Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 193 of 318
Found at i:60742902 original size:30 final size:30
Alignment explanation
Indices: 60742823--60743089 Score: 127
Period size: 30 Copynumber: 8.9 Consensus size: 30
60742813 AAAATTTATC
*
60742823 ATATATTTTTATTATATATATTATT-TATTCT
1 ATATATTTTTATTATAT-T-TTATTATATTTT
* * * *
60742854 GT-TATATTT-GTAT-TTTTATTATATGTT
1 ATATATTTTTATTATATTTTATTATATTTT
60742881 ATATATTTTTATTATATTTTATT-TATTTT
1 ATATATTTTTATTATATTTTATTATATTTT
60742910 ACTATATTTTTA-TAT-TTTTATTATTATTTT
1 A-TATATTTTTATTATATTTTATTA-TATTTT
* *
60742940 ATATATTCCTTATTATATTATATT-TCA--TT
1 ATATATT-TTTATTATATTTTATTAT-ATTTT
* * *
60742969 ATAT-TTTATCTA-CATATTTTATTACATATT
1 ATATATTT-T-TATTATATTTTATTATATTTT
* *
60742999 ATAT-TTTGTTA-TATATTATTCATTATAATAT
1 ATATATTT-TTATTATATT-TT-ATTATATTTT
* * *
60743030 CT-TACTTTCTT-TTATA-TATATTATATTAT
1 ATATA-TTT-TTATTATATTTTATTATATTTT
*
60743059 ATACATTTTATTATATATATTTTATTATATT
1 ATATA-TTT-TTAT-TATATTTTATTATATT
60743090 ATTTATTATA
Statistics
Matches: 181, Mismatches: 30, Indels: 48
0.70 0.12 0.19
Matches are distributed among these distances:
26 5 0.03
27 6 0.03
28 27 0.15
29 46 0.25
30 54 0.30
31 14 0.08
32 19 0.10
33 10 0.06
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (30 bp):
ATATATTTTTATTATATTTTATTATATTTT
Found at i:60742915 original size:19 final size:20
Alignment explanation
Indices: 60742864--60742958 Score: 122
Period size: 20 Copynumber: 4.8 Consensus size: 20
60742854 GTTATATTTG
*
60742864 TATTTTTATTATATGTTATA
1 TATTTTTATTATATTTTATA
*
60742884 TATTTTTATTATATTTTATT
1 TATTTTTATTATATTTTATA
*
60742904 TA-TTTTACTATATTTT-TA
1 TATTTTTATTATATTTTATA
60742922 TATTTTTATTATTATTTTATA
1 TATTTTTATTA-TATTTTATA
*
60742943 TATTCCTTATTATATT
1 TATT-TTTATTATATT
60742959 ATATTTCATT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
18 3 0.05
19 20 0.31
20 26 0.40
21 10 0.15
22 6 0.09
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.68
Consensus pattern (20 bp):
TATTTTTATTATATTTTATA
Found at i:60742938 original size:39 final size:39
Alignment explanation
Indices: 60742855--60742946 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 39
60742845 ATTTATTCTG
* *
60742855 TTATA-TTTGTAT-TTTTATTATATGTTATATATTTTTA
1 TTATATTTTATATATTTTACTATATGTTATATATTTTTA
* *
60742892 TTATATTTTATTTATTTTACTATAT-TTTTATATTTTTA
1 TTATATTTTATATATTTTACTATATGTTATATATTTTTA
60742930 TTATTATTTTATATATT
1 TTA-TATTTTATATATT
60742947 CCTTATTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
37 5 0.11
38 20 0.43
39 22 0.47
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.70
Consensus pattern (39 bp):
TTATATTTTATATATTTTACTATATGTTATATATTTTTA
Found at i:60742946 original size:12 final size:12
Alignment explanation
Indices: 60742890--60743141 Score: 57
Period size: 12 Copynumber: 22.0 Consensus size: 12
60742880 TATATATTTT
60742890 TATTATATTT-TA
1 TATTAT-TTTATA
*
60742902 T-TTATTTTA-C
1 TATTATTTTATA
60742912 TA-TATTTT-TA
1 TATTATTTTATA
60742922 TA-T-TTTTAT-
1 TATTATTTTATA
60742931 TATTATTTTATA
1 TATTATTTTATA
*
60742943 TATTCCTTATTATA
1 TATT-ATT-TTATA
*
60742957 T-TATATTTCAT-
1 TAT-TATTTTATA
*
60742968 TA-TATTTTATC
1 TATTATTTTATA
*
60742979 TACATATTTTAT-
1 TA-TTATTTTATA
* *
60742991 TA-CATATTATA
1 TATTATTTTATA
*
60743002 T-TT-TGTTATA
1 TATTATTTTATA
60743012 TATTATTCATTATA
1 TATTATT--TTATA
* *
60743026 -A-TATCTTACTT
1 TATTATTTTA-TA
* *
60743037 TCTT-TTATATA
1 TATTATTTTATA
*
60743048 TATTATATTATA
1 TATTATTTTATA
*
60743060 TA-CATTTTATTA
1 TATTATTTTA-TA
60743072 TATATATTTTATTA
1 TAT-TATTTTA-TA
60743086 TATTA-TTTAT-
1 TATTATTTTATA
*
60743096 TA-TATGATT-TA
1 TATTAT-TTTATA
*
60743107 TATTATTATATA
1 TATTATTTTATA
*
60743119 TTTTA-TTTATA
1 TATTATTTTATA
* *
60743130 AATTATGTTATA
1 TATTATTTTATA
60743142 CACTATATAT
Statistics
Matches: 176, Mismatches: 31, Indels: 66
0.64 0.11 0.24
Matches are distributed among these distances:
9 8 0.05
10 41 0.23
11 40 0.23
12 46 0.26
13 17 0.10
14 24 0.14
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (12 bp):
TATTATTTTATA
Found at i:60743004 original size:17 final size:17
Alignment explanation
Indices: 60742982--60743017 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
60742972 TTTTATCTAC
60742982 ATATTTTATTACATATT
1 ATATTTTATTACATATT
* *
60742999 ATATTTTGTTATATATT
1 ATATTTTATTACATATT
60743016 AT
1 AT
60743018 TCATTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATTTTATTACATATT
Found at i:60743018 original size:20 final size:20
Alignment explanation
Indices: 60742824--60743135 Score: 111
Period size: 19 Copynumber: 16.0 Consensus size: 20
60742814 AAATTTATCA
60742824 TATATTTTTATTATATA-TAT
1 TATA-TTTTATTATATATTAT
*
60742844 TAT-TTATTCTGT-TATATT-T
1 TATATT-TTAT-TATATATTAT
*
60742863 GTAT-TTTTATTATATGTTA-
1 -TATATTTTATTATATATTAT
*
60742882 TATATTTTTATTATATTTTAT
1 TATA-TTTTATTATATATTAT
*
60742903 T-TATTTTACTATAT-TT-T
1 TATATTTTATTATATATTAT
60742920 TATATTTTTATTAT-TATT-T
1 TATA-TTTTATTATATATTAT
**
60742939 TATATATTCCTTAT-TA-TAT
1 TATAT-TTTATTATATATTAT
* *
60742958 TATATTTCATTATATTTTAT
1 TATATTTTATTATATATTAT
*
60742978 CTACATATTTTA-T-TACA-TAT
1 -T--ATATTTTATTATATATTAT
*
60742998 TATATTTTGTTATATATTAT
1 TATATTTTATTATATATTAT
* * *
60743018 T-CA--TTATAATATCTTACT
1 TATATTTTATTATATATTA-T
*
60743036 T-TCTTTTA-TATATATTA-
1 TATATTTTATTATATATTAT
**
60743053 TATTATATACATT-T-TATTAT
1 TA-TAT-TTTATTATATATTAT
60743073 ATATATTTTATTATATTATTTAT
1 -TATATTTTATTATA-TA-TTAT
60743096 TATATGATTTA-TAT-TATTA-
1 TATAT--TTTATTATATATTAT
*
60743115 TATATTTTATTTATAAATTAT
1 TATATTTTA-TTATATATTAT
60743136 GTTATACACT
Statistics
Matches: 222, Mismatches: 29, Indels: 81
0.67 0.09 0.24
Matches are distributed among these distances:
17 24 0.11
18 23 0.10
19 87 0.39
20 53 0.24
21 9 0.04
22 8 0.04
23 14 0.06
24 4 0.02
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TATATTTTATTATATATTAT
Found at i:60743073 original size:26 final size:26
Alignment explanation
Indices: 60743039--60743140 Score: 93
Period size: 26 Copynumber: 3.8 Consensus size: 26
60743029 TCTTACTTTC
60743039 TTTTA-TATATATTATATTA-TATACA
1 TTTTATTATATATTATATTATTATA-A
* *
60743064 TTTTATTATATA-TATTTTATTATAT
1 TTTTATTATATATTATATTATTATAA
60743089 TATTTATTATATGATTTATATTATTATATA
1 T-TTTATTATAT-A-TTATATTATTATA-A
* *
60743119 TTTTATTTATAAATTATGTTAT
1 TTTTA-TTATATATTATATTAT
60743141 ACACTATATA
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
25 12 0.19
26 20 0.32
27 1 0.02
28 8 0.13
29 16 0.25
30 6 0.10
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTATTATATATTATATTATTATAA
Found at i:60743079 original size:28 final size:28
Alignment explanation
Indices: 60742823--60743141 Score: 150
Period size: 28 Copynumber: 11.1 Consensus size: 28
60742813 AAAATTTATC
60742823 ATATAT-TTTTATTATATATATTATTTATT
1 ATATATATTTTATTATATATATTA--TATT
* *
60742852 CTGTTATATTTGTATT-T-T-TATTATATGT
1 AT-ATATATTT-TATTATATATATTATAT-T
*
60742880 -TATATATTTTTATTATATTTTATT-TATT
1 ATATATA-TTTTATTATA-TATATTATATT
* * *
60742908 TTACTATATTTT-TATATTTTTATTATTATT
1 ATA-TATATTTTAT-TATATATATTA-TATT
*
60742938 TTATATATTCCTTATTATAT-TA-TAT-TT
1 ATATATATT--TTATTATATATATTATATT
*
60742965 CAT-TATATTTTATCTACATAT-TT-TATT
1 -ATATATATTTTAT-TATATATATTATATT
* *
60742992 ACATATTATATTTTGTTATATATTATTCATTATA
1 --ATA-TATATTTTATTATATA-TATT-A-TATT
* *
60743026 ATATCTTACTTTCTTTTATATATATTATATT
1 ATAT-ATA-TTT-TATTATATATATTATATT
* *
60743057 ATATACATTTTATTATATATATTTTATT
1 ATATATATTTTATTATATATATTATATT
60743085 ATAT-TA-TTTATTATATGAT-TTATATT
1 ATATATATTTTATTATAT-ATATTATATT
* *
60743111 ATTATATATTTTATT-TATAAATTATGTT
1 A-TATATATTTTATTATATATATTATATT
60743139 ATA
1 ATA
60743142 CACTATATAT
Statistics
Matches: 231, Mismatches: 21, Indels: 78
0.70 0.06 0.24
Matches are distributed among these distances:
25 4 0.02
26 30 0.13
27 29 0.13
28 46 0.20
29 41 0.18
30 32 0.14
31 20 0.09
32 11 0.05
33 7 0.03
34 11 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (28 bp):
ATATATATTTTATTATATATATTATATT
Found at i:60743112 original size:17 final size:16
Alignment explanation
Indices: 60743040--60743125 Score: 67
Period size: 14 Copynumber: 5.5 Consensus size: 16
60743030 CTTACTTTCT
60743040 TTTATATATATTATATTA
1 TTTATAT-TATTATA-TA
* *
60743058 TATACATT-TTAT-TA
1 TTTATATTATTATATA
*
60743072 TATATATT-TTAT-TA
1 TTTATATTATTATATA
60743086 TATTAT-TTATTATATGA
1 T-TTATATTATTATAT-A
60743103 TTTATATTATTATATA
1 TTTATATTATTATATA
60743119 TTT-TATT
1 TTTATATT
60743126 TATAAATTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
14 18 0.31
15 11 0.19
16 13 0.22
17 12 0.20
18 5 0.08
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (16 bp):
TTTATATTATTATATA
Found at i:60750361 original size:25 final size:25
Alignment explanation
Indices: 60750327--60750376 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
60750317 AATAATCATT
60750327 CTTAAATTCATTCATTCTTTGTATA
1 CTTAAATTCATTCATTCTTTGTATA
*
60750352 CTTAAATTCATTCATTCTTTTTATA
1 CTTAAATTCATTCATTCTTTGTATA
60750377 TTCTTTATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.54
Consensus pattern (25 bp):
CTTAAATTCATTCATTCTTTGTATA
Found at i:60754892 original size:22 final size:23
Alignment explanation
Indices: 60754858--60754900 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
60754848 CCTTCTGTGG
*
60754858 TTTTTTTTATATTTTCAAATTCA
1 TTTTATTTATATTTTCAAATTCA
*
60754881 TTTTATTT-TATTTTTAAATT
1 TTTTATTTATATTTTCAAATT
60754901 AGCCCTAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTATTTATATTTTCAAATTCA
Found at i:60755250 original size:20 final size:20
Alignment explanation
Indices: 60755227--60755487 Score: 120
Period size: 20 Copynumber: 12.9 Consensus size: 20
60755217 GTTATATTTG
*
60755227 TATTTTTATTATATGTTATA
1 TATTTTTATTATATTTTATA
*
60755247 TATTTTTATTATATTTTATT
1 TATTTTTATTATATTTTATA
* *
60755267 TA-TTTTACTATATTTT-GA
1 TATTTTTATTATATTTTATA
60755285 TATTTTTATTATTATTTTATA
1 TATTTTTATTA-TATTTTATA
*
60755306 TATTCCTTATTATA---T-TA
1 TATT-TTTATTATATTTTATA
*
60755323 TA-TTTCATTATATTTTATCTA
1 TATTTTTATTATATTTTA--TA
* * *
60755344 CATATTTTATTACATATTATA
1 TAT-TTTTATTATATTTTATA
60755365 T-TTTGTTATATATTATTCATTATAA
1 TATTT-TTAT-TA-TATT--TTAT-A
