Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 74 of 126
Found at i:14952385 original size:59 final size:59
Alignment explanation
Indices: 14952230--14952385 Score: 204
Period size: 59 Copynumber: 2.6 Consensus size: 59
14952220 CAATAAATAT
* * * * *
14952230 ATAATCAAAACCCAAACAAATTTCAACAAATATAAAACCAACAAAGATTCAACAAATTG
1 ATAACCAAAACCCAAATAAATTTCAACAAATATATAACCAACAAAAACTCAACAAATTG
* * * * *
14952289 ATAACCAAAACTCAAATAAATTTCAACAAATAAATAACTAATAAAAACTCAACACATTG
1 ATAACCAAAACCCAAATAAATTTCAACAAATATATAACCAACAAAAACTCAACAAATTG
* *
14952348 GTAACCAAAACCCAAATAAATTTCAACAAATTTATAAC
1 ATAACCAAAACCCAAATAAATTTCAACAAATATATAAC
14952386 AAAAGATTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 83 1.00
ACGTcount: A:0.56, C:0.20, G:0.03, T:0.21
Consensus pattern (59 bp):
ATAACCAAAACCCAAATAAATTTCAACAAATATATAACCAACAAAAACTCAACAAATTG
Found at i:14957310 original size:7 final size:7
Alignment explanation
Indices: 14957298--14957330 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
14957288 AAATTTAATA
14957298 AATTTAT
1 AATTTAT
14957305 AATTTAT
1 AATTTAT
14957312 AATTTA-
1 AATTTAT
14957318 ATATTTAT
1 A-ATTTAT
14957326 AATTT
1 AATTT
14957331 TTATCTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 22 0.92
8 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTAT
Found at i:14957334 original size:23 final size:22
Alignment explanation
Indices: 14957289--14957330 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
14957279 TTAAAAATAA
14957289 AATTTAATAAATTTATAATTTAT
1 AATTTAAT-AATTTATAATTTAT
14957312 AATTTAAT-ATTTATAATTT
1 AATTTAATAATTTATAATTT
14957331 TTATCTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTTAATAATTTATAATTTAT
Found at i:14957810 original size:16 final size:16
Alignment explanation
Indices: 14957791--14957841 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
14957781 AAAAATATTT
*
14957791 TATATTTTTATATGAA
1 TATATTTTTATATAAA
*
14957807 TATAAATTTTA-ATAAA
1 TAT-ATTTTTATATAAA
14957823 TA-ATTTTTATATAAA
1 TATATTTTTATATAAA
14957838 -ATAT
1 TATAT
14957842 GATACGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
14 7 0.24
15 7 0.24
16 9 0.31
17 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATATTTTTATATAAA
Found at i:14957825 original size:14 final size:15
Alignment explanation
Indices: 14957796--14957837 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
14957786 TATTTTATAT
14957796 TTTTATATGAATATAAA
1 TTTTATAT-AA-ATAAA
*
14957813 TTTTA-ATAAATAAT
1 TTTTATATAAATAAA
14957827 TTTTATATAAA
1 TTTTATATAAA
14957838 ATATGATACG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 9 0.39
15 7 0.30
16 2 0.09
17 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TTTTATATAAATAAA
Found at i:14958716 original size:16 final size:17
Alignment explanation
Indices: 14958686--14958718 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14958676 ATTAAAATTA
*
14958686 AATGATATAATTTTTTT
1 AATGATATAAATTTTTT
14958703 AATGA-ATAAATTTTTT
1 AATGATATAAATTTTTT
14958719 TAAAAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
AATGATATAAATTTTTT
Found at i:14958726 original size:16 final size:17
Alignment explanation
Indices: 14958694--14958726 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14958684 TAAATGATAT
*
14958694 AATTTTTTTAATGAATA
1 AATTTTTTTAATAAATA
14958711 AATTTTTTTAA-AAATA
1 AATTTTTTTAATAAATA
14958727 TTAATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
AATTTTTTTAATAAATA
Found at i:14959405 original size:22 final size:22
Alignment explanation
Indices: 14959380--14959422 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14959370 TATATTTTTT
14959380 ATTTTTATT-AAATTTATAAATG
1 ATTTTTATTAAAATTT-TAAATG
*
14959402 ATTTTTGTTAAAATTTTAAAT
1 ATTTTTATTAAAATTTTAAAT
14959423 TTTTATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
ATTTTTATTAAAATTTTAAATG
Found at i:14960246 original size:15 final size:15
Alignment explanation
Indices: 14960226--14960254 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14960216 TTCCGTCAAC
14960226 ATTCTCTCATTTTTT
1 ATTCTCTCATTTTTT
14960241 ATTCTCTCATTTTT
1 ATTCTCTCATTTTT
14960255 AAAAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTCTCTCATTTTTT
Found at i:14969304 original size:118 final size:117
Alignment explanation
Indices: 14969097--14969333 Score: 447
Period size: 118 Copynumber: 2.0 Consensus size: 117
14969087 TCAAAGTATA
*
14969097 TTTTGCAATTTACCAAAATGCCTGTTTTTGTGCCATTTCTTGACGAACAATTATTATTTTTTTAA
1 TTTTGCAATTTACCAAAATGCCTGTTTTTGTGCCATTTCTTGACGAACAATTATTATTTTTTAAA
*
14969162 AATATTAATTTTACTGAAATTTCAATTCTCATGATATTGTGTGCAATAAATT
66 AAAATTAATTTTACTGAAATTTCAATTCTCATGATATTGTGTGCAATAAATT
14969214 TTTTGCAATTTACCAAAATGCCTGTTTTTTGTGCCATTTCTTGACGAACAATTATTATTTTTTAA
1 TTTTGCAATTTACCAAAATGCCTG-TTTTTGTGCCATTTCTTGACGAACAATTATTATTTTTTAA
14969279 AAAAATTAATTTTACTGAAATTTCAATTCTCATGATATTGTGTGCAATAAATT
65 AAAAATTAATTTTACTGAAATTTCAATTCTCATGATATTGTGTGCAATAAATT
14969332 TT
1 TT
14969334 GTCAAAATTT
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
117 24 0.21
118 93 0.79
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (117 bp):
TTTTGCAATTTACCAAAATGCCTGTTTTTGTGCCATTTCTTGACGAACAATTATTATTTTTTAAA
AAAATTAATTTTACTGAAATTTCAATTCTCATGATATTGTGTGCAATAAATT
Found at i:14969670 original size:30 final size:30
Alignment explanation
Indices: 14969629--14969689 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
14969619 TTGATTTTCA
*
14969629 ATTTATTTGAAATCATTAAATATAATTTAT
1 ATTTATCTGAAATCATTAAATATAATTTAT
14969659 ATTTATCTGAAATCATTAAATATAATTTAT
1 ATTTATCTGAAATCATTAAATATAATTTAT
14969689 A
1 A
14969690 ATTACTCACG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (30 bp):
ATTTATCTGAAATCATTAAATATAATTTAT
Found at i:14970598 original size:2 final size:2
Alignment explanation
Indices: 14970593--14970619 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14970583 GATCTGTCAA
14970593 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14970620 AAGGTGTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14970946 original size:38 final size:38
Alignment explanation
Indices: 14970878--14970965 Score: 94
Period size: 38 Copynumber: 2.4 Consensus size: 38
14970868 GTTTTCATAA
* * * **
14970878 TTTTTTAT--TTTTTAAAAATATTTCAGTTTTATACTT
1 TTTTTTATAATTTTTAAAAATAATTCAATTTTAAAAGT
14970914 TTTTTTATAATTTTTAAAAA-AATTCATATTTTAAAAGT
1 TTTTTTATAATTTTTAAAAATAATTCA-ATTTTAAAAGT
14970952 TTTTTTA-AATTTTT
1 TTTTTTATAATTTTT
14970966 GTGATTTTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
36 8 0.18
37 12 0.27
38 24 0.55
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (38 bp):
TTTTTTATAATTTTTAAAAATAATTCAATTTTAAAAGT
Found at i:14975301 original size:12 final size:13
Alignment explanation
Indices: 14975276--14975305 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
14975266 TGCAAATTGA
14975276 CTTTTTAAATTTT
1 CTTTTTAAATTTT
14975289 CTTTTTAAA-TTT
1 CTTTTTAAATTTT
14975301 CTTTT
1 CTTTT
14975306 GATTGATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (13 bp):
CTTTTTAAATTTT
Found at i:14980423 original size:20 final size:20
Alignment explanation
Indices: 14980398--14980468 Score: 79
Period size: 20 Copynumber: 3.2 Consensus size: 20
14980388 TGTTAGATTC
14980398 AATTTTGGATAAATTAAATA
1 AATTTTGGATAAATTAAATA
14980418 AATTTTCGGATTCGAATCAATTAAATA
1 AATTTT-GGA-T---A--AATTAAATA
14980445 AATTTTGGATAAATTAAATA
1 AATTTTGGATAAATTAAATA
14980465 AATT
1 AATT
14980469 GAATGAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
20 19 0.43
21 3 0.07
22 2 0.05
25 2 0.05
26 3 0.07
27 15 0.34
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.39
Consensus pattern (20 bp):
AATTTTGGATAAATTAAATA
Found at i:14981857 original size:21 final size:20
Alignment explanation
Indices: 14981820--14981858 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14981810 CAATGATATG
* *
14981820 TTTTTCAAATTTTCATAATT
1 TTTTTAAAATTTACATAATT
14981840 TTTTTAAAATTATACATAA
1 TTTTTAAAATT-TACATAA
14981859 CATTCTTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTTAAAATTTACATAATT
Found at i:14987620 original size:18 final size:18
Alignment explanation
Indices: 14987586--14987623 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14987576 TAAAGCATGT
*
14987586 TTGTTTATTTTTCATTTG
1 TTGTTTATTTCTCATTTG
14987604 TTGTTTATTTGCT-ATTTG
1 TTGTTTATTT-CTCATTTG
14987622 TT
1 TT
14987624 TATAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.11, C:0.05, G:0.13, T:0.71
Consensus pattern (18 bp):
TTGTTTATTTCTCATTTG
Found at i:14987794 original size:26 final size:23
Alignment explanation
Indices: 14987761--14987818 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 23
14987751 CTATTTATTG
* *
14987761 TTTATGAATATGTTCGTTTATATA
1 TTTATGAACATGTTCATTTA-ATA
14987785 TATTCATGAACATGTTCATTTAATA
1 T-TT-ATGAACATGTTCATTTAATA
14987810 TTTATGAAC
1 TTTATGAAC
14987819 GAATTCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 6 0.20
24 3 0.10
25 6 0.20
26 15 0.50
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (23 bp):
TTTATGAACATGTTCATTTAATA
Found at i:14990836 original size:6 final size:6
Alignment explanation
Indices: 14990825--14990863 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
14990815 CTTGCTAAAA
* *
14990825 AAAGAG AAAGAG AAAAAG AAAGAG AATGAG AAAGAG AAA
1 AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAA
14990864 ATTAATGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (6 bp):
AAAGAG
Found at i:14994987 original size:15 final size:15
Alignment explanation
Indices: 14994953--14994987 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14994943 TTTAGATTTA
*
14994953 AATTTTTTTATTAAT
