Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004917.1 Hibiscus syriacus cultivar Beakdansim tig00011072_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 109818
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:3277 original size:12 final size:12
Alignment explanation
Indices: 3262--3307 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
3252 ATAAAACAAA
3262 AAATAAAAAATT
1 AAATAAAAAATT
3274 AAATAAAAAATT
1 AAATAAAAAATT
*
3286 -AATAAATAATAT
1 AAATAAAAAAT-T
3298 ATAATAAAAA
1 A-AATAAAAA
3308 CTACTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 9 0.31
12 13 0.45
14 7 0.24
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAATAAAAAATT
Found at i:3333 original size:18 final size:18
Alignment explanation
Indices: 3303--3367 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 18
3293 AATATATAAT
3303 AAAAACTACTATAATTTTC
1 AAAAACTA-TATAATTTTC
3322 AAAAACTATATATATGTTTC
1 AAAAACTATATA-AT-TTTC
*
3342 AAAAATTATAT-ATTTTC
1 AAAAACTATATAATTTTC
3359 -AAAACTATA
1 AAAAACTATA
3368 CTATATATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 8 0.19
17 4 0.10
18 6 0.14
19 10 0.24
20 14 0.33
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (18 bp):
AAAAACTATATAATTTTC
Found at i:3335 original size:20 final size:19
Alignment explanation
Indices: 3303--3373 Score: 87
Period size: 19 Copynumber: 3.8 Consensus size: 19
3293 AATATATAAT
3303 AAAAACTACTATA-ATTTTC
1 AAAAACTA-TATATATTTTC
3322 AAAAACTATATATATGTTTC
1 AAAAACTATATATAT-TTTC
3342 AAAAA-T-TATATATTTTC
1 AAAAACTATATATATTTTC
3359 -AAAACTATACTATAT
1 AAAAACTATA-TATAT
3374 ATGTTTTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.09
17 5 0.11
18 13 0.28
19 16 0.34
20 9 0.19
ACGTcount: A:0.48, C:0.11, G:0.01, T:0.39
Consensus pattern (19 bp):
AAAAACTATATATATTTTC
Found at i:3335 original size:37 final size:35
Alignment explanation
Indices: 3294--3374 Score: 83
Period size: 37 Copynumber: 2.2 Consensus size: 35
3284 TTAATAAATA
3294 ATATATAAT-AAAAACTACTATAATTTTCAAAAACTAT
1 ATATATAATCAAAAACTA-TAT-ATTTTC-AAAACTAT
** *
3331 ATATATGTTTCAAAAATTATATATTTTCAAAACTAT
1 ATATAT-AATCAAAAACTATATATTTTCAAAACTAT
3367 ACTATATA
1 A-TATATA
3375 TGTTTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
36 9 0.24
37 17 0.46
38 4 0.11
39 7 0.19
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (35 bp):
ATATATAATCAAAAACTATATATTTTCAAAACTAT
Found at i:3391 original size:14 final size:14
Alignment explanation
Indices: 3372--3399 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3362 ACTATACTAT
3372 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
3386 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
3400 CTATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
ATATGTTTTCAAAA
Found at i:3412 original size:21 final size:21
Alignment explanation
Indices: 3386--3427 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3376 GTTTTCAAAA
*
3386 ATATGTTTTCAAAACTATATT
1 ATATGTTTTCAAAAATATATT
3407 ATATGTTTTCAAAAATATATT
1 ATATGTTTTCAAAAATATATT
3428 TCAAAAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (21 bp):
ATATGTTTTCAAAAATATATT
Found at i:3417 original size:35 final size:35
Alignment explanation
Indices: 3317--3445 Score: 149
Period size: 35 Copynumber: 3.6 Consensus size: 35
3307 ACTACTATAA
3317 TTTTCAAAAACTATA-TATATG-TTTCAAAAATTATAT
1 TTTTCAAAAACTATATTATATGTTTTC-AAAA--ATAT
3353 ATTTTC-AAAACTATACTATATATGTTTTCAAAAATAT
1 -TTTTCAAAAACTATA-T-TATATGTTTTCAAAAATAT
3390 GTTTTC-AAAACTATATTATATGTTTTCAAAAATAT
1 -TTTTCAAAAACTATATTATATGTTTTCAAAAATAT
* *
3425 ATTTCAAAAACTATACTATAT
1 TTTTCAAAAACTATATTATAT
3446 TAAAAACTTT
Statistics
Matches: 84, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
34 4 0.05
35 33 0.39
36 10 0.12
37 23 0.27
39 10 0.12
40 4 0.05
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.43
Consensus pattern (35 bp):
TTTTCAAAAACTATATTATATGTTTTCAAAAATAT
Found at i:3452 original size:17 final size:16
Alignment explanation
Indices: 3421--3463 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
3411 GTTTTCAAAA
3421 ATATAT-TTCAAAAACT
1 ATATATATT-AAAAACT
3437 ATACTATATTAAAAACT
1 ATA-TATATTAAAAACT
*
3454 TTATATATTA
1 ATATATATTA
3464 TATTTTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 10 0.42
17 12 0.50
18 2 0.08
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATATTAAAAACT
Found at i:13004 original size:14 final size:15
Alignment explanation
Indices: 12985--13030 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
12975 GTTTCCCTTG
12985 ATTTTT-CGATGCTT
1 ATTTTTGCGATGCTT
*
12999 ATTTTTGTGATGCTT
1 ATTTTTGCGATGCTT
* *
13014 ATTTTTGTGATACTT
1 ATTTTTGCGATGCTT
13029 AT
1 AT
13031 GGTTTGGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 6 0.21
15 23 0.79
ACGTcount: A:0.17, C:0.09, G:0.15, T:0.59
Consensus pattern (15 bp):
ATTTTTGCGATGCTT
Found at i:13004 original size:15 final size:15
Alignment explanation
Indices: 12992--13030 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
12982 TTGATTTTTC
12992 GATGCTTATTTTTGT
1 GATGCTTATTTTTGT
13007 GATGCTTATTTTTGT
1 GATGCTTATTTTTGT
*
13022 GATACTTAT
1 GATGCTTAT
13031 GGTTTGGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.56
Consensus pattern (15 bp):
GATGCTTATTTTTGT
Found at i:13686 original size:19 final size:19
Alignment explanation
Indices: 13664--13730 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
13654 TAAAAAATTA
*
13664 AATAAATAATATAATAAAC
1 AATATATAATATAATAAAC
*
13683 AATATAT-A-ATAATAAAT
1 AATATATAATATAATAAAC
*
13700 AACATATAATATAATAAA-
1 AATATATAATATAATAAAC
*
13718 AACTATATTATAT
1 AA-TATATAATAT
13731 TTTCAAAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 14 0.35
18 4 0.10
19 22 0.55
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATATAATATAATAAAC
Found at i:13724 original size:17 final size:18
Alignment explanation
Indices: 13669--13729 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 18
13659 AATTAAATAA
13669 ATAATATAATAAACAA-T
1 ATAATATAATAAACAACT
*
13686 AT-ATAATAATAAATAACAT
1 ATAAT-ATAATAAACAAC-T
13705 ATAATATAATAAA-AACT
1 ATAATATAATAAACAACT
*
13722 ATATTATA
1 ATAATATA
13730 TTTTCAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 2 0.05
17 20 0.53
18 3 0.08
19 11 0.29
20 2 0.05
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATATAATAAACAACT
Found at i:13746 original size:17 final size:17
Alignment explanation
Indices: 13726--13784 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 17
13716 AAAACTATAT
13726 TATATTTTCAAAAACTATA
1 TATATTTTCAAAAAC--TA
*
13745 TATTACGTTTTCAAAAATTA
1 TA-TA--TTTTCAAAAACTA
13765 TATATTTTCAAAAACTA
1 TATATTTTCAAAAACTA
13782 TAT
1 TAT
13785 TATATATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 15 0.43
19 4 0.11
20 6 0.17
22 10 0.29
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (17 bp):
TATATTTTCAAAAACTA
Found at i:13746 original size:22 final size:22
Alignment explanation
Indices: 13721--13801 Score: 82
Period size: 22 Copynumber: 3.8 Consensus size: 22
13711 TAATAAAAAC
13721 TATATTATATTTTCAAAAACTA
1 TATATTATATTTTCAAAAACTA
**
13743 TATATTACGTTTTC-AAAA--A
1 TATATTATATTTTCAAAAACTA
13762 T-TA-TATATTTTCAAAAACTA
1 TATATTATATTTTCAAAAACTA
*
13782 TATTATATATGTTTTCAAAA
1 TA-TAT-TATATTTTCAAAA
13802 TCGTTTAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
17 7 0.15
18 6 0.13
19 2 0.04
20 2 0.04
21 4 0.09
22 14 0.30
24 12 0.26
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (22 bp):
TATATTATATTTTCAAAAACTA
Found at i:13765 original size:37 final size:37
Alignment explanation
Indices: 13726--14007 Score: 284
Period size: 35 Copynumber: 7.7 Consensus size: 37
13716 AAAACTATAT
*
13726 TATATTTTCAAAAACTATATAT-TACGTTTTCAAAAATTA
1 TATATTTTCAAAAACTATATATATATGTTTTC-AAAA--A
13765 TATATTTTCAAAAACTATATTATATATGTTTTC--AAA
1 TATATTTTCAAAAACTATA-TATATATGTTTTCAAAAA
** * *
13801 -ATCGTTTAAAAAACTATATATTATATGTTTTTAAAAAA
1 TATATTTTCAAAAACTATATA-TATATG-TTTTCAAAAA
* *
13839 GATGTTTTCAAAAACTATATTATATATGTTTTCAAAAA
1 TATATTTTCAAAAACTATA-TATATATGTTTTCAAAAA
*
13877 T-TGTTTT--AAAAC--TATATATATGTTTTCAAAAA
1 TATATTTTCAAAAACTATATATATATGTTTTCAAAAA
*
13909 GATA-TTTCAAAAACTATATTATATATGTTTTCAAAAA
1 TATATTTTCAAAAACTATA-TATATATGTTTTCAAAAA
* *
13946 T-CATTTT--AAAACTTTATATTATATGTTTTCAAAAA
1 TATATTTTCAAAAACTATATA-TATATGTTTTCAAAAA
13981 TATATTTTCAAAAACTATACTATATAT
1 TATATTTTCAAAAACTATA-TATATAT
14008 TGAAAAACTA
Statistics
Matches: 206, Mismatches: 17, Indels: 41
0.78 0.06 0.16
Matches are distributed among these distances:
32 21 0.10
33 3 0.01
34 9 0.04
35 51 0.25
36 13 0.06
37 27 0.13
38 27 0.13
39 42 0.20
40 5 0.02
41 8 0.04
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (37 bp):
TATATTTTCAAAAACTATATATATATGTTTTCAAAAA
Found at i:13819 original size:74 final size:73
Alignment explanation
Indices: 13735--14007 Score: 353
Period size: 74 Copynumber: 3.8 Consensus size: 73
13725 TTATATTTTC
* *
13735 AAAAACTATATA-T-TACGTTTTCAAAAATTATATATTTTCAAAAACTATATTATATATGTTTTC
1 AAAAACTATATATTATATGTTTTC-AAAA--AGATATTTTCAAAAACTATATTATATATGTTTTC
13798 -AAAATCGTTT
63 AAAAATCGTTT
* *
13808 AAAAAACTATATATTATATGTTTTTAAAAAAGATGTTTTCAAAAACTATATTATATATGTTTTCA
1 -AAAAACTATATATTATATG-TTTTCAAAAAGATATTTTCAAAAACTATATTATATATGTTTTCA
*
13873 AAAATTGTTT
64 AAAATCGTTT
*
13883 TAAAAC--TATA-TATATGTTTTCAAAAAGATA-TTTCAAAAACTATATTATATATGTTTTCAAA
1 AAAAACTATATATTATATGTTTTCAAAAAGATATTTTCAAAAACTATATTATATATGTTTTCAAA
*
13944 AATCATTT
66 AATCGTTT
* * * *
13952 TAAAACTTTATATTATATGTTTTCAAAAATATATTTTCAAAAACTATACTATATAT
1 AAAAACTATATATTATATGTTTTCAAAAAGATATTTTCAAAAACTATATTATATAT
14008 TGAAAAACTA
Statistics
Matches: 179, Mismatches: 12, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
69 43 0.24
70 12 0.07
71 10 0.06
72 23 0.13
73 21 0.12
74 49 0.27
75 10 0.06
76 7 0.04
77 4 0.02
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (73 bp):
AAAAACTATATATTATATGTTTTCAAAAAGATATTTTCAAAAACTATATTATATATGTTTTCAAA
AATCGTTT
