 bp):
TTTATTTTTTAATTTTTTCTTTTTG
Found at i:13533606 original size:35 final size:35
Alignment explanation
Indices: 13533538--13533616 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 35
13533528 TTTTTTAGTA
13533538 CTTATTTTATCTTTTTCCTTTTGCTTTAATATTTTCT
1 CTTATTTTA-CTTTTTCCTTTTGCTTTAATATTTT-T
* *
13533575 CTTATTTTA-TTTTTCCTTTTATCTTT-TTATTTTT
1 CTTATTTTACTTTTTCCTTTT-GCTTTAATATTTTT
*
13533609 GTTATTTT
1 CTTATTTT
13533617 TATAAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
34 8 0.21
35 17 0.45
36 4 0.11
37 9 0.24
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (35 bp):
CTTATTTTACTTTTTCCTTTTGCTTTAATATTTTT
Found at i:13534019 original size:16 final size:15
Alignment explanation
Indices: 13533998--13534042 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
13533988 TCCTTTTGAC
13533998 TCGTTATTTTTTCATT
1 TCGTTATTTTTT-ATT
13534014 TCGTTACTTTTTTATT
1 TCGTTA-TTTTTTATT
*
13534030 T-TTTATTTTTTAT
1 TCGTTATTTTTTAT
13534043 GCTTTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 8 0.30
15 3 0.11
16 10 0.37
17 6 0.22
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.73
Consensus pattern (15 bp):
TCGTTATTTTTTATT
Found at i:13534392 original size:17 final size:18
Alignment explanation
Indices: 13534372--13534414 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
13534362 TATGCTTTCA
13534372 TTTTTATTTGTTCT-AAT
1 TTTTTATTTGTTCTAAAT
* *
13534389 TTTTTCTTTGTTTTAAAAT
1 TTTTTATTTGTTCT-AAAT
13534408 TTTTTAT
1 TTTTTAT
13534415 ATTTCTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 12 0.57
19 9 0.43
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTTATTTGTTCTAAAT
Found at i:13535178 original size:16 final size:15
Alignment explanation
Indices: 13535153--13535214 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
13535143 TTTTTTCTTC
*
13535153 CTTTAATTTTT-TAT
1 CTTTATTTTTTATAT
13535167 CTTTGATTTTTTATAT
1 CTTT-ATTTTTTATAT
*
13535183 CTTTATTTCTTATTATT
1 CTTTATTTTTTA-TA-T
13535200 CGTTATATTTTTTAT
1 C-TT-TATTTTTTAT
13535215 TTTTTGTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 4 0.10
15 13 0.33
16 9 0.23
17 2 0.05
18 3 0.08
19 8 0.21
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.69
Consensus pattern (15 bp):
CTTTATTTTTTATAT
Found at i:13535620 original size:14 final size:14
Alignment explanation
Indices: 13535597--13535640 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
13535587 TTCTTTTTTC
13535597 TTTT-TATTTTATT
1 TTTTATATTTTATT
*
13535610 TTTTATATTTTGTAT
1 TTTTATATTTTAT-T
*
13535625 TTTCATATTTTATT
1 TTTTATATTTTATT
13535639 TT
1 TT
13535641 GTATTGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 4 0.15
14 10 0.38
15 12 0.46
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTTATATTTTATT
Found at i:13536015 original size:18 final size:18
Alignment explanation
Indices: 13535994--13536029 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13535984 TTTGTCGTCC
*
13535994 CTTTTCATTTTTGATCTT
1 CTTTTAATTTTTGATCTT
*
13536012 CTTTTAATTTTTTATCTT
1 CTTTTAATTTTTGATCTT
13536030 TGATTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (18 bp):
CTTTTAATTTTTGATCTT
Found at i:13536225 original size:25 final size:24
Alignment explanation
Indices: 13536177--13536235 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
13536167 TCTTTGACTC
13536177 GTTATTTTTTCATTTCATTACTTT
1 GTTATTTTTTCATTTCATTACTTT
* ** *
13536201 TTTATTTTTTCTATTTTGTTTCTTT
1 GTTATTTTTTC-ATTTCATTACTTT
*
13536226 GTAATTTTTT
1 GTTATTTTTT
13536236 TCTCTTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.14, C:0.08, G:0.05, T:0.73
Consensus pattern (24 bp):
GTTATTTTTTCATTTCATTACTTT
Found at i:13536306 original size:6 final size:7
Alignment explanation
Indices: 13536291--13536333 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
13536281 TTTTCTCTTA
13536291 TTTTATT
1 TTTTATT
13536298 TTTTATT
1 TTTTATT
13536305 TTTTATT
1 TTTTATT
13536312 TTTGTGATT
1 TTT-T-ATT
13536321 TTTGT-TT
1 TTT-TATT
13536328 TTTTAT
1 TTTTAT
13536334 AAAAATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 1 0.03
7 23 0.70
8 1 0.03
9 8 0.24
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (7 bp):
TTTTATT
Found at i:13536656 original size:23 final size:23
Alignment explanation
Indices: 13536619--13536662 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
13536609 AGAGATAATA
*
13536619 ATTATCTTATTTTTTCTTTTTTT
1 ATTATCTTATTTTTTATTTTTTT
13536642 ATTA-CTTATTTTTTTATTTTT
1 ATTATCTTA-TTTTTTATTTTT
13536663 GTTTTTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (23 bp):
ATTATCTTATTTTTTATTTTTTT
Found at i:13536902 original size:18 final size:18
Alignment explanation
Indices: 13536881--13536922 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
13536871 TATGCTTTCA
13536881 TTTTTATTTGTTTT-AAT
1 TTTTTATTTGTTTTAAAT
13536898 TTTTTCA-TTGTTTTAAAT
1 TTTTT-ATTTGTTTTAAAT
13536916 TTTTTAT
1 TTTTTAT
13536923 ATTTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTTATTTGTTTTAAAT
Found at i:13537785 original size:18 final size:18
Alignment explanation
Indices: 13537764--13537799 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13537754 TTGTCATCCC
*
13537764 TTTTCATTTTTGATCTTT
1 TTTTAATTTTTGATCTTT
13537782 TTTTAATTTTTGATCTTT
1 TTTTAATTTTTGATCTTT
13537800 GATTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.72
Consensus pattern (18 bp):
TTTTAATTTTTGATCTTT
Found at i:13537927 original size:19 final size:19
Alignment explanation
Indices: 13537877--13537927 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
13537867 ATTTTTTCCA
*
13537877 TTTTGTCATTTTTTCTTCAT
1 TTTTGT-ATTTTTTATTCAT
* *
13537897 TTTTGAAATTTTTATT-ACT
1 TTTTGTATTTTTTATTCA-T
13537916 TTTTGTATTTTT
1 TTTTGTATTTTT
13537928 CTAATTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 1 0.04
19 19 0.76
20 5 0.20
ACGTcount: A:0.16, C:0.08, G:0.06, T:0.71
Consensus pattern (19 bp):
TTTTGTATTTTTTATTCAT
Found at i:13538015 original size:21 final size:21
Alignment explanation
Indices: 13537986--13538037 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
13537976 ATGTTTTCTA
* *
13537986 TTTTGTTTTTTTGTAATT-TT
1 TTTTCTTTTTTAGTAATTATT
*
13538006 TTTCTCTTTTTTAGTACTTATT
1 TTT-TCTTTTTTAGTAATTATT
13538028 TTTTCTTTTT
1 TTTTCTTTTT
13538038 CCTTTTGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.11
21 19 0.70
22 5 0.19
ACGTcount: A:0.10, C:0.08, G:0.06, T:0.77
Consensus pattern (21 bp):
TTTTCTTTTTTAGTAATTATT
Found at i:13539006 original size:16 final size:15
Alignment explanation
Indices: 13538981--13539042 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
13538971 TTTTTTCTTC
*
13538981 CTTTAATTTTT-TAT
1 CTTTATTTTTTATAT
13538995 CTTTGATTTTTTATAT
1 CTTT-ATTTTTTATAT
*
13539011 CTTTATTTCTTATTATT
1 CTTTATTTTTTA-TA-T
13539028 CGTTATATTTTTTAT
1 C-TT-TATTTTTTAT
13539043 TTTTTGTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 4 0.10
15 13 0.33
16 9 0.23
17 2 0.05
18 3 0.08
19 8 0.21
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.69
Consensus pattern (15 bp):
CTTTATTTTTTATAT
Found at i:13539277 original size:35 final size:35
Alignment explanation
Indices: 13539209--13539287 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 35
13539199 TTTTTTAGTA
13539209 CTTATTTTATCTTTTTCCTTTTGCTTTAATATTTTCT
1 CTTATTTTA-CTTTTTCCTTTTGCTTTAATATTTT-T
* *
13539246 CTTATTTTA-TTTTTCCTTTTATCTTT-TTATTTTT
1 CTTATTTTACTTTTTCCTTTT-GCTTTAATATTTTT
*
13539280 GTTATTTT
1 CTTATTTT
13539288 TATAAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
34 8 0.21
35 17 0.45
36 4 0.11
37 9 0.24
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (35 bp):
CTTATTTTACTTTTTCCTTTTGCTTTAATATTTTT
Found at i:13539384 original size:11 final size:11
Alignment explanation
Indices: 13539370--13539403 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
13539360 TTTGTTGTCA
13539370 TTTTT-TATTT
1 TTTTTCTATTT
13539380 TTTTTCTATTT
1 TTTTTCTATTT
*
13539391 TTATTCTATTT
1 TTTTTCTATTT
13539402 TT
1 TT
13539404 ATAATTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTATTT
Found at i:13539404 original size:11 final size:11
Alignment explanation
Indices: 13539375--13539405 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13539365 TGTCATTTTT
*
13539375 TATTTTTTTTC
1 TATTTTTATTC
13539386 TATTTTTATTC
1 TATTTTTATTC
13539397 TATTTTTAT
1 TATTTTTAT
13539406 AATTTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (11 bp):
TATTTTTATTC
Found at i:13539537 original size:14 final size:14
Alignment explanation
Indices: 13539518--13539544 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13539508 TTTTCCTTCT
13539518 TATTTTATTTTATA
1 TATTTTATTTTATA
13539532 TATTTTATTTTAT
1 TATTTTATTTTAT
13539545 TTTTATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTATTTTATA
Found at i:13539564 original size:17 final size:18
Alignment explanation
Indices: 13539543--13539585 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
13539533 ATTTTATTTT
* *
13539543 ATTTTTATTTTTTCTTGC
1 ATTTTTATTTTGTATTGC
13539561 -TTTTTATTTTGTATTGC
1 ATTTTTATTTTGTATTGC
13539578 ATTTTTAT
1 ATTTTTAT
13539586 AATTTTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (18 bp):
ATTTTTATTTTGTATTGC
Found at i:13539942 original size:18 final size:18
Alignment explanation
Indices: 13539921--13539956 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13539911 TTTGTCATCC
*
13539921 CTTTTCATTTTTGATCTT
1 CTTTTAATTTTTGATCTT
13539939 CTTTTAATTTTTGATCTT
1 CTTTTAATTTTTGATCTT
13539957 TGATTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.67
Consensus pattern (18 bp):
CTTTTAATTTTTGATCTT
Found at i:13539999 original size:18 final size:19
Alignment explanation
Indices: 13539972--13540007 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13539962 TTTATACCTT
13539972 TATTTCTTATTATTTGTTA
1 TATTTCTTATTATTTGTTA
*
13539991 TATTT-TTATTTTTTGTT
1 TATTTCTTATTATTTGTT
13540008 CGTATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.75
Consensus pattern (19 bp):
TATTTCTTATTATTTGTTA
Found at i:13540112 original size:16 final size:15
Alignment explanation
Indices: 13540093--13540135 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
13540083 TCTTTTTAAC
13540093 TCGTTATTTTTTCATT
1 TCGTTATTTTTT-ATT
13540109 TCGTTACTTTTTTATT
1 TCGTTA-TTTTTTATT
*
13540125 T-TTTATTTTTT
1 TCGTTATTTTTT
13540136 GTGCTTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 6 0.24
15 3 0.12
16 10 0.40
17 6 0.24
ACGTcount: A:0.12, C:0.09, G:0.05, T:0.74
Consensus pattern (15 bp):
TCGTTATTTTTTATT
Found at i:13540477 original size:18 final size:18
Alignment explanation
Indices: 13540456--13540495 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
13540446 TATGCTTTCA
13540456 TTTTCATTTGTTTT-AATT
1 TTTTCA-TTGTTTTAAATT
13540474 TTTTCATTGTTTTAAATT
1 TTTTCATTGTTTTAAATT
13540492 TTTT
1 TTTT
13540496 TATATTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTCATTGTTTTAAATT
Found at i:13540601 original size:26 final size:26
Alignment explanation
Indices: 13540558--13540607 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
13540548 TCTTTGCTTG
*
13540558 CTTTTCTCATTTACTTTTTATTTTGC
1 CTTTTCTCATTTACTTTTCATTTTGC
* **
13540584 CTTTTCTCCTTTTTTTTTCATTTT
1 CTTTTCTCATTTACTTTTCATTTT
13540608 TATTTCGCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.70
Consensus pattern (26 bp):
CTTTTCTCATTTACTTTTCATTTTGC
Found at i:13540764 original size:11 final size:12
Alignment explanation
Indices: 13540741--13540770 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
13540731 TTCCATTTCA
13540741 TTTTTCAATTTT
1 TTTTTCAATTTT
13540753 TTTTTCAATTTT
1 TTTTTCAATTTT
13540765 TGTTTT
1 T-TTTT
13540771 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTTTCAATTTT
Found at i:13540779 original size:15 final size:15
Alignment explanation
Indices: 13540751--13540833 Score: 60
Period size: 15 Copynumber: 5.5 Consensus size: 15
13540741 TTTTTCAATT
* *
13540751 TTTTTTTCAATTTTTG
1 TTTTTTT-ATTTTTTA
13540767 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
* *
13540782 TTTTCTTACTTTTTA
1 TTTTTTTATTTTTTA
* *
13540797 TATTTTTATTGTATT-
1 TTTTTTTATT-TTTTA
* * *
13540812 TTTGTTTATTCTTTC
1 TTTTTTTATTTTTTA
13540827 TTTTTTT
1 TTTTTTT
13540834 GTGCTTTATT
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
14 2 0.04
15 40 0.77
16 10 0.19
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTTTTTATTTTTTA
Found at i:13540816 original size:8 final size:7
Alignment explanation
Indices: 13540768--13540806 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
13540758 CAATTTTTGT
13540768 TTTTTTA
1 TTTTTTA
13540775 TTTTTTA
1 TTTTTTA
13540782 TTTTCTTA
1 TTTT-TTA
*
13540790 CTTTTTA
1 TTTTTTA
13540797 TATTTTTA
1 T-TTTTTA
13540805 TT
1 TT
13540807 GTATTTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:13540884 original size:22 final size:22
Alignment explanation
Indices: 13540837--13540894 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
13540827 TTTTTTTGTG
13540837 CTTTATTTATCTTTTTTCTTAT
1 CTTTATTTATCTTTTTTCTTAT
* *
13540859 -TTTATTTTTGTTTATTTCTT-T
1 CTTTATTTATCTTT-TTTCTTAT
*
13540880 CTTTATTTATATTTT
1 CTTTATTTATCTTTT
13540895 CATATATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.76
Consensus pattern (22 bp):
CTTTATTTATCTTTTTTCTTAT
Found at i:13540885 original size:27 final size:27
Alignment explanation
Indices: 13540801--13540894 Score: 95
Period size: 28 Copynumber: 3.5 Consensus size: 27
13540791 TTTTTATATT
*
13540801 TTTATTGTATTTTTGTTTA-TTCTTTC
1 TTTATTTTATTTTTGTTTATTTCTTTC
* * * *
13540827 TTT-TTTTGTGCTTTATTTATCTTTTTTC
1 TTTATTTTAT-TTTTGTTTAT-TTCTTTC
13540855 -TTATTTTATTTTTGTTTATTTCTTTC
1 TTTATTTTATTTTTGTTTATTTCTTTC
13540881 TTTATTTATATTTT
1 TTTATTT-TATTTT
13540895 CATATATTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
25 4 0.08
26 16 0.30
27 16 0.30
28 17 0.32
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (27 bp):
TTTATTTTATTTTTGTTTATTTCTTTC
Found at i:13540905 original size:53 final size:53
Alignment explanation
Indices: 13540802--13540905 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 53
13540792 TTTTATATTT
* * * * *
13540802 TTATTGTATTTTTGTTTATTCTTTCTTTTTTTGTGCTTTATTTATCTTTTTTC
1 TTATTGTATTTTTGTTTATTCTTTCTTTATTTATGATTTATATATATTTTTTC
*
13540855 TTATTTTATTTTTGTTTATTTCTTTCTTTATTTAT-ATTT-TCATATATTTTT
1 TTATTGTATTTTTGTTTA-TTCTTTCTTTATTTATGATTTAT-ATATATTTTT
13540906 ATAATGTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
52 1 0.02
53 28 0.65
54 14 0.33
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (53 bp):
TTATTGTATTTTTGTTTATTCTTTCTTTATTTATGATTTATATATATTTTTTC
Found at i:13541369 original size:18 final size:18
Alignment explanation
Indices: 13541348--13541383 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13541338 TTTGTCATCC
*
13541348 CTTTTCATTTTTGATCTT
1 CTTTTAATTTTTGATCTT
*
13541366 CTTTTAATTTTTTATCTT
1 CTTTTAATTTTTGATCTT
13541384 TGATTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (18 bp):
CTTTTAATTTTTGATCTT
Found at i:13541566 original size:7 final size:7
Alignment explanation
Indices: 13541536--13541696 Score: 53
Period size: 7 Copynumber: 21.6 Consensus size: 7
13541526 CTTTGACTCG
13541536 TTATTTT
1 TTATTTT
*
13541543 TTCTTTT
1 TTATTTT
13541550 CCTTACTTTT
1 --TTA-TTTT
13541560 TTATTTT
1 TTATTTT
*
13541567 TT-TTAT
1 TTATTTT
13541573 TT-TTTT
1 TTATTTT
*
13541579 TT-TTGT
1 TTATTTT
*
13541585 TTATTTG
1 TTATTTT
*
13541592 TAATTTTT
1 TTA-TTTT
*
13541600 TCTCTTTT
1 T-TATTTT
* **
13541608 TTAGTAC
1 TTATTTT
13541615 TTATTTT
1 TTATTTT
*
13541622 TTCTTTT
1 TTATTTT
13541629 TCCT-TTTGCT
1 T--TATTT--T
13541639 TTAATATTT
1 TT-AT-TTT
*
13541648 TTGTTATT
1 TTATT-TT
13541656 TTATTTT
1 TTATTTT
13541663 TTATTTT
1 TTATTTT
13541670 TTATTTT
1 TTATTTT
13541677 TGTGATTTT
1 T-T-ATTTT
13541686 TGT-TTTT
1 T-TATTTT
13541693 TTAT
1 TTAT
13541697 AAAAATTTTA
Statistics
Matches: 116, Mismatches: 21, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
6 16 0.14
7 53 0.46
8 24 0.21
9 14 0.12
10 7 0.06
11 2 0.02
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (7 bp):
TTATTTT
Found at i:13542682 original size:17 final size:17
Alignment explanation
Indices: 13542662--13542710 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
13542652 TAAACTAAAT
13542662 TTTTTTCTATTTTGTCA
1 TTTTTTCTATTTTGTCA
* * *
13542679 TTTTTTCCATTTTTATTA
1 TTTTTTCTA-TTTTGTCA
13542697 TTTTTT-TATTTTGT
1 TTTTTTCTATTTTGT
13542711 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 5 0.19
17 9 0.35
18 12 0.46
ACGTcount: A:0.12, C:0.08, G:0.04, T:0.76
Consensus pattern (17 bp):
TTTTTTCTATTTTGTCA
Found at i:13542873 original size:35 final size:35
Alignment explanation
Indices: 13542805--13542883 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 35
13542795 TTTTTTAGTA
13542805 CTTATTTTATCTTTTTTCTTTTGCTTTAATATTTTCT
1 CTTATTTTA-CTTTTTTCTTTTGCTTTAATATTTT-T
* *
13542842 CTTATTTTA-TTTTTTCTTTTATCTTT-TTATTTTT
1 CTTATTTTACTTTTTTCTTTT-GCTTTAATATTTTT
*
13542876 GTTATTTT
1 CTTATTTT
13542884 TATAAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
34 8 0.21
35 17 0.45
36 4 0.11
37 9 0.24
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.75
Consensus pattern (35 bp):
CTTATTTTACTTTTTTCTTTTGCTTTAATATTTTT
Found at i:13543484 original size:18 final size:18
Alignment explanation
Indices: 13543463--13543498 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13543453 TTTGTTGTCC
13543463 CTTTTCATTTTTGATCTT
1 CTTTTCATTTTTGATCTT
* *
13543481 CTTTTTATTTTTTATCTT
1 CTTTTCATTTTTGATCTT
13543499 TGATTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.14, G:0.03, T:0.72
Consensus pattern (18 bp):
CTTTTCATTTTTGATCTT
Found at i:13543541 original size:18 final size:19
Alignment explanation
Indices: 13543514--13543558 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
13543504 TTTATACCTT
13543514 TATTTCTTATTATTTGTT-A
1 TATTT-TTATTATTTGTTCA
*
13543533 TATTTTTATTTTTTGTTCA