1 AATTTTTTTATGAAT
14994968 AATTTTTTTATGAAT
1 AATTTTTTTATGAAT
*
14994983 GATTT
1 AATTT
14994988 ATAAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (15 bp):
AATTTTTTTATGAAT
Found at i:14995658 original size:22 final size:23
Alignment explanation
Indices: 14995630--14995678 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
14995620 TAAAAAATAT
14995630 ATTTATAT-TTGATATATTCTTA
1 ATTTATATATTGATATATTCTTA
* *
14995652 ATTTATATAATTTATATATTTTTA
1 ATTTATAT-ATTGATATATTCTTA
14995676 ATT
1 ATT
14995679 AATTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
24 15 0.65
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
ATTTATATATTGATATATTCTTA
Found at i:14995861 original size:14 final size:15
Alignment explanation
Indices: 14995842--14995871 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
14995832 TTTAAATTTT
14995842 TATAATTATTT-TAA
1 TATAATTATTTATAA
14995856 TATAATTATTTATAA
1 TATAATTATTTATAA
14995871 T
1 T
14995872 TTAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATAATTATTTATAA
Found at i:14996511 original size:16 final size:15
Alignment explanation
Indices: 14996492--14996543 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
14996482 ATATTTTTTA
14996492 TTAAAAATATAACAAT
1 TTAAAAATATAA-AAT
*
14996508 TTAAAAATA-AAAAA
1 TTAAAAATATAAAAT
*
14996522 TTATAAATATTAAAAT
1 TTAAAAATA-TAAAAT
14996538 TTAAAA
1 TTAAAA
14996544 TTTAATAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 10 0.33
15 2 0.07
16 18 0.60
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAAAAATATAAAAT
Found at i:14997827 original size:49 final size:49
Alignment explanation
Indices: 14997773--14997871 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
14997763 GGATGATGTA
14997773 TTATATGGTGAAAGCAAGGCTTGCTATATTTTCATCTATAGTGATTGTT
1 TTATATGGTGAAAGCAAGGCTTGCTATATTTTCATCTATAGTGATTGTT
*
14997822 TTATATGGTGAAAGCAAGGCTTGCTATATTTTTATCTATAGTGATTGTT
1 TTATATGGTGAAAGCAAGGCTTGCTATATTTTCATCTATAGTGATTGTT
14997871 T
1 T
14997872 ACCTCAATTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.44
Consensus pattern (49 bp):
TTATATGGTGAAAGCAAGGCTTGCTATATTTTCATCTATAGTGATTGTT
Found at i:15000252 original size:23 final size:23
Alignment explanation
Indices: 15000225--15000270 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
15000215 CAAATGAAAA
15000225 ATTGATGCATTGCCTTAAAAAGG
1 ATTGATGCATTGCCTTAAAAAGG
15000248 ATTGATGCATTGCCTTAAAAAGG
1 ATTGATGCATTGCCTTAAAAAGG
15000271 GGCTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (23 bp):
ATTGATGCATTGCCTTAAAAAGG
Found at i:15000647 original size:12 final size:13
Alignment explanation
Indices: 15000616--15000646 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15000606 TGTCATGCCT
15000616 GAAAAATATGAAG
1 GAAAAATATGAAG
*
15000629 GAAAAATATGGAG
1 GAAAAATATGAAG
15000642 GAAAA
1 GAAAA
15000647 TGTTACTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.26, T:0.13
Consensus pattern (13 bp):
GAAAAATATGAAG
Found at i:15004752 original size:2 final size:2
Alignment explanation
Indices: 15004747--15004779 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15004737 AAGGAAAATA
15004747 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15004780 AGGCTAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15004918 original size:21 final size:21
Alignment explanation
Indices: 15004892--15004932 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15004882 CCAAATTTTG
* *
15004892 TAACATGAAATTGAATAAAAT
1 TAACATAAAAATGAATAAAAT
*
15004913 TAACATAAAAATGATTAAAA
1 TAACATAAAAATGAATAAAA
15004933 AAATTGAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (21 bp):
TAACATAAAAATGAATAAAAT
Found at i:15006853 original size:13 final size:13
Alignment explanation
Indices: 15006835--15006859 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15006825 TTCAACAAAG
15006835 TAATTGAATATAT
1 TAATTGAATATAT
15006848 TAATTGAATATA
1 TAATTGAATATA
15006860 ATATTATATA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TAATTGAATATAT
Found at i:15017539 original size:23 final size:23
Alignment explanation
Indices: 15017512--15017584 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 23
15017502 TTGACTCGAT
15017512 ATTATATTAAAAATTATTTTTTA
1 ATTATATTAAAAATTATTTTTTA
*
15017535 ATTATA-T-ATAATTATATTTTTA
1 ATTATATTAAAAATTAT-TTTTTA
15017557 TATT-T-TTAAAAATAATATTTTATTA
1 -ATTATATTAAAAAT--TATTTT-TTA
15017582 ATT
1 ATT
15017585 TTGAATCACA
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
21 7 0.17
22 9 0.22
23 13 0.32
24 6 0.15
25 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTATATTAAAAATTATTTTTTA
Found at i:15018022 original size:31 final size:32
Alignment explanation
Indices: 15017984--15018046 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
15017974 ACCAAAAGAG
*
15017984 TTTTAATTCAACACT-TAACCTATATAAAAAT
1 TTTTAATTCAACAATGTAACCTATATAAAAAT
15018015 TTTTAATTCAACAATGTAACCTATATAAAAAT
1 TTTTAATTCAACAATGTAACCTATATAAAAAT
15018047 GAAAAAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 14 0.47
32 16 0.53
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (32 bp):
TTTTAATTCAACAATGTAACCTATATAAAAAT
Found at i:15018913 original size:15 final size:15
Alignment explanation
Indices: 15018893--15018926 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15018883 AAATATCATG
* *
15018893 AAATTTTAATTTAAT
1 AAATTTAAATGTAAT
15018908 AAATTTAAATGTAAT
1 AAATTTAAATGTAAT
15018923 AAAT
1 AAAT
15018927 AATTATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AAATTTAAATGTAAT
Found at i:15023863 original size:20 final size:22
Alignment explanation
Indices: 15023819--15023866 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
15023809 TTTAAACTTA
*
15023819 AAATTTTTTTAAGTTTTATGTT
1 AAATTTTTTTAAGTTTTATGGT
15023841 AAATTTTTTTAA-TTTT-TGGT
1 AAATTTTTTTAAGTTTTATGGT
15023861 AAATTT
1 AAATTT
15023867 GTGTATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.36
21 4 0.16
22 12 0.48
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.62
Consensus pattern (22 bp):
AAATTTTTTTAAGTTTTATGGT
Found at i:15031941 original size:2 final size:2
Alignment explanation
Indices: 15031934--15031958 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15031924 AATGAAAATA
15031934 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15031959 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15032258 original size:16 final size:16
Alignment explanation
Indices: 15032237--15032277 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
15032227 ATTCAAATGA
*
15032237 ATAAATTTAAT-TTTT
1 ATAAATTTAATCATTT
15032252 CATAAATTTAATCATTT
1 -ATAAATTTAATCATTT
15032269 ATAAATTTA
1 ATAAATTTA
15032278 TGATATTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATAAATTTAATCATTT
Found at i:15032876 original size:2 final size:2
Alignment explanation
Indices: 15032871--15032902 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15032861 GCATTAAAAA
15032871 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15032903 TACTCAGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15033135 original size:11 final size:11
Alignment explanation
Indices: 15033119--15033157 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15033109 GATAATATGG
15033119 TATAAAAATAA
1 TATAAAAATAA
*
15033130 TATAAATAAAAA
1 TATAAA-AATAA
*
15033142 TATAAAGATAA
1 TATAAAAATAA
15033153 TATAA
1 TATAA
15033158 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TATAAAAATAA
Found at i:15033145 original size:12 final size:12
Alignment explanation
Indices: 15033119--15033187 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
15033109 GATAATATGG
*
15033119 TATAAA-AATAA
1 TATAAATAAAAA
15033130 TATAAATAAAAA
1 TATAAATAAAAA
* *
15033142 TATAAA-GATAA
1 TATAAATAAAAA
* *
15033153 TATAATTTAAAA
1 TATAAATAAAAA
* *
15033165 TTTTAATAAAAA
1 TATAAATAAAAA
15033177 TTATAAATAAA
1 -TATAAATAAA
15033188 TTTTATAAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 14 0.33
12 21 0.49
13 8 0.19
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (12 bp):
TATAAATAAAAA
Found at i:15035889 original size:21 final size:22
Alignment explanation
Indices: 15035855--15035895 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15035845 GTTAATTTTT
*
15035855 AAAATGAACTTTAAAAATAAAA
1 AAAATAAACTTTAAAAATAAAA
*
15035877 AAAATAAAC-TTAATAATAA
1 AAAATAAACTTTAAAAATAA
15035896 TACCAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAATAAACTTTAAAAATAAAA
Found at i:15048326 original size:50 final size:50
Alignment explanation
Indices: 15048200--15048837 Score: 694
Period size: 50 Copynumber: 13.0 Consensus size: 50
15048190 TGAAGGACAT
* * *
15048200 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGATAGGAG-CTTTTTCAAA
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
* * *
15048249 AT-TGA-TTTTAAAGTTGTTGAGCCTCTACTGAGGGGAGCCTTTTTCAAA
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
* * * *
15048297 ATGAGATTTTTAAAGTCGTTGAGCTTCTACTGAAATGAGCCTTTTTCAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
* *
15048347 ATGAAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAA-
1 ATG-AGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
* * * *
15048396 ATGAGATTTTTAAAGTTGTTAAACCTCTATTGAGAGGAG-CTTTTCCAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
** *
15048445 -TGAGA-TTTTAAAGTTGTTGAGCCT-TTGTGAGAGTAGTCC-TTTTCAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAG-CCTTTTTCAAG
* * *
15048492 ATGAGATTTTTAAAGTCGTTGAGCCTCTACTGAGAGAAGCTTTTTTCAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
* * * * ** * *
15048542 ATGAAAATTTTTAAAGTTGTTAAGCATATGTTGAGAGGAG-ATTTTCCAAG
