Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 7 of 77
Found at i:1013966 original size:54 final size:52
Alignment explanation
Indices: 1013843--1014092 Score: 161
Period size: 54 Copynumber: 4.6 Consensus size: 52
1013833 ATAAATAAAT
*
1013843 AATATTATATTATAATATATTAATAAATAATATCATATATACTATTAATACAATATATTCATA
1 AATATTATA--ATAATATATTAATAAAT-A-AT-ATAT-TA-TA--AAT--AATATATTAATA
* * * * * *
1013906 AATAATATTATAATATATTCATAAATAATATATAAATAAATATTATACTAAT-
1 AATATTATAATAATATATTAATAAATAATATAT-TATAAATAATATATTAATA
* * * *
1013958 -ATATTAATATTAATA-AATAATATAATAA-ATATTATTAAT-TTA-ATTAATA
1 AATATT-ATAATAATATATTAATA-AATAATATATTATAAATAATATATTAATA
* * *
1014007 AATATTATAATAATATATGAATAAATAATATAATATTAATATAATATTTTAATA
1 AATATTATAATAATATATTAATAAATAATATATTA-TAA-ATAATATATTAATA
* **
1014061 AATAATATTTTAATATATTAATAAATAATATA
1 AATATTATAATAATATATTAATAAATAATATA
1014093 AAGAATAATA
Statistics
Matches: 151, Mismatches: 26, Indels: 29
0.73 0.13 0.14
Matches are distributed among these distances:
48 5 0.03
49 16 0.11
50 20 0.13
51 15 0.10
52 14 0.09
53 10 0.07
54 34 0.23
55 3 0.02
57 2 0.01
58 6 0.04
59 2 0.01
60 1 0.01
61 16 0.11
63 7 0.05
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (52 bp):
AATATTATAATAATATATTAATAAATAATATATTATAAATAATATATTAATA
Found at i:1013973 original size:101 final size:99
Alignment explanation
Indices: 1013837--1014038 Score: 223
Period size: 101 Copynumber: 2.0 Consensus size: 99
1013827 TATATTATAA
* *
1013837 ATAAATAATATTATATTATAATATATTAATAAATAATATCATAT-AT-ACTATTAATACAATAT-
1 ATAAATAATATTATA-TATAATATATTAATAAATAA-ATAATATAATAAATATT-AT-CAATATA
* * **
1013899 ATTCATAAATAATATTATAATATATTCATAAATAATAT
62 ATTAATAAATAATATAATAATATATGAATAAATAATAT
* * *
1013937 ATAAATAAATATTATA-CTAATATATTAATATTAATAAATAATATAATAAATATTATTAATTTAA
1 ATAAAT-AATATTATATATAATATATTAATA--AATAAATAATATAATAAATATTATCAATATAA
*
1014001 TTAATAAATATTATAATAATATATGAATAAATAATAT
63 TTAATAAATAATATAATAATATATGAATAAATAATAT
1014038 A
1 A
1014039 ATATTAATAT
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
99 13 0.15
100 16 0.19
101 52 0.60
102 5 0.06
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (99 bp):
ATAAATAATATTATATATAATATATTAATAAATAAATAATATAATAAATATTATCAATATAATTA
ATAAATAATATAATAATATATGAATAAATAATAT
Found at i:1013976 original size:44 final size:42
Alignment explanation
Indices: 1013920--1014068 Score: 128
Period size: 44 Copynumber: 3.4 Consensus size: 42
1013910 ATATTATAAT
*
1013920 ATATTCATAAATAATATATAAATAAATATTATACTAATATATTA
1 ATATTAATAAATAATATAT-AATAAATATTATA-TAATATATTA
*
1013964 ATATTAATAAAT-A-ATATAATAAATATTAT-TAATTTAATTA
1 ATATTAATAAATAATATATAATAAATATTATATAATAT-ATTA
* *
1014004 ATAAATATTATAATAATATATGAATAAATA--ATATAATATTAATATA
1 AT-ATTAATA-AATAATATAT-AATAAATATTATATAATA-T-AT-TA
1014050 ATATTTTAATAAATAATAT
1 ATA--TTAATAAATAATAT
1014069 TTTAATATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
39 5 0.06
40 6 0.07
41 17 0.20
42 7 0.08
43 4 0.05
44 19 0.22
45 13 0.15
46 12 0.14
47 4 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (42 bp):
ATATTAATAAATAATATATAATAAATATTATATAATATATTA
Found at i:1013994 original size:31 final size:31
Alignment explanation
Indices: 1013909--1014068 Score: 69
Period size: 31 Copynumber: 4.9 Consensus size: 31
1013899 ATTCATAAAT
* *
1013909 AATATTATAATATATTCATAAATAATAT-ATA
1 AATATTATTA-ATATTAATAAATAATATAATA
* * *
1013940 AATAAATATT-ATACTAATATATTAATATTAATA
1 AAT-ATTATTAATATTAATA-AATAATA-TAATA
* * *
1013973 AATAATATAATAAATATTATTAATTTAAT-TAATA
1 AAT-AT-T-ATTAATATTAATAA-ATAATATAATA
1014007 AATATTATAATAATATATGAATAAATAATATAATA
1 AATATTAT--TAATAT-T-AATAAATAATATAATA
* *
1014042 TTAATA-TAAT-ATTTTAATAAATAATAT
1 --AATATTATTAATATTAATAAATAATAT
1014069 TTTAATATAT
Statistics
Matches: 100, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
30 7 0.07
31 23 0.23
32 7 0.07
33 18 0.18
34 15 0.15
35 12 0.12
36 14 0.14
37 4 0.04
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (31 bp):
AATATTATTAATATTAATAAATAATATAATA
Found at i:1014041 original size:57 final size:53
Alignment explanation
Indices: 1013964--1014093 Score: 163
Period size: 57 Copynumber: 2.4 Consensus size: 53
1013954 TAATATATTA
* *
1013964 ATATTAATAAATAATATAATA-AATATTATTAATTTAATTAATAAATATTATAATAAT
1 ATATTAATAAATAATATAATATAATA-TAATAATTTAATAAAT-AATATT-T--TAAT
* *
1014021 ATATGAATAAATAATATAATATTAATATAATATTTTAATAAATAATATTTTAAT
1 ATATTAATAAATAATATAATA-TAATATAATAATTTAATAAATAATATTTTAAT
1014075 ATATTAATAAATAATATAA
1 ATATTAATAAATAATATAA
1014094 AGAATAATAA
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
54 22 0.33
56 1 0.02
57 26 0.39
58 13 0.20
59 4 0.06
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (53 bp):
ATATTAATAAATAATATAATATAATATAATAATTTAATAAATAATATTTTAAT
Found at i:1014083 original size:31 final size:31
Alignment explanation
Indices: 1013931--1014083 Score: 133
Period size: 31 Copynumber: 5.2 Consensus size: 31
1013921 TATTCATAAA
* * *
1013931 TAATATATAAATAAATATTATACTAATATAT
1 TAATATATTAATAAATAATATAATAATATAT
1013962 T-A-ATATTAATAAATAATATAATAA-ATAT
1 TAATATATTAATAAATAATATAATAATATAT
* * * *
1013990 TATTA-ATT--TAATTAATA-AATATTATAA
1 TAATATATTAATAAATAATATAATAATATAT
* *
1014017 TAATATATGAATAAATAATATAATATTA-AT
1 TAATATATTAATAAATAATATAATAATATAT
* **
1014047 ATAATATTTTAATAAATAATATTTTAATATAT
1 -TAATATATTAATAAATAATATAATAATATAT
1014079 TAATA
1 TAATA
1014084 AATAATATAA
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
26 4 0.04
27 15 0.15
28 7 0.07
29 22 0.23
30 11 0.11
31 36 0.37
32 2 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.44
Consensus pattern (31 bp):
TAATATATTAATAAATAATATAATAATATAT
Found at i:1014092 original size:15 final size:15
Alignment explanation
Indices: 1013915--1014075 Score: 120
Period size: 15 Copynumber: 10.9 Consensus size: 15
1013905 AAATAATATT
*
1013915 ATAATATATTCATAA
1 ATAATATATTAATAA
*
1013930 ATAATATATAAATAA
1 ATAATATATTAATAA
* * *
1013945 ATATTATACTAATAT
1 ATAATATATTAATAA
*
1013960 ATTA-ATATTAATAA
1 ATAATATATTAATAA
1013974 AT-A-ATA-TAATAA
1 ATAATATATTAATAA
* *
1013986 ATATTATTAATTTAATTA
1 ATAATA-T-A-TTAATAA
1014004 ATAA-ATATT-AT-A
1 ATAATATATTAATAA
*
1014016 ATAATATATGAATAA
1 ATAATATATTAATAA
* *
1014031 ATAATATAATATTAA
1 ATAATATATTAATAA
*
1014046 TATAATATTTTAATAA
1 -ATAATATATTAATAA
*
1014062 ATAATATTTTAATA
1 ATAATATATTAATA
1014076 TATTAATAAA
Statistics
Matches: 116, Mismatches: 20, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
12 13 0.11
13 10 0.09
14 15 0.13
15 55 0.47
16 14 0.12
17 1 0.01
18 8 0.07
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (15 bp):
ATAATATATTAATAA
Found at i:1014175 original size:155 final size:157
Alignment explanation
Indices: 1013843--1014175 Score: 326
Period size: 155 Copynumber: 2.1 Consensus size: 157
1013833 ATAAATAAAT
* * * *
1013843 AATATTATATTATAATATATTAATAAATAATATCATATATACTATTAATACAATATATTCATAAA
1 AATATTATATTAAAATATAATAATAAATAATATCATATATAATATTAATACAATATATTAATAAA
* * *
1013908 TAATATTATAATATATTCATAAATAATATATAAATAAATATTATACTAATATATTAATATTAATA
66 TAATATTATAATATATTAATAAATAATATAAAAATAAATATAATACTAATATATTAATATTAATA
1013973 AATAATATAATAAATATTATTAATTT-
131 AATAATATAATAAATATTATTAATTTA
* * * *
1013999 -A-ATTA-A-TAAATATTATAATAATATATGAATA-AATAATATAATATTAATATAATATTTTAA
1 AATATTATATTAAA-A-TATAATAATAAAT-AATATCAT-ATATAATATTAATACAATATATTAA
* * ** *
1014059 TAAATAATATTTTAATATATTAATAAATAATATAAAGAAT-AATA-AATAGTTTTATTTTAATTA
62 TAAATAATATTATAATATATTAATAAATAATATAAA-AATAAATATAATACTAATATATTAA-TA
** ** * *
1014122 TTTTTTTATATTATCAT-AATATT-TTAATATTA
125 TTAATAAATAATATAATAAATATTATTAAT-TTA
1014154 AATATTATTATTAAAATATAAT
1 AATATTA-TATTAAAATATAAT
1014176 TATTTTTTAA
Statistics
Matches: 142, Mismatches: 22, Indels: 24
0.76 0.12 0.13
Matches are distributed among these distances:
152 3 0.02
153 7 0.05
154 36 0.25
155 76 0.54
156 4 0.03
157 4 0.03
158 6 0.04
159 2 0.01
160 4 0.03
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (157 bp):
AATATTATATTAAAATATAATAATAAATAATATCATATATAATATTAATACAATATATTAATAAA
TAATATTATAATATATTAATAAATAATATAAAAATAAATATAATACTAATATATTAATATTAATA
AATAATATAATAAATATTATTAATTTA
Found at i:1014223 original size:10 final size:9
Alignment explanation
Indices: 1014183--1014256 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
1014173 AATTATTTTT
*
1014183 TAATATTAA
1 TAATTTTAA
1014192 TAATTTTAA
1 TAATTTTAA
