Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 41 of 147
Found at i:8337547 original size:14 final size:13
Alignment explanation
Indices: 8337520--8337553 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
8337510 AGATTGAAAC
8337520 TATTCGAATTATTA
1 TATTC-AATTATTA
8337534 TATTCAATTCATTA
1 TATTCAATT-ATTA
8337548 TATTCA
1 TATTCA
8337554 TAGATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (13 bp):
TATTCAATTATTA
Found at i:8337676 original size:21 final size:19
Alignment explanation
Indices: 8337637--8337677 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8337627 AATTATTTTT
*
8337637 ATTATATAAAAAATTAAAA
1 ATTATATAAAAAATAAAAA
8337656 ATTATATAAAATTAATAAAAA
1 ATTATATAAAA--AATAAAAA
8337677 A
1 A
8337678 ATAATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTATATAAAAAATAAAAA
Found at i:8337695 original size:14 final size:15
Alignment explanation
Indices: 8337676--8337704 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8337666 ATTAATAAAA
8337676 AAATAATTT-AATTT
1 AAATAATTTCAATTT
8337690 AAATAATTTCAATTT
1 AAATAATTTCAATTT
8337705 TTTCATCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATAATTTCAATTT
Found at i:8338708 original size:20 final size:20
Alignment explanation
Indices: 8338667--8338708 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8338657 CTATCTAAAC
*
8338667 ATAATTTTAAAATAAATTTA
1 ATAATTTTAAAATAAATATA
8338687 ATAA-TTTAAAATATAATATA
1 ATAATTTTAAAATA-AATATA
8338707 AT
1 AT
8338709 GATACGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATTTTAAAATAAATATA
Found at i:8338731 original size:13 final size:13
Alignment explanation
Indices: 8338715--8338739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8338705 TAATGATACG
8338715 ATATAAATATAAA
1 ATATAAATATAAA
8338728 ATATAAATATAA
1 ATATAAATATAA
8338740 TAAATTTAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATAAATATAAA
Found at i:8338749 original size:22 final size:22
Alignment explanation
Indices: 8338717--8338772 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
8338707 ATGATACGAT
8338717 ATAAATATAAAATATAAATATA
1 ATAAATATAAAATATAAATATA
* *
8338739 ATAAATTTAAAATATTAATAATA
1 ATAAATATAAAATATAAAT-ATA
*
8338762 ACTATATATAA
1 A-TAAATATAA
8338773 GTTTAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 17 0.61
23 4 0.14
24 7 0.25
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAAATATAAAATATAAATATA
Found at i:8341821 original size:5 final size:5
Alignment explanation
Indices: 8341811--8341850 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
8341801 ACTTAATGTC
* *
8341811 TTTAA TTTAA TTTAA TTTAA TTTAA TTTGA TTTGA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
8341851 CCAAATTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:8342316 original size:16 final size:16
Alignment explanation
Indices: 8342295--8342327 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8342285 TAAATCTCCC
8342295 TTAATTAATTTAATTT
1 TTAATTAATTTAATTT
*
8342311 TTAATTAATTTGATTT
1 TTAATTAATTTAATTT
8342327 T
1 T
8342328 GCTTAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TTAATTAATTTAATTT
Found at i:8343010 original size:19 final size:19
Alignment explanation
Indices: 8342988--8343025 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
8342978 TAAAAGGAAA
8342988 TTTTTAAAAAAAATTCTAAT
1 TTTTTAAAAAAAA-TCTAAT
*
8343008 TTTTTTAAAAAAATCTAA
1 TTTTTAAAAAAAATCTAA
8343026 AATATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTTAAAAAAAATCTAAT
Found at i:8343134 original size:21 final size:20
Alignment explanation
Indices: 8343090--8343167 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 20
8343080 AAGGAAACTT
* *
8343090 AAAAAATTCAAAAAAATATC
1 AAAAATTTCAAAAAAATTTC
*
8343110 -AAAATTTTAATAAAAATTTC
1 AAAAATTTCAA-AAAAATTTC
*
8343130 AAAAAATTTCAAAAAAATTTG
1 -AAAAATTTCAAAAAAATTTC
*
8343151 AAACAATTTGAAAAAAA
1 AAA-AATTTCAAAAAAA
8343168 AATGAAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
19 8 0.17
20 11 0.23
21 20 0.42
22 9 0.19
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (20 bp):
AAAAATTTCAAAAAAATTTC
Found at i:8343149 original size:11 final size:11
Alignment explanation
Indices: 8343090--8343167 Score: 60
Period size: 10 Copynumber: 7.5 Consensus size: 11
8343080 AAGGAAACTT
8343090 AAAAAA-TTCA
1 AAAAAATTTCA
*
8343100 AAAAAATATC-
1 AAAAAATTTCA
*
8343110 --AAAATTTTA
1 AAAAAATTTCA
8343119 ATAAAAATTTC-
1 A-AAAAATTTCA
8343130 AAAAAATTTCA
1 AAAAAATTTCA
*
8343141 AAAAAATTT-G
1 AAAAAATTTCA
* *
8343151 AAACAATTTGA
1 AAAAAATTTCA
8343162 AAAAAA
1 AAAAAA
8343168 AATGAAAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
8 6 0.11
10 23 0.43
11 17 0.32
12 7 0.13
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (11 bp):
AAAAAATTTCA
Found at i:8343173 original size:21 final size:21
Alignment explanation
Indices: 8343134--8343174 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8343124 AATTTCAAAA
**
8343134 AATTTCAAAAAAATTTGAAAC
1 AATTTCAAAAAAAAATGAAAC
*
8343155 AATTTGAAAAAAAAATGAAA
1 AATTTCAAAAAAAAATGAAA
8343175 ATTTTAAGAA
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:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (21 bp):
AATTTCAAAAAAAAATGAAAC
Found at i:8343503 original size:9 final size:9
Alignment explanation
Indices: 8343489--8343529 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
8343479 TAATTTTTCA
8343489 AAAAATTTT
1 AAAAATTTT
8343498 AAAAATTTT
1 AAAAATTTT
*
8343507 AAAATTTTT
1 AAAAATTTT
8343516 CAAAAAATTTT
1 --AAAAATTTT
8343527 AAA
1 AAA
8343530 TTTTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 20 0.71
11 8 0.29
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (9 bp):
AAAAATTTT
Found at i:8343520 original size:19 final size:19
Alignment explanation
Indices: 8343489--8343533 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
8343479 TAATTTTTCA
*
8343489 AAAAATTTT-AAAAATTTT
1 AAAATTTTTAAAAAATTTT
8343507 AAAATTTTTCAAAAAATTTT
1 AAAATTTTT-AAAAAATTTT
8343527 -AAATTTT
1 AAAATTTT
8343534 ATTTTAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
19 7 0.29
20 9 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATTTTTAAAAAATTTT
Found at i:8343834 original size:10 final size:10
Alignment explanation
Indices: 8343821--8343907 Score: 79
Period size: 10 Copynumber: 8.7 Consensus size: 10
8343811 AATCATTAAA
8343821 AATTTTTTAG
1 AATTTTTTAG
8343831 AATTTTTTA-
1 AATTTTTTAG
* *
8343840 AAATCTTTAG
1 AATTTTTTAG
* *
8343850 AA-TTTTAAA
1 AATTTTTTAG
* * *
8343859 AAATTTTAAA
1 AATTTTTTAG
8343869 AATAGTTTTTAG
1 AAT--TTTTTAG
8343881 AATTTTTTAG
1 AATTTTTTAG
8343891 AATTTTTTAG
1 AATTTTTTAG
8343901 AATTTTT
1 AATTTTT
8343908 ATGAACTTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
9 13 0.20
10 44 0.68
12 8 0.12
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (10 bp):
AATTTTTTAG
Found at i:8343850 original size:19 final size:19
Alignment explanation
Indices: 8343819--8343924 Score: 86
Period size: 19 Copynumber: 5.3 Consensus size: 19
8343809 AAAATCATTA
8343819 AAAATTTTTTAGAATTTTTT
1 AAAA-TTTTTAGAATTTTTT
* **
8343839 AAAATCTTTAGAATTTTAA
1 AAAATTTTTAGAATTTTTT
* *
8343858 AAAATTTTAAAAATAGTTTTT
1 AAAATTTTTAGAAT--TTTTT
*
8343879 AGAATTTTTTAGAATTTTTT
1 A-AAATTTTTAGAATTTTTT
* *
8343899 AGAATTTTTATGAACTTTTT
1 AAAATTTTTA-GAATTTTTT
*
8343919 CAAATT
1 AAAATT
8343925 CATTTTTAAT
Statistics
Matches: 66, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
19 30 0.45
20 22 0.33
21 4 0.06
22 10 0.15
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.52
Consensus pattern (19 bp):
AAAATTTTTAGAATTTTTT
Found at i:8343917 original size:20 final size:20
Alignment explanation
Indices: 8343874--8343918 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
8343864 TTAAAAATAG
*
8343874 TTTTTAGAATTTTTTAGAAT
1 TTTTTAGAATTTTTTAGAAC
8343894 TTTTTAGAA-TTTTTATGAAC
1 TTTTTAGAATTTTTTA-GAAC
8343914 TTTTT
1 TTTTT
8343919 CAAATTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.62
Consensus pattern (20 bp):
TTTTTAGAATTTTTTAGAAC
Found at i:8343987 original size:20 final size:19
Alignment explanation
Indices: 8343962--8344001 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
8343952 ATTAAAAAAA
8343962 TTAGAAATTTAAAAATATTT
1 TTAGAAATTTAAAAA-ATTT
*
8343982 TTAGAATTTTAAAAAATTT
1 TTAGAAATTTAAAAAATTT
8344001 T
1 T
8344002 AGTATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
TTAGAAATTTAAAAAATTT
Found at i:8343995 original size:19 final size:20
Alignment explanation
Indices: 8343962--8344025 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 20
8343952 ATTAAAAAAA
*
8343962 TTAGAAATTTAAAAATATTT
1 TTAGAAATTTTAAAATATTT
*
8343982 TTAG-AATTTTAAAA-AATT
1 TTAGAAATTTTAAAATATTT
* *
8344000 TTAGTATTTTTAAAAGT-TTT
1 TTAGAAATTTTAAAA-TATTT
8344020 TTAGAA
1 TTAGAA
8344026 GTTATTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 7 0.19
19 18 0.50
20 11 0.31
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (20 bp):
TTAGAAATTTTAAAATATTT
Found at i:8344003 original size:18 final size:18
Alignment explanation
Indices: 8343953--8344019 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
8343943 ATTTTAAAAA
* *
8343953 TTAAAAAA-ATTAGAAAT
1 TTAAAAAATTTTAGAATT
8343970 TTAAAAATATTTTTAGAATT
1 TTAAAAA-A-TTTTAGAATT
*
8343990 TTAAAAAATTTTAGTATT
1 TTAAAAAATTTTAGAATT
* *
8344008 TTTAAAAGTTTT
1 TTAAAAAATTTT
8344020 TTAGAAGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
17 7 0.17
18 20 0.48
19 1 0.02
20 14 0.33
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (18 bp):
TTAAAAAATTTTAGAATT
Found at i:8344370 original size:2 final size:2
Alignment explanation
Indices: 8344363--8344391 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8344353 TAATATGAAT
8344363 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8344392 CCTTTATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8348608 original size:9 final size:9