1 ATG-AGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
* ** * *
15048592 -TG-GAATTTTTAAATTTGTTGAGTTTCTGCTGAGATGAGCCTTTTTCAAG
1 ATGAG-ATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
* *
15048641 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGATGAACCTTTTTCAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
* * * *
15048691 ATGAGAATTTTTAAAGTTATTGAGCCTCTGCTGAAAGGAG-CTTTTTC-AT
1 ATGAG-ATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
* *
15048740 ATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
* * * * *
15048790 ATAAAATTTTTAAAGTTATTGAGCCTCTACTGAGATGAGTCTTTTTCA
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCA
15048838 GATTTTAAAT
Statistics
Matches: 498, Mismatches: 72, Indels: 37
0.82 0.12 0.06
Matches are distributed among these distances:
46 9 0.02
47 53 0.11
48 124 0.25
49 49 0.10
50 175 0.35
51 88 0.18
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.38
Consensus pattern (50 bp):
ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCTTTTTCAAG
Found at i:15048671 original size:149 final size:147
Alignment explanation
Indices: 15048200--15048837 Score: 724
Period size: 149 Copynumber: 4.3 Consensus size: 147
15048190 TGAAGGACAT
* * * *
15048200 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGATAGGAGCTTTTTCAAAATTG--A-TTTTAAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTTCAAGA-TGAAATTTTTAAAG
* * * * * *
15048262 TTGTTGAGCCTCTACTGAGGGGAGCCTTTTTCAAAATGAGATTTTTAAAGTCGTTGAGCTTCTAC
65 TTGTTAAGCCTCTACTGAGAGGAG-C-TTTTCCAAGTGAGATTTTTAAAGTTGTTGAGCTTCTGC
*
15048327 TGAAATGAGCCTTTTTCAAG
128 TGAGATGAGCCTTTTTCAAG
* * * *
15048347 ATGAAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA-ATGAGATTTTTAAAG
1 ATG-AGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTTCAAGATGAAATTTTTAAAG
* *
15048411 TTGTTAAACCTCTATTGAGAGGAGCTTTTCCAAGTGAGA-TTTTAAAGTTGTTGAGCCTT-TG-T
65 TTGTTAAGCCTCTACTGAGAGGAGCTTTTCCAAGTGAGATTTTTAAAGTTGTTGAG-CTTCTGCT
15048473 GAGA-GTAGTCC-TTTTCAAG
129 GAGATG-AG-CCTTTTTCAAG
*
15048492 ATGAGATTTTTAAAGTCGTTGAGCCTCTACTGAGAGAAGCTTTTTTCAAGATGAAAATTTTTAAA
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGC-TTTTTCAAGATG-AAATTTTTAAA
* * ** * * *
15048557 GTTGTTAAGCATATGTTGAGAGGAGATTTTCCAAGTG-GAATTTTTAAATTTGTTGAGTTTCTGC
64 GTTGTTAAGCCTCTACTGAGAGGAGCTTTTCCAAGTGAG-ATTTTTAAAGTTGTTGAGCTTCTGC
15048621 TGAGATGAGCCTTTTTCAAG
128 TGAGATGAGCCTTTTTCAAG
*
15048641 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGATGAACCTTTTTCAAGATGAGAATTTTTAAA
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGA-GAAGCTTTTTCAAGATGA-AATTTTTAAA
* * * * * * *
15048706 GTTATTGAGCCTCTGCTGAAAGGAGCTTTTTCATA-TGAGATTTTTAAAGTTATTGAGCCTCTGC
64 GTTGTTAAGCCTCTACTGAGAGGAGCTTTTCCA-AGTGAGATTTTTAAAGTTGTTGAGCTTCTGC
*
15048770 TGAGAGGAGCCTTTTTCAAG
128 TGAGATGAGCCTTTTTCAAG
* * *
15048790 ATAAAATTTTTAAAGTTATTGAGCCTCTACTGAGATG-AGTCTTTTTCA
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGA-GAAG-CTTTTTCA
15048838 GATTTTAAAT
Statistics
Matches: 428, Mismatches: 42, Indels: 40
0.84 0.08 0.08
Matches are distributed among these distances:
144 34 0.08
145 25 0.06
146 24 0.06
147 64 0.15
148 66 0.15
149 208 0.49
150 7 0.02
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.38
Consensus pattern (147 bp):
ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTTCAAGATGAAATTTTTAAAGT
TGTTAAGCCTCTACTGAGAGGAGCTTTTCCAAGTGAGATTTTTAAAGTTGTTGAGCTTCTGCTGA
GATGAGCCTTTTTCAAG
Found at i:15049087 original size:15 final size:15
Alignment explanation
Indices: 15049067--15049100 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15049057 TATTAAATAT
15049067 AAAATATAAAAAACC
1 AAAATATAAAAAACC
* *
15049082 AAAATATAAGATACC
1 AAAATATAAAAAACC
15049097 AAAA
1 AAAA
15049101 AAATAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.12, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAATATAAAAAACC
Found at i:15049088 original size:22 final size:21
Alignment explanation
Indices: 15049061--15049122 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
15049051 AAATATTATT
*
15049061 AAATATAAAATATAAAAAACCA
1 AAATATAAAATA-AAAAAAACA
* *
15049083 AAATATAAGATACCAAAAAAATA
1 AAATATAAAATA--AAAAAAACA
15049106 AAATA-AAAATAAAAAAA
1 AAATATAAAATAAAAAAA
15049123 TAAAAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 6 0.18
22 16 0.47
23 12 0.35
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (21 bp):
AAATATAAAATAAAAAAAACA
Found at i:15051522 original size:2 final size:2
Alignment explanation
Indices: 15051515--15051543 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15051505 CAATGAATGT
15051515 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15051544 TGGGATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15051845 original size:2 final size:2
Alignment explanation
Indices: 15051838--15051868 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15051828 TCCATTAATA
15051838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15051869 ATCCTGGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15057860 original size:30 final size:30
Alignment explanation
Indices: 15057796--15057871 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
15057786 GAATTTAGTC
*
15057796 TTTATAATATTA-TTTAAAAAAATTCAATT
1 TTTATAATATTATTTTTAAAAAATTCAATT
* * *
15057825 CTTATAATATTATTTTTAAAAATTTTAATT
1 TTTATAATATTATTTTTAAAAAATTCAATT
15057855 TTTATAATATTATTTTT
1 TTTATAATATTATTTTT
15057872 TAAGAGATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 11 0.27
30 30 0.73
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (30 bp):
TTTATAATATTATTTTTAAAAAATTCAATT
Found at i:15057871 original size:15 final size:15
Alignment explanation
Indices: 15057826--15057873 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
15057816 AATTCAATTC
15057826 TTATAATATTATTTT
1 TTATAATATTATTTT
* * * *
15057841 TAAAAATTTTAATTT
1 TTATAATATTATTTT
15057856 TTATAATATTATTTT
1 TTATAATATTATTTT
15057871 TTA
1 TTA
15057874 AGAGATTTAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATAATATTATTTT
Found at i:15057983 original size:28 final size:28
Alignment explanation
Indices: 15057907--15057986 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 28
15057897 TTAATGATTG
* *
15057907 AATTAAAATTCTTAAAATATAATACTATAAA
1 AATT-AAATTTTTAAAA-ATAA-ACTAGAAA
* * *
15057938 AACTAAATTTCTT-TAAATAAATTAGAAA
1 AATTAAATTT-TTAAAAATAAACTAGAAA
15057966 AATTAAATTTTTAAAAATAAA
1 AATTAAATTTTTAAAAATAAA
15057987 AAAATATAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
27 2 0.05
28 22 0.55
29 4 0.10
30 7 0.17
31 5 0.12
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.36
Consensus pattern (28 bp):
AATTAAATTTTTAAAAATAAACTAGAAA
Found at i:15060710 original size:13 final size:13
Alignment explanation
Indices: 15060692--15060745 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
15060682 AAATTTCTTA
15060692 AAATTTATATAAT
1 AAATTTATATAAT
15060705 AAATTT-T-TAA-
1 AAATTTATATAAT
*
15060715 AAATTTATACAAT
1 AAATTTATATAAT
*
15060728 AAATTTTTA-AAT
1 AAATTTATATAAT
15060740 AAATTT
1 AAATTT
15060746 TTATTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
10 6 0.17
11 4 0.11
12 12 0.33
13 14 0.39
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTTATATAAT
Found at i:15060714 original size:22 final size:22
Alignment explanation
Indices: 15060679--15060738 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 22
15060669 ATTTTTTAAA
*
15060679 AATAAATTTCTTAAAATTTATAT
1 AATAAATTT-TTAAAATTTATAC
15060702 AATAAATTTTTAAAAATTTATAC
1 AATAAATTTTT-AAAATTTATAC
15060725 AATAAATTTTTAAA
1 AATAAATTTTTAAA
15060739 TAAATTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
22 5 0.14
23 30 0.86
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAAATTTTTAAAATTTATAC
Found at i:15060782 original size:16 final size:16
Alignment explanation
Indices: 15060757--15060879 Score: 60
Period size: 16 Copynumber: 7.7 Consensus size: 16
15060747 TATTTTATTT
15060757 AAAAATTTAT-TTTTG
1 AAAAATTTATATTTTG
15060772 AAAATATTTATATTTT-
1 AAAA-ATTTATATTTTG
* * * *
15060788 CATAATTT-TGCTTTTA
1 AAAAATTTAT-ATTTTG
* * *
15060804 AAAAATTAAGAGTTTTT
1 AAAAATTTATA-TTTTG
* *
15060821 AAAAAATTAT-TTTTAA
1 AAAAATTTATATTTT-G
15060837 AAAAATTTATAATTTATG
1 AAAAATTTAT-ATTT-TG
*
15060855 AAAAA-TT-TATTTTC
1 AAAAATTTATATTTTG
15060869 AAAAATTTATA
1 AAAAATTTATA
15060880 CTAAAAAAAT
Statistics
Matches: 80, Mismatches: 16, Indels: 23
0.67 0.13 0.19
Matches are distributed among these distances:
14 7 0.09
15 22 0.28
16 25 0.31
17 17 0.21
18 8 0.10
19 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (16 bp):
AAAAATTTATATTTTG
Found at i:15061996 original size:23 final size:24
Alignment explanation
Indices: 15061955--15062000 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
15061945 AAGTGAAAGC
* *
15061955 CAAAACAAAATTATTTCAGACGTT
1 CAAAAAAAAATTATGTCAGACGTT
15061979 CAAAAAAAAATTA-GTCAGACGT
1 CAAAAAAAAATTATGTCAGACGT
15062001 GGAACAGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (24 bp):
CAAAAAAAAATTATGTCAGACGTT
Found at i:15064726 original size:13 final size:13
Alignment explanation
Indices: 15064701--15064791 Score: 55
Period size: 13 Copynumber: 7.1 Consensus size: 13
15064691 TAATTATGAT
15064701 ATATAAA-ATATA
1 ATATAAATATATA
15064713 ATATAAATATATAA
1 ATATAAATATAT-A
* * *
15064727 ATTATCAATATTTT
1 A-TATAAATATATA
* * *
15064741 GTATTAAT-TATG
1 ATATAAATATATA
*
15064753 ATATATAAT-TTTA
1 ATATA-AATATATA
*
15064766 ATA-AAAAATATA
1 ATATAAATATATA
15064778 ATATAAATATATA
1 ATATAAATATATA
15064791 A
1 A
15064792 ATTATCAATT
Statistics
Matches: 59, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