**
1014201 TAA--CAAA
1 TAATTTTAA
1014208 TAATTTTAA
1 TAATTTTAA
1014217 TATATTTTAA
1 TA-ATTTTAA
*
1014227 TAA--TAAA
1 TAATTTTAA
1014234 TAATTTTAA
1 TAATTTTAA
1014243 -ATATTTTAA
1 TA-ATTTTAA
1014252 TAATT
1 TAATT
1014257 ATATTACTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
7 11 0.22
8 1 0.02
9 29 0.57
10 10 0.20
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (9 bp):
TAATTTTAA
Found at i:1014223 original size:26 final size:26
Alignment explanation
Indices: 1014183--1014254 Score: 112
Period size: 25 Copynumber: 2.8 Consensus size: 26
1014173 AATTATTTTT
*
1014183 TAATATTAATA-ATTTTAATAACAAA
1 TAATTTTAATATATTTTAATAACAAA
*
1014208 TAATTTTAATATATTTTAATAATAAA
1 TAATTTTAATATATTTTAATAACAAA
1014234 TAATTTTAA-ATATTTTAATAA
1 TAATTTTAATATATTTTAATAA
1014255 TTATATTACT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 22 0.50
26 22 0.50
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (26 bp):
TAATTTTAATATATTTTAATAACAAA
Found at i:1014239 original size:16 final size:16
Alignment explanation
Indices: 1014180--1014242 Score: 59
Period size: 16 Copynumber: 4.4 Consensus size: 16
1014170 TATAATTATT
*
1014180 TTTTAAT-ATTAATAA
1 TTTTAATAATAAATAA
*
1014195 TTTTAATAACAAATAA
1 TTTTAATAATAAATAA
1014211 -TTT--TAAT--AT-A
1 TTTTAATAATAAATAA
1014221 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
1014237 TTTTAA
1 TTTTAA
1014243 ATATTTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
10 1 0.03
11 5 0.13
13 7 0.18
15 12 0.32
16 13 0.34
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTAATAATAAATAA
Found at i:1020858 original size:20 final size:20
Alignment explanation
Indices: 1020818--1020863 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
1020808 TCGAATTAAA
1020818 TTATATATTTTAATTAATTTT
1 TTATATATTTTAA-TAATTTT
*
1020839 TATATATATTTTAA-ATTTTT
1 T-TATATATTTTAATAATTTT
1020859 TTATA
1 TTATA
1020864 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 6 0.26
21 1 0.04
22 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATATATTTTAATAATTTT
Found at i:1020918 original size:13 final size:13
Alignment explanation
Indices: 1020902--1020941 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
1020892 ATTATTTAAA
1020902 TATATTAAAATTT
1 TATATTAAAATTT
**
1020915 TATATTAAAATAA
1 TATATTAAAATTT
*
1020928 TATATAAAAATTT
1 TATATTAAAATTT
1020941 T
1 T
1020942 TAAAAATTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATATTAAAATTT
Found at i:1022217 original size:7 final size:7
Alignment explanation
Indices: 1022198--1022231 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
1022188 AAAATATGAT
1022198 ATTTTATA
1 ATTTTA-A
1022206 ATTTTAA
1 ATTTTAA
1022213 ATTTTAA
1 ATTTTAA
1022220 ATTTTAA
1 ATTTTAA
1022227 TATTT
1 -ATTT
1022232 ATAATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 15 0.60
8 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTAA
Found at i:1022224 original size:14 final size:16
Alignment explanation
Indices: 1022196--1022237 Score: 63
Period size: 14 Copynumber: 2.8 Consensus size: 16
1022186 TTAAAATATG
1022196 ATATTTTATAATTTTA
1 ATATTTTATAATTTTA
1022212 A-ATTTTA-AATTTTA
1 ATATTTTATAATTTTA
1022226 ATA-TTTATAATT
1 ATATTTTATAATT
1022238 ATTTTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 12 0.50
15 11 0.46
16 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTTTATAATTTTA
Found at i:1024411 original size:29 final size:28
Alignment explanation
Indices: 1024369--1024423 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
1024359 GATGCGGATC
* *
1024369 TTTTAAATTCTAATAATTTATATAATTAT
1 TTTTAAAATATAATAATTTATA-AATTAT
*
1024398 TTTTAAAATATAATATTTTATAAATT
1 TTTTAAAATATAATAATTTATAAATT
1024424 TAAATTCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTTAAAATATAATAATTTATAAATTAT
Found at i:1024416 original size:16 final size:18
Alignment explanation
Indices: 1024388--1024421 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1024378 CTAATAATTT
1024388 ATATAATTATTTT-TAAA
1 ATATAATTATTTTATAAA
1024405 ATATAA-TATTTTATAAA
1 ATATAATTATTTTATAAA
1024422 TTTAAATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATAATTATTTTATAAA
Found at i:1024953 original size:21 final size:21
Alignment explanation
Indices: 1024924--1025001 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
1024914 ATGATATTAA
* *
1024924 AAATAATTATAATTATATGATT
1 AAAT-ATTATAATAATATAATT
* * * *
1024946 AATTATTACAGTAATAAAATT
1 AAATATTATAATAATATAATT
1024967 AAATATTATAATAATATAATT
1 AAATATTATAATAATATAATT
1024988 AAA-ATTAATAATAA
1 AAATATT-ATAATAA
1025002 GATATATATT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 3 0.07
21 39 0.87
22 3 0.07
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (21 bp):
AAATATTATAATAATATAATT
Found at i:1033330 original size:16 final size:16
Alignment explanation
Indices: 1033311--1033343 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1033301 TTTTAATTGA
1033311 TTAT-AATATTAATATT
1 TTATAAATATTAA-ATT
1033327 TTATAAATATTAAATT
1 TTATAAATATTAAATT
1033343 T
1 T
1033344 AAAACAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATAAATATTAAATT
Found at i:1033914 original size:27 final size:25
Alignment explanation
Indices: 1033870--1033921 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
1033860 ATATTATAAA
1033870 TTTATTAATATTAAATATTAACTTTTT
1 TTTATTAATATTAAATA-TAA-TTTTT
*
1033897 TTTATTAA-ATTTATATATAATTTTT
1 TTTATTAATA-TTAAATATAATTTTT
1033922 ATTAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
26 4 0.17
27 14 0.61
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTATTAATATTAAATATAATTTTT
Found at i:1034398 original size:29 final size:26
Alignment explanation
Indices: 1034365--1034427 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
1034355 TATTACAGAA
*
1034365 ATTATTTTTTAATTTTAAAATCAAAATTT
1 ATTATTTTTTAA--TTAAAAT-AAAATAT
* *
1034394 ATTATTATTTAATTCAAATAAAATAT
1 ATTATTTTTTAATTAAAATAAAATAT
1034420 ATTATTTT
1 ATTATTTT
1034428 ACTAATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 13 0.43
27 6 0.20
29 11 0.37
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTATTTTTTAATTAAAATAAAATAT
Found at i:1035163 original size:20 final size:20
Alignment explanation
Indices: 1035138--1035175 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1035128 TTAAAATTTT
*
1035138 CAATAATCCTTGTATAAAAA
1 CAATAATCCATGTATAAAAA
1035158 CAATAATCCATGTATAAA
1 CAATAATCCATGTATAAA
1035176 TACCTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.29
Consensus pattern (20 bp):
CAATAATCCATGTATAAAAA
Found at i:1035589 original size:28 final size:28
Alignment explanation
Indices: 1035557--1035611 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
1035547 GTTGATATAT
* * *
1035557 AATTTATATATTATATTAAAAATTTTAA
1 AATTTAAATATAAAATTAAAAATTTTAA
*
1035585 AATTTAAATATAAAATTAAATATTTTA
1 AATTTAAATATAAAATTAAAAATTTTA
1035612 TTATAATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AATTTAAATATAAAATTAAAAATTTTAA
Found at i:1036019 original size:11 final size:11
Alignment explanation
Indices: 1036003--1036027 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1035993 TCCCAGAATG
1036003 TTCTCTTTTTC
1 TTCTCTTTTTC
1036014 TTCTCTTTTTC
1 TTCTCTTTTTC
1036025 TTC
1 TTC
1036028 CTCGCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
TTCTCTTTTTC
Found at i:1037321 original size:29 final size:29
Alignment explanation
Indices: 1037279--1037337 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1037269 AACTCAAAAC
1037279 TTAATTGAATGTGGGATAACATCATTTCA
1 TTAATTGAATGTGGGATAACATCATTTCA
1037308 TTAATTGAATGTGGGATAACATCATTTCA
1 TTAATTGAATGTGGGATAACATCATTTCA
1037337 T
1 T
1037338 AGAAAATACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (29 bp):
TTAATTGAATGTGGGATAACATCATTTCA
Found at i:1041905 original size:21 final size:22
Alignment explanation
Indices: 1041880--1041921 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1041870 ATCATTATTT
*
1041880 TTAATTTTATTATTA-TATTAA
1 TTAATTTTATCATTACTATTAA
1041901 TTAATTTTATCATTACTATTA
1 TTAATTTTATCATTACTATTA
1041922 TTTTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (22 bp):
TTAATTTTATCATTACTATTAA
Found at i:1042330 original size:19 final size:20
Alignment explanation
Indices: 1042296--1042342 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
1042286 TATTGTCGGA
1042296 AATTTTTTAAAATTTTT-TC