Found at i:13999 original size:15 final size:14
Alignment explanation
Indices: 13966--13999 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13956 ACTTTATATT
*
13966 ATATGTTTTCAAAA
1 ATATATTTTCAAAA
13980 ATATATTTTCAAAA
1 ATATATTTTCAAAA
13994 ACTATA
1 A-TATA
14000 CTATATATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (14 bp):
ATATATTTTCAAAA
Found at i:14007 original size:22 final size:19
Alignment explanation
Indices: 13980--14025 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
13970 GTTTTCAAAA
*
13980 ATATATTTTCAAAAACTAT
1 ATATATATTCAAAAACTAT
*
13999 ACTATATATTGAAAAACTAT
1 A-TATATATTCAAAAACTAT
14019 ATATATA
1 ATATATA
14026 CATTTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (19 bp):
ATATATATTCAAAAACTAT
Found at i:14893 original size:38 final size:35
Alignment explanation
Indices: 14851--15061 Score: 152
Period size: 38 Copynumber: 6.0 Consensus size: 35
14841 GTTTTTGAAA
14851 ATATATTATATAGTTTTGAAAACGATTTTTGAAAAGAT
1 ATATATTATATAGTTTTGAAAAC-A-TTTTGAAAA-AT
*
14889 ATATATTATATAGTTTTGAAAATTAGTTTT-AAAAAT
1 ATATATTATATAGTTTTGAAAA-CA-TTTTGAAAAAT
*
14925 ATATATTTATTATAGTTTTGAAAACATTTTG-AATAT
1 ATATA-TTA-TATAGTTTTGAAAACATTTTGAAAAAT
* * * * * *
14961 ATATA-TATATA--TAT--ATATATATAT-ATATAT
1 ATATATTATATAGTTTTGAAAACAT-TTTGAAAAAT
*
14991 ATATATAATATAGTTTTTGAAAACATTTTG-AAAAT
1 ATATATTATATAG-TTTTGAAAACATTTTGAAAAAT
* * * * *
15026 ATAAAATATATGGTTTTAAAAACATTTTGGAAAAT
1 ATATATTATATAGTTTTGAAAACATTTTGAAAAAT
15061 A
1 A
15062 AAAATAATAT
Statistics
Matches: 138, Mismatches: 21, Indels: 31
0.73 0.11 0.16
Matches are distributed among these distances:
29 4 0.03
30 11 0.08
31 7 0.05
33 4 0.03
34 19 0.14
35 20 0.14
36 24 0.17
37 8 0.06
38 41 0.30
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (35 bp):
ATATATTATATAGTTTTGAAAACATTTTGAAAAAT
Found at i:14964 original size:2 final size:2
Alignment explanation
Indices: 14957--15002 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
14947 AACATTTTGA
14957 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14998 AT AT A
1 AT AT A
15003 GTTTTTGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15053 original size:34 final size:34
Alignment explanation
Indices: 14991--15067 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
14981 ATATATATAT
* * *
14991 ATATATAATATAGTTTTTGAAAACATTTT-GAAA
1 ATATAAAATATAGGTTTTAAAAACATTTTGGAAA
15024 ATATAAAATATATGGTTTTAAAAACATTTTGGAAA
1 ATATAAAATATA-GGTTTTAAAAACATTTTGGAAA
15059 ATA-AAAATA
1 ATATAAAATA
15068 ATATTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
33 11 0.28
34 21 0.54
35 7 0.18
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.38
Consensus pattern (34 bp):
ATATAAAATATAGGTTTTAAAAACATTTTGGAAA
Found at i:15086 original size:12 final size:13
Alignment explanation
Indices: 15069--15118 Score: 63
Period size: 12 Copynumber: 4.1 Consensus size: 13
15059 ATAAAAATAA
15069 TATTATT-TTTAT
1 TATTATTATTTAT
15081 TATTATTATTTA-
1 TATTATTATTTAT
15093 TATTATTATTTAT
1 TATTATTATTTAT
15106 T-TT-TTATATTAT
1 TATTATTAT-TTAT
15118 T
1 T
15119 GCTTATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.11
12 26 0.74
13 5 0.14
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTATTATTTAT
Found at i:15124 original size:19 final size:19
Alignment explanation
Indices: 15077--15131 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
15067 AATATTATTT
*
15077 TTATTA-TTATTATTTATA
1 TTATTACTTATTTTTTATA
*
15095 TTATTATTTATTTTTTATA
1 TTATTACTTATTTTTTATA
*
15114 TTATTGCTTATTTATTTA
1 TTATTACTTATTT-TTTA
15132 ATTTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 6 0.19
19 22 0.69
20 4 0.12
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTATTACTTATTTTTTATA
Found at i:15733 original size:20 final size:20
Alignment explanation
Indices: 15701--15744 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15691 GAGTCATTGT
*
15701 CGAA-CCAAGGTAAGAAAAC
1 CGAACCCAAGGTAAGAAAAA
*
15720 CGAACCCAATGTAAGAAAAA
1 CGAACCCAAGGTAAGAAAAA
15740 CGAAC
1 CGAAC
15745 GGTTTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.52, C:0.23, G:0.18, T:0.07
Consensus pattern (20 bp):
CGAACCCAAGGTAAGAAAAA
Found at i:16240 original size:10 final size:10
Alignment explanation
Indices: 16225--16254 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
16215 TAATCTATCA
16225 ATTTCAATTT
1 ATTTCAATTT
16235 ATTTCAATTT
1 ATTTCAATTT
16245 ATTTCAATTT
1 ATTTCAATTT
16255 GATCCTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTCAATTT
Found at i:16320 original size:9 final size:9
Alignment explanation
Indices: 16306--16338 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
16296 TTTAGTATGT
16306 TTTTTTTTA
1 TTTTTTTTA
16315 -TTTTTTTA
1 TTTTTTTTA
*
16323 TTTGTTTTA
1 TTTTTTTTA
16332 TTTTTTT
1 TTTTTTT
16339 ACTTCTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:16350 original size:18 final size:17
Alignment explanation
Indices: 16310--16354 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
16300 GTATGTTTTT
* *
16310 TTTTATTTTTTTATTTG
1 TTTTATTTTTTTACTTC
16327 TTTTATTTTTTTACTTC
1 TTTTATTTTTTTACTTC
16344 TTATTATTTTT
1 TT-TTATTTTT
16355 ATTTTATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTATTTTTTTACTTC
Found at i:16375 original size:23 final size:24
Alignment explanation
Indices: 16327--16375 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
16317 TTTTTATTTG
* **
16327 TTTTATTTTTTTACTTCTTATTAT
1 TTTTATTTTATTACTTCTTAAAAT
16351 TTTTATTTTATTACTT-TTAAAAT
1 TTTTATTTTATTACTTCTTAAAAT
16374 TT
1 TT
16376 AACATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTATTTTATTACTTCTTAAAAT
Found at i:16416 original size:26 final size:25
Alignment explanation
Indices: 16381--16450 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 25
16371 AATTTAACAT
16381 TTTTATTTTATTTTATTTTTCCCTTTG
1 TTTTA-TTTA-TTTATTTTTCCCTTTG
* *
16408 TTTTATTTAATATATTTTTTCCTTTG
1 TTTTATTT-ATTTATTTTTCCCTTTG
*
16434 ATTTATTTATTTATTTT
1 TTTTATTTATTTATTTT
16451 ATTTTTTCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 8 0.21
26 24 0.63
27 6 0.16
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (25 bp):
TTTTATTTATTTATTTTTCCCTTTG
Found at i:16426 original size:27 final size:25
Alignment explanation
Indices: 16394--16478 Score: 82
Period size: 30 Copynumber: 3.2 Consensus size: 25
16384 TATTTTATTT
* *
16394 TATTTTTCCCTTTGTTTTATTTAATA
1 TATTTTTTCCTTTGATTTATTT-ATA
16420 TATTTTTTCCTTTGATTTATTTATTTA
1 TATTTTTTCCTTTGATTTATTTA--TA
*
16447 TTTTATTTTTTCCATTGATTTATTTA-A
1 ---TATTTTTTCCTTTGATTTATTTATA
16474 TATTT
1 TATTT
16479 ATTTATTATT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
24 5 0.10
25 1 0.02
26 20 0.39
27 3 0.06
30 22 0.43
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.68
Consensus pattern (25 bp):
TATTTTTTCCTTTGATTTATTTATA
Found at i:16445 original size:30 final size:30
Alignment explanation
Indices: 16409--16472 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
16399 TTCCCTTTGT
*
16409 TTTATTTAATATATTTTTTCCTTTGATTTA
1 TTTATTTAATATATTTTTTCCATTGATTTA
* *
16439 TTTATTTATTTTATTTTTTCCATTGATTTA
1 TTTATTTAATATATTTTTTCCATTGATTTA
16469 TTTA
1 TTTA
16473 ATATTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (30 bp):
TTTATTTAATATATTTTTTCCATTGATTTA
Found at i:16467 original size:26 final size:26
Alignment explanation
Indices: 16382--16482 Score: 85
Period size: 26 Copynumber: 3.6 Consensus size: 26
16372 ATTTAACATT
* * *
16382 TTTATTTTATTTTATTTTTCCCTTTGT
1 TTTA-TTTATTTTATTTTTTCCATTGA
* * *
16409 TTTATTTAATATATTTTTTCCTTTGATTTA
1 TTTATTTATTTTATTTTTTCC----ATTGA
16439 TTTATTTATTTTATTTTTTCCATTGA
1 TTTATTTATTTTATTTTTTCCATTGA
16465 TTTATTTAATATTTATTT
1 TTTATTT-AT-TTTATTT
16483 ATTATTTCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
26 25 0.42
27 6 0.10
28 7 0.12
30 21 0.36
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (26 bp):
TTTATTTATTTTATTTTTTCCATTGA
Found at i:16468 original size:17 final size:17
Alignment explanation
Indices: 16420--16471 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
16410 TTATTTAATA
*
16420 TATTTTTTCCTTTGATT
1 TATTTTTTCCATTGATT
16437 TATTTATTT--A-T--TT
1 TATTT-TTTCCATTGATT
16450 TATTTTTTCCATTGATT
1 TATTTTTTCCATTGATT
16467 TATTT
1 TATTT
16472 AATATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 12
0.68 0.02 0.29
Matches are distributed among these distances:
12 3 0.11
13 7 0.25
14 1 0.04
15 2 0.07
17 12 0.43
18 3 0.11
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.71
Consensus pattern (17 bp):
TATTTTTTCCATTGATT
Found at i:21024 original size:47 final size:46
Alignment explanation
Indices: 20968--21066 Score: 150
Period size: 47 Copynumber: 2.2 Consensus size: 46
20958 ATTTTTGAAA
20968 ATATATATAT-TA-TATAGTTTTGAAAATGAATTTTGAATATATATT
1 ATATATATATATATTATAGTTTTGAAAATGAATTTTGAATATATA-T
* *
21013 ATATATATATATATTATAGTTTTGAAAATTATTTTTGAATATATAT
1 ATATATATATATATTATAGTTTTGAAAATGAATTTTGAATATATAT
21059 ATAT-TATA
1 ATATATATA
21067 GTTTTGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
45 14 0.28
46 7 0.14
47 29 0.58
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (46 bp):
ATATATATATATATTATAGTTTTGAAAATGAATTTTGAATATATAT
Found at i:21036 original size:34 final size:35
Alignment explanation
Indices: 20998--21076 Score: 108
Period size: 36 Copynumber: 2.3 Consensus size: 35
20988 TGAAAATGAA
*
20998 TTTTGAATA-TATATTAT-ATATATATATATTATAG
1 TTTTGAAAATTAT-TTATAATATATATATATTATAG
*
21032 TTTTGAAAATTATTTTTGAATATATATATATTATAG
1 TTTTGAAAATTATTTAT-AATATATATATATTATAG
21068 TTTTGAAAA
1 TTTTGAAAA
21077 CATTTTGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 11 0.28
35 3 0.08
36 26 0.65
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.52
Consensus pattern (35 bp):
TTTTGAAAATTATTTATAATATATATATATTATAG
Found at i:21083 original size:34 final size:35
Alignment explanation
Indices: 21013--21156 Score: 166
Period size: 36 Copynumber: 4.0 Consensus size: 35
21003 AATATATATT