* * *
60755390 TATCTTTCTT-TCTTTTATA
1 TATTTTTATTATATTTTATA
*
60755409 TA----TATTATATTATATA
1 TATTTTTATTATATTTTATA
* *
60755425 CATTTTATTATATATATATTTTTA
1 TA-TTT-TTAT-TATAT-TTTATA
60755449 TATTATTTATTATATTATT-TA
1 TATT-TTTATTATATT-TTATA
*
60755470 TATTATTA-TATATTTTAT
1 TATTTTTATTATATTTTAT
60755488 TTATAAATTA
Statistics
Matches: 182, Mismatches: 28, Indels: 63
0.67 0.10 0.23
Matches are distributed among these distances:
15 10 0.05
16 9 0.05
17 4 0.02
18 6 0.03
19 32 0.18
20 38 0.21
21 21 0.12
22 21 0.12
23 23 0.13
24 11 0.06
25 5 0.03
26 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.64
Consensus pattern (20 bp):
TATTTTTATTATATTTTATA
Found at i:60755257 original size:58 final size:61
Alignment explanation
Indices: 60755186--60755326 Score: 184
Period size: 58 Copynumber: 2.4 Consensus size: 61
60755176 AAAATTTATC
**
60755186 ATATATTTTTATTATATATATTATTTATTCTGTTATA-TTTG-TATTTTTATTA-TATGTT
1 ATATATTTTTATTATATATATTATTTATTCTACTATATTTTGATATTTTTATTATTATGTT
* *
60755244 ATATATTTTTATTATAT-T-TTATTTATTTTACTATATTTTGATATTTTTATTATTATTTT
1 ATATATTTTTATTATATATATTATTTATTCTACTATATTTTGATATTTTTATTATTATGTT
*
60755303 ATATATTCCTTATTATATTATATT
1 ATATATT-TTTATTATA-TATATT
60755327 TCATTATATT
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
56 14 0.20
57 5 0.07
58 28 0.39
59 12 0.17
60 8 0.11
61 1 0.01
62 1 0.01
63 2 0.03
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (61 bp):
ATATATTTTTATTATATATATTATTTATTCTACTATATTTTGATATTTTTATTATTATGTT
Found at i:60755278 original size:19 final size:19
Alignment explanation
Indices: 60755186--60755488 Score: 146
Period size: 19 Copynumber: 15.6 Consensus size: 19
60755176 AAAATTTATC
60755186 ATATATTTTTATTATATATATT
1 ATATA-TTTTATTATAT-T-TT
* * *
60755208 ATTTATTCTGTTATA-TTT
1 ATATATTTTATTATATTTT
* *
60755226 GTAT-TTTTATTATATGTT
1 ATATATTTTATTATATTTT
60755244 ATATATTTTTATTATATTTT
1 ATATA-TTTTATTATATTTT
* *
60755264 ATTTATTTTACTATATTTT
1 ATATATTTTATTATATTTT
60755283 GATAT-TTTTATTATTATTTT
1 -ATATATTTTATTA-TATTTT
*
60755303 ATATATTCCTTATTATATTAT
1 ATATATT--TTATTATATTTT
* * * *
60755324 ATTTCATTATATTTTA-TCT
1 ATAT-ATTTTATTATATTTT
* * *
60755343 ACATATTTTATTACATATT
1 ATATATTTTATTATATTTT
*
60755362 ATATTTTGTTATATATTATTCATT
1 ATATATT-TTAT-TA-TATT--TT
* *
60755386 ATAATATCTTTCTT-TCTTTT
1 AT-ATAT-TTTATTATATTTT
*
60755406 ATATA---TATTATATTAT
1 ATATATTTTATTATATTTT
* *
60755422 ATACATTTTATTATA-TAT
1 ATATATTTTATTATATTTT
60755440 ATAT-TTTTA-TAT-TATTT
1 ATATATTTTATTATAT-TTT
*
60755457 AT-TATATTATTTATATTATT
1 ATATATTTTA-TTATATT-TT
60755477 ATATATTTTATT
1 ATATATTTTATT
60755489 TATAAATTAT
Statistics
Matches: 211, Mismatches: 41, Indels: 60
0.68 0.13 0.19
Matches are distributed among these distances:
15 3 0.01
16 12 0.06
17 21 0.10
18 23 0.11
19 49 0.23
20 49 0.23
21 24 0.11
22 18 0.09
24 5 0.02
25 6 0.03
26 1 0.00
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (19 bp):
ATATATTTTATTATATTTT
Found at i:60755309 original size:12 final size:11
Alignment explanation
Indices: 60755230--60755355 Score: 51
Period size: 10 Copynumber: 11.7 Consensus size: 11
60755220 ATATTTGTAT
60755230 TTTTATTA-TA
1 TTTTATTATTA
*
60755240 TGTTA-TA-TA
1 TTTTATTATTA
60755249 TTTTTATTA-TA
1 -TTTTATTATTA
60755260 TTTTA-T-TTA
1 TTTTATTATTA
*
60755269 TTTTACTA-TA
1 TTTTATTATTA
60755279 TTTTGA-TA-T-
1 TTTT-ATTATTA
60755288 TTTTATTATTA
1 TTTTATTATTA
*
60755299 TTTTATATATTCC
1 TTTTAT-TATT-A
60755312 TTATTA-TATTA
1 TT-TTATTATTA
60755323 TATTTCATTA-TA
1 T-TTT-ATTATTA
*
60755335 TTTTATCTACATA
1 TTTTAT-TA-TTA
60755348 TTTTATTA
1 TTTTATTA
60755356 CATATTATAT
Statistics
Matches: 94, Mismatches: 4, Indels: 34
0.71 0.03 0.26
Matches are distributed among these distances:
8 1 0.01
9 18 0.19
10 26 0.28
11 19 0.20
12 15 0.16
13 12 0.13
14 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:60755359 original size:12 final size:12
Alignment explanation
Indices: 60755332--60755366 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
60755322 ATATTTCATT
60755332 ATATTTTATCTAC
1 ATATTTTAT-TAC
60755345 ATATTTTATTAC
1 ATATTTTATTAC
*
60755357 ATATTATATT
1 ATATTTTATT
60755367 TTGTTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (12 bp):
ATATTTTATTAC
Found at i:60755367 original size:17 final size:17
Alignment explanation
Indices: 60755345--60755380 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
60755335 TTTTATCTAC
60755345 ATATTTTATTACATATT
1 ATATTTTATTACATATT
* *
60755362 ATATTTTGTTATATATT
1 ATATTTTATTACATATT
60755379 AT
1 AT
60755381 TCATTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATTTTATTACATATT
Found at i:60755424 original size:12 final size:12
Alignment explanation
Indices: 60755407--60755504 Score: 66
Period size: 12 Copynumber: 8.3 Consensus size: 12
60755397 CTTTCTTTTA
60755407 TATATATTATAT
1 TATATATTATAT
*
60755419 TATATACATTTTAT
1 TATAT--ATTATAT
60755433 TATATA-TATATT
1 TATATATTATA-T
*
60755445 TTTATATTAT-T
1 TATATATTATAT
60755456 TATTATATTAT-T
1 TA-TATATTATAT
60755468 TATATTATTATA-
1 TATA-TATTATAT
60755480 TAT-T-TTAT-T
1 TATATATTATAT
* *
60755489 TATAAATTATGT
1 TATATATTATAT
60755501 TATA
1 TATA
60755505 CACTATATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
9 7 0.10
10 1 0.01
11 11 0.16
12 37 0.53
13 3 0.04
14 11 0.16
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (12 bp):
TATATATTATAT
Found at i:60755472 original size:29 final size:25
Alignment explanation
Indices: 60755403--60755492 Score: 78
Period size: 29 Copynumber: 3.4 Consensus size: 25
60755393 CTTTCTTTCT
*
60755403 TTTATATATAT-TATATTATATACAT-
1 TTTAT-TATATATATATTAT-TATATA
*
60755428 TTTATTATATATATATTTTTATATTA
1 TTTATTATATATATATTATTATA-TA
60755454 TTTATTATATTATTTATATTATTATATA
1 TTTATTATA-TA--TATATTATTATATA
60755482 TTTTATT-TATA
1 -TTTATTATATA
60755493 AATTATGTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
24 8 0.15
25 13 0.24
26 9 0.16
27 4 0.07
28 4 0.07
29 17 0.31
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTATTATATATATATTATTATATA
Found at i:60755498 original size:37 final size:39
Alignment explanation
Indices: 60755402--60755503 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 39
60755392 TCTTTCTTTC
* *
60755402 TTTTATATATATTATATTATATACATTTTATTATATATATAT
1 TTTTATAT-TA-TAAATTATAT-TATTTTATTATATATATAT
**
60755444 TTTTATATTATTTATTATATTATTTATATTAT-TATATA-
1 TTTTATATTATAAATTATATTATTT-TATTATATATATAT
*
60755482 TTTTAT-TTATAAATTATGTTAT
1 TTTTATATTATAAATTATATTAT
60755504 ACACTATATA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
37 13 0.24
38 6 0.11
39 10 0.19
40 15 0.28
41 2 0.04
42 8 0.15
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (39 bp):
TTTTATATTATAAATTATATTATTTTATTATATATATAT
Found at i:60768542 original size:44 final size:44
Alignment explanation
Indices: 60768488--60768637 Score: 176
Period size: 44 Copynumber: 3.4 Consensus size: 44
60768478 AATCTAAGAT
60768488 GATTTGGCGTCTCTATATTGTCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTATATTGTCAGAGAGCAGATCAAAGATAGCA
* * *
60768532 GATTTGGCGTCTTTGTATTGTCAGAGAGCAGATCAAAGATAGTA
1 GATTTGGCGTCTCTATATTGTCAGAGAGCAGATCAAAGATAGCA
* * * * * * * *
60768576 GATTTGGTGTTTCTGTATTGTCAGAGAACAAATCGAAGA-AACT
1 GATTTGGCGTCTCTATATTGTCAGAGAGCAGATCAAAGATAGCA
* *
60768619 GATTTGGCATCTCCATATT
1 GATTTGGCGTCTCTATATT
60768638 CGACGGAGAA
Statistics
Matches: 89, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
43 15 0.17
44 74 0.83
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (44 bp):
GATTTGGCGTCTCTATATTGTCAGAGAGCAGATCAAAGATAGCA
Found at i:60768826 original size:40 final size:42
Alignment explanation
Indices: 60768782--60768880 Score: 105
Period size: 44 Copynumber: 2.4 Consensus size: 42
60768772 TTTACGCTGA
*
60768782 AGCAGAT-ATAAGAT-G-ATTTGGAGTCTCTATATTGTCAGGG
1 AGCAGATCA-AAGATAGAATTTGGAGTCTCTATATTGTCAGAG
* * *
60768822 AGCAGATCAAAGATAGCAAATTTGGGGTCTCTGTTTTGTCAGAG
1 AGCAGATCAAAGATAG--AATTTGGAGTCTCTATATTGTCAGAG
*
60768866 AGCAGATCGAAGATA
1 AGCAGATCAAAGATA
60768881 TCAACATGGC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
40 12 0.24
41 2 0.04
44 35 0.71
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.28
Consensus pattern (42 bp):
AGCAGATCAAAGATAGAATTTGGAGTCTCTATATTGTCAGAG
Found at i:60768827 original size:308 final size:308
Alignment explanation
Indices: 60768302--60768880 Score: 873
Period size: 308 Copynumber: 1.9 Consensus size: 308
60768292 GGAACCAGTT
* * *
60768302 GAAGAAATAGATTTGGCATCTCCATATTCGACGAAGAGCTGATCGAAGACATAGCAGATCTAACC
1 GAAGAAATAGATTTGGCATCTCCATATTCGACGAAGAGATGATCAAAGACATAGCAGATCCAACC
60768367 TTCGAATGTTTTTGCATAAAAGCAGATCTAAGAGGATTTGGCATCCTTGCATTTACAAGGAGCAG
66 TTCGAATGTTTTTGCATAAAAGCAGATCTAAGAGGATTTGGCATCCTTGCATTTACAAGGAGCAG
* * * *
60768432 ATCGAAGACATAGTAGATTTGGCTTTCACGTGTTTGCGCTAAAGCGAATCTAAGATGATTTGGCG
131 ATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTAAAGCGAATATAAGATGATTTGGAG
* *
60768497 TCTCTATATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTTTGTATTGTCAGAGAGCA
196 TCTCTATATTGTCAGAGAGCAGATCAAAGATAGCAAATTTGGCGTCTCTGTATTGTCAGAGAGCA
60768562 GATCAAAGATAGTAGATTTGGTGTTTCTGTATTGTCAGAGAACAAATC
261 GATCAAAGATAGTAGATTTGGTGTTTCTGTATTGTCAGAGAACAAATC
*
60768610 GAAGAAACT-GATTTGGCATCTCCATATTCGACGGAGA-ATAGATCAAAGACATAGCAGATCCAA
1 GAAGAAA-TAGATTTGGCATCTCCATATTCGACGAAGAGAT-GATCAAAGACATAGCAGATCCAA
* * * *
60768673 CCTTCGGATG-TTTT-CATATCGAAA-TAGATCTAAGATGATTTGGCATCCTTGCGTTTACAAGG
64 CCTTCGAATGTTTTTGCATA---AAAGCAGATCTAAGAGGATTTGGCATCCTTGCATTTACAAGG
** *
60768735 AGCAGATCGAAGACATAGCAGATTTTTCTTTCACGTGTTTACGCTGAAGC-AGATATAAGATGAT
126 AGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTAAAGCGA-ATATAAGATGAT
* * *
60768799 TTGGAGTCTCTATATTGTCAGGGAGCAGATCAAAGATAGCAAATTTGGGGTCTCTGTTTTGTCAG
190 TTGGAGTCTCTATATTGTCAGAGAGCAGATCAAAGATAGCAAATTTGGCGTCTCTGTATTGTCAG
*
60768864 AGAGCAGATCGAAGATA
255 AGAGCAGATCAAAGATA
60768881 TCAACATGGC
Statistics
Matches: 244, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
306 4 0.02
307 6 0.02
308 230 0.94
309 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (308 bp):
GAAGAAATAGATTTGGCATCTCCATATTCGACGAAGAGATGATCAAAGACATAGCAGATCCAACC