1 TATTTTTATTATTTGTTCA
13543552 TATTTTT
1 TATTTTT
13543559 TAAACTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (19 bp):
TATTTTTATTATTTGTTCA
Found at i:13543677 original size:24 final size:26
Alignment explanation
Indices: 13543649--13543705 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
13543639 TTTTGACTCG
13543649 TTATTTTCTCATTTC-GTTGC-TTT-T
1 TTATTTTCTCATTTCTG-TGCTTTTGT
* *
13543673 TTATTTTTTCTTTTCTGTGCTTTTGT
1 TTATTTTCTCATTTCTGTGCTTTTGT
13543699 TTATTTT
1 TTATTTT
13543706 AAATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 16 0.57
25 4 0.14
26 8 0.29
ACGTcount: A:0.07, C:0.12, G:0.09, T:0.72
Consensus pattern (26 bp):
TTATTTTCTCATTTCTGTGCTTTTGT
Found at i:13543778 original size:14 final size:13
Alignment explanation
Indices: 13543761--13543803 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
13543751 GCTTTAATAT
13543761 TTTCTCTTTTTTTA
1 TTTCT-TTTTTTTA
13543775 TTTCTTATTTTTTA
1 TTTCTT-TTTTTTA
*
13543789 TTTTTGTTTTTTTA
1 TTTCT-TTTTTTTA
13543803 T
1 T
13543804 AAAAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTCTTTTTTTTA
Found at i:13559227 original size:14 final size:14
Alignment explanation
Indices: 13559208--13559235 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13559198 ATTCCTGGAC
13559208 AAGCAAAAGAGAAA
1 AAGCAAAAGAGAAA
13559222 AAGCAAAAGAGAAA
1 AAGCAAAAGAGAAA
13559236 GAAACAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.21, T:0.00
Consensus pattern (14 bp):
AAGCAAAAGAGAAA
Found at i:13561416 original size:3 final size:3
Alignment explanation
Indices: 13561408--13561449 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
13561398 ATAGAATATC
13561408 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13561450 TCCATTGCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13570960 original size:18 final size:17
Alignment explanation
Indices: 13570937--13571162 Score: 59
Period size: 14 Copynumber: 13.8 Consensus size: 17
13570927 TAACAATTTA
13570937 TATATAATATAATATAAT
1 TATATAATATAAT-TAAT
*
13570955 TATATATTATAATTAATATT
1 TATATAATATAATT-A-A-T
*
13570975 TATTTAATGTTAATAATTAAT
1 TATATAA---T-ATAATTAAT
*
13570996 T-T-TAAT-TAATTTAT
1 TATATAATATAATTAAT
* *
13571010 TAGTATATCTCTATAATTTAT
1 TA-TATA---ATATAATTAAT
13571031 T-TA-AATA-AATTAAT
1 TATATAATATAATTAAT
13571045 TAT-TAATA-AA-TAA-
1 TATATAATATAATTAAT
13571058 T-T-TAATATAA-TAAT
1 TATATAATATAATTAAT
13571072 TATAT-AT-TAA-TAAT
1 TATATAATATAATTAAT
* *
13571086 TATAT-ATTTAAATAAT
1 TATATAATATAATTAAT
13571102 TA-ATAA-A-ACA--AAT
1 TATATAATATA-ATTAAT
*
13571115 TATAT-ATATTATTAGAT
1 TATATAATATAATTA-AT
13571132 T-TATAATATATATTAAT
1 TATATAATATA-ATTAAT
*
13571149 TATAATTATATAAT
1 TAT-ATAATATAAT
13571163 AAACAATAAT
Statistics
Matches: 163, Mismatches: 11, Indels: 68
0.67 0.05 0.28
Matches are distributed among these distances:
12 6 0.04
13 12 0.07
14 38 0.23
15 18 0.11
16 14 0.09
17 13 0.08
18 21 0.13
19 13 0.08
20 8 0.05
21 11 0.07
22 1 0.01
23 2 0.01
24 6 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (17 bp):
TATATAATATAATTAAT
Found at i:13570977 original size:20 final size:21
Alignment explanation
Indices: 13570935--13570977 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
13570925 GCTAACAATT
13570935 TATATATAATATAATATAATTA
1 TATATATAATATAATAT-ATTA
13570957 TATATTATAAT-TAATAT-TTA
1 TATA-TATAATATAATATATTA
13570977 T
1 T
13570978 TTAATGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.20
22 10 0.50
23 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATATATAATATAATATATTA
Found at i:13571087 original size:7 final size:7
Alignment explanation
Indices: 13571038--13571107 Score: 52
Period size: 7 Copynumber: 9.3 Consensus size: 7
13571028 TATTTAAATA
13571038 AATTAAT
1 AATTAAT
*
13571045 TATTAAT
1 AATTAAT
*
13571052 AAATAATTT
1 AATTAA--T
13571061 AATATAAT
1 AAT-TAAT
13571069 AATT-AT
1 AATTAAT
13571075 ATATTAAT
1 A-ATTAAT
13571083 AATTATAT
1 AATTA-AT
*
13571091 ATTTAAAT
1 AATT-AAT
13571099 AATTAAT
1 AATTAAT
13571106 AA
1 AA
13571108 AACAAATTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
6 3 0.06
7 23 0.46
8 17 0.34
9 4 0.08
10 3 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
AATTAAT
Found at i:13571218 original size:22 final size:23
Alignment explanation
Indices: 13571187--13571251 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 23
13571177 TTTATTCTTT
13571187 ATAGTTATTATA-ATATTATAAAA
1 ATAG-TATTATAGATATTATAAAA
* *
13571210 ATAGTATTA-AGTTATTTTATAAA
1 ATAGTATTATAGATATTATA-AAA
*
13571233 AT--TATTATATATATTATAA
1 ATAGTATTATAGATATTATAA
13571252 TAATTTTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 7 0.21
22 18 0.53
23 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATAGTATTATAGATATTATAAAA
Found at i:13571437 original size:17 final size:19
Alignment explanation
Indices: 13571412--13571454 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
13571402 ACAATTATCT
13571412 TATAATAT-ATAA-AATTA
1 TATAATATAATAATAATTA
*
13571429 TATATTATAATAATAATTA
1 TATAATATAATAATAATTA
13571448 TA-AATAT
1 TATAATAT
13571455 TTTTATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 7 0.32
18 8 0.36
19 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TATAATATAATAATAATTA
Found at i:13571449 original size:27 final size:28
Alignment explanation
Indices: 13571413--13571472 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
13571403 CAATTATCTT
13571413 ATAATATATAAA-ATTATATATTATAATA
1 ATAATATATAAATATT-TATATTATAATA
*
13571441 ATAAT-TATAAATATTTTTATTATAATA
1 ATAATATATAAATATTTATATTATAATA
13571468 A-AATA
1 ATAATA
13571473 AATTATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.10
27 18 0.62
28 8 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATAATATATAAATATTTATATTATAATA
Found at i:13571597 original size:13 final size:13
Alignment explanation
Indices: 13571581--13571630 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
13571571 TTATTGTTAT
13571581 TAATAATTAATTA
1 TAATAATTAATTA
*
13571594 TAATAACAATAATTA
1 TAAT-A-ATTAATTA
13571609 TAATAA-TATATTA
1 TAATAATTA-ATTA
13571622 TAATAATTA
1 TAATAATTA
13571631 TATTGTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
12 2 0.06
13 15 0.47
14 4 0.12
15 11 0.34
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATAATTAATTA
Found at i:13571608 original size:15 final size:14
Alignment explanation
Indices: 13571588--13571627 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
13571578 TATTAATAAT
13571588 TAATTATAATAACAA
1 TAATTATAATAA-AA
*
13571603 TAATTATAATAATA
1 TAATTATAATAAAA
13571617 T-ATTATAATAA
1 TAATTATAATAA
13571628 TTATATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 10 0.42
14 2 0.08
15 12 0.50
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATTATAATAAAA
Found at i:13571847 original size:32 final size:32
Alignment explanation
Indices: 13571763--13571864 Score: 106
Period size: 32 Copynumber: 3.2 Consensus size: 32
13571753 ATATTTTCAT
* *
13571763 TATTATTATATGAAAATATAGTTTT--AA-ATA
1 TATTATTATAT-AAATTATAATTTTAAAATATA
*
13571793 TATT-TTAAAT-AATATATAAATTTTAAAATATA
1 TATTATTATATAAAT-TAT-AATTTTAAAATATA
*
13571825 TATTATTATATAAATTATAATTTTAAATTATA
1 TATTATTATATAAATTATAATTTTAAAATATA
13571857 TATTATTA
1 TATTATTA
13571865 AAATGAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
27 2 0.03
28 3 0.05
29 10 0.17
30 4 0.07
31 2 0.03
32 28 0.47
33 8 0.13
34 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (32 bp):
TATTATTATATAAATTATAATTTTAAAATATA
Found at i:13571853 original size:13 final size:15
Alignment explanation
Indices: 13571818--13571866 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 15
13571808 ATAAATTTTA
13571818 AAATATATATTATTATAT
1 AAAT-TATA-TATTAT-T
13571836 AAATTATA-ATT-TT
1 AAATTATATATTATT
13571849 AAATTATATATTATT
1 AAATTATATATTATT
13571864 AAA
1 AAA
13571867 ATGAATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.31
14 4 0.14
15 8 0.28
17 4 0.14
18 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATTATATATTATT
Found at i:13572325 original size:24 final size:26
Alignment explanation
Indices: 13572298--13572367 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 26
13572288 TTAATTAATT
13572298 ATTATATAA-ATATAATATTCATAA-
1 ATTATATAATATATAATATTCATAAC
* *
13572322 ATTAT-TAATATATGATATTTATAAC
1 ATTATATAATATATAATATTCATAAC
13572347 A-TATAATAATTATATAATATT
1 ATTAT-ATAA-TATATAATATT
13572368 TTTAATGTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 3 0.08
24 21 0.55
25 1 0.03
26 3 0.08
27 10 0.26
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (26 bp):
ATTATATAATATATAATATTCATAAC
Found at i:13572530 original size:11 final size:13
Alignment explanation
Indices: 13572496--13572525 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13572486 GCATTATTAA
*
13572496 ATTATATTTAAAT
1 ATTATAATTAAAT
13572509 ATTATAATTAAAT
1 ATTATAATTAAAT
13572522 ATTA
1 ATTA
13572526 ATTAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTATAATTAAAT
Found at i:13572751 original size:31 final size:32
Alignment explanation
Indices: 13572690--13572752 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
13572680 TTGGGATAAA
13572690 TAAATTATAATATTTATAATTAAATAAATTAT
1 TAAATTATAATATTTATAATTAAATAAATTAT
* *
13572722 TAAATTAT-ATA-TTATTATTATAATCAATTAT
1 TAAATTATAATATTTATAATTA-AATAAATTAT
13572753 GTTAATTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 8 0.29
31 12 0.43
32 8 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (32 bp):
TAAATTATAATATTTATAATTAAATAAATTAT
Found at i:13572874 original size:29 final size:27
Alignment explanation
Indices: 13572826--13572891 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 27
13572816 AACGACAATT
* *
13572826 TATTATTAATAGTATATAACTTGTATAATA
1 TATTA-TAATAATAAATAAC-T-TATAATA
13572856 TATTATAATAATAAATAACTTATAATA
1 TATTATAATAATAAATAACTTATAATA
13572883 T-TTATAATA
1 TATTATAATA
13572892 TTATTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 8 0.24
27 8 0.24
28 1 0.03
29 12 0.35
30 5 0.15
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (27 bp):
TATTATAATAATAAATAACTTATAATA
Found at i:13573038 original size:13 final size:13
Alignment explanation
Indices: 13573020--13573122 Score: 51
Period size: 13 Copynumber: 8.3 Consensus size: 13
13573010 AATTTATTTA
13573020 ATTATATAATATT
1 ATTATATAATATT
*
13573033 ATTATAT-AT-TA
1 ATTATATAATATT
* *
13573044 AATATGTAA-ATT
1 ATTATATAATATT
* *
13573056 A-AATAT-TTATT
1 ATTATATAATATT
* *
13573067 ATAATATAATAAAT
1 ATTATATAAT-ATT
13573081 ATTATATAAT-TGT
1 ATTATATAATAT-T
13573094 ATTAT-TAAT-TT
1 ATTATATAATATT
*
13573105 AATTATATAATAAT
1 -ATTATATAATATT
13573119 ATTA
1 ATTA
13573123 AATTTATTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
11 14 0.21
12 20 0.29
13 22 0.32
14 12 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
ATTATATAATATT
Found at i:13573437 original size:16 final size:18
Alignment explanation
Indices: 13573418--13573452 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
13573408 ATTTAGGATA
13573418 TTTAA-TATTTA-ATAAT
1 TTTAATTATTTATATAAT
13573434 TTTAATTATTTATATAAT
1 TTTAATTATTTATATAAT
13573452 T
1 T
13573453 AATACTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATTATTTATATAAT
Found at i:13573627 original size:26 final size:29
Alignment explanation
Indices: 13573598--13573650 Score: 76
Period size: 26 Copynumber: 1.9 Consensus size: 29
13573588 ATTTTAATTC
*
13573598 TTATATTTAT-AAT-TTGTAAA-TAATCA
1 TTATATTAATAAATATTGTAAACTAATCA
13573624 TTATATTAATAAATATTGTAAACTAAT
1 TTATATTAATAAATATTGTAAACTAAT
13573651 AGATGTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 3 0.13
28 7 0.30
29 4 0.17
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (29 bp):
TTATATTAATAAATATTGTAAACTAATCA
Found at i:13574337 original size:162 final size:163
Alignment explanation
Indices: 13574153--13574457 Score: 364
Period size: 162 Copynumber: 1.9 Consensus size: 163
13574143 GTTTTATGTC
* * * * * *
13574153 AAAACAAAAGTTCATAATGATTTGAAATAGATAAATGTTTAAATGGCCATAATTATTTTAA-TTG
1 AAAACAAAAGGTCATAATGATTTGAAATAGATAAATATTCAAATAGCCATAACTATTTGAACTTG
13574217 ATTCAATAAACT-AATTTATGTTTT-AAATCTTTAACTTATCAATTTTTAAAATATTAATAAAAT
66 -TTCAATAAA-TAAATTTATGTTTTAAAATCTTTAACTTATCAATTTTTAAAATATTAATAAAAT
13574280 AATAATATTTTATTTAGGACAAGCTTGTATGATCT
129 AATAATATTTTATTTAGGACAAGCTTGTATGATCT
* * * * *
13574315 AAAATAAAAGGTCATAATGATTTTAGATAGATAATTATTCAAATAGTCATAACTATTTGAACTTG
1 AAAACAAAAGGTCATAATGATTTGAAATAGATAAATATTCAAATAGCCATAACTATTTGAACTTG
* * * * ** * ** * *
13574380 TTTAGTAAATAAATTTATTTTTTAAAATTTTTTGCTTATTAATTTTTTGAATATTAATAAATTAG
66 TTCAATAAATAAATTTATGTTTTAAAATCTTTAACTTATCAATTTTTAAAATATTAATAAAATAA
*
13574445 TATTATTTTATTT
131 TAATATTTTATTT
13574458 TGAATAATCA
Statistics
Matches: 117, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
161 1 0.01
162 68 0.58
163 48 0.41
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.45
Consensus pattern (163 bp):
AAAACAAAAGGTCATAATGATTTGAAATAGATAAATATTCAAATAGCCATAACTATTTGAACTTG
TTCAATAAATAAATTTATGTTTTAAAATCTTTAACTTATCAATTTTTAAAATATTAATAAAATAA
TAATATTTTATTTAGGACAAGCTTGTATGATCT
Found at i:13575224 original size:180 final size:181
Alignment explanation
Indices: 13574826--13575270 Score: 436
Period size: 180 Copynumber: 2.4 Consensus size: 181
13574816 AATAATTGTA
* * * * *
13574826 TATGAATAGAAACAATTGTTTTACAACAAAATAAAATG-TCATTACAATTTGAAATAGATAATAA
1 TATGAACAAAAACAATTGTTTTACAACAAAA-CAAATGATCATAACAATTTGAAATAAATAAT--
** * * *** * *
13574890 TAGTTCAAATGGA-CATGACTATTTGAA-TTGGTTCGATAAACTAATTAATTTTTTAAATCTTCA
63 TA-TTCAAA-CAATCATAACTTTTTGAACTCACTT-GGTAAACAAATTAATTTTTTAAATCTTCA
** * **
13574953 ACTTATTAATTTTTAGAATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTG
125 ACTTACCAATTTTTAGAATATTAATATATTACAATTATTTTATTCCAAATAAACTTG
* * * *
13575010 TATGAATAGAAACAATTGTTTTACAACAAAACAAAAT-ATCATAACCATTTGAAATAAATAATTG
1 TATGAACAAAAACAATTGTTTTACAACAAAAC-AAATGATCATAACAATTTGAAATAAATAATTA
* **
13575074 TTCAAACAATCATAACTTTTTGAACTCACTTGGTAAACAAATTCATTTTTTAAATCTTTTACTTA
65 TTCAAACAATCATAACTTTTTGAACTCACTTGGTAAACAAATTAATTTTTTAAATCTTCAACTTA
* *
13575139 CCAA-TTTTGGAATATTAAT-TAATTACAATTATTTTATTCCAAATAAGCTTG
130 CCAATTTTTAGAATATTAATAT-ATTACAATTATTTTATTCCAAATAAACTTG
* ** * * *
13575190 TTTGAACAAAAACAATT-TGTTTATTACAAAACAAATGGTCATAATAATTTGAAATAGATAATTA
1 TATGAACAAAAACAATTGT-TTTACAACAAAACAAATGATCATAACAATTTGAAATAAATAATTA
* *
13575254 TTCAAATAGTCATAACT
65 TTCAAACAATCATAACT
13575271 ATATGAATGT
Statistics
Matches: 218, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
179 6 0.03
180 103 0.47
181 49 0.22
182 4 0.02
184 56 0.26
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.38
Consensus pattern (181 bp):
TATGAACAAAAACAATTGTTTTACAACAAAACAAATGATCATAACAATTTGAAATAAATAATTAT
TCAAACAATCATAACTTTTTGAACTCACTTGGTAAACAAATTAATTTTTTAAATCTTCAACTTAC
CAATTTTTAGAATATTAATATATTACAATTATTTTATTCCAAATAAACTTG
Found at i:13575260 original size:361 final size:359
Alignment explanation
Indices: 13574577--13575413 Score: 806
Period size: 361 Copynumber: 2.3 Consensus size: 359
13574567 AAATGCATTT
* * * * **
13574577 ATTTTTTAAATCCTT-ACTTATTAATTTTTAGAATATTATTAACTTAGCAATATTTTACTCTGAA
1 ATTTTTTAAAT-CTTAACTTATTAATTTTTAGAATATTAATAACTTAGTATTATTTTATTCAAAA
* * * ** *
13574641 TAAGCTTGTATGAATAGAAACAAATGTTTTAAGACAAAAC-AAAGATCATAACGATTTGCGATAG
65 TAAGCTTGTATGAATAGAAACAATTGTTTTAA-ACAAAACAAAATATCATAACCATTTGAAATAA
* * * * ** * * *
13574705 ATAATTGTTTAAATAGTTATAACTATTCAAACTGGTTCGATAAAGAGATTTAGTTTTTAAATCTC
129 ATAATTGTTCAAACAATCATAACTATTCAAACTACTTCGATAAACAAATTCAGTTTTTAAATCTC
* ** * * *
13574770 TTATTAATTTTTGAAATAGTAATAAATTAGTATTATTTTATTATAAAATAATTGTATATGAATAG
194 TTATTAAATTTTGAAATAGTAATAAATTACAATTATTTTATTACAAAATAATTGTATATGAACAA
*
13574835 AAACAATTGTTTTACAACAAAATAAAATGTCATTACAATTTGAAATAGATAATAATAGTTCAAAT
259 AAACAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAAT-ATAGTTCAAAT
* * * *
13574900 GGACATGACTATTTGAAT-TGGTTCGATAAACTA-ATTA
323 AGACATAACTATATGAATGTGGTTAGA-AAA-TAGATTA
* *
13574937 ATTTTTTAAATCTTCAACTTATTAATTTTTAGAATGTTAATATA-TTAGTATTATTTTATTCCAA
1 ATTTTTTAAATCTT-AACTTATTAATTTTTAGAATATTAATA-ACTTAGTATTATTTTATTCAAA
*
13575001 ATAAACTTGTATGAATAGAAACAATTGTTTTACAACAAAACAAAATATCATAACCATTTGAAATA
64 ATAAGCTTGTATGAATAGAAACAATTGTTTTA-AACAAAACAAAATATCATAACCATTTGAAATA
* ** * *
13575066 AATAATTGTTCAAACAATCATAACTTTTTGAACTCACTT-GGTAAACAAATTCATTTTTTAAATC
128 AATAATTGTTCAAACAATCATAACTATTCAAACT-ACTTCGATAAACAAATTCAGTTTTTAAATC
* * * * *
13575130 TTTTACTTACCAATTTTGGAATATTAATTAATTACAATTATTTTATT-CCAAATAAGCTTGT-T-
192 TCTTA-TTA--AATTTTGAAATAGTAATAAATTACAATTATTTTATTACAAAATAA--TTGTATA
** * *
13575192 TGAACAAAAACAATT-TGTTTATTACAAAA-CAAATGGTCATAATAATTTGAAATAGATAAT-TA
252 TGAACAAAAACAATTGT-TTTACAACAAAATAAAAT-GTCATAACAATTTGAAATAGATAATATA
* * * *
13575254 -TTCAAATAGTCATAACTATATGAATGTGTTTAGAAAATAGCTTT
315 GTTCAAATAGACATAACTATATGAATGTGGTTAGAAAATAGATTA
* * * * *
13575298 ATTTTCTAAA-ATTATACTTCTTAATTTTTGGAATATTAATAAATTTA-TATTATTTTATTCAAA
1 ATTTTTTAAATCTTA-ACTTATTAATTTTTAGAATATTAAT-AACTTAGTATTATTTTATTCAAA
* * * * * *
13575361 ATACGCTTGCAT-AAGTAGAAACAATTATTTTATGACAAAACAAAGTGTCATAA
64 ATAAGCTTGTATGAA-TAGAAACAATTGTTTTA-AACAAAACAAAATATCATAA
13575414 TGTTTTGAAA
Statistics
Matches: 392, Mismatches: 66, Indels: 38
0.79 0.13 0.08
Matches are distributed among these distances:
359 6 0.02
360 95 0.24
361 115 0.29
362 79 0.20
363 10 0.03
364 52 0.13
365 31 0.08
366 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (359 bp):
ATTTTTTAAATCTTAACTTATTAATTTTTAGAATATTAATAACTTAGTATTATTTTATTCAAAAT
AAGCTTGTATGAATAGAAACAATTGTTTTAAACAAAACAAAATATCATAACCATTTGAAATAAAT
AATTGTTCAAACAATCATAACTATTCAAACTACTTCGATAAACAAATTCAGTTTTTAAATCTCTT
ATTAAATTTTGAAATAGTAATAAATTACAATTATTTTATTACAAAATAATTGTATATGAACAAAA
ACAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATATAGTTCAAATAGA
CATAACTATATGAATGTGGTTAGAAAATAGATTA
Found at i:13575329 original size:180 final size:180
Alignment explanation