1 AATTTTTTAAAATTTTTGTC
** *
1042315 AATTTTTTAAGTTTTTTGTG
1 AATTTTTTAAAATTTTTGTC
1042335 AATTTTTT
1 AATTTTTT
1042343 CATATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (20 bp):
AATTTTTTAAAATTTTTGTC
Found at i:1042350 original size:19 final size:19
Alignment explanation
Indices: 1042296--1042350 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
1042286 TATTGTCGGA
* *
1042296 AATTTTTTAAAATTTTTTC
1 AATTTTTTAATATTTTGTC
* *
1042315 AATTTTTTAAGTTTTTTGTG
1 AATTTTTTAA-TATTTTGTC
*
1042335 AATTTTTTCATATTTT
1 AATTTTTTAATATTTT
1042351 TAAATTTTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.65
Consensus pattern (19 bp):
AATTTTTTAATATTTTGTC
Found at i:1042513 original size:27 final size:27
Alignment explanation
Indices: 1042483--1042536 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1042473 CATATTTTTG
*
1042483 AAAAATTTTA-AGATTTTTTAAAAATTT
1 AAAAATTTTACAGA-ATTTTAAAAATTT
*
1042510 AAAAATTTTACTGAATTTTAAAAATTT
1 AAAAATTTTACAGAATTTTAAAAATTT
1042537 TTTATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (27 bp):
AAAAATTTTACAGAATTTTAAAAATTT
Found at i:1042517 original size:19 final size:19
Alignment explanation
Indices: 1042476--1042545 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
1042466 TATTTTTCAT
* * *
1042476 ATTTTTGAAAAATTTTAAG
1 ATTTTTTAAAAATTTAAAA
1042495 ATTTTTTAAAAATTTAAAA
1 ATTTTTTAAAAATTTAAAA
* * *
1042514 ATTTTACT-GAATTTTAAAA
1 ATTTT-TTAAAAATTTAAAA
1042533 ATTTTTTATAAAA
1 ATTTTTTA-AAAA
1042546 AATTTCTGAG
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
18 1 0.03
19 35 0.90
20 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (19 bp):
ATTTTTTAAAAATTTAAAA
Found at i:1042627 original size:43 final size:45
Alignment explanation
Indices: 1042537--1042636 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 45
1042527 TTAAAAATTT
* * *
1042537 TTTATAAAAAATTTCTGAGTTTTTCATTTTTTGAACTTTTTAAGAA
1 TTTAAAAAAAATTTCTGAGTTTTT-ATTTTTTCAACATTTTAAGAA
**
1042583 TTTCAAAAAAAATTTCTG-GTTTTT-TTTTTTCAA-ATTTTGGGAA
1 TTT-AAAAAAAATTTCTGAGTTTTTATTTTTTCAACATTTTAAGAA
1042626 TTTAAAAAAAA
1 TTTAAAAAAAA
1042637 GTTTTACTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
42 8 0.17
43 10 0.21
44 8 0.17
46 9 0.19
47 13 0.27
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (45 bp):
TTTAAAAAAAATTTCTGAGTTTTTATTTTTTCAACATTTTAAGAA
Found at i:1042636 original size:44 final size:46
Alignment explanation
Indices: 1042542--1042636 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 46
1042532 AATTTTTTAT
* * *
1042542 AAAAAATTTCTGAGTTTTTCATTTTTTGAACTTTTTAAGAATTTCAA
1 AAAAAATTTCTGAGTTTTT-ATTTTTTCAACATTTTAAGAATTTAAA
**
1042589 AAAAAATTTCTG-GTTTTT-TTTTTTCAA-ATTTTGGGAATTTAAA
1 AAAAAATTTCTGAGTTTTTATTTTTTCAACATTTTAAGAATTTAAA
1042632 AAAAA
1 AAAAA
1042637 GTTTTACTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
43 17 0.40
44 8 0.19
46 6 0.14
47 12 0.28
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.47
Consensus pattern (46 bp):
AAAAAATTTCTGAGTTTTTATTTTTTCAACATTTTAAGAATTTAAA
Found at i:1042673 original size:17 final size:18
Alignment explanation
Indices: 1042645--1042689 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
1042635 AAGTTTTACT
*
1042645 ATTTTTTCAAATTTT-AAG
1 ATTTTTT-AAATTTTAAAA
1042663 ATTTTTTAAATTTTAAAA
1 ATTTTTTAAATTTTAAAA
1042681 ATTTTTTAA
1 ATTTTTTAA
1042690 TACTGATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTTTTAAATTTTAAAA
Found at i:1043402 original size:14 final size:14
Alignment explanation
Indices: 1043385--1043417 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1043375 TATAATTTTA
1043385 AATTATAAT-TAATT
1 AATTATAATATAA-T
1043399 AATTATAATATAAT
1 AATTATAATATAAT
1043413 AATTA
1 AATTA
1043418 AAAGAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTATAATATAAT
Found at i:1043866 original size:16 final size:15
Alignment explanation
Indices: 1043834--1043887 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
1043824 ATACCTTATA
*
1043834 ATAATATAATATAAAT
1 ATAATATAAAAT-AAT
*
1043850 ATGATATAAAACTAAT
1 ATAATATAAAA-TAAT
*
1043866 ATAATTTAAAATAAT
1 ATAATATAAAATAAT
1043881 AATAATA
1 -ATAATA
1043888 ATTATATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 4 0.13
16 26 0.84
17 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
ATAATATAAAATAAT
Found at i:1043885 original size:27 final size:28
Alignment explanation
Indices: 1043831--1043903 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 28
1043821 AATATACCTT
* *
1043831 ATAA-TAATATAATATAAATATGATATA
1 ATAACTAATATAATTTAAATATAATATA
1043858 A-AACTAATATAATTTAAA-ATAATAATA
1 ATAACTAATATAATTTAAATATAAT-ATA
*
1043885 ATAATTATATATAATTTAA
1 ATAACTA-ATATAATTTAA
1043904 TAAAATTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 6 0.15
27 18 0.46
28 4 0.10
29 11 0.28
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (28 bp):
ATAACTAATATAATTTAAATATAATATA
Found at i:1044485 original size:15 final size:16
Alignment explanation
Indices: 1044465--1044502 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1044455 GATTAACTTG
*
1044465 ATTAATTTTAAATCAA
1 ATTAATTTGAAATCAA
*
1044481 A-TAATTTGAAATTAA
1 ATTAATTTGAAATCAA
1044496 ATTAATT
1 ATTAATT
1044503 AAATTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTAATTTGAAATCAA
Found at i:1047432 original size:14 final size:14
Alignment explanation
Indices: 1047406--1047438 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1047396 ATTTAATTCG
1047406 ATTTATTATTTTTA
1 ATTTATTATTTTTA
1047420 ATTT-TTATATTTTA
1 ATTTATTAT-TTTTA
1047434 ATTTA
1 ATTTA
1047439 AAATTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTATTATTTTTA
Found at i:1051345 original size:19 final size:19
Alignment explanation
Indices: 1051297--1051345 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
1051287 AAATAAATAA
*
1051297 ATTAATCATATCTAATCAT
1 ATTAATCGTATCTAATCAT
* * * *
1051316 AGTATTTGTATCTAATCCT
1 ATTAATCGTATCTAATCAT
1051335 ATTAATCGTAT
1 ATTAATCGTAT
1051346 TGTGTTACTT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (19 bp):
ATTAATCGTATCTAATCAT
Found at i:1056138 original size:29 final size:32
Alignment explanation
Indices: 1056106--1056167 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 32
1056096 AAAAATATTG
1056106 ATTTTAATG-TATTTAATATT-AAAATTA-AA
1 ATTTTAATGATATTTAATATTAAAAATTACAA
*
1056135 A-TTTAATGATTTTTAATATTAAAAATTACAA
1 ATTTTAATGATATTTAATATTAAAAATTACAA
1056166 AT
1 AT
1056168 ATATAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 7 0.25
29 11 0.39
30 7 0.25
31 3 0.11
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (32 bp):
ATTTTAATGATATTTAATATTAAAAATTACAA
Found at i:1056608 original size:42 final size:42
Alignment explanation
Indices: 1056530--1056609 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
1056520 CATGATTTTC
*
1056530 CATTATAACTTGTCCTTAATCAATGAGATTTTTATATTACTA
1 CATTATAACTTGTCCTTAATCAAAGAGATTTTTATATTACTA
* * *
1056572 CATTATAGCTTGTTCTTACTCAAAG-GATTTTATATATT
1 CATTATAACTTGTCCTTAATCAAAGAGATTTT-TATATT
1056610 TTTATCATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 6 0.18
42 27 0.82
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (42 bp):
CATTATAACTTGTCCTTAATCAAAGAGATTTTTATATTACTA
Found at i:1056974 original size:24 final size:24
Alignment explanation
Indices: 1056911--1056964 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
1056901 ATTATTTTTT
*
1056911 TTATTTGTTATAAAATAAATATAA
1 TTATTTGTTATAAAATAAAAATAA
1056935 TTATTTGTTATAAAATAAAAATAA
1 TTATTTGTTATAAAATAAAAATAA
1056959 TTATTT
1 TTATTT
1056965 TATACCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TTATTTGTTATAAAATAAAAATAA
Found at i:1057001 original size:12 final size:11
Alignment explanation
Indices: 1056984--1057030 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
1056974 TCTATTTAAA
1056984 TATATTAAACAT
1 TATATTAAA-AT
1056996 TATATTAAAAT
1 TATATTAAAAT
*
1057007 AATATTAACAAT
1 TATATTAA-AAT
*
1057019 T-TTTTAAAAT
1 TATATTAAAAT
1057029 TA
1 TA
1057031 ATTTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 4 0.13
11 14 0.47
12 12 0.40
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (11 bp):
TATATTAAAAT
Found at i:1058763 original size:18 final size:18
Alignment explanation
Indices: 1058728--1058763 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1058718 TTTTGAAAAC
*
1058728 TTTATTTGAAAATATTTT