TTCGAATGTTTTTGCATAAAAGCAGATCTAAGAGGATTTGGCATCCTTGCATTTACAAGGAGCAG
ATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTAAAGCGAATATAAGATGATTTGGAG
TCTCTATATTGTCAGAGAGCAGATCAAAGATAGCAAATTTGGCGTCTCTGTATTGTCAGAGAGCA
GATCAAAGATAGTAGATTTGGTGTTTCTGTATTGTCAGAGAACAAATC
Found at i:60768853 original size:44 final size:44
Alignment explanation
Indices: 60768797--60768880 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
60768787 ATATAAGATG
*
60768797 ATTTGGAGTCTCTATATTGTCAGGGAGCAGATCAAAGATAGCAA
1 ATTTGGAGTCTCTATATTGTCAGAGAGCAGATCAAAGATAGCAA
* * * *
60768841 ATTTGGGGTCTCTGTTTTGTCAGAGAGCAGATCGAAGATA
1 ATTTGGAGTCTCTATATTGTCAGAGAGCAGATCAAAGATA
60768881 TCAACATGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (44 bp):
ATTTGGAGTCTCTATATTGTCAGAGAGCAGATCAAAGATAGCAA
Found at i:60770589 original size:12 final size:12
Alignment explanation
Indices: 60770573--60770863 Score: 64
Period size: 12 Copynumber: 24.3 Consensus size: 12
60770563 TCATATATTT
60770573 TTATTATATATA
1 TTATTATATATA
*
60770585 TTATT-TAT-TC
1 TTATTATATATA
60770595 TT-TTATATTTATA
1 TTATTATA--TATA
*
60770608 TTTTTAT-TATA
1 TTATTATATATA
* *
60770619 -TGTTATATATTT
1 TTATTATATA-TA
60770631 TTATTATATATTA
1 TTATTATATA-TA
*
60770644 TTTATTTTACTATA
1 -TTATTATA-TATA
*
60770658 TTTTTATATTATTA
1 TTATTATA-TA-TA
*
60770672 TTATTTTATATA
1 TTATTATATATA
**
60770684 TTCCT-TAT-TA
1 TTATTATATATA
60770694 -TATTATAT-T-
1 TTATTATATATA
* *
60770703 TTATCTACATATT
1 TTAT-TATATATA
60770716 TTATTACATATTATA
1 TTATT--ATA-TATA
*
60770731 TT-TTGTTATATA
1 TTATT-ATATATA
60770743 TTATTCAT-TATA
1 TTATT-ATATATA
* * * * *
60770755 ATATCTTTCTTTC
1 TTAT-TATATATA
60770768 TT-TTATATATA
1 TTATTATATATA
*
60770779 TTATATTATATACGTT
1 -T-TATTATATA--TA
60770795 TTATTATATATA
1 TTATTATATATA
60770807 TT-TT-T-TATA
1 TTATTATATATA
60770816 TTATT-TAT-TA
1 TTATTATATATA
** *
60770826 -TATGGTTTATA
1 TTATTATATATA
*
60770837 TTATTATATATT
1 TTATTATATATA
*
60770849 TTATT-TATAAA
1 TTATTATATATA
60770860 TTAT
1 TTAT
60770864 GTTATACACT
Statistics
Matches: 205, Mismatches: 42, Indels: 65
0.66 0.13 0.21
Matches are distributed among these distances:
9 13 0.06
10 27 0.13
11 33 0.16
12 45 0.22
13 37 0.18
14 41 0.20
15 8 0.04
16 1 0.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (12 bp):
TTATTATATATA
Found at i:60770626 original size:56 final size:55
Alignment explanation
Indices: 60770566--60770702 Score: 145
Period size: 56 Copynumber: 2.4 Consensus size: 55
60770556 AATTTTATCA
*
60770566 TATATTTTTATTATATATATTATTTATTCTT-T-TATATTTATATTTTTATTATATGT
1 TATATTTTTATTATATATATTATTTATT-TTATATATATTTATATTATTATTAT-T-T
* *
60770622 TATATATTT-TTATTATATATTATTTATTTTACTATATTTTTATATTATTATTATTT
1 TATATTTTTATTA-TATATATTATTTATTTTA-TATATATTTATATTATTATTATTT
60770678 TATATATTCCTTATTATATTATATT
1 TATAT-TT--TTATTATA-TATATT
60770703 TTATCTACAT
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
55 5 0.07
56 29 0.43
57 3 0.04
58 18 0.26
59 4 0.06
60 9 0.13
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (55 bp):
TATATTTTTATTATATATATTATTTATTTTATATATATTTATATTATTATTATTT
Found at i:60770636 original size:58 final size:57
Alignment explanation
Indices: 60770565--60770853 Score: 174
Period size: 58 Copynumber: 4.9 Consensus size: 57
60770555 AAATTTTATC
*
60770565 ATATATTTTTATTATATATATTATTTATTCTT-T-TATATTTATATTTTTATTATATGTT
1 ATATATTTTTATTATATATATTATTTATT-TTATATATATTTATATTATTATTAT-T-TT
*
60770623 ATATATTTTTA-T-TATATATTATTTATTTTACTATATTTTTATATTATTATTATTTT
1 ATATATTTTTATTATATATATTATTTATTTTA-TATATATTTATATTATTATTATTTT
* * * * *
60770679 ATATATTCCTTATTATAT-TA-TATTT-TATCTACATAT-TTTATTACATATTATATTTTGTT
1 ATATATT-TTTATTATATATATTATTTAT-TTTATATATATTTA-TA-TTATTAT-TATT-TT
* * * *
60770738 ATATATTATTCATTATAATATCTTTCTTTCTTTTATATATA-TTATATTATATACGTT-TTATT
1 ATATATT-TTTATTAT-ATAT-ATTATTTATTTTATATATATTTATATTAT-TA--TTATT-TT
60770800 ATATATATTTT-TTATAT-TATTTATTATATGGTTTATAT-TATTATATATT-TTATT
1 ATATAT-TTTTATTATATATA-TTATT-TAT--TTTATATATATT-TATATTATTATT
60770854 TATAAATTAT
Statistics
Matches: 184, Mismatches: 20, Indels: 53
0.72 0.08 0.21
Matches are distributed among these distances:
55 6 0.03
56 31 0.17
57 20 0.11
58 35 0.19
59 25 0.14
60 6 0.03
61 12 0.07
62 25 0.14
63 22 0.12
64 2 0.01
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (57 bp):
ATATATTTTTATTATATATATTATTTATTTTATATATATTTATATTATTATTATTTT
Found at i:60770693 original size:19 final size:18
Alignment explanation
Indices: 60770557--60770753 Score: 91
Period size: 19 Copynumber: 11.1 Consensus size: 18
60770547 TTTTTAAAAA
*
60770557 ATTTTATCATA-TATTTTT
1 ATTTTAT-ATATTATTATT
*
60770575 ATTATATATATTATTTATT
1 ATTTTATATATTA-TTATT
*
60770594 CTTTTATAT-TTA-TATT
1 ATTTTATATATTATTATT
* *
60770610 TTTATTATATGTTA-TA-T
1 ATT-TTATATATTATTATT
60770627 A-TTT-T-TATTATATATT
1 ATTTTATATATTAT-TATT
*
60770643 A-TTTAT-T-TTACTA-T
1 ATTTTATATATTATTATT
60770657 ATTTT-TATATTATTATT
1 ATTTTATATATTATTATT
*
60770674 ATTTTATATATTCCTTATT
1 ATTTTATATATT-ATTATT
* * *
60770693 ATATTATATTTTATCTACAT
1 ATTTTATATATTAT-TA-TT
60770713 ATTTTATTACATATTA-TATT
1 ATTTTA-T--ATATTATTATT
60770733 -TTGTTATATATTATTCATT
1 ATT-TTATATATTATT-ATT
60770752 AT
1 AT
60770754 AATATCTTTC
Statistics
Matches: 139, Mismatches: 17, Indels: 44
0.69 0.09 0.22
Matches are distributed among these distances:
13 4 0.03
14 4 0.03
15 10 0.07
16 20 0.14
17 24 0.17
18 24 0.17
19 34 0.24
20 11 0.08
21 3 0.02
23 5 0.04
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (18 bp):
ATTTTATATATTATTATT
Found at i:60770696 original size:38 final size:38
Alignment explanation
Indices: 60770565--60770863 Score: 125
Period size: 38 Copynumber: 8.1 Consensus size: 38
60770555 AAATTTTATC
* * *
60770565 ATATATTTTTATTATATATAT-TATTTATTCTTTTATATT
1 ATATA-TTTTATTATATTTATATA-TTATTATTATATATT
*
60770604 -TATATTTTTATTATATGTTATATATTTTTATTATATATT
1 ATATA-TTTTATTATAT-TTATATATTATTATTATATATT
* * *
60770643 ATTTATTTTACTATATTTTTATATTATTATTAT-T-TT
1 ATATATTTTATTATATTTATATATTATTATTATATATT
* * *
60770679 ATATATTCCTTATTATA-TTATATTTTATCTACATATTTTATT
1 ATATATT--TTATTATATTTATATATTAT-TA-TTA-TATATT
* *
60770721 ACATATTATATT-T-TGTTATATATTATTCATTATA-A-T
1 ATATATTTTATTATAT-TTATATATTATT-ATTATATATT
* * *
60770757 ATCT-TTCT-TTCT-TTTATATA-TATTA-TAT-TA-T
1 ATATATTTTATTATATTTATATATTATTATTATATATT
** * * * *
60770788 ATACGTTTTATTATATATATTTTTTA-TATTATTTATT
1 ATATATTTTATTATATTTATATATTATTATTATATATT
** *
60770825 ATATGGTTTA-TAT-TATTATATATT-TTATTTATAAATT
1 ATATATTTTATTATAT-TTATATATTATTA-TTATATATT
60770862 AT
1 AT
60770864 GTTATACACT
Statistics
Matches: 200, Mismatches: 35, Indels: 52
0.70 0.12 0.18
Matches are distributed among these distances:
31 7 0.04
32 4 0.02
33 7 0.04
34 16 0.08
35 11 0.05
36 24 0.12
37 29 0.14
38 41 0.20
39 31 0.16
40 21 0.10
41 1 0.00
42 8 0.04
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (38 bp):
ATATATTTTATTATATTTATATATTATTATTATATATT
Found at i:60770733 original size:17 final size:17
Alignment explanation
Indices: 60770711--60770746 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
60770701 TTTTATCTAC
60770711 ATATTTTATTACATATT
1 ATATTTTATTACATATT
* *
60770728 ATATTTTGTTATATATT
1 ATATTTTATTACATATT
60770745 AT
1 AT
60770747 TCATTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATTTTATTACATATT
Found at i:60770819 original size:21 final size:21
Alignment explanation
Indices: 60770795--60770857 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
60770785 TATATACGTT
60770795 TTATTATATATATTTTTTATA
1 TTATTATATATATTTTTTATA
**
60770816 TTATT-TATTATATGGTTTATA
1 TTATTATA-TATATTTTTTATA
60770837 TTATTATATAT-TTTATTTATA
1 TTATTATATATATTT-TTTATA
60770858 AATTATGTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 3 0.09
21 30 0.86
22 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
TTATTATATATATTTTTTATA
Found at i:60770827 original size:39 final size:42
Alignment explanation
Indices: 60770768--60770869 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 42
60770758 TCTTTCTTTC
60770768 TTTTATATATATTATATTATATACGTTT-TATTA-TATATATT
1 TTTTATATATATTATATTATAT-CGTTTATATTATTATATATT
*
60770809 TTTTATAT-TATT-TATTATATGGTTTATATTATTATATATT
1 TTTTATATATATTATATTATATCGTTTATATTATTATATATT
* *
60770849 TTATT-TATAAATTATGTTATA
1 TT-TTATATATATTATATTATA
60770870 CACTATATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
38 4 0.08
39 13 0.25
40 17 0.32
41 13 0.25
42 6 0.11
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (42 bp):
TTTTATATATATTATATTATATCGTTTATATTATTATATATT
Found at i:60781416 original size:17 final size:16
Alignment explanation
Indices: 60781387--60781420 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
60781377 CCATCCATCC
*
60781387 TCTACACTCCACTCCA
1 TCTACACTACACTCCA
60781403 TCTAGCACTACACTCCA
1 TCTA-CACTACACTCCA
60781420 T
1 T
60781421 GAGGGGATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.26, C:0.44, G:0.03, T:0.26
Consensus pattern (16 bp):
TCTACACTACACTCCA
Found at i:60792443 original size:39 final size:39
Alignment explanation
Indices: 60792399--60792480 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
60792389 AATTATGTTA
60792399 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
60792438 CCAGCACAAAGCCTGCGGGCCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
60792477 CCAG
1 CCAG
60792481 TGTCTTGCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.24, C:0.33, G:0.23, T:0.20
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:60794320 original size:15 final size:15
Alignment explanation
Indices: 60794295--60794331 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
60794285 TTGTTTATTT
60794295 TAAATGTTTATAATAA
1 TAAA-GTTTATAATAA
60794311 TAAAGTTTATAATAA
1 TAAAGTTTATAATAA
60794326 TAAAGT
1 TAAAGT
60794332 ATATCACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (15 bp):
TAAAGTTTATAATAA
Found at i:60800505 original size:29 final size:31
Alignment explanation
Indices: 60800456--60800514 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
60800446 AATGTGTATC
* *
60800456 TATTTATTTGATGGATGAAAT-T-GAGATAA
1 TATTTATTTAATAGATGAAATGTGGAGATAA
60800485 TATTTATTATAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