Indices: 13574315--13576998 Score: 1504
Period size: 181 Copynumber: 15.0 Consensus size: 180
13574305 TGTATGATCT
* * * * *
13574315 AAAATAAAAGGTCATAATGATTTTAGATAGATAATTATTCAAATAGTCATAACTATTTGAACTTG
1 AAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG
* * * * * *
13574380 TTTAGTAAATAAATTTATTTTTTAAAATTTTTTGCTTATTAATTTTTTGAATATTAATAAATTAG
66 GTTAGAAAATAGATTTATTTTTTAAAA--TTATACTTATTAATTTTTGGAATATTAATAAATTAG
*** * * *
13574445 TATTATTTTATTTTGAATAATCATGTATGAACT-GAAACAATTATTTTATGAC
129 TATTATTTTATTCAAAATAAGCTTGTATGAA-TAGAAACAATTGTTTTATGAC
* * * * * * *
13574497 TAAGCAAAAGGTTAGAATGATTTGAAATAGATAATTGTTC-AATATTCATAATTATTTGAAC-TG
1 AAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG
* * * * *
13574560 GATCAGCAAAT-GCATTTATTTTTT-AAATCCT-TACTTATTAATTTTTAGAATATTATTAACTT
66 G-TTAGAAAATAG-ATTTATTTTTTAAAAT--TATACTTATTAATTTTTGGAATATTAATAAATT
* * * ** * *
13574622 AGCAATATTTTACTCTGAATAAGCTTGTATGAATAGAAACAAATGTTTTAAGAC
127 AGTATTATTTTATTCAAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGAC
* * ** * * **
13574676 AAAACAAA-GATCATAACGATTTGCGATAGATAATTGTTTAAATAGTTATAACTATTCAAAC-TG
1 AAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG
* * * * * *
13574739 GTTCGATAAAGAGATTTAGTTTTT-AAA-TCT-CTTATTAATTTTTGAAATAGTAATAAATTAGT
66 GTTAGA-AAATAGATTTATTTTTTAAAATTATACTTATTAATTTTTGGAATATTAATAAATTAGT
* **
13574801 ATTATTTTATTATAAAATAA--TTGTATATGAATAGAAACAATTGTTTTACAAC
130 ATTATTTTATT-CAAAATAAGCTTG--TATGAATAGAAACAATTGTTTTATGAC
* * ** * * *
13574853 AAAATAAAAT-GTCATTACAATTTGAAATAGATAATAATAGTTCAAATGGACATGACTATTTGAA
1 AAAA-CAAATGGTCATAATGATTTGAAATAGATAAT--T-GTTCAAATAGTCATAACTATTTGAA
* * * * *
13574917 -TTGGTTCGATAAACTA-ATTAATTTTTTAAATCTTCA-ACTTATTAATTTTTAGAATGTTAATA
62 CTTGGTTAGA-AAA-TAGATTTATTTTTTAAA-ATT-ATACTTATTAATTTTTGGAATATTAATA
* * * **
13574979 TATTAGTATTATTTTATTCCAAATAAACTTGTATGAATAGAAACAATTGTTTTACAAC
123 AATTAGTATTATTTTATTCAAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGAC
* ** * * * * *
13575037 AAAACAAAAT-ATCATAACCATTTGAAATAAATAATTGTTCAAACAATCATAACTTTTTGAACTC
1 AAAAC-AAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTT
** * * * * * * * ** * *
13575101 ACTTGGTAAACAAATTCATTTTTTAAATCTTTTACTTACCAA-TTTTGGAATATTAATTAATTAC
65 GGTTAGAAAATAGATTTATTTTTTAAA-ATTATACTTATTAATTTTTGGAATATTAATAAATTAG
* * * * * *
13575165 AATTATTTTATTCCAAATAAGCTTGTTTGAACAAAAACAATT-TGTTTATTAC
129 TATTATTTTATTCAAAATAAGCTTGTATGAATAGAAACAATTGT-TTTATGAC
* * *
13575217 AAAACAAATGGTCATAATAATTTGAAATAGATAATTATTCAAATAGTCATAACTATATGAA-TGT
1 AAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACT-T
* * * *
13575281 GTTTAGAAAATAGCTTTATTTTCTAAAATTATACTTCTTAATTTTTGGAATATTAATAAATTTA-
65 GGTTAGAAAATAGATTTATTTTTTAAAATTATACTTATTAATTTTTGGAATATTAATAAA-TTAG
* * *
13575345 TATTATTTTATTCAAAATACGCTTGCAT-AAGTAGAAACAATTATTTTATGAC
129 TATTATTTTATTCAAAATAAGCTTGTATGAA-TAGAAACAATTGTTTTATGAC
* * * * * *
13575397 AAAACAAA-GTGTCATAATGTTTTGAAATAGATTACTGTTTAGATAGTCATAACTATTTCAACTT
1 AAAACAAATG-GTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTT
* * * * ** * * * **
13575461 -GATCGATAAGA-AAATTCATTTTTTTTAATTAT-GTTA-T--TCTTT--AAT-TT-TTGGA--A
65 GGTTAGA-AA-ATAGATTTATTTTTTAAAATTATACTTATTAATTTTTGGAATATTAATAAATTA
* * * * * *
13575514 -TATTATTTTATCTC-AAATAGGCTTATACGAACTA-AAGCAATTATTTTATTAC
128 GTATTATTTTAT-TCAAAATAAGCTTGTATGAA-TAGAAACAATTGTTTTATGAC
* * * ** * * *
13575566 AAAACAAAAGCTTACGATGATTTGAAATAGATTATTATTCAAATAGTCATGACTATTTGAACTT-
1 AAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG
* * * * * * * * * * *
13575630 ATTCGGCAAACATATTTATTTTTTAAATCTTTTACTTATAAATTGTTGAAATATTAATAAATTAA
66 GTT-AGAAAATAGATTTATTTTTTAAA-ATTATACTTATTAATTTTTGGAATATTAATAAATTAG
* * *
13575695 TATTATTTTATTTC-GAATAAGCTAGTATGAATA-AAAGCAATTGTTTTATGAA
129 TATTATTTTA-TTCAAAATAAGCTTGTATGAATAGAAA-CAATTGTTTTATGAC
** * ** *
13575747 AAAACAAAAAGACATAACAATTTGAAATAAATAATTGTTCAAATAGTCATAA-TGATTTGAACTT
1 AAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACT-ATTTGAACTT
* * * * * *
13575811 GTTTAGTAAATAGATTTA-TTTATAAATCTTTTACTTATTAAGTGTCTT--AAT-TTAATAAATT
65 GGTTAGAAAATAGATTTATTTTTTAAA-ATTATACTTATTAA-T-TTTTGGAATATTAATAAATT
* * * * **
13575872 TGTATTATCTTATTCAAAATAAGCTTGTATGAATGGAAAAAATCATTTTATGAC
127 AGTATTATTTTATTCAAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGAC
* * * * * ** * * * * *
13575926 AAAGCAAAAGGTTATAGTGCTTTTCAATAAATAATTGTTCAAATAATTATAATTATTTAAACTTG
1 AAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG
* * * * * *** * *
13575991 TTTAGTAAATAGATTCATTTTAT-AAATCTATTAATTATTAATTTTCAAAATATTAATAACTTAA
66 GTTAGAAAATAGATTTATTTTTTAAAAT-TA-TACTTATTAATTTTTGGAATATTAATAAATTAG
* * * * *
13576055 TATTATTTTATTTC-GAATAAGCTTATATGAATTGAAAAAAAAT-TTTTATGAC
129 TATTATTTTA-TTCAAAATAAGCTTGTATGAATAG-AAACAATTGTTTTATGAC
* * * ** * * * *
13576107 AGAAGAAAAGGTCATAATGATTTGAAATAGATAATCATTCAAATAGTCATGACTGTTTGATCTAG
1 AAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG
* * * * ** * * ***
13576172 TTTAGTAAACATATTTAATTTTTTACATTTTTTACTTATTAATTGTCAAAATATTAATAAATTTA
66 GTTAGAAAATAGATTT-ATTTTTTA-AAATTATACTTATTAATTTTTGGAATATTAATAAA-TTA
* ** * * * * * * *
13576237 -TATTATTTTAATCTGAATAAGCTTGAATAAATAGAAACTATTATGTTATAAT
128 GTATTATTTTATTCAAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGAC
* * * * *
13576289 AGAACAAAAGGTCATAATGATTTGAAATAAATAATTGCTT-AAATAGTC-TTA--ATTTGAACTA
1 AAAACAAATGGTCATAATGATTTGAAATAGATAATTG-TTCAAATAGTCATAACTATTTGAACTT
* * * * * *
13576350 GTTTGGTAAATATATTTATTTTTTAAAATT-T--TTATTAATTGTTT-AAATATTAATAGATTAG
65 GGTTAGAAAATAGATTTATTTTTTAAAATTATACTTATTAATT-TTTGGAATATTAATAAATTAG
* * * *
13576411 TATTATTTTATTTCGAACA-AA-CTTATATGAACAAAAAC-ATTAGTTTTATGAC
129 TATTATTTTA-TTC-AAAATAAGCTTGTATGAATAGAAACAATT-GTTTTATGAC
* * * ** * * *
13576463 AAAACAAAAGGTTAAAACAACTTGAAATAGATATTTGTTCAAATAGTCATAATTATTTGAA-TTG
1 AAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG
* * * * * *
13576527 GTTAGGTAAATAGAATTATTTTTT-AATTCTCTTACTTATTAATTTTTGAAATTTTAATAAATTT
66 GTTA-GAAAATAGATTTATTTTTTAAAAT-T-ATACTTATTAATTTTTGGAATATTAATAAA-TT
* * * *
13576591 A-TTTTATTTTATTCTAAATAAGCTAGTATGAATTGAAA-ATATTGTTTTATGAC
127 AGTATTATTTTATTCAAAATAAGCTTGTATGAATAGAAACA-ATTGTTTTATGAC
* * * * * ** *
13576644 AAAACAAAAT-GTTATAATGATTTGAAATAAACAATTATTCATATAGTTTTAACTATTTGAACTA
1 AAAAC-AAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTT
* * * * * * *** * *
13576708 GTTTGGCAAATA-ATTTTATTTTTT-AAATCTCTTAGTTATTAGTTTTCAAAATATTATTAGATT
65 GGTTAGAAAATAGA-TTTATTTTTTAAAAT-T-ATACTTATTAATTTTTGGAATATTAATAAATT
* * * *
13576771 AGTTTTATTGTATTTC-AAATAAGCTTGTATGAAACAGAAATAATTGTTTTATGAC
127 AGTATTATTTTA-TTCAAAATAAGCTTGTATG-AATAGAAACAATTGTTTTATGAC
* * ** * * * * ** * *
13576826 --AACAAAAGGTTATAACAATTTGAAGTATACAACTACTCTAATAATCATCAACTATTTGAA-TT
1 AAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCAT-AACTATTTGAACTT
* * * * * *
13576888 GATTTGTAAAACAGATTTATTTTTTTAAATCTCTTACTTATTAATTTTT-GAATGATTAATAAAC
65 GGTTAG-AAAATAGATTTATTTTTTAAAAT-T-ATACTTATTAATTTTTGGAAT-ATTAATAAAT
* * *
13576952 TAGTATTATTTAATTCCAAATAAGCTTGTATG-ATCAAAAACAATTGT
126 TAGTATTATTTTATTCAAAATAAGCTTGTATGAAT-AGAAACAATTGT
13576999 CATATACCCA
Statistics
Matches: 1955, Mismatches: 429, Indels: 237
0.75 0.16 0.09
Matches are distributed among these distances:
168 1 0.00
169 104 0.05
170 11 0.01
171 3 0.00
172 2 0.00
173 10 0.01
174 92 0.05
175 10 0.01
176 52 0.03
177 64 0.03
178 68 0.03
179 279 0.14
180 359 0.18
181 539 0.28
182 248 0.13
183 7 0.00
184 65 0.03
185 38 0.02
186 3 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (180 bp):
AAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG
GTTAGAAAATAGATTTATTTTTTAAAATTATACTTATTAATTTTTGGAATATTAATAAATTAGTA
TTATTTTATTCAAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGAC
Found at i:13575830 original size:181 final size:180
Alignment explanation
Indices: 13575512--13577758 Score: 1228
Period size: 181 Copynumber: 12.3 Consensus size: 180
13575502 TAATTTTTGG
* * * * * *
13575512 AATATTATTTTATCTCAAATAGGCTTA-TACGAACT-AAAGCAATTATTTTATTACAAAACAAAA
1 AATATTATTTTATTTCAAATAAGC-TAGTATGAA-TGAAAACAATTGTTTTATGACAAAACAAAA
* ** * * * * ** *
13575575 GCTTACGATGATTTGAAATAGATTATTATTCAAATAGTCATGACTATTTGAACTTATTCGGCAAA
64 GGTTATAATGATTTGAAATAAATAATTATTCAAATAGTCAT-AATATTTGAACTTGTTTAGTAAA
* * * *
13575640 CATATTTATTTTTTAAATCTTTTACTTATAAATTGTTGAAATATTAATAAATT
128 TAGATTTATTTTTTAAATCTTTTACTTATTAATTGTTAAAATATTAATAAATT
* * *
13575693 AATATTATTTTATTTCGAATAAGCTAGTATGAAT-AAAAGCAATTGTTTTATGAAAAAACAAAAA
1 AATATTATTTTATTTCAAATAAGCTAGTATGAATGAAAA-CAATTGTTTTATGACAAAACAAAAG
** ** *
13575757 GACATAACAATTTGAAATAAATAATTGTTCAAATAGTCATAATGATTTGAACTTGTTTAGTAAAT
65 GTTATAATGATTTGAAATAAATAATTATTCAAATAGTCATAAT-ATTTGAACTTGTTTAGTAAAT
* * *
13575822 AGATTTA-TTTATAAATCTTTTACTTATTAAGTGTCT-TAAT-TTAATAAATT
129 AGATTTATTTTTTAAATCTTTTACTTATTAATTGT-TAAAATATTAATAAATT
** * * ** *
13575872 TGTATTATCTTA-TTCAAAATAAGCTTGTATGAATGGAAAA-AATCATTTTATGACAAAGCAAAA
1 AATATTATTTTATTTC-AAATAAGCTAGTATGAAT-GAAAACAATTGTTTTATGACAAAACAAAA
* * ** * * * *
13575935 GGTTATAGTGCTTTTCAATAAATAATTGTTCAAATAATTATAATTATTTAAACTTGTTTAGTAAA
64 GGTTATAATGATTTGAAATAAATAATTATTCAAATAGTCATAA-TATTTGAACTTGTTTAGTAAA
* * * * *
13576000 TAGATTCATTTTATAAATCTATTAATTATTAATT-TTCAAAATATTAATAACTT
128 TAGATTTATTTTTTAAATCTTTTACTTATTAATTGTT-AAAATATTAATAAATT
* * * * *
13576053 AATATTATTTTATTTCGAATAAGCTTA-TATGAATTGAAAAAAAAT-TTTTATGACAGAAGAAAA
1 AATATTATTTTATTTCAAATAAGC-TAGTATGAA-TGAAAACAATTGTTTTATGACAAAACAAAA
* * * * * * *
13576116 GGTCATAATGATTTGAAATAGATAATCATTCAAATAGTCATGACTGTTTGATCTAGTTTAGTAAA
64 GGTTATAATGATTTGAAATAAATAATTATTCAAATAGTCAT-AATATTTGAACTTGTTTAGTAAA
* * * * *
13576181 CATATTTAATTTTTTACATTTTTTACTTATTAATTGTCAAAATATTAATAAATT
128 TAGATTT-ATTTTTTAAATCTTTTACTTATTAATTGTTAAAATATTAATAAATT
* * * * * * * * * * * *
13576235 TATATTATTTTA-ATCTGAATAAGCTTGAATAAAT-AGAAACTATTATGTTATAATAGAACAAAA
1 AATATTATTTTATTTC-AAATAAGCTAGTATGAATGA-AAACAATTGTTTTATGACAAAACAAAA
* * * * *
13576298 GGTCATAATGATTTGAAATAAATAATTGCTT-AAATAGTC-TTA-ATTTGAACTAGTTTGGTAAA
64 GGTTATAATGATTTGAAATAAATAATT-ATTCAAATAGTCATAATATTTGAACTTGTTTAGTAAA
* * * *
13576360 TATATTTATTTTTTAAA--ATTT--TTATTAATTGTTTAAATATTAATAGATT
128 TAGATTTATTTTTTAAATCTTTTACTTATTAATTGTTAAAATATTAATAAATT
* * * * **
13576409 AGTATTATTTTATTTCGAACAAACTTA-TATGAACAAAAAC-ATTAGTTTTATGACAAAACAAAA
1 AATATTATTTTATTTCAAATAAGC-TAGTATGAATGAAAACAATT-GTTTTATGACAAAACAAAA
* ** * * * * *
13576472 GGTTAAAACAACTTGAAATAGATATTTGTTCAAATAGTCATAATTATTTGAA-TTGGTTAGGTAA
64 GGTTATAATGATTTGAAATAAATAATTATTCAAATAGTCATAA-TATTTGAACTTGTTTA-GTAA
* * * * * *
13576536 ATAGAATTATTTTTTAATTCTCTTACTTATTAATTTTTGAAATTTTAATAAATT
127 ATAGATTTATTTTTTAAATCTTTTACTTATTAATTGTTAAAATATTAATAAATT
* * *
13576590 TATTTTATTTTA-TTCTAAATAAGCTAGTATGAATTGAAAA-TATTGTTTTATGACAAAACAAAA
1 AATATTATTTTATTTC-AAATAAGCTAGTATGAA-TGAAAACAATTGTTTTATGACAAAACAAAA
* * * ** * * *
13576653 TGTTATAATGATTTGAAATAAACAATTATTCATATAGTTTTAACTATTTGAACTAGTTTGGCAAA
64 GGTTATAATGATTTGAAATAAATAATTATTCAAATAGTCATAA-TATTTGAACTTGTTTAGTAAA
* * * * *
13576718 TA-ATTTTATTTTTTAAATCTCTTAGTTATTAGTT-TTCAAAATATTATTAGATT
128 TAGA-TTTATTTTTTAAATCTTTTACTTATTAATTGTT-AAAATATTAATAAATT
* * * * ** *
13576771 AGTTTTATTGTATTTCAAATAAGCTTGTATGAAACAGAAATAATTGTTTTATGAC--AACAAAAG
1 AATATTATTTTATTTCAAATAAGCTAGTATGAATGA-AAACAATTGTTTTATGACAAAACAAAAG
** * * * * * * *
13576834 GTTATAACAATTTGAAGTATACAACTACTCTAATAATCATCAACTATTTGAA-TTGATTT-GTAA
65 GTTATAATGATTTGAAATAAATAATTATTCAAATAGTCAT-AA-TATTTGAACTTG-TTTAGT-A
* * ** *
13576897 AACAGATTTATTTTTTTAAATCTCTTACTTATTAATT-TTTGAATGATTAATAAACT
126 AATAGATTTA-TTTTTTAAATCTTTTACTTATTAATTGTTAAAAT-ATTAATAAATT
* * * * * ** **
13576953 AGTATTATTTAATTCCAAATAAGCTTGTATG-ATCAAAAACAATTGTCATAT-ACCCAACAAAAG
1 AATATTATTTTATTTCAAATAAGCTAGTATGAAT-GAAAACAATTGTTTTATGACAAAACAAAAG
* * ** * * * * * ** *
13577016 GTAAGAAAAATTTCAAACTAGATAATTAAATT-AAATGGCCATAATTATTTGAAATAATTTGGTA
65 GTTATAATGATTTGAAA-TAAATAATT--ATTCAAATAGTCATAA-TATTTGAACTTGTTTAGTA
* * * * ** **
13577080 AACATATTCACTTTTTAAATCACTTACTTATTTGAATTTGTTTGGTAAACAGATTTATTTTTCAA
126 AATAGATTTATTTTTTAAATCTTTTACTTA-TT-AA-TTG--T--T-AA-A-A--TATTAAT--A
13577145 ATATT
177 A-ATT
* * * *
13577150 AATAAATTAGTATTAATTTATTCTGAATAAGCTTGTATGAACT-AAAACAATTGTTTTATGACTA
1 AAT--ATTA-T-TT--TAT-TTC-AAATAAGCTAGTATGAA-TGAAAACAATTGTTTTATGACAA
* * * ** * * ** *
13577214 AACAAAAGATCAAAATGATAAGAAATAGAATAATTATTCTAATAATTTTAACCATTTGAA-TTGA
57 AACAAAAGGTTATAATGATTTGAAATA-AATAATTATTCAAATAGTCATAA-TATTTGAACTTG-
* * * * * *
13577278 TTCAGTAAACAAATTTAGTTTTTAAATCTCTTACTTATTAATT-TTCAAAATATTATTAAATT
119 TTTAGTAAATAGATTTATTTTTTAAATCTTTTACTTATTAATTGTT-AAAATATTAATAAATT
* * * * * * ** *
13577340 AGTATTATTTTAATCCAAATAAGCTTGTACGAA-CAAAACAATTGTTTTATGTTAAAATAAAAGG
1 AATATTATTTTATTTCAAATAAGCTAGTATGAATGAAAACAATTGTTTTATGACAAAACAAAAGG
* * * * * ** *
13577404 TCATAACGATTTGAAATAAATAATCATTC--ATA-TCTTAACTATTTGAACTGGTTTAACAATTA
66 TTATAATGATTTGAAATAAATAATTATTCAAATAGTCATAA-TATTTGAACTTGTTTAGTAAATA
* * ** * *
13577466 GATTT-TTTTTTTAATTTTCTTGGTTATTAAGTT-TCAAAATATTATTAAATT
130 GATTTATTTTTTAAATCTT-TTACTTATTAA-TTGTTAAAATATTAATAAATT
* ** * * * * *
13577517 AGTATTATTTTA-TTCTAAATAAAATAGTATGAA-CAGAACCAATTGTTTGATGATAAAATAAAA
1 AATATTATTTTATTTC-AAATAAGCTAGTATGAATGA-AAACAATTGTTTTATGACAAAACAAAA
* * * * * * * * *
13577580 GGTTATAGTGATTTGAAATAAATAATTTTTGAAATAGCCAAAACTATTTGAAATGGTTTGGTAAG
64 GGTTATAATGATTTGAAATAAATAATTATTCAAATAGTCATAA-TATTTGAACTTGTTTAGTAAA
* * * ** * * **
13577645 CAAATTT-TCTTTTTAAATCTCTTACAGATTTATT-TTCTAAATATTAATAAAAC
128 TAGATTTAT-TTTTTAAATCTTTTACTTATTAATTGTT-AAAATATTAATAAATT
* * * **
13577698 AATATTATTTTATTTCAAACAAACTTA-TATTAACAAAAACAATT-TTTTATGACAAAACAAA
1 AATATTATTTTATTTCAAATAAGC-TAGTATGAATGAAAACAATTGTTTTATGACAAAACAAA
13577759 TCTTTAAATA
Statistics
Matches: 1598, Mismatches: 363, Indels: 211
0.74 0.17 0.10
Matches are distributed among these distances:
173 5 0.00
174 91 0.06
175 6 0.00
176 18 0.01
177 101 0.06
178 70 0.04
179 138 0.09
180 142 0.09
181 541 0.34
182 273 0.17
183 35 0.02
184 12 0.01
185 4 0.00
186 2 0.00
187 1 0.00
188 5 0.00
190 6 0.00
191 2 0.00
192 1 0.00
193 7 0.00
194 4 0.00
195 2 0.00
196 3 0.00
197 7 0.00
199 5 0.00
200 1 0.00
201 2 0.00
202 2 0.00
203 3 0.00
204 8 0.01
205 74 0.05
206 26 0.02
207 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.41
Consensus pattern (180 bp):
AATATTATTTTATTTCAAATAAGCTAGTATGAATGAAAACAATTGTTTTATGACAAAACAAAAGG
TTATAATGATTTGAAATAAATAATTATTCAAATAGTCATAATATTTGAACTTGTTTAGTAAATAG
ATTTATTTTTTAAATCTTTTACTTATTAATTGTTAAAATATTAATAAATT
Found at i:13576361 original size:360 final size:352
Alignment explanation
Indices: 13574315--13576849 Score: 1264
Period size: 360 Copynumber: 7.1 Consensus size: 352
13574305 TGTATGATCT
* ** * * * * *
13574315 AAAATAAAAGGTCATAATGATTTTAGATAGATAATTATTCAAATAGTCATAACTATTTGAACTTG
1 AAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAA-TGTTTGATC-TG
* * * ***
13574380 TTTAGTAAATAAATTTATTTTTTAAAATTTTTTGCTTATTAATTTTTTGAATATTAATAAA-TTA
64 TTTAGTAAATAGATTTATTTTTT--AATTTTTTACTTATTAATTGTCAAAAT-TTAATAAATTTA
* * * * *
13574444 GTATTATTTTATTTTGAATAATCATGTATGAACT-GAAACA-ATTATTTTATGACTAAGCAAAAG
126 -TATTATTTTATTCTAAATAAGCTTGTATGAA-TAGAAA-ATATTATTTTATGAC-AAACAAAAG
* * * * ** *
13574507 GTTAGAATGATTTGAAATAGATAATTGTTC-AATA-TTCATAATTATTTGAACTGGATCAGCAAA
187 GTTATAATGATTTGAAATAAATAATTGTTCAAATAGTT--TAA-TATTTGAACTAGTTTGGTAAA
* * * * * * ** *
13574570 TGCATTTATTTTTTAAATC-CTTACTTATTAATTTTTAGAATATTATTA-ACTTAGCAATATTTT
249 T-AATTTATTTTTTAAATCTATTAATTATTAATTGTTAAAATATTAATAGA-TTAATATTATTTT
* * * *
13574633 A-CTCTGAATAAGCTTGTATGAATAGAAACAAATGTTTTAAGAC
312 ATTTC-GAATAAGCTTATATGAATA-AAAAAAAT-TTTTATGAC
* * ** * * * ** * *
13574676 AAAAC-AAAGATCATAACGATTTGCGATAGATAATTGTTTAAATAGTTATAACTATTCAAACTGG
1 AAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAA-TGTTTGATCTGT
* * * * * * ** *
13574740 TTCGATAAAGAGATTTAGTTTTTAA--ATCT-CTTATTAATTTTTGAAATAGTAATAAA-TTAGT
65 TTAG-TAAATAGATTTATTTTTTAATTTTTTACTTATTAATTGTCAAAAT-TTAATAAATTTA-T
* * ** * *
13574801 ATTATTTTATTATAAAATAA--TTGTATATGAATAGAAACA-ATTGTTTTACAACAAAATAAAAT
127 ATTATTTTATTCT-AAATAAGCTTG--TATGAATAGAAA-ATATTATTTTATGAC-AAACAAAAG
* * ** * ** * * * * * *
13574863 GTCATTACAATTTGAAATAGATAATAATAGTTCAAATGGACATGACTATTTGAATTGGTTCGATA
187 GTTATAATGATTTGAAAT--A-AATAATTGTTCAAAT--AGTTTAATATTTGAACTAGTTTGGTA
* * * * * * *
13574928 AACTAATTAATTTTTTAAATCT-TCAACTTATTAATTTTTAGAATGTTAATATATTAGTATTATT
247 AA-TAATTTATTTTTTAAATCTATTAA-TTATTAATTGTTAAAATATTAATAGATTAATATTATT
* * * * * * **
13574992 TTATTCCAAATAAACTTGTATGAATAGAAACAATTGTTTTACAAC
310 TTATTTCGAATAAGCTTATATGAATA-AAAAAAAT-TTTTATGAC
** * * * * * * *
13575037 AAAACAAAATATCATAACCATTTGAAATAAATAATTGTTCAAACAATCATAACTTTTTGAACTCA
1 AAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAA-TGTTTGATCT-G
* * * * * * ** *** *
13575102 CTTGGTAAACAAATTCATTTTTTAAATCTTTTACTTACCAATT-TTGGAATATTAATTAA-TTAC
64 TTTAGTAAATAGATTTATTTTTT-AATTTTTTACTTATTAATTGTCAAAAT-TTAATAAATTTA-
* * * * * * *
13575165 AATTATTTTATTCCAAATAAGCTTGTTTGAACA-AAAACAATT-TGTTTATTACAAAACAAATGG
126 TATTATTTTATTCTAAATAAGCTTGTATGAATAGAAAA-TATTAT-TTTATGAC-AAACAAAAGG
* * * * * * * * *
13575228 TCATAATAATTTGAAATAGATAATTATTCAAATAGTCATAACTATATGAA-TGTGTTTAGAAAAT
188 TTATAATGATTTGAAATAAATAATTGTTCAAATAGT-TTAA-TATTTGAACT-AGTTTGGTAAAT
* * * * * ** * *
13575292 AGCTTTATTTTCTAAAAT-TA-TACTTCTTAATTTTTGGAATATTAATAAATTTATATTATTTTA
250 A-ATTTATTTT-TTAAATCTATTAATTATTAATTGTTAAAATATTAATAGATTAATATTATTTTA
* * ** * *
13575355 -TTCAAAATACGCTTGCAT-AAGTAGAAACAATTATTTTATGAC
313 TTTC-GAATAAGCTTATATGAA-TA-AAAAAAAT-TTTTATGAC
*** * * * * * * *
13575397 AAAAC-AAAGTGTCATAATGTTTTGAAATAGATTACTGTTTAGATAGTCATAACTATTTCAACT-
1 AAAACAAAAG-GTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAA-TGTTTGATCTG
* * * * ** * * * **
13575460 TGATCGATAAGA-AAATTCATTTTTT--TTAATTATGTTATT-CTT-T---AATTT-TTGGA---
64 T-TTAG-TAA-ATAGATTTATTTTTTAATTTTTTA-CTTATTAATTGTCAAAATTTAATAAATTT