11 2 0.03
12 19 0.32
13 27 0.46
14 2 0.03
15 9 0.15
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (13 bp):
ATATAAATATATA
Found at i:15073162 original size:51 final size:51
Alignment explanation
Indices: 15073084--15073187 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
15073074 ATGACAAAAT
* * *
15073084 AAAGTGATGCCTTAGGACAAGATGTTACTATTCCAGATAAATTATTAGAAA
1 AAAGTGATGCCTTAGGACAAGAGGTTACCATTCCAGACAAATTATTAGAAA
*
15073135 AAAGTGATGCCTTAGGACAAGAGGTTACCATTCCAGACAAATTGTTAGAAA
1 AAAGTGATGCCTTAGGACAAGAGGTTACCATTCCAGACAAATTATTAGAAA
15073186 AA
1 AA
15073188 TTACAATCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.26
Consensus pattern (51 bp):
AAAGTGATGCCTTAGGACAAGAGGTTACCATTCCAGACAAATTATTAGAAA
Found at i:15075157 original size:20 final size:20
Alignment explanation
Indices: 15075134--15075177 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15075124 TTTGTTTCTA
15075134 TGTTTCTGGGT-TTCTAGGTT
1 TGTTTCTGGGTGTT-TAGGTT
* *
15075154 TGTTTTTGGGTGTTTGGGTT
1 TGTTTCTGGGTGTTTAGGTT
15075174 TGTT
1 TGTT
15075178 GATGGTTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.02, C:0.05, G:0.34, T:0.59
Consensus pattern (20 bp):
TGTTTCTGGGTGTTTAGGTT
Found at i:15075675 original size:20 final size:20
Alignment explanation
Indices: 15075624--15075679 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
15075614 AAATGATTTT
* *
15075624 AGAGAGAGAAGATGAATTGT
1 AGAGAAAGAAGATGAATTGA
*
15075644 AGAGAAAAAAGATGAATTGA
1 AGAGAAAGAAGATGAATTGA
*
15075664 ATATG-AAGAAGATGAA
1 AGA-GAAAGAAGATGAA
15075680 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.18
Consensus pattern (20 bp):
AGAGAAAGAAGATGAATTGA
Found at i:15077903 original size:22 final size:21
Alignment explanation
Indices: 15077869--15077911 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
15077859 CATTTTTGAA
*
15077869 CTTGATGAATAAA-AATACTCT
1 CTTGAAGAATAAACAAT-CTCT
15077890 CTTGAAGAGATAAACAATCTCT
1 CTTGAAGA-ATAAACAATCTCT
15077912 TAAATATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 9 0.47
23 3 0.16
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (21 bp):
CTTGAAGAATAAACAATCTCT
Found at i:15086222 original size:20 final size:20
Alignment explanation
Indices: 15086197--15086248 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
15086187 ATATTAAAGG
* *
15086197 TAAAATAGTAAATTAATA-AT
1 TAAAATAATAAA-AAATATAT
15086217 TAAAATAATAAAAAATATAT
1 TAAAATAATAAAAAATATAT
15086237 TAAAATAA-AAAA
1 TAAAATAATAAAA
15086249 CTTGATTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 8 0.28
20 21 0.72
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
TAAAATAATAAAAAATATAT
Found at i:15089705 original size:21 final size:20
Alignment explanation
Indices: 15089665--15089734 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 20
15089655 TACAATAAAG
* *
15089665 ATTCAAAATTCGTAATTGAA
1 ATTCAAAATTCGCAACTGAA
15089685 ATTCAAAAGTTCGCAACTGAAA
1 ATTCAAAA-TTCGCAACTG-AA
* * *
15089707 ATTTAAACATTTGCAATTTGAA
1 ATTCAAA-ATTCGCAA-CTGAA
15089729 ATTCAA
1 ATTCAA
15089735 GGATTGCCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
20 8 0.20
21 8 0.20
22 21 0.52
23 3 0.08
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (20 bp):
ATTCAAAATTCGCAACTGAA
Found at i:15089910 original size:18 final size:18
Alignment explanation
Indices: 15089887--15089986 Score: 51
Period size: 19 Copynumber: 5.4 Consensus size: 18
15089877 GATTCACAAT
15089887 ATTCAAGATTAGCAAAAG
1 ATTCAAGATTAGCAAAAG
* *** *
15089905 ATTCAAAGGTTTTTAAAAA
1 ATTC-AAGATTAGCAAAAG
* *
15089924 ATTTCAAGATTCGCAAAAT
1 A-TTCAAGATTAGCAAAAG
*
15089943 ATTCCAAGATTTA-CAAAGG
1 ATT-CAAGA-TTAGCAAAAG
* *
15089962 TTTCAAGATTCGC-AAAG
1 ATTCAAGATTAGCAAAAG
15089979 ATTACAAG
1 ATT-CAAG
15089987 TTTCATAAAG
Statistics
Matches: 59, Mismatches: 17, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
17 7 0.12
18 16 0.27
19 31 0.53
20 5 0.08
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (18 bp):
ATTCAAGATTAGCAAAAG
Found at i:15089940 original size:38 final size:37
Alignment explanation
Indices: 15089888--15089981 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 37
15089878 ATTCACAATA
* *
15089888 TTCAAGATTAGCAAAAGATTCAAAGGTTTTTA-AAAAAT
1 TTCAAGATTCGCAAAAGATTCAAA-G-ATTTACAAAAAT
* * **
15089926 TTCAAGATTCGCAAAATATTCCAAGATTTACAAAGGT
1 TTCAAGATTCGCAAAAGATTCAAAGATTTACAAAAAT
15089963 TTCAAGATTCGC-AAAGATT
1 TTCAAGATTCGCAAAAGATT
15089982 ACAAGTTTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
36 10 0.21
37 17 0.35
38 21 0.44
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.31
Consensus pattern (37 bp):
TTCAAGATTCGCAAAAGATTCAAAGATTTACAAAAAT
Found at i:15089941 original size:19 final size:19
Alignment explanation
Indices: 15089919--15089977 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
15089909 AAAGGTTTTT
15089919 AAAAAATTTCAAGATTCGC
1 AAAAAATTTCAAGATTCGC
* * **
15089938 AAAATATTCCAAGATTTAC
1 AAAAAATTTCAAGATTCGC
**
15089957 -AAAGGTTTCAAGATTCGC
1 AAAAAATTTCAAGATTCGC
15089975 AAA
1 AAA
15089978 GATTACAAGT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (19 bp):
AAAAAATTTCAAGATTCGC
Found at i:15089996 original size:18 final size:18
Alignment explanation
Indices: 15089928--15090015 Score: 68
Period size: 18 Copynumber: 4.8 Consensus size: 18
15089918 TAAAAAATTT
* * *
15089928 CAAGATTCGCAAAATATTC
1 CAAGATTCAC-AAAGATTA
* * *
15089947 CAAGATTTACAAAGGTTT
1 CAAGATTCACAAAGATTA
*
15089965 CAAGATTCGCAAAGATTA
1 CAAGATTCACAAAGATTA
* * * *
15089983 CAAGTTTCATAAAGGTTC
1 CAAGATTCACAAAGATTA
15090001 CAAGATTCACAAAGA
1 CAAGATTCACAAAGA
15090016 ATTTAAAAAA
Statistics
Matches: 52, Mismatches: 17, Indels: 1
0.74 0.24 0.01
Matches are distributed among these distances:
18 44 0.85
19 8 0.15
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (18 bp):
CAAGATTCACAAAGATTA
Found at i:15090005 original size:36 final size:36
Alignment explanation
Indices: 15089928--15090015 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
15089918 TAAAAAATTT
* * *
15089928 CAAGATTCGCAAAATATTCCAAGATTTACAAAGGTTT
1 CAAGATTCGC-AAAGATTACAAGATTTACAAAGGTTC
*
15089965 CAAGATTCGCAAAGATTACAAG-TTTCATAAAGGTTC
1 CAAGATTCGCAAAGATTACAAGATTT-ACAAAGGTTC
*
15090001 CAAGATTCACAAAGA
1 CAAGATTCGCAAAGA
15090016 ATTTAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 3 0.07
36 32 0.71
37 10 0.22
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (36 bp):
CAAGATTCGCAAAGATTACAAGATTTACAAAGGTTC
Found at i:15090157 original size:8 final size:9
Alignment explanation
Indices: 15090126--15090208 Score: 50
Period size: 9 Copynumber: 9.1 Consensus size: 9
15090116 ATAAAGATCC
15090126 AAGATTCACA
1 AAGATT-ACA
*
15090136 AAGATTATA
1 AAGATTACA
15090145 AAGATT-CA
1 AAGATTACA
*
15090153 AAGATCTGC-
1 AAGAT-TACA
15090162 AAG-TTATTC-
1 AAGATTA--CA
15090171 AAGATTCACA
1 AAGATT-ACA
*
15090181 AAAATTACA
1 AAGATTACA
15090190 AAGATT-CA
1 AAGATTACA
15090198 AAGATTCACA
1 AAGATT-ACA
15090208 A
1 A
15090209 GTTATTAAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
7 1 0.02
8 15 0.25
9 25 0.42
10 17 0.29
11 1 0.02
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.25
Consensus pattern (9 bp):
AAGATTACA
Found at i:15090175 original size:45 final size:45
Alignment explanation
Indices: 15090125--15090221 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 45
15090115 CATAAAGATC
* * *
15090125 CAAGATTCACAAAGATTATAAAGATTCAAAGA-TCTGCAAGTTATT
1 CAAGATTCACAAAAATTACAAAGATTCAAAGATTC-ACAAGTTATT
15090170 CAAGATTCACAAAAATTACAAAGATTCAAAGATTCACAAGTTATT
1 CAAGATTCACAAAAATTACAAAGATTCAAAGATTCACAAGTTATT
*
15090215 AAAGATT
1 CAAGATT
15090222 TGCAAATGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
45 45 0.96
46 2 0.04
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.28
Consensus pattern (45 bp):
CAAGATTCACAAAAATTACAAAGATTCAAAGATTCACAAGTTATT
Found at i:15090575 original size:43 final size:42
Alignment explanation
Indices: 15090539--15090636 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
15090529 ATAGTGGGTT
**
15090539 AACAACTTTTGAAAATATAAAAGGCTTATCTAAATAGAGACAC
1 AACAACTTTAAAAAATATAAAA-GCTTATCTAAATAGAGACAC
* *
15090582 AACAACTTTAAAAAATATAAAAAGCTCATCTAAATAGAGGCAC
1 AACAACTTTAAAAAATAT-AAAAGCTTATCTAAATAGAGACAC
*
15090625 -ATAACTTTAAAA
1 AACAACTTTAAAA
15090637 TTAAGGATTC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 11 0.22
43 34 0.69
44 4 0.08
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.24
Consensus pattern (42 bp):
AACAACTTTAAAAAATATAAAAGCTTATCTAAATAGAGACAC
Found at i:15090762 original size:77 final size:76
Alignment explanation
Indices: 15090652--15090872 Score: 255
Period size: 77 Copynumber: 2.9 Consensus size: 76
15090642 GATTCCTTAT
* * * * *
15090652 AACAAAGGCACACGACTTTAAAACTAAAAGCTCCCCATAACAAAGGCATACGACTTTAAAAATAA
1 AACAGAGGCACACGACTTTAAAAATAAAGGCTCCCCATAA-AAAGGCACACAACTTTAAAAATAA
*
15090717 AAGATCCTTCAT-
65 AAGAT-CATCATA
* * * *
15090729 AGCAGAGGTACATGACTTTAAAAATAAAGGCTCCCAATAAATAGAGGCACACAACTTTAAAAATA
1 AACAGAGGCACACGACTTTAAAAATAAAGGCTCCCCATAAA-A-AGGCACACAACTTTAAAAATA
*
15090794 AAAGCTCATCATA
64 AAAGATCATCATA
* * * *
15090807 AATAGAGGCACACAACTTTAAAAATAAAGGCTCCACATAATAAAGGCACACAACTTTAAACATAA
1 AACAGAGGCACACGACTTTAAAAATAAAGGCTCCCCATAA-AAAGGCACACAACTTTAAAAATAA
15090872 A
65 A
15090873 GGCTTCTTAT
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
76 1 0.01
77 61 0.50
78 58 0.48
79 1 0.01
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.19
Consensus pattern (76 bp):
AACAGAGGCACACGACTTTAAAAATAAAGGCTCCCCATAAAAAGGCACACAACTTTAAAAATAAA
AGATCATCATA
Found at i:15090792 original size:22 final size:22
