Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001396.1 Hibiscus syriacus cultivar Beakdansim tig00002726_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: 227762
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:1777 original size:17 final size:17
Alignment explanation
Indices: 1755--1789 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1745 CCGGTTCGGT
*
1755 CTGACCCGACCCGTTGA
1 CTGACCCGACCCGATGA
1772 CTGACCCGACCCGATGA
1 CTGACCCGACCCGATGA
1789 C
1 C
1790 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.14
Consensus pattern (17 bp):
CTGACCCGACCCGATGA
Found at i:1845 original size:28 final size:29
Alignment explanation
Indices: 1798--1917 Score: 188
Period size: 29 Copynumber: 4.1 Consensus size: 29
1788 ACATTTTTAA
*
1798 AATTATTTTGAAAAAGGTGATATTTTGGG
1 AATTATTTTGAAAAAGGTGACATTTTGGG
*
1827 AATTATTTTGAAAAA-GTGACATTTTAGG
1 AATTATTTTGAAAAAGGTGACATTTTGGG
*
1855 AATTATTTTGAAAAAGGTGACATTATGGG
1 AATTATTTTGAAAAAGGTGACATTTTGGG
*
1884 AATTATTTTGAAAAAAGATGACATTTTGGG
1 AATTATTTTG-AAAAAGGTGACATTTTGGG
1914 AATT
1 AATT
1918 TTCGAATGTG
Statistics
Matches: 83, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
28 26 0.31
29 36 0.43
30 21 0.25
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (29 bp):
AATTATTTTGAAAAAGGTGACATTTTGGG
Found at i:1874 original size:57 final size:59
Alignment explanation
Indices: 1784--1917 Score: 202
Period size: 57 Copynumber: 2.3 Consensus size: 59
1774 GACCCGACCC
* * *
1784 GATGACATTTTTA-AAATTATTTTGAAAAAGGTGATATTTTGGGAATTATTTTG-AAAAA
1 GATGACA-TTTTAGGAATTATTTTGAAAAAGGTGACATTATGGGAATTATTTTGAAAAAA
1842 G-TGACATTTTAGGAATTATTTTGAAAAAGGTGACATTATGGGAATTATTTTGAAAAAA
1 GATGACATTTTAGGAATTATTTTGAAAAAGGTGACATTATGGGAATTATTTTGAAAAAA
*
1900 GATGACATTTTGGGAATT
1 GATGACATTTTAGGAATT
1918 TTCGAATGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
56 5 0.07
57 42 0.61
58 7 0.10
59 15 0.22
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (59 bp):
GATGACATTTTAGGAATTATTTTGAAAAAGGTGACATTATGGGAATTATTTTGAAAAAA
Found at i:3966 original size:12 final size:12
Alignment explanation
Indices: 3949--3988 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 12
3939 TTGAAATTGC
3949 TTAAAACATGCA
1 TTAAAACATGCA
3961 TTAAAACATGAGGCA
1 TTAAAACAT---GCA
3976 TTAAAACATGCA
1 TTAAAACATGCA
3988 T
1 T
3989 GGAGGTTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 13 0.52
15 12 0.48
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (12 bp):
TTAAAACATGCA
Found at i:11644 original size:13 final size:13
Alignment explanation
Indices: 11628--11657 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11618 TTTAATTGCG
11628 AAAATTAAAAATT
1 AAAATTAAAAATT
*
11641 AAAATTAAAATTT
1 AAAATTAAAAATT
11654 AAAA
1 AAAA
11658 CTCGATTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:11761 original size:8 final size:8
Alignment explanation
Indices: 11724--11849 Score: 56
Period size: 8 Copynumber: 15.0 Consensus size: 8
11714 AAAAGTTAGG
11724 AAAAATAA
1 AAAAATAA
11732 AAATAA-AA
1 AAA-AATAA
*
11740 ACAAGAAGAA
1 A-AA-AATAA
11750 AAAAATAA
1 AAAAATAA
11758 AAAAACTAA
1 AAAAA-TAA
*
11767 AATAATAA
1 AAAAATAA
* * *
11775 ATAAGAGAG
1 A-AAAATAA
11784 AAAAATAA
1 AAAAATAA
* * *
11792 AGACATAC
1 AAAAATAA
*
11800 ATAAATAAA
1 AAAAAT-AA
11809 AAAAATAA
1 AAAAATAA
**
11817 AAGTATCAA
1 AAAAAT-AA
* *
11826 AATAACAA
1 AAAAATAA
*
11834 AAAAATGA
1 AAAAATAA
11842 AAAAATAA
1 AAAAATAA
11850 TAATAGATCA
Statistics
Matches: 85, Mismatches: 26, Indels: 14
0.68 0.21 0.11
Matches are distributed among these distances:
8 52 0.61