Alignment explanation
Indices: 8348581--8348627 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
8348571 TTATCTCAAA
8348581 ATTTTATAT
1 ATTTTATAT
8348590 ATTTCATATAT
1 ATTT--TATAT
*
8348601 ATTTTATAA
1 ATTTTATAT
8348610 ATTTT-TAT
1 ATTTTATAT
*
8348618 ATTTTTTAT
1 ATTTTATAT
8348627 A
1 A
8348628 ATATAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 7 0.21
9 17 0.52
11 9 0.27
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTATAT
Found at i:8348727 original size:19 final size:19
Alignment explanation
Indices: 8348664--8348728 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
8348654 AGAAAATAGT
*
8348664 TTTTAAAAATT-AAAATTA
1 TTTTAAAAATTCAAAATTC
**
8348682 AGTTAAAAATTCAAAATTC
1 TTTTAAAAATTCAAAATTC
* *
8348701 TTTGAAAAATTCAATA-TC
1 TTTTAAAAATTCAAAATTC
8348719 ATTTTAAAAA
1 -TTTTAAAAA
8348729 CAAAAAAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
18 11 0.30
19 26 0.70
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.38
Consensus pattern (19 bp):
TTTTAAAAATTCAAAATTC
Found at i:8348943 original size:16 final size:15
Alignment explanation
Indices: 8348922--8348951 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8348912 ATATTTCAAA
8348922 TATAATTTATAAATAT
1 TATAATTTA-AAATAT
8348938 TATAATTTAAAATA
1 TATAATTTAAAATA
8348952 ATTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATTTAAAATAT
Found at i:8348960 original size:26 final size:29
Alignment explanation
Indices: 8348908--8348961 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 29
8348898 ATTAATTTTT
8348908 TTATATATTTCAAATATAATTTATAAATA
1 TTATATATTTCAAATATAATTTATAAATA
*
8348937 TTATA-ATTT-AAA-ATAATTTTTAAAT
1 TTATATATTTCAAATATAATTTATAAAT
8348962 TTTTATTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 12 0.50
27 3 0.12
28 4 0.17
29 5 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
TTATATATTTCAAATATAATTTATAAATA
Found at i:8349004 original size:17 final size:17
Alignment explanation
Indices: 8348977--8349025 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
8348967 TTATGATATG
8348977 ATTTATTAAT-AAAATAA
1 ATTT-TTAATAAAAATAA
8348994 TATTTTTAATACAAAATAA
1 -ATTTTTAATA-AAAATAA
8349013 A-TTTTAA-AAAAAT
1 ATTTTTAATAAAAAT
8349026 TAAAATTACG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.17
16 1 0.03
17 11 0.38
18 5 0.17
19 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTTTAATAAAAATAA
Found at i:8352860 original size:17 final size:17
Alignment explanation
Indices: 8352835--8352869 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8352825 GAGGTTTTTT
*
8352835 TTTTTTTTTTAAAAAAA
1 TTTTCTTTTTAAAAAAA
8352852 TTTTCTTTTTAAAAAAA
1 TTTTCTTTTTAAAAAAA
8352869 T
1 T
8352870 AAAGAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTCTTTTTAAAAAAA
Found at i:8353151 original size:29 final size:30
Alignment explanation
Indices: 8353122--8353203 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
8353112 ACATAAATTA
*
8353122 TAATTTAATTATATATAAATTA-ATTTTTAT
1 TAATTTAA-TATATATAAATAATATTTTTAT
* * *
8353152 TAAATTAAGATAT-TAACTAATATTTTTAT
1 TAATTTAATATATATAAATAATATTTTTAT
*
8353181 TAATATAATATATATAAA-AATAT
1 TAATTTAATATATATAAATAATAT
8353204 AAATTTAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
28 5 0.12
29 27 0.64
30 10 0.24
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
TAATTTAATATATATAAATAATATTTTTAT
Found at i:8354113 original size:17 final size:17
Alignment explanation
Indices: 8354091--8354123 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8354081 TAAATTTAAT
8354091 AAAAAA-TAAATAAAAAC
1 AAAAAATTAAA-AAAAAC
8354108 AAAAAATTAAAAAAAA
1 AAAAAATTAAAAAAAA
8354124 GCATTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAATTAAAAAAAAC
Found at i:8354264 original size:142 final size:143
Alignment explanation
Indices: 8354118--8354381 Score: 361
Period size: 143 Copynumber: 1.9 Consensus size: 143
8354108 AAAAAATTAA
* * * * * ** * **
8354118 AAAAAAGCATTAAAAAGGT-ATAGTTTTTAAGGAAGGGAGGGGTGCCATGTGGACACCCTTTCCT
1 AAAAAAGCATAAAAAAGATAAGAGTTATGAAGGAAGGGAAAGGTGCCATATGGACACCCTCCCCT
*
8354182 TCCT-CAGTCTCCACAAAATTAATATACAAGATAAATTTAAAAAATAAATAAATAAATTTAGTAA
66 TCCTCCAGTCTCCACAAAATTAATATACAAAATAAATTTAAAAAATAAATAAATAAATTTAGTAA
8354246 AAATTAAAAAAAC
131 AAATTAAAAAAAC
* *
8354259 AAAAAAGCATAAAAAAGATAAGAGTTATGGAGGAAGTGAAAGGTGCCATATGGACACCCTCCCCT
1 AAAAAAGCATAAAAAAGATAAGAGTTATGAAGGAAGGGAAAGGTGCCATATGGACACCCTCCCCT
* * * *
8354324 TCCTCCATTCTCTACAAAATTAATATATAAAATAAATTTTAAAAATAAATAAATAAAT
66 TCCTCCAGTCTCCACAAAATTAATATACAAAATAAATTTAAAAAATAAATAAATAAAT
8354382 AAATTTAATA
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
141 17 0.16
142 39 0.38
143 48 0.46
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (143 bp):
AAAAAAGCATAAAAAAGATAAGAGTTATGAAGGAAGGGAAAGGTGCCATATGGACACCCTCCCCT
TCCTCCAGTCTCCACAAAATTAATATACAAAATAAATTTAAAAAATAAATAAATAAATTTAGTAA
AAATTAAAAAAAC
Found at i:8354381 original size:25 final size:26
Alignment explanation
Indices: 8354339--8354387 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
8354329 CATTCTCTAC
* *
8354339 AAAATTAATATATAAAATAAATTTTA
1 AAAATAAATAAATAAAATAAATTTTA
8354365 AAAATAAATAAAT-AAATAAATTT
1 AAAATAAATAAATAAAATAAATTT
8354388 AATAAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
AAAATAAATAAATAAAATAAATTTTA
Found at i:8354391 original size:13 final size:13
Alignment explanation
Indices: 8354353--8354393 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
8354343 TTAATATATA
8354353 AAATAAATTTTAA-
1 AAATAAA-TTTAAT
*
8354366 AAATAAA-TAAAT
1 AAATAAATTTAAT
8354378 AAATAAATTTAAT
1 AAATAAATTTAAT
8354391 AAA
1 AAA
8354394 AAAGATAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 3 0.12
12 7 0.29
13 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATAAATTTAAT
Found at i:8354394 original size:26 final size:26
Alignment explanation
Indices: 8354339--8354394 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
8354329 CATTCTCTAC
* * *
8354339 AAAATTAATATATAAAATAAATTTTA
1 AAAATAAATAAATAAAATAAATTTAA
8354365 AAAATAAATAAAT-AAATAAATTTAA
1 AAAATAAATAAATAAAATAAATTTAA
8354390 TAAAA
1 -AAAA
8354395 AAGATAGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAATAAATAAATAAAATAAATTTAA
Found at i:8354432 original size:121 final size:124
Alignment explanation
Indices: 8354267--8354521 Score: 347
Period size: 121 Copynumber: 2.1 Consensus size: 124
8354257 ACAAAAAAGC
*
8354267 ATAAAAAAGATAAGAGTTATGGAGGAAGTGAAAGGTGCCATATGGACACCCTCCCCTTCCTCCAT
1 ATAAAAAAGATAAGAGTTATGGAGGAAGGGAAAGGTGCCATATGGACACCCTCCCCTTCCTCCAT
* * ** * *
8354332 TCTCTACAAAATTAATATATAA-AATAAA-TTTTAAAAATAAATAAAT-AAATAAATTTA
66 TCCCAACAAAATTAATATATAAGAA-AAAGTTAAAAAAAAAAACAAATAAAATAAATTTA
* * * * *
8354389 ATAAAAAAGAT-AGGGTTTTGGAGGAAGGGAAGGGTGCCATATGGACACTCTCTCCTTCCTCCAT
1 ATAAAAAAGATAAGAGTTATGGAGGAAGGGAAAGGTGCCATATGGACACCCTCCCCTTCCTCCAT
*
8354453 TCCCAACAAAATTAATATATAAGAAAAAGTTAAAAAAAAAAACAAATAAAAATAGATTTA
66 TCCCAACAAAATTAATATATAAGAAAAAGTTAAAAAAAAAAACAAAT-AAAATAAATTTA
8354513 ATAAAAAAG
1 ATAAAAAAG
8354522 CAAAAAATTA
Statistics
Matches: 116, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
121 70 0.60
122 27 0.23
124 19 0.16
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (124 bp):
ATAAAAAAGATAAGAGTTATGGAGGAAGGGAAAGGTGCCATATGGACACCCTCCCCTTCCTCCAT
TCCCAACAAAATTAATATATAAGAAAAAGTTAAAAAAAAAAACAAATAAAATAAATTTA
Found at i:8354555 original size:21 final size:19
Alignment explanation
Indices: 8354510--8354559 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
8354500 AAAAATAGAT
*
8354510 TTAATAAAAAAGCAAAAAA
1 TTAATAAAAAAACAAAAAA
8354529 TT-ATAAAAAGAACATAAAAA
1 TTAATAAAAA-AACA-AAAAA
8354549 TTAATAAAAAA
1 TTAATAAAAAA
8354560 TTAAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.26
19 5 0.19
20 8 0.30
21 7 0.26
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (19 bp):
TTAATAAAAAAACAAAAAA
Found at i:8357946 original size:11 final size:10
Alignment explanation
Indices: 8357919--8357945 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
8357909 ACATTTATTC
8357919 TTTTTTTCTT
1 TTTTTTTCTT
8357929 TTTTTTTCTT
1 TTTTTTTCTT
8357939 TTTTTTT
1 TTTTTTT
8357946 TGTTCAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:8360196 original size:18 final size:18
Alignment explanation
Indices: 8360173--8360208 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8360163 GCCTAAAGAT
*
8360173 GGTTTTTCTTTTTTGATA
1 GGTTTTTATTTTTTGATA
8360191 GGTTTTTATTTTTTGATA
1 GGTTTTTATTTTTTGATA
8360209 AAGTTTTAAT
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:0.03, G:0.17, T:0.67
Consensus pattern (18 bp):
GGTTTTTATTTTTTGATA
Found at i:8360216 original size:18 final size:18
Alignment explanation
Indices: 8360174--8360215 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8360164 CCTAAAGATG
* *
8360174 GTTTTTCTTTTTTGATAG
1 GTTTTTATTTTTTGATAA
8360192 GTTTTTATTTTTTGATAAA
1 GTTTTTATTTTTTGAT-AA
8360211 GTTTT
1 GTTTT
8360216 AATGATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.17, C:0.02, G:0.14, T:0.67
Consensus pattern (18 bp):
GTTTTTATTTTTTGATAA
Found at i:8362518 original size:21 final size:21
Alignment explanation
Indices: 8362460--8362532 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 21
8362450 ATAAATAAAT
8362460 AATAAAAACT-AGTAAAA-TAA
1 AATAAAAA-TAAGTAAAATTAA
*
8362480 AATGAATGAA-AA-TAAAA-TAA
1 AAT-AA-AAATAAGTAAAATTAA
8362500 AGATAAAAATAAGTAAAATTAA
1 A-ATAAAAATAAGTAAAATTAA
*
8362522 AATTAAAATAA
1 AATAAAAATAA
8362533 AAACAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
19 2 0.05
20 16 0.37
21 19 0.44
22 6 0.14
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.22
Consensus pattern (21 bp):
AATAAAAATAAGTAAAATTAA
Found at i:8363313 original size:3 final size:3
Alignment explanation
Indices: 8363307--8363508 Score: 213
Period size: 3 Copynumber: 68.0 Consensus size: 3