60800515 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAA
Found at i:60806414 original size:37 final size:37
Alignment explanation
Indices: 60806353--60806431 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
60806343 TTCTTACGAA
* * *
60806353 GTCTTACCCGGACATAATCTCCACACGAAGTTATTGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
* *
60806390 GTCTTACCCGGGCAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCT-CCACACGAAGTCATCGG
60806427 GTCTT
1 GTCTT
60806432 TAGAGCTCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:60806628 original size:47 final size:47
Alignment explanation
Indices: 60806554--60807090 Score: 867
Period size: 47 Copynumber: 11.4 Consensus size: 47
60806544 TCGGGACTTG
* * * * * * * * *
60806554 TCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
60806601 TCACATATATATACTTTCATATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
60806648 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
60806695 TTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
60806742 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
60806789 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
60806836 TCACACATATACACTTTCACATTCATCACATCGACCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
60806883 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
60806932 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
60806979 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
60807026 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
60807073 TTACATATATACACTTTC
1 TCACATATATACACTTTC
60807091 TTGGCTGAAT
Statistics
Matches: 462, Mismatches: 26, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 417 0.90
49 45 0.10
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:60811026 original size:29 final size:29
Alignment explanation
Indices: 60810987--60811065 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
60810977 CTTAATAATC
*
60810987 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
60811017 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
60811046 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
60811066 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:60811108 original size:43 final size:43
Alignment explanation
Indices: 60811047--60811149 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
60811037 TGCATTTCAA
60811047 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
60811090 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
60811133 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
60811150 TAAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:60813065 original size:37 final size:37
Alignment explanation
Indices: 60813015--60813093 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
60813005 TTATTACGAA
* *
60813015 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
60813052 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
60813089 GTCTT
1 GTCTT
60813094 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:60813290 original size:47 final size:47
Alignment explanation
Indices: 60813263--60813773 Score: 887
Period size: 47 Copynumber: 10.9 Consensus size: 47
60813253 CTCGGCCCTG
* *
60813263 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
* *
60813310 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
* *
60813357 TCACAGATATACACTTTCACATCCATCACATCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
60813404 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
60813451 TCACACATATACACTTTCACATTCATCGCATCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
* * *
60813498 TCACACATATACACTTTCATATTCATCGCATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
* * *
60813545 TCACACATATACACTTTTACATTCATCGCATCGGCGATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
60813592 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
60813639 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
60813686 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
60813733 TCACACATATACACTTTCACATTCATCACATCGGCCATTAG
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAG
60813774 ACCATGATTT
Statistics
Matches: 447, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 447 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
Found at i:60816700 original size:17 final size:17
Alignment explanation
Indices: 60816678--60816710 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
60816668 GTATGCATGT
60816678 AATGAT-ATGTCTTGTTG
1 AATGATGATGT-TTGTTG
60816695 AATGATGATGTTTGTT
1 AATGATGATGTTTGTT
60816711 AAATTTGAAT
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:0.24, C:0.03, G:0.24, T:0.48
Consensus pattern (17 bp):
AATGATGATGTTTGTTG
Found at i:60826267 original size:14 final size:13
Alignment explanation
Indices: 60826244--60826275 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
60826234 GGGATATCAA
60826244 AACAATAATTAAG
1 AACAATAATTAAG
60826257 AACACATAATTAAG
1 AACA-ATAATTAAG
60826271 AACAA
1 AACAA
60826276 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:60828114 original size:119 final size:121
Alignment explanation
Indices: 60827892--60828154 Score: 333
Period size: 119 Copynumber: 2.2 Consensus size: 121
60827882 TACTCGTTCA
* *
60827892 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGT
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGT
* * *
60827956 TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACC
66 TATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATATAGTAACTTAGCA-C
* *
60828012 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCAG
** * *
60828074 ATT-TAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCAC
65 -TTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGGATATAGTAACTTAGCAC
*
60828131 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
60828155 CATCATTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
118 5 0.04
119 90 0.72
120 30 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (121 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGT
TATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATATAGTAACTTAGCAC
Found at i:60828154 original size:40 final size:40
Alignment explanation
Indices: 60827871--60828154 Score: 337
Period size: 40 Copynumber: 7.1 Consensus size: 40
60827861 CAGAATTTAA
** *
60827871 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
60827911 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
60827951 CCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60827991 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
60828030 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60828070 CCGGATTTAGTAACTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60828110 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60828150 CCGGA
1 CCGGA
60828155 CATCATTCAA
Statistics
Matches: 215, Mismatches: 22, Indels: 14
0.86 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 33 0.15
40 170 0.79
41 10 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60836250 original size:119 final size:120
Alignment explanation
Indices: 60836074--60836296 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
60836064 TACTCGTTCA
* * *
60836074 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
60836139 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* *
60836194 AATGCCTTCAGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCAGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* * *
60836256 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
60836297 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 4 0.04
119 68 0.75
120 19 0.21
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:60836296 original size:40 final size:40
Alignment explanation
Indices: 60836053--60836296 Score: 300
Period size: 40 Copynumber: 6.1 Consensus size: 40
60836043 CGGAATTTAA
** *
60836053 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
60836093 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60836133 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
60836173 CCGGATTTAGTAACTCGCACCAATGCCTTCAGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
60836212 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60836252 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60836292 CCGGA
1 CCGGA
60836297 CATCATTCAA
Statistics
Matches: 180, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.18
40 133 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60841242 original size:18 final size:18
Alignment explanation
Indices: 60841205--60841243 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
60841195 TTGGAAATCA
*
60841205 AAATAATTAAAAGATGAT
1 AAATAATTAAAAGATAAT
60841223 AAATAATTAAATAGA-AAT
1 AAATAATTAAA-AGATAAT
60841241 AAA
1 AAA
60841244 AATCATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (18 bp):
AAATAATTAAAAGATAAT
Found at i:60841999 original size:17 final size:17
Alignment explanation
Indices: 60841977--60842017 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
60841967 AAAATGTATC
**
60841977 TGATAAAGCCCGATCAA
1 TGATAAAGCCCGAAAAA
*
60841994 TGATAATGCCCGAAAAA
1 TGATAAAGCCCGAAAAA
60842011 TGATAAA
1 TGATAAA
60842018 TGGTAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (17 bp):
TGATAAAGCCCGAAAAA
Found at i:60843820 original size:28 final size:27
Alignment explanation
Indices: 60843763--60843859 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
60843753 TAAATTGTGC
* *
60843763 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
60843790 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
* * *
60843818 AGCACTAGGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
60843845 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60843860 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 37 0.60
28 25 0.40
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:60845702 original size:57 final size:57
Alignment explanation
Indices: 60845626--60845761 Score: 141
Period size: 57 Copynumber: 2.4 Consensus size: 57
60845616 TTATGGATTA
* * * *
60845626 GATTTAACCCAGACAGGTAATCCAAA-TCAAGCTCT-TTAGAGCATATGTCATAAAAAG