* * * * *
13575513 ATATTATTTTA-TCTCAAATAGGCTTATACGAACTA-AAGCA-ATTATTTTATTACAAAACAAAA
125 ATATTATTTTATTCT-AAATAAGCTTGTATGAA-TAGAA-AATATTATTTTATGAC-AAACAAAA
* ** * * * * * * *
13575575 GCTTACGATGATTTGAAATAGATTATTATTCAAATAGTCATGACTATTTGAACTTA-TTCGGCAA
186 GGTTATAATGATTTGAAATAAATAATTGTTCAAATAGT--TTAATATTTGAAC-TAGTTTGGTAA
* * * * * *
13575639 ACATATTTATTTTTTAAATCTTTTACTTATAAATTGTTGAAATATTAATAAATTAATATTATTTT
248 ATA-ATTTATTTTTTAAATCTATTAATTATTAATTGTTAAAATATTAATAGATTAATATTATTTT
* * *
13575704 ATTTCGAATAAGC-TAGTATGAATAAAAGCAATTGTTTTATGAA
312 ATTTCGAATAAGCTTA-TATGAATAAAA-AAAAT-TTTTATGAC
* * * *
13575747 AAAACAAAAAGACATAACAATTTGAAATAAATAATTGTTCAAATAGTCATAATGATTTGAACTTG
1 AAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATG-TTTGATC-TG
* * * * ** *
13575812 TTTAGTAAATAGATTTATTTATAAATCTTTTACTTATTAAGTGTCTTAATTTAATAAATTTGTAT
64 TTTAGTAAATAGATTTATTTTTTAATTTTTTACTTATTAATTGTCAAAATTTAATAAATTTATAT
* * * * *
13575877 TATCTTATTCAAAATAAGCTTGTATGAATGGAAAAAATCATTTTATGACAAAGCAAAAGGTTATA
129 TATTTTATTCTAAATAAGCTTGTATGAATAGAAAATATTATTTTATGACAAA-CAAAAGGTTATA
* * ** * * * * *
13575942 GTGCTTTTCAATAAATAATTGTTCAAATAATTATAATTATTTAAACTTGTTTAGTAAATAGATTC
193 ATGATTTGAAATAAATAATTGTTCAAATAGTT-TAA-TATTTGAACTAGTTTGGTAAATA-ATTT
*
13576007 ATTTTATAAATCTATTAATTATTAATT-TTCAAAATATTAATA-ACTTAATATTATTTTATTTCG
255 ATTTTTTAAATCTATTAATTATTAATTGTT-AAAATATTAATAGA-TTAATATTATTTTATTTCG
13576070 AATAAGCTTATATGAATTGAAAAAAAATTTTTATGAC
318 AATAAGCTTATATGAA-T-AAAAAAAATTTTTATGAC
* * ** ** *
13576107 AGAAGAAAAGGTCATAATGATTTGAAATAGATAATCATTCAAATAGTCATGACTGTTTGATCTAG
1 AAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCAT-AATGTTTGATCT-G
* *
13576172 TTTAGTAAACATATTTAATTTTTTACATTTTTTACTTATTAATTGTCAAAATATTAATAAATTTA
64 TTTAGTAAATAGATTT-ATTTTTTA-ATTTTTTACTTATTAATTGTCAAAAT-TTAATAAATTTA
* * * * * * * * *
13576237 TATTATTTTAATCTGAATAAGCTTGAATAAATAGAAACTATTATGTTATAATAGAACAAAAGGTC
126 TATTATTTTATTCTAAATAAGCTTGTATGAATAGAAAATATTATTTTATGACA-AACAAAAGGTT
13576302 ATAATGATTTGAAATAAATAATTGCTT-AAATAGTCTT-A-ATTTGAACTAGTTTGGTAAATATA
190 ATAATGATTTGAAATAAATAATTG-TTCAAATAGT-TTAATATTTGAACTAGTTTGGTAAATA-A
* * *
13576364 TTTATTTTTTAAA---ATT-TTTATTAATTGTTTAAATATTAATAGATTAGTATTATTTTATTTC
252 TTTATTTTTTAAATCTATTAATTATTAATTGTTAAAATATTAATAGATTAATATTATTTTATTTC
* * * * *
13576425 GAACAAACTTATATGAACAAAAACATTAGTTTTATGAC
317 GAATAAGCTTATATGAATAAAAA-A-AATTTTTATGAC
* * * * *
13576463 AAAACAAAAGGTTAAAACAACTTGAAATAGATATTTGTTCAAATAGTCATAATTATTTGAAT-TG
1 AAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAA-TGTTTG-ATCTG
* * * * * *
13576527 GTTAGGTAAATAGAATTATTTTTTAATTCTCTTACTTATTAATTTTTGAAATTTTAATAAATTTA
64 TTTA-GTAAATAGATTTATTTTTTAATT-TTTTACTTATTAA-TTGTCAAAATTTAATAAATTTA
* * * * *
13576592 TTTTATTTTATTCTAAATAAGCTAGTATGAATTGAAAATATTGTTTTATGACAAAACAAAATGTT
126 TATTATTTTATTCTAAATAAGCTTGTATGAATAGAAAATATTATTTTATGAC-AAACAAAAGGTT
* * * *
13576657 ATAATGATTTGAAATAAACAATTATTCATATAGTTTTAACTATTTGAACTAGTTTGGCAAATAAT
190 ATAATGATTTGAAATAAATAATTGTTCAAATAG-TTTAA-TATTTGAACTAGTTTGGTAAATAA-
* * * * * * *
13576722 TTTATTTTTTAAATCTCTTAGTTATTAGTT-TTCAAAATATTATTAGATTAGTTTTATTGTATTT
252 TTTATTTTTTAAATCTATTAATTATTAATTGTT-AAAATATTAATAGATTAATATTATTTTATTT
* * *
13576786 CAAATAAGCTTGTATGAA-ACAGAAATAATTGTTTTATGAC
316 CGAATAAGCTTATATGAATA-A-AAA-AAAT-TTTTATGAC
*
13576826 --AACAAAAGGTTATAACAATTTGAA
1 AAAACAAAAGGTCATAACAATTTGAA
13576850 GTATACAACT
Statistics
Matches: 1688, Mismatches: 372, Indels: 228
0.74 0.16 0.10
Matches are distributed among these distances:
348 7 0.00
349 102 0.06
350 123 0.07
351 18 0.01
352 8 0.00
353 3 0.00
354 15 0.01
355 158 0.09
356 180 0.11
357 18 0.01
358 41 0.02
359 35 0.02
360 479 0.28
361 157 0.09
362 146 0.09
363 109 0.06
364 49 0.03
365 29 0.02
366 11 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (352 bp):
AAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATGTTTGATCTGTT
TAGTAAATAGATTTATTTTTTAATTTTTTACTTATTAATTGTCAAAATTTAATAAATTTATATTA
TTTTATTCTAAATAAGCTTGTATGAATAGAAAATATTATTTTATGACAAACAAAAGGTTATAATG
ATTTGAAATAAATAATTGTTCAAATAGTTTAATATTTGAACTAGTTTGGTAAATAATTTATTTTT
TAAATCTATTAATTATTAATTGTTAAAATATTAATAGATTAATATTATTTTATTTCGAATAAGCT
TATATGAATAAAAAAAATTTTTATGAC
Found at i:13576602 original size:537 final size:537
Alignment explanation
Indices: 13575635--13576795 Score: 1217
Period size: 537 Copynumber: 2.2 Consensus size: 537
13575625 AACTTATTCG
* **
13575635 GCAAACATATTTATTTTTTAAATCTTTTACTTATAAATTGTTGAAATATTAATAAATTAATATTA
1 GCAAACATATTTATTTTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAATATTA
* * * * *
13575700 TTTTATTTCGAATAAGCTAGTATGAATAAAAGCAATTGTTTTATGAAAAAACAAAAAGACATAAC
66 TTTTATCTCGAATAAGCTAGAATAAATAAAAGCAATTATGTTATGAAAAAACAAAAAGACATAAC
* *
13575765 AATTTGAAATAAATAATTGTTCAAATAGTCATAATGATTTGAACTTGTTTAGTAAATAGATTTAT
131 AATTTGAAATAAATAATTGTTCAAATAGTCAT-ATAATTTGAACTAGTTTAGTAAATAGATTTAT
* *
13575830 TTATAAATCTTTTACTTATTAAGTGTCTTAATTTAATAAATTTGTATTATCTTATTCAAAATAAG
195 TTATAAA-CATTTA-TTATTAAGTGTCTTAATTTAATAAATTAGTATTATCTTATTCAAAATAAG
* * * * *** **
13575895 CTTGTATGAATGGAAAAAATCATTTTATGACAAAGCAAAAGGTTATAGTGCTTTTCAATAAATAA
258 CTTATATGAA-GCAAAAAATCATTTTATGACAAAACAAAAGGTTAAACAACTTTGAAATAAATAA
* *
13575960 TTGTTCAAATAATTATAATTATTTAAACTTGTTTAGTAAATAGATTCATTTTATAAATCTATTAA
322 TTGTTCAAATAATCATAATTATTTAAACTTGGTTAGTAAATAGATTCATTTTATAAATCTATTAA
* *
13576025 TTATTAATTTTCAAAATATTAATAACTTAATATTATTTTATT-TCGAATAAGCTTA-TATGAATT
387 TTATTAATTTTCAAAATATTAATAAATTAATATTATTTTATTCT-AAATAAGC-TAGTATGAATT
* * *
13576088 GAAAAAAAAT-TTTTATGACAGAAGAAAAGGTCATAATGATTTGAAATAGATAATCATTCAAATA
450 G-AAAAAAATGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATA
* * *
13576152 GTCATGACTGTTTGATCTAGTTTA
514 GTCATGACTATTTGAACTAGTTTG
* * * *
13576176 GTAAACATATTTAATTTTTTACATTTTTTACTTATTAATTGTCAAAATATTAATAAATTTATATT
1 GCAAACATATTT-ATTTTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAATATT
* * * * *
13576241 ATTTTAATCT-GAATAAGCTTGAATAAATAGAAA-CTATTATGTTAT-AATAGAACAAAAGGTCA
65 ATTTT-ATCTCGAATAAGCTAGAATAAATA-AAAGCAATTATGTTATGAA-AAAACAAAAAGACA
** * *
13576303 TAATGATTTGAAATAAATAATTGCTT-AAATAGTC-T-TAATTTGAACTAGTTTGGTAAATATAT
127 TAACAATTTGAAATAAATAATTG-TTCAAATAGTCATATAATTTGAACTAGTTTAGTAAATAGAT
* * * *
13576365 TTATTTTTTAAA-ATTT-TTATTAATTGT-TTAAATATTAATAGATTAGTATTATTTTATTTCGA
191 TTA-TTTATAAACATTTATTATTAAGTGTCTT-AAT-TTAATAAATTAGTATTATCTTA-TTC-A
* *
13576427 ACA-AA-CTTATATGAA-CAAAAACATTAGTTTTATGACAAAACAAAAGGTTAAAACAAC-TTGA
251 AAATAAGCTTATATGAAGCAAAAA-ATCA-TTTTATGACAAAACAAAAGGTT-AAACAACTTTGA
* * * * *
13576488 AATAGATATTTGTTCAAATAGTCATAATTATTTGAA-TTGGTTAGGTAAATAGAATT-ATTTTTT
313 AATAAATAATTGTTCAAATAATCATAATTATTTAAACTTGGTTA-GTAAATAG-ATTCATTTTAT
* * * ** * * *
13576551 AATTCTCTTACTTATTAATTTTTGAAATTTTAATAAATTTATTTTATTTTATTCTAAATAAGCTA
376 AAATCTATTAATTATTAATTTTCAAAATATTAATAAATTAATATTATTTTATTCTAAATAAGCTA
* * * * * *
13576616 GTATGAATTGAAAATATTGTTTTATGACAAAACAAAATGTTATAATGATTTGAAATAAACAATTA
441 GTATGAATTGAAAAAAATGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTA
* ** *
13576681 TTCATATAGTTTTAACTATTTGAACTAGTTTG
506 TTCAAATAGTCATGACTATTTGAACTAGTTTG
* * * * * * * * *
13576713 GCAAATA-ATTTTATTTTTTAAATCTCTTAGTTATTAGTTTTCAAAATATTATTAGATTAGTTTT
1 GCAAACATA-TTTATTTTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAATATT
* * *
13576777 ATTGTATTTCAAATAAGCT
65 ATTTTATCTCGAATAAGCT
13576796 TGTATGAAAC
Statistics
Matches: 511, Mismatches: 89, Indels: 45
0.79 0.14 0.07
Matches are distributed among these distances:
535 10 0.02
536 84 0.16
537 228 0.45
538 15 0.03
539 29 0.06
540 7 0.01
541 14 0.03
542 116 0.23
543 8 0.02
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.43
Consensus pattern (537 bp):
GCAAACATATTTATTTTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAATATTA
TTTTATCTCGAATAAGCTAGAATAAATAAAAGCAATTATGTTATGAAAAAACAAAAAGACATAAC
AATTTGAAATAAATAATTGTTCAAATAGTCATATAATTTGAACTAGTTTAGTAAATAGATTTATT
TATAAACATTTATTATTAAGTGTCTTAATTTAATAAATTAGTATTATCTTATTCAAAATAAGCTT
ATATGAAGCAAAAAATCATTTTATGACAAAACAAAAGGTTAAACAACTTTGAAATAAATAATTGT
TCAAATAATCATAATTATTTAAACTTGGTTAGTAAATAGATTCATTTTATAAATCTATTAATTAT
TAATTTTCAAAATATTAATAAATTAATATTATTTTATTCTAAATAAGCTAGTATGAATTGAAAAA
AATGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATGA
CTATTTGAACTAGTTTG
Found at i:13576961 original size:718 final size:718
Alignment explanation
Indices: 13575641--13576979 Score: 1575
Period size: 718 Copynumber: 1.9 Consensus size: 718
13575631 TTCGGCAAAC
13575641 ATATTTATTTTTTAAATCTTTTACTTATAAATTGTTGAAATATTAATAAATTAATATTATTTTAT
1 ATATTTATTTTTTAAATCTTTTAC-TATAAATTGTTGAAATATTAATAAATTAATATTATTTTAT
* * * * * *
13575706 TTCGAATAAGCTAGTATGAATAAAAGCAATTGTTTTATGAAAAAACAAAAAGACATAACAATTTG
65 TTCGAACAAACTAGTATGAACAAAAACAATTGTTTTATGAAAAAACAAAAAGACAAAACAACTTG
* *
13575771 AAATAAATAATTGTTCAAATAGTCATAATGATTTGAACTTGTTTAGTAAATAGATTTATTTATAA
130 AAATAAATAATTGTTCAAATAGTCATAATGATTTGAACTTGGTTAGTAAATAGAATTATTTATAA
* * *
13575836 ATCTTTTACTTATTAAGTGTCTTAATTTAATAAATTTGTATTATCTTATTCAAAATAAGCTTGTA
195 ATCTCTTACTTATTAAGTGTCTTAATTTAATAAATTTATATTATCTTATTCAAAATAAGCTAGTA
* * * ** * *
13575901 TGAATGGAAAAAATCATTTTATGACAAAGCAAAAGGTTATAGTGCTTTTCAATAAATAATTGTTC
260 TGAATGGAAAAAATCATTTTATGACAAAACAAAAGGTTATAATGATTTGAAATAAACAATTATTC
* * *
13575966 AAATAATTATAATTATTTAAACTTGTTTAGTAAATAGATTCATTTTATAAATCTATTAATTATTA
325 AAATAATTATAACTATTTAAACTAGTTTAGCAAATAGATTCATTTTATAAATCTATTAATTATTA
* * **
13576031 ATTTTCAAAATATTAATAACTTAATATTATTTTATTTCGAATAAGCTTATATGAATTGAAAAAAA
390 ATTTTCAAAATATTAATAACTTAATATTATTGTATTTCAAATAAGCTTATATGAACAGAAAAAAA
* ** * * * *
13576096 ATTTTTATGACAGAAGAAAAGGTCATAATGATTTGAAATAGATAATCATTCAAATAGTCATGACT
455 ATTTTTATGACA-AACAAAAGGTCATAACAATTTGAAATAGACAATCACTCAAATAATCATAACT
* * * * *
13576161 GTTTGATCTAGTTTAGTAAACATATTTAATTTTTTACATTTTTTACTTATTAATTGTCAAAATAT
519 ATTTGATCTAGTTTAGTAAACAGATTTAATTTTTTAAATCTCTTACTTATTAATTGTCAAAATAT
* **
13576226 TAATAAATTTATATTATTTTAA-TCTGAATAAGCTTGAATAAATAGAAACTATTATGTTATAATA
584 TAATAAATCTATATTA-TTTAATTCCAAATAAGCTTGAATAAATAGAAACTATTATGTTATAATA
13576290 GAACAAAAGGTCATAATGATTTGAAATAAATAATTGCTTAAATAGTCTTAATTTGAACTAGTTTG
648 GAACAAAAGGTCATAATGATTTGAAATAAATAATTGCTTAAATAGTCTTAATTTGAACTAGTTTG
13576355 GTAAAT
713 GTAAAT
* * *
13576361 ATATTTATTTTTTAAAAT-TTTTA-T-T-AATTGTTTAAATATTAATAGATTAGTATTATTTTAT
1 ATATTTATTTTTT-AAATCTTTTACTATAAATTGTTGAAATATTAATAAATTAATATTATTTTAT
* * **
13576422 TTCGAACAAACTTA-TATGAACAAAAAC-ATTAGTTTTATGACAAAACAAAAGGTTAAAACAACT
65 TTCGAACAAAC-TAGTATGAACAAAAACAATT-GTTTTATGAAAAAACAAAAAGACAAAACAACT
* * *
13576485 TGAAATAGATATTTGTTCAAATAGTCATAATTATTTGAA-TTGGTTAGGTAAATAGAATTATTTT
128 TGAAATAAATAATTGTTCAAATAGTCATAATGATTTGAACTTGGTTA-GTAAATAGAATTA-TTT
* * * * * *
13576549 TTAATTCTCTTACTTATTAA-T-TTTTGAAATTTTAATAAATTTATTTTATTTTATTCTAAATAA
191 ATAAATCTCTTACTTATTAAGTGTCTT--AA-TTTAATAAATTTATATTATCTTATTCAAAATAA
* * ** *
13576612 GCTAGTATGAATTGAAAATATTGTTTTATGACAAAACAAAATGTTATAATGATTTGAAATAAACA
253 GCTAGTATGAATGGAAAAAATCATTTTATGACAAAACAAAAGGTTATAATGATTTGAAATAAACA
* * * * * * * *
13576677 ATTATTCATATAGTTTTAACTATTTGAACTAGTTTGGCAAATA-ATTTTATTTTTTAAATCTCTT
318 ATTATTCAAATAATTATAACTATTTAAACTAGTTTAGCAAATAGA-TTCATTTTATAAATCTATT
* * * * * *
13576741 AGTTATTAGTTTTCAAAATATTATTAGA-TTAGTTTTATTGTATTTCAAATAAGCTTGTATGAAA
382 AATTATTAATTTTCAAAATATTAATA-ACTTAATATTATTGTATTTCAAATAAGCTTATATG-AA
* * * * * *
13576805 CAG-AAATAATTGTTTTATGAC-AACAAAAGGTTATAACAATTTGAAGTATACAA-CTACTCTAA
445 CAGAAAAAAAAT-TTTTATGACAAACAAAAGGTCATAACAATTTGAAATAGACAATC-ACTCAAA
*
13576867 TAATCATCAACTATTTGAAT-T-GATTT-GTAAAACAGATTTATTTTTTTAAATCTCTTACTTAT
508 TAATCAT-AACTATTTG-ATCTAG-TTTAGT-AAACAGATTTAATTTTTTAAATCTCTTACTTAT
***
13576929 TAATT-TTTGAATGATTAATAAA-CTAGTATTATTTAATTCCAAATAAGCTTG
569 TAATTGTCAAAAT-ATTAATAAATCTA-TATTATTTAATTCCAAATAAGCTTG
13576980 TATGATCAAA
Statistics
Matches: 514, Mismatches: 85, Indels: 42
0.80 0.13 0.07
Matches are distributed among these distances:
715 12 0.02
716 129 0.25
717 76 0.15
718 260 0.51
719 15 0.03
720 18 0.04
721 4 0.01
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (718 bp):
ATATTTATTTTTTAAATCTTTTACTATAAATTGTTGAAATATTAATAAATTAATATTATTTTATT
TCGAACAAACTAGTATGAACAAAAACAATTGTTTTATGAAAAAACAAAAAGACAAAACAACTTGA
AATAAATAATTGTTCAAATAGTCATAATGATTTGAACTTGGTTAGTAAATAGAATTATTTATAAA
TCTCTTACTTATTAAGTGTCTTAATTTAATAAATTTATATTATCTTATTCAAAATAAGCTAGTAT
GAATGGAAAAAATCATTTTATGACAAAACAAAAGGTTATAATGATTTGAAATAAACAATTATTCA
AATAATTATAACTATTTAAACTAGTTTAGCAAATAGATTCATTTTATAAATCTATTAATTATTAA
TTTTCAAAATATTAATAACTTAATATTATTGTATTTCAAATAAGCTTATATGAACAGAAAAAAAA
TTTTTATGACAAACAAAAGGTCATAACAATTTGAAATAGACAATCACTCAAATAATCATAACTAT
TTGATCTAGTTTAGTAAACAGATTTAATTTTTTAAATCTCTTACTTATTAATTGTCAAAATATTA
ATAAATCTATATTATTTAATTCCAAATAAGCTTGAATAAATAGAAACTATTATGTTATAATAGAA
CAAAAGGTCATAATGATTTGAAATAAATAATTGCTTAAATAGTCTTAATTTGAACTAGTTTGGTA
AAT
Found at i:13577508 original size:177 final size:179
Alignment explanation
Indices: 13577139--13577605 Score: 519
Period size: 177 Copynumber: 2.6 Consensus size: 179
13577129 CAGATTTATT
* * *
13577139 TTTC-AAATATTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTATGAACTAAAACAATTG
1 TTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAAC-AAAACAATTG
* * * ** * *
13577203 TTTTATGACT-AAACAAAAGATCAAAATGATAAGAAATAGAATAATTATTCTAATAATTTTAACC
65 TTTTATGA-TAAAATAAAAGGTCATAATGATTTGAAATA-AATAATCATTC-AATAATCTTAACC
* ** *
13577267 ATTTGAATTGATTCAGTAAACAAATTTAGTTTTTAAATCTCTTACTTATTAAT
127 ATTTGAACTGATTCAACAAACAAATTTAGTTTTTAAATCTCTTACTTATTAAG
* * *
13577320 TTTCAAAATATTATTAAATTAGTATTATTTTAATCCAAATAAGCTTGTACGAACAAAACAATTGT
1 TTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACAAAACAATTGT
* * *
13577385 TTTATGTTAAAATAAAAGGTCATAACGATTTGAAATAAATAATCATTC-AT-ATCTTAACTATTT
66 TTTATGATAAAATAAAAGGTCATAATGATTTGAAATAAATAATCATTCAATAATCTTAACCATTT
* * ** * ** * * **
13577448 GAACTGGTTTAACAATTAGATTTTTTTTTTAATTTTCTTGGTTATTAAG
131 GAACTGATTCAACAAACAAATTTAGTTTTTAAATCTCTTACTTATTAAG
** * *
13577497 TTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAAATAGTATGAACAGAACCAATTG
1 TTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACA-AAACAATTG
* * *
13577562 TTTGATGATAAAATAAAAGGTTATAGTGATTTGAAATAAATAAT
65 TTTTATGATAAAATAAAAGGTCATAATGATTTGAAATAAATAAT
13577606 TTTTGAAATA
Statistics
Matches: 240, Mismatches: 43, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
177 94 0.39
178 49 0.20
180 11 0.05
181 43 0.18
182 43 0.18
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (179 bp):
TTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACAAAACAATTGT
TTTATGATAAAATAAAAGGTCATAATGATTTGAAATAAATAATCATTCAATAATCTTAACCATTT
GAACTGATTCAACAAACAAATTTAGTTTTTAAATCTCTTACTTATTAAG
Found at i:13578377 original size:181 final size:179
Alignment explanation
Indices: 13578034--13579100 Score: 873
Period size: 181 Copynumber: 5.9 Consensus size: 179
13578024 AATTTAGTAC
* * * * * * *
13578034 GATTTGAAATAAATAAATGTTCAAATTGTTATAACTAATTGAACT-AGTATGGTAAATAGATTTA
1 GATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGA-T-TCGTAAACAGATTTA
* * * * ***
13578098 TTTATTAAATC--TCTTATTAATTTTTGA-AATATTAATAAATTAATATTATTTTATTTTGGATA
64 TTTTTTAAATCTTTCTTATTAA-ATTTCATAATATTAATAAATTAGTATTATTTTATTTCAAATA
* * * * * *
13578160 AACTTATATGAACA-AAAACATTTGTTTTACGACAAAACAAAAGGTCATAAT
128 AGCTTGTATGAAGATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* ** * * * * *
13578211 GATTTGAAATAGATAATTATTCATTTAGCCTTAACTATTTGAATTGGTTCAGTAAACAAATTTAT
1 GATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGATTC-GTAAACAGATTTAT
* * *
13578276 TTTTTAAATCTATCAGTTATTAAATTTCATAATATTACTATATTAGTATT-TTTTGATTTCAAAT
65 TTTTTAAATCTTTC--TTATTAAATTTCATAATATTAATAAATTAGTATTATTTT-ATTTCAAAT
* *
13578340 AAGCTTGTATGAAGAT-AAATAATTGTTTTATGACAAAACAAAAGGTTATAAT
127 AAGCTTGTATGAAGATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * *
13578392 GATTGGAAATATATAATTGTTCAAATAGTCATAACTATTTGAACTAATTCGATAAATAGATTTAT
1 GATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGATTCG-TAAACAGATTTAT
* *
13578457 TTTTTAAATCTCCTTCTTATTAATTTTTCA-AATATTAATAAATTAGTATTATTTTA-TTCTGAA
65 TTTTTAAATCT--TTCTTATTAA-ATTTCATAATATTAATAAATTAGTATTATTTTATTTC-AAA
* * * *
13578520 TAGGCTTGTATGATGA-AAAACAATTGTTTTATGACACAACAAAA-GTCCATAAT
126 TAAGCTTGTATGAAGATGAAACAATTGTTTTATGACAAAACAAAAGGT-CATAAT
* * * * *
13578573 GATTTGAAATAGATAATTGTTTAAATGGCCATAATTATTTGAACTGATTCGATAAACTGATTTAT
1 GATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGATTCG-TAAACAGATTTAT
* * * * * * * *
13578638 ATTGTAAATCTTTAACTTATCAATTTTTATAATATTAATAAAGTAATATTATTTTATTTCAGATA
65 TTTTTAAATCTTT--CTTATTAAATTTCATAATATTAATAAATTAGTATTATTTTATTTCAAATA
* * * * *
13578703 AGCTTTTATGAA-CTGAAACAATTGTTTTATGATAAAATATAAGGTCATAAT
128 AGCTTGTATGAAGATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * * * *
13578754 GATTTTAAATAGATAATTGTTCAAATAGTCAAAAATATTTGAACTTGTTTGGTAAATAGATTT-T
1 GATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAAC-TGATTCGTAAACAGATTTAT
* ** * *
13578818 TTTTCT-AA--TTTCTTAAT-AATTTTTTGAATGTTAATAAATTAGTATTATTTTATTTCGAATA
65 TTTT-TAAATCTTTCTTATTAAATTTCAT-AATATTAATAAATTAGTATTATTTTATTTCAAATA
* * * * * * * *
13578879 AGCATGTTTG-AGTTGAAGCAATTATTTTATGACTAAATAAAAGGTCAAAAT
128 AGCTTGTATGAAGATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * ** * *
13578930 GATTTGAAATAGGTAATTGTTCTAATAGTTTTAACTATTTGAACTGATTCAGCAAACACATTTAT
1 GATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGATTC-GTAAACAGATTTAT
* * * * * * * * *
13578995 TTTTTAAATTCTTGCTTATT-AATGTTTAGAATATTATTTATTTAGCAATATTTTA-CTCTAAAT
65 TTTTTAAA-TCTTTCTTATTAAAT-TTCATAATATTAATAAATTAGTATTATTTTATTTC-AAAT
* * * *
13579058 AAGCTTGT-TGAATA-GAAATTAAATGTTTTAGGACAAAACAAAA
127 AAGCTTGTATGAAGATGAAA-CAATTGTTTTATGACAAAACAAAA
13579101 ATCATAACAA
Statistics
Matches: 709, Mismatches: 144, Indels: 71
0.77 0.16 0.08
Matches are distributed among these distances:
175 11 0.02
176 121 0.17
177 63 0.09
178 3 0.00
179 11 0.02
180 83 0.12