*
21013 ATATATATATATATTATAGTTTTGAAAATTATTTTTGA
1 ATATATATATATA-TATAGTTTTGAAAA-CA-TTTTGA
21051 ATATATATATAT-TATAGTTTTGAAAACATTTTGAAA
1 ATATATATATATATATAGTTTTGAAAACATTTTG--A
*
21087 ACATATATATAATATATAGTTTTTGAAAACATTTTGA
1 ATATATATAT-ATATATAG-TTTTGAAAACATTTTGA
* * *
21124 AAATATATA-ATATATGGTTTTAAAAACATTTTG
1 ATATATATATATATATAGTTTTGAAAACATTTTG
21157 GAACATAAAT
Statistics
Matches: 96, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
34 20 0.21
35 8 0.08
36 24 0.25
37 11 0.11
38 17 0.18
39 16 0.17
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (35 bp):
ATATATATATATATATAGTTTTGAAAACATTTTGA
Found at i:21109 original size:74 final size:72
Alignment explanation
Indices: 21013--21176 Score: 197
Period size: 73 Copynumber: 2.2 Consensus size: 72
21003 AATATATATT
* * *
21013 ATATATATATATATTATAG-TTTTGAAAATTATTTTTGAATATATAT-ATATTATAGTTTTGAAA
1 ATATATATA-ATA-TATAGTTTTTGAAAA-CA-TTTTGAAAATATATAATA-TATAGTTTTAAAA
21076 ACATTTTGAAAAC
61 ACATTTTG-AAAC
*
21089 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATAATATATGGTTTTAAAAACATT
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATAATATATAGTTTTAAAAACATT
*
21154 TTGGAAC
66 TTGAAAC
* *
21161 ATAAATGTAATATATA
1 ATATATATAATATATA
21177 TATATATTAA
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
72 17 0.22
73 32 0.41
74 9 0.11
75 12 0.15
76 9 0.11
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.44
Consensus pattern (72 bp):
ATATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATAATATATAGTTTTAAAAACATT
TTGAAAC
Found at i:21128 original size:28 final size:28
Alignment explanation
Indices: 21079--21132 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
21069 TTTGAAAACA
*
21079 TTTTGAAAACATATATATAATATATAGT
1 TTTTGAAAACATATATAAAATATATAGT
*
21107 TTTTGAAAACAT-TTTGAAAATATATA
1 TTTTGAAAACATATAT-AAAATATATA
21133 ATATATGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (28 bp):
TTTTGAAAACATATATAAAATATATAGT
Found at i:21137 original size:33 final size:36
Alignment explanation
Indices: 21013--21156 Score: 116
Period size: 34 Copynumber: 3.9 Consensus size: 36
21003 AATATATATT
* ** *
21013 ATATATATATATATTATAGTTTTGAAAATTATTTTTGAAT
1 ATATATA-ATATA-TATGGTTTT-AAAAACA-TTTTGAAA
* *
21053 ATATAT-ATAT-TATAGTTTTGAAAACATTTTGAAA
1 ATATATAATATATATGGTTTTAAAAACATTTTGAAA
* * *
21087 ACATATATATAATATATAGTTTTTGAAAACATTTTGAAA
1 ATATATA-AT-ATATAT-GGTTTTAAAAACATTTTGAAA
21126 ATATAT-A-ATATATGGTTTTAAAAACATTTTG
1 ATATATAATATATATGGTTTTAAAAACATTTTG
21157 GAACATAAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
34 28 0.31
35 10 0.11
36 11 0.12
37 3 0.03
38 7 0.08
39 24 0.27
40 6 0.07
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (36 bp):
ATATATAATATATATGGTTTTAAAAACATTTTGAAA
Found at i:22476 original size:25 final size:27
Alignment explanation
Indices: 22412--22505 Score: 100
Period size: 29 Copynumber: 3.3 Consensus size: 27
22402 ATTTAAAATT
*
22412 TTTATTTTGTT-TTGTTTTTTCCCTTTGA
1 TTTATTTT-TTATTATTTTTT-CCTTTGA
*
22440 TTTATTTAATTTTTTATTTTTTTCCTTTGA
1 TTTATTT--TTTATTA-TTTTTTCCTTTGA
22470 TTTATTTTTTATTTTATTTTTTCCTTTGA
1 TTTATTTTTTA--TTATTTTTTCCTTTGA
22499 TTTATTT
1 TTTATTT
22506 AATATTTATT
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
28 10 0.17
29 22 0.38
30 20 0.34
31 6 0.10
ACGTcount: A:0.13, C:0.07, G:0.05, T:0.74
Consensus pattern (27 bp):
TTTATTTTTTATTATTTTTTCCTTTGA
Found at i:22479 original size:17 final size:17
Alignment explanation
Indices: 22452--22505 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
22442 TATTTAATTT
22452 TTTATTTTTTTCCTTTGA
1 TTTA-TTTTTTCCTTTGA
*
22470 TTTA-TTTTT--TAT--
1 TTTATTTTTTCCTTTGA
22482 TTTATTTTTTCCTTTGA
1 TTTATTTTTTCCTTTGA
22499 TTTATTT
1 TTTATTT
22506 AATATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
12 4 0.14
13 5 0.17
14 2 0.07
15 2 0.07
16 5 0.17
17 7 0.24
18 4 0.14
ACGTcount: A:0.13, C:0.07, G:0.04, T:0.76
Consensus pattern (17 bp):
TTTATTTTTTCCTTTGA
Found at i:22511 original size:29 final size:29
Alignment explanation
Indices: 22421--22516 Score: 131
Period size: 30 Copynumber: 3.3 Consensus size: 29
22411 TTTTATTTTG
* *
22421 TTTTGTTTTTTCCCTTTGATTTATTTAATT
1 TTTTATTTTTT-CCTTTGATTTATTTAATA
**
22451 TTTTATTTTTTTCCTTTGATTTATTTTTTA
1 TTTTA-TTTTTTCCTTTGATTTATTTAATA
22481 TTTTATTTTTTCCTTTGATTTATTTAATA
1 TTTTATTTTTTCCTTTGATTTATTTAATA
22510 -TTTATTT
1 TTTTATTT
22517 ATTATTTATT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
28 7 0.12
29 22 0.37
30 24 0.41
31 6 0.10
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (29 bp):
TTTTATTTTTTCCTTTGATTTATTTAATA
Found at i:22515 original size:4 final size:4
Alignment explanation
Indices: 22439--22526 Score: 51
Period size: 4 Copynumber: 21.8 Consensus size: 4
22429 TTTCCCTTTG
* *
22439 ATTT ATTT AATTT -TTT ATTT TTTT CCTTT GATTT ATTT -TTT ATTTT
1 ATTT ATTT -ATTT ATTT ATTT ATTT -ATTT -ATTT ATTT ATTT A-TTT
* *
22485 ATTT -TTT CCTTT GATTT ATTT A-AT ATTT ATTT A-TT ATTT ATT
1 ATTT ATTT -ATTT -ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
22527 ATCTAATATT
Statistics
Matches: 67, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 14 0.21
4 33 0.49
5 20 0.30
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:23117 original size:31 final size:31
Alignment explanation
Indices: 23081--23139 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
23071 AACTTAAAAG
* *
23081 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
23112 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
23140 ACATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:23190 original size:22 final size:22
Alignment explanation
Indices: 23164--23254 Score: 119
Period size: 22 Copynumber: 4.0 Consensus size: 22
23154 TAATAAATTA
23164 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
23186 TTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCAT---AT
**
23211 TACAATAATAAATCAATCCATAT
1 TTTAA-AATAAATCAATCCATAT
23234 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
23255 CTAATAAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
22 36 0.61
23 4 0.07
25 4 0.07
26 15 0.25
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:23197 original size:26 final size:26
Alignment explanation
Indices: 23168--23250 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
23158 AAATTATTTA
23168 AAATAAATCAATCCATATTTTAAAAT
1 AAATAAATCAATCCATATTTTAAAAT
* * * * *
23194 AAATCAATCCATACA-A--CTACAAT
1 AAATAAATCAATCCATATTTTAAAAT
23217 -AATAAATCAATCCATATTTTAAAAT
1 AAATAAATCAATCCATATTTTAAAAT
*
23242 AAATCAATC
1 AAATAAATC
23251 CATACTAATA
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
22 11 0.26
23 6 0.14
25 6 0.14
26 19 0.45
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (26 bp):
AAATAAATCAATCCATATTTTAAAAT
Found at i:23260 original size:18 final size:19
Alignment explanation
Indices: 23216--23263 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
23206 ACAACTACAA
*
23216 TAATAAATCAATCCATATTT
1 TAATAAATCAATCCATA-TC
23236 TAAAATAAATCAATCCATA-C
1 T--AATAAATCAATCCATATC
23256 TAATAAAT
1 TAATAAAT
23264 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.28
20 2 0.08
22 16 0.64
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAAATCAATCCATATC
Found at i:23270 original size:80 final size:80
Alignment explanation
Indices: 23186--23367 Score: 337
Period size: 80 Copynumber: 2.3 Consensus size: 80
23176 CAATCCATAT
23186 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
1 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
*
23251 CATACTAATAAATTA
66 CATACAAATAAATTA
* *
23266 TTTAAAATAAATCAATCCAGACAACTACAATAATAAATCAATCCATATTTTAAATTAAATCAATC
1 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
23331 CATACAAATAAATTA
66 CATACAAATAAATTA
23346 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATAC
23368 TAATAAATTA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 98 1.00
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (80 bp):
TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
CATACAAATAAATTA
Found at i:23273 original size:32 final size:32
Alignment explanation
Indices: 23234--23398 Score: 148
Period size: 32 Copynumber: 5.7 Consensus size: 32
23224 CAATCCATAT
23234 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
23266 TTTAAAATAAATCAATCCAGAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
23296 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
23314 TTTAAATTAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
23346 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
23378 TTTAAAATTAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
23399 TTTTAAAATA
Statistics
Matches: 109, Mismatches: 8, Indels: 32
0.73 0.05 0.21
Matches are distributed among these distances:
20 1 0.01
22 13 0.12
23 1 0.01
24 2 0.02
26 15 0.14
28 1 0.01
30 1 0.01
31 2 0.02
32 73 0.67
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:23625 original size:21 final size:21
Alignment explanation
Indices: 23595--23773 Score: 163
Period size: 21 Copynumber: 8.6 Consensus size: 21
23585 GATTTACATA
*
23595 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
23616 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
23637 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
23658 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
23677 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
23700 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
23719 TTTGCGTTGCGATTTATTTCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
23742 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
23761 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
23774 TTATTTCAAA
Statistics
Matches: 126, Mismatches: 22, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
19 31 0.25
21 79 0.63
23 16 0.13
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:23647 original size:42 final size:40
Alignment explanation