8363297 AAAACAAGAA
*
8363307 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT AGACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T
* * *
8363357 -GT AAT -AT AAT ATT ATAT AAT -AT AAT -AT AAT AAT -AT ACT -AT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
8363397 ACT -AT AGT AAT AAT AAT AGCA- AAT AAT AAT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT
* *
8363442 AAT AAAT GAT AAT AGT 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 AAT
8363488 AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
8363509 TGACTTTAAT
Statistics
Matches: 167, Mismatches: 18, Indels: 28
0.78 0.08 0.13
Matches are distributed among these distances:
2 12 0.07
3 146 0.87
4 7 0.04
5 2 0.01
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:8364657 original size:18 final size:18
Alignment explanation
Indices: 8364613--8364659 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
8364603 GGGTTTTCAG
*
8364613 TTTAAGCTTTTTTTTTTC
1 TTTATGCTTTTTTTTTTC
*
8364631 TTTCTTGCTTTTTTTCTTT-
1 TTT-ATGCTTTTTTT-TTTC
8364650 TTTATGCTTT
1 TTTATGCTTT
8364660 CTTTGGCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 9 0.38
19 12 0.50
20 3 0.12
ACGTcount: A:0.06, C:0.13, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTATGCTTTTTTTTTTC
Found at i:8369428 original size:17 final size:16
Alignment explanation
Indices: 8369405--8369490 Score: 68
Period size: 17 Copynumber: 5.2 Consensus size: 16
8369395 TTAAGTTACT
8369405 AAATAAAAATAAATAA
1 AAATAAAAATAAATAA
**
8369421 ATAATAAAAACCAAT-A
1 A-AATAAAAATAAATAA
*
8369437 AAAT-AAAATGAATGAAA
1 AAATAAAAATAAAT--AA
8369454 AAATAGAAAATAAAATAA
1 AAATA-AAAAT-AAATAA
* *
8369472 AGATAAAAATAAGTAA
1 AAATAAAAATAAATAA
8369488 AAA
1 AAA
8369491 AATAAAATAG
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
14 7 0.13
15 3 0.05
16 10 0.18
17 21 0.38
18 6 0.11
19 5 0.09
20 3 0.05
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (16 bp):
AAATAAAAATAAATAA
Found at i:8369463 original size:24 final size:24
Alignment explanation
Indices: 8369436--8369496 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
8369426 AAAAACCAAT
*
8369436 AAAATAAAATGAATGA-AAAAATAG
1 AAAATAAAAT-AAAGATAAAAATAG
8369460 AAAATAAAATAAAGATAAAAATAAG
1 AAAATAAAATAAAGATAAAAAT-AG
*
8369485 TAAA-AAAATAAA
1 AAAATAAAATAAA
8369497 ATAGTAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 4 0.12
24 24 0.73
25 5 0.15
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.16
Consensus pattern (24 bp):
AAAATAAAATAAAGATAAAAATAG
Found at i:8369927 original size:20 final size:20
Alignment explanation
Indices: 8369874--8369927 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
8369864 TTCAAAACCT
* *
8369874 CCCAGAATTTC-AATCCTAA
1 CCCAGAATTCCAAATCCAAA
* *
8369893 CCCTGGAAATCCAAATCCAAA
1 CCC-AGAATTCCAAATCCAAA
8369914 CCCAGAATTCCAAA
1 CCCAGAATTCCAAA
8369928 AAAAAAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 10 0.37
ACGTcount: A:0.41, C:0.33, G:0.07, T:0.19
Consensus pattern (20 bp):
CCCAGAATTCCAAATCCAAA
Found at i:8370291 original size:3 final size:3
Alignment explanation
Indices: 8370280--8370456 Score: 95
Period size: 3 Copynumber: 59.7 Consensus size: 3
8370270 AAAAATAAAG
*
8370280 ATA AT- ATA ATA ATA ATA ATA CTA ATA GACT- ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA
* * * *
8370325 TACA AT- ATA ATA TTTT ATA CT- ATA ATA ATA ATA ATA ATA ATA AT-
1 -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
8370369 ATA A-A ATA ATA GCAT- ATT ATA CT- ATA GTT ATA ATA ATA GCA-A ATA
1 ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA
* * * *
8370414 ATA ATA CTA ATA ATA A-A AAA ATG ATA ATA GTA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8370457 GAAAATCGAC
Statistics
Matches: 132, Mismatches: 24, Indels: 36
0.69 0.12 0.19
Matches are distributed among these distances:
2 16 0.12
3 107 0.81
4 5 0.04
5 4 0.03
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8370386 original size:48 final size:43
Alignment explanation
Indices: 8370310--8370406 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 43
8370300 CTAATAGACT
*
8370310 ATAATAATAATAATATACAATATAATATTTTATACTATAATAATA
1 ATAATAATAATAATATAAAATATAATA--TTATACTATAATAATA
* *
8370355 ATAATAATAATAATATAAAATAATAGCATATTATACTATAGTTATA
1 ATAATAATAATAATATAAAAT-ATA--ATATTATACTATAATAATA
8370401 ATAATA
1 ATAATA
8370407 GCAAATAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
45 20 0.43
46 23 0.50
48 3 0.07
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (43 bp):
ATAATAATAATAATATAAAATATAATATTATACTATAATAATA
Found at i:8374010 original size:21 final size:19
Alignment explanation
Indices: 8373980--8374018 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
8373970 CTTATCAAGC
8373980 TTTTTTATTTTAATATATAT
1 TTTTTTATTTTAAT-TATAT
8374000 TTTTATTATTTTAATTATA
1 TTTT-TTATTTTAATTATA
8374019 AATTATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTATTTTAATTATAT
Found at i:8389335 original size:23 final size:23
Alignment explanation
Indices: 8389277--8389336 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
8389267 GGTACATCAC
* *
8389277 ATATTAAGTTATTTAATTTTTTT
1 ATATTTAGTTTTTTAATTTTTTT
* * *
8389300 CTTTTTCA-CTTTTTAATTTTTTT
1 ATATTT-AGTTTTTTAATTTTTTT
8389323 ATATTTAGTTTTTT
1 ATATTTAGTTTTTT
8389337 TCGTTATATA
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
22 1 0.04
23 25 0.93
24 1 0.04
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (23 bp):
ATATTTAGTTTTTTAATTTTTTT
Found at i:8389760 original size:27 final size:28
Alignment explanation
Indices: 8389729--8389788 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
8389719 TTTAATATTA
*
8389729 TTGATTC-AATAT-TTGATAATTTTTTAT
1 TTGATTCAAATATATTGAT-ATTTTTCAT
8389756 TTGATTCAAATATATTGATATTTTTCAT
1 TTGATTCAAATATATTGATATTTTTCAT
8389784 TTGAT
1 TTGAT
8389789 AATATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 7 0.23
28 18 0.60
29 5 0.17
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (28 bp):
TTGATTCAAATATATTGATATTTTTCAT
Found at i:8390325 original size:24 final size:24
Alignment explanation
Indices: 8390293--8390344 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8390283 ATGTACTATA
* * *
8390293 TTAATAAAATGATTATTTGATATT
1 TTAAGAAAATAATTATTTGATACT
8390317 TTAAGAAAATAATTATTTGATACT
1 TTAAGAAAATAATTATTTGATACT
8390341 TTAA
1 TTAA
8390345 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (24 bp):
TTAAGAAAATAATTATTTGATACT
Found at i:8390700 original size:127 final size:130
Alignment explanation
Indices: 8390568--8390816 Score: 292
Period size: 130 Copynumber: 1.9 Consensus size: 130
8390558 ACCTTTCGAT
* * *
8390568 TTTTTTAAATTAAACAAATTTTAGAATAAAAA-ATAATTAAATAAAGACGAC-G-A-AACAAACA
1 TTTTTTAAATTAAACAAATTTTACAATAAAAATA-AATTAAATAAAGACGACAGAACAAAAAAAA
* * * *
8390629 AATTTTGACCGCGCACCA-AATGTTCTGCGAGTACGGTTTTAATTTATCTGATCTACAATAAGCT
65 AATTATGACCACGCA-CAGAATGTTCTGCGAGTACCGTTTTAATTTAACTGATCTACAATAAGCT
8390693 TA
129 TA
* ** * * * *
8390695 TTTTTTAAATTAGATGAATTTTTCAATAAAAATAAATTAATTAGATACGACAGAACAAAAAAAAA
1 TTTTTTAAATTAAACAAATTTTACAATAAAAATAAATTAAATAAAGACGACAGAACAAAAAAAAA
* * *
8390760 ATTATGACCACGCACAGAGTGTTTTGCTAGTACCGTTTTAATTTAACTGATCTACAA
66 ATTATGACCACGCACAGAATGTTCTGCGAGTACCGTTTTAATTTAACTGATCTACAA
8390817 CAGACTTAGT
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
127 41 0.41
128 2 0.02
129 3 0.03
130 54 0.54
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.33
Consensus pattern (130 bp):
TTTTTTAAATTAAACAAATTTTACAATAAAAATAAATTAAATAAAGACGACAGAACAAAAAAAAA
ATTATGACCACGCACAGAATGTTCTGCGAGTACCGTTTTAATTTAACTGATCTACAATAAGCTTA
Found at i:8396856 original size:115 final size:115
Alignment explanation
Indices: 8396706--8396938 Score: 319
Period size: 115 Copynumber: 2.0 Consensus size: 115
8396696 TTTTAGTCAC
* * *
8396706 TTAGTTTCTTTTAATACCATTTGAATGTAAGTCTCAAAATTTTGAAGCACTAATAAGCAGTGAAA
1 TTAGTCTCTTTTAATACCATTTGAATGTAAATCTCAAAATTTTGAAGCACTAATAAGCAATGAAA
* *
8396771 AAAGAAC-AAAAAGGAAATTAATATATTTTC-AGGTCAAATATATGCAAGGT
66 AAAGAACAAAAAAGG-AATTAACACATTTTCGA-GTCAAATATATGCAAGGT
* * * *
8396821 TTAGTCTCTTTTAA-CCTCATTTGAATGTAAATCTCAAAATTTTGAAGCATTAATGAGGAATGAA
1 TTAGTCTCTTTTAATAC-CATTTGAATGTAAATCTCAAAATTTTGAAGCACTAATAAGCAATGAA
*
8396885 AAGAGAACAAAAAAAGGAATTAACACATTTTCGAGTCAAATATATGCAAGGT
65 AAAAGAAC-AAAAAAGGAATTAACACATTTTCGAGTCAAATATATGCAAGGT
8396937 TT
1 TT
8396939 GAATCATCAA
Statistics
Matches: 104, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
114 1 0.01
115 62 0.60
116 33 0.32
117 8 0.08
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (115 bp):
TTAGTCTCTTTTAATACCATTTGAATGTAAATCTCAAAATTTTGAAGCACTAATAAGCAATGAAA
AAAGAACAAAAAAGGAATTAACACATTTTCGAGTCAAATATATGCAAGGT
Found at i:8399565 original size:22 final size:22
Alignment explanation
Indices: 8399540--8399596 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
8399530 TCTGTTTGTC
* * *
8399540 TTTTTTCTTTTTTATTTTTATT
1 TTTTTTATTTTTAATTTTAATT
*
8399562 TTTTTAATTTTTAATTTTAATT
1 TTTTTTATTTTTAATTTTAATT
8399584 TTTTTTAATTTTT
1 TTTTTT-ATTTTT
8399597 TTAATTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 23 0.79
23 6 0.21
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTTATTTTTAATTTTAATT
Found at i:8399628 original size:18 final size:19
Alignment explanation
Indices: 8399590--8399629 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
8399580 AATTTTTTTT
*
8399590 AATTTTTTTAATTAATTAA
1 AATTTTTTTAATTAATAAA
8399609 AATTTTTTTAATT-ATAAA
1 AATTTTTTTAATTAATAAA
8399627 AAT
1 AAT
8399630 ATAGACTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTTTTAATTAATAAA
Found at i:8415953 original size:64 final size:64
Alignment explanation
Indices: 8415814--8415990 Score: 161
Period size: 64 Copynumber: 2.8 Consensus size: 64
8415804 ATCAAAAACA
* * * *
8415814 CATTAAATAATCCTCTCAATAAACTTTTATAAGGGATTATTGAAAGTATTTTTAACTAAAAATG