1 TTTATTTGAAAAGATTTT
*
1058746 TTTATTTGAAAAGGTTTT
1 TTTATTTGAAAAGATTTT
1058764 CTTTTATAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (18 bp):
TTTATTTGAAAAGATTTT
Found at i:1058876 original size:17 final size:18
Alignment explanation
Indices: 1058864--1058904 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1058854 AAAAAAAGAT
1058864 TTAAAAAA-TAAAATAAA
1 TTAAAAAAGTAAAATAAA
1058881 TTAAAAAAGTAAAATAAA
1 TTAAAAAAGTAAAATAAA
*
1058899 ATAAAA
1 TTAAAA
1058905 TCAAATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (18 bp):
TTAAAAAAGTAAAATAAA
Found at i:1058887 original size:28 final size:29
Alignment explanation
Indices: 1058869--1058936 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
1058859 AAGATTTAAA
*
1058869 AAATAAAAT-AAATTAAAAAAGTAAAATA
1 AAATAAAATCAAATCAAAAAAGTAAAATA
*
1058897 AAATAAAATCAAATCAAAAAAATAAAAATAA
1 AAATAAAATCAAATCAAAAAAGT-AAAAT-A
1058928 AAATAAAAT
1 AAATAAAAT
1058937 GAAAAAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 9 0.26
29 11 0.31
30 5 0.14
31 10 0.29
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.19
Consensus pattern (29 bp):
AAATAAAATCAAATCAAAAAAGTAAAATA
Found at i:1058894 original size:6 final size:5
Alignment explanation
Indices: 1058868--1058941 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
1058858 AAAGATTTAA
* * * *
1058868 AAAAT AAAAT -AAAT TAAA- AAAGT AAAAT AAAAT AAAAT CAAAT CAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1058915 AAAAT AAAAAT AAAAAT AAAAT GAAAA
1 AAAAT -AAAAT -AAAAT AAAAT -AAAA
1058942 AAAGAAAACA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
4 9 0.15
5 35 0.59
6 15 0.25
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1058949 original size:25 final size:24
Alignment explanation
Indices: 1058866--1058949 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 24
1058856 AAAAAGATTT
* *
1058866 AAAAAATAAAATAAATTAAAAAAGTAA
1 AAAAAATAAAATAAAAT-CAAAA--AA
*
1058893 AATAAAATAAAATCAAATCAAAAAA
1 AA-AAAATAAAATAAAATCAAAAAA
*
1058918 ATAAAAATAAAAATAAAATGAAAAAA
1 A-AAAAAT-AAAATAAAATCAAAAAA
*
1058944 AGAAAA
1 AAAAAA
1058950 CATACGATCG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
25 12 0.25
26 17 0.35
27 6 0.12
28 13 0.27
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (24 bp):
AAAAAATAAAATAAAATCAAAAAA
Found at i:1060416 original size:30 final size:33
Alignment explanation
Indices: 1060337--1060416 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 33
1060327 GTCAATTATT
* *
1060337 TGACCAGGATAAAATCACGAGTTAAAGATAAAA
1 TGACCAAGATAAAATCAAGAGTTAAAGATAAAA
* * *
1060370 CGACCAAAACT-GAATCAAG-GTTAAA-AT-AAA
1 TGACCAAGA-TAAAATCAAGAGTTAAAGATAAAA
1060400 TGACCAAGATAAAATCA
1 TGACCAAGATAAAATCA
1060417 TGAATCATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
29 1 0.03
30 15 0.41
31 2 0.05
32 6 0.16
33 12 0.32
34 1 0.03
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (33 bp):
TGACCAAGATAAAATCAAGAGTTAAAGATAAAA
Found at i:1060534 original size:119 final size:119
Alignment explanation
Indices: 1060392--1061067 Score: 529
Period size: 119 Copynumber: 5.7 Consensus size: 119
1060382 AATCAAGGTT
* * * * *
1060392 AAAATAAATGACCAAGATAAAATCATGAATCATATGAAATGATCTGGACTGAGCCAAGATCAAAT
1 AAAATAAATGATCGAGATGAAATCATGAATCATAAGAAATGATCTAGACTGAGCCAAGATCAAAT
* * * * * **
1060457 GATCAGGACGAAATCACGAGTCAAAATGAAGCGACTAAGATCAAATCGAAGTCT
66 GATCAGGACGAAACCATGAGTCAAAATGAAGCGACCAAGATCAAGTCGAGGTAA
* * * * *
1060511 AAAATAAATGATTGAAATGAAATCATGAGTCATAAGAAATGATCTAGATTGAGCTAAGATCAAAT
1 AAAATAAATGATCGAGATGAAATCATGAATCATAAGAAATGATCTAGACTGAGCCAAGATCAAAT
** * * ** ** *
1060576 GATTGGGATGCAACTGTGAGTCAAAATGAAGCGACCAAGATTGAGTCGAGATAA
66 GATCAGGACGAAACCATGAGTCAAAATGAAGCGACCAAGATCAAGTCGAGGTAA
* * * * * * * * * * *
1060630 AAAATAAATGATCGGGGTGAAACCATAAATCATGCA-AAATAATTTGGATTGAGCCAAGATTAAG
1 AAAATAAATGATCGAGATGAAATCATGAATCAT-AAGAAATGATCTAGACTGAGCCAAGATCAAA
* * * * * **
1060694 TGATC-GAGATGAAACCATGAGTCAAAATAAAGTGACTAAGATAAAGT-GAGGTGG
65 TGATCAG-GACGAAACCATGAGTCAAAATGAAGCGACCAAGATCAAGTCGAGGTAA
* * * * * * *
1060748 AAAATAAATAATCAAAATGAAATCACGAGTCATAAAAAATGATCTAGACTGAGTCAAGATCAAAT
1 AAAATAAATGATCGAGATGAAATCATGAATCATAAGAAATGATCTAGACTGAGCCAAGATCAAAT
* * * * *
1060813 GATCGGGACAAAACCATGAGTAAAAATGAAACGACCAAGATCGAGTCGAGGTAA
66 GATCAGGACGAAACCATGAGTCAAAATGAAGCGACCAAGATCAAGTCGAGGTAA
* * ** * * * *
1060867 AAAATAAATGACCGAGATGAAACCATGAGCCATAAGAAATGATATACACTGAACCAAAATCAAAT
1 AAAATAAATGATCGAGATGAAATCATGAATCATAAGAAATGATCTAGACTGAGCCAAGATCAAAT
* * * * * * * * * *
1060932 AATCA-AACCAAACCATAAGTCAAAATGAAACGACCAAAACCATGTTGAGGT-C
66 GATCAGGACGAAACCATGAGTCAAAATGAAGCGACCAAGATCAAGTCGAGGTAA
* * * * * *
1060984 AAAATAAATGA-CCAGGATGAAATCATAAATCATATGAAATGATCTGGACTAAGCTAAGATCAAA
1 AAAATAAATGATCGA-GATGAAATCATGAATCATAAGAAATGATCTAGACTGAGCCAAGATCAAA
**
1061048 TGA-CAAGGATTAAACCATGA
65 TGATC-AGGACGAAACCATGA
1061068 ATCATATCAA
Statistics
Matches: 426, Mismatches: 123, Indels: 17
0.75 0.22 0.03
Matches are distributed among these distances:
116 3 0.01
117 52 0.12
118 132 0.31
119 238 0.56
120 1 0.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (119 bp):
AAAATAAATGATCGAGATGAAATCATGAATCATAAGAAATGATCTAGACTGAGCCAAGATCAAAT
GATCAGGACGAAACCATGAGTCAAAATGAAGCGACCAAGATCAAGTCGAGGTAA
Found at i:1060790 original size:237 final size:238
Alignment explanation
Indices: 1060392--1060892 Score: 596
Period size: 237 Copynumber: 2.1 Consensus size: 238
1060382 AATCAAGGTT
* * * * *** * *
1060392 AAAATAAATGACCAAGATAAAATCATGAATCATATGAAATGATCTGGACTGAGCCAAGATCAAAT
1 AAAATAAATGACCGAGATGAAACCATAAATCATGCAAAATAATTTGGACTGAGCCAAGATCAAAT
* * * *
1060457 GATCAGGACGAAATCACGAGTCAAAATGAAGCGACTAAGATCAAATCGAAGTCTAAAATAAATGA
66 GATCAGGACGAAACCACGAGTCAAAATAAAGCGACTAAGATCAAATCGAAGTCGAAAATAAATAA
** * * * * **
1060522 TTGAAATGAAATCATGAGTCATAAGAAATGATCTAGATTGAG-CTAAGATCAAATGATTGGGATG
131 TCAAAATGAAATCACGAGTCATAAAAAATGATCTAGACTGAGTC-AAGATCAAATGATCGGGACA
* ** * * *
1060586 CAACTGTGAGTCAAAATGAAGCGACCAAGATTGAGTCGAGATAA
195 AAACCATGAGTAAAAATGAAACGACCAAGATCGAGTCGAGATAA
* * * * * *
1060630 AAAATAAATGATCGGGGTGAAACCATAAATCATGCAAAATAATTTGGATTGAGCCAAGATTAAGT
1 AAAATAAATGACCGAGATGAAACCATAAATCATGCAAAATAATTTGGACTGAGCCAAGATCAAAT
* * * * *
1060695 GATC-GAGATGAAACCATGAGTCAAAATAAAGTGACTAAGAT-AAAGT-GAGGTGGAAAATAAAT
66 GATCAG-GACGAAACCACGAGTCAAAATAAAGCGACTAAGATCAAA-TCGAAGTCGAAAATAAAT
1060757 AATCAAAATGAAATCACGAGTCATAAAAAATGATCTAGACTGAGTCAAGATCAAATGATCGGGAC
129 AATCAAAATGAAATCACGAGTCATAAAAAATGATCTAGACTGAGTCAAGATCAAATGATCGGGAC
*
1060822 AAAACCATGAGTAAAAATGAAACGACCAAGATCGAGTCGAGGTAA
194 AAAACCATGAGTAAAAATGAAACGACCAAGATCGAGTCGAGATAA
1060867 AAAATAAATGACCGAGATGAAACCAT
1 AAAATAAATGACCGAGATGAAACCAT
1060893 GAGCCATAAG
Statistics
Matches: 218, Mismatches: 42, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
237 132 0.61
238 86 0.39
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (238 bp):
AAAATAAATGACCGAGATGAAACCATAAATCATGCAAAATAATTTGGACTGAGCCAAGATCAAAT
GATCAGGACGAAACCACGAGTCAAAATAAAGCGACTAAGATCAAATCGAAGTCGAAAATAAATAA
TCAAAATGAAATCACGAGTCATAAAAAATGATCTAGACTGAGTCAAGATCAAATGATCGGGACAA
AACCATGAGTAAAAATGAAACGACCAAGATCGAGTCGAGATAA
Found at i:1061057 original size:56 final size:56
Alignment explanation
Indices: 1060989--1061120 Score: 167
Period size: 56 Copynumber: 2.4 Consensus size: 56
1060979 AGGTCAAAAT
* * * * *
1060989 AAATGACCAGGATGAAATCATAAATCATATGAAATGATCTGGACTAAGCTAAGATC
1 AAATGACAAGGATGAAACCATAAATCATATCAAATGATCTAGACTAAGCCAAGATC
* * *
1061045 AAATGACAAGGATTAAACCATGAATCATATCAAATGATCTAGACTGAGCCAAGATC
1 AAATGACAAGGATGAAACCATAAATCATATCAAATGATCTAGACTAAGCCAAGATC
*
1061101 AAGTGACCAA-GATGAAACCA
1 AAATGA-CAAGGATGAAACCA
1061121 CGAGTCAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
56 62 0.95
57 3 0.05
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.20
Consensus pattern (56 bp):
AAATGACAAGGATGAAACCATAAATCATATCAAATGATCTAGACTAAGCCAAGATC
Found at i:1061988 original size:11 final size:12
Alignment explanation
Indices: 1061960--1062001 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
1061950 TTCTCTTGGC
1061960 TTTTTTT-TAATT
1 TTTTTTTGTAA-T
1061972 TATTTTTTGT-AT
1 T-TTTTTTGTAAT
1061984 TTTTTTTGTAAT
1 TTTTTTTGTAAT
1061996 TTTTTT
1 TTTTTT
1062002 ATTTGCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 8 0.30
12 11 0.41
13 7 0.26
14 1 0.04