Indices: 23595--23798 Score: 264
Period size: 42 Copynumber: 4.9 Consensus size: 40
23585 GATTTACATA
* * *
23595 TTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATATTCCAAATT--CGTTGCGATAGTCGAAG
*
23637 TTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATATTCCAAATTCGTTGCGATAGTCGAAG
23677 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA--TATTCCAAATTCGTTGCGATAGTCGAAG
* * *
23719 TTTGCGTTGCGATTTATTTCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA--TATTCCAAATTCGTTGCGATAGTCGAAG
*
23761 TTCGCGTTGCGATTTATTTCAAATTCGTTGCGATAGTC
1 TTCGCGTTGCGA--TATTCCAAATTCGTTGCGATAGTC
23799 CAAAATCGCA
Statistics
Matches: 150, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
40 29 0.19
42 121 0.81
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (40 bp):
TTCGCGTTGCGATATTCCAAATTCGTTGCGATAGTCGAAG
Found at i:23767 original size:84 final size:82
Alignment explanation
Indices: 23620--23798 Score: 304
Period size: 84 Copynumber: 2.2 Consensus size: 82
23610 TCCAAGTTCG
23620 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
23685 GCGATTTATTCCAAATT
66 GCGATTTATTCCAAATT
* * *
23702 CGTTGCGATAGTCGAAGTTTGCGTTGCGATTTATTTCAAGTTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
*
23767 TTGCGATTTATTTCAAATT
64 TTGCGATTTATTCCAAATT
23786 CGTTGCGATAGTC
1 CGTTGCGATAGTC
23799 CAAAATCGCA
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
82 28 0.31
83 2 0.02
84 61 0.67
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (82 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
GCGATTTATTCCAAATT
Found at i:23789 original size:21 final size:21
Alignment explanation
Indices: 23681--23794 Score: 78
Period size: 21 Copynumber: 5.4 Consensus size: 21
23671 TCGAAGTTCG
*
23681 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTTCAAATT
* *
23702 CGTTGCGA--TA-GTCGAAGTTT
1 CGTTGCGATTTATTTC-AA-ATT
*
23722 GCGTTGCGATTTATTTCAAGTT
1 -CGTTGCGATTTATTTCAAATT
* *
23744 CGTTGCGA--TA-GTCGAAGTT
1 CGTTGCGATTTATTTC-AAATT
23763 CGCGTTGCGATTTATTTCAAATT
1 --CGTTGCGATTTATTTCAAATT
23786 CGTTGCGAT
1 CGTTGCGAT
23795 AGTCCAAAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 24
0.70 0.08 0.23
Matches are distributed among these distances:
18 3 0.04
19 11 0.15
20 2 0.03
21 41 0.56
22 2 0.03
23 10 0.14
24 4 0.05
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (21 bp):
CGTTGCGATTTATTTCAAATT
Found at i:24355 original size:21 final size:21
Alignment explanation
Indices: 24329--24503 Score: 150
Period size: 21 Copynumber: 8.4 Consensus size: 21
24319 ATTTTGGACT
24329 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
24350 ATCGCAACGCAAACTTGGACT--
1 ATCGCAACG--AATTTGGAATAA
*
24371 ATCTCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
24392 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
24413 ATCACAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
24434 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
24455 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
24476 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
24495 ATCGCAACG
1 ATCGCAACG
24504 CGAACTTCGA
Statistics
Matches: 122, Mismatches: 20, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
19 33 0.27
21 63 0.52
23 26 0.21
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:24381 original size:42 final size:42
Alignment explanation
Indices: 24322--24442 Score: 206
Period size: 42 Copynumber: 2.9 Consensus size: 42
24312 TGTTGCGATT
*
24322 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCAAAC
1 TTGGACTATCACAACGAATTTGGAATAAATCGCAACGCAAAC
* *
24364 TTGGACTATCTCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCACAACGAATTTGGAATAAATCGCAACGCAAAC
*
24406 TTCGACTATCACAACGAATTTGGAATAAATCGCAACG
1 TTGGACTATCACAACGAATTTGGAATAAATCGCAACG
24443 AATTTGGAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.23
Consensus pattern (42 bp):
TTGGACTATCACAACGAATTTGGAATAAATCGCAACGCAAAC
Found at i:24463 original size:42 final size:40
Alignment explanation
Indices: 24322--24503 Score: 170
Period size: 42 Copynumber: 4.4 Consensus size: 40
24312 TGTTGCGATT
*
24322 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCAAAC
1 TTGGAATATCGCAACGAATTTGGAATAAATCGCAACG--AAC
* *
24364 TTGGACTATCTCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGAATATCGCAACGAATTTGGAATAAATCGCAA--CGAAC
* * * *
24406 TTCGACTATCACAACGAATTTGGAATAAATCGCAACGAAT
1 TTGGAATATCGCAACGAATTTGGAATAAATCGCAACGAAC
* * * *
24446 TTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGAAT
1 TTGGAAT--ATCGCAA--CGAATTTGGAATAAATCGCAACGAAC
*
24488 TTGGAAAATCGCAACG
1 TTGGAATATCGCAACG
24504 CGAACTTCGA
Statistics
Matches: 123, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.02
40 16 0.13
42 94 0.76
44 11 0.09
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (40 bp):
TTGGAATATCGCAACGAATTTGGAATAAATCGCAACGAAC
Found at i:24508 original size:40 final size:40
Alignment explanation
Indices: 24434--24600 Score: 235
Period size: 40 Copynumber: 4.1 Consensus size: 40
24424 TTTGGAATAA
24434 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACT
24476 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
* **
24516 ATCGCAACACGAACTTGGACTATCGCAACGCGAACTTCGACT
1 ATCGC-A-ACGAATTTGGAAAATCGCAACGCGAACTTCGACT
* * * *
24558 ATCACAATGAATTTGGAAAATTGTAACGCGAACTTCGACT
1 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
24598 ATC
1 ATC
24601 ACAATGCGAA
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
40 59 0.52
41 3 0.03
42 51 0.45
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (40 bp):
ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
Found at i:24519 original size:21 final size:21
Alignment explanation
Indices: 24455--24560 Score: 144
Period size: 21 Copynumber: 5.1 Consensus size: 21
24445 TTTGGAATAA
24455 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
24476 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
24495 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* *
24516 ATCGCAACACGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
24537 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
24558 ATC
1 ATC
24561 ACAATGAATT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
19 15 0.21
21 56 0.79
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:24648 original size:21 final size:21
Alignment explanation
Indices: 24619--24668 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
24609 AATATGTAAA
24619 TCGCGTTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
* *
24640 TCGTGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
24661 TCGCGTTG
1 TCGCGTTG
24669 TGAATCTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:24845 original size:22 final size:22
Alignment explanation
Indices: 24817--24859 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
24807 TTATTTTCTC
24817 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
24839 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
24860 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:24868 original size:22 final size:22
Alignment explanation
Indices: 24819--24867 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
24809 ATTTTCTCTT
**
24819 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
24841 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
24864 TAAA
1 TAAA
24868 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:24876 original size:54 final size:54
Alignment explanation
Indices: 24817--25471 Score: 483
Period size: 54 Copynumber: 12.4 Consensus size: 54
24807 TTATTTTCTC
24817 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
24871 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
*** * * * *
24925 TTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-
1 TTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTA
** * ** * ** **
24973 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TA
1 TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA
* * * * * *** **
25026 TTTTAAAATAAATCAATCCATA-CTAATAAATTATTTAAAAAAT-C-AATCCA-TA
1 -TTTAAAATAAATCAATCCATATTTTA-AAATAAATCAATCCATACTAATAAATTA
25078 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
*
25133 TTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
* * ** * *
25187 TTTAAAATAAATCAATTCATGCAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--CT--AATAAAT-TA
* * * *
25250 TTCATACT-AATAAAT---TA-TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
** * ** * ** **
25289 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TA
1 TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA
25342 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
25397 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
*
25451 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
25472 CAACTACAAT
Statistics
Matches: 491, Mismatches: 71, Indels: 78
0.77 0.11 0.12
Matches are distributed among these distances:
39 5 0.01
40 6 0.01
42 1 0.00
43 2 0.00
44 2 0.00
45 7 0.01
46 3 0.01
48 27 0.05
49 3 0.01
50 13 0.03
52 59 0.12
53 19 0.04
54 290 0.59
55 12 0.02
56 1 0.00
57 4 0.01
58 16 0.03
59 1 0.00
60 1 0.00
62 13 0.03
63 6 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:24897 original size:22 final size:22
Alignment explanation
Indices: 24871--24913 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
24861 TAATAAATTA
24871 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
24893 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
24914 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:24922 original size:22 final size:22
Alignment explanation
Indices: 24873--24921 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
24863 ATAAATTATT
**
24873 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
24895 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
24918 TAAA
1 TAAA
24922 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:25002 original size:22 final size:23
Alignment explanation