9 30 0.35
10 3 0.04
ACGTcount: A:0.75, C:0.05, G:0.06, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:11768 original size:35 final size:33
Alignment explanation
Indices: 11724--11792 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 33
11714 AAAAGTTAGG
11724 AAAAATAAAAATAA-AAACAAGAAGAAAAAAATAA
1 AAAAAT-AAAATAATAAACAAG-AGAAAAAAATAA
* *
11758 AAAAACTAAAATAATAAATAAGAGAGAAAAATAA
1 AAAAA-TAAAATAATAAACAAGAGAAAAAAATAA
11792 A
1 A
11793 GACATACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 24 0.77
35 7 0.23
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (33 bp):
AAAAATAAAATAATAAACAAGAGAAAAAAATAA
Found at i:11790 original size:20 final size:18
Alignment explanation
Indices: 11730--11791 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 18
11720 TAGGAAAAAT
11730 AAAAATAA-AAACAAGAAG
1 AAAAATAATAAA-AAGAAG
*
11748 AAAAA-AATAAAAA-AAC
1 AAAAATAATAAAAAGAAG
*
11764 TAAAATAATAAATAAGAGAG
1 AAAAATAATAAA-AAGA-AG
11784 AAAAATAA
1 AAAAATAA
11792 AGACATACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 6 0.17
17 10 0.29
18 10 0.29
19 1 0.03
20 8 0.23
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.11
Consensus pattern (18 bp):
AAAAATAATAAAAAGAAG
Found at i:13074 original size:19 final size:19
Alignment explanation
Indices: 13050--13097 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
13040 TGCAAAAAGC
13050 ATAAATAATAATACGAAAA
1 ATAAATAATAATACGAAAA
*
13069 ATAAATGAT-A-A-GAAAA
1 ATAAATAATAATACGAAAA
13085 AT-AATAATAATAC
1 ATAAATAATAATAC
13098 CATATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
15 5 0.21
16 8 0.33
17 2 0.08
18 1 0.04
19 8 0.33
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (19 bp):
ATAAATAATAATACGAAAA
Found at i:13203 original size:37 final size:37
Alignment explanation
Indices: 13153--13456 Score: 290
Period size: 37 Copynumber: 8.5 Consensus size: 37
13143 AAATTTCCAA
* *
13153 ATTTTAAAAACTATATATTATACATATTTTCAAAAAC
1 ATTTTAAAAACTATATATTATATATATTTTCAAAAAT
** * *
13190 ATTTTAAAAACTATATAACATAAATGTTTTCAAAAAT
1 ATTTTAAAAACTATATATTATATATATTTTCAAAAAT
*
13227 ATTTTAAAAACTATATATTATATATATTTTC--AATT
1 ATTTTAAAAACTATATATTATATATATTTTCAAAAAT
* * * *
13262 TTTTTAAAAA--A-A-ACTATATA-A-TAT-ATAAAT
1 ATTTTAAAAACTATATATTATATATATTTTCAAAAAT
* * **
13292 GTTTTCAAAACTATATATTATATAAGTTTTC-AAAAT
1 ATTTTAAAAACTATATATTATATATATTTTCAAAAAT
*
13328 GATTTTAAAAACTATATATTATATATATTTTCTAAAAT
1 -ATTTTAAAAACTATATATTATATATATTTTCAAAAAT
* * *
13366 GTTTTAAAAACTATATACTATATA-GTTTTCAAAAAT
1 ATTTTAAAAACTATATATTATATATATTTTCAAAAAT
* * * *
13402 ATTTTAAAGACTATATATTATATACA-TTTCCAAAGT
1 ATTTTAAAAACTATATATTATATATATTTTCAAAAAT
*
13438 GTTTTTAAAAACTATATAT
1 -ATTTTAAAAACTATATAT
13457 GTCGGAACCG
Statistics
Matches: 218, Mismatches: 36, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
29 2 0.01
30 12 0.06
31 7 0.03
32 2 0.01
33 2 0.01
34 7 0.03
35 12 0.06
36 45 0.21
37 124 0.57
38 5 0.02
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (37 bp):
ATTTTAAAAACTATATATTATATATATTTTCAAAAAT
Found at i:13301 original size:27 final size:25
Alignment explanation
Indices: 13271--13326 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 25
13261 TTTTTTAAAA
13271 AAAACTATATAATATATAAATGTTTTC
1 AAAACTATATAATATAT-AA-GTTTTC
*
13298 AAAACTATATATTATATAAGTTTTC
1 AAAACTATATAATATATAAGTTTTC
13323 AAAA
1 AAAA
13327 TGATTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 10 0.36
26 2 0.07
27 16 0.57
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (25 bp):
AAAACTATATAATATATAAGTTTTC
Found at i:13313 original size:25 final size:27