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (12 bp):
TTTTTTTGTAAT
Found at i:1061988 original size:25 final size:23
Alignment explanation
Indices: 1061960--1062043 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 23
1061950 TTCTCTTGGC
1061960 TTTTTTTTAATTTATTTTTTGTATT
1 TTTTTTTTAATTT-TTTTTTGT-TT
*
1061985 TTTTTTGTAATTTTTTTATTTGCTTT
1 TTTTTTTTAA-TTTTTT-TTTG-TTT
* *
1062011 TTCTTGTTT-ATTTTTTCTTGTTT
1 TT-TTTTTTAATTTTTTTTTGTTT
1062034 ATTTTTTTTA
1 -TTTTTTTTA
1062044 CACATATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
23 8 0.17
24 5 0.10
25 18 0.38
26 12 0.25
27 5 0.10
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.79
Consensus pattern (23 bp):
TTTTTTTTAATTTTTTTTTGTTT
Found at i:1062041 original size:15 final size:14
Alignment explanation
Indices: 1062008--1062040 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
1061998 TTTTATTTGC
1062008 TTTTTCTTGTTTAT
1 TTTTTCTTGTTTAT
1062022 TTTTTCTTGTTTAT
1 TTTTTCTTGTTTAT
1062036 TTTTT
1 TTTTT
1062041 TTACACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.82
Consensus pattern (14 bp):
TTTTTCTTGTTTAT
Found at i:1065687 original size:13 final size:13
Alignment explanation
Indices: 1065669--1065693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1065659 ACCAAATAAT
1065669 TTAATATTAAAAA
1 TTAATATTAAAAA
1065682 TTAATATTAAAA
1 TTAATATTAAAA
1065694 TTATCTCAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAATATTAAAAA
Found at i:1066060 original size:26 final size:28
Alignment explanation
Indices: 1066020--1066071 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
1066010 TTTGTAAAGA
1066020 TTTTTATTTGAAAAAGATTTTTTTTAAT
1 TTTTTATTTGAAAAAGATTTTTTTTAAT
*
1066048 TTTTTA-TTG-AAAATATTTTTTTTA
1 TTTTTATTTGAAAAAGATTTTTTTTA
1066072 TAAATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 14 0.61
27 3 0.13
28 6 0.26
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (28 bp):
TTTTTATTTGAAAAAGATTTTTTTTAAT
Found at i:1066169 original size:17 final size:18
Alignment explanation
Indices: 1066133--1066172 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1066123 TTTTGAAAAC
1066133 TTTATTTGAAAAGATTTT
1 TTTATTTGAAAAGATTTT
*
1066151 TTTATTTGAAAA-TTTTT
1 TTTATTTGAAAAGATTTT
1066168 TTTAT
1 TTTAT
1066173 AGAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (18 bp):
TTTATTTGAAAAGATTTT
Found at i:1066181 original size:16 final size:17
Alignment explanation
Indices: 1066133--1066188 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
1066123 TTTTGAAAAC
* *
1066133 TTTATTTGAAAAGATTTT
1 TTTATTAGAAAA-TTTTT
*
1066151 TTTATTTGAAAATTTTT
1 TTTATTAGAAAATTTTT
*
1066168 TTTA-TAGAATATTTTCT
1 TTTATTAGAAAATTTT-T
1066185 TTTA
1 TTTA
1066189 AAAAAAAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.26
17 13 0.38
18 12 0.35
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (17 bp):
TTTATTAGAAAATTTTT
Found at i:1066300 original size:5 final size:5
Alignment explanation
Indices: 1066268--1066334 Score: 52
Period size: 5 Copynumber: 13.8 Consensus size: 5
1066258 GATTTATTAA
* * * *
1066268 AAAAT AAAAT -GAAT TAAA- AAAGT AAAAT AAAAT AAAAT -CAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1066314 AAAAAT AAAAT AAAAT GAAAA
1 -AAAAT AAAAT AAAAT -AAAA
1066335 AAAGAAAACA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
4 9 0.18
5 31 0.63
6 9 0.18
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1066310 original size:24 final size:24
Alignment explanation
Indices: 1066267--1066336 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
1066257 AGATTTATTA
* *
1066267 AAAAATAAAAT-GAATTAAAAAAGT
1 AAAAATAAAATAAAATCAAAAAA-T
1066291 -AAAATAAAATAAAATCAAAAAAT
1 AAAAATAAAATAAAATCAAAAAAT
*
1066314 AAAAATAAAATAAAATGAAAAAA
1 AAAAATAAAATAAAATCAAAAAA
1066337 AGAAAACATA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
23 11 0.27
24 30 0.73
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAATAAAATAAAATCAAAAAAT
Found at i:1066320 original size:19 final size:17
Alignment explanation
Indices: 1066265--1066336 Score: 64
Period size: 18 Copynumber: 4.4 Consensus size: 17
1066255 AAAGATTTAT
* *
1066265 TAAAAAATAAAATGAAT
1 TAAAAAATAAAATAAAA
1066282 TAAAAAAGTAAAATAAAA
1 TAAAAAA-TAAAATAAAA
*
1066300 T--AAAAT-CAA-AAAA
1 TAAAAAATAAAATAAAA
1066313 T-AAAAATAAAATAAAA
1 TAAAAAATAAAATAAAA
1066329 TGAAAAAA
1 T-AAAAAA
1066337 AGAAAACATA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
13 5 0.11
14 7 0.16
15 3 0.07
16 9 0.20
17 7 0.16
18 14 0.31
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (17 bp):
TAAAAAATAAAATAAAA
Found at i:1066337 original size:19 final size:19
Alignment explanation
Indices: 1066291--1066328 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1066281 TTAAAAAAGT
1066291 AAAAT-AAAATAAAATCAA
1 AAAATAAAAATAAAATCAA
1066309 AAAATAAAAATAAAAT-AA
1 AAAATAAAAATAAAATCAA
1066327 AA
1 AA
1066329 TGAAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAATAAAAATAAAATCAA
Found at i:1067122 original size:3 final size:3
Alignment explanation
Indices: 1067114--1067205 Score: 82
Period size: 3 Copynumber: 30.3 Consensus size: 3
1067104 AAGAAAAATA
*
1067114 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- ATGT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * *
1067158 AAT ACCAT ATAT TAT ACT AAT AAC AAT AAT AGT AAT AAT AAT -AT AAT
1 AAT A--AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1067205 A
1 A
1067206 CTATAATATA
Statistics
Matches: 72, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
2 5 0.07
3 61 0.85
4 3 0.04
5 3 0.04
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:1070558 original size:19 final size:17
Alignment explanation
Indices: 1070524--1070564 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
1070514 TGGTTTTTTT
*
1070524 AATAAAAAAAAGATAAA
1 AATAAAAAAAACATAAA
1070541 AATAAAAAACATACATAAA
1 AATAAAAAA-A-ACATAAA
1070560 AATAA
1 AATAA
1070565 TGTGTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 1 0.05
19 11 0.52
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.15
Consensus pattern (17 bp):
AATAAAAAAAACATAAA
Found at i:1070682 original size:18 final size:18
Alignment explanation
Indices: 1070659--1070703 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
1070649 AACTATGTTT
* *
1070659 AAAAATATTAATATTTTA
1 AAAAATATAAATATATTA
1070677 AAAAATA-AAATATATTA
1 AAAAATATAAATATATTA
1070694 AAATAATATA
1 AAA-AATATA
1070704 TATTGTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 11 0.48
18 11 0.48
19 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATATAAATATATTA
Found at i:1070688 original size:17 final size:17
Alignment explanation
Indices: 1070646--1070701 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
1070636 AATTATTTTT
1070646 TAAAACTATGTTT-AAAAA
1 TAAAA-TAT-TTTAAAAAA
*
1070664 TATTAATATTTTAAAAAA
1 TA-AAATATTTTAAAAAA
*
1070682 TAAAATATATTAAAATAA
1 TAAAATATTTTAAAA-AA
1070700 TA
1 TA
1070702 TATATTGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 14 0.44
18 16 0.50
19 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
TAAAATATTTTAAAAAA
Found at i:1070698 original size:15 final size:15
Alignment explanation
Indices: 1070678--1070707 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1070668 AATATTTTAA
1070678 AAAATAAAATATATT
1 AAAATAAAATATATT
*
1070693 AAAATAATATATATT
1 AAAATAAAATATATT
1070708 GTTAATGCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATAAAATATATT
Found at i:1082278 original size:23 final size:23
Alignment explanation
Indices: 1082251--1082296 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1082241 CCTCTTTAAA
**
1082251 GATGACATGAGCTTCAACGTGAT
1 GATGACACCAGCTTCAACGTGAT
*
1082274 GATGACACCAGGTTCAACGTGAT
1 GATGACACCAGCTTCAACGTGAT
1082297 TGTTTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (23 bp):
GATGACACCAGCTTCAACGTGAT
Found at i:1082904 original size:3 final size:3
Alignment explanation
Indices: 1082896--1082926 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1082886 AAGTCAGTGG
1082896 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1082927 CAATTTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:1083883 original size:105 final size:105
Alignment explanation
Indices: 1083679--1083879 Score: 221
Period size: 105 Copynumber: 1.9 Consensus size: 105
1083669 TCTTAAATTT
* * **