1 CATTCAATAATCCTCTCAATAAACTTTTATAAGGGATTATTGAAAGCATGTTTAACCAAAAATG
* * * * *
8415878 CATTCAGTAATCCTCTCAATAAA-TTTTTTCAAGGGATTATTTAAGGCATGTTTAGCCAAAAACT
1 CATTCAATAATCCTCTCAATAAACTTTTAT-AAGGGATTATTGAAAGCATGTTTAACCAAAAA-T
8415942 -
64 G
* * * *
8415942 CTTTTAATAATCC-CTTC--TAAATTTTTATAAGAGATTATTG-AAG-ATGTTT
1 CATTCAATAATCCTC-TCAATAAACTTTTATAAGGGATTATTGAAAGCATGTTT
8415991 TTTTGTAAAA
Statistics
Matches: 93, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
60 6 0.06
61 2 0.02
62 14 0.15
63 11 0.12
64 59 0.63
65 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (64 bp):
CATTCAATAATCCTCTCAATAAACTTTTATAAGGGATTATTGAAAGCATGTTTAACCAAAAATG
Found at i:8416183 original size:65 final size:63
Alignment explanation
Indices: 8416101--8416334 Score: 200
Period size: 64 Copynumber: 3.7 Consensus size: 63
8416091 TTTTCAAAAG
* *
8416101 ATTATTGAAGGTG-TTTTTGGTCAAAAACGTCATCAATAATCTTCACAACAAAATTTTTTGTTTA
1 ATTATTGAAGG-GATTTTTGGTCAAAAACGTCTTCAATAATC--CACAACAAAATTTTTTGTATA
8416165 A
63 A
* * * * ** *
8416166 ATTATTGAAGGGATTTTTGGACAAAAACGCCTTTAATAATCCCCTCCAAAATTTTTTGTATGA
1 ATTATTGAAGGGATTTTTGGTCAAAAACGTCTTCAATAATCCACAACAAAATTTTTTGTATAA
* * ** * ** * *
8416229 ATTATTGAAAGGATTTTTTGTTGAAAACGTCTTCAATAATCCCTCTCCAAAATTTTTTGAATGA
1 ATTATTGAAGGGATTTTTGGTCAAAAACGTCTTCAATAAT-CCACAACAAAATTTTTTGTATAA
* * *** * *
8416293 ATTATTGAATGCATTTTTTACCAAAAATGTCTTTAATAATCC
1 ATTATTGAAGGGATTTTTGGTCAAAAACGTCTTCAATAATCC
8416335 CATTTAATTT
Statistics
Matches: 141, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
63 52 0.37
64 54 0.38
65 35 0.25
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (63 bp):
ATTATTGAAGGGATTTTTGGTCAAAAACGTCTTCAATAATCCACAACAAAATTTTTTGTATAA
Found at i:8416243 original size:63 final size:63
Alignment explanation
Indices: 8416149--8416335 Score: 223
Period size: 64 Copynumber: 2.9 Consensus size: 63
8416139 ATCTTCACAA
* * * *
8416149 CAAAATTTTTTGTTTAAATTATTGAAGGGATTTTTGGACAAAAACGCCTTTAATAATCCC-CTC
1 CAAAATTTTTTGTATGAATTATTGAAAGGATTTTT-GACAAAAACGTCTTTAATAATCCCTCTC
*** *
8416212 CAAAATTTTTTGTATGAATTATTGAAAGGATTTTTTGTTGAAAACGTCTTCAATAATCCCTCTC
1 CAAAATTTTTTGTATGAATTATTGAAAGGA-TTTTTGACAAAAACGTCTTTAATAATCCCTCTC
* * * * *
8416276 CAAAATTTTTTGAATGAATTATTGAATGCATTTTTTACCAAAAATGTCTTTAATAATCCC
1 CAAAATTTTTTGTATGAATTATTGAAAGGATTTTTGA-CAAAAACGTCTTTAATAATCCC
8416336 ATTTAATTTT
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
63 51 0.49
64 53 0.51
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (63 bp):
CAAAATTTTTTGTATGAATTATTGAAAGGATTTTTGACAAAAACGTCTTTAATAATCCCTCTC
Found at i:8416650 original size:64 final size:65
Alignment explanation
Indices: 8416567--8416706 Score: 147
Period size: 65 Copynumber: 2.2 Consensus size: 65
8416557 TAACCGTAAA
* * * * * *
8416567 TAAATAAT-CCATGCAAAAAAAATTTTGCATAGATTATTGAAGGTGTTTTTGACCGAAAACACCT
1 TAAATAATCCCTTTCAAAAATAATTTTGAATAGATTATTAAAGGTGTTTTTGACCAAAAACACCT
* ** * * ** *
8416631 TCAATAATCCCTTTCAAAAATTTTTTTGAATGGATTATTAAATGTGTTTTTGGTCAAAAACACTT
1 TAAATAATCCCTTTCAAAAATAATTTTGAATAGATTATTAAAGGTGTTTTTGACCAAAAACACCT
8416696 TAAATAATCCC
1 TAAATAATCCC
8416707 AGTCAATTTT
Statistics
Matches: 60, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
64 7 0.12
65 53 0.88
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (65 bp):
TAAATAATCCCTTTCAAAAATAATTTTGAATAGATTATTAAAGGTGTTTTTGACCAAAAACACCT
Found at i:8416904 original size:369 final size:369
Alignment explanation
Indices: 8416259--8416929 Score: 830
Period size: 369 Copynumber: 1.8 Consensus size: 369
8416249 TTGAAAACGT
* * * **
8416259 CTTCAATAATCCCTCTCCAAAATTTTTTGAATGAATTATTGAATGCATTTTTTACCAAAAATGTC
1 CTTCAATAATCCCTCTCAAAAATTTTTTGAATGAATTATTAAATGCATTTTTGACCAAAAATCAC
* * * * * *
8416324 TTTAATAATCCCATTTAATTTTTTGTAAGCAAATATTTTTTTTTTGTTTTGAGCCTATACTGACG
66 TTTAATAATCCCAGTCAATTTTTTGTAAACAAATA-TGTTTTTTTGTTTTGAGCATATACTAACG
* * * *
8416389 GTTACATTAATAACCGTCAGTATATAACATATTTATACTGACGGATAGTCATATACCATCAAAAA
130 GTCACATTAATAACCGTCAATATATAACATATTTATACTGACGGATAATCATACACCATCAAAAA
* * * *
8416454 AAGTTTATTTATACCAATAGTTAAATAAAGTGTTGGTATAAATACGATATATTTTGACGGTATTA
195 AAGTTTATTTATACCAACAGTTAAATAAAGTGTTAGTATAAATACGATATATTCTGACGATATTA
** *
8416519 AAAAATTGTCAATAAAAGTCTCTTTTATTGACGGAATTTAACCGTAAATAAATAATCCATGCAAA
260 AAAAATCATCAATAAAAGTCTCTTTTATTGACGAAATTTAACCGTAAATAAATAATCCATGCAAA
8416584 AAAAATTTTGCATAGATTATTGAAGGTGTTTTTGACCGAAAACAC
325 AAAAATTTTGCATAGATTATTGAAGGTGTTTTTGACCGAAAACAC
* * ** **
8416629 CTTCAATAATCCCTTTCAAAAATTTTTTTGAATGGATTATTAAATGTGTTTTTGGTCAAAAA-CA
1 CTTCAATAATCCCTCTCAAAAA-TTTTTTGAATGAATTATTAAATGCATTTTTGACCAAAAATCA
* * *
8416693 CTTTAAATAATCCCAGTCAATTTTTTGTAAACCAATA-GTTTTTTTGTTTTGGGCATATACTAAT
65 CTTT-AATAATCCCAGTCAATTTTTTGTAAACAAATATGTTTTTTTGTTTTGAGCATATACTAAC
* * * * * * *
8416757 GGTCACGTTAATAACCTTTAATATATAATATATTTATACTGATGGATAATTATACATCATCAAAA
129 GGTCACATTAATAACCGTCAATATATAACATATTTATACTGACGGATAATCATACACCATCAAAA
* * * **
8416822 AAATTTTATTTATATCAACGGTTAAATAAAGTGTTAGTATAAGTATA-G-TATATTCTGATTATA
194 AAAGTTTATTTATACCAACAGTTAAATAAAGTGTTAGTATAA--ATACGATATATTCTGACGATA
* * * *
8416885 TT-AAAAATCCATTAATAAAAGTTTCTTTTCTTGACTAAATTTAAC
257 TTAAAAAAT-CATCAATAAAAGTCTCTTTTATTGACGAAATTTAAC
8416930 TGTTAATATA
Statistics
Matches: 249, Mismatches: 47, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
368 6 0.02
369 155 0.62
370 25 0.10
371 63 0.25
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (369 bp):
CTTCAATAATCCCTCTCAAAAATTTTTTGAATGAATTATTAAATGCATTTTTGACCAAAAATCAC
TTTAATAATCCCAGTCAATTTTTTGTAAACAAATATGTTTTTTTGTTTTGAGCATATACTAACGG
TCACATTAATAACCGTCAATATATAACATATTTATACTGACGGATAATCATACACCATCAAAAAA
AGTTTATTTATACCAACAGTTAAATAAAGTGTTAGTATAAATACGATATATTCTGACGATATTAA
AAAATCATCAATAAAAGTCTCTTTTATTGACGAAATTTAACCGTAAATAAATAATCCATGCAAAA
AAAATTTTGCATAGATTATTGAAGGTGTTTTTGACCGAAAACAC
Found at i:8419570 original size:161 final size:161
Alignment explanation
Indices: 8419266--8419576 Score: 376
Period size: 161 Copynumber: 1.9 Consensus size: 161
8419256 TTTAACACAT
* * * * * *
8419266 TTTGCCTATAATCAGATCGTGTTTATGGCAAAGCATCAATGTTTTTATTTTATCTCTTGAAATAT
1 TTTGCCTAAAATCAGATAGTGTTCATAGCAAAGCATCAATGTTTTCATTTCATCTCTTGAAATAT
* ** *
8419331 TGATGCTCTAACATGAACAACAATCAGTTTGTAGGAAAATTTCGGTGTGAGATAACTAGCTTTTA
66 TGATGCTCTAACATGAACAACAATCAGTTTGAAGGAAAATTTAAGTATGAGATAACTAGCTTTTA
* *
8419396 TGATTGTTAGAGGGCAGAGGAGGTAACAAAA
131 TGATTGCTAGAGGGAAGAGGAGGTAACAAAA
* * * * *
8419427 TTTGCCTAAAATCAGATAGTGTTCGTAGCAAATCATCAATG-TTTCA-TTCATGTCTTGATATCT
1 TTTGCCTAAAATCAGATAGTGTTCATAGCAAAGCATCAATGTTTTCATTTCATCTCTTGAAATAT
** * * *
8419490 TGATGCTCTGCCATGAACAACAATCAGTTTGAAGGAAAATGTTAATTATCGAGTTAGCTAGCTTT
66 TGATGCTCTAACATGAACAACAATCAGTTTGAAGGAAAAT-TTAAGTAT-GAGATAACTAGCTTT
8419555 TATGGA-TGCTAGAGGGAAGAGG
129 TAT-GATTGCTAGAGGGAAGAGG
8419577 GGAAAACATT
Statistics
Matches: 125, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
159 50 0.40
160 8 0.06
161 65 0.52
162 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (161 bp):
TTTGCCTAAAATCAGATAGTGTTCATAGCAAAGCATCAATGTTTTCATTTCATCTCTTGAAATAT
TGATGCTCTAACATGAACAACAATCAGTTTGAAGGAAAATTTAAGTATGAGATAACTAGCTTTTA
TGATTGCTAGAGGGAAGAGGAGGTAACAAAA
Found at i:8420101 original size:9 final size:9
Alignment explanation
Indices: 8420087--8420118 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
8420077 TATATTATTT
8420087 TGTATTTTA
1 TGTATTTTA
8420096 TGTATTTTA
1 TGTATTTTA
8420105 TGTATTTTA
1 TGTATTTTA
8420114 T-TATT
1 TGTATT
8420119 ATGTATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (9 bp):
TGTATTTTA
Found at i:8420612 original size:25 final size:24
Alignment explanation
Indices: 8420556--8420612 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
8420546 GGTCTGGGAG
*
8420556 TGAGAAAAAATTTTTAGAAATTTT
1 TGAGAAAAAATTTTTAGAAATTTC
* * *
8420580 TGGCGAAAAATTTTTCTGGAAATTTC
1 T-GAGAAAAAATTTT-TAGAAATTTC
8420606 TGAGAAA
1 TGAGAAA
8420613 TTTCCAGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 1 0.04
25 16 0.62
26 9 0.35
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (24 bp):
TGAGAAAAAATTTTTAGAAATTTC
Found at i:8420666 original size:30 final size:30
Alignment explanation
Indices: 8420630--8420687 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
8420620 AATCCGACGA
*
8420630 AAATTCCGGCGAA-ATTTGAATTTTCCGGTG
1 AAATTCCGGCGAACA-TTGAAGTTTCCGGTG
8420660 AAATTCCGGCGAACATTGAAGTTTCCGG
1 AAATTCCGGCGAACATTGAAGTTTCCGG
8420688 CGAACTACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (30 bp):
AAATTCCGGCGAACATTGAAGTTTCCGGTG
Found at i:8421102 original size:5 final size:5
Alignment explanation
Indices: 8421092--8421121 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
8421082 CTCCAGGTTT
8421092 TTTTA TTTTA TTTTA TTTTA TTTTAA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTT
8421122 TTATTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:8421151 original size:13 final size:13
Alignment explanation
Indices: 8421103--8421161 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
8421093 TTTATTTTAT
8421103 TTTATTTTATTT-
1 TTTATTTTATTTG
*
8421115 TAATT-TTTTATTTC
1 T--TTATTTTATTTG
*
8421129 TTT-GTTTATTTG
1 TTTATTTTATTTG
8421141 TTTATTTTATTTG
1 TTTATTTTATTTG
8421154 TTTATTTT
1 TTTATTTT
8421162 TTATTTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 13 0.32
13 24 0.60
14 3 0.08
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (13 bp):
TTTATTTTATTTG
Found at i:8421170 original size:4 final size:4
Alignment explanation
Indices: 8421093--8421170 Score: 52
Period size: 4 Copynumber: 18.5 Consensus size: 4
8421083 TCCAGGTTTT
* * *
8421093 TTTA TTTTA TTTTA TTTTA TTTTAA TTT- TTTA TTTC TTTG TTTA TTTG
1 TTTA -TTTA -TTTA -TTTA -TTT-A TTTA TTTA TTTA TTTA TTTA TTTA
*
8421141 TTTA TTTTA TTTG TTTA TTT- TTTA TTTA TT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TT
8421171 AGATTAGGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