Alignment explanation
Indices: 13271--13326 Score: 82
Period size: 25 Copynumber: 2.1 Consensus size: 27
13261 TTTTTTAAAA
13271 AAAACTATATAATATATA-AATGTTTTC
1 AAAACTATATAATATATATAA-GTTTTC
13298 AAAACTATAT-AT-TATATAAGTTTTC
1 AAAACTATATAATATATATAAGTTTTC
13323 AAAA
1 AAAA
13327 TGATTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 14 0.50
26 4 0.14
27 10 0.36
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (27 bp):
AAAACTATATAATATATATAAGTTTTC
Found at i:13338 original size:65 final size:63
Alignment explanation
Indices: 13223--13352 Score: 156
Period size: 65 Copynumber: 2.0 Consensus size: 63
13213 ATGTTTTCAA
**
13223 AAATATTTTAAAAACTATATATTATATATATTTTCAATTTTTTTAAAAAAAACTATATAATATAT
1 AAATATTTTAAAAACTATATATTATATATATTTTCAATGATTTT--AAAAAACTATATAATATAT
* * *
13288 AAATGTTTTCAAAACTATATATTATATA-AGTTTTCAAAATGATTTT-AAAAACTATATATTATA
1 AAATATTTTAAAAACTATATATTATATATA-TTTTC--AATGATTTTAAAAAACTATATAATATA
13351 T
63 T
13352 A
1 A
13353 TATTTTCTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
64 19 0.33
65 31 0.54
67 7 0.12
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (63 bp):
AAATATTTTAAAAACTATATATTATATATATTTTCAATGATTTTAAAAAACTATATAATATAT
Found at i:13375 original size:102 final size:100
Alignment explanation
Indices: 13191--13389 Score: 269
Period size: 102 Copynumber: 2.0 Consensus size: 100
13181 TTCAAAAACA
13191 TTTTAAAAACTATATAACATAAATGTTTTCAAAAATATTTTAAAAACTATATATTATATATATTT
1 TTTTAAAAACTATATAACATAAATGTTTTCAAAAATATTTTAAAAACTATATATTATATATATTT
* *
13256 TCAATTTTTTTAAAAAAAACTATATAATATATAAATG
66 TCAAATGTTTT--AAAAAACTATATAATATATAAATG
* **
13293 TTTTCAAAACTATATATTATATAA-GTTTTC-AAAATGATTTTAAAAACTATATATTATATATAT
1 TTTTAAAAACTATATAACATA-AATGTTTTCAAAAAT-ATTTTAAAAACTATATATTATATATAT
*
13356 TTTCTAAAATGTTTT-AAAAACTATATACTATATA
64 TTTC--AAATGTTTTAAAAAACTATATAATATATA
13390 GTTTTCAAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
101 23 0.26
102 55 0.63
103 2 0.02
104 7 0.08
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.44
Consensus pattern (100 bp):
TTTTAAAAACTATATAACATAAATGTTTTCAAAAATATTTTAAAAACTATATATTATATATATTT
TCAAATGTTTTAAAAAACTATATAATATATAAATG
Found at i:13425 original size:139 final size:139
Alignment explanation
Indices: 13154--13409 Score: 345
Period size: 139 Copynumber: 1.8 Consensus size: 139
13144 AATTTCCAAA
*
13154 TTTTAAAAACTATATATTATACATATTTTCAAAAACATTTTAAAAACTATATAACATAAATGTTT
1 TTTTAAAAACTATATATTATACATATTTTCAAAAACATTTTAAAAACTATATAACATAAATATTT
* * *
13219 TCAAAAATATTTTAAAAACTATATATTATATATATTTTCAATTTTTTTAAAAAAAACTATATAAT
66 TCAAAAATATTTTAAAAACTATATACTATATATATTTTCAAATATTTTAAAAAAAACTATATAAT
13284 ATATAAATG
131 ATATAAATG
* * ** ** *
13293 TTTTCAAAACTATATATTATATA-AGTTTTCAAAATGATTTTAAAAACTATATATTATATATATT
1 TTTTAAAAACTATATATTATACATA-TTTTCAAAAACATTTTAAAAACTATATAACATAAATATT
* * *
13357 TTCTAAAATGTTTTAAAAACTATATACTATATA-GTTTTCAAAAATATTTTAAA
65 TTCAAAAATATTTTAAAAACTATATACTATATATATTTTC--AAATATTTTAAA
13410 GACTATATAT
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
138 6 0.06
139 84 0.84
140 10 0.10
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (139 bp):
TTTTAAAAACTATATATTATACATATTTTCAAAAACATTTTAAAAACTATATAACATAAATATTT
TCAAAAATATTTTAAAAACTATATACTATATATATTTTCAAATATTTTAAAAAAAACTATATAAT
ATATAAATG
Found at i:13893 original size:25 final size:23
Alignment explanation
Indices: 13813--13902 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 23
13803 TTAAACATTA
*
13813 AATAAATAAATAACAAAACAATAGAAT
1 AATAAATAAA-AA-AAATCAA-A-AAT
* *
13840 AATAAAATAAAAAAAATCGAAATT