1083679 TTTATTAAAAATAATAATGATAAATTAAATTGATAAATTGATATAATTGATAAGATTTAAATGAG
1 TTTATTAAAAATAATAATGATAAATTAAATTAATAAATTGATATAATTAATAAGAGATAAATGAG
** * * * *
1083744 GTTACTTGGTTGAAAGTCTTAAATTTTTTATTAAAAATGA
66 GTTAAATGATTAAAAGTCTTAAATTTATAATTAAAAATGA
* *
1083784 TTTATTAAAAATAATAATGATAAATTAAATTAATAAATTGATATAATTTAATGAGAAGATCAAT-
1 TTTATTAAAAATAATAATGATAAATTAAATTAATAAATTGATATAA-TTAATAAG-AGATAAATG
* *
1083848 ATGTATAAAT-ATTAAAAGT-TT-TATTTATAATT
64 AGGT-TAAATGATTAAAAGTCTTAAATTTATAATT
1083880 TAAATTTATT
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
104 8 0.10
105 47 0.59
106 16 0.20
107 8 0.10
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.41
Consensus pattern (105 bp):
TTTATTAAAAATAATAATGATAAATTAAATTAATAAATTGATATAATTAATAAGAGATAAATGAG
GTTAAATGATTAAAAGTCTTAAATTTATAATTAAAAATGA
Found at i:1096080 original size:26 final size:29
Alignment explanation
Indices: 1096020--1096107 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
1096010 GTGTTCAATA
* * *
1096020 ATTATGTGAATATTACTTT-ATTATTTTTT
1 ATTATTTGAATA-TAATTTAATTATTTATT
*
1096049 CATTATTTGAATATAATTTTATT-TTTATTT
1 -ATTATTTGAATATAATTTAATTATTTA-TT
*
1096079 ATTATTTTAATATAATTTAATTATTTATT
1 ATTATTTGAATATAATTTAATTATTTATT
1096108 TTTTATTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 30 0.60
30 20 0.40
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.62
Consensus pattern (29 bp):
ATTATTTGAATATAATTTAATTATTTATT
Found at i:1096092 original size:29 final size:30
Alignment explanation
Indices: 1096020--1096129 Score: 116
Period size: 30 Copynumber: 3.6 Consensus size: 30
1096010 GTGTTCAATA
* * *
1096020 ATTATGTGAATATTACTTTATTATTT-TTT
1 ATTATTTGAATATAATTTTATTATTTATTT
1096049 CATTATTTGAATATAATTTTATT-TTTATTT
1 -ATTATTTGAATATAATTTTATTATTTATTT
* *
1096079 ATTATTTTAATATAATTTAATTATTTATTTTTT
1 ATTATTTGAATATAATTTTATTATTTA---TTT
*
1096112 ATTATTTGGATATAATTT
1 ATTATTTGAATATAATTT
1096130 GATCACTTGC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
29 23 0.34
30 26 0.38
33 19 0.28
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (30 bp):
ATTATTTGAATATAATTTTATTATTTATTT
Found at i:1096118 original size:33 final size:31
Alignment explanation
Indices: 1096036--1096129 Score: 113
Period size: 33 Copynumber: 3.0 Consensus size: 31
1096026 TGAATATTAC
1096036 TTTA-TTATTTTTTCATTATTTGAATATAA-T
1 TTTATTTATTTTTT-ATTATTTGAATATAATT
* *
1096066 TTTATTT-TTATTTATTATTTTAATATAATT
1 TTTATTTATTTTTTATTATTTGAATATAATT
*
1096096 TAATTATTTATTTTTTATTATTTGGATATAATT
1 T--TTATTTATTTTTTATTATTTGAATATAATT
1096129 T
1 T
1096130 GATCACTTGC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
29 14 0.26
30 11 0.20
31 2 0.04
32 6 0.11
33 21 0.39
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTATTTATTTTTTATTATTTGAATATAATT
Found at i:1103091 original size:11 final size:12
Alignment explanation
Indices: 1103075--1103103 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1103065 AGGTGATATA
1103075 ATACTTGT-TTC
1 ATACTTGTATTC
1103086 ATACTTGTATTC
1 ATACTTGTATTC
1103098 ATACTT
1 ATACTT
1103104 TACGTGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.52
Consensus pattern (12 bp):
ATACTTGTATTC
Found at i:1108577 original size:25 final size:26
Alignment explanation
Indices: 1108547--1108598 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
1108537 TAGGAGTAAA
* *
1108547 TATTTTGTCCAATTAAA-ACAAAAAT
1 TATTTTATCAAATTAAATACAAAAAT
*
1108572 TATTTTATCAAATTAAATATAAAAAT
1 TATTTTATCAAATTAAATACAAAAAT
1108598 T
1 T
1108599 TTACAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (26 bp):
TATTTTATCAAATTAAATACAAAAAT
Found at i:1109461 original size:19 final size:20
Alignment explanation
Indices: 1109417--1109461 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
1109407 TAAATTTTTA
* *
1109417 TATTTTAATATATAATTTAT
1 TATTTTAATATAAAAATTAT
1109437 TA-TTTAAT-TAAAAATTAT
1 TATTTTAATATAAAAATTAT
1109455 TATTTTA
1 TATTTTA
1109462 CTTATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 10 0.45
19 10 0.45
20 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTTAATATAAAAATTAT
Found at i:1109676 original size:14 final size:14
Alignment explanation
Indices: 1109657--1109684 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1109647 GAATTTGAAT
1109657 TAAATTTTAAATAA
1 TAAATTTTAAATAA
1109671 TAAATTTTAAATAA
1 TAAATTTTAAATAA
1109685 AACTCAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATTTTAAATAA
Found at i:1109890 original size:32 final size:32
Alignment explanation
Indices: 1109854--1109926 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
1109844 TACCTCACTT
1109854 TATTTGCACACGACTCCATCTTCTGCCGACTG
1 TATTTGCACACGACTCCATCTTCTGCCGACTG
1109886 TATTTGCACACGACTCCATCTTCTGCCGACTG
1 TATTTGCACACGACTCCATCTTCTGCCGACTG
1109918 TATTTGCAC
1 TATTTGCAC
1109927 TTTCTTATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.19, C:0.33, G:0.15, T:0.33
Consensus pattern (32 bp):
TATTTGCACACGACTCCATCTTCTGCCGACTG
Found at i:1110352 original size:16 final size:16
Alignment explanation
Indices: 1110314--1110343 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1110304 TCATTATAAT
1110314 TAAA-ATAATAAATTA
1 TAAATATAATAAATTA
1110329 TAAATATAATAAATT
1 TAAATATAATAAATT
1110344 TTATTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAATATAATAAATTA
Found at i:1112401 original size:27 final size:26
Alignment explanation
Indices: 1112329--1112401 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 26
1112319 CCCATTAATT
*
1112329 ATAAAAAAAAACT-TAAAATTTTTATA
1 ATAATAAAAAA-TATAAAATTTTTATA
*
1112355 ATATTAAAAAATATATAAATTTATTA-A
1 ATAATAAAAAATATA-AAATTT-TTATA
1112382 A-AATAAAAAATGAATAAAAT
1 ATAATAAAAAAT--ATAAAAT
1112402 AATAATTTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
25 1 0.03
26 20 0.51
27 12 0.31
28 6 0.15
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (26 bp):
ATAATAAAAAATATAAAATTTTTATA
Found at i:1115516 original size:37 final size:39
Alignment explanation
Indices: 1115475--1115548 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 39
1115465 GATATTATTT
*
1115475 TAAAATAATTTTTAATA-TA-TTTA-AATAAATTTAAATA
1 TAAAATAATTATTAATATTATTTTATAA-AAATTTAAATA
* *
1115512 TAAAATTATTATTATTATTATTTTATAAAAATTTAAA
1 TAAAATAATTATTAATATTATTTTATAAAAATTTAAA
1115549 AAATCTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 14 0.45
38 2 0.06
39 13 0.42
40 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (39 bp):
TAAAATAATTATTAATATTATTTTATAAAAATTTAAATA
Found at i:1115562 original size:16 final size:16
Alignment explanation
Indices: 1115541--1115581 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
1115531 ATTTTATAAA
*
1115541 AATTTAAAAAATCTAT
1 AATTTAAAAAAGCTAT
1115557 AATTTAATAAAAAGCTAT
1 AATTT-A-AAAAAGCTAT
1115575 AATTTAA
1 AATTTAA
1115582 TTTTTAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 2 0.09
18 14 0.64
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (16 bp):
AATTTAAAAAAGCTAT
Found at i:1115574 original size:18 final size:18
Alignment explanation
Indices: 1115547--1115582 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1115537 TAAAAATTTA
*
1115547 AAAAATCTATAATTTAAT
1 AAAAAGCTATAATTTAAT
1115565 AAAAAGCTATAATTTAAT
1 AAAAAGCTATAATTTAAT
1115583 TTTTAACTTC
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:0.56, C:0.06, G:0.03, T:0.36
Consensus pattern (18 bp):
AAAAAGCTATAATTTAAT
Found at i:1118978 original size:57 final size:57
Alignment explanation
Indices: 1118915--1119068 Score: 186
Period size: 57 Copynumber: 2.7 Consensus size: 57
1118905 TTTTGTACAG
* * ** *
1118915 GAAAAATTGATATTTTCAACTTTTTCTCAAAATATTTTTTAGAAATTTTAATTTT-GA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAAGCTT-ATTTTCAA
* *
1118972 GAAAAATTGATAGTTTCAACTTTTCCCCAAAA-ATATTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAATAT-TTTTTAGAAAGCTTATTTTCAA
* * *
1119029 GGAAAATTGATACTTTCAACTTTTCCTTAAAATTTTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTT
1119069 TTTTGAAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
56 7 0.08
57 75 0.90
58 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAAGCTTATTTTCAA
Found at i:1119105 original size:13 final size:12
Alignment explanation
Indices: 1119084--1119145 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 12
1119074 AAATTTTATT
*
1119084 TAAAGAAAATAAA
1 TAAATAAAA-AAA
1119097 TAAATAAAATAAA
1 TAAATAAAA-AAA
*