181 396 0.56
182 19 0.03
183 2 0.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (179 bp):
GATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGATTCGTAAACAGATTTATT
TTTTAAATCTTTCTTATTAAATTTCATAATATTAATAAATTAGTATTATTTTATTTCAAATAAGC
TTGTATGAAGATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
Found at i:13578728 original size:362 final size:356
Alignment explanation
Indices: 13578034--13579003 Score: 1033
Period size: 362 Copynumber: 2.7 Consensus size: 356
13578024 AATTTAGTAC
* * * *
13578034 GATTTGAAATAAATAAATGTTCAAATTGTTATAACTAATTGAACTAGTATGGTAAATAGATTTAT
1 GATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTGAACTAGT-TGGTAAATAGATTTAT
* * * * *
13578099 TTATTAAATC-TCTTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTTTGGATAAAC
65 TTTTTAAATCTTCTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTA-TTTGAATAAGC
* ** * *
13578163 TTATATGAACAAAAACATTTGTTTTACGACAAAACAAAAGGTCATAATGATTTGAAATAGATAAT
129 TTGTATGATGAAAAACAATTGTTTTATGAC-AAACAAAAGGTCATAATGATTTGAAATAGATAAT
* ** * * * * * * *
13578228 TATTCATTTAGCCTTAACTATTTGAATTGGTTCAGTAAACAAATTTATTTTTTAAATCTATCAGT
193 TGTTCAAATAGCCATAACTATTTGAACTGATTCAGTAAACAAATTTATATTGTAAATCTATAACT
* * * * *
13578293 TATTAAATTTCATAATATTACTATATTAGTATTTTTTGATTTCAAATAAGCTTGTATGAAGATAA
258 TATCAAATTTCATAATATTAATAAAGTAATATTTTTTGATTTCAAATAAGCTTGTATGAAGATAA
* *
13578358 ATAATTGTTTTATGACAAAACAAAAGGTTATAAT
323 ACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * *
13578392 GATTGGAAATATATAATTGTTCAAATAGTCATAACTATTTGAACTAATTCGATAAATAGATTTAT
1 GATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTGAACTAGTT-GGTAAATAGATTTAT
13578457 TTTTTAAATCTCCTTCTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTCTGAATA
65 TTTTTAAA--T-CTTCTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATT-TGAATA
*
13578522 GGCTTGTATGATGAAAAACAATTGTTTTATGACACAACAAAA-GTCCATAATGATTTGAAATAGA
126 AGCTTGTATGATGAAAAACAATTGTTTTATGACA-AACAAAAGGT-CATAATGATTTGAAATAGA
* * * ** *
13578586 TAATTGTTTAAATGGCCATAATTATTTGAACTGATTC-GATAAACTGATTTATATTGTAAATCTT
189 TAATTGTTCAAATAGCCATAACTATTTGAACTGATTCAG-TAAACAAATTTATATTGTAAATCTA
* * * *
13578650 TAACTTATCAATTTTTATAATATTAATAAAGTAATATTATTTT-ATTTCAGATAAGCTTTTATGA
253 TAACTTATCAAATTTCATAATATTAATAAAGTAATATT-TTTTGATTTCAAATAAGCTTGTATGA
* * * *
13578714 A-CTGAAACAATTGTTTTATGATAAAATATAAGGTCATAAT
317 AGAT-AAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * * *
13578754 GATTTTAAATAGATAATTGTTCAAATAGTCAAAAATATTTGAACTTGTTTGGTAAATAGATTT-T
1 GATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTGAACTAG-TTGGTAAATAGATTTAT
* ** *
13578818 TTTTCT-AAT-TTCTTAATAATTTTTTGAATGTTAATAAATTAGTATTATTTTATTTCGAATAAG
65 TTTT-TAAATCTTCTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTT-GAATAAG
* * * * * * *
13578881 CATGTTTGAGTTG--AAGCAATTATTTTATGACTAAATAAAAGGTCAAAATGATTTGAAATAGGT
128 CTTGTATGA--TGAAAAACAATTGTTTTATGAC-AAACAAAAGGTCATAATGATTTGAAATAGAT
* *** * * * *
13578944 AATTGTTCTAATAGTTTTAACTATTTGAACTGATTCAGCAAACACATTTATTTTTTAAAT
190 AATTGTTCAAATAGCCATAACTATTTGAACTGATTCAGTAAACAAATTTATATTGTAAAT
13579004 TCTTGCTTAT
Statistics
Matches: 511, Mismatches: 82, Indels: 39
0.81 0.13 0.06
Matches are distributed among these distances:
356 1 0.00
357 141 0.28
358 66 0.13
359 3 0.01
360 1 0.00
361 15 0.03
362 278 0.54
363 6 0.01
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (356 bp):
GATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTGAACTAGTTGGTAAATAGATTTATT
TTTTAAATCTTCTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTTGAATAAGCTT
GTATGATGAAAAACAATTGTTTTATGACAAACAAAAGGTCATAATGATTTGAAATAGATAATTGT
TCAAATAGCCATAACTATTTGAACTGATTCAGTAAACAAATTTATATTGTAAATCTATAACTTAT
CAAATTTCATAATATTAATAAAGTAATATTTTTTGATTTCAAATAAGCTTGTATGAAGATAAACA
ATTGTTTTATGACAAAACAAAAGGTCATAAT
Found at i:13579170 original size:28 final size:27
Alignment explanation
Indices: 13579124--13579186 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
13579114 GAGATAGATA
*
13579124 TTATAA-TTTAATATAATTAT-TCAATT
1 TTATAATTTTAATATAATTATAT-AAAT
*
13579150 TTATAATTATTAATATTATTATATAAAT
1 TTATAATT-TTAATATAATTATATAAAT
13579178 TTATAATTT
1 TTATAATTT
13579187 AGTGCAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 6 0.19
27 2 0.06
28 23 0.72
29 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
TTATAATTTTAATATAATTATATAAAT
Found at i:13579264 original size:10 final size:10
Alignment explanation
Indices: 13579249--13579314 Score: 80
Period size: 10 Copynumber: 6.7 Consensus size: 10
13579239 TTTGAATATT
13579249 ATAATTATAC
1 ATAATTATAC
*
13579259 ATAATTATAT
1 ATAATTATAC
13579269 ATAATTATAC
1 ATAATTATAC
*
13579279 ATAATTATAT
1 ATAATTATAC
* *
13579289 ATAATTTTAT
1 ATAATTATAC
13579299 ATAA-TATAC
1 ATAATTATAC
*
13579308 TTAATTA
1 ATAATTA
13579315 GATTATACTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
9 6 0.12
10 42 0.88
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAATTATAC
Found at i:13579284 original size:30 final size:29
Alignment explanation
Indices: 13579249--13579314 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
13579239 TTTGAATATT
13579249 ATAATTATACATAATTATATATAATTATAC
1 ATAATTATACATAATTATATATAA-TATAC
* *
13579279 ATAATTATATATAATTTTATATAATATAC
1 ATAATTATACATAATTATATATAATATAC
*
13579308 TTAATTA
1 ATAATTA
13579315 GATTATACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 11 0.33
30 22 0.67
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (29 bp):
ATAATTATACATAATTATATATAATATAC
Found at i:13579303 original size:20 final size:20
Alignment explanation
Indices: 13579248--13579294 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
13579238 ATTTGAATAT
13579248 TATAATTATACATAATTATA
1 TATAATTATACATAATTATA
13579268 TATAATTATACATAATTATA
1 TATAATTATACATAATTATA
13579288 TATAATT
1 TATAATT
13579295 TTATATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
TATAATTATACATAATTATA
Found at i:13579349 original size:10 final size:10
Alignment explanation
Indices: 13579211--13579349 Score: 52
Period size: 10 Copynumber: 13.2 Consensus size: 10
13579201 ATTAGTTTAA
13579211 TAAATATAA-
1 TAAATATAAT
13579220 TATAAT-TAAT
1 TA-AATATAAT
*
13579230 TAAATATTATT
1 TAAATA-TAAT
13579241 TGAATATTATAAT
1 T-AA-A-TATAAT
* *
13579254 TATACATAAT
1 TAAATATAAT
*
13579264 TATATATAAT
1 TAAATATAAT
* *
13579274 TATACATAAT
1 TAAATATAAT
*
13579284 TATATATAAT
1 TAAATATAAT
**
13579294 TTTATATAA-
1 TAAATATAAT
*
13579303 TATACT-TAAT
1 TA-AATATAAT
13579313 TAGATTATACTAAT
1 TA-A--ATA-TAAT
*
13579327 TTAATATAGAT
1 TAAATATA-AT
13579338 TAAATATAAT
1 TAAATATAAT
13579348 TA
1 TA
13579350 TTGTATTTTA
Statistics
Matches: 101, Mismatches: 15, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
9 12 0.12
10 55 0.54
11 17 0.17
12 4 0.04
13 6 0.06
14 7 0.07
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (10 bp):
TAAATATAAT
Found at i:13579656 original size:20 final size:20
Alignment explanation
Indices: 13579604--13579657 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 20
13579594 CTTATTAATA
* *
13579604 ATAAATATTTAATTATTTATT
1 ATAAATA-TTAATAATTTATC
13579625 ATAAAT-TT--TAATTTATC
1 ATAAATATTAATAATTTATC
13579642 ATAAATATTAATAATT
1 ATAAATATTAATAATT
13579658 ACTATTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 13 0.46
18 2 0.07
19 2 0.07
20 5 0.18
21 6 0.21
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAAATATTAATAATTTATC
Found at i:13579864 original size:33 final size:31
Alignment explanation
Indices: 13579827--13579905 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 31
13579817 TATCTTAATT
*
13579827 ATTATTCATATTTATTTTTAATATTA-AATATAA
1 ATTATT-ATATTTATTTTTAATAATATAA-AT-A
*
13579860 ATTATT-T-TATATTATTTAATAATATAAATA
1 ATTATTATATTTATT-TTTAATAATATAAATA
13579890 ATTATTATATTTATTT
1 ATTATTATATTTATTT
13579906 ATCTATCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
30 12 0.31
31 14 0.36
32 7 0.18
33 6 0.15
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTATTATATTTATTTTTAATAATATAAATA
Found at i:13580050 original size:72 final size:71
Alignment explanation
Indices: 13579869--13580052 Score: 167
Period size: 72 Copynumber: 2.5 Consensus size: 71
13579859 AATTATTTTA
* * *
13579869 TATTATTTAATAATATAAATAATTATTATATTTATTTATCTATCAATATTAATTATTTTAATTAA
1 TATTATTT-ATAATAT-AATAAAT-TTATATTTATATAT-TATCAATATTAATTAATTTAATTAA
* *
13579934 TACTATAAAT
62 AACTATAAAC
* *** * * *
13579944 TATTAATTATAATATTAAT-AA-TTATTAAACATATATTATTAATAATTATTTAATTTATTGTAA
1 TATTATTTATAATA-TAATAAATTTA-TATTTATATATTATCAAT-ATTAATTAATTTAAT-TAA
13580007 AACTA-AAAC
62 AACTATAAAC
13580016 TATTATTTATAATATAATAAATTTATATTTATATATT
1 TATTATTTATAATATAATAAATTTATATTTATATATT
13580053 TATATTATTA
Statistics
Matches: 87, Mismatches: 16, Indels: 15
0.74 0.14 0.13
Matches are distributed among these distances:
71 13 0.15
72 46 0.53
73 11 0.13
74 9 0.10
75 8 0.09
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.51
Consensus pattern (71 bp):
TATTATTTATAATATAATAAATTTATATTTATATATTATCAATATTAATTAATTTAATTAAAACT
ATAAAC
Found at i:13580120 original size:41 final size:40
Alignment explanation
Indices: 13580055--13580188 Score: 114
Period size: 41 Copynumber: 3.2 Consensus size: 40
13580045 TATATATTTA
* *
13580055 TATTATTATTA-AGAATAATT-AATTATTATATCAATTAT
1 TATTATAATTATAAAATAATTAAATTATTATATCAATTAT
13580093 T-TTAATAATTAATATAATAATTAAATTAAATTATTATAT-AATTTAT
1 TATT-ATAA-T--TATAA-AA-T-AATTAAATTATTATATCAA-TTAT
* *
13580139 TACTTATAATTATAAAATAATAAAATTAATATATCAATTAT
1 TA-TTATAATTATAAAATAATTAAATTATTATATCAATTAT
13580180 ATATTATAA
1 -TATTATAA
13580189 GATTATAATA
Statistics
Matches: 78, Mismatches: 4, Indels: 25
0.73 0.04 0.23
Matches are distributed among these distances:
37 2 0.03
38 4 0.05
39 1 0.01
41 26 0.33
42 6 0.08
43 4 0.05
44 6 0.08
45 6 0.08
46 17 0.22
47 4 0.05
48 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (40 bp):
TATTATAATTATAAAATAATTAAATTATTATATCAATTAT
Found at i:13580130 original size:46 final size:45
Alignment explanation
Indices: 13580071--13580167 Score: 119
Period size: 46 Copynumber: 2.1 Consensus size: 45
13580061 TATTAAGAAT
* *
13580071 AATT-AATTATTATATCAA-TTATT-TTAATAATTAATATAATAATTA
1 AATTAAATTATTATAT-AATTTATTATT-ATAATT-ATAAAATAATAA
13580116 AATTAAATTATTATATAATTTATTACTTATAATTATAAAATAATAA
1 AATTAAATTATTATATAATTTATTA-TTATAATTATAAAATAATAA
13580162 AATTAA
1 AATTAA
13580168 TATATCAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
45 6 0.13
46 32 0.70
47 6 0.13
48 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (45 bp):
AATTAAATTATTATATAATTTATTATTATAATTATAAAATAATAA
Found at i:13580135 original size:21 final size:21
Alignment explanation
Indices: 13580071--13580135 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 21
13580061 TATTAAGAAT
13580071 AATT-AATTATTATATCAATTA
1 AATTAAATTATTATAT-AATTA
** *
13580092 TTTTAATAATTAATATAATAATTA
1 AATT-A-AATTATTAT-ATAATTA
13580116 AATTAAATTATTATATAATT
1 AATTAAATTATTATATAATT
13580136 TATTACTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
21 8 0.24
22 8 0.24
23 1 0.03
24 15 0.44
25 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTAAATTATTATATAATTA
Found at i:13581127 original size:18 final size:19
Alignment explanation
Indices: 13581104--13581164 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 19
13581094 TAATAGTTAA
13581104 TAAATTAAATATAAT-AGT
1 TAAATTAAATATAATAAGT
13581122 TAAATT--ATATAATAAGT
1 TAAATTAAATATAATAAGT
13581139 TAAATTATAATAATTAATAAG-
1 TAAATTA-AAT-A-TAATAAGT
13581160 TAAAT
1 TAAAT
13581165 GCTTATCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
18 6 0.16
20 2 0.05
21 6 0.16
22 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAATTAAATATAATAAGT
Found at i:13581203 original size:8 final size:9
Alignment explanation
Indices: 13581176--13581217 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
13581166 CTTATCATTG
13581176 TAATATATT
1 TAATATATT
13581185 TAATATATT
1 TAATATATT
13581194 TAAT-TATT
1 TAATATATT
*
13581202 TAATATTATA
1 TAATA-TATT
13581212 TAATAT
1 TAATAT
13581218 TAAATATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 8 0.27
9 14 0.47
10 8 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TAATATATT
Found at i:13581203 original size:17 final size:17
Alignment explanation
Indices: 13581176--13581228 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
13581166 CTTATCATTG
13581176 TAATATATTTAATATATT
1 TAAT-TATTTAATATATT
*
13581194 TAATTATTTAATATTATA
1 TAATTATTTAATA-TATT
13581212 TAA-TA-TTAA-ATATT
1 TAATTATTTAATATATT
13581226 TAA
1 TAA
13581229 ATTAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 6 0.19
15 1 0.03
16 4 0.12
17 11 0.34
18 10 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATTATTTAATATATT
Found at i:13581234 original size:13 final size:13
Alignment explanation
Indices: 13581216--13581240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13581206 ATTATATAAT
13581216 ATTAAATATTTAA
1 ATTAAATATTTAA
13581229 ATTAAATATTTA
1 ATTAAATATTTA
13581241 TTCTAATATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATATTTAA
Found at i:13581237 original size:25 final size:23
Alignment explanation
Indices: 13581184--13581240 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
13581174 TGTAATATAT
*
13581184 TTAATATATTTAATTATTTAATA
1 TTAATATATTTAAATATTTAATA
13581207 TT-ATATAATATTAAATATTTAA-A
1 TTAATAT-AT-TTAAATATTTAATA
13581230 TTAA-ATATTTA
1 TTAATATATTTA
13581241 TTCTAATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
21 3 0.10
22 6 0.20
23 9 0.30
24 12 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTAATATATTTAAATATTTAATA
Found at i:13581307 original size:22 final size:25
Alignment explanation
Indices: 13581256--13581307 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 25
13581246 ATATAATAAA
13581256 TATTATATAATTATATTATTAATTT
1 TATTATATAATTATATTATTAATTT
*
13581281 CATTATATAA-TA-A-TATTAATTT
1 TATTATATAATTATATTATTAATTT
13581303 TATTA
1 TATTA
13581308 AACAATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 13 0.52
23 1 0.04
24 2 0.08
25 9 0.36
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATATAATTATATTATTAATTT
Found at i:13581500 original size:13 final size:13
Alignment explanation
Indices: 13581484--13581525 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
13581474 ATAATAAACA
13581484 AATTTATTAAATT
1 AATTTATTAAATT
*
13581497 AATTTA-TAAAAT
1 AATTTATTAAATT
*
13581509 AATTAATATAAATT
1 AATTTAT-TAAATT
13581523 AAT
1 AAT
13581526 ATTGTAGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 10 0.42
13 6 0.25
14 8 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATTTATTAAATT
Found at i:13581828 original size:29 final size:31
Alignment explanation
Indices: 13581787--13581846 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
13581777 ATTATAGTAA
13581787 TAAATTAAATATTAA-CAAAT-ATAATAATT
1 TAAATTAAATATTAATCAAATAATAATAATT
* * *
13581816 TAAATTGATTATTAATCAAATAATCATAATT
1 TAAATTAAATATTAATCAAATAATAATAATT
13581847 ATTATTTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.50
30 5 0.19
31 8 0.31
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (31 bp):
TAAATTAAATATTAATCAAATAATAATAATT
Found at i:13582358 original size:17 final size:17
Alignment explanation
Indices: 13582312--13582368 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
13582302 TCAAATTAAC
13582312 TTATAATTAATTATAATA
1 TTATAATTAATT-TAATA
*
13582330 --AT-ATTAACTTAATA
1 TTATAATTAATTTAATA
13582344 TTATAATTAATTTAATA
1 TTATAATTAATTTAATA
13582361 TTATAATT
1 TTATAATT
13582369 GTTCATAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 4 0.12
17 19 0.56
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATAATTAATTTAATA
Found at i:13582460 original size:23 final size:20
Alignment explanation
Indices: 13582416--13582456 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
13582406 TGATTAATAT
*
13582416 ATTAATTATAAAATTTTATA
1 ATTAATTATAAAATATTATA
13582436 ATTAATTATCATAAATATTAT
1 ATTAATTAT-A-AAATATTAT
13582457 TAATATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAATTATAAAATATTATA
Found at i:13582949 original size:17 final size:18
Alignment explanation
Indices: 13582919--13582960 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
13582909 TTTAATAAAT
*
13582919 TATTGATTATAATTTATAA
1 TATTTATTATAATTT-TAA
13582938 -ATTTATTA-AATTTTAA
1 TATTTATTATAATTTTAA
13582954 TATTTAT
1 TATTTAT
13582961 CATATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.14
17 11 0.52
18 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTATTATAATTTTAA
Found at i:13583206 original size:13 final size:15
Alignment explanation
Indices: 13583151--13583207 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 15
13583141 TCAAAACCTA
13583151 ATTAT-AATTAATAT
1 ATTATAAATTAATAT
*
13583165 AATGTATTAATTAATAT
1 -AT-TATAAATTAATAT
13583182 ATTATAAA-TAAT-T
1 ATTATAAATTAATAT
13583195 ATT-TAAATTAATA
1 ATTATAAATTAATA
13583208 GTTATAGTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
12 4 0.11
13 8 0.22
14 4 0.11
15 7 0.19
16 5 0.14
17 9 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
ATTATAAATTAATAT
Found at i:13583461 original size:19 final size:19
Alignment explanation
Indices: 13583439--13583483 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13583429 AATAATTAAT
13583439 TTATAATAAGGTTATA-AAA
1 TTATAATAA-GTTATATAAA
*
13583458 TTATAATAATTTATATAAA
1 TTATAATAAGTTATATAAA
13583477 TTA-AATA
1 TTATAATA
13583484 TAATAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
TTATAATAAGTTATATAAA
Found at i:13583898 original size:67 final size:67
Alignment explanation
Indices: 13583789--13583926 Score: 215
Period size: 67 Copynumber: 2.1 Consensus size: 67
13583779 TATCTGTTTT
*
13583789 AAATTGTTGTTACCTTTTATTTTGCCATAAAACAATTCTTTTTCAACATACAAGCTTATTTGAAA
1 AAATTGTTGTTACCTTTTATTTTGCCATAAAACAATTATTTTTCAACATACAAGCTTATTTGAAA
13583854 TA
66 TA
* * * *
13583856 AAATTGTTAG-TACCTTTTGTTTTGTCATAAAACAATTATTTTTGAACATACAAGTTTATTTGAA