Alignment explanation
Indices: 15090767--15090875 Score: 62
Period size: 22 Copynumber: 5.5 Consensus size: 22
15090757 GGCTCCCAAT
*
15090767 AAATAGAGGCACACAACTTTAA
1 AAATAAAGGCACACAACTTTAA
* *
15090789 AAATAAAAGCTCATC-A---T-A
1 AAATAAAGGCACA-CAACTTTAA
*
15090807 -AATAGAGGCACACAACTTTAA
1 AAATAAAGGCACACAACTTTAA
*
15090828 AAATAAAGGCTC-C-AC----A
1 AAATAAAGGCACACAACTTTAA
*
15090844 TAATAAAGGCACACAACTTTAA
1 AAATAAAGGCACACAACTTTAA
*
15090866 ACATAAAGGC
1 AAATAAAGGC
15090876 TTCTTATTTG
Statistics
Matches: 62, Mismatches: 12, Indels: 26
0.62 0.12 0.26
Matches are distributed among these distances:
16 12 0.19
17 11 0.18
18 3 0.05
19 1 0.02
20 3 0.05
21 2 0.03
22 29 0.47
23 1 0.02
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.18
Consensus pattern (22 bp):
AAATAAAGGCACACAACTTTAA
Found at i:15090872 original size:38 final size:38
Alignment explanation
Indices: 15090614--15090876 Score: 217
Period size: 39 Copynumber: 6.8 Consensus size: 38
15090604 AGCTCATCTA
* * * **
15090614 AATAGAGGCACATAACTTT-AAAATTAAGGATTCCTTAT
1 AATAGAGGCACACAACTTTAAAAATAAAGG-CTCCACAT
* * * * * *
15090652 AACAAAGGCACACGACTTTAAAACTAAAAGCTCCCCAT
1 AATAGAGGCACACAACTTTAAAAATAAAGGCTCCACAT
* * * * * * *
15090690 AACAAAGGCATACGACTTTAAAAATAAAAGATCCTTCAT
1 AATAGAGGCACACAACTTTAAAAATAAAGGCTCC-ACAT
** * **
15090729 AGCAGAGGTACATGACTTTAAAAATAAAGGCTCC-CAAT
1 AATAGAGGCACACAACTTTAAAAATAAAGGCTCCAC-AT
*
15090767 AAATAGAGGCACACAACTTTAAAAATAAAAGCT-CATCAT
1 -AATAGAGGCACACAACTTTAAAAATAAAGGCTCCA-CAT
15090806 AAATAGAGGCACACAACTTTAAAAATAAAGGCTCCACAT
1 -AATAGAGGCACACAACTTTAAAAATAAAGGCTCCACAT
* *
15090845 AATAAAGGCACACAACTTTAAACATAAAGGCT
1 AATAGAGGCACACAACTTTAAAAATAAAGGCT
15090877 TCTTATTTGA
Statistics
Matches: 188, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
37 1 0.01
38 84 0.45
39 100 0.53
40 3 0.02
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (38 bp):
AATAGAGGCACACAACTTTAAAAATAAAGGCTCCACAT
Found at i:15091343 original size:22 final size:21
Alignment explanation
Indices: 15091318--15091398 Score: 51
Period size: 22 Copynumber: 3.7 Consensus size: 21
15091308 GCGTGGAAGC
15091318 CTTAGAAATTATGCCTAGAGGT
1 CTTAGAAATTATGCC-AGAGGT
*
15091340 CTTATAAATCATAT-CCAGAGGT
1 CTTAGAAAT--TATGCCAGAGGT
* *
15091362 -TTTGAGAATTATGCCCGAAGG-
1 CTTAGA-AATTATGCCAG-AGGT
*
15091383 CTTTGAAAATTATGCC
1 CTTAG-AAATTATGCC
15091399 CGAAGCCCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
20 3 0.06
21 6 0.12
22 33 0.69
23 3 0.06
24 3 0.06
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (21 bp):
CTTAGAAATTATGCCAGAGGT
Found at i:15091399 original size:22 final size:22
Alignment explanation
Indices: 15091362--15091442 Score: 83
Period size: 22 Copynumber: 3.7 Consensus size: 22
15091352 ATCCAGAGGT
*
15091362 TTTGAGAATTATGCCCGAAGGC
1 TTTGAAAATTATGCCCGAAGGC
*
15091384 TTTGAAAATTATGCCCGAAGCC
1 TTTGAAAATTATGCCCGAAGGC
* ** * *
15091406 CTT-ACAAATTATGCTTGGAGGT
1 TTTGA-AAATTATGCCCGAAGGC
15091428 TTTGAAAATTATGCC
1 TTTGAAAATTATGCC
15091443 TAAAGGTCTT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
21 1 0.02
22 45 0.96
23 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (22 bp):
TTTGAAAATTATGCCCGAAGGC
Found at i:15091458 original size:22 final size:22
Alignment explanation
Indices: 15091406--15091458 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
15091396 GCCCGAAGCC
* **
15091406 CTTACAAATTATGCTTGGAGGT
1 CTTACAAATTATGCCTAAAGGT
*
15091428 TTTGA-AAATTATGCCTAAAGGT
1 CTT-ACAAATTATGCCTAAAGGT
15091450 CTTACAAAT
1 CTTACAAAT
15091459 CATTTTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (22 bp):
CTTACAAATTATGCCTAAAGGT
Found at i:15092940 original size:19 final size:19
Alignment explanation
Indices: 15092918--15092968 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
15092908 CATTTTCATA
*
15092918 TTTTCTTTCCTTTTTTTTC
1 TTTTTTTTCCTTTTTTTTC
*
15092937 TTTTTTTTCTTTTTTTTTC
1 TTTTTTTTCCTTTTTTTTC
15092956 TTTTTTTTCCTTT
1 TTTTTTTTCCTTT
15092969 CATTTTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTTCCTTTTTTTTC
Found at i:15092968 original size:10 final size:9
Alignment explanation
Indices: 15092927--15092964 Score: 67
Period size: 9 Copynumber: 4.1 Consensus size: 9
15092917 ATTTTCTTTC
15092927 CTTTTTTTT
1 CTTTTTTTT
15092936 CTTTTTTTT
1 CTTTTTTTT
15092945 CTTTTTTTTT
1 C-TTTTTTTT
15092955 CTTTTTTTT
1 CTTTTTTTT
15092964 C
1 C
15092965 CTTTCATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:15093341 original size:14 final size:14
Alignment explanation
Indices: 15093322--15093351 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15093312 ATCAATTCTT
15093322 TTTTTTTATCTTTA
1 TTTTTTTATCTTTA
*
15093336 TTTTTTTATTTTTA
1 TTTTTTTATCTTTA
15093350 TT
1 TT
15093352 GCAAATCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTATCTTTA
Found at i:15101529 original size:144 final size:144
Alignment explanation
Indices: 15101265--15101551 Score: 468
Period size: 144 Copynumber: 2.0 Consensus size: 144
15101255 ACTCTTAAGT
* * **
15101265 TGAGAAAATTTCTTTTTTGGTGAAAACTTAAAGACCTTTTTTTCCAATGTTTAAATATTGAAATT
1 TGAGAAAATTTCTTTTTTAGTGAAAACCTAAAGACCTTTTTTTCCAATGTTTAAATATCAAAATT
15101330 AATAAAAATCATTTTAGATTAAAGCTTAGACAAGATACCATAAACTAATTTGATATCAATTTTTG
66 AATAAAAATCATTTTAGATTAAAGCTTAGACAAGATACCATAAACTAATTTGATATCAATTTTTG
*
15101395 GGCATTGT-GGAGG
131 AGCATTGTAGGAGG
* *
15101408 TGAGGAAATTTCTTTTTTAGTGAAAACCTAAAGACTTTTTTTTTCCAATGTTTAAATATCAAAAT
1 TGAGAAAATTTCTTTTTTAGTGAAAACCTAAAGAC-CTTTTTTTCCAATGTTTAAATATCAAAAT
* * *
15101473 TAATAAAAATTATTTTAGATTAAAGCTTAGATAAGATACCATAAGCTAATTTGATATCAATTTTT
65 TAATAAAAATCATTTTAGATTAAAGCTTAGACAAGATACCATAAACTAATTTGATATCAATTTTT
15101538 GAGCATTGTAGGAG
130 GAGCATTGTAGGAG
15101552 TACTAAAACC
Statistics
Matches: 132, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
143 32 0.24
144 96 0.73
145 4 0.03
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (144 bp):
TGAGAAAATTTCTTTTTTAGTGAAAACCTAAAGACCTTTTTTTCCAATGTTTAAATATCAAAATT
AATAAAAATCATTTTAGATTAAAGCTTAGACAAGATACCATAAACTAATTTGATATCAATTTTTG
AGCATTGTAGGAGG
Found at i:15102699 original size:13 final size:14
Alignment explanation
Indices: 15102683--15102711 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15102673 TTTTTGTTAC
15102683 TATGTA-TTGTATA
1 TATGTATTTGTATA
15102696 TATGTATTTGTATA
1 TATGTATTTGTATA
15102710 TA
1 TA
15102712 CATTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (14 bp):
TATGTATTTGTATA
Found at i:15102831 original size:133 final size:133
Alignment explanation
Indices: 15102679--15103033 Score: 376
Period size: 133 Copynumber: 2.6 Consensus size: 133
15102669 ATTTTTTTTG
* ** * *
15102679 TTACTATGTATTGTATATATGTATTTGTATATACATTTTTATCTATGTAAACACTTTTATATGTA
1 TTACTATGCATTACATATATGTATTTGTATATACATTTTTATCCATGTAAACA-TTTTGTATGTA
* * * *
15102744 CATTGTTTCATTTGTTTAGAAGTAATCTTTGCCTTATTTTTGTTTTGTACATAGTTTT-CA-A-T
65 CATTATTTCATTTGTTTAGAA-TAATCTTTACCTT-TTTTAG-TTTCTACATAGTTTTACAGACT
15102806 -TTGTTT
127 CTTGTTT
* * * *
15102812 TTACTATGCGTTACATATATGTATTTGCATATACATTGTTATCCATGTAAACATCTTTGTCTGTA
1 TTACTATGCATTACATATATGTATTTGTATATACATTTTTATCCATGTAAACAT-TTTGTATGTA
* * * *
15102877 CATTATTTCATTTGTTTGGGATAATCTTTACCTTTTTTAGTTTCTACTTAGTTTTGAATATGACT
65 CATTATTTCATTTGTTTAGAATAATCTTTACCTTTTTTAGTTTCTACATAGTTTT--ACA-GAC-
15102942 TCTTGTTT
126 TCTTGTTT
* * * *
15102950 TTACTATGTATTGCATACATGTATTTGTATATACATTTTTTTATCCATGTAAATATTTTGGTATG
1 TTACTATGCATTACATATATGTATTTGTATATACA--TTTTTATCCATGTAAACATTTT-GTATG
*
15103015 TAAATTATTTCATTTGTTT
63 TACATTATTTCATTTGTTT
15103034 GGTGCAATTT
Statistics
Matches: 184, Mismatches: 26, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
130 13 0.07
131 5 0.03
132 13 0.07
133 73 0.40
135 1 0.01
137 1 0.01
138 36 0.20
139 3 0.02
140 39 0.21
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.53
Consensus pattern (133 bp):
TTACTATGCATTACATATATGTATTTGTATATACATTTTTATCCATGTAAACATTTTGTATGTAC
ATTATTTCATTTGTTTAGAATAATCTTTACCTTTTTTAGTTTCTACATAGTTTTACAGACTCTTG
TTT
Found at i:15103051 original size:1 final size:1
Alignment explanation
Indices: 15103041--15103071 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
15103031 TTTGGTGCAA
*
15103041 TTTTTGTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15103072 GAATATGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:15103072 original size:140 final size:138
Alignment explanation
Indices: 15102806--15103123 Score: 334
Period size: 140 Copynumber: 2.3 Consensus size: 138
15102796 AGTTTTCAAT
** *
15102806 TTGTTTTTACTATGCGTTACATATATGTATTTGCATATACATTGTTATCCATGTAAACATCTTTG
1 TTGTTTTTACTATGTATTGCATATATGTATTTGCATATACATTGTTATCCATGTAAACATCTTTG
* * *
15102871 TCTGTACATTATTTCATTTGTTTGGGATAATCTTTACCTTTTTTAGTTTCTACTTAGTTTTGAAT
66 TATGTAAATTATTTCATTTGTTTGGGACAATCTTTACCTTTTTTAGTTTCTACTTAGTTTTGAAT
*
15102936 ATGACTTC
131 ATGAATTC
* * * *
15102944 TTGTTTTTACTATGTATTGCATACATGTATTTGTATATACATTTTTTTATCCATGTAAATAT-TT
1 TTGTTTTTACTATGTATTGCATATATGTATTTGCATATACA--TTGTTATCCATGTAAACATCTT
* *** ** * ** **
15103008 TGGTATGTAAATTATTTCATTTGTTTGGTG-CAATTTTTGTTTTTTTTTTTTTTTTTTTTTTTTT
64 T-GTATGTAAATTATTTCATTTGTTTGG-GACAATCTTTACCTTTTTTAGTTTCTACTTAGTTTT
15103072 GAATATGAATTC
127 GAATATGAATTC
* * * * *
15103084 TTATTTTTTATTATGTTTTGAATATAGGTATTTGCATATA
1 TT-GTTTTTACTATGTATTGCATATATGTATTTGCATATA
15103124 TTTTCTTCAT
Statistics
Matches: 146, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
138 36 0.25
139 3 0.02
140 76 0.52
141 31 0.21
ACGTcount: A:0.23, C:0.09, G:0.12, T:0.56
Consensus pattern (138 bp):
TTGTTTTTACTATGTATTGCATATATGTATTTGCATATACATTGTTATCCATGTAAACATCTTTG