1 GATTTAGCCTAGACTGGTAATCCAAACT-AAGCTCTATT-GAGCATATATCATAAAAAG
* ** * ** *
60845683 GATTTAGCTTAGACTGGTAATCCTGACTAAGCTCTATTGAGTATATATTGTAGAAAG
1 GATTTAGCCTAGACTGGTAATCCAAACTAAGCTCTATTGAGCATATATCATAAAAAG
60845740 GATTTAGCCTAGACTGGTAATC
1 GATTTAGCCTAGACTGGTAATC
60845762 ATGTTGTTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
57 62 0.95
58 3 0.05
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (57 bp):
GATTTAGCCTAGACTGGTAATCCAAACTAAGCTCTATTGAGCATATATCATAAAAAG
Found at i:60846159 original size:14 final size:14
Alignment explanation
Indices: 60846140--60846168 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60846130 TAATCTGTAC
60846140 TCGAGATGAACTAT
1 TCGAGATGAACTAT
60846154 TCGAGATGAACTAT
1 TCGAGATGAACTAT
60846168 T
1 T
60846169 TTGAAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (14 bp):
TCGAGATGAACTAT
Found at i:60846960 original size:30 final size:30
Alignment explanation
Indices: 60846926--60847024 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
60846916 CACATAGGTA
* *
60846926 GACACATGGGCGTGTGTCATGACCGTGTGT
1 GACACACGGGCGTGTGTCATGACTGTGTGT
60846956 GACACACGGGCGTGTGTCATGACTGTGTGT
1 GACACACGGGCGTGTGTCATGACTGTGTGT
*
60846986 GACACACGGGTGTGTGTCATGACTGTGTGT
1 GACACACGGGCGTGTGTCATGACTGTGTGT
60847016 GACACACGG
1 GACACACGG
60847025 CCTAGTACAC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.18, C:0.20, G:0.36, T:0.25
Consensus pattern (30 bp):
GACACACGGGCGTGTGTCATGACTGTGTGT
Found at i:60846985 original size:15 final size:15
Alignment explanation
Indices: 60846967--60847016 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
60846957 ACACACGGGC
60846967 GTGTGTCATGACTGT
1 GTGTGTCATGACTGT
* * *
60846982 GTGTGACA-CACGGGT
1 GTGTGTCATGAC-TGT
60846997 GTGTGTCATGACTGT
1 GTGTGTCATGACTGT
60847012 GTGTG
1 GTGTG
60847017 ACACACGGCC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.14, C:0.14, G:0.38, T:0.34
Consensus pattern (15 bp):
GTGTGTCATGACTGT
Found at i:60858840 original size:47 final size:47
Alignment explanation
Indices: 60858771--60858935 Score: 258
Period size: 47 Copynumber: 3.5 Consensus size: 47
60858761 GTGTGTATAC
60858771 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
60858818 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * *
60858865 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
60858912 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
60858936 TCCCGAAGGG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 108 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:60859110 original size:37 final size:37
Alignment explanation
Indices: 60859054--60859132 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
60859044 CCGAGCTCTA
* * * *
60859054 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
60859091 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60859128 AAGAC
1 AAGAC
60859133 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60860798 original size:20 final size:21
Alignment explanation
Indices: 60860775--60860813 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60860765 CCCTTGAAAC
60860775 AGGGC-ACACGCCCATGTGGA
1 AGGGCAACACGCCCATGTGGA
*
60860795 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCATGTG
60860814 ATCACTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.31, G:0.36, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:60862132 original size:48 final size:48
Alignment explanation
Indices: 60862036--60862157 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
60862026 AAGTTGACGC
* * *** * *
60862036 CATGTCCCAGACAAGTCTTACACTAGCTTGTCCATCGCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTAAACATCGCAAGGCCGATG
* *
60862084 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTAAACATCGCAAGGCCGATG
* *
60862132 CATGTCCTAGACATGTTTTACACTGG
1 CATGTCCCAGACATGTCTTACACTGG
60862158 ATCACATATC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTGGCTTAAACATCGCAAGGCCGATG
Found at i:60862167 original size:48 final size:48
Alignment explanation
Indices: 60862075--60862167 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
60862065 GTCCATCGCG
* * *
60862075 AGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGATCAAATATCTCA
* * *
60862123 AGGCCGATGCATGTCCTAGACATGTTTTACACTGGATCACATATC
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGATCAAATATC
60862168 ACCTAATATC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (48 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGATCAAATATCTCA
Found at i:60868415 original size:18 final size:18
Alignment explanation
Indices: 60868388--60868422 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60868378 ACTTAGTAAG
* *
60868388 TTTCTTCTTTGCCTTAGC
1 TTTCTGCTTTCCCTTAGC
60868406 TTTCTGCTTTCCCTTAG
1 TTTCTGCTTTCCCTTAG
60868423 AGGACGAGGG
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:0.06, C:0.29, G:0.11, T:0.54
Consensus pattern (18 bp):
TTTCTGCTTTCCCTTAGC
Found at i:60872108 original size:9 final size:9
Alignment explanation
Indices: 60872094--60872119 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
60872084 TACTATCCAT
60872094 TTTACAAAC
1 TTTACAAAC
60872103 TTTACAAAC
1 TTTACAAAC
60872112 TTTACAAA
1 TTTACAAA
60872120 TGCTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (9 bp):
TTTACAAAC
Found at i:60878487 original size:49 final size:49
Alignment explanation
Indices: 60878427--60878551 Score: 171
Period size: 49 Copynumber: 2.6 Consensus size: 49
60878417 ATTAAAGTCG
* * *
60878427 ATGCCGTGTCCCAGACAGGTCTTACACTGACTTTTATATATCGAG-GCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGCCA
* * * *
60878476 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCA
60878525 ATGCCATGTCCCAGACAGGTCTTACAC
1 ATGCCATGTCCCAGACAGGTCTTACAC
60878552 AGACAGACAG
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 1 0.01
49 67 0.99
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCA
Found at i:60880093 original size:23 final size:21
Alignment explanation
Indices: 60880041--60880098 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 21
60880031 TCATCTTATA
60880041 TATATATATCAAAATTATAACAT
1 TATA-ATAT-AAAATTATAACAT
60880064 TACATAATATAAAATTATAAACAAT
1 T--ATAATATAAAATTAT-AAC-AT
*
60880089 TATAAAATAA
1 TATAATATAA
60880099 TATATAAGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
23 17 0.57
24 7 0.23
25 6 0.20
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (21 bp):
TATAATATAAAATTATAACAT
Found at i:60881537 original size:33 final size:33
Alignment explanation
Indices: 60881494--60881568 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
60881484 ATAGATATTA
*
60881494 AACATAAAGAACTAATGAACTACCATACCAATC
1 AACATTAAGAACTAATGAACTACCATACCAATC
60881527 AACATTAAGAACTAATGAACTACCATACCAATC
1 AACATTAAGAACTAATGAACTACCATACCAATC
60881560 AACATTAAG
1 AACATTAAG
60881569 GTGCAATCAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.51, C:0.23, G:0.07, T:0.20
Consensus pattern (33 bp):
AACATTAAGAACTAATGAACTACCATACCAATC
Found at i:60884997 original size:37 final size:37
Alignment explanation
Indices: 60884946--60885025 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
60884936 CTTATTACGA
* *
60884946 AGTCTTACCCGGACATAATCT-CCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAAT-TACCACACGAAGTCATCG
* *
60884983 GGTCTTACCCGGACAAAATTACCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATTACCACACGAAGTCATCG
60885020 AGTCTT
1 AGTCTT
60885026 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTACCACACGAAGTCATCG
Found at i:60885222 original size:47 final size:47
Alignment explanation
Indices: 60885144--60885732 Score: 971
Period size: 47 Copynumber: 12.4 Consensus size: 47
60885134 CCCTTCGGGA
* * * * * * *
60885144 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60885191 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60885238 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60885285 CTTATCACTTTTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60885334 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60885381 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60885428 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60885475 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60885524 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60885573 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60885620 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60885667 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60885714 CTTATCACATATATACACT
1 CTTATCACATATATACACT
60885733 GTCTTGGCTG
Statistics
Matches: 517, Mismatches: 21, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
47 377 0.73
49 140 0.27
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60885400 original size:143 final size:141
Alignment explanation
Indices: 60885144--60885732 Score: 971
Period size: 143 Copynumber: 4.1 Consensus size: 141
60885134 CCCTTCGGGA
* * * * * * * * *
60885144 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
60885209 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
60885274 GGCCATTAGGC
131 GGCCATTAGGC
* *
60885285 CTTATCACTTTTATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
60885350 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
60885415 TCGGCTATTAGGC
129 TCGGCCATTAGGC
*
60885428 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
60885493 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
60885558 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
*
60885573 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
60885638 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
60885703 GGCCATTAGGC
131 GGCCATTAGGC
60885714 CTTATCACATATATACACT
1 CTTATCACATATATACACT
60885733 GTCTTGGCTG
Statistics
Matches: 420, Mismatches: 22, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
141 109 0.26
143 220 0.52
145 91 0.22
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:60885561 original size:239 final size:239
Alignment explanation
Indices: 60885144--60885728 Score: 1030
Period size: 239 Copynumber: 2.5 Consensus size: 239
60885134 CCCTTCGGGA
* * * * * * * * * * *