Indices: 24927--25001 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
24917 ATAAATTATT
24927 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
24949 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
24975 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
24998 TAAA
1 TAAA
25002 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:25031 original size:22 final size:22
Alignment explanation
Indices: 25005--25121 Score: 101
Period size: 22 Copynumber: 5.0 Consensus size: 22
24995 TAATAAATTA
25005 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
25027 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * *
25050 AATAAATTATTTAAA-AAATCAATCCAT
1 TTTAAA--A--TAAATCAATCCAT--AT
*
25077 ATTTTAAAATAAATCAATCCATAT
1 -TTTA-AAATAAATCAATCCATAT
25101 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
25122 CTAATAAATT
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
22 38 0.51
23 8 0.11
24 2 0.03
25 5 0.07
26 12 0.16
27 6 0.08
28 2 0.03
29 2 0.03
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:25062 original size:134 final size:134
Alignment explanation
Indices: 24822--25605 Score: 1399
Period size: 134 Copynumber: 5.9 Consensus size: 134
24812 TTCTCTTTAA
24822 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
24887 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
66 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
24952 CAAT
131 CAAT
24956 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
25021 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT-AAA-AAATCAATCCAT---ATTT
66 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
*
25081 TAA-
131 CAAT
25084 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* * *
25149 CTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATGCAACTA
66 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
25214 CAAT
131 CAAT
*
25218 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
25283 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTT
66 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
*
25345 TAA-
131 CAAT
25348 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
25413 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTA
66 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
25478 CAAT
131 CAAT
25482 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
25547 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
66 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
25606 TTTTAAAATA
Statistics
Matches: 620, Mismatches: 20, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
128 105 0.17
129 7 0.01
130 132 0.21
131 4 0.01
132 12 0.02
133 11 0.02
134 349 0.56
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (134 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
CAAT
Found at i:25184 original size:22 final size:22
Alignment explanation
Indices: 25135--25183 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
25125 ATAAATTATT
* **
25135 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
25157 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
25180 TAAA
1 TAAA
25184 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:25264 original size:22 final size:22
Alignment explanation
Indices: 25191--25264 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
25181 AAATTATTTA
25191 AAATAAATCAATTCATGCAACTACA-
1 AAATAAATCAATTCAT---ACTA-AT
* **
25216 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATTCATACTAAT
25238 AAAATAAATCAATTCATACTAAT
1 -AAATAAATCAATTCATACTAAT
25261 AAAT
1 AAAT
25265 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
22 20 0.51
23 4 0.10
25 1 0.03
26 14 0.36
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.31
Consensus pattern (22 bp):
AAATAAATCAATTCATACTAAT
Found at i:25293 original size:22 final size:22
Alignment explanation
Indices: 25267--25309 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
25257 TAATAAATTA
25267 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
25289 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
25310 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:25318 original size:22 final size:22
Alignment explanation
Indices: 25269--25317 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
25259 ATAAATTATT
**
25269 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
25291 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
25314 TAAA
1 TAAA
25318 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:25394 original size:22 final size:22
Alignment explanation
Indices: 25321--25385 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
25311 TAATAAATTA
25321 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
25343 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
25365 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
25386 CTAATAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:25423 original size:22 final size:22
Alignment explanation
Indices: 25397--25439 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
25387 TAATAAATTA
25397 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
25419 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
25440 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:25448 original size:22 final size:22
Alignment explanation
Indices: 25399--25447 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
25389 ATAAATTATT
**
25399 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
25421 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
25444 TAAA
1 TAAA
25448 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:25528 original size:22 final size:22
Alignment explanation
Indices: 25453--25527 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
25443 ATAAATTATT
* *
25453 TAAAATAAATCAATTCATACAA
1 TAAAATAAATCAATCCATATAA
**
25475 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
25501 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
25524 TAAA
1 TAAA
25528 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
25 3 0.07
26 15 0.36
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:25535 original size:80 final size:80
Alignment explanation
Indices: 25402--25551 Score: 291
Period size: 80 Copynumber: 1.9 Consensus size: 80
25392 AATTATTTAA
25402 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
25467 TCATACAACTACAAT
66 CCATACAACTACAAT
25482 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
25547 CCATA
66 CCATA
25552 TTTTAAAATA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:25551 original size:54 final size:53
Alignment explanation
Indices: 24925--25674 Score: 639
Period size: 54 Copynumber: 14.4 Consensus size: 53
24915 TAATAAATTA
*
24925 TTTAAAATAAATCAATCCATAC-AACTACA--A--T-AATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAATAAATCAATCCATAT
24973 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTT-AAATAAATCAATCCATAT
25027 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAA-AAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATAT
** * ** * ** **
25079 TTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAAT-T
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAAT-C-AATCCATAT
* ** * ** * ** **
25132 ATTTAAAATAAATCAATCTATA-TTTTAAAATAAATCAATCCATACTAATAAAT-T
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAAT-C-AATCCATAT
* * *
25186 ATTTAAAATAAATCAATTCATGC-AACTACA--A--T-AATAAATCAATCCATAT
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAATAAATCAATCCATAT
*
25235 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTT-AAATAAATCAATCCATAT
25289 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTT-AAATAAATCAATCCATAT
** * ** * ** **
25343 TTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAAT-T
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAAT-C-AATCCATAT
** * ** * ** **
25396 ATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAAT-T
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAAT-C-AATCCATAT
* *
25450 ATTTAAAATAAATCAATTCATAC-AACTACA--A--T-AATAAATCAATCCATAT
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAATAAATCAATCCATAT
25499 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTT-AAATAAATCAATCCATAT
25553 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTT-AAATAAATCAATCCATAT
* *
25607 TTTAAAATAAATCAATTCATACTAATAAATTATTT---TAAATAAAT---TAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATAT
25654 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
25675 TTTTATAATA
Statistics
Matches: 620, Mismatches: 48, Indels: 69
0.84 0.07 0.09
Matches are distributed among these distances:
47 23 0.04
48 83 0.13
49 10 0.02
50 21 0.03
51 12 0.02
52 45 0.07
53 17 0.03
54 403 0.65
55 6 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (53 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATAT
Found at i:25557 original size:22 final size:22
Alignment explanation
Indices: 25531--25573 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
25521 TAATAAATTA
25531 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
25553 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
25574 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:25582 original size:22 final size:22
Alignment explanation
Indices: 25533--25581 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
25523 ATAAATTATT
**
25533 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
25555 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
25578 TAAA
1 TAAA
25582 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:25611 original size:22 final size:22
Alignment explanation
Indices: 25585--25687 Score: 89
Period size: 22 Copynumber: 4.5 Consensus size: 22
25575 TAATAAATTA
25585 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
25607 TTTAAAATAAATCAATTCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
25630 AATAAATTATTTTAAATAAATTAT
1 TTTAAAATA-AATCAATCCA-TAT