TATGTAAATTATTTCATTTGTTTGGGACAATCTTTACCTTTTTTAGTTTCTACTTAGTTTTGAAT
ATGAATTC
Found at i:15106286 original size:101 final size:102
Alignment explanation
Indices: 15106110--15106314 Score: 299
Period size: 101 Copynumber: 2.0 Consensus size: 102
15106100 AGTTACCTTT
* * * *
15106110 TTAAATTTGATTTTTTTCCTAAGTTTCAAAGCTTATGTTAAGGAAGAGTTTTTTCAAAAATGAGA
1 TTAAATTTGATTTTTTTCCTAAGTTCCAAAGCTTATATTAAGGAAAAGCTTTTTCAAAAATGAGA
**
15106175 ATGATCTATAAGTTCTCAGGGA-ATGATCCCTAAAACC
66 ATGATCTATAAGACCTCA-GGATATGATCCCTAAAACC
* *
15106212 TTAAATTTGA-TTTTTTCTTAAGTTCCAAAGCCTT-TATTAAGGAAAAGCTTTTTCAAAGATGAG
1 TTAAATTTGATTTTTTTCCTAAGTTCCAAAG-CTTATATTAAGGAAAAGCTTTTTCAAAAATGAG
15106275 AATGATCTATAAGACCTCAGGATATGATCCCTAAAACC
65 AATGATCTATAAGACCTCAGGATATGATCCCTAAAACC
15106313 TT
1 TT
15106315 TGAGTACTTT
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
100 3 0.03
101 77 0.83
102 13 0.14
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.37
Consensus pattern (102 bp):
TTAAATTTGATTTTTTTCCTAAGTTCCAAAGCTTATATTAAGGAAAAGCTTTTTCAAAAATGAGA
ATGATCTATAAGACCTCAGGATATGATCCCTAAAACC
Found at i:15106661 original size:46 final size:44
Alignment explanation
Indices: 15106609--15106773 Score: 147
Period size: 44 Copynumber: 3.7 Consensus size: 44
15106599 TAAAAATTTT
* ** ** *
15106609 TGGGTATCATCTTTAAAATTTTTTAGTATCTTTTTGTGAAAACCTC
1 TGGGTATCATCTTTAAAACTTTCAAGTAT-AATTT-TGAAAACATC
15106655 TGGGTATCATCTTTAAAACTTTCAAGTATAATTTTGAAAACATC
1 TGGGTATCATCTTTAAAACTTTCAAGTATAATTTTGAAAACATC
* * * *
15106699 TGGGTATCAT-TTTAAAAACCTTCAGGTGTCATCTTT-AAAA-ATC
1 TGGGTATCATCTTT-AAAACTTTCAAGTATAAT-TTTGAAAACATC
* *
15106742 TTTAGGTATCATCTTTAAAACTTTTAAGTATA
1 --TGGGTATCATCTTTAAAACTTTCAAGTATA
15106774 TATATTTTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
43 6 0.06
44 37 0.38
45 26 0.27
46 29 0.30
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.42
Consensus pattern (44 bp):
TGGGTATCATCTTTAAAACTTTCAAGTATAATTTTGAAAACATC
Found at i:15106767 original size:22 final size:23
Alignment explanation
Indices: 15106589--15106772 Score: 110
Period size: 22 Copynumber: 8.2 Consensus size: 23
15106579 AAACTTTCGA
* * *
15106589 GTATTATCTTTAAAAATTTTTGG
1 GTATCATCTTTAAAAACTTTTAG
**
15106612 GTATCATCTTTAAAATTTTTTA-
1 GTATCATCTTTAAAAACTTTTAG
* * * * * *
15106634 GTATCTTTTTGTGAAAACCTCTGG
1 GTATCATCTT-TAAAAACTTTTAG
* *
15106658 GTATCATCTTT-AAAACTTTCAA
1 GTATCATCTTTAAAAACTTTTAG
* * * * *
15106680 GTATAAT-TTTGAAAACATCTGG
1 GTATCATCTTTAAAAACTTTTAG
* *
15106702 GTATCAT-TTTAAAAACCTTCAG
1 GTATCATCTTTAAAAACTTTTAG
*
15106724 GTGTCATCTTTAAAAA-TCTTTAG
1 GTATCATCTTTAAAAACT-TTTAG
*
15106747 GTATCATCTTT-AAAACTTTTAA
1 GTATCATCTTTAAAAACTTTTAG
15106769 GTAT
1 GTAT
15106773 ATATATTTTT
Statistics
Matches: 120, Mismatches: 35, Indels: 13
0.71 0.21 0.08
Matches are distributed among these distances:
21 3 0.03
22 60 0.50
23 49 0.41
24 8 0.07
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (23 bp):
GTATCATCTTTAAAAACTTTTAG
Found at i:15108110 original size:19 final size:18
Alignment explanation
Indices: 15108087--15108134 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
15108077 AAAAAAATCT
15108087 AAAAACTTAAAAGAATTTTG
1 AAAAA-TTAAAAG-ATTTTG
* *
15108107 AAAATTTGAAAGATTTTG
1 AAAAATTAAAAGATTTTG
15108125 AAAAATTAAA
1 AAAAATTAAA
15108135 TAATTTCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 14 0.58
19 6 0.25
20 4 0.17
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.31
Consensus pattern (18 bp):
AAAAATTAAAAGATTTTG
Found at i:15108430 original size:15 final size:17
Alignment explanation
Indices: 15108398--15108435 Score: 53
Period size: 15 Copynumber: 2.3 Consensus size: 17
15108388 TTTTAAGAAA
15108398 TTTTTATTTTTATTAATT
1 TTTTTATTTTTA-TAATT
15108416 TTTTTA-TTTTA-AATT
1 TTTTTATTTTTATAATT
15108431 TTTTT
1 TTTTT
15108436 TATGAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
17 5 0.25
18 6 0.30
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTATTTTTATAATT
Found at i:15108502 original size:18 final size:18
Alignment explanation
Indices: 15108481--15108550 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
15108471 TTCTTTATTT
15108481 TTTTATTTTTTAAAAATA
1 TTTTATTTTTTAAAAATA
* * ** *
15108499 TTTTA-GTTTTGAATTTT
1 TTTTATTTTTTAAAAATA
15108516 TTATTATTTTTT-AAAATA
1 TT-TTATTTTTTAAAAATA
*
15108534 TTTCATATTTTTAAAAA
1 TTTTAT-TTTTTAAAAA
15108551 AATATTAAGA
Statistics
Matches: 38, Mismatches: 10, Indels: 7
0.69 0.18 0.13
Matches are distributed among these distances:
17 12 0.32
18 18 0.47
19 8 0.21
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTATTTTTTAAAAATA
Found at i:15111127 original size:6 final size:6
Alignment explanation
Indices: 15111118--15111142 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15111108 TTGTGATTTT
15111118 ATTTAA ATTTAA ATTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA A
15111143 GATTGAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:15114850 original size:42 final size:42
Alignment explanation
Indices: 15114791--15114874 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
15114781 ATTTTACAAA
15114791 AGAATGTAAATATTTTGTGTTTGAATACAGTCAGGGTCCTTT
1 AGAATGTAAATATTTTGTGTTTGAATACAGTCAGGGTCCTTT
* *
15114833 AGAATGTAAATGTTTTGTGTTTGAATACAGTCAGTGTCCTTT
1 AGAATGTAAATATTTTGTGTTTGAATACAGTCAGGGTCCTTT
15114875 TTAACTTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (42 bp):
AGAATGTAAATATTTTGTGTTTGAATACAGTCAGGGTCCTTT
Found at i:15123730 original size:8 final size:7
Alignment explanation
Indices: 15123685--15123746 Score: 52
Period size: 8 Copynumber: 8.3 Consensus size: 7
15123675 TATGAAATTA
15123685 TTTTATT
1 TTTTATT
15123692 TTGTTATT
1 TT-TTATT
15123700 TTTTACTT
1 TTTTA-TT
*
15123708 ATTTATT
1 TTTTATT
*
15123715 TCTATATT
1 T-TTTATT
15123723 TATTTATT
1 T-TTTATT
*
15123731 TTTTAAT
1 TTTTATT
*
15123738 TTTGATT
1 TTTTATT
15123745 TT
1 TT
15123747 ATTTGTTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
7 19 0.43
8 25 0.57
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (7 bp):
TTTTATT
Found at i:15125579 original size:129 final size:135
Alignment explanation
Indices: 15125407--15125664 Score: 334
Period size: 129 Copynumber: 2.0 Consensus size: 135
15125397 TGTGTATACA
*
15125407 TTTTTATCCATGTAAACATCTTTGTATGTATATTATTTCATTTGTTTAGG-ATAATCTTT-T-C-
1 TTTTTATCCATGTAAACATCTTTGTATGTAAATTATTTCATTTGTTT-GGTATAATCTTTGTACT
* *
15125468 CTTTTTTAGTTTT-CTACAT-AGTTTTGAATATGAATGCTT-GTTTTTACTATGTATTGCATATA
65 CTTTTTTAGTTTTGATACATAAGTTTTGAATATGAATGCTTAGTTTTTACTATGTATTGAATATA
15125530 TACATT
130 TACATT
* * * *
15125536 TTTTTATCCATGTAAATATTTTTGTATGTAAATTA-TTCTATTTGTTTGGTGTAATTTTTGTACT
1 TTTTTATCCATGTAAACATCTTTGTATGTAAATTATTTC-ATTTGTTTGGTATAATCTTTGTACT
* * * * *
15125600 TTTTTTTAGTTTTGATACATAAGTTTTGAATATGAATTCTTATTTTTTATTATGTTTTGAATATA
65 CTTTTTTAGTTTTGATACATAAGTTTTGAATATGAATGCTTAGTTTTTACTATGTATTGAATATA
15125665 GGTATTTGCA
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
128 5 0.05
129 47 0.43
130 1 0.01
131 1 0.01
132 12 0.11
133 5 0.05
134 19 0.17
135 19 0.17
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.56
Consensus pattern (135 bp):
TTTTTATCCATGTAAACATCTTTGTATGTAAATTATTTCATTTGTTTGGTATAATCTTTGTACTC
TTTTTTAGTTTTGATACATAAGTTTTGAATATGAATGCTTAGTTTTTACTATGTATTGAATATAT
ACATT
Found at i:15127988 original size:50 final size:53
Alignment explanation
Indices: 15127929--15128035 Score: 132
Period size: 50 Copynumber: 2.1 Consensus size: 53
15127919 ATATTTGCAT
* * *
15127929 TTGCATAATTGTTTGGATC-TTGGATTCGCATCATTTGG-G-GAATTTATA-AA
1 TTGCATAATTGTTTGGACCATT-CATTCGCATCATTTGGTGAGAATTTAAATAA
* *
15127979 TTGCATAATTTTTTGGACCATTCATTTGCATCATTTGGTGAGAATTTAAATAA
1 TTGCATAATTGTTTGGACCATTCATTCGCATCATTTGGTGAGAATTTAAATAA
15128032 TTGC
1 TTGC
15128036 TTTTTATGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
50 31 0.65
51 3 0.06
52 8 0.17
53 6 0.12
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (53 bp):
TTGCATAATTGTTTGGACCATTCATTCGCATCATTTGGTGAGAATTTAAATAA
Found at i:15128079 original size:71 final size:70
Alignment explanation
Indices: 15127990--15128167 Score: 194
Period size: 70 Copynumber: 2.5 Consensus size: 70
15127980 TGCATAATTT
* * ** * * *
15127990 TTTGGACCATTCATTTGCATCATTTGGTGAGAATTTAAATAATTGCTTTTTATGTTGCATTTGTA
1 TTTGAACCATACATTTGCATCATTTGGTGAGAATTTAAATAATTG-TTTGAATATAGCATTTGCA
*
15128055 TCATTG
65 TCATAG
* * * * *
15128061 TTTGTACCATACACTTGCATCATTTGGTGAGTATCTAAATCATTGTTTGAATATAGCATTTGCAT
1 TTTGAACCATACATTTGCATCATTTGGTGAGAATTTAAATAATTGTTTGAATATAGCATTTGCAT
15128126 CATAG
66 CATAG
* * * *
15128131 TTAGAACTATGCATTTGCATCATTTGGTGAGCATTTA
1 TTTGAACCATACATTTGCATCATTTGGTGAGAATTTA
15128168 GATTTTTTAC
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
70 49 0.56
71 39 0.44
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.43
Consensus pattern (70 bp):
TTTGAACCATACATTTGCATCATTTGGTGAGAATTTAAATAATTGTTTGAATATAGCATTTGCAT
CATAG
Found at i:15128127 original size:25 final size:25
Alignment explanation
Indices: 15128099--15128154 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
15128089 GAGTATCTAA
*
15128099 ATCATTGTTTGAA-TATAGCATTTGC
1 ATCATTGTTAGAACTAT-GCATTTGC
*
15128124 ATCATAGTTAGAACTATGCATTTGC
1 ATCATTGTTAGAACTATGCATTTGC
15128149 ATCATT
1 ATCATT
15128155 TGGTGAGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 24 0.89
26 3 0.11
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (25 bp):
ATCATTGTTAGAACTATGCATTTGC
Found at i:15128478 original size:32 final size:32
Alignment explanation
Indices: 15128437--15128507 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
15128427 TTAAACCTAG
* * * *
15128437 ATTAACTGGCATATGATGAGATTTAAGTCT-AA