3 6 0.10
4 30 0.48
5 25 0.40
6 1 0.02
ACGTcount: A:0.17, C:0.01, G:0.04, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:8421452 original size:61 final size:59
Alignment explanation
Indices: 8421238--8421594 Score: 434
Period size: 61 Copynumber: 5.8 Consensus size: 59
8421228 ATAAAAATAA
* *
8421238 AAAATTTCTAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAG-AAAT
1 AAAATTTC-AAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAAT
* *
8421299 AAATTTTCAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAA-
1 AAAATTTCAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTT---TGAAAAT
8421362 ATAAATTTCCAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAT
1 A-AAATTT-CAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAT
*
8421424 CAAAATTTCAAAAAAAATATTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT
1 -AAAATTTCAAAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGA-AAAT
* *** *
8421485 AAATTTTC-AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAAT
1 AAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTG-AAAAT
* *
8421544 CAAAATTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTC
1 -AAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
8421595 CCTACAAAAA
Statistics
Matches: 263, Mismatches: 17, Indels: 32
0.84 0.05 0.10
Matches are distributed among these distances:
58 33 0.13
59 15 0.06
60 56 0.21
61 95 0.36
62 6 0.02
63 4 0.02
64 11 0.04
65 43 0.16
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.35
Consensus pattern (59 bp):
AAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAT
Found at i:8421558 original size:119 final size:122
Alignment explanation
Indices: 8421239--8421595 Score: 469
Period size: 119 Copynumber: 2.9 Consensus size: 122
8421229 TAAAAATAAA
* * * *
8421239 AAATTTCTAAAAAAA-TATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT-TCTT-AGAAAT-A
1 AAATTTCCAAAAAAAGGAT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTCT-TTGAAAAATCA
* *
8421300 AATTTTCAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
63 AAATTTCCAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG-AAAAT
* *
8421364 AAATTTCCAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTG-AAAATCAAA
1 AAATTTCC-AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAATCAAA
*
8421428 ATTTCAAAAAAAATATTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AG-AAAT
65 ATTTCCAAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAAT
* *
8421485 AAATTTTC-AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAATCAAAA
1 AAATTTCCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAATCAAAA
*
8421549 TTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCC
66 TTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
8421596 CTACAAAAAA
Statistics
Matches: 214, Mismatches: 11, Indels: 20
0.87 0.04 0.08
Matches are distributed among these distances:
119 74 0.35
120 23 0.11
121 11 0.05
123 2 0.01
125 39 0.18
126 62 0.29
127 3 0.01
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.35
Consensus pattern (122 bp):
AAATTTCCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAATCAAAA
TTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAAT
Found at i:8425431 original size:8 final size:8
Alignment explanation
Indices: 8425411--8425470 Score: 61
Period size: 8 Copynumber: 7.6 Consensus size: 8
8425401 ACAATGGATG
8425411 AAAAATGA
1 AAAAATGA
*
8425419 GAAAA-GA
1 AAAAATGA
*
8425426 AAAAA-AA
1 AAAAATGA
*
8425433 AAAAAGGGA
1 AAAAA-TGA
8425442 AAAAATGA
1 AAAAATGA
*
8425450 GAAAATGA
1 AAAAATGA
8425458 AAAAATGA
1 AAAAATGA
8425466 AAAAA
1 AAAAA
8425471 GAGATCCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
7 12 0.28
8 25 0.58
9 6 0.14
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (8 bp):
AAAAATGA
Found at i:8425449 original size:31 final size:33
Alignment explanation
Indices: 8425411--8425471 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
8425401 ACAATGGATG
8425411 AAAAATGAGAAAA-GAAAAAA-AAAAAAAGGGA
1 AAAAATGAGAAAATGAAAAAATAAAAAAAGGGA
*
8425442 AAAAATGAGAAAATGAAAAAATGAAAAAAG
1 AAAAATGAGAAAATGAAAAAATAAAAAAAG
8425472 AGATCCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 13 0.48
32 7 0.26
33 7 0.26
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (33 bp):
AAAAATGAGAAAATGAAAAAATAAAAAAAGGGA
Found at i:8426987 original size:42 final size:42
Alignment explanation
Indices: 8426703--8427529 Score: 1094
Period size: 42 Copynumber: 20.0 Consensus size: 42
8426693 GTCTAGGAGT
*
8426703 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGA-GAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
8426744 ATTTACTTTTCC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
8426784 ATTTACTTTT-CAAAGTCGTAGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
8426825 ATTTACTTTTCC-AAGTTCGT--TACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
8426865 ATTTAC-TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
8426906 ATTTACTTTTCC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
8426946 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
8426988 ATTTACTTTT-CAAAGTTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG--TCGTGGTGCCTCTGTTTAGAGGAGCA
*
8427029 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * * *
8427071 ATTTATTTTTTCAAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTA-CTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
8427114 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
8427156 ATTTATTTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
*
8427198 ATTTA-TTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
*
8427239 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * * *
8427281 ATTTATTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
8427323 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTAAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
8427365 ATTTATTTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
*
8427407 ATTTA-TTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
* *
8427448 ATTTACTTTT-CAAAGTCGTGATACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
8427489 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
8427530 TTTGGTAAAA
Statistics
Matches: 728, Mismatches: 26, Indels: 63
0.89 0.03 0.08
Matches are distributed among these distances:
39 30 0.04
40 93 0.13
41 230 0.32
42 324 0.45
43 45 0.06
44 6 0.01
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (42 bp):
ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:8427057 original size:83 final size:82
Alignment explanation
Indices: 8426703--8427529 Score: 1140
Period size: 83 Copynumber: 10.0 Consensus size: 82
8426693 GTCTAGGAGT
* *
8426703 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGA-GAGCAATTTACTTTTCCAAGTTCGTTGC
1 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
8426767 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
* * * *
8426784 ATTTACTTTT-CAAAGTCGTAGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTAC
1 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
8426848 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
* *
8426865 ATTTA-CTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGC
1 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
8426929 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
*
8426946 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTTCGTTG
1 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TTCGTTG
8427011 CCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCA
* *
8427029 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAAG-TCGTG
1 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTA-CTTTTC-AAAGTTCGT-
* *
8427093 GTACCTCTGTTGAGAGGAGCA
63 -TGCCTCTGTTTAGAGGAGCA
* *
8427114 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTCCGTT
1 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTA-CTTTTCAAAGTT-CGTT
8427179 GCCTCTGTTTAGAGGAGCA
64 GCCTCTGTTTAGAGGAGCA
* *
8427198 ATTTATTTTT-CAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG-TCGT
1 ATTTATTTTTCCAAAG-T-CGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT
8427259 GGTGCCTCTGTTTAGAGGAGCA
63 --TGCCTCTGTTTAGAGGAGCA
* * *
8427281 ATTTATTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAG-TCGTGG
1 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT--
*
8427345 TGCCTCTGTTAAGAGGAGCA
63 TGCCTCTGTTTAGAGGAGCA
* * *
8427365 ATTTATTTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTCCGT
1 ATTTATTTTTCCAAAG-T-CGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT-CGT
8427428 TGCCTCTGTTTAGAGGAGCA
63 TGCCTCTGTTTAGAGGAGCA
* *
8427448 ATTTACTTTT-CAAAGTCGTGATACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAG-TCGTGG
1 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTTCGT--
8427511 TGCCTCTGTTTAGAGGAGC
63 TGCCTCTGTTTAGAGGAGC
8427530 TTTGGTAAAA
Statistics
Matches: 696, Mismatches: 23, Indels: 52
0.90 0.03 0.07
Matches are distributed among these distances:
80 30 0.04
81 140 0.20
82 93 0.13
83 196 0.28
84 147 0.21
85 84 0.12
86 6 0.01
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (82 bp):
ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
CTCTGTTTAGAGGAGCA
Found at i:8427576 original size:16 final size:16
Alignment explanation
Indices: 8427557--8427613 Score: 105
Period size: 16 Copynumber: 3.5 Consensus size: 16
8427547 AAAAGAGAGA
8427557 AAAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAC
8427573 AAAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAC
8427589 AAAAAAAACCAAAAAAC
1 AAAAAAAA-CAAAAAAC
8427606 AAAAAAAA
1 AAAAAAAA
8427614 AAACCAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
16 24 0.60
17 16 0.40
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAAC
Found at i:8427576 original size:17 final size:17