1 AAATTGTT-GTTACCTTTTATTTTGCCATAAAACAATTATTTTTCAACATACAAGCTTATTTGAA
13583920 ATA
65 ATA
13583923 AAAT
1 AAAT
13583927 AATATTAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 64 0.98
68 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (67 bp):
AAATTGTTGTTACCTTTTATTTTGCCATAAAACAATTATTTTTCAACATACAAGCTTATTTGAAA
TA
Found at i:13584233 original size:181 final size:180
Alignment explanation
Indices: 13583856--13585332 Score: 1037
Period size: 181 Copynumber: 8.3 Consensus size: 180
13583846 ATTTGAAATA
* * * * * *
13583856 AAATTGTTA-GTACCTTTTGTTTTGTCATAAAACAATTATTTTTGA-ACATACAAGTTTATT-TG
1 AAATTGTTATG-ACCTTTTGTTTTATCATAAAACAATTATTTCT-ACTCATATAAATTTATTCAG
* * * * *
13583918 AAATAAAATAATATTAATTTATTAATATTTAAAGACT--T-AGTACGAGA-TTCAAAAATAAATT
64 -AATAAAATAATACTAATTTATTAATATTTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATT
** ** * * *
13583979 TGTTCACCAAATAAATTCAAATAGTTATGACTATTTGAACAATTATTTATTTC
128 TGTTTGCCAAACCAGTTCAAATAGTTAAGACTATTTGAACAATTATCTATTTC
* ** * * * **
13584032 AAATTGTTATAATATTTTGTTCTATCATAAAATAATTATTTCTATTCATATAAATTTATTTGGAA
1 AAATTGTTATGACCTTTTGTTTTATCATAAAACAATTATTTCTACTCATATAAATTTATTCAGAA
* * * *
13584097 TAAAATAATACTAAATTAATAATATTCTAAAAATTCATAACTAAGAGATTTAAAAAATAAATTTG
66 TAAAATAATACTAATTTATTAATATT-TAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTG
* * * *
13584162 TTTGTCAAACCAGTTCAAATAGTTAAGACTATATGAATAATTATCTATTTT
130 TTTGCCAAACCAGTTCAAATAGTTAAGACTATTTGAACAATTATCTATTTC
* **
13584213 AAATTGTTATGACCTTTTGTTTTATTATAAAACAATTATTT-TAGCTCAT-CCAATCTTATTC-G
1 AAATTGTTATGACCTTTTGTTTTATCATAAAACAATTATTTCTA-CTCATATAAAT-TTATTCAG
* * *
13584275 TAATAAAATAAAACTAATTTATTATTATTTCAAAAATT--T-A-TAAGAGATTTAAAAAATAATT
64 -AATAAAATAATACTAATTTATTAATATTT-AAAAATTAATAAGTAAGAGATTTAAAAAATAAAT
* **** * ** *
13584336 TTATTTATTGAACCAGTTCAAATAATTACA-ACTATTCAAACAATTATATATTTC
127 TTGTTTGCCAAACCAGTTCAAATAGTTA-AGACTATTTGAACAATTATCTATTTC
* * * * * * **
13584390 AATTTGTTATAACCTTTTATTCTA-CATAAAACAATTATTTCTACTCGTACAAGCTTATTCAGAA
1 AAATTGTTATGACCTTTTGTTTTATCATAAAACAATTATTTCTACTCATATAAATTTATTCAGAA
** * * *
13584454 TAAAATAATACTAATCAAATAATATTTTGACAATTAATAACG-AAGAGATTTAAAAAATAAATTT
66 TAAAATAATACTAATTTATTAATA-TTTAAAAATTAATAA-GTAAGAGATTTAAAAAATAAATTT
* * * *
13584518 GTTTGCCAAACCACTTCAAATAGTTAAGGCTATATGAATAATTATCTATTTC
129 GTTTGCCAAACCAGTTCAAATAGTTAAGACTATTTGAACAATTATCTATTTC
* * * ** * * * *
13584570 AAATAGTTATGACATTTTATTTTATTGTAAATA-AATTTTTTTTAGCTCTTACT-AACTTATTCA
1 AAATTGTTATGACCTTTTGTTTTATCATAAA-ACAATTATTTCTA-CTCATA-TAAATTTATTCA
*
13584633 GAATAAAATAA-ATCGAATTTATTAATATTTCAAAAATTAATAAGTAAGAGA-TTAAAAACATAA
63 GAATAAAATAATA-CTAATTTATTAATATTT-AAAAATTAATAAGTAAGAGATTTAAAAA-ATAA
* * ** * * * *
13584696 TTTTGTTAGCTGAACCAATTCAAATAAG-TATGAATATTTGAACAATTATCTATTTT
125 ATTTGTTTGCCAAACCAGTTCAAAT-AGTTAAGACTATTTGAACAATTATCTATTTC
** * * * * * * ** * * *
13584752 AAATCATTATTACCTTTTGTTTTGTCATGAAACAAATGTTTTTGTTTATATAAATTTGTTCATAA
1 AAATTGTTATGACCTTTTGTTTTATCATAAAACAATTATTTCTACTCATATAAATTTATTCAGAA
* * * *
13584817 TAAAATAATATTAATTTATTAATATCTTGAAAATTAATAAGTAAGAGATTTAAAAGATAAATTTA
66 TAAAATAATACTAATTTATTAATAT-TTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTG
* * *
13584882 TTTGCCAAACCAGTTCAATTAGTTATA-ACTATTTGAATAATTATTTATTTC
130 TTTGCCAAACCAGTTCAAATAGTTA-AGACTATTTGAACAATTATCTATTTC
* * * * ** * *
13584933 AAATTGTTATGACCATTTGTTCTATCATAAAATAATTAGTTCTGTTCATAT-AGTCATATTC---
1 AAATTGTTATGACCTTTTGTTTTATCATAAAACAATTATTTCTACTCATATAAAT-TTATTCAGA
* ** * ** *
13584994 --AAAATAA-AGTAA--TGCT-A-ATTT-AAAATTAATAAGTAATGA-ATTTAGAAAATGTATCT
65 ATAAAATAATACTAATTTATTAATATTTAAAAATTAATAAGTAA-GAGATTTAAAAAATAAATTT
* ** * * * * *
13585050 GTTGGCCTGATCAGTGCAAATAGTTATGATTGTTTGAACAATTATCTATTTC
129 GTTTGCCAAACCAGTTCAAATAGTTAAGACTATTTGAACAATTATCTATTTC
* * * * * ** * ** *
13585102 AAATCGTTATGACCTTTTGTTTTGTCATGAAATAATTGTTTCTGTTCATACAAGCTTATTCAAAA
1 AAATTGTTATGACCTTTTGTTTTATCATAAAACAATTATTTCTACTCATATAAATTTATTCAGAA
* * * * * * * * * *
13585167 TAACATAATTCTAGTTTATTAATATTCCAAAAATTTACATGTAAGAGATTTAAAAAATGAATCTA
66 TAAAATAATACTAATTTATTAATATT-TAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTG
* * * * ** * *
13585232 TTTACCAAACAAGTTTAAATAATTGTGGCTATTTGAAAAATTATCTATTTC
130 TTTGCCAAACCAGTTCAAATAGTTAAGACTATTTGAACAATTATCTATTTC
* * * * * *
13585283 AAATTGCTATAACCTTTTGTTTTGTCATAAGACAATTTTTTCTATTCATA
1 AAATTGTTATGACCTTTTGTTTTATCATAAAACAATTATTTCTACTCATA
13585333 CAAGCTTATT
Statistics
Matches: 1015, Mismatches: 230, Indels: 107
0.75 0.17 0.08
Matches are distributed among these distances:
169 114 0.11
170 6 0.01
171 2 0.00
172 1 0.00
173 2 0.00
174 6 0.01
175 7 0.01
176 130 0.13
177 98 0.10
178 4 0.00
179 7 0.01
180 98 0.10
181 401 0.40
182 137 0.13
183 2 0.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (180 bp):
AAATTGTTATGACCTTTTGTTTTATCATAAAACAATTATTTCTACTCATATAAATTTATTCAGAA
TAAAATAATACTAATTTATTAATATTTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGT
TTGCCAAACCAGTTCAAATAGTTAAGACTATTTGAACAATTATCTATTTC
Found at i:13584511 original size:357 final size:354
Alignment explanation
Indices: 13583856--13584970 Score: 1150
Period size: 357 Copynumber: 3.1 Consensus size: 354
13583846 ATTTGAAATA
* * ** * *
13583856 AAATTGTTA-GTACCTTTTGTTTTGTCATAAAACAATTATTTTTGAACATACAAGT-TTATTTGA
1 AAATTGTTATG-ACCTTTTGTTTTATCATAAAACAATTATTTTAGCTCATCCAA-TCTTATTCG-
* * * * * * *
13583919 AATAAAATAATATTAATTTATTAATATTT-AAAGACTTAGTACGAGATTCAAAAATAAATTTGTT
63 AATAAAATAAAACTAATTTATTAATATTTCAAAAATTTAGTAAGAGATTAAAAAAT-AATTTTTT
* ** ** * ** * **
13583983 CACCAAATAAATTCAAATAGTTATGACTATTTGAACAATTATTTATTTCAAATTGTTATAATATT
127 TACTGAACCAATTCAAATAATTACAACTATTTGAACAATTATATATTTCAAATTGTTATAACCTT
* **
13584048 TTGTTCTATCATAAAATAATTATTTCTATTCATATAAATTTATTTGGAATAAAATAATACTAAAT
192 TTGTTCTA-CATAAAACAATTATTTCTATTCATATAAATTTATTCAGAATAAAATAATACT-AAT
* * * * *
13584113 TAATAATATTCTAAAAATTCATAACTAAGAGATTTAAAAAATAAATTTGTTTGTCAAACCAGTTC
255 TAATAATATTTTGAAAATTAATAACGAAGAGATTTAAAAAATAAATTTGTTTGCCAAACCAGTTC
*
13584178 AAATAGTTAAGACTATATGAATAATTATCTATTTT
320 AAATAGTTAAGACTATATGAATAATTATCTATTTC
*
13584213 AAATTGTTATGACCTTTTGTTTTATTATAAAACAATTATTTTAGCTCATCCAATCTTATTCGTAA
1 AAATTGTTATGACCTTTTGTTTTATCATAAAACAATTATTTTAGCTCATCCAATCTTATTCG-AA
*
13584278 TAAAATAAAACTAATTTATTATTATTTCAAAAATTTA-TAAGAGATTTAAAAAATAATTTTATTT
65 TAAAATAAAACTAATTTATTAATATTTCAAAAATTTAGTAAGAGA-TTAAAAAATAATTTT-TTT
* * ** *
13584342 ATTGAACCAGTTCAAATAATTACAACTATTCAAACAATTATATATTTCAATTTGTTATAACCTTT
128 ACTGAACCAATTCAAATAATTACAACTATTTGAACAATTATATATTTCAAATTGTTATAACCTTT
* * * * ** *
13584407 TATTCTACATAAAACAATTATTTCTACTCGTACAAGCTTATTCAGAATAAAATAATACTAATCAA
193 TGTTCTACATAAAACAATTATTTCTATTCATATAAATTTATTCAGAATAAAATAATACTAAT-TA
* *
13584472 ATAATATTTTGACAATTAATAACGAAGAGATTTAAAAAATAAATTTGTTTGCCAAACCACTTCAA
257 ATAATATTTTGAAAATTAATAACGAAGAGATTTAAAAAATAAATTTGTTTGCCAAACCAGTTCAA
*
13584537 ATAGTTAAGGCTATATGAATAATTATCTATTTC
322 ATAGTTAAGACTATATGAATAATTATCTATTTC
* * * ** * * *
13584570 AAATAGTTATGACATTTTATTTTATTGTAAATA-AATTTTTTTTAGCTCTTACTAA-CTTATTCA
1 AAATTGTTATGACCTTTTGTTTTATCATAAA-ACAA-TTATTTTAGCTCAT-CCAATCTTATTC-
* *
13584633 GAATAAAATAAATCGAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTAAAAACATAATT
62 GAATAAAATAAAACTAATTTATTAATATTTCAAAAATT--T-AGTAAGAGATTAAAAA-ATAATT
* * * * * **
13584698 TTGTTAGCTGAACCAATTCAAATAAGTATGAA-TATTTGAACAATTATCTATTTTAAATCATTAT
123 TTTTTA-CTGAACCAATTCAAATAATTA-CAACTATTTGAACAATTATATATTTCAAATTGTTAT
* * * * * * * * * * *
13584762 TACCTTTTGTTTTGTCATGAAACAAATGTTTTTGTTTATATAAATTTGTTCATAATAAAATAATA
186 AACCTTTTGTTCT-ACATAAAACAATTATTTCTATTCATATAAATTTATTCAGAATAAAATAATA
* * * * *
13584827 TTAATTTATTAATATCTTGAAAATTAATAA-GTAAGAGATTTAAAAGATAAATTTATTTGCCAAA
250 CTAA-TTAATAATATTTTGAAAATTAATAACG-AAGAGATTTAAAAAATAAATTTGTTTGCCAAA
* * *
13584891 CCAGTTCAATTAGTTATA-ACTATTTGAATAATTATTTATTTC
313 CCAGTTCAAATAGTTA-AGACTATATGAATAATTATCTATTTC
* * *
13584933 AAATTGTTATGACCATTTGTTCTATCATAAAATAATTA
1 AAATTGTTATGACCTTTTGTTTTATCATAAAACAATTA
13584971 GTTCTGTTCA
Statistics
Matches: 626, Mismatches: 110, Indels: 39
0.81 0.14 0.05
Matches are distributed among these distances:
356 4 0.01
357 251 0.40
358 128 0.20
359 4 0.01
360 1 0.00
361 11 0.02
362 72 0.12
363 153 0.24
364 2 0.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (354 bp):
AAATTGTTATGACCTTTTGTTTTATCATAAAACAATTATTTTAGCTCATCCAATCTTATTCGAAT
AAAATAAAACTAATTTATTAATATTTCAAAAATTTAGTAAGAGATTAAAAAATAATTTTTTTACT
GAACCAATTCAAATAATTACAACTATTTGAACAATTATATATTTCAAATTGTTATAACCTTTTGT
TCTACATAAAACAATTATTTCTATTCATATAAATTTATTCAGAATAAAATAATACTAATTAATAA
TATTTTGAAAATTAATAACGAAGAGATTTAAAAAATAAATTTGTTTGCCAAACCAGTTCAAATAG
TTAAGACTATATGAATAATTATCTATTTC
Found at i:13585395 original size:120 final size:120
Alignment explanation
Indices: 13585232--13585463 Score: 304
Period size: 120 Copynumber: 1.9 Consensus size: 120
13585222 AATGAATCTA
* * * **
13585232 TTTACCAAACAAGTTTAAATAATTGTGGCTATTTGAAAAATTATCTATTTCAAATTGCTATAACC
1 TTTACCAAACAAGTTCAAATAATTATGACTATTTGAAAAATTATCTATTTCAAATCACTATAACC
* * *
13585297 TTTTGTTTTGTCATAAGACAATT-TTTTCTATTCATACAAGCTTATTTCAATTTTT
66 TTTTGTTTTCTCATAAAACAATTATTTT-TATTCATAAAAGCTTATTTCAATTTTT
* * * * * *
13585352 TTTACCGAACAAGTTCAAATAGTTATGATTATTTGAACAATTATTTATTTCAAATCATTATAACC
1 TTTACCAAACAAGTTCAAATAATTATGACTATTTGAAAAATTATCTATTTCAAATCACTATAACC
* *
13585417 TTTTGTTTTCTCATAAAACAATTATTTTTGTTCATAAAAGTTTATTT
66 TTTTGTTTTCTCATAAAACAATTATTTTTATTCATAAAAGCTTATTT
13585464 GGATTAAAAT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
120 91 0.96
121 4 0.04
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (120 bp):
TTTACCAAACAAGTTCAAATAATTATGACTATTTGAAAAATTATCTATTTCAAATCACTATAACC
TTTTGTTTTCTCATAAAACAATTATTTTTATTCATAAAAGCTTATTTCAATTTTT
Found at i:13585582 original size:16 final size:17
Alignment explanation
Indices: 13585561--13585593 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13585551 ATAGTAATAA
13585561 CTATTT-AAATAATTAT
1 CTATTTCAAATAATTAT
*
13585577 CTATTTCAAATCATTAT
1 CTATTTCAAATAATTAT
13585594 GACCTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
CTATTTCAAATAATTAT
Found at i:13585746 original size:180 final size:180
Alignment explanation
Indices: 13585352--13587389 Score: 1566
Period size: 181 Copynumber: 11.4 Consensus size: 180
13585342 TTCAATTTTT
* * * * * *
13585352 TTTACCGAACAAGTTCAAATAGTTATGATTATTTGAACAATTATTTATTTCAAATCATTATAACC
1 TTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTATGACC
* * *** * * *** * *
13585417 TTTTGTTTTCTCATAAAACAATTATTTTTGTTCATAAAAGTTTATTTGGATTAAAATAATATTAA
66 TTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCAAAATAAAATAATACTAA
* *
13585482 TTTATTAATATTTC-AATAATTAATAAGTAAAAGATTTAAAAAAATAAATATT-
131 TTTATTAATA-TTCAAAAAATTAATAAGTAAGAGATTT--AAAAATAAAT-TTG
* * * *
13585534 TTTATCAAA-AAATTCAAATAGTAATAACTATTTAAATAATTATCTATTTCAAATCATTATGACC
1 TTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTATGACC
** * * *
13585598 TTTTGTTTCATCATAAAA-AATTGTATT-AATTCATATAGGCTTATTCAAAATAAAACAATACTA
66 TTTTGTTTTGTCATAAAACAATTGT-TTCAATTCATACAAGCTTATTCAAAATAAAATAATACTA
* * *
13585661 ACTTATTAATATTCAAAAAATTAATGAGTAAGAGATTTGAAAAATGAATTTG
130 ATTTATTAATATTCAAAAAATTAATAAGTAAGAGATTT-AAAAATAAATTTG
* *
13585713 TTTACCAAACAAGTTCAAATAGTTATGACTATTTTAACAATTATCTATTTCAAATCATTATGACC
1 TTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTATGACC
* * * *
13585778 ATTTGTTTTGTCATAAAACAATTCTTT-ACATTCATACAAGCTTAGTCCAAATAAAATAATA-TA
66 TTTTGTTTTGTCATAAAACAATTGTTTCA-ATTCATACAAGCTTATTCAAAATAAAATAATACT-
* * * * * *
13585841 AATTTACTAATATTCCAAAGATTAATAAGTAA-AAATTTAAAAGATAAATCTA
129 AATTTATTAATATTCAAAAAATTAATAAGTAAGAGATTTAAAA-ATAAATTTG
* * * * * * * *
13585893 TTTTCTAAACACGTTCAAATAGTAAAGACTATTTAAATAATTATCTATTTTAAATCGTTATGGCC
1 TTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTATGACC
** * * *
13585958 TTTT-TTTTGTCATAAATGAATTGTTTCTATTCATA-AAGGCTTATTGAAAATAAAA-AATATTA
66 TTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAA-GCTTATTCAAAATAAAATAATACTA
* * * *
13586020 ATTTATTAAAATTTAAAAAATTAATAACTTAA-AGATTTAAAAATTAGATTTG
130 ATTTATTAATATTCAAAAAATTAATAA-GTAAGAGATTTAAAAA-TAAATTTG
* * * * * ** *
13586072 TTTATCGAGCGAA-TTCAAATAGTTATGACTACTTAAATAATTATTTATTTCAAATTGTTATGAT
1 TTTACCAAAC-AAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTATGAC
* * * * *
13586136 CTTTTGTTTTGTCATAAAACAATAGTTTCTATTTATACAAGTTTATTCAAAATAAGATAATACTA
65 CTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCAAAATAAAATAATACTA
* * *
13586201 ATTTATTAATATTCTAAAAATTAATAAGTTAGAGATTTAAATAATAAATATG
130 ATTTATTAATATTCAAAAAATTAATAAGTAAGAGATTTAAA-AATAAATTTG
* * * * * * * * * *
13586253 TTTACCGAACAAGTTCAAATAGTCATGTCCATTTGAATTATTATCTATTTCAAATCGTTAGGGCA
1 TTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTATGACC
** * * ** * *
13586318 TTTTGTTTTGTTGT-AAACAATTGTTTCTATTCGTACAAAATGATTCAAAATAAAATAATACTAT
66 TTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCAAAATAAAATAATACTAA
** * * *
13586382 TTTATTAATATTTTAAAAA-T--TAA-TAAGAGACTCAAAACTAAATTTG
131 TTTATTAATATTCAAAAAATTAATAAGTAAGAGATTTAAAAATAAATTTG
* * * * * * ** *
13586428 TTTACCAGACCAGTACAAATAGTTATGACTATTTGAACAGTTATCTA-TTCAAATCGGTATGATC
1 TTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTATGACC
* * * * * * * * *
13586492 -TTTGTTTTGTCCTAAAATAATTGTTTCTATTCTTATAAACTTATTCAAAGTAAAATATTGCTAA
66 TTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCAAAATAAAATAATACTAA
** * * * *
13586556 ACTAATAATATTCTAAAAA-T--TAA-TAAGAGATTTAAAAA-AAATGTA
131 TTTATTAATATTCAAAAAATTAATAAGTAAGAGATTTAAAAATAAATTTG
* * * * *
13586601 TTTACCGAACCAA--TCAAATAGTTAAGACT-TTTAGAATAGTTATCTATTTCAAATCATTCTAA
1 TTTACC-AAACAAGTTCAAATAGTTATGACTATTTA-AATAATTATCTATTTCAAATCATTATGA
* * * * ** *
13586663 CATTTTGTTTAGTCATAAAATAATTGTTTCAGTTCATACATA-CTTATTTGAAATAAAATAATAG
64 CCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACA-AGCTTATTCAAAATAAAATAATAC
* * *
13586727 TATTTTATTAACATTCAAAAAATTAATAAGTAAG-GAATTTAAAAAAATAAAATATG
128 TAATTTATTAATATTCAAAAAATTAATAAGTAAGAG-ATTT--AAAAAT-AAATTTG
** * * * *
13586783 TTTACTGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACC
1 TTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTATGACC
* * * * * *
13586848 TTTTATTTTATCATAAAATAATTGTTTCATTTCATTA-AAG-TATATCCAAAATAAAATAATATT
66 TTTTGTTTTGTCATAAAACAATTGTTTCAATTCA-TACAAGCT-TATTCAAAATAAAATAATACT
* * * ** **
13586911 ACTTTATTAATATTTC-AAAAATTGAGAAGTTGGAGATTTAAAAAATAAATCAG
129 AATTTATTAATA-TTCAAAAAATTAATAAGTAAGAGATTT-AAAAATAAATTTG
* * * * * *
13586964 TTTATCAAATC-AGTTCAAATAATTATGGCTATGTGAACAATTATCTATTTCAAAT-AGTTATGA
1 TTTACCAAA-CAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCA-TTATGA
* * * ** *
13587027 ACTTTTGTTTTGTCATAAAACAATTATTTTTC-A-TCATGCAAGCCAATTCGAAATAAAATAATA
64 CCTTTTGTTTTGTCATAAAACAA-T-TGTTTCAATTCATACAAGCTTATTCAAAATAAAATAATA
* * * *
13587090 CTAATTTATTAATATTTC-AAAAATTTATAAATAGGAGA--T-----T--ATTTA
127 CTAATTTATTAATA-TTCAAAAAATTAATAAGTAAGAGATTTAAAAATAAATTTG
* * * * * * * *
13587135 TTTATCAAACCAGTGCAAATAATTATGACTATTTAAACT-ATTATATATTTCAAGTCGTTATAAC
1 TTTACCAAACAAGTTCAAATAGTTATGACTATTTAAA-TAATTATCTATTTCAAATCATTATGAC
* ** * **
13587199 CTTTTGTTTTGTCCTAAAACAATTACTT-ATGTTCATACAAGCTTATTTGAAATAAAATAATACT
65 CTTTTGTTTTGTCATAAAACAATTGTTTCA-ATTCATACAAGCTTATTCAAAATAAAATAATACT
* * * * * *
13587263 AATCTAATAATA-TCATGAAAATTAATAACTAAAAGATTTAGAAAATAAATTTA
129 AATTTATTAATATTCA-AAAAATTAATAAGTAAGAGATTTA-AAAATAAATTTG
*** * * * ** * * * *
13587316 TTTGTTAAACCAGTTTAAATAGTTAAGGTTATATAAATAATTATCTATTTCAAATCGTTATGTCA
1 TTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTATGACC
13587381 TTTTGTTTT
66 TTTTGTTTT
13587390 ATCGTAATCT
Statistics
Matches: 1484, Mismatches: 304, Indels: 137
0.77 0.16 0.07
Matches are distributed among these distances:
169 5 0.00
170 2 0.00
171 129 0.09
172 25 0.02
173 35 0.02
174 150 0.10
175 47 0.03
176 10 0.01
177 7 0.00
178 40 0.03
179 138 0.09
180 312 0.21
181 427 0.29
182 29 0.02
183 119 0.08
184 9 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
TTTACCAAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTATGACC
TTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCAAAATAAAATAATACTAA
TTTATTAATATTCAAAAAATTAATAAGTAAGAGATTTAAAAATAAATTTG
Found at i:13586031 original size:23 final size:24
Alignment explanation
Indices: 13585998--13586044 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13585988 TCATAAAGGC
13585998 TTATTGAAAA-TAAAAAATATTAAT
1 TTATTGAAAATTAAAAAA-ATTAAT
*
13586022 TTATT-AAAATTTAAAAAATTAAT
1 TTATTGAAAATTAAAAAAATTAAT
13586045 AACTTAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
TTATTGAAAATTAAAAAAATTAAT
Found at i:13587253 original size:171 final size:171
Alignment explanation
Indices: 13586964--13587275 Score: 428
Period size: 171 Copynumber: 1.8 Consensus size: 171
13586954 AATAAATCAG
* * * * *
13586964 TTTATCAAATCAGTTCAAATAATTATGGCTATGTGAACAATTATCTATTTCAAATAGTTATGAAC
1 TTTATCAAACCAGTGCAAATAATTATGACTATGTAAACAATTATATATTTCAAATAGTTATGAAC
* * *
13587029 TTTTGTTTTGTCATAAAACAATTATTTTTCATCATGCAAGCCAATTCGAAATAAAATAATACTAA
66 TTTTGTTTTGTCATAAAACAATTACTTATCATCATACAAGCCAATTCGAAATAAAATAATACTAA
* *
13587094 TTTATTAATATTTCAAAAATTTATAAATAGGAGATTATTTA
131 TCTAATAATATTTCAAAAATTTATAAATAGGAGATTATTTA
* * * *
13587135 TTTATCAAACCAGTGCAAATAATTATGACTATTTAAACTATTATATATTTCAAGTCGTTAT-AAC
1 TTTATCAAACCAGTGCAAATAATTATGACTATGTAAACAATTATATATTTCAAATAGTTATGAA-
* ** ** *
13587199 CTTTTGTTTTGTCCTAAAACAATTACTTATGTTCATACAAGCTTATTTGAAATAAAATAATACTA
65 CTTTTGTTTTGTCATAAAACAATTACTTATCATCATACAAGCCAATTCGAAATAAAATAATACTA
13587264 ATCTAATAATAT
130 ATCTAATAATAT
13587276 CATGAAAATT
Statistics
Matches: 120, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
170 2 0.02
171 118 0.98
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (171 bp):
TTTATCAAACCAGTGCAAATAATTATGACTATGTAAACAATTATATATTTCAAATAGTTATGAAC
TTTTGTTTTGTCATAAAACAATTACTTATCATCATACAAGCCAATTCGAAATAAAATAATACTAA