1 ATTAGCTGGCACATGATGAAATTTAA-ACTAAA
15128469 ATTAGCTGGCACATGATGAAATTTAAACTAAA
1 ATTAGCTGGCACATGATGAAATTTAAACTAAA
15128501 ATTAGCT
1 ATTAGCT
15128508 AGTACTAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 2 0.06
32 32 0.94
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.32
Consensus pattern (32 bp):
ATTAGCTGGCACATGATGAAATTTAAACTAAA
Found at i:15128886 original size:102 final size:106
Alignment explanation
Indices: 15128696--15128986 Score: 274
Period size: 102 Copynumber: 2.7 Consensus size: 106
15128686 CTTTTTAACG
* * * * * *
15128696 TTGA-TTTTTTCTCTAAGTT-TCAAAGCTTATGTTAAGGAGGAGTTTTTTCAAAAATGAGAATGA
1 TTGATTTTTTTCT-TAAGTTCT-AAAGCCTCTATTAAGGAAGAGCTTTTTCAAAGATGAGAATGA
** * *
15128759 TCTATAAGATATGAGGGAATGATCCCT-AA-A-ACC-TTAAAT
64 TCTATAAGACCTCAGGGAATAATCCCTAAATAGACCTTTAAAT
15128798 TTGATTTTTTTCTTAAGTTCTAAAGCCTCTATTAAGGAAGAGCTTTTTCAAAGATGAGAATGATC
1 TTGATTTTTTTCTTAAGTTCTAAAGCCTCTATTAAGGAAGAGCTTTTTCAAAGATGAGAATGATC
*
15128863 TATAAAACCTCA-GGATATAATCCCTAAAACCTTTGAGTACCTTTTTAAAT
66 TATAAGACCTCAGGGA-ATAATCCCT-AAA----T-AG-ACC--TTTAAAT
* * * * *
15128913 TTGATTTTTTTCTTATGTTCTAAAGCCTCTATTAAGGAAGACCTTTTT-AAAGATAAAAATGACC
1 TTGATTTTTTTCTTAAGTTCTAAAGCCTCTATTAAGGAAGAGCTTTTTCAAAGATGAGAATGATC
15128977 TATAAGACCT
66 TATAAGACCT
15128987 TAAGGCATGA
Statistics
Matches: 156, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
101 3 0.02
102 64 0.41
103 9 0.06
104 2 0.01
110 1 0.01
112 3 0.02
114 22 0.14
115 52 0.33
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (106 bp):
TTGATTTTTTTCTTAAGTTCTAAAGCCTCTATTAAGGAAGAGCTTTTTCAAAGATGAGAATGATC
TATAAGACCTCAGGGAATAATCCCTAAATAGACCTTTAAAT
Found at i:15129190 original size:23 final size:23
Alignment explanation
Indices: 15129161--15129411 Score: 125
Period size: 22 Copynumber: 11.2 Consensus size: 23
15129151 AATATTTTCC
*
15129161 AAAACTTTCAAGTATCATCTTTA
1 AAAACTTTCGAGTATCATCTTTA
* * *
15129184 AAAACTTTTGGGTAACATCTTT-
1 AAAACTTTCGAGTATCATCTTTA
* * * *
15129206 AAAACTTTTGAGAAT-TTTTTTA
1 AAAACTTTCGAGTATCATCTTTA
15129228 TGAAAACCTCTT-G-GTATCATCTTT-
1 --AAAA-CT-TTCGAGTATCATCTTTA
* *
15129252 AAAACTTTCAAGTATCAT-TTTG
1 AAAACTTTCGAGTATCATCTTTA
*
15129274 AAAACATTTGGA-TATCATC-TTA
1 AAAAC-TTTCGAGTATCATCTTTA
* * *
15129296 AAAAC-CTCTAGGTATTATCTTTA
1 AAAACTTTCGA-GTATCATCTTTA
* *
15129319 AAAACATTTAG-GTATCAT-TTTT
1 AAAAC-TTTCGAGTATCATCTTTA
* * *
15129341 AAAACTTTTGAGTAT--TTTTTG
1 AAAACTTTCGAGTATCATCTTTA
* *
15129362 AAAACTTTGGGGTATCATCTTT-
1 AAAACTTTCGAGTATCATCTTTA
* * *
15129384 AGAACTTTCGAGTATCATTTTTC
1 AAAACTTTCGAGTATCATCTTTA
15129407 AAAAC
1 AAAAC
15129412 CTTTAGGTAT
Statistics
Matches: 172, Mismatches: 35, Indels: 42
0.69 0.14 0.17
Matches are distributed among these distances:
20 5 0.03
21 29 0.17
22 77 0.45
23 44 0.26
24 7 0.04
25 8 0.05
26 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.42
Consensus pattern (23 bp):
AAAACTTTCGAGTATCATCTTTA
Found at i:15129376 original size:21 final size:20
Alignment explanation
Indices: 15129336--15129376 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
15129326 TTAGGTATCA
*
15129336 TTTTTAAAACTTTTGAGTAT
1 TTTTTAAAACTTTGGAGTAT
*
15129356 TTTTTGAAAACTTTGGGGTAT
1 TTTTT-AAAACTTTGGAGTAT
15129377 CATCTTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.51
Consensus pattern (20 bp):
TTTTTAAAACTTTGGAGTAT
Found at i:15129376 original size:66 final size:64
Alignment explanation
Indices: 15129172--15129411 Score: 207
Period size: 66 Copynumber: 3.6 Consensus size: 64
15129162 AAACTTTCAA
* * * *
15129172 GTATCATCTTTAAAAACTTTTGGGTAACATCTTTAAAACTTTTGAGAATTTTTTTATGAAAACCT
1 GTATCATCTTT-AAAAC-TTTAGGTATCATTTTTAAAACTTTTGAG-ATATTTTT-TGAAAACCT
15129237 CTTG
62 -TTG
* * * * * *
15129241 GTATCATCTTTAAAACTTTCAAGTATCATTTTGAAAACATTTG-GATATCATCTTAAAAACCTCT
1 GTATCATCTTTAAAACTTT-AGGTATCATTTTTAAAACTTTTGAGATAT-TTTTTGAAAACCT-T
*
15129305 AG
63 TG
*
15129307 GTATTATCTTTAAAAACATTTAGGTATCATTTTTAAAACTTTTGAG-TATTTTTTGAAAA-CTTT
1 GTATCATCTTT-AAAAC-TTTAGGTATCATTTTTAAAACTTTTGAGATATTTTTTGAAAACCTTT
15129370 GGG
64 --G
* *
15129373 GTATCATCTTTAGAACTTTCGAGTATCATTTTTCAAAAC
1 GTATCATCTTTAAAACTTTAG-GTATCATTTTT-AAAAC
15129412 CTTTAGGTAT
Statistics
Matches: 140, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
64 5 0.04
65 17 0.12
66 47 0.34
67 34 0.24
68 26 0.19
69 11 0.08
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (64 bp):
GTATCATCTTTAAAACTTTAGGTATCATTTTTAAAACTTTTGAGATATTTTTTGAAAACCTTTG
Found at i:15129417 original size:88 final size:88
Alignment explanation
Indices: 15129161--15129421 Score: 269
Period size: 88 Copynumber: 2.9 Consensus size: 88
15129151 AATATTTTCC
* * * *
15129161 AAAACTTTCAAGTATCATCTTTAAAAACTTTTGGGTAACATCTTTAAAACTTTTGAGAATT-TTT
1 AAAACTTTCAAGTATCAT-TTTGAAAAC-TTTGGGTATCATCTTTAAAACTTTCGAGTATTATTT
15129225 TTATGAAAACCTCTT-GGTATCATCTTT
64 TTA--AAAACCT-TTAGGTATCATCTTT
* * * * *
15129252 AAAACTTTCAAGTATCATTTTGAAAACATTTGGATATCATCTTAAAAAC-CTCTAGGTATTATCT
1 AAAACTTTCAAGTATCATTTTGAAAAC-TTTGGGTATCATCTTTAAAACTTTCGA-GTATTATTT
* *
15129316 TTAAAAACATTTAGGTATCATTTTT
64 TTAAAAACCTTTAGGTATCATCTTT
** * * *
15129341 AAAACTTTTGAGTAT-TTTTTGAAAACTTTGGGGTATCATCTTTAGAACTTTCGAGTATCATTTT
1 AAAACTTTCAAGTATCATTTTGAAAACTTT-GGGTATCATCTTTAAAACTTTCGAGTATTATTTT
*
15129405 TCAAAACCTTTAGGTAT
65 TAAAAACCTTTAGGTAT
15129422 TATTGTTATA
Statistics
Matches: 141, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
87 3 0.02
88 50 0.35
89 35 0.25
90 30 0.21
91 23 0.16
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (88 bp):
AAAACTTTCAAGTATCATTTTGAAAACTTTGGGTATCATCTTTAAAACTTTCGAGTATTATTTTT
AAAAACCTTTAGGTATCATCTTT
Found at i:15130400 original size:20 final size:19
Alignment explanation
Indices: 15130377--15130471 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 19
15130367 CGTTCAAAAC
15130377 AATTCTAAAAAAATTCTAAA
1 AATT-TAAAAAAATTCTAAA
15130397 AATTCTAAAAAAATTCTTTAAA
1 AATT-TAAAAAAATTC--TAAA
*
15130419 AATTTTGAAAAAA-TCTAAAA
1 AA-TTTAAAAAAATTCT-AAA
* * *
15130439 AATTTTAAAAGATTATAAA
1 AATTTAAAAAAATTCTAAA
15130458 AATATTAAAAAAAT
1 AAT-TTAAAAAAAT
15130472 ATTAAATATT
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
19 15 0.24
20 31 0.49
21 2 0.03
22 13 0.21
23 2 0.03
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (19 bp):
AATTTAAAAAAATTCTAAA
Found at i:15130406 original size:8 final size:9
Alignment explanation
Indices: 15130385--15130460 Score: 53
Period size: 10 Copynumber: 7.7 Consensus size: 9
15130375 ACAATTCTAA
15130385 AAAAATTCT
1 AAAAATTCT
15130394 AAAAATTCT
1 AAAAATTCT
15130403 AAAAAAATTCTTT
1 --AAAAATTC--T
*
15130416 AAAAATTTT
1 AAAAATTCT
*
15130425 GAAAAAATCT
1 -AAAAATTCT
*
15130435 AAAAAATTTT
1 -AAAAATTCT
*
15130445 AAAAGATTAT
1 AAAA-ATTCT
15130455 AAAAAT
1 AAAAAT
15130461 ATTAAAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
9 16 0.30
10 22 0.41
11 15 0.28
13 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAAATTCT
Found at i:15130420 original size:13 final size:11
Alignment explanation
Indices: 15130372--15130440 Score: 72
Period size: 11 Copynumber: 6.5 Consensus size: 11
15130362 TAAAACGTTC
*
15130372 AAAACAATTCT
1 AAAAAAATTCT
15130383 AAAAAAATTCT
1 AAAAAAATTCT
15130394 --AAAAATTCT
1 AAAAAAATTCT
15130403 AAAAAAATTCT
1 AAAAAAATTCT
** *
15130414 TTAAAAATTTT
1 AAAAAAATTCT
*
15130425 GAAAAAA-TCT
1 AAAAAAATTCT
15130435 AAAAAA
1 AAAAAA
15130441 TTTTAAAAGA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
9 9 0.19
10 7 0.15
11 32 0.67
ACGTcount: A:0.61, C:0.09, G:0.01, T:0.29
Consensus pattern (11 bp):
AAAAAAATTCT
Found at i:15130477 original size:20 final size:20
Alignment explanation
Indices: 15130382--15130489 Score: 69
Period size: 20 Copynumber: 5.3 Consensus size: 20
15130372 AAAACAATTC
15130382 TAAAAAAAT-TCTAAAAAT-T
1 TAAAAAAATAT-TAAAAATAT
* *
15130401 CTAAAAAAATTCTTTAAAAATTT
1 -TAAAAAAA-T-ATTAAAAATAT
* * * *
15130424 TGAAAAAATCTAAAAAATTT
1 TAAAAAAATATTAAAAATAT
* *
15130444 TAAAAGATTA-TAAAAATAT
1 TAAAAAAATATTAAAAATAT
*
15130463 TAAAAAAATATTAAATATTAT
1 TAAAAAAATATTAAA-AATAT
15130484 TAAAAA
1 TAAAAA
15130490 TTTTATAAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
19 15 0.21
20 27 0.39
21 12 0.17
22 14 0.20
23 2 0.03
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAAAAATATTAAAAATAT
Found at i:15130609 original size:25 final size:24
Alignment explanation
Indices: 15130581--15130655 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
15130571 ATTAAAATTT
15130581 CTTAATATTTAGAAAATAAAAAAAA
1 CTTAATATTT-GAAAATAAAAAAAA
* * * *
15130606 CTTAAAATCTGAAAATTAAAACAAT
1 CTTAATATTTGAAAA-TAAAAAAAA
* *
15130631 CTAATATATTTGAAAATATAAAAAA
1 CTTA-ATATTTGAAAATAAAAAAAA
15130656 TTTTAAACAT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
24 5 0.13
25 24 0.63
26 9 0.24
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (24 bp):
CTTAATATTTGAAAATAAAAAAAA
Found at i:15130710 original size:18 final size:19
Alignment explanation
Indices: 15130649--15130710 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 19
15130639 TTTGAAAATA
* *
15130649 TAAAAAATTTTAAACATTTT
1 TAAAAAAATCTAAA-ATTTT
* *
15130669 TTAAAAAATCTAAAAGTTT
1 TAAAAAAATCTAAAATTTT
* *
15130688 AAAAAAAAT-TGAAATTTT
1 TAAAAAAATCTAAAATTTT
15130706 TAAAA
1 TAAAA
15130711 GATTTTGAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
18 11 0.33
19 11 0.33
20 11 0.33
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (19 bp):
TAAAAAAATCTAAAATTTT
Found at i:15130728 original size:26 final size:26
Alignment explanation
Indices: 15130691--15130778 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