1 AAT-AAATAAAAAAAATCAAAAAT
13864 GAATAAATAAAAAAAAGGTCAAAAAT
1 -AATAAATAAAAAAAA--TCAAAAAT
13890 AAT-AATAAAAAAA
1 AATAAATAAAAAAA
13903 TGATGTTAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
24 24 0.44
25 7 0.13
26 11 0.20
27 5 0.09
28 7 0.13
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.18
Consensus pattern (23 bp):
AATAAATAAAAAAAATCAAAAAT
Found at i:14300 original size:22 final size:22
Alignment explanation
Indices: 14270--14323 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
14260 CGGTGTAGCC
14270 CCGGCCGCCGCTCTCAGTCGCT
1 CCGGCCGCCGCTCTCAGTCGCT
*
14292 CTGGCCGCCGCTCTCAGTCGCT
1 CCGGCCGCCGCTCTCAGTCGCT
*
14314 CCGGCGGCCG
1 CCGGCCGCCG
14324 GGCCAACCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.04, C:0.48, G:0.31, T:0.17
Consensus pattern (22 bp):
CCGGCCGCCGCTCTCAGTCGCT
Found at i:15213 original size:25 final size:25
Alignment explanation
Indices: 15170--15218 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
15160 AATAATAATA
15170 ATATATATATAAACGTTTTCAAAAAC
1 ATATATATATAAAC-TTTTCAAAAAC
*
15196 ATATAATATATAAA-TTTTGAAAA
1 ATAT-ATATATAAACTTTTCAAAA
15219 TGTTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 4 0.19
27 9 0.43
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (25 bp):
ATATATATATAAACTTTTCAAAAAC
Found at i:15233 original size:38 final size:37
Alignment explanation
Indices: 15184--15366 Score: 151
Period size: 38 Copynumber: 4.9 Consensus size: 37
15174 ATATATAAAC
* * *
15184 GTTTTCAAAAACATATAATATATAAATTTTGAAAATG
1 GTTTTTAAAAACATATATTATATAAATTTTCAAAATG
* * *
15221 TTTTTTTAAAAACTAGATATTATATATATTTTCAAAATG
1 -GTTTTTAAAAAC-ATATATTATATAAATTTTCAAAATG
* * *
15260 GTTTTTAAAAA-TTATATTATATAAATGTTTTCATAA-C
1 GTTTTTAAAAACATATATTATATAAA--TTTTCAAAATG
* ** * *
15297 GTTTTCAAAAGTATATATTATATATATTTT-AAAA-C
1 GTTTTTAAAAACATATATTATATAAATTTTCAAAATG
*
15332 GTTTTCAAAAACTATATATTATAT-AATTTTCAAAA
1 GTTTTTAAAAAC-ATATATTATATAAATTTTCAAAA
15367 AATATATTTT
Statistics
Matches: 119, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
35 19 0.16
36 30 0.25
37 9 0.08
38 40 0.34
39 21 0.18
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (37 bp):
GTTTTTAAAAACATATATTATATAAATTTTCAAAATG
Found at i:15351 original size:27 final size:25
Alignment explanation
Indices: 15316--15417 Score: 82
Period size: 27 Copynumber: 3.9 Consensus size: 25
15306 AGTATATATT
*
15316 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTATAAAA-GTTTTCAAAA
*
15342 ACTATATATTATATAA-TTTTCAAAA
1 A-TATATATTATAAAAGTTTTCAAAA
* *
15367 A-ATATATTTTCAAAATGGTTTTTAAAA
1 ATATATATTAT-AAAA--GTTTTCAAAA
*
15394 TTATATATTATATAAATGTTTTCA
1 ATATATATTATA-AAA-GTTTTCA
15418 TAACGTTTTC
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
23 8 0.13
24 3 0.05
25 10 0.17
26 1 0.02
27 27 0.45
28 11 0.18
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATATATTATAAAAGTTTTCAAAA
Found at i:15355 original size:36 final size:37
Alignment explanation
Indices: 15180--15566 Score: 249
Period size: 36 Copynumber: 10.1 Consensus size: 37
15170 ATATATATAT
* * *
15180 AAACGTTTTCAAAAAC-ATATAATATATAAATTTTGA
1 AAACGTTTTCAAAAACTATATATTATATATATTTTCA
* * *
15216 AAATGTTTTTTTAAAAACTAGATATTATATATATTTTCA
1 AAACG--TTTTCAAAAACTATATATTATATATATTTTCA
* * *
15255 AAATGGTTTTTAAAAA-T-TATATTATATAAATGTTTTCA
1 AAA-CGTTTTCAAAAACTATATATTATAT--ATATTTTCA
* *
15293 TAACGTTTTC-AAAAGTATATATTATATATATTTT-A
1 AAACGTTTTCAAAAACTATATATTATATATATTTTCA
15328 AAACGTTTTCAAAAACTATATATTATATA-ATTTTCAAAA
1 AAACGTTTTCAAAAACTATATATTATATATATTTTC---A
** * *
15367 AATATATTTTCAAAATGGTTTTTAAAATTATATATTATATAAATGTTTTCA