1119110 AAAATAAAAAAA
1 TAAATAAAAAAA
*
1119122 TTAAAGAAAAAAA
1 -TAAATAAAAAAA
1119135 TAAAATAAAAA
1 T-AAATAAAAA
1119146 GTATTAAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
12 4 0.10
13 38 0.90
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (12 bp):
TAAATAAAAAAA
Found at i:1119115 original size:21 final size:21
Alignment explanation
Indices: 1119084--1119143 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
1119074 AAATTTTATT
1119084 TAAAGAAAATAAATAAATAAAA
1 TAAA-AAAATAAATAAATAAAA
* *
1119106 TAAAAAAATAAAAAAATTAAA
1 TAAAAAAATAAATAAATAAAA
*
1119127 GAAAAAAATAAAATAAA
1 TAAAAAAAT-AAATAAA
1119144 AAGTATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 23 0.70
22 10 0.30
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (21 bp):
TAAAAAAATAAATAAATAAAA
Found at i:1119182 original size:3 final size:3
Alignment explanation
Indices: 1119174--1119204 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1119164 CTAATCAATA
1119174 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1119205 ATAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1120020 original size:21 final size:21
Alignment explanation
Indices: 1119996--1120103 Score: 69
Period size: 21 Copynumber: 5.1 Consensus size: 21
1119986 TAAAATCAAA
* *
1119996 AAAAAATATTAATAGATAATT
1 AAAAAATAATAATAGATAAAT
*
1120017 AAAAAGAAAATAATCAGATAAAT
1 AAAAA-ATAATAAT-AGATAAAT
* * * *
1120040 -GAAAATATTAACAAATAAAT
1 AAAAAATAATAATAGATAAAT
*
1120060 -AAAAATAAACAATAGATAAAT
1 AAAAAAT-AATAATAGATAAAT
* *
1120081 -TATAATATATAATAGATAAAT
1 AAAAAATA-ATAATAGATAAAT
1120102 AA
1 AA
1120104 TAATAAATAC
Statistics
Matches: 65, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
20 13 0.20
21 36 0.55
22 9 0.14
23 7 0.11
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (21 bp):
AAAAAATAATAATAGATAAAT
Found at i:1120048 original size:43 final size:41
Alignment explanation
Indices: 1119998--1120103 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 41
1119988 AAATCAAAAA
* *
1119998 AAAATATTAATAGATAATTAAAAAGAAAATAATCAGATAAATG
1 AAAATATTAATAGATAAATAAAAA-AAAACAAT-AGATAAATG
* * * *
1120041 AAAATATTAACAAATAAATAAAAATAAACAATAGATAAATT
1 AAAATATTAATAGATAAATAAAAAAAAACAATAGATAAATG
*
1120082 ATAATATATAATAGATAAATAA
1 AAAATAT-TAATAGATAAATAA
1120104 TAATAAATAC
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
41 14 0.26
42 18 0.34
43 21 0.40
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (41 bp):
AAAATATTAATAGATAAATAAAAAAAAACAATAGATAAATG
Found at i:1120099 original size:14 final size:13
Alignment explanation
Indices: 1120082--1120133 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
1120072 TAGATAAATT
1120082 ATAATATATAATA
1 ATAATATATAATA
1120095 GATAA-ATAATAATAA
1 -ATAATAT-ATAAT-A
1120110 ATACATATAT-ATA
1 ATA-ATATATAATA
1120123 ATAATATATAA
1 ATAATATATAA
1120134 ATAGCTAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
12 6 0.18
13 7 0.21
14 14 0.42
15 4 0.12
16 2 0.06
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (13 bp):
ATAATATATAATA
Found at i:1120129 original size:10 final size:10
Alignment explanation
Indices: 1120082--1120133 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
1120072 TAGATAAATT
1120082 ATAATATATA
1 ATAATATATA
*
1120092 ATAGATAAATA
1 ATA-ATATATA
*
1120103 ATAATAAATA
1 ATAATATATA
1120113 CAT-ATATATA
1 -ATAATATATA
1120123 ATAATATATA
1 ATAATATATA
1120133 A
1 A
1120134 ATAGCTAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 2 0.05
10 24 0.65
11 11 0.30
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
ATAATATATA
Found at i:1120183 original size:35 final size:36
Alignment explanation
Indices: 1120052--1120186 Score: 96
Period size: 35 Copynumber: 3.7 Consensus size: 36
1120042 AAATATTAAC
* * *
1120052 AAATAAATAAAAATAAACAATAGATAAAT-TATAATAT
1 AAATAAAT--AAATAAACAATAAATATATATATAACAT
* * *
1120089 ATAATAGATAAAT-AATAATAAATACATATATATAATAAT
1 A-AATAAATAAATAAACAATAAAT--ATATATATAA-CAT
* ** **
1120128 ATATAAATAGCTAAGTAATAAATATATAT-TAACAT
1 AAATAAATAAATAAACAATAAATATATATATAACAT
1120163 AAATAAATAAATAAACAATAAATA
1 AAATAAATAAATAAACAATAAATA
1120187 CATAAGATAC
Statistics
Matches: 76, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
35 29 0.38
36 7 0.09
37 10 0.13
38 18 0.24
39 12 0.16
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.30
Consensus pattern (36 bp):
AAATAAATAAATAAACAATAAATATATATATAACAT
Found at i:1120217 original size:7 final size:6
Alignment explanation
Indices: 1120204--1120277 Score: 67
Period size: 7 Copynumber: 11.0 Consensus size: 6
1120194 TACAAAGGAA
*
1120204 AAAAAT ATAAAAT ATAAAAT AAAAAC AAAAAT AATAAAAT ACAAAAT ACAAAAT
1 AAAAAT A-AAAAT A-AAAAT AAAAAT AAAAAT -A-AAAAT A-AAAAT A-AAAAT
1120258 ACAAAAT AAAAAAT AAAAAT
1 A-AAAAT -AAAAAT AAAAAT
1120278 GGGCCTACTC
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
6 16 0.26
7 39 0.64
8 6 0.10
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:1120224 original size:14 final size:13
Alignment explanation
Indices: 1120204--1120277 Score: 78
Period size: 14 Copynumber: 5.5 Consensus size: 13
1120194 TACAAAGGAA
1120204 AAAAATATAAAAT
1 AAAAATATAAAAT
*
1120217 ATAAAATA-AAAAC
1 A-AAAATATAAAAT
1120230 AAAAATAATAAAAT
1 AAAAAT-ATAAAAT
*
1120244 ACAAAATACAAAAT
1 A-AAAATATAAAAT
*
1120258 ACAAAATAAAAAAT
1 A-AAAATATAAAAT
1120272 AAAAAT
1 AAAAAT
1120278 GGGCCTACTC
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
12 5 0.09
13 12 0.23
14 31 0.58
15 5 0.09
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAAATATAAAAT
Found at i:1120479 original size:15 final size:15
Alignment explanation
Indices: 1120461--1120504 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
1120451 AAATTTTTAA
1120461 ATTTAAAATAGATAT
1 ATTTAAAATAGATAT
* *
1120476 ATTTAAATTATATAT
1 ATTTAAAATAGATAT
1120491 ATTTAAAA-AGATAT
1 ATTTAAAATAGATAT
1120505 CATATATCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (15 bp):
ATTTAAAATAGATAT
Found at i:1121084 original size:14 final size:12
Alignment explanation
Indices: 1121056--1121100 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
1121046 ATTAATTATT
1121056 TATTTATATAAA
1 TATTTATATAAA
1121068 TATTTATATAATGA
1 TATTTATATAA--A
1121082 TATTT-T-TAAA
1 TATTTATATAAA
1121092 TATTTATAT
1 TATTTATAT
1121101 TTAAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 6 0.21
11 1 0.03
12 15 0.52
13 1 0.03
14 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TATTTATATAAA
Found at i:1121120 original size:21 final size:22
Alignment explanation
Indices: 1121090--1121141 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
1121080 GATATTTTTA
1121090 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
1121110 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
1121132 AATATTTTAT
1 AATATTTTAT
1121142 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:1121896 original size:20 final size:20
Alignment explanation
Indices: 1121871--1121909 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1121861 ACTAAAATGA
* *
1121871 AATAGTTTTAAATTTTAAAT
1 AATAGTATTAAATTATAAAT
1121891 AATAGTATTAAATTATAAA
1 AATAGTATTAAATTATAAA
1121910 CAACTACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AATAGTATTAAATTATAAAT
Found at i:1123827 original size:14 final size:14
Alignment explanation
Indices: 1123805--1123840 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1123795 TAGATAATTT
1123805 AATAATTTTTTAAA
1 AATAATTTTTTAAA
* *
1123819 AATATTTTTTTATA
1 AATAATTTTTTAAA
1123833 AATAATTT
1 AATAATTT
1123841 AAAATTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATAATTTTTTAAA
Found at i:1127068 original size:2 final size:2
Alignment explanation
Indices: 1127063--1127104 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1127053 AAGGCTCCCT
1127063 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1127105 ATAAAAAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1127146 original size:18 final size:18
Alignment explanation
Indices: 1127125--1127159 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1127115 GTTAGAAATG
* *
1127125 AAAAAGCAAATAGATAAC
1 AAAAAGAAAATAAATAAC
1127143 AAAAAGAAAATAAATAA
1 AAAAAGAAAATAAATAA
1127160 ATAAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.11
Consensus pattern (18 bp):
AAAAAGAAAATAAATAAC
Found at i:1127216 original size:4 final size:4
Alignment explanation