TCTAATAATATTTCAAAAATTTATAAATAGGAGATTATTTA
Found at i:13587736 original size:181 final size:179
Alignment explanation
Indices: 13587459--13589938 Score: 1705
Period size: 181 Copynumber: 13.7 Consensus size: 179
13587449 AAACCAATTT
* ** * * ** * * *
13587459 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAGTTGTTATGACTTTTTGTTTTGTTACAA
1 AAATAGTTATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * *
13587524 AACAATAGTTTATGTTCATACAAGCTTATTCGAATTAAAATAATACTAATTTATTAAAATTTCAA
66 AACAATTGTTTCTATTCATA-AAGCTTATTCGAA-TAAAATAATACTAATTTATTAATATTTCAA
* * * * *
13587589 TAATTGATAAGTAAAAGGTTTAAAAGATAAATATGTTTACCGAACTAGATC
129 AAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACTAGTTC
* * * *
13587640 AAATAGTCATGAATATTTGAATAAATATCTATTTCAAATCGTTATGACCTTTTGTTTGGTCATAA
1 AAATAGTTATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * * ** * *
13587705 AAAAATTATTT-TAGTTAGCCTAAA-ATTATTCGAAATAAAATAATACTAAGCTATTCATATTCC
66 AACAATTGTTTCTA-TT--CATAAAGCTTATTCG-AATAAAATAATACTAATTTATTAATATTTC
* * * * * ** * *
13587768 AAAAATTAACAATTAAGAGATTTAAAAAAATGAATTTGTTTATGGAACAAGTTT
127 AAAAATTAATAAGTAAAAGATTT-AAAAAATAAATATGTTTACCGAACTAGTTC
* * * * ** *
13587822 AAATAATTATGATTATTTGAATAATTATTTATTTGAAATTGTTATAACCTTTTGTTTTGTCATAA
1 AAATAGTTATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * * * * **
13587887 AATGATTTTTTTTTGTTCATACTATATTATTTCGAATAAAATAATA-TAAATTTATTAATA-TT-
66 AA-CAATTGTTTCTATTCATA-AAGCTTA-TTCGAATAAAATAATACT-AATTTATTAATATTTC
* * * *
13587949 AAGACAAGTAATTAA-TAAAAGATTTAAAAAATAAATATGTTTATCAAACAAGTTC
127 AA-A-AATTAA-TAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACTAGTTC
* * * * ** * *
13588004 AAATCA-TTATGACTATTTGAACAATTATTTATTTTAAATTGTTCTGACTTTTTGTTTTGGT-AT
1 AAAT-AGTTATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTT-GTCAT
* ** * *
13588067 AAAATAATAATTTCTATTCATACAAGCTTATTC-ATATTAAAATAATATTAATTTATTAATATCT
64 AAAACAATTGTTTCTATTCATA-AAGCTTATTCGA-A-TAAAATAATACTAATTTATTAATATTT
* * *
13588131 CTACAAA-TAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
126 C-AAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACTAGTTC
* * * *
13588185 AAATAGTCATGACA-ATTTGAATAATTATCTATTTTAAATCATTGTGACCTTTTGTTTTGTAATA
1 AAATAGTTATGA-ATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATA
* * **
13588249 AAACAATTGTTTCCATTCATATAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTTG
65 AAACAATTGTTTCTATTCATA-AAGCTTATTCG-AATAAAATAATACTAATTTATTAATATTTCA
* * * * *
13588314 AAAATTAATTAGTAAGAGAATTAAAAAATGAATATGTTTACAGAA-TATGTTC
128 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACTA-GTTC
* * * * * *
13588366 AAATAGTTATGACTATCTAAATAATTATCAATTTCAAAACATTATGACATTTTGTTTTGTCATAA
1 AAATAGTTATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* *
13588431 AACAATTGGTTCTATTCATGCAAGCTTATTTCGAATAAAATAATA-TAAATTTATTAATATTTCA
66 AACAATTGTTTCTATTCAT-AAAGCTTA-TTCGAATAAAATAATACT-AATTTATTAATATTTCA
* * * *
13588495 AAAATTAATAAGTAAAA-ATTTAAAAAATAAATATGTTT-TCTAAATACATTC
128 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACTA-GTTC
* * * * *
13588546 AAATAGTTAT-AACTATTTGAACAATTATCTATTTTAGATCATTATGACGTTTTTTTTTTGTCAT
1 AAATAGTTATGAA-TATTTGAATAATTATCTATTTCAAATCATTATGAC-CTTTTGTTTTGTCAT
* * * * * *
13588610 AAATCGATTGTTTCTACTCATAAAGCTTATTTAGAATAAAATAATATTAATTTATTAA-AATTCT
64 AAAACAATTGTTTCTATTCATAAAGCTTA-TTCGAATAAAATAATACTAATTTATTAATATTTC-
* * * **
13588674 AAAAATTAATAAGTAAAAGACTTAAAAAATAAATCTATTTAATGAA-TGAGTTC
127 AAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACT-AGTTC
* * * * *
13588727 GAATAGTTATGACTATTTGAACAATTATTTATTTCAAATCATTATGATCTTTTGTTTTGTCATAA
1 AAATAGTTATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* ** * *
13588792 AACAACTGTTTCTATTCATACAATTTTATTTGAAATAAAATAATACTAATTTATTAATA-TTCTA
66 AACAATTGTTTCTATTCATA-AAGCTTATTCG-AATAAAATAATACTAATTTATTAATATTTCAA
** * * * ** * *
13588856 AAATTAATAAGTTGAAGATATAAAAAATAAATCTATTTACTAAACAAGTTT
129 AAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACTAGTTC
* * ** * *
13588907 GAACAGTCT-TG--TCATTTGAATTGTTATCTATTTCGAATCATTATGACC-TCTGTTTTGTCAT
1 AAATAGT-TATGAAT-ATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCAT
* * * *
13588968 AAAATAATTGTTTCTATTCATGCAAA-ATTATTCAGATTAAAATAATA-TAGATCTATTAATATT
64 AAAACAATTGTTTCTATTCAT--AAAGCTTATTC-GAATAAAATAATACTA-ATTTATTAATATT
** * * * * * ** *
13589031 TTTATAATTAATAAG----AGATTTAAAAACTAAATCTATTTTCTAAAATAGTTC
125 TCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACTAGTTC
* * * ** * * *
13589082 AAATATTTATGACTATTTGAACAATTATCTATCGCAAAAT-GTTATGATC-TTTATTTTGTCATA
1 AAATAGTTATGAATATTTGAATAATTATCTATTTC-AAATCATTATGACCTTTTGTTTTGTCATA
* * * *
13589145 AAACAATTGCTCCTTTTCATACAAGCTTATTCGAATTAAAATAATACTAATTTAATAATATTTCA
65 AAACAATTGTTTCTATTCATA-AAGCTTATTCGAA-TAAAATAATACTAATTTATTAATATTTCA
* **
13589210 AAAATTAATAAGTAAGAGATTTAAAAAATAAATAT-TCTTGTCGAACTAGTTC
128 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGT-TTACCGAACTAGTTC
* * * * * * * * *
13589262 AAATAGTAAATAGTTAAGACTATTAGGACAATTATTTATTTCAAATCATTTTAACCTTTTATTTA
1 AAATAGT---TA--T--GAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTT
* * * *
13589327 GTCA-AAAGATAATTATTTC-AGTTCATACAAGCTTATTTAGAATAAAATAATAATAATAATTTA
59 GTCATAAA-ACAATTGTTTCTA-TTCATA-AAGCTTA-TTCGAAT--AA-AATAATACTAATTTA
* * * * * * **
13589390 TTAACA-TTCGAAAAATTAACAAGCAAGAGATTTAAAACAATAAATCTATTTACCGAAAAAGTTC
117 TTAATATTTC-AAAAATTAATAAGTAAAAGATTTAAAA-AATAAATATGTTTACCGAACTAGTTC
* * * * * * * *
13589454 AAAAAAATT-TGACTTTTTGAACAATTGTTCTAACTATTTAAAGTCATTATGAGCTTTTGTTTTG
1 -AAATAGTTATGAATATTTGAATAATT-ATCT-A-T-TTCAAA-TCATTATGACCTTTTGTTTTG
* *
13589518 TCATAAAACAATT-TTTTTAATTCATAATTA-CTTA-TCTGTAATAAAATAATACTACTTTATTA
60 TCATAAAACAATTGTTTCT-ATTCATAA--AGCTTATTC-G-AATAAAATAATACTAATTTATTA
** * * * ** *
13589580 ATATTTTGAAAGTTAATAAGCAAGAGATTTAAAACTTAAA-ATAGCTTT-CCAAACTAGTTC
120 ATATTTCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATAT-G-TTTACCGAACTAGTTC
* * * * * * * * *
13589640 AAATGGTTATGACTATTTGAACAAATATCAATCTCAAATCATCATGATC-TTTGTTTTCTCATAA
1 AAATAGTTATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * * *
13589704 AACAATTATTT-TGA-TCATTCAAGCTTATTCGGATAAAAATAATACTAATTTAATAATATTACA
66 AACAATTGTTTCT-ATTCA-TAAAGCTTATTCGAAT-AAAATAATACTAATTTATTAATATTTCA
* * * *
13589767 AAAA--AA-AAG---GAGATTTAAAAAATAAA-AGTGTTTATCAAACTAGTTT
128 AAAATTAATAAGTAAAAGATTTAAAAAATAAATA-TGTTTACCGAACTAGTTC
* * * * ** * * * *
13589813 AAAAAGTTAAGACTATTAGAATAATTATCTATTTCAAATTGTTTTGACTTTTTGTTTAGTCATAT
1 AAATAGTTATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * * *
13589878 AATAATTGTTTCAATTCACACAAGCTTATTTAGAATAAAATAGTACTAATTTATTAATATT
66 AACAATTGTTTCTATTCATA-AAGCTTA-TTCGAATAAAATAATACTAATTTATTAATATT
13589939 AATTTATTTC
Statistics
Matches: 1842, Mismatches: 343, Indels: 234
0.76 0.14 0.10
Matches are distributed among these distances:
172 3 0.00
173 62 0.03
174 25 0.01
175 73 0.04
176 98 0.05
177 10 0.01
178 61 0.03
179 89 0.05
180 275 0.15
181 592 0.32
182 186 0.10
183 58 0.03
184 9 0.00
185 22 0.01
186 34 0.02
187 75 0.04
188 39 0.02
189 15 0.01
190 43 0.02
191 48 0.03
192 19 0.01
193 6 0.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (179 bp):
AAATAGTTATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
AACAATTGTTTCTATTCATAAAGCTTATTCGAATAAAATAATACTAATTTATTAATATTTCAAAA
ATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACTAGTTC
Found at i:13587855 original size:16 final size:17
Alignment explanation
Indices: 13587823--13587858 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
13587813 AACAAGTTTA
13587823 AATAATTATGATTATTTG
1 AATAATTAT-ATTATTTG
13587841 AATAATTAT-TTATTTG
1 AATAATTATATTATTTG
13587857 AA
1 AA
13587859 ATTGTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (17 bp):
AATAATTATATTATTTG
Found at i:13587887 original size:182 final size:178
Alignment explanation
Indices: 13587459--13590830 Score: 1145
Period size: 181 Copynumber: 18.8 Consensus size: 178
13587449 AAACCAATTT
* * * * * *
13587459 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAGTTGTTATGACTTTTTGTTTTGTTACAA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAA
* * * * * *
13587524 AACAA-TAGTTTATGTT-CATACAAGCTTATTCGAATTAAAATAATACTAATTTATTAAAATTTC
66 AAAAATTATTTTA-GTTACCTA-AA-ATTATTCGAAATAAAATAATACTAATTTATTAATA-TTC
* * * * * * *
13587587 AATAATTGATAAGTAAAAGGTTTAAAAGATAAATATGTTTACCGAACTAGATC
127 AAAAATTAATAA-TAAAAGATTTAAAAAATAAATATGTTTATCGAACAAGTTC
* * * * * * * *
13587640 AAATAGTCATGAATATTTGAATAAATATCTATTTCAAATCGTTATGACCTTTTGTTTGGTCATAA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAA
** *
13587705 AAAAATTATTTTAGTTAGCCTAAAATTATTCGAAATAAAATAATACTAAGCTATTCATATTCCAA
66 AAAAATTATTTTAGTTA-CCTAAAATTATTCGAAATAAAATAATACTAATTTATTAATATT-CAA
* * * * * *
13587770 AAATTAACAATTAAGAGATTTAAAAAAATGAATTTGTTTATGGAACAAGTTT
129 AAATTAATAA-TAAAAGATTT-AAAAAATAAATATGTTTATCGAACAAGTTC
* * * *
13587822 AAATAATTATGATTATTTGAATAATTATTTATTTGAAATTGTTATAACCTTTTGTTTTGTCATAA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAA
* * * * * *
13587887 AATGATTTTTTTTTGTT-CATACTATATTATTTCG-AATAAAATAATA-TAAATTTATTAATATT
66 AA-AAATTATTTTAGTTACCTA--AAATTA-TTCGAAATAAAATAATACT-AATTTATTAATATT
* *
13587949 -AAGACAAGTAATTAATAAAAGATTTAAAAAATAAATATGTTTATCAAACAAGTTC
126 CAA-A-AATTAA-TAATAAAAGATTTAAAAAATAAATATGTTTATCGAACAAGTTC
* * * *
13588004 AAATCATTATGACTATTTGAACAATTATTTATTTTAAATTGTTCTGACTTTTTGTTTTGGT-ATA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTT-GTCATA
* * * * * *
13588068 AAATAATAATTTCTA-TT-CATACAAGCTTATTC-ATATTAAAATAATATTAATTTATTAATATC
65 AAAAAATTATTT-TAGTTACCTA-AA-ATTATTCGA-AATAAAATAATACTAATTTATTAATAT-
* * *
13588130 TCTACAAA-TAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
125 TC-AAAAATTAATAA-TAAAAGATTTAAAAAATAAATATGTTTATCGAACAAGTTC
* * * * * * ** * *
13588185 AAATAGTCATGACAATTTGAATAATTATCTATTTTAAATCATTGTGACCTTTTGTTTTGTAATAA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAA
* * * * * * *
13588250 AACAATTGTTTCCA-TT-CATATAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTT
66 AAAAATTATTT-TAGTTACCTA-AA-ATTATTCGAAATAAAATAATACTAATTTATTAATA-TTC
* * * * * * *
13588313 GAAAATTAATTAGTAAGAGAATTAAAAAATGAATATGTTTA-CAGAATATGTTC
127 AAAAATTAA-TAATAAAAGATTTAAAAAATAAATATGTTTATC-GAACAAGTTC
* * * * ** *** *
13588366 AAATAGTTATGACTATCTAAATAATTATCAATTTCAAAACATTATGACATTTTGTTTTGTCATAA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAA
* * * * **
13588431 AACAATTGGTTCTA-TT-CATGCAAGCTTATTTCG-AATAAAATAATA-TAAATTTATTAATATT
66 AAAAATT-ATTTTAGTTACCT--AAAATTA-TTCGAAATAAAATAATACT-AATTTATTAATA-T
* *
13588492 TCAAAAATTAATAAGTAAAA-ATTTAAAAAATAAATATGTTT-TCTAA-ATACATTC
125 TCAAAAATTAATAA-TAAAAGATTTAAAAAATAAATATGTTTATCGAACA-A-GTTC
* * * * * ** * *
13588546 AAATAGTTATAACTATTTGAACAATTATCTATTTTAGATCATTATGACGTTTTTTTTTTGTCATA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGAC-CTTTTGTTTTGTCATA
*** * * * * * * *
13588611 AATCGATTGTTTCTA-CT-CATAAAGCTTATT-TAGAATAAAATAATATTAATTTATTAAAATTC
65 AAAAAATTATTT-TAGTTACCTAAA-ATTATTCGA-AATAAAATAATACTAATTTATTAATATTC
* * * **
13588673 TAAAAATTAATAAGTAAAAGACTTAAAAAATAAATCTATTTAAT-GAATGAGTTC
127 -AAAAATTAATAA-TAAAAGATTTAAAAAATAAATATGTTT-ATCGAACAAGTTC
* * ** *
13588727 GAATAGTTATGACTATTTGAACAATTATTTATTTCAAATCATTATGATCTTTTGTTTTGTCATAA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAA
* * * * * * *
13588792 AACAACTGTTTCTA-TT-CATACAATTTTATTTGAAATAAAATAATACTAATTTATTAATATTCT
66 AAAAATTATTT-TAGTTACCTA-AA-ATTATTCGAAATAAAATAATACTAATTTATTAATATTCA
** * * * * *
13588855 AAAATTAATAAGTTGAAGATATAAAAAATAAATCTATTTA-CTAAACAAGTTT
128 AAAATTAATAA-TAAAAGATTTAAAAAATAAATATGTTTATC-GAACAAGTTC
* * * * *** * * ** *
13588907 GAACAGTCT-TGTC-ATTTGAATTGTTATCTATTTCGAATCATTATGACC-TCTGTTTTGTCATA
1 AAATAAT-TATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATA
* * * * *
13588969 AAATAATTGTTTCTA-TT-CATGCAAAATTATTC-AGATTAAAATAATA-TAGATCTATTAATAT
65 AAAAAATTATTT-TAGTTACCT--AAAATTATTCGA-AATAAAATAATACTA-ATTTATTAATAT
*** * * * * * *
13589030 T--TTTA-TAATTAATAAGAGATTTAAAAACTAAATCTATTT-TCTAAAATAGTTC
125 TCAAAAATTAA-TAATAAAAGATTTAAAAAATAAATATGTTTATCGAACA-AGTTC
* * ** * * *
13589082 AAATATTTATGACTATTTGAACAATTATCTATCGCAAAATGTTATGATC-TTTATTTTGTCATAA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAA
* * * * * * *
13589146 AACAATTGCTCCTT--TT-CATACAAGCTTATTCGAATTAAAATAATACTAATTTAATAATATTT
66 AAAAATT-AT-TTTAGTTACCTA-AA-ATTATTCGAAATAAAATAATACTAATTTATTAATA-TT
* * *
13589208 CAAAAATTAATAAGTAAGAGATTTAAAAAATAAATAT-TCTTGTCGAACTAGTTC
126 CAAAAATTAATAA-TAAAAGATTTAAAAAATAAATATGT-TTATCGAACAAGTTC
* * * ** * * * *
13589262 AAATAGTAAATAGTTAAGACTATTAGGACAATTATTTATTTCAAATCATTTTAACCTTTTATTTA
1 -AA-A-T--A-A-TTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTT
* * * * * * *
13589327 GTCA-AAAGATAATTATTTCAGTT-CATACAAGCTTATTTAGAATAAAATAATAATAATAATTTA
59 GTCATAAA-AAAATTATTTTAGTTACCTA-AA-ATTA-TTCGAA-ATAA-AATAATACTAATTTA
* * * * * * * *
13589390 TTAACATTCGAAAAATTAACAAGCAAGAGATTTAAAACAATAAATCTATTTACCGAAAAAGTTC
118 TTAATATTC-AAAAATTAATAA-TAAAAGATTTAAAA-AATAAATATGTTTATCGAACAAGTTC
* * * * ** *
13589454 AAAAAAATT-TGACTTTTTGAACAATTGTTCTAACTATTTAAAGTCATTATGAGCTTTTGTTTTG
1 -AAATAATTATGACTATTTGAACAATTATT-T-A-T-TTCAAA-TTGTTATGACCTTTTGTTTTG
* * * * * * *
13589518 TCATAAAACAATTTTTTTAATT-CATAATTACTTA-TCTGTAATAAAATAATACTACTTTATTAA
60 TCATAAAAAAATTATTTTAGTTACCTAA--AATTATTC-GAAATAAAATAATACTAATTTATTAA
** * * * ** * * *
13589581 TATTTTGAAAGTTAATAAGCAAGAGATTTAAAACTTAAA-ATAGCTTT-CCAAACTAGTTC
122 TA-TTCAAAAATTAATAA-TAAAAGATTTAAAAAATAAATAT-G-TTTATCGAACAAGTTC
** * ** * ** * * *
13589640 AAATGGTTATGACTATTTGAACAAATATCAATCTCAAATCATCATGATC-TTTGTTTTCTCATAA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAA
* * * ** * *
13589704 AACAATTATTTT-GAT-CATTCAAGCTTATTCG-GATAAAAATAATACTAATTTAATAATATT-A
66 AAAAATTATTTTAGTTAC-CT-AAAATTATTCGAAAT-AAAATAATACTAATTTATTAATATTCA
** * * *
13589765 CAAAA--AA-AA-AGGAGATTTAAAAAATAAA-AGTGTTTATCAAACTAGTTT
128 -AAAATTAATAATAAAAGATTTAAAAAATAAATA-TGTTTATCGAACAAGTTC
* * * * * * *
13589813 AAA-AAGTTAAGACTATTAGAATAATTATCTATTTCAAATTGTTTTGACTTTTTGTTTAGTCATA
1 AAATAA-TTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATA
* * * * * ** * *
13589877 TAATAATTGTTTCAATTCACAC-AAGCTTATT-TAGAATAAAATAGTACTAATTTATTAATATT-
65 AAAAAATTATTTTAGTT-AC-CTAAAATTATTCGA-AATAAAATAATACTAATTTATTAATATTC
* * * * ** * *
13589939 ---AATTTAT-TTCAAATTG-TTT--GACCT---T-T-TGT-TCAAAC-AGTT-
127 AAAAATTAATAAT-AAA-AGATTTAAAAAATAAATATGTTTATCGAACAAGTTC
**
13589978 AAGACT-A-TATGAGCAATTATTTAGTTCAA--A-TTA-TT---A-TG--AT---CTTTTGTTTT
1 AA-A-TAATTATGA-C---TATTT-GAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTT
* * * * ** *
13590028 GTCATAAAACAATTATTTCAGCT-CATACAAGCA-TATTC-AGAATAGGATAAAACTAATTTATT
59 GTCATAAAAAAATTATTTTAGTTACCTA-AA--ATTATTCGA-AATAAAATAATACTAATTTATT
* * * * *
13590090 AATACTTCAAAAAATT-ATAAGTAAGAGATTTAGAAAATAATTCTATTTA-CTGAACAAGTTC
120 AATA-TTC-AAAAATTAATAA-TAAAAGATTTAAAAAATAAATATGTTTATC-GAACAAGTTC
* ** *
13590151 AAATAATTATAACTATTTGAACAATTATTTATTTCAAATCATTATTA-CTCTTTGTTTTGTCATA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCT-TTTGTTTTGTCATA
* * * ** ** * * *
13590215 AAAAAATTGTTTTTGTAAAGATAAGTTTGTTCAAAATAAAATAATACTAATTTATTAATATTGAG
65 AAAAAATTATTTTAGT-TACCTAAAATTATTCGAAATAAAATAATACTAATTTATTAATATTCA-
* * * * * * * *
13590280 AAAATTAATTAGTAAGAGATTTAAAAAGTAAATCTGTTTACCAAACCATTTC
128 AAAATTAA-TAATAAAAGATTTAAAAAATAAATATGTTTATCGAACAAGTTC
* * * * * ** * * *
13590332 AAATAGTTTTGACTATTTGAATAATTATCTATTTAAAATCATTATAACCTTTTATTTTGTCATCA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAA
* ** * * ** * *
13590397 AACAATTGGGTCTA-TT-CATACTATTTTATTCGAAATAAAATAATACTAATTTAATAATATTTT
66 AAAAATT-ATTTTAGTTACCTA--AAATTATTCGAAATAAAATAATACTAATTTATTAATA-TTC
* * * * * ** * *
13590460 AAAACTTAATAACAAAGAAAATTAAAAAATAAATCTAATTATTGAACCAA-TTA
127 AAAAATTAATAATAAA-AGATTTAAAAAATAAATATGTTTATCGAA-CAAGTTC
* ** ** * * ** * * **
13590513 AAATAGTTATGA-TGACATGAATGATTATCTATTTTAAATCATTATAACCTTTTTTTTTGTTGTA
1 AAATAATTATGACT-ATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATA
* * * * * * *
13590577 AAACAATTATTTT-GTT-CGTACAAGCTTATTCTAATTAAAATAATACTAATTTAATAATATTTT
65 AAAAAATTATTTTAGTTACCTA-AA-ATTATTCGAAATAAAATAATACTAATTTATTAATA-TTC
* * *
13590640 GAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGTTTA-CTGAATC-AGTTC
127 AAAAATTAATAA-TAAAAGATTTAAAAAATAAATATGTTTATC-GAA-CAAGTTC
** ** * * * ** * *
13590693 AAATGGTTAAAACTATTAGAACAATTATCTATTTAAAATCATTCA-GACCTTTTGTTTAGTTATA
1 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTT-ATGACCTTTTGTTTTGTCATA
* * * * * * * **
13590757 AAACAATTGTTCTAGTT-CATACAAGATTATT-TAGAATAAATTAATAATAATTTATTAGCATTC
65 AAAAAATTATTTTAGTTACCTA-AA-ATTATTCGA-AATAAAATAATACTAATTTATTAATATTC
13590820 AAAAAATTAAT
127 -AAAAATTAAT
13590831 GAGAGAGATA
Statistics
Matches: 2482, Mismatches: 508, Indels: 402
0.73 0.15 0.12
Matches are distributed among these distances:
155 2 0.00
156 1 0.00
157 54 0.02
158 2 0.00
160 1 0.00
162 5 0.00
163 10 0.00
164 1 0.00
165 8 0.00
166 8 0.00
167 9 0.00
168 8 0.00
169 11 0.00
170 7 0.00
171 9 0.00
172 12 0.00
173 71 0.03
174 27 0.01
175 79 0.03
176 85 0.03
177 12 0.00
178 70 0.03
179 80 0.03
180 425 0.17
181 898 0.36
182 212 0.09
183 65 0.03
184 8 0.00
185 22 0.01
186 33 0.01
187 82 0.03
188 38 0.02
189 13 0.01
190 43 0.02
191 48 0.02
192 22 0.01
193 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (178 bp):
AAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAA
AAAAATTATTTTAGTTACCTAAAATTATTCGAAATAAAATAATACTAATTTATTAATATTCAAAA
ATTAATAATAAAAGATTTAAAAAATAAATATGTTTATCGAACAAGTTC
Found at i:13588734 original size:361 final size:361
Alignment explanation
Indices: 13587394--13590830 Score: 1961
Period size: 361 Copynumber: 9.6 Consensus size: 361
13587384 TGTTTTATCG
* * * * * *
13587394 TAATCTATTAATATTTC-AAAATTAAT-A-T-GACATTT-AAAAATAAAATTTGATTATTAAACC
1 TAATTTATTAATATTTCAAAAATTAATAAGTAAAAATTTAAAAAAT-AAATATGTTTACTAAA-C