60885144 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
60885209 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* * *
60885272 TCGGCCATTAGGCCTTATCACTTTTATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
60885337 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
60885381 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
60885446 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
60885511 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
60885576 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
60885620 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
60885685 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
60885729 CACTGTCTTG
Statistics
Matches: 332, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
237 91 0.27
239 241 0.73
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (239 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:60888450 original size:20 final size:20
Alignment explanation
Indices: 60888425--60888472 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
60888415 AGAGTAGGAA
* *
60888425 TATCGATACCTTAGGAAATG
1 TATCGATACCTTAAGAAAAG
60888445 TATCGATACCTTAAGAAAAG
1 TATCGATACCTTAAGAAAAG
60888465 TATCGATA
1 TATCGATA
60888473 TTGGATCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (20 bp):
TATCGATACCTTAAGAAAAG
Found at i:60903328 original size:17 final size:18
Alignment explanation
Indices: 60903306--60903339 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60903296 CACATTGAAG
60903306 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
60903323 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
60903340 CTTCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:60904631 original size:28 final size:28
Alignment explanation
Indices: 60904599--60904673 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
60904589 TGGCCCCTTT
**
60904599 AGGCCCAATTTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
60904627 AGGCCCAATCACTTTCATATGGCCCGTT
1 AGGCCCAATCACATTCATATGGCCCATC
60904655 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
60904674 GTCATGCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:60904906 original size:16 final size:16
Alignment explanation
Indices: 60904885--60904920 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
60904875 GTAGCCAAAC
60904885 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
60904901 TTTCAGCTTTTCGGTA
1 TTTCAGCTTTTCGGCA
60904917 TTTC
1 TTTC
60904921 GAGATTTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.17, T:0.50
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:60905206 original size:21 final size:21
Alignment explanation
Indices: 60905177--60905216 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
60905167 AACTAAACAC
*
60905177 AAGTGACTCGCAAATCATCTT
1 AAGTCACTCGCAAATCATCTT
**
60905198 AAGTCACTCTTAAATCATC
1 AAGTCACTCGCAAATCATC
60905217 CATGACCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (21 bp):
AAGTCACTCGCAAATCATCTT
Found at i:60914756 original size:27 final size:27
Alignment explanation
Indices: 60914725--60914779 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
60914715 CACCGATAAT
60914725 AGCCAACTAATCCCAAAAAAACTTCTA
1 AGCCAACTAATCCCAAAAAAACTTCTA
*
60914752 AGCCAACTAATCCTAAAAAAACTTCTA
1 AGCCAACTAATCCCAAAAAAACTTCTA
60914779 A
1 A
60914780 CTTCAGATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (27 bp):
AGCCAACTAATCCCAAAAAAACTTCTA
Found at i:60921251 original size:61 final size:61
Alignment explanation
Indices: 60921151--60921267 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
60921141 TTGGTCTAAT
** * * * * * * *
60921151 AACAAATTTGGCCCTTAATGTTTACCCATTTTCTTAATTTAGTGTTGATTTTAAAAATTTC
1 AACAAATTTAACCCTCAATGTTTACACAATTTATAAATTTAGTCTTGATTCTAAAAATTTC
*
60921212 AACAAATTTAACCCTCAATGTTTACACAATTTATAAATTTGGTCTTGATTCTAAAA
1 AACAAATTTAACCCTCAATGTTTACACAATTTATAAATTTAGTCTTGATTCTAAAA
60921268 TTTTAAAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (61 bp):
AACAAATTTAACCCTCAATGTTTACACAATTTATAAATTTAGTCTTGATTCTAAAAATTTC
Found at i:60921617 original size:18 final size:18
Alignment explanation
Indices: 60921594--60921628 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60921584 TAAATTATAA
* *
60921594 AATTAACTTAATAAAAAT
1 AATTAAATTAACAAAAAT
60921612 AATTAAATTAACAAAAA
1 AATTAAATTAACAAAAA
60921629 AAAATCGATG
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:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AATTAAATTAACAAAAAT
Found at i:60930256 original size:40 final size:40
Alignment explanation
Indices: 60930212--60930473 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
60930202 GCTCCTCGTT
* *
60930212 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
60930252 CAAATGCCCTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
60930292 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
60930331 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
60930370 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
60930409 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
60930450 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60930474 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.63
40 62 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:60938263 original size:40 final size:40
Alignment explanation
Indices: 60938219--60938480 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
60938209 GCTCCTCGTT
* *
60938219 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
60938259 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
60938299 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
60938338 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
60938377 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
60938416 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
60938457 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60938481 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:60940370 original size:80 final size:79
Alignment explanation
Indices: 60940286--60940457 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
60940276 GGACTAAGAT
*
60940286 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
60940350 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
60940366 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
60940431 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
60940445 CCGAAGGCATTTG
1 CCGAAGGCATTTG
60940458 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:60940437 original size:39 final size:39
Alignment explanation
Indices: 60940233--60940455 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
60940223 TTGAATGCTG
* * * * *
60940233 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
60940273 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
60940312 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
60940353 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
60940393 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
60940432 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
60940456 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:60940475 original size:79 final size:80
Alignment explanation
Indices: 60940313--60940490 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
60940303 AGATACAAAT
* * * *
60940313 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
60940378 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
60940393 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
60940457 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
60940472 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
60940491 TACGTGATTG
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:60948290 original size:80 final size:79
Alignment explanation
Indices: 60948206--60948377 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
60948196 GGACTAAGAT
*
60948206 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
60948270 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
60948286 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
60948351 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
60948365 CCGAAGGCATTTG
1 CCGAAGGCATTTG
60948378 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:60948357 original size:39 final size:39
Alignment explanation
Indices: 60948153--60948375 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
60948143 TTGAATGCTG
* * * * *
60948153 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
60948193 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
60948232 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
60948273 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
60948313 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
60948352 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
60948376 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:60948395 original size:79 final size:80
Alignment explanation
Indices: 60948233--60948410 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
60948223 AGATACAAAT
* * * *
60948233 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
60948298 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
60948313 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
60948377 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
60948392 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
60948411 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:60970658 original size:93 final size:93
Alignment explanation
Indices: 60970546--60970717 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
60970536 CCGCCATAAG
*
60970546 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
60970610 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
60970639 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
60970704 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
60970718 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:60970712 original size:46 final size:46
Alignment explanation
Indices: 60970539--60970714 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
60970529 ATGTAACCCG
* *