Indices: 1127207--1127234 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
1127197 AAAATCTAAA
1127207 AATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT
1127235 TAATATCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:1128302 original size:21 final size:20
Alignment explanation
Indices: 1128278--1128318 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1128268 ATGTTTTGCT
1128278 TTTTACAAAATAAAAATAAAA
1 TTTTACAAAA-AAAAATAAAA
* *
1128299 TTTTACCAAAAAAATTAAAA
1 TTTTACAAAAAAAAATAAAA
1128319 GAGTTTAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (20 bp):
TTTTACAAAAAAAAATAAAA
Found at i:1129512 original size:14 final size:15
Alignment explanation
Indices: 1129481--1129514 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1129471 GATTCGCTTA
1129481 TATTTGTTTAAGATT
1 TATTTGTTTAAGATT
1129496 TATTTGTTTAA-ATT
1 TATTTGTTTAAGATT
1129510 TATTT
1 TATTT
1129515 AGTTATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (15 bp):
TATTTGTTTAAGATT
Found at i:1129737 original size:148 final size:147
Alignment explanation
Indices: 1129567--1129853 Score: 475
Period size: 148 Copynumber: 1.9 Consensus size: 147
1129557 ATGTTTGTAA
* *
1129567 ATATATTTGTTTAATTTAATCGAACTGAATGCAAATATCTTACTATTTAAATGAATCGAGTTCAA
1 ATATATTTGTTTAATTTAATCGAACTGAATACAAATATCTTACTATTTAAACGAATCGAGTTCAA
* * * * *
1129632 ACAAATAAGGTAATTTTTTATTAAACACGAATCAAATCCGAATACTTTTAAAAATAAACGAATAA
66 ACAAATAAGATAATTTTTTATTAAACACAAAACAAATCCAAATACTTTTAAAAATAAACGAACAA
1129697 ATGAACATATTTGTTCAT
131 ATG-ACATATTTGTTCAT
* *
1129715 ATATATTTGTTTAATTTAATCGAATTGAATACAAATATTTTACTATTTAAACGAATCGAGTTCAA
1 ATATATTTGTTTAATTTAATCGAACTGAATACAAATATCTTACTATTTAAACGAATCGAGTTCAA
*
1129780 ACAAATAAGATAATTTTTTATTAAACACAAAACGAATCCAAATACTTTTAAAAATAAACGAACAA
66 ACAAATAAGATAATTTTTTATTAAACACAAAACAAATCCAAATACTTTTAAAAATAAACGAACAA
1129845 ATGACATAT
131 ATGACATAT
1129854 ATAAATTCAT
Statistics
Matches: 129, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
147 6 0.05
148 123 0.95
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.35
Consensus pattern (147 bp):
ATATATTTGTTTAATTTAATCGAACTGAATACAAATATCTTACTATTTAAACGAATCGAGTTCAA
ACAAATAAGATAATTTTTTATTAAACACAAAACAAATCCAAATACTTTTAAAAATAAACGAACAA
ATGACATATTTGTTCAT
Found at i:1130603 original size:11 final size:10
Alignment explanation
Indices: 1130561--1130602 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
1130551 CGAAATTTTC
1130561 AAAAAT-ATA
1 AAAAATAATA
1130570 AAAAATAATA
1 AAAAATAATA
1130580 AAAAATAATTA
1 AAAAATAA-TA
*
1130591 ATAAATATATA
1 AAAAATA-ATA
1130602 A
1 A
1130603 TTTTATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 6 0.21
10 11 0.38
11 11 0.38
12 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAATAATA
Found at i:1130851 original size:17 final size:18
Alignment explanation
Indices: 1130800--1130847 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
1130790 ATACAATAGT
* *
1130800 ATTAAAACATTTATTA-A
1 ATTAACACATATATTATA
1130817 ATTAACACATATATTATA
1 ATTAACACATATATTATA
1130835 ATTAA-ACA-ATATT
1 ATTAACACATATATT
1130848 TATATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 5 0.18
17 17 0.61
18 6 0.21
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAACACATATATTATA
Found at i:1143226 original size:18 final size:19
Alignment explanation
Indices: 1143185--1143227 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
1143175 TAATTTTTCA
1143185 TAAA-ATAAAATATTTATT
1 TAAATATAAAATATTTATT
*
1143203 T-TATATAAAA-ATTTATT
1 TAAATATAAAATATTTATT
1143220 TAAATATA
1 TAAATATA
1143228 TTAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATATAAAATATTTATT
Found at i:1143259 original size:25 final size:22
Alignment explanation
Indices: 1143204--1143263 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 22
1143194 ATATTTATTT
*
1143204 TATATAAAAATTTATTTAAATA
1 TATATAAAAATTTATTAAAATA
1143226 TAT-TAAAAATTATATTAAAATAA
1 TATATAAAAATT-TATTAAAAT-A
1143249 TATATACAAAATTTA
1 TATATA-AAAATTTA
1143264 AAAATTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.24
22 11 0.33
23 4 0.12
24 4 0.12
25 6 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATAAAAATTTATTAAAATA
Found at i:1143274 original size:7 final size:8
Alignment explanation
Indices: 1143256--1143286 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
1143246 TAATATATAC
1143256 AAAATTTA
1 AAAATTTA
1143264 AAAATTT-
1 AAAATTTA
1143271 AAAATTTA
1 AAAATTTA
1143279 AAAATTTA
1 AAAATTTA
1143287 TAAACCAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AAAATTTA
Found at i:1143276 original size:15 final size:15
Alignment explanation
Indices: 1143256--1143286 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1143246 TAATATATAC
1143256 AAAATTTAAAAATTT
1 AAAATTTAAAAATTT
1143271 AAAATTTAAAAATTT
1 AAAATTTAAAAATTT
1143286 A
1 A
1143287 TAAACCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATTTAAAAATTT
Found at i:1144507 original size:20 final size:20
Alignment explanation
Indices: 1144484--1144529 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
1144474 TAATTAGTGT
*
1144484 AAATTGATAATTTTTAAGAA-
1 AAATTGATAA-CTTTAAGAAG
1144504 AAATTTGATAACTTTAAGAAG
1 AAA-TTGATAACTTTAAGAAG
1144525 AAATT
1 AAATT
1144530 ATTGTTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (20 bp):
AAATTGATAACTTTAAGAAG
Found at i:1144512 original size:21 final size:21
Alignment explanation
Indices: 1144487--1144529 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1144477 TTAGTGTAAA
*
1144487 TTGATAATTTTTAAGAA-AAAT
1 TTGATAA-CTTTAAGAAGAAAT
1144508 TTGATAACTTTAAGAAGAAAT
1 TTGATAACTTTAAGAAGAAAT
1144529 T
1 T
1144530 ATTGTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (21 bp):
TTGATAACTTTAAGAAGAAAT
Found at i:1145408 original size:16 final size:14
Alignment explanation
Indices: 1145365--1145397 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1145355 ATAACAATAA
*
1145365 TTTTAATAATTATT
1 TTTTAATAATAATT
1145379 TTTTAATAATAATT
1 TTTTAATAATAATT
1145393 TTTTA
1 TTTTA
1145398 TTACATCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAATAATAATT
Found at i:1150964 original size:20 final size:19
Alignment explanation
Indices: 1150928--1150969 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
1150918 AAGGGAAGAG
1150928 AAAGAAAGGAAAGGAAAATA
1 AAAGAAAGGAAAGG-AAATA
*
1150948 AAAGAAAGTAATA-GAAATA
1 AAAGAAAGGAA-AGGAAATA
1150967 AAA
1 AAA
1150970 AATTATTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 11 0.55
21 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (19 bp):
AAAGAAAGGAAAGGAAATA
Found at i:1151981 original size:4 final size:4
Alignment explanation
Indices: 1151972--1151997 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1151962 CATATATCTT
1151972 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
1151998 AATATTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:1154400 original size:17 final size:18
Alignment explanation
Indices: 1154378--1154412 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1154368 CTAGATATTC
*
1154378 AAAA-TTTGTCAATTCAA
1 AAAATTTTGCCAATTCAA
1154395 AAAATTTTGCCAATTCAA
1 AAAATTTTGCCAATTCAA
1154413 TCCTTCCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (18 bp):
AAAATTTTGCCAATTCAA
Found at i:1159586 original size:81 final size:81
Alignment explanation
Indices: 1159451--1159612 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
1159441 ACATATAATA
1159451 AATAGGAAGATACAACTAAGAAACCTTTTAGAAATAACTTAACGTAACAGACTGAGAGAACCAAG
1 AATAGGAAGATACAACTAAGAAACCTTTTAGAAATAACTTAACGTAACAGACTGAGAGAACCAAG
1159516 GTATACTGAAAGTAAG
66 GTATACTGAAAGTAAG
1159532 AATAGGAAGATACAACTAAGAAACCTTTTAGAAATAACTTAACGTAACAGACTGAGAGAACCAAG
1 AATAGGAAGATACAACTAAGAAACCTTTTAGAAATAACTTAACGTAACAGACTGAGAGAACCAAG
1159597 GTATACTGAAAGTAAG
66 GTATACTGAAAGTAAG
1159613 GTTACCAAAC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (81 bp):
AATAGGAAGATACAACTAAGAAACCTTTTAGAAATAACTTAACGTAACAGACTGAGAGAACCAAG
GTATACTGAAAGTAAG
Found at i:1166728 original size:15 final size:15
Alignment explanation
Indices: 1166708--1166741 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1166698 ATTCTCCAGC
1166708 AAAAGATAA-AAAAAA
1 AAAAGA-AAGAAAAAA
1166723 AAAAGAAAGAAAAAA
1 AAAAGAAAGAAAAAA
1166738 AAAA
1 AAAA
1166742 TCGCCTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (15 bp):
AAAAGAAAGAAAAAA
Done.