1 AA-ACGTTTTC---A--------AAAACTATATATTATATATAT-TTT-CA
* * *
15418 TAACGTTTTC-AAAAGTATATATTATATATATTTTAA
1 AAACGTTTTCAAAAACTATATATTATATATATTTTCA
15454 AAACGTTTTCAAAAACTATATATTATATA-ATTTTCA
1 AAACGTTTTCAAAAACTATATATTATATATATTTTCA
* * * *
15490 AAA-ATATTTTAAAAACTATATAATATACATATTTTCAA
1 AAACGT-TTTCAAAAACTATATATTATATATATTTTC-A
*
15528 AAATGTTTT---AAACTATATATTATATATGTATTTTCA
1 AAACGTTTTCAAAAACTATATATTATATA--TATTTTCA
15564 AAA
1 AAA
15567 ACAATTTGCA
Statistics
Matches: 282, Mismatches: 34, Indels: 70
0.73 0.09 0.18
Matches are distributed among these distances:
35 31 0.11
36 83 0.29
37 40 0.14
38 66 0.23
39 23 0.08
40 7 0.02
43 1 0.00
50 6 0.02
51 19 0.07
52 2 0.01
53 3 0.01
54 1 0.00
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.44
Consensus pattern (37 bp):
AAACGTTTTCAAAAACTATATATTATATATATTTTCA
Found at i:15377 original size:15 final size:16
Alignment explanation
Indices: 15352--15381 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15342 ACTATATATT
15352 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
15368 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
15382 TGGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:15422 original size:125 final size:125
Alignment explanation
Indices: 15244--15493 Score: 475
Period size: 125 Copynumber: 2.0 Consensus size: 125
15234 TAGATATTAT
15244 ATATATTTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
1 ATATATTTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
15309 ATATATTATATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 ATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
*
15368 ATATATTTTCAAAATGGTTTTTAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAAG
1 ATATATTTTCAAAATGGTTTTTAAAAAT-TATATTATATAAATGTTTTCATAACGTTTTCAAAAG
15433 TATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
65 TATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
15494 TATTTTAAAA
Statistics
Matches: 123, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
124 27 0.22
125 55 0.45
126 41 0.33
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (125 bp):
ATATATTTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAGT
ATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
Found at i:15482 original size:37 final size:36
Alignment explanation
Indices: 15368--15568 Score: 194
Period size: 37 Copynumber: 5.4 Consensus size: 36
15358 TTTTCAAAAA
** *
15368 ATATATTTTCAAAATGGTTTTTAAAATTATATATTAT
1 ATATATTTTCAAAAACG-TTTTAAAACTATATATTAT
* * *
15405 ATAAATGTTTTC-ATAACGTTTTCAAAAGTATATATTAT
1 AT--ATATTTTCAAAAACGTTTT-AAAACTATATATTAT
15443 ATATATTTT-AAAAACGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAAACGTTTT--AAAACTATATATTAT
** *
15480 ATA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTTCAAAAACGTTTT-AAAACTATATATTAT
* *
15516 ACATATTTTCAAAAATGTTTT-AAACTATATATTAT
1 ATATATTTTCAAAAACGTTTTAAAACTATATATTAT
15551 ATATGTATTTTCAAAAAC
1 ATA--TATTTTCAAAAAC
15569 AATTTGCAAA
Statistics
Matches: 138, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
35 15 0.11
36 37 0.27
37 60 0.43
38 19 0.14
39 7 0.05
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (36 bp):
ATATATTTTCAAAAACGTTTTAAAACTATATATTAT
Found at i:15590 original size:74 final size:71
Alignment explanation
Indices: 15386--15573 Score: 182
Period size: 73 Copynumber: 2.5 Consensus size: 71
15376 TCAAAATGGT
* * ** * * * *
15386 TTTTAAAATTATATATTATATAAATGTTTTC-ATAACGTTTTCAAAAGTATATATTATATATATT
1 TTTTAAAACTATATATTATAT-AA--TTTTCAAAAACAATTTAAAAACTATATAATATACATATT