60970539 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
60970585 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
60970635 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
60970678 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
60970715 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:60972829 original size:39 final size:40
Alignment explanation
Indices: 60972734--60972956 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
60972724 TTGAATGATG
*
60972734 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
60972772 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
60972813 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
60972852 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
60972891 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
60972930 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
60972957 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 95 0.58
40 57 0.35
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:60972928 original size:79 final size:81
Alignment explanation
Indices: 60972734--60972956 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
60972724 TTGAATGATG
* * * *
60972734 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
60972796 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
60972813 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCGGGCTAAGACCCGAAGGCAT
60972874 TTGTGCGAGATACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
60972891 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
60972955 TG
66 TG
60972957 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 48 0.38
79 54 0.43
80 24 0.19
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:60980781 original size:39 final size:40
Alignment explanation
Indices: 60980686--60980908 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
60980676 TTGAATGATG
*
60980686 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
60980724 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
60980765 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
60980804 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
60980843 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
60980882 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
60980909 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:60980872 original size:79 final size:81
Alignment explanation
Indices: 60980686--60980908 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
60980676 TTGAATGATG
* * *
60980686 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
60980748 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
60980765 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
60980826 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
60980843 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
60980907 TG
66 TG
60980909 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:60980930 original size:79 final size:79
Alignment explanation
Indices: 60980686--60980941 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
60980676 TTGAATGATG
* * * *
60980686 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
60980747 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
60980765 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
60980829 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
60980843 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
60980906 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
60980923 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
60980942 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:60988502 original size:29 final size:29
Alignment explanation
Indices: 60988439--60988506 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
60988429 TAATCAACCG
*
60988439 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
60988468 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
60988497 CGCACACTTA
1 CGCACACTTA
60988507 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:60988676 original size:29 final size:29
Alignment explanation
Indices: 60988613--60988680 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
60988603 TAATCAACCG
60988613 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
60988642 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
60988671 CGCACACTTA
1 CGCACACTTA
60988681 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:60988821 original size:29 final size:30
Alignment explanation
Indices: 60988782--60988860 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
60988772 CTTAATAATC
60988782 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
60988812 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
60988841 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
60988861 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:60988854 original size:174 final size:174
Alignment explanation
Indices: 60988328--60988829 Score: 950
Period size: 174 Copynumber: 2.9 Consensus size: 174
60988318 AACTCAAGGT
* *
60988328 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
60988393 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
60988458 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
60988502 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
60988567 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
60988632 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
60988676 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
60988741 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
60988806 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
60988830 TGTACAATTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 320 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:60991616 original size:47 final size:47
Alignment explanation
Indices: 60991565--60991979 Score: 661
Period size: 47 Copynumber: 8.7 Consensus size: 47
60991555 TTAGGATTCT
* * *
60991565 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
60991612 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
60991659 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
60991706 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
60991753 ATCTGATGAATGTGAAAGTGTATTTATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTA--TATATGTGATAAGGCCTAATGGCCG
60991802 ATGTGATGAATGTGAAAGTGTATAAATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCG
60991851 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
60991898 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
60991945 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60991980 TCCCGAAGGG
Statistics
Matches: 346, Mismatches: 17, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 252 0.73
49 93 0.27
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:60991640 original size:25 final size:25
Alignment explanation
Indices: 60991612--60991690 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
60991602 CTAATGGCCG
60991612 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
60991637 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
60991659 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
60991684 ATGTGAT
1 ATGTGAT
60991691 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:60992154 original size:37 final size:37
Alignment explanation
Indices: 60992098--60992176 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
60992088 CCGAGCTCTA
* * *
60992098 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
60992135 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60992172 AAGAC
1 AAGAC
60992177 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60993630 original size:48 final size:48
Alignment explanation
Indices: 60993578--60993764 Score: 259
Period size: 48 Copynumber: 3.9 Consensus size: 48
60993568 TCATGTCAGT
* * * *
60993578 GCCGATGCCACGTCCCGGACATGGTCTTACACTAGCACATATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAC
* *
60993626 GCCGATGCCATGTCCCAGACATGGCCTTACACTGGCTCACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAC
** * *
60993674 ATCGATGCCATGTCTCAGACAGGGTCTTACACT-GACTCACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCACATATCAAC
*
60993722 GCCGATGCCATGTCCCATACATGGTCTTACACTAGCTCACATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA
60993765 AACCACTGTG
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
47 1 0.01
48 119 0.98
49 1 0.01
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.23
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAC
Found at i:60995615 original size:14 final size:13
Alignment explanation
Indices: 60995592--60995632 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
60995582 ATTTCAACTA
60995592 ATTTTTTTTATAT
1 ATTTTTTTTATAT
60995605 ATTTTTCTTTATAT
1 ATTTTT-TTTATAT
*
60995619 ATAATTTTTTATAT
1 AT-TTTTTTTATAT
60995633 GTAAATATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 6 0.24
14 16 0.64
15 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTTTTTATAT
Found at i:61000033 original size:46 final size:46
Alignment explanation
Indices: 60999980--61000155 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
60999970 TATTTGGGCA
*
60999980 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
61000026 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
61000073 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
61000119 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61000156 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:61000129 original size:93 final size:93
Alignment explanation
Indices: 60999976--61000147 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
60999966 GGGATATTTG
* * *
60999976 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
61000041 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
61000069 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
61000134 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
61000148 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:61011186 original size:21 final size:20
Alignment explanation
Indices: 61011158--61011196 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