* * * * * * ** *
13587454 AA-TTTAAATAGT-TATGACTATTTGAGCAATTATTTATTTCAAGTTGTTATGACTTTTTGTTTT
64 AAGTTCAAATAGTATATAACTATTTGAACAATTATCTATTTTAAATCATTATGACCTTTTGTTTT
* * * * * *
13587517 GTTACA-AAACAATAGTTTATGTTCATACAAGCTTA-TTCGAATTAAAATAATACTAATTTATTA
129 G-T-CATAAATAATTGTTTCTATTCATACAAGCTTATTTAGAA-TAAAATAATATTAATTTATTA
* * * * * * * *** * *
13587580 AAATT-TCAATAATTGATAAGTAAAAGGTTTAAAAGATAAATATGTTTACCGAACTAGATCAAAT
191 ATATTCT-AAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTAATAAAATAGTTCAAAT
* * * * * * * * *
13587644 AGTCATGAATATTTGAATAAATATCTATTTCAAATCGTTATGACCTTTTGTTTGGTCATAAAAAA
255 AGTTATGACTATTTGAACAATTATCTATTTCAAAACATTATGACATTTTGTTTTGTCATAAAACA
* * * *
13587709 ATTATTT-TAGTTAGCCTA-AA-ATTATTCGAAATAAAATAATAC
320 ATTGTTTCTA-TT--CATACAAGCTTATTCGAATTAAAATAATAC
** * * * * * * * *
13587751 TAAGCTATTCATATTCCAAAAATTAACAATTAAGAGATTTAAAAAAATGAATTTGTTTA-TGGAA
1 TAATTTATTAATATTTCAAAAATTAATAAGTAA-AAATTT-AAAAAATAAATATGTTTACT-AAA
* * * * * * * ** *
13587815 CAAGTTTAAATAAT-TATGATTATTTGAATAATTATTTATTTGAAATTGTTATAACCTTTTGTTT
63 CAAGTTCAAATAGTATATAACTATTTGAACAATTATCTATTTTAAATCATTATGACCTTTTGTTT
* * * * * ** * *
13587879 TGTCATAAAATGATTTTTTTTTGTTCATACTATATTATTTCGAATAAAATAATATAAATTTATTA
128 TGTCAT-AAAT-AATTGTTTCTATTCATACAAGCTTATTTAGAATAAAATAATATTAATTTATTA
* * *
13587944 ATA-T-TAAGACAAGTAATTAA-TAAAAGATTTAAAAAATAAATATGTTT-ATCAAACA-AGTTC
191 ATATTCTAA-A-AATTAA-TAAGTAAAAGATTTAAAAAATAAATCTATTTAAT-AAA-ATAGTTC
* * *** * *
13588004 AAATCA-TTATGACTATTTGAACAATTATTTATTTTAAATTGTTCTGACTTTTTGTTTTGGT-AT
251 AAAT-AGTTATGACTATTTGAACAATTATCTATTTCAAAACATTATGACATTTTGTTTT-GTCAT
* ** *
13588067 AAAATAATAATTTCTATTCATACAAGCTTATTC-ATATTAAAATAATAT
314 AAAACAATTGTTTCTATTCATACAAGCTTATTCGA-ATTAAAATAATAC
* * *
13588115 TAATTTATTAATATCTCTACAAA-TAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAAC
1 TAATTTATTAATATTTC-AAAAATTAATAAGTAAAA-ATTTAAAAAATAAATATGTTTACTAAAC
* * * * *
13588179 AAGTTCAAATAGT-CATGACAATTTGAATAATTATCTATTTTAAATCATTGTGACCTTTTGTTTT
64 AAGTTCAAATAGTATATAACTATTTGAACAATTATCTATTTTAAATCATTATGACCTTTTGTTTT
* * * * *
13588243 GTAATAAAACAATTGTTTCCATTCATATAAGCTTATTT-GAAATAAAATAATACTAATTTATTAA
129 GTCAT-AAATAATTGTTTCTATTCATACAAGCTTATTTAG-AATAAAATAATATTAATTTATTAA
* * * * * * * * * *
13588307 TATTTTGAAAATTAATTAGTAAGAGAATTAAAAAATGAATATGTTT-ACAGAATATGTTCAAATA
192 TATTCTAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTAATAAAATA-GTTCAAATA
* * * *
13588371 GTTATGACTATCTAAATAATTATCAATTTCAAAACATTATGACATTTTGTTTTGTCATAAAACAA
256 GTTATGACTATTTGAACAATTATCTATTTCAAAACATTATGACATTTTGTTTTGTCATAAAACAA
* *
13588436 TTGGTTCTATTCATGCAAGCTTATTTCGAA-TAAAATAATA-
321 TTGTTTCTATTCATACAAGCTTA-TTCGAATTAAAATAATAC
* *
13588476 TAAATTTATTAATATTTCAAAAATTAATAAGTAAAAATTTAAAAAATAAATATGTTTTCTAAATA
1 T-AATTTATTAATATTTCAAAAATTAATAAGTAAAAATTTAAAAAATAAATATGTTTACTAAACA
* * *
13588541 CA-TTCAAATAGT-TATAACTATTTGAACAATTATCTATTTTAGATCATTATGACGTTTTTTTTT
65 -AGTTCAAATAGTATATAACTATTTGAACAATTATCTATTTTAAATCATTATGAC-CTTTTGTTT
* *
13588604 TGTCATAAATCGATTGTTTCTACTCATA-AAGCTTATTTAGAATAAAATAATATTAATTTATTAA
128 TGTCATAAAT-AATTGTTTCTATTCATACAAGCTTATTTAGAATAAAATAATATTAATTTATTAA
* * * *
13588668 AATTCTAAAAATTAATAAGTAAAAGACTTAAAAAATAAATCTATTTAAT-GAATGAGTTCGAATA
192 TATTCTAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTAATAAAAT-AGTTCAAATA
* *
13588732 GTTATGACTATTTGAACAATTATTTATTTCAAATCATTATGATC-TTTTGTTTTGTCATAAAACA
256 GTTATGACTATTTGAACAATTATCTATTTCAAAACATTATGA-CATTTTGTTTTGTCATAAAACA
* ** * *
13588796 ACTGTTTCTATTCATACAATTTTATTTGAAATAAAATAATAC
320 ATTGTTTCTATTCATACAAGCTTATTCGAATTAAAATAATAC
* * * * * *
13588838 TAATTTATTAATA-TTCTAAAATTAATAAGTTGAAGATATAAAAAATAAATCTATTTACTAAACA
1 TAATTTATTAATATTTCAAAAATTAATAAG-TAAAAATTTAAAAAATAAATATGTTTACTAAACA
** * * ** *** ** *
13588902 AGTTTGAACAGTCT-TGTC-ATTTGAATTGTTATCTATTTCGAATCATTATGACC-TCTGTTTTG
65 AGTTCAAATAGTATATAACTATTTGAACAATTATCTATTTTAAATCATTATGACCTTTTGTTTTG
* ** * * *
13588964 TCATAAAATAATTGTTTCTATTCATGCAAAATTATTCAGATTAAAATAATA-TAGATCTATTAAT
130 TCAT-AAATAATTGTTTCTATTCATACAAGCTTATTTAGAATAAAATAATATTA-ATTTATTAAT
* * * * ** *
13589028 ATTTTTATAATTAATAAG----AGATTTAAAAACTAAATCTATTTTCTAAAATAGTTCAAATATT
193 ATTCTAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTAATAAAATAGTTCAAATAGT
** ** *
13589089 TATGACTATTTGAACAATTATCTATCGCAAAATGTTATG--ATCTTTATTTTGTCATAAAACAAT
258 TATGACTATTTGAACAATTATCTATTTCAAAACATTATGACAT-TTTGTTTTGTCATAAAACAAT
* * *
13589152 TGCTCCTTTTCATACAAGCTTATTCGAATTAAAATAATAC
322 TGTTTCTATTCATACAAGCTTATTCGAATTAAAATAATAC
* * * *
13589192 TAATTTAATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATAT-TCTT-GTCGAA
1 TAATTTATTAATATTTCAAAAATTAATAAGTAA-AAATTTAAAAAATAAATATGT-TTACT-AAA
* * * * * * *
13589255 CTAGTTCAAATAGTAAATAGTTAAGACTATTAGGACAATTATTTATTTCAAATCATTTTAACCTT
63 CAAGTTCAAATAGT--ATA--T-A-ACTATTTGAACAATTATCTATTTTAAATCATTATGACCTT
* * * *
13589320 TTATTTAGTCAAAAGATAATTATTTC-AGTTCATACAAGCTTATTTAGAATAAAATAATAATAAT
122 TTGTTTTGTCATAA-ATAATTGTTTCTA-TTCATACAAGCTTATTTAGAATAAAATAAT-AT--T
* * * * * **
13589384 AATTTATTAACATTCGAAAAATTAACAAGCAAGAGATTTAAAACAATAAATCTATTTACCGAAAA
182 AATTTATTAATATTCTAAAAATTAATAAGTAAAAGATTTAAAA-AATAAATCTATTTA-ATAAAA
* * * * * *
13589449 -AGTTCAAAAAAATT-TGACTTTTTGAACAATTGTTCTAACTATTTAAAGTCATTATGAGC-TTT
245 TAGTTC-AAATAGTTATGACTATTTGAACAATT-ATCT-A-T-TTCAAA-ACATTATGA-CATTT
*
13589511 TGTTTTGTCATAAAACAATT-TTTTTAATTCATA-ATTA-CTTA-TCTGTAA-TAAAATAATAC
303 TGTTTTGTCATAAAACAATTGTTTCT-ATTCATACA--AGCTTATTC-G-AATTAAAATAATAC
* ** * * * ** *
13589570 TACTTTATTAATATTTTGAAAGTTAATAAGCAAGAGATTTAAAACTTAAA-ATAGCTTT-CCAAA
1 TAATTTATTAATATTTCAAAAATTAATAAGTAA-AAATTTAAAAAATAAATAT-G-TTTACTAAA
* * * * * * * * *
13589633 CTAGTTCAAATGGT-TATGACTATTTGAACAAATATCAATCTCAAATCATCATGATC-TTTGTTT
63 CAAGTTCAAATAGTATATAACTATTTGAACAATTATCTATTTTAAATCATTATGACCTTTTGTTT
* * * * * * * *
13589696 TCTCATAAAACAATTATTT-TGA-TCATTCAAGCTTA-TTCGGATAAAAATAATACTAATTTAAT
128 TGTCAT-AAATAATTGTTTCT-ATTCATACAAGCTTATTTAGAAT-AAAATAATATTAATTTATT
* ** * * *
13589758 AATATTAC-AAAAA--AA-AAG---GAGATTTAAAAAATAAAAGTGTTT-ATCAAACTAGTTTAA
190 AATATT-CTAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTAAT-AAAATAGTTCAA
* * * * *** * * * *
13589815 AAAGTTAAGACTATTAGAATAATTATCTATTTCAAATTGTTTTGACTTTTTGTTTAGTCATATAA
253 ATAGTTATGACTATTTGAACAATTATCTATTTCAAAACATTATGACATTTTGTTTTGTCATAAAA
* * * * *
13589880 TAATTGTTTCAATTCACACAAGCTTATTTAGAA-TAAAATAGTAC
318 CAATTGTTTCTATTCATACAAGCTTA-TTCGAATTAAAATAATAC
* *
13589924 TAATTTATTAATA-TT----AA-T--T---T----ATTT------CAAAT-TGTTTGACCT---T
1 TAATTTATTAATATTTCAAAAATTAATAAGTAAAAATTTAAAAAATAAATATGTTT-A-CTAAAC
** * * * * * * * *
13589964 TTGTTCAAACAGT-TA-AGACTATATGAGCAATTATTTAGTTCAAATTATTATGATCTTTTGTTT
64 AAGTTCAAATAGTATATA-ACTATTTGAACAATTATCTATTTTAAATCATTATGACCTTTTGTTT
* * * * * ** * *
13590027 TGTCATAAAACAATTATTTC-AGCTCATACAAGCATATTCAGAATAGGATAAAACTAATTTATTA
128 TGTCAT-AAATAATTGTTTCTA-TTCATACAAGCTTATTTAGAATAAAATAATATTAATTTATTA
* * * * * *
13590091 ATACTTCAAAAAATT-ATAAGTAAGAGATTTAGAAAATAATTCTATTTACTGAACA-AGTTCAAA
191 ATA-TTCTAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTAAT-AAAATAGTTCAAA
* * * * *
13590154 TAATTATAACTATTTGAACAATTATTTATTTCAAATCATTATTAC-TCTTTGTTTTGTCATAAAA
254 TAGTTATGACTATTTGAACAATTATCTATTTCAAAACATTATGACAT-TTTGTTTTGTCATAAAA
* * * ** * * * * * *
13590218 AAATTGTTTTTGTAAAGATAAGTTTGTTCAAAATAAAATAATAC
318 CAATTGTTTCTATTCATACAAGCTTATTCGAATTAAAATAATAC
* * * * * *
13590262 TAATTTATTAATA-TTGAGAAAATTAATTAGTAAGAGATTTAAAAAGTAAATCTGTTTACCAAAC
1 TAATTTATTAATATTTCA-AAAATTAATAAGTAA-AAATTTAAAAAATAAATATGTTTACTAAAC
* * * * * * * *
13590326 CATTTCAAATAGT-TTTGACTATTTGAATAATTATCTATTTAAAATCATTATAACCTTTTATTTT
64 AAGTTCAAATAGTATATAACTATTTGAACAATTATCTATTTTAAATCATTATGACCTTTTGTTTT
* ** * ** * * *
13590390 GTCATCAAACAATTGGGTCTATTCATACTATTTTA-TTCGAAATAAAATAATACTAATTTAATAA
129 GTCAT-AAATAATTGTTTCTATTCATACAAGCTTATTTAG-AATAAAATAATATTAATTTATTAA
* * * * * * * * ** * *
13590454 TATTTTAAAACTTAATAA-CAAAGAAAATTAAAAAATAAATCTAATTATTGAACCAATTAAAATA
192 TATTCTAAAAATTAATAAGTAAA-AGATTTAAAAAATAAATCTATTTAATAAAATAGTTCAAATA
** ** * * * * * **
13590518 GTTATGA-TGACATGAATGATTATCTATTTTAAATCATTATAACCTTTTTTTTTGTTGTAAAACA
256 GTTATGACT-ATTTGAACAATTATCTATTTCAAAACATTATGACATTTTGTTTTGTCATAAAACA
* * * *
13590582 ATTATTT-TGTTCGTACAAGCTTATTCTAATTAAAATAATAC
320 ATTGTTTCTATTCATACAAGCTTATTCGAATTAAAATAATAC
* ** * * *
13590623 TAATTTAATAATATTTTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGTTTACTGAATC
1 TAATTTATTAATATTTCAAAAATTAATAAGTAA-AAATTTAAAAAATAAATATGTTTACT-AAAC
* * * *
13590688 -AGTTCAAATGGT-TAAAACTATTAGAACAATTATCTATTTAAAATCATTCA-GACCTTTTGTTT
64 AAGTTCAAATAGTATATAACTATTTGAACAATTATCTATTTTAAATCATT-ATGACCTTTTGTTT
* * * * * *
13590750 AGTTATAAAACAATTG-TTCTAGTTCATACAAGATTATTTAGAATAAATTAATAATAATTTATTA
128 TGTCAT-AAATAATTGTTTCTA-TTCATACAAGCTTATTTAGAATAAAATAATATTAATTTATTA
** *
13590814 GCATTCAAAAAATTAAT
191 ATATTCTAAAAATTAAT
13590831 GAGAGAGATA
Statistics
Matches: 2406, Mismatches: 501, Indels: 342
0.74 0.15 0.11
Matches are distributed among these distances:
330 45 0.02
331 26 0.01
332 35 0.01
333 12 0.00
334 1 0.00
335 3 0.00
337 5 0.00
338 120 0.05
339 3 0.00
343 2 0.00
344 1 0.00
346 2 0.00
348 1 0.00
349 2 0.00
353 5 0.00
354 132 0.05
355 121 0.05
356 5 0.00
357 16 0.01
358 48 0.02
359 76 0.03
360 72 0.03
361 506 0.21
362 422 0.18
363 194 0.08
364 231 0.10
365 19 0.01
366 18 0.01
367 22 0.01
368 8 0.00
369 20 0.01
370 18 0.01
371 41 0.02
372 33 0.01
373 15 0.01
374 1 0.00
375 3 0.00
376 3 0.00
377 12 0.00
378 100 0.04
379 6 0.00
380 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (361 bp):
TAATTTATTAATATTTCAAAAATTAATAAGTAAAAATTTAAAAAATAAATATGTTTACTAAACAA
GTTCAAATAGTATATAACTATTTGAACAATTATCTATTTTAAATCATTATGACCTTTTGTTTTGT
CATAAATAATTGTTTCTATTCATACAAGCTTATTTAGAATAAAATAATATTAATTTATTAATATT
CTAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTAATAAAATAGTTCAAATAGTTAT
GACTATTTGAACAATTATCTATTTCAAAACATTATGACATTTTGTTTTGTCATAAAACAATTGTT
TCTATTCATACAAGCTTATTCGAATTAAAATAATAC
Found at i:13589276 original size:542 final size:539
Alignment explanation
Indices: 13587399--13589938 Score: 2013
Period size: 542 Copynumber: 4.7 Consensus size: 539
13587389 TATCGTAATC
* * * * ** * *
13587399 TATTAATATTTCAA-AATTAATATGACATTT-AAAAATAAAATTTGATTAT-TAAACCAATTTAA
1 TATTAATATTTCAATAATTAATAAGAGATTTAAAAAAT-AAATAT-ATTTTCTAAAATAGTTCAA
* * * ** * *
13587461 ATAGTTATGACTATTTGAGCAATTATTTATTTCAAGTTGTTATGACTTTTTGTTTTGTTACAAAA
64 ATAGTTATGACTATTTGAACAATTATCTATCTCAAAATGTTATGACTTTTTGTTTTGTCATAAAA
* * * * *
13587526 CAATAGTTTATGTTCATACAAGCTTATTCGAATTAAAATAATACTAATTTATTAAAATTTCAATA
129 CAATTGTTTCTATTCATACAAGCTTATTCGAATTAAAATAATACTAATTTATTAATATTTCAAAA
* * * * * * * *
13587591 ATTGATAAGTAAAAGGTTTAAAAGATAAATATGTTTACCGAACTAGATC---AAATAGTCATGAA
194 ATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTATCGAACTAGTTCTAGAAATAGTTAAGAC
* * * * *
13587653 TATTTGAATAAATATCTATTTCAAATCGTTATGACCTTTTGTTTGGTCATAAAAAAATTATTT-T
259 TATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCATAAAACAATTGTTTCT
* * * ** *
13587717 AGTTAGCCTA-AA-ATTATTCGAAATAAAATAATACTAAGCTATTCATATTCCAAAAATTAACAA
324 A-TT--CATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATT-CAAAAATTAACAA
* * * * * * *
13587780 TTAAGAGATTTAAAAAAATGAATTTGTTTA-TGGAACAAGTTTAAATAATTATGATTATTTGAAT
385 GTAAGAGATAT-AAAAAATAAATCTATTTACT-AAACAAGTTTAAATAATTATGACTATTTGAAT
* ** * * * * * * *
13587844 AATTATTTATTTGAAATTGTTATAACCTTTTGTTTTGTCATAAAATGATTTTTTTTTGTTCATAC
448 AATTATCTATTT-AAATCATTATGACC-TTTGTTTTGTCATAAAA-CAATTGTTTCTATTCATGC
* *
13587909 TATATTATTTCGAATAAAATAATATAAATT
510 AAAATTATTTCGAATAAAATAATATAAATT
* * *
13587939 TATTAATATTAAGACAAGTAATTAATAAAAGATTTAAAAAATAAATATGTTTATC-AAACA-AGT
1 TATTAATATT---TCAA-TAATTAATAAGAGATTTAAAAAATAAATATATTT-TCTAAA-ATAGT
* * * * *
13588002 TCAAATCA-TTATGACTATTTGAACAATTATTTATTTTAAATTGTTCTGACTTTTTGTTTTGGT-
60 TCAAAT-AGTTATGACTATTTGAACAATTATCTATCTCAAAATGTTATGACTTTTTGTTTT-GTC
* ** *
13588065 ATAAAATAATAATTTCTATTCATACAAGCTTATTC-ATATTAAAATAATATTAATTTATTAATAT
123 ATAAAACAATTGTTTCTATTCATACAAGCTTATTCGA-ATTAAAATAATACTAATTTATTAATAT
* * * * *
13588129 CTCTACAAA-TAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC---AAATA
187 TTC-AAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTATCGAACTAGTTCTAGAAATA
* * * * * * *
13588190 GTCATGACAATTTGAATAATTATCTATTTTAAATCATTGTGACCTTTTGTTTTGTAATAAAACAA
251 GTTAAGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCATAAAACAA
* * **
13588255 TTGTTTCCATTCATATAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTTGAAAATT
316 TTGTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATA-TTCAAAAATT
** * * * * * * * *
13588320 AATTAGTAAGAGA-ATTAAAAAATGAATATGTTTAC-AGAATATGTTCAAATAGTTATGACTATC
380 AACAAGTAAGAGATA-TAAAAAATAAATCTATTTACTA-AACAAGTTTAAATAATTATGACTATT
* * * * *
13588383 TAAATAATTATCAATTTCAAAACATTATGACATTTTGTTTTGTCATAAAACAATTGGTTCTATTC
443 TGAATAATTATCTATTT-AAATCATTATGAC-CTTTGTTTTGTCATAAAACAATTGTTTCTATTC
**
13588448 ATGCAAGCTTATTTCGAATAAAATAATATAAATT
506 ATGCAAAATTATTTCGAATAAAATAATATAAATT
* * * *
13588482 TATTAATATTTCAAAAATTAATAAGTAAAAATTTAAAAAATAAATATGTTTTCT-AAATACATTC
1 TATTAATATTTCAATAATTAATAAG---AGATTTAAAAAATAAATATATTTTCTAAAATA-GTTC
* ** * * *
13588546 AAATAGTTATAACTATTTGAACAATTATCTAT-TTTAGATCATTATGACGTTTTTTTTTTGTCAT
62 AAATAGTTATGACTATTTGAACAATTATCTATCTCAAAAT-GTTATGAC-TTTTTGTTTTGTCAT
* * * * * *
13588610 AAATCGATTGTTTCTACTCATA-AAGCTTATTTAGAA-TAAAATAATATTAATTTATTAA-AATT
125 AAAACAATTGTTTCTATTCATACAAGCTTA-TTCGAATTAAAATAATACTAATTTATTAATATTT
* * *
13588672 CTAAAAATTAATAAGTAAAAGACTTAAAAAATAAATCTATTTAAT-GAA-TGAGTTC--G-AATA
189 C-AAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTT-ATCGAACT-AGTTCTAGAAATA
* * * * *
13588732 GTTATGACTATTTGAACAATTATTTATTTCAAATCATTATGATCTTTTGTTTTGTCATAAAACAA
251 GTTAAGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCATAAAACAA
* ** *
13588797 CTGTTTCTATTCATACAATTTTATTTGAAATAAAATAATACTAATTTATTAATATTCTAAAATTA
316 TTGTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCAAAAATTA
* * * * * *
13588862 ATAAGT-TGAAGATATAAAAAATAAATCTATTTACTAAACAAGTTTGAACAGTCT-TGTC-ATTT
381 ACAAGTAAG-AGATATAAAAAATAAATCTATTTACTAAACAAGTTTAAATAAT-TATGACTATTT
** * * *
13588924 GAATTGTTATCTATTTCGAATCATTATGACCTCTGTTTTGTCATAAAATAATTGTTTCTATTCAT
444 GAATAATTATCTATTT-AAATCATTATGACCTTTGTTTTGTCATAAAACAATTGTTTCTATTCAT
* * *
13588989 GCAAAATTA-TTCAGATTAAAATAATATAGATC
508 GCAAAATTATTTC-GAATAAAATAATATAAATT
** * *
13589021 TATTAATATTTTTATAATTAATAAGAGATTTAAAAACTAAATCTATTTTCTAAAATAGTTCAAAT
1 TATTAATATTTCAATAATTAATAAGAGATTTAAAAAATAAATATATTTTCTAAAATAGTTCAAAT
* * * *
13589086 ATTTATGACTATTTGAACAATTATCTATCGCAAAATGTTATGA-TCTTTATTTTGTCATAAAACA
66 AGTTATGACTATTTGAACAATTATCTATCTCAAAATGTTATGACTTTTTGTTTTGTCATAAAACA
* * * *
13589150 ATTGCTCCTTTTCATACAAGCTTATTCGAATTAAAATAATACTAATTTAATAATATTTCAAAAAT
131 ATTGTTTCTATTCATACAAGCTTATTCGAATTAAAATAATACTAATTTATTAATATTTCAAAAAT
* *
13589215 TAATAAGTAAGAGATTTAAAAAATAAATAT-TCTTGTCGAACTAGTTCAAATAGTAAATAGTTAA
196 TAATAAGTAAAAGATTTAAAAAATAAATATGT-TTATCGAACTAGTTC---TAG-AAATAGTTAA
* * * * * * * * *
13589279 GACTATTAGGACAATTATTTATTTCAAATCATTTTAACCTTTTATTTAGTCA-AAAGATAATTAT
256 GACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCATAAA-ACAATTGT
* * *
13589343 TTC-AGTTCATACAAGCTTATTTAGAATAAAATAATAATAATAATTTATTAACATTCGAAAAATT
320 TTCTA-TTCATACAAGCTTATTT-GAA-ATAA-AATAATACTAATTTATTAATATTC-AAAAATT
* * * * * *
13589407 AACAAGCAAGAGATTTAAAACAATAAATCTATTTACCGAAA-AAGTTCAAAAAAATT-TGACTTT
380 AACAAGTAAGAGATATAAAA-AATAAATCTATTTA-CTAAACAAGTT-TAAATAATTATGACTAT
* * *
13589470 TTGAACAATTGTTCTAACTATTTAAAGTCATTATGAGCTTTTGTTTTGTCATAAAACAATT-TTT
442 TTGAATAA----T-TATCTATTTAAA-TCATTATGA-CCTTTGTTTTGTCATAAAACAATTGTTT
* *
13589534 TTAATTCAT----AATTACTTATCTGTAATAAAATAATACT-ACTT
500 CT-ATTCATGCAAAATTA-TT-TC-G-AATAAAATAATA-TAAATT
* * ** * * *
13589575 TATTAATATTTTGAAAGTTAA-TAAGCAAGAGATTTAAAACTTAAA-ATAGCTTTCCAAACTAGT
1 TATTAATA-TTT-CAA--TAATTAA-TAAGAGATTTAAAAAATAAATATA-TTTTCTAAAATAGT
* * * * * * *
13589638 TCAAATGGTTATGACTATTTGAACAAATATCAATCTC-AAATCATCATGA-TCTTTGTTTTCTCA
60 TCAAATAGTTATGACTATTTGAACAATTATCTATCTCAAAAT-GTTATGACTTTTTGTTTTGTCA
* * * * *
13589701 TAAAACAATTATTT-TGA-TCATTCAAGCTTATTCGGATAAAAATAATACTAATTTAATAATATT
124 TAAAACAATTGTTTCT-ATTCATACAAGCTTATTCGAATTAAAATAATACTAATTTATTAATATT
* * *
13589764 ACAAAAA--AA-AAG---GAGATTTAAAAAATAAA-AGTGTTTATCAAACTAGTT-TA-AAA-AG
188 TCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATA-TGTTTATCGAACTAGTTCTAGAAATAG
* ** * * * *
13589819 TTAAGACTATTAGAATAATTATCTATTTCAAATTGTTTTGACTTTTTGTTTAGTCATATAATAAT
252 TTAAGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCATAAAACAAT
* * *
13589884 TGTTTCAATTCACACAAGCTTATTT-AGAATAAAATAGTACTAATTTATTAATATT
317 TGTTTCTATTCATACAAGCTTATTTGA-AATAAAATAATACTAATTTATTAATATT
13589939 AATTTATTTC
Statistics
Matches: 1639, Mismatches: 267, Indels: 187
0.78 0.13 0.09
Matches are distributed among these distances:
534 36 0.02
535 70 0.04
536 66 0.04
537 8 0.00
538 3 0.00
539 85 0.05
540 43 0.03
541 90 0.05
542 321 0.20
543 90 0.05
544 162 0.10
545 318 0.19
546 35 0.02
547 26 0.02
548 14 0.01
550 6 0.00
551 30 0.02
552 5 0.00
553 24 0.01
554 50 0.03
555 6 0.00
556 1 0.00
557 59 0.04
558 91 0.06
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (539 bp):
TATTAATATTTCAATAATTAATAAGAGATTTAAAAAATAAATATATTTTCTAAAATAGTTCAAAT
AGTTATGACTATTTGAACAATTATCTATCTCAAAATGTTATGACTTTTTGTTTTGTCATAAAACA
ATTGTTTCTATTCATACAAGCTTATTCGAATTAAAATAATACTAATTTATTAATATTTCAAAAAT
TAATAAGTAAAAGATTTAAAAAATAAATATGTTTATCGAACTAGTTCTAGAAATAGTTAAGACTA
TTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCATAAAACAATTGTTTCTAT
TCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCAAAAATTAACAAGTAAGA
GATATAAAAAATAAATCTATTTACTAAACAAGTTTAAATAATTATGACTATTTGAATAATTATCT
ATTTAAATCATTATGACCTTTGTTTTGTCATAAAACAATTGTTTCTATTCATGCAAAATTATTTC
GAATAAAATAATATAAATT
Done.