Alignment explanation
Indices: 8427537--8427614 Score: 104
Period size: 17 Copynumber: 4.5 Consensus size: 17
8427527 AGCTTTGGTA
* *
8427537 AAAAAAAAAAAAAAGAGAG
1 AAAAAAAAACAAAA-A-AC
8427556 AAAAAAAAACAAAAAAC
1 AAAAAAAAACAAAAAAC
8427573 -AAAAAAAACAAAAAAC
1 AAAAAAAAACAAAAAAC
*
8427589 AAAAAAAACCAAAAAAC
1 AAAAAAAAACAAAAAAC
8427606 AAAAAAAAA
1 AAAAAAAAA
8427615 AACCAAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
16 16 0.30
17 24 0.44
18 1 0.02
19 13 0.24
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAAAAAAC
Found at i:8427624 original size:1 final size:1
Alignment explanation
Indices: 8427536--8427616 Score: 72
Period size: 1 Copynumber: 81.0 Consensus size: 1
8427526 GAGCTTTGGT
* * * * * * * **
8427536 AAAAAAAAAAAAAAAGAGAGAAAAAAAAACAAAAAACAAAAAAAACAAAAAACAAAAAAAACCAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
8427601 AAAACAAAAAAAAAAA
1 AAAAAAAAAAAAAAAA
8427617 CCAAAAAATG
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.88, C:0.09, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:8427792 original size:9 final size:9
Alignment explanation
Indices: 8427778--8427809 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
8427768 CAATTTGTCC
8427778 TGTATTTTA
1 TGTATTTTA
8427787 TGTATTTTA
1 TGTATTTTA
8427796 TGTATTTTA
1 TGTATTTTA
8427805 T-TATT
1 TGTATT
8427810 ATGTATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (9 bp):
TGTATTTTA
Found at i:8428347 original size:31 final size:31
Alignment explanation
Indices: 8428312--8428375 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
8428302 ATTTCCATAA
8428312 TCCGGCGAAAATTCCGGCGAA-ATTTGAA-TTT
1 TCCGGCG-AAATTCCGGCGAACA-TTGAAGTTT
* *
8428343 TCCGGTGAAATTTCGGCGAACATTGAAGTTT
1 TCCGGCGAAATTCCGGCGAACATTGAAGTTT
8428374 TC
1 TC
8428376 GGTGAACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 17 0.59
31 12 0.41
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (31 bp):
TCCGGCGAAATTCCGGCGAACATTGAAGTTT
Found at i:8428360 original size:30 final size:30
Alignment explanation
Indices: 8428320--8428381 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
8428310 AATCCGGCGA
8428320 AAATTCCGGCGAA-ATTTGAA-TTTTCCGGTG
1 AAATTCCGGCGAACA-TTGAAGTTTT-CGGTG
*
8428350 AAATTTCGGCGAACATTGAAGTTTTCGGTG
1 AAATTCCGGCGAACATTGAAGTTTTCGGTG
8428380 AA
1 AA
8428382 CTACCCAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (30 bp):
AAATTCCGGCGAACATTGAAGTTTTCGGTG
Found at i:8428798 original size:8 final size:7
Alignment explanation
Indices: 8428778--8428855 Score: 61
Period size: 8 Copynumber: 10.6 Consensus size: 7
8428768 GCCGCTCCAG
8428778 ATTTTTT
1 ATTTTTT
8428785 -TTTTTT
1 ATTTTTT
*
8428791 ATTATTT
1 ATTTTTT
8428798 -TTTTTT
1 ATTTTTT
8428804 ATTTTTTT
1 A-TTTTTT
8428812 ATTTCTTT
1 ATTT-TTT
*
8428820 GTTTATTT
1 ATTT-TTT
*
8428828 GTTTATTTT
1 -ATT-TTTT
8428837 ATTTGTTT
1 ATTT-TTT
8428845 ATTTTTT
1 ATTTTTT
8428852 ATTT
1 ATTT
8428856 ATTAGATTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
6 11 0.19
7 16 0.28
8 25 0.43
9 5 0.09
10 1 0.02
ACGTcount: A:0.13, C:0.01, G:0.04, T:0.82
Consensus pattern (7 bp):
ATTTTTT
Found at i:8428800 original size:13 final size:12
Alignment explanation
Indices: 8428780--8428851 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 12
8428770 CGCTCCAGAT
8428780 TTTTTTTTTTTA
1 TTTTTTTTTTTA
8428792 TTATTTTTTTTTA
1 TT-TTTTTTTTTA
8428805 TTTTTTTATTTCT-
1 TTTTTTT-TTT-TA
8428818 TTGTTTATTTGTTTA
1 TT-TTT-TTT-TTTA
*
8428833 TTTTATTTGTTTA
1 TTTT-TTTTTTTA
8428846 TTTTTT
1 TTTTTT
8428852 ATTTATTAGA
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
12 9 0.18
13 25 0.49
14 10 0.20
15 7 0.14
ACGTcount: A:0.11, C:0.01, G:0.04, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTTTA
Found at i:8428858 original size:4 final size:4
Alignment explanation
Indices: 8428788--8428858 Score: 60
Period size: 4 Copynumber: 18.5 Consensus size: 4
8428778 ATTTTTTTTT
* * * *
8428788 TTTA -TTA TTT- TTT- TTTA TTTT TTTA TTTC TTTG TTTA TTTG TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
8428833 TTTTA TTTG TTTA TTT- TTTA TTTA TT
1 -TTTA TTTA TTTA TTTA TTTA TTTA TT
8428859 AGATTAGGTT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
3 12 0.22
4 38 0.70
5 4 0.07
ACGTcount: A:0.14, C:0.01, G:0.04, T:0.80
Consensus pattern (4 bp):
TTTA
Found at i:8428871 original size:33 final size:33
Alignment explanation
Indices: 8428801--8428871 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
8428791 ATTATTTTTT
* * * * *
8428801 TTTATTTTTTTATTTCTTTGTTTATTTGTTTAT
1 TTTATTTGTTTATTTCTTTATTTATTAGATTAG
8428834 TTTATTTGTTTATTT-TTTATTTATTAGATTAGG
1 TTTATTTGTTTATTTCTTTATTTATTAGATTA-G
8428867 TTTAT
1 TTTAT
8428872 GTAATATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.17, C:0.01, G:0.08, T:0.73
Consensus pattern (33 bp):
TTTATTTGTTTATTTCTTTATTTATTAGATTAG
Found at i:8428899 original size:20 final size:19
Alignment explanation
Indices: 8428778--8428858 Score: 85
Period size: 19 Copynumber: 4.2 Consensus size: 19
8428768 GCCGCTCCAG
*
8428778 ATTTTTTTTTTTTATTATTT
1 ATTTTTTATTTTT-TTATTT
8428798 -TTTTTTATTTTTTTATTT
1 ATTTTTTATTTTTTTATTT
* *
8428816 CTTTGTTTATTTGTTTATTTT
1 ATTT-TTTATTTTTTTA-TTT
8428837 ATTTGTTTA-TTTTTTATTT
1 ATTT-TTTATTTTTTTATTT
8428856 ATT
1 ATT
8428859 AGATTAGGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
18 6 0.11
19 20 0.37
20 17 0.31
21 11 0.20
ACGTcount: A:0.14, C:0.01, G:0.04, T:0.81
Consensus pattern (19 bp):
ATTTTTTATTTTTTTATTT
Found at i:8428904 original size:20 final size:20
Alignment explanation
Indices: 8428785--8428908 Score: 74
Period size: 20 Copynumber: 6.0 Consensus size: 20
8428775 CAGATTTTTT
*
8428785 TTTTTTATTATTTTTTTTTA
1 TTTTTTATTATTTTTATTTA
* *
8428805 TTTTTTTATT-TCTTTGTTTA
1 -TTTTTTATTATTTTTATTTA
*
8428825 TTTGTTTATT-TTATTTGTTTA
1 TTT-TTTATTATT-TTTATTTA
*
8428846 TTTTTTATTTATTAGATTAGGTTTA
1 TTTTTTA-TTATT--TTTA--TTTA
* ** *
8428871 TGTAATATTCTTTTTATTTA
1 TTTTTTATTATTTTTATTTA
8428891 TTTTTTATTA-TTTTATTT
1 TTTTTTATTATTTTTATTT
8428909 TCTTTAAATA
Statistics
Matches: 81, Mismatches: 15, Indels: 16
0.72 0.13 0.14
Matches are distributed among these distances:
19 11 0.14
20 29 0.36
21 22 0.27
22 5 0.06
23 2 0.02
24 4 0.05
25 8 0.10
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.75
Consensus pattern (20 bp):
TTTTTTATTATTTTTATTTA
Found at i:8429139 original size:61 final size:59
Alignment explanation
Indices: 8428926--8429281 Score: 434
Period size: 61 Copynumber: 5.8 Consensus size: 59
8428916 ATAAAAATAA
* *
8428926 AAAATTTCTAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTAG-AAAT
1 AAAATTTC-AAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAT
* *
8428986 AAATTTTCAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAA-
1 AAAATTTCAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTT---TGAAAAT
8429049 ATAAATTTCCAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAT
1 A-AAATTT-CAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAT
*
8429111 CAAAATTTCAAAAAAAATATTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT
1 -AAAATTTCAAAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGA-AAAT
* *** *
8429172 AAATTTTC-AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAAT
1 AAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTG-AAAAT
*
8429231 CAAAATTT-ACAAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTC
1 -AAAATTTCA-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
8429282 CCTACAAAAA
Statistics
Matches: 262, Mismatches: 17, Indels: 33
0.84 0.05 0.11
Matches are distributed among these distances:
58 34 0.13
59 49 0.19
60 27 0.10
61 88 0.34
62 6 0.02
63 4 0.02
64 11 0.04
65 43 0.16
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (59 bp):
AAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAT
Found at i:8429245 original size:119 final size:122
Alignment explanation
Indices: 8428927--8429282 Score: 462
Period size: 119 Copynumber: 2.9 Consensus size: 122
8428917 TAAAAATAAA
* * * *
8428927 AAATTTCTAAAAAAA-TATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTC-TT-AGAAAT--A
1 AAATTTCCAAAAAAAGGAT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAATCAA
*
8428987 AATTTTCAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
64 AATTTAC-AAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG-AAAAT
* *
8429051 AAATTTCCAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTG-AAAATCAAA
1 AAATTTCC-AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAATCAAA
8429115 ATTT-CAAAAAAAATATTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AG-AAAT
65 ATTTAC-AAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAAT
* *
8429172 AAATTTTC-AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAATCAAAA
1 AAATTTCCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAATCAAAA
*
8429236 TTTACAAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCC
66 TTTACAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
8429283 CTACAAAAAA
Statistics
Matches: 214, Mismatches: 9, Indels: 23
0.87 0.04 0.09
Matches are distributed among these distances:
119 74 0.35
120 22 0.10
121 12 0.06
123 2 0.01
124 32 0.15
125 19 0.09
126 47 0.22
127 6 0.03
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.35
Consensus pattern (122 bp):
AAATTTCCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAATCAAAA
TTTACAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAAT
Found at i:8431878 original size:18 final size:17
Alignment explanation
Indices: 8431843--8431890 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
8431833 CAACCTACCA
*
8431843 AAACCCTAAATTGGACCC
1 AAACCCTAAA-TGAACCC
8431861 AAACCCTAAATGCAACCC
1 AAACCCTAAATG-AACCC
*
8431879 ACAACTCTAAAT
1 A-AACCCTAAAT
8431891 TATCTAGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 2 0.08
18 15 0.58
19 9 0.35