61011148 ATGCATATTT
61011158 TGAAGTTTCTTAATAGATTA
1 TGAAGTTTCTTAATAGATTA
* *
61011178 TGAATGTTTGTTGATAGAT
1 TGAA-GTTTCTTAATAGAT
61011197 ATAAAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTAATAGATTA
Found at i:61014590 original size:28 final size:28
Alignment explanation
Indices: 61014533--61014685 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
61014523 TAAATTGTGC
* *
61014533 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
61014560 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
61014588 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
61014616 AGCACTAAGTGTACGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * *
61014644 AGCACTAGGTGTGCGAG-CTGATTATCT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
61014671 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61014686 GACTTAATAT
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 37 0.32
28 77 0.68
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:61014682 original size:83 final size:83
Alignment explanation
Indices: 61014533--61014685 Score: 227
Period size: 83 Copynumber: 1.8 Consensus size: 83
61014523 TAAATTGTGC
* * *
61014533 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTACGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATCTAGCACTAAGT
61014598 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
61014616 AGCACTAAGTGTACGAGTTTGATTATGTAGCACTAGGTGTGCGAG-CTGATTATCTAGCACTGAG
1 AGCACTAAGTGTACGA-ATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATCTAGCACTAAG
61014680 TGTGCG
65 TGTGCG
61014686 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
83 37 0.60
84 25 0.40
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTACGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATCTAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:61019173 original size:12 final size:12
Alignment explanation
Indices: 61019156--61019185 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
61019146 TATAGGTTTG
61019156 ACACGGCCTAAC
1 ACACGGCCTAAC
*
61019168 ACACGGCCTAGC
1 ACACGGCCTAAC
61019180 ACACGG
1 ACACGG
61019186 GCGTGGGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAAC
Found at i:61021689 original size:19 final size:18
Alignment explanation
Indices: 61021658--61021717 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 18
61021648 TCCAATGGGT
*
61021658 AATTGAACTTGAGATCAAA
1 AATTGAAC-TGAGACCAAA
61021677 AATTGGAACTGAGAACCAAA
1 AATT-GAACTGAG-ACCAAA
*
61021697 AACTGAGACTGAGACCAAA
1 AATTGA-ACTGAGACCAAA
61021716 AA
1 AA
61021718 CTGGTTGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.17
Consensus pattern (18 bp):
AATTGAACTGAGACCAAA
Found at i:61022112 original size:20 final size:18
Alignment explanation
Indices: 61022031--61022105 Score: 55
Period size: 20 Copynumber: 4.0 Consensus size: 18
61022021 GATAGTATTT
*
61022031 TATTAATTTAATATTAAA
1 TATTAATTTAAGATTAAA
*
61022049 GTGATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAAGATTAAA
* *
61022069 T-TAAATTTAATAGATTTAA
1 TATTAATTT-A-AGATTAAA
61022088 TATTAATTTAAGATTAAA
1 TATTAATTTAAGATTAAA
61022106 GTGATTACGT
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
17 3 0.07
18 10 0.22
19 12 0.27
20 20 0.44
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (18 bp):
TATTAATTTAAGATTAAA
Found at i:61029006 original size:17 final size:16
Alignment explanation
Indices: 61028980--61029011 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
61028970 TGTGGAACAG
61028980 AAATGTAGAAGAGTAA
1 AAATGTAGAAGAGTAA
61028996 AAATGGTAGAAGAGTA
1 AAAT-GTAGAAGAGTA
61029012 TGACACTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.19
Consensus pattern (16 bp):
AAATGTAGAAGAGTAA
Found at i:61030839 original size:13 final size:13
Alignment explanation
Indices: 61030821--61030845 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61030811 TATCTAGACC
61030821 CCTAAATGTATGA
1 CCTAAATGTATGA
61030834 CCTAAATGTATG
1 CCTAAATGTATG
61030846 TGATGCATGA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CCTAAATGTATGA
Found at i:61034959 original size:45 final size:45
Alignment explanation
Indices: 61034909--61034994 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
61034899 CCAAAACATG
61034909 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGGA
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGGA
*
61034954 TGTCACATATATCATGAACTCAGACCATAACTCAATGAGTT
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTT
61034995 TAGATTACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (45 bp):
TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGGA
Found at i:61035655 original size:20 final size:21
Alignment explanation
Indices: 61035624--61035669 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
61035614 TTCACTAAAA
61035624 ATCACTTAGTAAAATATGTTT
1 ATCACTTAGTAAAATATGTTT
61035645 ATCAC-TAGTAAAATATGTTT
1 ATCACTTAGTAAAATATGTTT
61035665 ATCAC
1 ATCAC
61035670 ACATCAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (21 bp):
ATCACTTAGTAAAATATGTTT
Found at i:61053925 original size:20 final size:19
Alignment explanation
Indices: 61053874--61053925 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
61053864 GGAGTGTTAC
61053874 AATTAGGAG-TTTTTACTT
1 AATTAGGAGATTTTTACTT
* *
61053892 AGTTA--AGATGTTTACCTT
1 AATTAGGAGATTTTTA-CTT
61053910 AATTAGGAGATTTTTA
1 AATTAGGAGATTTTTA
61053926 TCTATTAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
16 2 0.08
17 5 0.19
18 11 0.42
20 8 0.31
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (19 bp):
AATTAGGAGATTTTTACTT
Found at i:61057850 original size:37 final size:37
Alignment explanation
Indices: 61057799--61057874 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
61057789 ATGATCAATG
*
61057799 TTGTTGTGATTAGCCA-AATG-TATTGGCTTATAATGAT
1 TTGTTGTGATTAGCCATGA-GATA-TGGCTTATAATGAT
61057836 TTGTTGT-ATGTAGCCATGAGATATGGCTTATAATGAT
1 TTGTTGTGAT-TAGCCATGAGATATGGCTTATAATGAT
61057873 TT
1 TT
61057875 TGTCTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 2 0.06
37 30 0.86
38 3 0.09
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.43
Consensus pattern (37 bp):
TTGTTGTGATTAGCCATGAGATATGGCTTATAATGAT
Found at i:61064400 original size:40 final size:40
Alignment explanation
Indices: 61064168--61064393 Score: 291
Period size: 40 Copynumber: 5.7 Consensus size: 40
61064158 TCGAATGATG
* *
61064168 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
61064208 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61064248 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61064288 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61064328 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
61064369 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61064394 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 161 0.94
41 9 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61064411 original size:80 final size:79
Alignment explanation
Indices: 61064179--61064426 Score: 272
Period size: 80 Copynumber: 3.1 Consensus size: 79
61064169 CCGGGCTAAG
* * * **
61064179 TCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTA
1 TCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTA
* *
61064243 CTAAATTCGGACTAAGA
65 CTAAATCCGG-TTAA-A
**
61064260 T-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAC
1 TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTAC
*
61064324 TAAATCCGGGTTAAG
66 TAAATCC-GGTTAAA
* *
61064339 TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-T
1 TCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTT
*
61064401 AGCTATATCCGGTTAAA
64 A-CTAAATCCGGTTAAA
*
61064418 TTCCGAAGG
1 TCCCGAAGG
61064427 TACGTGATTC
Statistics
Matches: 148, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
79 18 0.12
80 118 0.80
81 12 0.08
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTAC
TAAATCCGGTTAAA
Found at i:61067900 original size:67 final size:65
Alignment explanation
Indices: 61067787--61068004 Score: 228
Period size: 64 Copynumber: 3.4 Consensus size: 65
61067777 AATACTTAGT
* * * *
61067787 ACCACCCATGTGACCTAGC--CAGTTTATCTCGTAGCTCTCTTGTCTACATAGTGTCCTTCACTT
1 ACCACCCATGTGACCTAGCTACA-TATATCCCGTAGCTCTCTTGTCTACAT-GTGT-CTACACAT
*
61067850 GGA
63 AGA
* * *
61067853 ACCACGCATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATG-GTGTACACATAGT
1 ACCACCCATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGTGTCTACACATAGA
* * * * * *
61067917 ATCACCCATGCGACCTAGCTATATATATCCCATAGCTCTCTTGTCTACATG-GTGTACACATAGT
1 ACCACCCATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGTGTCTACACATAGA
* * *
61067981 ATCATCCATGCGACCTAGCTACAT
1 ACCACCCATGTGACCTAGCTACAT
61068005 CATAATGTCT
Statistics
Matches: 135, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
64 87 0.64
65 2 0.01
66 19 0.14
67 25 0.19
68 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (65 bp):
ACCACCCATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGTGTCTACACATAGA
Found at i:61067953 original size:64 final size:64
Alignment explanation
Indices: 61067859--61068004 Score: 256
Period size: 64 Copynumber: 2.3 Consensus size: 64
61067849 TGGAACCACG
* *
61067859 CATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACC
1 CATGCGACCTAGCTACATATATCCCATAGCTCTCTTGTCTACATGGTGTACACATAGTATCACC
* *
61067923 CATGCGACCTAGCTATATATATCCCATAGCTCTCTTGTCTACATGGTGTACACATAGTATCATC
1 CATGCGACCTAGCTACATATATCCCATAGCTCTCTTGTCTACATGGTGTACACATAGTATCACC
61067987 CATGCGACCTAGCTACAT
1 CATGCGACCTAGCTACAT
61068005 CATAATGTCT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 77 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (64 bp):
CATGCGACCTAGCTACATATATCCCATAGCTCTCTTGTCTACATGGTGTACACATAGTATCACC
Found at i:61068773 original size:30 final size:30
Alignment explanation
Indices: 61068739--61068799 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
61068729 TCCTTAACTC
61068739 AAACTTTAGCAAAATTACAATTTTGCCCCT
1 AAACTTTAGCAAAATTACAATTTTGCCCCT
* * * * *
61068769 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTAGCAAAATTACAATTTTGCCCCT
61068799 A
1 A
61068800 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTAGCAAAATTACAATTTTGCCCCT
Done.