15450 TTAAAAACG
63 TTAAAAACG
* *
15459 TTTTCAAAAACTATATATTATATAATTTTCAAAAATATTTTAAAAACTATATAATATACATATTT
1 TTTT--AAAACTATATATTATATAATTTTCAAAAACAATTTAAAAACTATATAATATACATATTT
*
15524 TCAAAAATG
64 T-AAAAACG
15533 TTTT-AAACTATATATTATATATGTATTTTCAAAAACAATTT
1 TTTTAAAACTATATATTATATA---ATTTTCAAAAACAATTT
15574 GCAAATTGTA
Statistics
Matches: 97, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
71 17 0.18
72 5 0.05
73 32 0.33
74 27 0.28
75 16 0.16
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (71 bp):
TTTTAAAACTATATATTATATAATTTTCAAAAACAATTTAAAAACTATATAATATACATATTTTA
AAAACG
Found at i:16376 original size:165 final size:165
Alignment explanation
Indices: 16183--17178 Score: 1795
Period size: 165 Copynumber: 6.1 Consensus size: 165
16173 AAGTTGAATA
** *
16183 TAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
*
16248 CCTTGGAGCTTAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
16313 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
*
16348 AAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
16413 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
16478 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
16513 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
16578 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
16643 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
16678 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
*
16743 CCTTGGAGCTGAGCGTAGTCGAACTCGAATGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
16808 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
16843 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
16908 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
*
16973 TTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
17008 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * * *
17073 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
* * * * * *
17134 CTATGCTGCAAATGGTGTG-CCTTGGAGCTGAGCG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
*
17168 TAGTCGAACTC
1 TAATCGAACTC
17179 AAAGGTCTTT
Statistics
Matches: 810, Mismatches: 21, Indels: 5
0.97 0.03 0.01
Matches are distributed among these distances:
160 22 0.03
161 34 0.04
164 5 0.01
165 749 0.92
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (165 bp):
TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
Found at i:17274 original size:164 final size:163
Alignment explanation
Indices: 16207--17351 Score: 765
Period size: 165 Copynumber: 7.0 Consensus size: 163
16197 GGTCTTTAGC
* * * * * *
16207 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTTAGCGTAGTCGAAC
1 AGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAATCGAAC
* * * * * * * * *
16272 TCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
66 TCGAAGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATCCTGCAAATGATATG-CCTT
* * * * *** **
16337 GAAGCTGAGTGAAATCGAACTCGGGGGTCTTTG---GC
126 GGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTAAT
* * * * *
16372 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAATCGAAC
* * * * * * * * *
16437 TCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
66 TCGAAGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATCCTGCAAATGATATG-CCTT
* * * *** **
16502 GAAGCTGAGTGTAATCGAACTCGGGGGTCTTTG---GC
126 GGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTAAT
* * * * *
16537 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAATCGAAC
* * * * * * * * *
16602 TCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