ACGTcount: A:0.44, C:0.33, G:0.06, T:0.17
Consensus pattern (17 bp):
AAACCCTAAATGAACCC
Found at i:8437098 original size:17 final size:17
Alignment explanation
Indices: 8437052--8437100 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
8437042 CAATCCCACG
* *
8437052 TTTTTTATT-TTTCTGA
1 TTTTTTTTTCTTTTTGA
*
8437068 TTTTTTTTAC-TTTTGA
1 TTTTTTTTTCTTTTTGA
8437084 TTTTTTTTTCTTTTTGA
1 TTTTTTTTTCTTTTTGA
8437101 CTCTTAGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 21 0.78
17 6 0.22
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.78
Consensus pattern (17 bp):
TTTTTTTTTCTTTTTGA
Found at i:8437162 original size:24 final size:24
Alignment explanation
Indices: 8437120--8437199 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
8437110 TAAAAATAAT
*
8437120 AAAATCTAAAATTAAAAATCAAAATC
1 AAAAT-TAAAACT-AAAATCAAAATC
* ** *
8437146 AAAATTAAGACTAAAATTGAAACC
1 AAAATTAAAACTAAAATCAAAATC
* *
8437170 AAAATTAAAACTAAAAGCAAAATT
1 AAAATTAAAACTAAAATCAAAATC
8437194 AAAATT
1 AAAATT
8437200 TTCAGAGTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
24 33 0.77
25 5 0.12
26 5 0.12
ACGTcount: A:0.64, C:0.10, G:0.04, T:0.23
Consensus pattern (24 bp):
AAAATTAAAACTAAAATCAAAATC
Found at i:8437197 original size:6 final size:6
Alignment explanation
Indices: 8437119--8437199 Score: 54
Period size: 6 Copynumber: 13.2 Consensus size: 6
8437109 CTAAAAATAA
* * * * * *
8437119 TAAAAT CTAAAAT TAAAAAT CAAAAT CAAAAT TAAGAC TAAAAT TGAAAC
1 TAAAAT -TAAAAT T-AAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
* * * *
8437169 CAAAAT TAAAAC TAAAAG CAAAAT TAAAAT T
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT T
8437200 TTCAGAGTTT
Statistics
Matches: 56, Mismatches: 17, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
6 45 0.80
7 11 0.20
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.23
Consensus pattern (6 bp):
TAAAAT
Found at i:8448525 original size:12 final size:12
Alignment explanation
Indices: 8448510--8448563 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
8448500 AACCAAAATC
*
8448510 AAAATTAAGACT
1 AAAATTAAAACT
8448522 AAAATTAAAAC-
1 AAAATTAAAACT
*
8448533 AAGAATTAAAAGT
1 AA-AATTAAAACT
*
8448546 AAAATTAAAATT
1 AAAATTAAAACT
8448558 AAAATT
1 AAAATT
8448564 TTTTGGCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 2 0.05
12 33 0.89
13 2 0.05
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.26
Consensus pattern (12 bp):
AAAATTAAAACT
Found at i:8448530 original size:6 final size:6
Alignment explanation
Indices: 8448504--8448563 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
8448494 AGTAAAAACC
* * * * *
8448504 AAAATC AAAATT AAGACT AAAATT AAAA-C AAGAATT AAAAGT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AA-AATT AAAATT AAAATT
8448552 AAAATT AAAATT
1 AAAATT AAAATT
8448564 TTTTGGCTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
5 2 0.05
6 39 0.91
7 2 0.05
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (6 bp):
AAAATT
Found at i:8448531 original size:24 final size:24
Alignment explanation
Indices: 8448504--8448563 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
8448494 AGTAAAAACC
*
8448504 AAAATCAAAATTAAGACTAAAATT
1 AAAATCAAAATTAAAACTAAAATT
*
8448528 AAAA-CAAGAATTAAAAGTAAAATT
1 AAAATCAA-AATTAAAACTAAAATT
*
8448552 AAAATTAAAATT
1 AAAATCAAAATT
8448564 TTTTGGCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 26 0.84
25 2 0.06
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (24 bp):
AAAATCAAAATTAAAACTAAAATT
Found at i:8450354 original size:21 final size:22
Alignment explanation
Indices: 8450328--8450372 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
8450318 AAATCCACCT
*
8450328 AAAGAAA-AGGAAAAGAAAAAA
1 AAAGAAAGAAGAAAAGAAAAAA
*
8450349 AAAGAAAGAAGAAAAGGAAAAA
1 AAAGAAAGAAGAAAAGAAAAAA
8450371 AA
1 AA
8450373 CAAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAGAAAGAAGAAAAGAAAAAA
Found at i:8450365 original size:28 final size:30
Alignment explanation
Indices: 8450329--8450399 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
8450319 AATCCACCTA
*
8450329 AAGAAAAGGAAAAGA-AAAAAAAA-GAAAG
1 AAGAAAAGGAAAAAACAAAAAAAATGAAAG
8450357 AAGAAAAGGAAAAAAACAAAAAAAATGAAAG
1 AAGAAAAGG-AAAAAACAAAAAAAATGAAAG
*
8450388 AATAAAA-GAAAA
1 AAGAAAAGGAAAA
8450400 TAAGAGAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
28 9 0.24
29 9 0.24
30 9 0.24
31 11 0.29
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.03
Consensus pattern (30 bp):
AAGAAAAGGAAAAAACAAAAAAAATGAAAG
Found at i:8450369 original size:22 final size:21
Alignment explanation
Indices: 8450328--8450399 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
8450318 AAATCCACCT
*
8450328 AAAGAAAAGGAAAAGAAAAAA
1 AAAGAAAAAGAAAAGAAAAAA
*
8450349 AAAGAAAGAAGAAAAG-GAAAA
1 AAAGAAA-AAGAAAAGAAAAAA
* *
8450370 AAACAAAAA-AAATGAAAGAATA
1 AAAGAAAAAGAAAAGAAA-AA-A
8450392 AAAGAAAA
1 AAAGAAAA
8450400 TAAGAGAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 4 0.10
20 3 0.07
21 19 0.46
22 15 0.37
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAGAAAAGAAAAAA
Found at i:8451565 original size:5 final size:5
Alignment explanation
Indices: 8451555--8451583 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
8451545 GATGGTGTTA
8451555 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
8451584 ATATGTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:8452417 original size:23 final size:22
Alignment explanation
Indices: 8452391--8452437 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
8452381 TTAGCTAGTA
8452391 AAAAAAAAAAGAGAAAAGAAAAG
1 AAAAAAAAAAGAGAAAA-AAAAG
*
8452414 AAAAAAAAGAGAGAAAAAAAAG
1 AAAAAAAAAAGAGAAAAAAAAG
8452436 AA
1 AA
8452438 GGAAGTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAGAGAAAAAAAAG
Found at i:8452435 original size:13 final size:13
Alignment explanation
Indices: 8452391--8452436 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
8452381 TTAGCTAGTA
*
8452391 AAAAAAAAAAGAG
1 AAAAAAAAGAGAG
*
8452404 -AAAAGAA-A-AG
1 AAAAAAAAGAGAG
8452414 AAAAAAAAGAGAG
1 AAAAAAAAGAGAG
8452427 AAAAAAAAGA
1 AAAAAAAAGA
8452437 AGGAAGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 2 0.07
11 7 0.25
12 7 0.25
13 12 0.43
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAGAG
Found at i:8452601 original size:13 final size:13
Alignment explanation
Indices: 8452585--8452625 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
8452575 GTTTGGGAAA
*
8452585 AAAGAGAAAAAAT
1 AAAGAGAAAAAAG
8452598 AAAG-GAAAAAAG
1 AAAGAGAAAAAAG
8452610 AAA-AGAAAACAAG
1 AAAGAGAAAA-AAG
8452623 AAA
1 AAA
8452626 ATAGACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (13 bp):
AAAGAGAAAAAAG
Found at i:8452830 original size:33 final size:33
Alignment explanation
Indices: 8452793--8452886 Score: 102
Period size: 31 Copynumber: 2.9 Consensus size: 33
8452783 TGAAAAAAAA
* *
8452793 ATGAGGTTTAAGTTTAATTTAGCTAGCACCTAG
1 ATGAGATTTAAGTCTAATTTAGCTAGCACCTAG
* * *
8452826 ATGAGAATTAAGTCTAGTTTAGCTAGTA--TAG
1 ATGAGATTTAAGTCTAATTTAGCTAGCACCTAG
* * *
8452857 ATGAAATTTAAGCCCAATTTAGCTAGCACC
1 ATGAGATTTAAGTCTAATTTAGCTAGCACC
8452887 AATAAAAATT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
31 25 0.52
33 23 0.48
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (33 bp):
ATGAGATTTAAGTCTAATTTAGCTAGCACCTAG
Found at i:8452909 original size:31 final size:32
Alignment explanation
Indices: 8452810--8452909 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 32
8452800 TTAAGTTTAA
* *
8452810 TTTAGCTAGCACCTAGATGAGAATTAAGTCTAG
1 TTTAGCTAGCACC-AGATGAAAATTAAGTCCAG
* * * * *
8452843 TTTAGCTAGTA-TAGATGAAATTTAAGCCCAA
1 TTTAGCTAGCACCAGATGAAAATTAAGTCCAG
* *
8452874 TTTAGCTAGCACCA-ATAAAAATTAAGTCGAG
1 TTTAGCTAGCACCAGATGAAAATTAAGTCCAG
8452905 TTTAG
1 TTTAG
8452910 TTGGCACTTT
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
31 41 0.79
32 1 0.02
33 10 0.19
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (32 bp):
TTTAGCTAGCACCAGATGAAAATTAAGTCCAG
Found at i:8453198 original size:23 final size:23
Alignment explanation
Indices: 8453167--8453252 Score: 64
Period size: 23 Copynumber: 3.5 Consensus size: 23
8453157 CAAACTTAAT
*
8453167 TTAGCTGGCACTTTAAGCTCAAA
1 TTAGTTGGCACTTTAAGCTCAAA
* *
8453190 TTAGTTGGCATCCAAATTTTAAGTTCAAT
1 TTAGTTGGCA--C----TTTAAGCTCAAA
* * *
8453219 TTAATTGGCATTTTAAGCTCAGA
1 TTAGTTGGCACTTTAAGCTCAAA
8453242 TTAGTTGGCAC
1 TTAGTTGGCAC
8453253 CAACAAGATT
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
23 27 0.57
25 1 0.02
29 19 0.40
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (23 bp):
TTAGTTGGCACTTTAAGCTCAAA
Found at i:8453205 original size:52 final size:51
Alignment explanation
Indices: 8453115--8453255 Score: 160
Period size: 52 Copynumber: 2.7 Consensus size: 51
8453105 TAAGCTTAGA
* *
8453115 TTAGTTGGTACTTTAAGCAT-AGATTAGCTGGCACCCAAATTTCAAACTT-AAT
1 TTAGTTGGCACTTTAAGC-TCAGATTAGTTGGCA-CCAAATTT-AAACTTCAAT
* * * *
8453167 TTAGCTGGCACTTTAAGCTCAAATTAGTTGGCATCCAAATTTTAAGTTCAAT
1 TTAGTTGGCACTTTAAGCTCAGATTAGTTGGCA-CCAAATTTAAACTTCAAT
* *
8453219 TTAATTGGCATTTTAAGCTCAGATTAGTTGGCACCAA
1 TTAGTTGGCACTTTAAGCTCAGATTAGTTGGCACCAA
8453256 CAAGATTTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
51 9 0.12
52 67 0.88
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (51 bp):
TTAGTTGGCACTTTAAGCTCAGATTAGTTGGCACCAAATTTAAACTTCAAT
Found at i:8453993 original size:46 final size:46
Alignment explanation
Indices: 8453926--8454132 Score: 218
Period size: 46 Copynumber: 4.5 Consensus size: 46
8453916 GGGTAAAATA
** * * *
8453926 TTTTAAATTTATTTTTGAAAGTTGTTGAGCCATTACCTAAATGAGC
1 TTTTAAATTTATTTTCAAAAGTTGTTGAGCCTTTACTTAAAAGAGC
* * * * *
8453972 TTTTAAATTTGTTTTCAAAAGTTGTTGAGTCTTTTCTTAAAGGAAC
1 TTTTAAATTTATTTTCAAAAGTTGTTGAGCCTTTACTTAAAAGAGC
* * *
8454018 TTTTAAATTTATTTTCAAAAAGTCGTTGGGCTTTTACTTAAAAGAGC
1 TTTTAAATTTATTTTC-AAAAGTTGTTGAGCCTTTACTTAAAAGAGC