25654 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
25676 TTTATAATAAAT
1 TTTAAAATAAAT
25688 TATTTTAAAG
Statistics
Matches: 60, Mismatches: 18, Indels: 6
0.71 0.21 0.07
Matches are distributed among these distances:
22 34 0.57
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:25663 original size:15 final size:15
Alignment explanation
Indices: 25630--25745 Score: 135
Period size: 15 Copynumber: 7.3 Consensus size: 15
25620 AATTCATACT
25630 AATAAATTATTTT-A
1 AATAAATTATTTTAA
25644 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
25659 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
25681 AATAAATTATTTTAA
1 AATAAATTATTTTAA
* *
25696 AGTAAATTATTTTAT
1 AATAAATTATTTTAA
25711 AATAAATTATTTTAA
1 AATAAATTATTTTAA
25726 AATAAATTATTTTAA
1 AATAAATTATTTTAA
25741 AATAA
1 AATAA
25746 TAACCTTATT
Statistics
Matches: 88, Mismatches: 6, Indels: 15
0.81 0.06 0.14
Matches are distributed among these distances:
14 13 0.15
15 57 0.65
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
22 10 0.11
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:25665 original size:69 final size:67
Alignment explanation
Indices: 25575--25732 Score: 232
Period size: 69 Copynumber: 2.3 Consensus size: 67
25565 CAATCCATAC
25575 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAA-TAAATT
1 TAATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAAT-AATT-ATA--AAGTAAATT
25638 ATTTTA
62 ATTTTA
* * *
25644 -AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAAGTAAATTATTT
1 TAATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATAATTATAAAGTAAATTATTT
25708 TA
66 TA
25710 TAATAAATTATTTTAAAATAAAT
1 TAATAAATTATTTTAAAATAAAT
25733 TATTTTAAAA
Statistics
Matches: 83, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
65 2 0.02
66 12 0.14
67 24 0.29
68 12 0.14
69 33 0.40
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.43
Consensus pattern (67 bp):
TAATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATAATTATAAAGTAAATTATTT
TA
Found at i:25769 original size:81 final size:82
Alignment explanation
Indices: 25629--25796 Score: 211
Period size: 81 Copynumber: 2.0 Consensus size: 82
25619 CAATTCATAC
**
25629 TAATAAATTATTTTAAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTT-
1 TAATAAATTATTTTAAATAAATTATTTTAAAATAAATCAATCCATATTAAATAATAAATTATTTA
25693 TAAAGTAAAT-TATTTTA
66 TAAA-TAAATATATTTTA
* *
25710 TAATAAATTATTTTAAAATAAATTATTTTAAAAT-AAT-AA-CCTTATTAAATATTTAAAATTAT
1 TAATAAATTATTTT-AAATAAATTATTTTAAAATAAATCAATCCATATTAAATA-AT-AAATTAT
*
25772 TTAATAAATAACTATATTTTA
63 TT-ATAAATAAATATATTTTA
25793 TAAT
1 TAAT
25797 TGTTCTTGAA
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
79 9 0.12
80 3 0.04
81 26 0.34
82 23 0.30
83 15 0.20
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (82 bp):
TAATAAATTATTTTAAATAAATTATTTTAAAATAAATCAATCCATATTAAATAATAAATTATTTA
TAAATAAATATATTTTA
Found at i:27622 original size:2 final size:2
Alignment explanation
Indices: 27615--27674 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
27605 AGCAATATTA
27615 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27657 AT AT AT A- AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
27675 ACACTCTTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:28005 original size:27 final size:27
Alignment explanation
Indices: 27941--28006 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
27931 TGAACTACCA
*
27941 CCACAATCACCACTTTGAACTTGAAACT
1 CCACAA-CATCACTTTGAACTTGAAACT
* * *
27969 CCATAGCATCACTTTGAACTTGAAAGT
1 CCACAACATCACTTTGAACTTGAAACT
27996 CCACAACATCA
1 CCACAACATCA
28007 AGATCTTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.36, C:0.30, G:0.09, T:0.24
Consensus pattern (27 bp):
CCACAACATCACTTTGAACTTGAAACT
Found at i:32083 original size:15 final size:15
Alignment explanation
Indices: 32043--32085 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 15
32033 GCCGAATACC
32043 TAAAAATAATTTT--
1 TAAAAATAATTTTAA
32056 T-AAAATAATTTTTAA
1 TAAAAATAA-TTTTAA
32071 TAAAAATAATTTTAA
1 TAAAAATAATTTTAA
32086 AAGATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 7 0.27
13 5 0.19
15 7 0.27
16 7 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAAATAATTTTAA
Found at i:33457 original size:102 final size:102
Alignment explanation
Indices: 33309--33506 Score: 297
Period size: 102 Copynumber: 1.9 Consensus size: 102
33299 GATCTATTTT
* * *
33309 GGAAGACGAATATGCTCCACTATTCTTCCAGAGAGATAAGACTCGAGAAATCTTTGTAAAATGTA
1 GGAAGACGAATATGCTCCACTATTCTTCCAGAGAGATAAGACTCGAGAAATCTTTGGAAAACGGA
* * *
33374 TCTACTCTACTCTTCTTTTAGGGAGATAAGATCCAAG
66 TCTACTCCACTCTTCTTTCAAGGAGATAAGATCCAAG
* * * *
33411 GGAAGACGAATCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAGATCTTTGGAAAACGGA
1 GGAAGACGAATATGCTCCACTATTCTTCCAGAGAGATAAGACTCGAGAAATCTTTGGAAAACGGA
*
33476 TCTGCTCCACTCTTCTTTCAAGGAGATAAGA
66 TCTACTCCACTCTTCTTTCAAGGAGATAAGA
33507 CTCGAGATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (102 bp):
GGAAGACGAATATGCTCCACTATTCTTCCAGAGAGATAAGACTCGAGAAATCTTTGGAAAACGGA
TCTACTCCACTCTTCTTTCAAGGAGATAAGATCCAAG
Found at i:33633 original size:36 final size:36
Alignment explanation
Indices: 33511--33708 Score: 279
Period size: 36 Copynumber: 5.4 Consensus size: 36
33501 ATAAGACTCG
* * *
33511 AGATTGATTTGTTTCCCTACTCTTCCATGAAGGCTT
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
33547 AAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
1 -AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
*
33584 AAGATTGAATTGCTTCACTACTCTTCCGTGAAGGCTT
1 -AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
** * **
33621 AGATTGGGTTGCTTCACTATTCTTCAATGAAGGCTT
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
*
33657 AGATTGATTTGCTTTACTACTCTTCCGTGAAGGCTT
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
*
33693 AGCTTGATTTGCTTCA
1 AGATTGATTTGCTTCA
33709 TTGCTTTGCT
Statistics
Matches: 144, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
36 75 0.52
37 69 0.48
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.39
Consensus pattern (36 bp):
AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
Found at i:35163 original size:27 final size:27
Alignment explanation
Indices: 35109--35164 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
35099 CCACCATCAC
* *
35109 CACTTTGAACTTGAAACTCCATAGCAT
1 CACTTTGAACTTGAAACTCCACAACAT
*
35136 CACTTTGAACTTGAAAGTCCACAACAT
1 CACTTTGAACTTGAAACTCCACAACAT
35163 CA
1 CA
35165 AGATCTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.27
Consensus pattern (27 bp):
CACTTTGAACTTGAAACTCCACAACAT
Found at i:35707 original size:2 final size:2
Alignment explanation
Indices: 35695--35741 Score: 64
Period size: 2 Copynumber: 25.0 Consensus size: 2
35685 TACGACCGAA
*
35695 AT AT AT TT AT AT AT -T AT AT AT AT AT AT AT AT AT AT A- AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35734 AT AT AT AT
1 AT AT AT AT
35742 TGTATAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:36543 original size:20 final size:19
Alignment explanation
Indices: 36518--36558 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
36508 TAACATTTGC
* *
36518 CGCCGATGACCGGCGGCCGG
1 CGCCGATCAACGGCGG-CGG
36538 CGCCGATCAACGGCGGCGG
1 CGCCGATCAACGGCGGCGG
36557 CG
1 CG
36559 AGGTGGCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.12, C:0.39, G:0.44, T:0.05
Consensus pattern (19 bp):
CGCCGATCAACGGCGGCGG
Found at i:37092 original size:2 final size:2
Alignment explanation
Indices: 37085--37111 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37075 TTTTATTTAT
37085 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
37112 CTACCATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37122 original size:67 final size:66
Alignment explanation
Indices: 37009--37133 Score: 164
Period size: 65 Copynumber: 1.9 Consensus size: 66
36999 GATTTATTTG
* * **
37009 TTTTATTTATATGTTATATTATATATATATGTATATATTTTATTTTACTTCTTAATATGTTCCTA
1 TTTTATTTATATGATATATTATATATATATATATATATTCCATTTTACTTCTTAATATGTTCCTA
37074 T
66 T
*
37075 TTTTATTTAT-T-ATATATATATATATATATATATATATCTACCATTTTATTTCTTAATAT
1 TTTTATTTATATGATATAT-TATATATATATATATATAT-T-CCATTTTACTTCTTAATAT
37134 CTTTATAGTC
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
64 5 0.10
65 19 0.37
66 11 0.22
67 16 0.31
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.59
Consensus pattern (66 bp):
TTTTATTTATATGATATATTATATATATATATATATATTCCATTTTACTTCTTAATATGTTCCTA
T
Found at i:37231 original size:22 final size:22
Alignment explanation
Indices: 37196--37252 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 22
37186 ATTTCCCCTC
*
37196 ATTTTTTTCA-TTTATTTATTT
1 ATTTTTTTCATTTTATTTATCT
37217 ATTTTTTTCATTTTATTTATCT
1 ATTTTTTTCATTTTATTTATCT
37239 ATCTTTGTTTCATT
1 AT-TTT-TTTCATT
37253 ATTTCTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 10 0.31
22 12 0.38
23 3 0.09
24 7 0.22
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.72
Consensus pattern (22 bp):
ATTTTTTTCATTTTATTTATCT
Found at i:37254 original size:22 final size:21
Alignment explanation
Indices: 37196--37263 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 21
37186 ATTTCCCCTC
*
37196 ATTTTTTTCATTTATTTATTT
1 ATTTTTTTCATTTATTTATCT
37217 ATTTTTTTCATTTTATTTATCT
1 ATTTTTTTCA-TTTATTTATCT
37239 ATCTTTGTTTCA-TTA-TT-TCT
1 AT-TTT-TTTCATTTATTTATCT
37259 ATTTT
1 ATTTT
37264 GTCCTTATCT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
19 3 0.07
20 5 0.12
21 12 0.28
22 15 0.35
23 3 0.07
24 5 0.12
ACGTcount: A:0.18, C:0.09, G:0.01, T:0.72
Consensus pattern (21 bp):
ATTTTTTTCATTTATTTATCT
Found at i:47836 original size:22 final size:22
Alignment explanation
Indices: 47810--47867 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
47800 GCCCTAAATT
*
47810 GAAAAAAAAGAAAAGGAA-AAGA
1 GAAAAAAAAGAAAA-AAACAAGA
*
47832 GAAAAAAGAGAAAAAAACAAGA
1 GAAAAAAAAGAAAAAAACAAGA
47854 -AAAAGAAAAGAAAA
1 GAAAA-AAAAGAAAA