15130681 AAAGTTTAAA
*
15130691 AAAAATTGAAAT-TTTTAAAAGATTTTG
1 AAAAATT-AAATAATTTAAAA-ATTTTG
*
15130718 AAAAATTAAATAATTTCAAAATTTTG
1 AAAAATTAAATAATTTAAAAATTTTG
* * * *
15130744 AAACATTATAAAAAAATTAAAATTTTTTG
1 AAA-AAT-TAAATAATTTAAAA-ATTTTG
15130773 AAAAAT
1 AAAAAT
15130779 AAACAATAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
26 13 0.27
27 15 0.31
28 13 0.27
29 8 0.16
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.38
Consensus pattern (26 bp):
AAAAATTAAATAATTTAAAAATTTTG
Found at i:15130846 original size:29 final size:28
Alignment explanation
Indices: 15130705--15130858 Score: 87
Period size: 29 Copynumber: 5.3 Consensus size: 28
15130695 ATTGAAATTT
* * *
15130705 TTAAAAGATTTTGAAAAATT--AAATAAT
1 TTAAAA-ATTTTTAAAAATTAAAAAAAAA
* * * *
15130732 TTCAAAATTTTGAAACATTATAAAAAAA
1 TTAAAAATTTTTAAAAATTAAAAAAAAA
* *
15130760 TTAAAATTTTTTGAAAAATAAACAATAAAGAAA
1 TTAAAAATTTTT-AAAAAT-TA-AA-AAA-AAA
* * * **
15130793 TTAAAACTTTCATAAGAATCCAAAAAAAA
1 TTAAAAATTT-TTAAAAATTAAAAAAAAA
15130822 TTCAAAAATTTTTAAAAATTAAAAAAAAA
1 TT-AAAAATTTTTAAAAATTAAAAAAAAA
*
15130851 TAAAAAAT
1 TTAAAAAT
15130859 GAAAAAAATT
Statistics
Matches: 97, Mismatches: 21, Indels: 17
0.72 0.16 0.13
Matches are distributed among these distances:
26 12 0.12
27 5 0.05
28 20 0.21
29 25 0.26
30 11 0.11
31 3 0.03
32 3 0.03
33 17 0.18
34 1 0.01
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (28 bp):
TTAAAAATTTTTAAAAATTAAAAAAAAA
Found at i:15131074 original size:19 final size:19
Alignment explanation
Indices: 15131052--15131129 Score: 63
Period size: 19 Copynumber: 4.2 Consensus size: 19
15131042 TTTTTTAAGT
15131052 TTTTTATTTTTTAAAAATA
1 TTTTTATTTTTTAAAAATA
* * * * *
15131071 -TTTTAGTTCTGAAAATTT
1 TTTTTATTTTTTAAAAATA
15131089 TTTATTATTTTTT-AAAATA
1 TTT-TTATTTTTTAAAAATA
*
15131108 TTTTAGATTTTTTAAAAA-A
1 TTTT-TATTTTTTAAAAATA
15131127 TTT
1 TTT
15131130 AAGAATTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
18 14 0.32
19 20 0.45
20 10 0.23
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTTATTTTTTAAAAATA
Found at i:15131137 original size:20 final size:19
Alignment explanation
Indices: 15131095--15131141 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
15131085 ATTTTTTATT
* *
15131095 ATTTTTTAAAATATTTTAG
1 ATTTTTTAAAAAATTTAAG
15131114 ATTTTTTAAAAAATTTAAG
1 ATTTTTTAAAAAATTTAAG
15131133 AATTTTTTA
1 -ATTTTTTA
15131142 GGATTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (19 bp):
ATTTTTTAAAAAATTTAAG
Found at i:15131149 original size:10 final size:10
Alignment explanation
Indices: 15131084--15131170 Score: 68
Period size: 10 Copynumber: 8.7 Consensus size: 10
15131074 TAGTTCTGAA
*
15131084 AATTTTTTAT
1 AATTTTTTAG
* *
15131094 TATTTTTTAA
1 AATTTTTTAG
*
15131104 AATATTTTAG
1 AATTTTTTAG
*
15131114 -ATTTTTTAA
1 AATTTTTTAG
** *
15131123 AAAATTTAAG
1 AATTTTTTAG
15131133 AATTTTTTAGG
1 AATTTTTTA-G
*
15131144 ATTTTTTTAG
1 AATTTTTTAG
*
15131154 AAATTTTTAG
1 AATTTTTTAG
15131164 AATTTTT
1 AATTTTT
15131171 AAAATTTTAA
Statistics
Matches: 57, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
9 7 0.12
10 41 0.72
11 9 0.16
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (10 bp):
AATTTTTTAG
Found at i:15131155 original size:21 final size:21
Alignment explanation
Indices: 15131131--15131170 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15131121 AAAAAATTTA
* *
15131131 AGAATTTTTTAGGATTTTTTT
1 AGAAATTTTTAGAATTTTTTT
15131152 AGAAATTTTTAGAATTTTT
1 AGAAATTTTTAGAATTTTT
15131171 AAAATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (21 bp):
AGAAATTTTTAGAATTTTTTT
Found at i:15132045 original size:2 final size:2
Alignment explanation
Indices: 15132040--15132084 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
15132030 CTCTCTCTCT
15132040 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
15132082 CA C
1 CA C
15132085 TCATAAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15133354 original size:22 final size:23
Alignment explanation
Indices: 15133302--15133356 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
15133292 CTAGGTATAT
* *
15133302 TTTCAAAATCTTTAGGTATCTTTT
1 TTTCAAAA-CTTTAGGTATATTTC
*
15133326 TTTCAAAACTTTTGG-ATATTTC
1 TTTCAAAACTTTAGGTATATTTC
15133348 TTTCAAAAC
1 TTTCAAAAC
15133357 CTCAAGGTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 14 0.50
23 6 0.21
24 8 0.29
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (23 bp):
TTTCAAAACTTTAGGTATATTTC
Found at i:15137542 original size:42 final size:42
Alignment explanation
Indices: 15137482--15137561 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
15137472 ATTTTACAAA
15137482 AGAATGTAAATGTATTGTGTTTGAATACAGTCAGGGTCCTTT
1 AGAATGTAAATGTATTGTGTTTGAATACAGTCAGGGTCCTTT
* * *
15137524 AGAATGTAGATGTTTTGTGTTTGAATACAGTCGGGGTC
1 AGAATGTAAATGTATTGTGTTTGAATACAGTCAGGGTC
15137562 TTTGTAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.38
Consensus pattern (42 bp):
AGAATGTAAATGTATTGTGTTTGAATACAGTCAGGGTCCTTT
Found at i:15140301 original size:2 final size:2
Alignment explanation
Indices: 15140294--15140324 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15140284 AGTTATCACT
*
15140294 TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15140325 CTATTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15142931 original size:131 final size:134
Alignment explanation
Indices: 15142791--15143131 Score: 381
Period size: 131 Copynumber: 2.5 Consensus size: 134
15142781 TATGTGTTGT
* * * *
15142791 ATATATGTATTTGTATATACATTTTTATCTATCTAAACACTTTTATATGTACATTATTTCATTTG
1 ATATATGTATTTGTATATACATTTTTATCCATGTAAACA-TTTTGTATGTAAATTATTTCATTTG
* *
15142856 TTTGGAGGTAATCTTTGCCTTTTTT-GTTTTGTACATA-TTT-T-TCAA-T-TTGTTTTTACTAT
65 TTTGG-GATAATCTTTGCCTTTTTTAG-TTTCTACATAGTTTATATCAATTATTGTTTTTACTAT
*
15142915 GCGTTAC
128 GCATTAC
* * * *
15142922 ATGTATGTATTTGCT-TATACATTATTATCCATGTAAACATCTTTGTCTGTATATTATTTCATTT
1 ATATATGTATTTG-TATATACATTTTTATCCATGTAAACAT-TTTGTATGTAAATTATTTCATTT
* *
15142986 GTTTGGGATAATTTTTGCCTTTTTTAGTTTCTACATAGTTTTGAATATGAATTATTGTTTTTACT
64 GTTTGGGATAATCTTTGCCTTTTTTAGTTTCTACATAG-TTT--ATATCAATTATTGTTTTTACT
* *
15143051 ATGTATTGC
126 ATGCATTAC
* *
15143060 ATACATGTATTTGTATATACATTTTTTTATCCATGTAAATATTTTGGTATGTAAATTATTTCATT
1 ATATATGTATTTGTATATACA--TTTTTATCCATGTAAACATTTT-GTATGTAAATTATTTCATT
15143125 TGTTTGG
63 TGTTTGG
15143132 TGCAATTTTT
Statistics
Matches: 175, Mismatches: 20, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
130 27 0.15
131 60 0.34
132 4 0.02
135 1 0.01
136 3 0.02
137 2 0.01
138 34 0.19
139 3 0.02
140 41 0.23
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (134 bp):
ATATATGTATTTGTATATACATTTTTATCCATGTAAACATTTTGTATGTAAATTATTTCATTTGT
TTGGGATAATCTTTGCCTTTTTTAGTTTCTACATAGTTTATATCAATTATTGTTTTTACTATGCA
TTAC
Found at i:15145623 original size:71 final size:70
Alignment explanation
Indices: 15145532--15145720 Score: 218
Period size: 71 Copynumber: 2.7 Consensus size: 70
15145522 AATTTATAAA
* * * * *
15145532 TTGTATAATTTTTTAGACCATACATTTGCATCATTTGGTGAGAATTTAAATCATTGTTTTTAATG
1 TTGTATCATTGTTTAAACCATACATTTGCATCATTTGGTGAGAATTTAAATCATTG-TTTGAATA
15145597 TTGCAT
65 TTGCAT
* * * *
15145603 TTGTATCATTGTTTATACCATACACTTGCATCATTTGGTGAGTATCTAAATCATTGTTTGAATAT
1 TTGTATCATTGTTTAAACCATACATTTGCATCATTTGGTGAGAATTTAAATCATTGTTTGAATAT
15145668 TGCAT
66 TGCAT
* * * * * *
15145673 TTGCATCACTG-TTACAACTATACATTTACATCATTCGGTGAGCATTTA
1 TTGTATCATTGTTTA-AACCATACATTTGCATCATTTGGTGAGAATTTA
15145721 GATTTTTTTT
Statistics
Matches: 100, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
69 3 0.03
70 47 0.47
71 50 0.50
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (70 bp):
TTGTATCATTGTTTAAACCATACATTTGCATCATTTGGTGAGAATTTAAATCATTGTTTGAATAT
TGCAT
Found at i:15145713 original size:70 final size:71
Alignment explanation
Indices: 15145543--15145714 Score: 213
Period size: 70 Copynumber: 2.4 Consensus size: 71
15145533 TGTATAATTT
* * * * *
15145543 TTTAGACCATACATTTGCATCATTTGGTGAGAATTTAAATCATTGTTTTTAATGTTGCATTTGTA
1 TTTAAACCATACATTTGCATCATTTGGTGAGAATCTAAATCATTGTTTTGAATATTGCATTTGCA
*
15145608 TCATTG
66 TCACTG
* * *
15145614 TTTATACCATACACTTGCATCATTTGGTGAGTATCTAAATCATTG-TTTGAATATTGCATTTGCA
1 TTTAAACCATACATTTGCATCATTTGGTGAGAATCTAAATCATTGTTTTGAATATTGCATTTGCA
15145678 TCACTG
66 TCACTG
* * *
15145684 -TTACAACTATACATTTACATCATTCGGTGAG
1 TTTA-AACCATACATTTGCATCATTTGGTGAG
15145715 CATTTAGATT
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
69 3 0.03
70 43 0.49
71 41 0.47
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (71 bp):
TTTAAACCATACATTTGCATCATTTGGTGAGAATCTAAATCATTGTTTTGAATATTGCATTTGCA
TCACTG
Found at i:15146443 original size:102 final size:101
Alignment explanation
Indices: 15146245--15146449 Score: 268
Period size: 101 Copynumber: 2.0 Consensus size: 101
15146235 AGTTACCTTT
* * * *
15146245 TTAAATTTGATTTTTTTCCTAAGTTTCAAAGCTTATGTTAAGGAAGAGTTTTTTTCAAATGAGAA
1 TTAAATTTGATTTTTTTCCTAAGTTCCAAAGCCTATATTAAGGAAGAGTCTTTTTCAAATGAGAA
** * *
15146310 TGATCTATAAGTTCTTAGGGAATGATCCCTAAGACC
66 TGATCTATAAGACCTCAGGGAATGATCCCTAAAACC
* * *
15146346 TTAAATTTGATTTTTTTCTTAAGTTCCAAAGCCTCTATTAAGGAGGAG-CTTTTTCAAATATGAG
1 TTAAATTTGATTTTTTTCCTAAGTTCCAAAGCCTATATTAAGGAAGAGTCTTTTTC-AA-ATGAG
**
15146410 AATGATCTATAAGACCTCAGGTTATGATCCCTAAAACC
64 AATGATCTATAAGACCTCAGGGAATGATCCCTAAAACC
15146448 TT
1 TT
15146450 TGAGTACTTT
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
100 6 0.07
101 44 0.49
102 39 0.44
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (101 bp):
TTAAATTTGATTTTTTTCCTAAGTTCCAAAGCCTATATTAAGGAAGAGTCTTTTTCAAATGAGAA
TGATCTATAAGACCTCAGGGAATGATCCCTAAAACC
Done.