* * * * *
8454065 TTTCAAAGTTA-TTTCAAAAGTCGTCGAACCTTTACTTAAAAGAGC
1 TTTTAAATTTATTTTCAAAAGTTGTTGAGCCTTTACTTAAAAGAGC
* *
8454110 TTTTGAACTTATTTTCAAAAGTT
1 TTTTAAATTTATTTTCAAAAGTT
8454133 TGTCGAGCTT
Statistics
Matches: 132, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
45 34 0.26
46 66 0.50
47 32 0.24
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (46 bp):
TTTTAAATTTATTTTCAAAAGTTGTTGAGCCTTTACTTAAAAGAGC
Found at i:8469338 original size:34 final size:33
Alignment explanation
Indices: 8469291--8469358 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 33
8469281 CTATAGAATA
8469291 TTTCAACCAAACAAACACA-AATCATATGTACCC
1 TTTCAACCAAACAAACACATAATCA-ATGTACCC
*
8469324 TTTCAACACAAACAAACACATACTCAATGTACCC
1 TTTCAAC-CAAACAAACACATAATCAATGTACCC
8469358 T
1 T
8469359 CATTCATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 7 0.22
34 21 0.66
35 4 0.12
ACGTcount: A:0.44, C:0.31, G:0.03, T:0.22
Consensus pattern (33 bp):
TTTCAACCAAACAAACACATAATCAATGTACCC
Found at i:8470511 original size:52 final size:52
Alignment explanation
Indices: 8470440--8470543 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 52
8470430 TATAAGCATG
8470440 CAAACTTACCTATTAAGAATCT-TTTTCATCTTAGAATT-TTTCTTCTATAAGT
1 CAAACTTACCTATTAAGAATCTATTTTC-TCTTAGAATTCTTT-TTCTATAAGT
* * *
8470492 CAAACTTATCTTTTAAGAATCTATTTTCTCTTAGAATTCTTTTTTTATAAGT
1 CAAACTTACCTATTAAGAATCTATTTTCTCTTAGAATTCTTTTTCTATAAGT
8470544 TTTCTTGTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
52 39 0.83
53 8 0.17
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.49
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTATTTTCTCTTAGAATTCTTTTTCTATAAGT
Found at i:8471072 original size:23 final size:23
Alignment explanation
Indices: 8471046--8471106 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
8471036 GAAATTGTAG
* *
8471046 TATTCGGTTCATATTAATTTTTT
1 TATTCGATTCAGATTAATTTTTT
* *
8471069 TATTCGATTTAGATTGATTTTTTT
1 TATTCGATTCAGATT-AATTTTTT
* *
8471093 TATTTGATTTAGAT
1 TATTCGATTCAGAT
8471107 AAAATTCAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (23 bp):
TATTCGATTCAGATTAATTTTTT
Found at i:8475321 original size:39 final size:39
Alignment explanation
Indices: 8475258--8475441 Score: 131
Period size: 39 Copynumber: 4.7 Consensus size: 39
8475248 AAAACTTGTG
* * *
8475258 TGATATTTCA-GGACCAAAAAGAAAATCGGAAGATTCTTC
1 TGATATCTCACGG-CCAAAGAGAAAATCAGAAGATTCTTC
* * * * *
8475297 TGATATCTC-CAGGGCAAAGCGAAAATTAGAAGGTTCTTG
1 TGATATCTCAC-GGCCAAAGAGAAAATCAGAAGATTCTTC
* * * *
8475336 TGATATCTCACGGCCAAAGAGAAAATCTGAAAATTCCTG
1 TGATATCTCACGGCCAAAGAGAAAATCAGAAGATTCTTC
* * * * ** *
8475375 TAATATCTTAGGGCCAAAGAGACAATCAGAAGCCTCTTA
1 TGATATCTCACGGCCAAAGAGAAAATCAGAAGATTCTTC
* *
8475414 TGACATTTC-CGGGCCAAAGAGAAAATCA
1 TGATATCTCAC-GGCCAAAGAGAAAATCA
8475442 AAGGACTCCT
Statistics
Matches: 110, Mismatches: 31, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
39 107 0.97
40 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (39 bp):
TGATATCTCACGGCCAAAGAGAAAATCAGAAGATTCTTC
Found at i:8475381 original size:78 final size:78
Alignment explanation
Indices: 8475256--8475440 Score: 187
Period size: 78 Copynumber: 2.4 Consensus size: 78
8475246 AGAAAACTTG
* * * * *
8475256 TGTGATATTTCA-GGACCAAAAAGAAAATCGGAAGATTCTTCTGATATCTCCAGGG-CAAAGCGA
1 TGTGATATTTCACGG-CCAAAGAGAAAATCGGAAAATTCCTCTAATATCT-CAGGGCCAAAGAGA
* **
8475319 AAATTAGAAGGTTCT
64 AAATCAGAAGCCTCT
* * * * *
8475334 TGTGATATCTCACGGCCAAAGAGAAAATCTGAAAATTCCTGTAATATCTTAGGGCCAAAGAGACA
1 TGTGATATTTCACGGCCAAAGAGAAAATCGGAAAATTCCTCTAATATCTCAGGGCCAAAGAGAAA
8475399 ATCAGAAGCCTCT
66 ATCAGAAGCCTCT
* *
8475412 TATGACATTTC-CGGGCCAAAGAGAAAATC
1 TGTGATATTTCAC-GGCCAAAGAGAAAATC
8475441 AAAGGACTCC
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
77 5 0.06
78 81 0.92
79 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (78 bp):
TGTGATATTTCACGGCCAAAGAGAAAATCGGAAAATTCCTCTAATATCTCAGGGCCAAAGAGAAA
ATCAGAAGCCTCT
Found at i:8483141 original size:18 final size:18
Alignment explanation
Indices: 8483110--8483170 Score: 104
Period size: 18 Copynumber: 3.3 Consensus size: 18
8483100 AATGGTTTTT
*
8483110 GGGTTTGAGGGTTGATTTA
1 GGGTTTG-GGGTTGGTTTA
8483129 GGGTTTGGGGTTGGTTTA
1 GGGTTTGGGGTTGGTTTA
8483147 GGGTTTGGGGTTGGTTTA
1 GGGTTTGGGGTTGGTTTA
8483165 GGGTTT
1 GGGTTT
8483171 TAAAGCTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
18 34 0.83
19 7 0.17
ACGTcount: A:0.08, C:0.00, G:0.48, T:0.44
Consensus pattern (18 bp):
GGGTTTGGGGTTGGTTTA
Found at i:8483213 original size:26 final size:26
Alignment explanation
Indices: 8483184--8483234 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
8483174 AGCTTATTAT
*
8483184 TAGGATTTTGATTTAAGGTCTAGGGC
1 TAGGATTTAGATTTAAGGTCTAGGGC
* * *
8483210 TAGGGTTTAGGTTTAAGGTTTAGGG
1 TAGGATTTAGATTTAAGGTCTAGGG
8483235 TTTGATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.04, G:0.35, T:0.39
Consensus pattern (26 bp):
TAGGATTTAGATTTAAGGTCTAGGGC
Found at i:8483233 original size:20 final size:20
Alignment explanation
Indices: 8483210--8483333 Score: 83
Period size: 20 Copynumber: 6.0 Consensus size: 20
8483200 GGTCTAGGGC
8483210 TAGGGTTTAGGTTTAAGGTT
1 TAGGGTTTAGGTTTAAGGTT
*
8483230 TAGGGTTT-GATTTTAAGGTT
1 TAGGGTTTAG-GTTTAAGGTT
**
8483250 TAGGGTTT-GGTTTAACATT
1 TAGGGTTTAGGTTTAAGGTT
* * *
8483269 TAGGATTAAGGGTGGTTTAGGTT
1 TAGGGTTTA-GGT--TTAAGGTT
* * *
8483292 TAAGATTTGGGATTTAA-GTT
1 TAGGGTTTAGG-TTTAAGGTT
*
8483312 TAGGGTTTAGGGTTTATGGTT
1 TAGGGTTTA-GGTTTAAGGTT
8483333 T
1 T
8483334 GAATTTAAAA
Statistics
Matches: 79, Mismatches: 17, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
19 14 0.18
20 39 0.49
21 12 0.15
22 2 0.03
23 12 0.15
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (20 bp):
TAGGGTTTAGGTTTAAGGTT
Found at i:8483494 original size:50 final size:51
Alignment explanation
Indices: 8483403--8483510 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 51
8483393 TTGTATAAAA
* * *
8483403 ATGCATGTAACAAAATCAGCAAAAATGCCATTGATAAAAATGTAAACTTTT
1 ATGCATGTAACAAAATCAGCAAAAATGCCATTCATAAAAATGCAAACTTTG
* * * *
8483454 ATGCATGTAACAGAATTA-CTAAAATGCCATTCATAGAAATGCAAACTTTG
1 ATGCATGTAACAAAATCAGCAAAAATGCCATTCATAAAAATGCAAACTTTG
8483504 ATGCATG
1 ATGCATG
8483511 GGAGTAATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 34 0.68
51 16 0.32
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.28
Consensus pattern (51 bp):
ATGCATGTAACAAAATCAGCAAAAATGCCATTCATAAAAATGCAAACTTTG
Found at i:8485962 original size:21 final size:21
Alignment explanation
Indices: 8485938--8486077 Score: 79
Period size: 21 Copynumber: 6.6 Consensus size: 21
8485928 TTAATTTCGA
8485938 TAACCTTTGATAAAATTTTGG
1 TAACCTTTGATAAAATTTTGG
* * *
8485959 TAACC-TTGATACAATGTAGG
1 TAACCTTTGATAAAATTTTGG
* *
8485979 TAA-GTTATGATATAATTTTGG
1 TAACCTT-TGATAAAATTTTGG
* *
8486000 TAACCATTGATACAAA-TTTGA
1 TAACCTTTGATA-AAATTTTGG
** * *
8486021 TAATTTTTTATAAAATTTTGA
1 TAACCTTTGATAAAATTTTGG
* ** *
8486042 TAATCTCTTGATGTAATTTTAG
1 TAACCT-TTGATAAAATTTTGG
*
8486064 TAACATTTTGATAA
1 TAAC-CTTTGATAA
8486078 CTTCTGATAC
Statistics
Matches: 87, Mismatches: 25, Indels: 13
0.70 0.20 0.10
Matches are distributed among these distances:
20 19 0.22
21 46 0.53
22 21 0.24
23 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (21 bp):
TAACCTTTGATAAAATTTTGG
Found at i:8486038 original size:42 final size:41
Alignment explanation
Indices: 8485945--8486040 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
8485935 CGATAACCTT
*
8485945 TGATAAAATTTTGGTAACCTTGATACAATGTAGGTAAGTTA
1 TGATAAAATTTTGGTAACCTTGATACAATGTAGATAAGTTA
* * * *
8485986 TGATATAATTTTGGTAACCATTGATACAAAT-TTGATAATTTT
1 TGATAAAATTTTGGTAACC-TTGATAC-AATGTAGATAAGTTA
*
8486028 TTATAAAATTTTG
1 TGATAAAATTTTG
8486041 ATAATCTCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
41 18 0.39
42 25 0.54
43 3 0.07
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (41 bp):
TGATAAAATTTTGGTAACCTTGATACAATGTAGATAAGTTA
Found at i:8489595 original size:22 final size:22
Alignment explanation
Indices: 8489526--8489597 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
8489516 AATACGACCA
**
8489526 ATAATTTAAT-ATAAATCAATG
1 ATAATTTAATAATAAATCTGTG
* * *
8489547 ATAAATTGATAATGAATCATG-G
1 ATAATTTAATAATAAATC-TGTG
*
8489569 TTAATTTAATAATAAATCTGTG
1 ATAATTTAATAATAAATCTGTG
8489591 ATAATTT
1 ATAATTT
8489598 TGTAATAGAT
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
21 10 0.26
22 28 0.74
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (22 bp):
ATAATTTAATAATAAATCTGTG
Found at i:8490322 original size:17 final size:19
Alignment explanation
Indices: 8490290--8490324 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
8490280 ATTATTAGAT
8490290 ATTTTATATATTTTTTATC
1 ATTTTATATATTTTTTATC
8490309 ATTTTAT-T-TTTTTTAT
1 ATTTTATATATTTTTTAT
8490325 TTTTTATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTATATATTTTTTATC
Found at i:8492560 original size:16 final size:15
Alignment explanation
Indices: 8492535--8492566 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
8492525 GATTTTGGAG
8492535 TTTGATTTTAGGGTT
1 TTTGATTTTAGGGTT
8492550 TTTGAATTTTAGGGTT
1 TTTG-ATTTTAGGGTT
8492566 T
1 T
8492567 AGGGTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.16, C:0.00, G:0.25, T:0.59
Consensus pattern (15 bp):
TTTGATTTTAGGGTT
Found at i:8492755 original size:19 final size:18
Alignment explanation
Indices: 8492722--8492774 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 18
8492712 ATTTGATTTT
*
8492722 TTTAAAAATGCTAACATC
1 TTTAAAAATTCTAACATC
8492740 TTTAAAAATTCTTAACATC
1 TTTAAAAATTC-TAACATC
8492759 TTTAAAAATTCCTAAC
1 TTTAAAAATT-CTAAC
8492775 CTCTAGGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 10 0.31
19 21 0.66
20 1 0.03
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (18 bp):
TTTAAAAATTCTAACATC
Done.