47868 TAAGGTGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (22 bp):
GAAAAAAAAGAAAAAAACAAGA
Found at i:47837 original size:64 final size:63
Alignment explanation
Indices: 47714--47829 Score: 157
Period size: 63 Copynumber: 1.9 Consensus size: 63
47704 AGTACTTCGC
* * * *
47714 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGAAAAAAAAAGAGAAAAGGAAAAAAAATCGT
1 TTAGGATGAAAACCCGAAAGGACGCCCTAAATTG-AAAAAAAAGAGAAAAGGAAAAAAAATCGT
*
47778 TTAGGGTG-AAACCCGAAAGGACGCCCTAAATTG-AAAAAAA-AGAAAAGGAAAA
1 TTAGGATGAAAACCCGAAAGGACGCCCTAAATTGAAAAAAAAGAGAAAAGGAAAA
47830 GAGAAAAAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 12 0.26
61 7 0.15
63 21 0.45
64 7 0.15
ACGTcount: A:0.51, C:0.12, G:0.24, T:0.13
Consensus pattern (63 bp):
TTAGGATGAAAACCCGAAAGGACGCCCTAAATTGAAAAAAAAGAGAAAAGGAAAAAAAATCGT
Found at i:49248 original size:106 final size:105
Alignment explanation
Indices: 48947--49458 Score: 553
Period size: 99 Copynumber: 5.0 Consensus size: 105
48937 ATCATGCACA
* * *
48947 CAAGACAACACAAGCTCAAATTCACAGCGAAGGGGCGACTGACTGT------CAACTTTCCAATT
1 CAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAACAACTTCCCAATT
*
49006 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACT
66 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
* *
49046 CAAGACAGCACAAGCTCAACTTCACTA-CGAAGGGGCGGCTGAGTGT------CAACTTCCCAAT
1 CAAGACAACACAAGCTCAACTTCAC-AGCGAAGGGGCGGCTGACTGTCAACAACAACTTCCCAAT
* * *
49104 TTCAGAGCCAATTTTAACTTCACAATGAAGGGTATTGGACT
65 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
* *
49145 CAAGA-AAGCACAAGCTCAACTCCACAGCGAAGGGGTGGCTGACTGTCAACAAACAACTTCCCAA
1 CAAGACAA-CACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAAC-AACAACTTCCCAA
** * * *
49209 TTTCATTGCCAATTTCAACTTCTCAGCGAAGGATATTGGACC
64 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
* * * *
49251 CAAGACAACACAAGCTCATCTTTAC-GACGAAGGGGCGGCTGATTGTCAACAA-AA-TT-TC-A-
1 CAAGACAACACAAGCTCAACTTCACAG-CGAAGGGGCGGCTGACTGTCAACAACAACTTCCCAAT
* *
49310 TTCAGAGTCAATTTCAACTTCACAACGAAGGGTATTGGACT
65 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
* * * *
49351 CAAGACAACACAAGCTCAACTTCACGGCGAAGGGGCGACTGACTGTCAACAAATAATTTCCC-AT
1 CAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAAC-AACAACTTCCCAAT
* ** *
49415 TTCCAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACT
65 TT-CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
49457 CA
1 CA
49459 GAACAATACA
Statistics
Matches: 349, Mismatches: 45, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
98 2 0.01
99 126 0.36
100 79 0.23
101 4 0.01
102 3 0.01
103 4 0.01
104 4 0.01
105 5 0.01
106 120 0.34
107 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (105 bp):
CAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAACAACTTCCCAATT
TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
Found at i:49429 original size:206 final size:203
Alignment explanation
Indices: 48915--49455 Score: 650
Period size: 206 Copynumber: 2.7 Consensus size: 203
48905 CAACCCGCGG
** * * * *
48915 TTTCAACTTCATGACGAAGGGAATCATGCACACAAGACAACACAAGCTCAAATTCACAGCGAAGG
1 TTTCAACTTCACAACGAAGGGTAT--TGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGG
* *
48980 GGCGACTGACTGTCAAC-----TTTCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
64 GGCGACTGACTGTCAACAAAAATTTCCCATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATAT
* * * *
49040 TAGACTCAAGACAGCACAAGCTCAACTTCACTACGAAGGGGCGGCTGAGTGTCAACTTCCCAATT
129 TGGACCCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGAGTGTCAACTTCCCAATT
49105 TCAGAGCCAA
194 TCAGAGCCAA
* * *
49115 TTTTAACTTCACAATGAAGGGTATTGGACTCAAGA-AAGCACAAGCTCAACTCCACAGCGAAGGG
1 TTTCAACTTCACAACGAAGGGTATTGGACTCAAGACAA-CACAAGCTCAACTTCACAGCGAAGGG
* * * ** *
49179 GTGGCTGACTGTCAACAAACAACTTCCCAATTTCATTGCCAATTTCAACTTCTCAGCGAAGGATA
65 GCGACTGACTGTCAACAAA-AATTTCCC-ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
* * * *
49244 TTGGACCCAAGACAACACAAGCTCATCTTTACGACGAAGGGGCGGCTGATTGTCAACAAAATT-T
128 TTGGACCCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGAGTGTCAAC----TTCC
*
49308 C-A-TTCAGAGTCAA
189 CAATTTCAGAGCCAA
*
49321 TTTCAACTTCACAACGAAGGGTATTGGACTCAAGACAACACAAGCTCAACTTCACGGCGAAGGGG
1 TTTCAACTTCACAACGAAGGGTATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGG
* * *
49386 CGACTGACTGTCAACAAATAATTTCCCATTTCCAGAACCAATTTCAACTTCACGGCGGAGGATAT
66 CGACTGACTGTCAACAAA-AATTTCCCATTT-CAGAGCCAATTTCAACTTCACAGCGAAGGATAT
49451 TGGAC
129 TGGAC
49456 TCAGAACAAT
Statistics
Matches: 287, Mismatches: 40, Indels: 22
0.82 0.11 0.06
Matches are distributed among these distances:
197 2 0.01
198 47 0.16
200 19 0.07
204 4 0.01
205 86 0.30
206 123 0.43
207 3 0.01
208 1 0.00
209 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (203 bp):
TTTCAACTTCACAACGAAGGGTATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGG
CGACTGACTGTCAACAAAAATTTCCCATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
GACCCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGAGTGTCAACTTCCCAATTTC
AGAGCCAA
Found at i:50201 original size:23 final size:22
Alignment explanation
Indices: 50162--50217 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
50152 TATACGACCG
50162 AAATATATT-TATATATTATAT
1 AAATATATTATATATATTATAT
* *
50183 ATATATAATTATATATATTGTAT
1 AAATAT-ATTATATATATTATAT
50206 AAATATTATTAT
1 AAATA-TATTAT
50218 TATTTCTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 3 0.10
23 20 0.69
24 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATATATTATATATATTATAT
Found at i:51543 original size:19 final size:22
Alignment explanation
Indices: 51517--51558 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
51507 TTCCCCTAAT
*
51517 TTTTTTTTCATTTT-TTTATTA
1 TTTTTTTGCATTTTATTTATTA
51538 TTTTTTTGCATTTTATTTATT
1 TTTTTTTGCATTTTATTTATT
51559 TATCTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTTTGCATTTTATTTATTA
Found at i:52744 original size:8 final size:7
Alignment explanation
Indices: 52721--52778 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 7
52711 TATTTATATG
52721 AAATAACA
1 AAATAA-A
*
52729 AATTAAA
1 AAATAAA
52736 AAATAAA
1 AAATAAA
52743 AAATAAA
1 AAATAAA
*
52750 AATTAAA
1 AAATAAA
52757 GTAAAGTAAA
1 --AAA-TAAA
*
52767 TAATAAA
1 AAATAAA
52774 AAATA
1 AAATA
52779 CGATTTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
7 28 0.68
8 7 0.17
9 2 0.05
10 4 0.10
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (7 bp):
AAATAAA
Found at i:56641 original size:3 final size:3
Alignment explanation
Indices: 56633--56710 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
56623 TGTAATTATT
56633 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
56681 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
56711 ACGGGACAAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:57044 original size:102 final size:102
Alignment explanation
Indices: 56897--57093 Score: 331
Period size: 102 Copynumber: 1.9 Consensus size: 102
56887 ATCTATTTTG
* * *
56897 GAAGACGAATCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAATGTAT
1 GAAGACGAATCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGGAT
* *
56962 CTACTCCACTCTTCTTTTATGGAGATAAGATCCAAGA
66 CTACTCCACTCTTCTTTCAAGGAGATAAGATCCAAGA
* *
56999 GAAGACGAATCTGCTCTACTATTCTTTCAGGGAGATAAGACTCGAGAGATCTTTGGAAAACGGAT
1 GAAGACGAATCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGGAT
57064 CTACTCCACTCTTCTTTCAAGGAGATAAGA
66 CTACTCCACTCTTCTTTCAAGGAGATAAGA
57094 CTCGAGATTG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 88 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (102 bp):
GAAGACGAATCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACGGAT
CTACTCCACTCTTCTTTCAAGGAGATAAGATCCAAGA
Found at i:57221 original size:36 final size:36
Alignment explanation
Indices: 57098--57476 Score: 560
Period size: 36 Copynumber: 10.4 Consensus size: 36
57088 ATAAGACTCG
* *
57098 AGATTGATTTGTTTCCCTACTCTTCCGTGAAGGCTT
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
57134 AAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
1 -AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
* **
57171 AAGATTGAATTGCTTCACTACTCTTCCGTGAATACTT
1 -AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
*
57208 AAATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
57244 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
57280 AAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
1 -AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
* * * *
57317 AGATTGATTTGTTTCGCTACTCTTCTGTGAATGCTT
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
*
57353 ACATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
* ** * * **
57389 AGATTGGTTTTATTCGCTATTCTTCAATGAAGGCTT
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
*
57425 AGATTGATTTGCTTTACTACTCTTCCGTGAAGGCTT
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
57461 AGATTGATTTGCTTCA
1 AGATTGATTTGCTTCA
57477 TTTCATTGCT
Statistics
Matches: 305, Mismatches: 36, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
36 201 0.66
37 104 0.34
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (36 bp):
AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
Found at i:57293 original size:109 final size:109
Alignment explanation
Indices: 57098--57476 Score: 571
Period size: 109 Copynumber: 3.5 Consensus size: 109
57088 ATAAGACTCG
* *
57098 AGATTGATTTGTTTCCCTACTCTTCCGTGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCCGT
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT-AGATTGATTTGCTTCACTACTCTTCCGT
* **
57163 GAAGGCTTAAGATTGAATTGCTTCACTACTCTTCCGTGAATACTT
65 GAAGGCTTAAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
*
57208 AAATTGATTTGCTTCACTACTCTTCCGTGAAGGCTTAGATTGATTTGCTTCACTACTCTTCCGTG
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTTAGATTGATTTGCTTCACTACTCTTCCGTG
57273 AAGGCTTAAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
66 AAGGCTTAAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
* * * * *
57317 AGATTGATTTGTTTCGCTACTCTTCTGTGAATGCTTACATTGATTTGCTTCACTACTCTTCCGTG
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTTAGATTGATTTGCTTCACTACTCTTCCGTG
* ** * * **
57382 AAGGCTT-AGATTGGTTTTATTCGCTATTCTTCAATGAAGGCTT
66 AAGGCTTAAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
*
57425 AGATTGATTTGCTTTACTACTCTTCCGTGAAGGCTTAGATTGATTTGCTTCA
1 AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTTAGATTGATTTGCTTCA
57477 TTTCATTGCT
Statistics
Matches: 244, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
108 75 0.31
109 136 0.56
110 33 0.14
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (109 bp):
AGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTTAGATTGATTTGCTTCACTACTCTTCCGTG
AAGGCTTAAGATTGATTTGCTTCACTACTCTTCCGTGAAGGCTT
Found at i:57594 original size:89 final size:89
Alignment explanation
Indices: 57482--57677 Score: 288
Period size: 89 Copynumber: 2.2 Consensus size: 89
57472 CTTCATTTCA
* * *
57482 TTGCTAGGAAGACCAAATCTGGGATGAGAAGAATCT-CTTCCACTACTCTTACGTGGAGATCAGA
1 TTGCCAGGAAGACCAAATATGGGATGAGAAGAATCTAC-TCCACTACTCTTACATGGAGATCAGA
* * *
57546 C-TCGAGGCTGATTTGATTCGCTGCT
65 CAT-GAGACTGATTTGATTCACTACT
*
57571 TTGCCAGGAAGACCAAATATGGGATGAGAAGAATCTACTCCACTACTCTTCCATGGAGATCAGAC
1 TTGCCAGGAAGACCAAATATGGGATGAGAAGAATCTACTCCACTACTCTTACATGGAGATCAGAC
*
57636 ATGAGATTGATTTGATTCACTACT
66 ATGAGACTGATTTGATTCACTACT
57660 TTGCCAGGAAGACCAAAT
1 TTGCCAGGAAGACCAAAT
57678 CTGCAATATT
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
89 95 0.98
90 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (89 bp):
TTGCCAGGAAGACCAAATATGGGATGAGAAGAATCTACTCCACTACTCTTACATGGAGATCAGAC
ATGAGACTGATTTGATTCACTACT
Found at i:57925 original size:62 final size:62
Alignment explanation
Indices: 57685--57950 Score: 202
Period size: 62 Copynumber: 4.2 Consensus size: 62
57675 AATCTGCAAT
* * * * *
57685 ATTGACTTCTCTTCATGA-AGAAGTCAAGGATTGACTATATT---GAGTAAAAAATAACAAAG
1 ATTGACTTCTCTTCAAGAGA-AAATCAAGGATTGACTCTATTGGGGAGTCAGAAATAACAAAG
* * * * * * ** * *
57744 GTTGAATTCTCTTCATGAGAAAGTCAATGATTGACTTTATTGGGGAGTCAGTGATAATAAAA
1 ATTGACTTCTCTTCAAGAGAAAATCAAGGATTGACTCTATTGGGGAGTCAGAAATAACAAAG
* * * **
57806 ATTGACTTCTTTTCAAGAGAAAGTTAAAAAATTGATTTCTCT-TTACGAGGGAGTCAGAAATAAC
1 ATTGACTTCTCTTCAAGAGAAA-ATCAAGGATTGA---CTCTATT--G-GGGAGTCAGAAATAAC
57870 AAAG
59 AAAG
* * *
57874 ATAGACTTATCTTCAAGAGAAAATCAAGGATTGACTCTATTGGGGAGTCAGAAATAAAAAATG
1 ATTGACTTCTCTTCAAGAGAAAATCAAGGATTGACTCTATTGGGGAGTCAGAAATAACAAA-G
57937 -TTGACTTCTCTTCA
1 ATTGACTTCTCTTCA
57951 TGAGGAAGTC
Statistics
Matches: 161, Mismatches: 33, Indels: 23
0.74 0.15 0.11
Matches are distributed among these distances:
59 35 0.22
60 1 0.01
62 60 0.37
63 10 0.06
64 4 0.02
65 4 0.02
66 3 0.02
67 9 0.06
68 35 0.22
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (62 bp):
ATTGACTTCTCTTCAAGAGAAAATCAAGGATTGACTCTATTGGGGAGTCAGAAATAACAAAG
Found at i:58578 original size:22 final size:21
Alignment explanation
Indices: 58527--58578 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
58517 TACCAATCAG
* *
58527 TTTTTGGT-ATATTGGATTGG
1 TTTTTGGTGATATTAGATTGA
58547 TTTATTGGTGATATTAGATTGA
1 TTT-TTGGTGATATTAGATTGA
58569 TTTTTAGGTG
1 TTTTT-GGTG
58579 TAATTGAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 7 0.26
22 17 0.63
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (21 bp):
TTTTTGGTGATATTAGATTGA
Found at i:59242 original size:2 final size:2
Alignment explanation
Indices: 59235--59262 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
59225 ATCTGATTTG
59235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59263 TTCACTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66950 original size:20 final size:20
Alignment explanation
Indices: 66907--66984 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
66897 CCGTTAGACA
* * *
66907 GGGGGAATCGATACCTCATGG
1 GGGGGAATCGGTACCCCCT-G
*
66928 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
* *
66948 GGGGGAATCGGTACCCCTTA
1 GGGGGAATCGGTACCCCCTG
66968 GGGGGAATCGGTACCCC
1 GGGGGAATCGGTACCCC
66985 TGGATATTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 35 0.70
21 15 0.30
ACGTcount: A:0.19, C:0.26, G:0.37, T:0.18
Consensus pattern (20 bp):
GGGGGAATCGGTACCCCCTG
Found at i:68464 original size:19 final size:20
Alignment explanation
Indices: 68421--68468 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
68411 TCTAAATCCT
*
68421 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
68441 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
68460 TTTTCAAAA
1 TTTTCAAAA
68469 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:68819 original size:218 final size:218
Alignment explanation
Indices: 68435--68868 Score: 814
Period size: 218 Copynumber: 2.0 Consensus size: 218
68425 CAAAATTTCA
68435 TTTTGGCTTTCAAAATCTATTTTTGTTTTCAAAAGAAAATCATTTTCAATTTTAAATTTTGAAAT
1 TTTTGGCTTTCAAAATCTATTTTTGTTTTCAAAAGAAAATCATTTTCAATTTTAAATTTTGAAAT
*
68500 CATTTTCTTATATTTGGTGTTCATGGTCTCAAACTCCGAATATAACCTATTCAAAGCATCTTGTA
66 CATTTTCTTATATTTGGTGTTCATGGTCTCAAACTCCGAATATAACCTATTAAAAGCATCTTGTA
68565 ACTCATCAAACATATATGAATTAAATTCAATTGAGTTAGAAGATACCTCGGGCTCATCACGAGCC
131 ACTCATCAAACATATATGAATTAAATTCAATTGAGTTAGAAGATACCTCGGGCTCATCACGAGCC
*
68630 ATTAGAGACACCACCTTTGTTGG
196 ATTAGAGACACAACCTTTGTTGG
68653 TTTTGGCTTTCAAAATCTATTTTTGTTTTCAAAAGAAAATCATTTTCAATTTTAAATTTTGAAAT
1 TTTTGGCTTTCAAAATCTATTTTTGTTTTCAAAAGAAAATCATTTTCAATTTTAAATTTTGAAAT
68718 CATTTTCTTATATTTGGTGTTCATGGTCTCAAACTCCGAATATAACCTATTAAAAGCATCTTGTA
66 CATTTTCTTATATTTGGTGTTCATGGTCTCAAACTCCGAATATAACCTATTAAAAGCATCTTGTA
** * *
68783 ACTCATCAAATGTATATGAATTAAATTCATTTGAGTTAGAAGATACCTTGGGCTCATCACGAGCC
131 ACTCATCAAACATATATGAATTAAATTCAATTGAGTTAGAAGATACCTCGGGCTCATCACGAGCC
68848 ATTAGAGACACAACCTTTGTT
196 ATTAGAGACACAACCTTTGTT
68869 AGTTCTTCTT
Statistics
Matches: 210, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
218 210 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (218 bp):
TTTTGGCTTTCAAAATCTATTTTTGTTTTCAAAAGAAAATCATTTTCAATTTTAAATTTTGAAAT
CATTTTCTTATATTTGGTGTTCATGGTCTCAAACTCCGAATATAACCTATTAAAAGCATCTTGTA
ACTCATCAAACATATATGAATTAAATTCAATTGAGTTAGAAGATACCTCGGGCTCATCACGAGCC
ATTAGAGACACAACCTTTGTTGG
Found at i:69598 original size:34 final size:32
Alignment explanation
Indices: 69545--69614 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
69535 CCTTACAAAC
* *
69545 TCCCTAGTTTTTCCAGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCAGGCTAAACTAGAACATT
*
69577 TCCCTAGCTTTTACACAGGCTAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CAGGCTAAACTAGAACATT
69611 TCCC
1 TCCC
69615 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCAGGCTAAACTAGAACATT
Found at i:70001 original size:20 final size:21
Alignment explanation
Indices: 69964--70047 Score: 107
Period size: 21 Copynumber: 4.0 Consensus size: 21
69954 CTATTAGACA
69964 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCGGTACCCCCTGG
*
69985 GGGGGAATCGGTACCCCCTTAG
1 GGGGGAATCGGTACCCCC-TGG
* *
70007 GGGGGAATCTGTTCCCCCT-G
1 GGGGGAATCGGTACCCCCTGG
* *
70027 GGGGGAATCTGTATCCCCTGG
1 GGGGGAATCGGTACCCCCTGG
70048 ACATTCTGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
20 18 0.32
21 20 0.36
22 18 0.32
ACGTcount: A:0.14, C:0.27, G:0.38, T:0.20
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTGG
Found at i:75557 original size:27 final size:28
Alignment explanation
Indices: 75493--75557 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 28
75483 TTGTTCGGAC
* *
75493 AGTGCAGAAAAACTGATTTGGTTCAAAT
1 AGTGCAGAAAAACAGACTTGGTTCAAAT
*
75521 AGTGTA-AAAAA-AGACTTGGTTCGAAAT
1 AGTGCAGAAAAACAGACTTGGTTC-AAAT
75548 -GTGCAGAAAA
1 AGTGCAGAAAA
75558 GTTCGAACAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 13 0.42
27 13 0.42
28 5 0.16
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (28 bp):
AGTGCAGAAAAACAGACTTGGTTCAAAT
Found at i:77568 original size:42 final size:42
Alignment explanation
Indices: 77458--77570 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
77448 TTTTATAATT
*
77458 TTTTAGGTATTTTAGTTTAAATAGATGTTAGTATTTCAATTAGG
1 TTTTAGGTATTTTAGTTTAAATAG-T-TTTGTATTTCAATTAGG
* * * * * **
77502 ATTTAGG-ATATTATTTTAAATAGTTTTTTATTT-TATCTTTG
1 TTTTAGGTATTTTAGTTTAAATAGTTTTGTATTTCAAT-TAGG
77543 TTTTAGGTATTTTAGTTTAAATAGTTTT
1 TTTTAGGTATTTTAGTTTAAATAGTTTT
77571 AAGTGTTTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
40 2 0.04
41 15 0.27
42 19 0.34
43 14 0.25
44 6 0.11
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (42 bp):
TTTTAGGTATTTTAGTTTAAATAGTTTTGTATTTCAATTAGG
Found at i:78245 original size:24 final size:24
Alignment explanation
Indices: 78217--78274 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
78207 TATCCCTATC
78217 TCTTTTATTTATTTTTATTCTTTA
1 TCTTTTATTTATTTTTATTCTTTA
78241 TCTTTTATTTATTTTTATTCTTTA
1 TCTTTTATTTATTTTTATTCTTTA
78265 TCTTTTATTT
1 TCTTTTATTT
78275 CTTTAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.76
Consensus pattern (24 bp):
TCTTTTATTTATTTTTATTCTTTA
Found at i:78247 original size:7 final size:6
Alignment explanation
Indices: 78224--78274 Score: 52
Period size: 7 Copynumber: 8.2 Consensus size: 6
78214 ATCTCTTTTA
78224 TTTATT TTTATT CTTTATCT TTTA-- TTTATT TTTATT CTTTATCT TTTATT
1 TTTATT TTTATT -TTTAT-T TTTATT TTTATT TTTATT -TTTAT-T TTTATT
78274 T
1 T
78275 CTTTAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
4 4 0.10
6 14 0.36
7 19 0.49
8 2 0.05
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:78288 original size:24 final size:24
Alignment explanation
Indices: 78217--78288 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 24
78207 TATCCCTATC
** **
78217 TCTTTTATTTATTTTTATTCTTTA
1 TCTTTTATTTATTTAAATAATTTA
** **
78241 TCTTTTATTTATTTTTATTCTTTA
1 TCTTTTATTTATTTAAATAATTTA
*
78265 TCTTTTATTTCTTTAAATAATTTA
1 TCTTTTATTTATTTAAATAATTTA
78289 AAAACCCACT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (24 bp):
TCTTTTATTTATTTAAATAATTTA
Done.