66 TCGAAGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATCCTGCAAATGATATG-CCTT
* * * *** **
16667 GAAGCTGAGTGTAATCGAACTCGGGGGTCTTTG---GC
126 GGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTAAT
* * * * *
16702 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAATCGAAC
* * * * * * * * * *
16767 TCGAATGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
66 TCGAAGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATCCTGCAAATGATATG-CCTT
* * * *** **
16832 GAAGCTGAGTGTAATCGAACTCGGGGGTCTTTG---GC
126 GGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTAAT
* * * * *
16867 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAATCGAAC
* * * * * ** * * *
16932 TCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTC
66 TCGAAGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATCCTGCAAATGATATG-CCTT
* * * *** **
16997 GAAGCTGAGTGTAATCGAACTCGGGGGTCTTTG---GC
126 GGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTAAT
* * * * *
17032 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAATCGAAC
* * *
17097 TCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGGTGTGCCTTGGAGC
66 TCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATCCTGCAAATGATATGCCTTGGAGC
17162 TGAGCGTAGTCGAACTCAAAGGTCTTTGTTAAT
131 TGAGCGTAGTCGAACTCAAAGGTCTTTGTTAAT
* * * * * *
17195 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAA
1 AGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATG-CCTTGAAGCTGAGCGTAATCGAA
*
17260 CT-TAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATCCTGCAAATGATATGCCTTGGA
65 CTCGAA-GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATCCTGCAAATGATATGCCTTGGA
*
17324 GCTGAGCGTAGTCGAACTCGAAGGTCTT
129 GCTGAGCGTAGTCGAACTCAAAGGTCTT
17352 GGTGGCAGGT
Statistics
Matches: 937, Mismatches: 38, Indels: 11
0.95 0.04 0.01
Matches are distributed among these distances:
160 30 0.03
161 34 0.04
163 35 0.04
164 109 0.12
165 729 0.78
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (163 bp):
AGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAATCGAAC
TCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATCCTGCAAATGATATGCCTTGGAGC
TGAGCGTAGTCGAACTCAAAGGTCTTTGTTAAT
Found at i:22359 original size:13 final size:13
Alignment explanation
Indices: 22341--22370 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
22331 GATTGCGAAG
22341 AATTAAAAATTTA
1 AATTAAAAATTTA
22354 AATT-AAAATTTA
1 AATTAAAAATTTA
22366 AATTA
1 AATTA
22371 CTCGATTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTAAAAATTTA
Found at i:22479 original size:23 final size:22
Alignment explanation
Indices: 22453--22526 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 22
22443 AATAATAATT
22453 AAACATTAAATAAATAAATAACA
1 AAACATTAAATAAATAAATAA-A
* *
22476 AAACAATAGAATAAAAAAATTAAA
1 AAACATTA-AATAAATAAA-TAAA
* *
22500 AAAAATTGAAATTGAATAAATAAA
1 AAACATT-AAA-TAAATAAATAAA
22524 AAA
1 AAA
22527 AAGGGTCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
23 7 0.17
24 24 0.59
25 10 0.24
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (22 bp):
AAACATTAAATAAATAAATAAA
Found at i:22502 original size:24 final size:23
Alignment explanation
Indices: 22439--22495 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
22429 ATGTTAGATG
* ** *
22439 ATAAAATAATAATTAAACATTAA
1 ATAAAAAAATAACAAAACAATAA
*
22462 ATAAATAAATAACAAAACAATAGA
1 ATAAAAAAATAACAAAACAATA-A
22486 ATAAAAAAAT
1 ATAAAAAAAT
22496 TAAAAAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (23 bp):
ATAAAAAAATAACAAAACAATAA
Found at i:22942 original size:22 final size:22
Alignment explanation
Indices: 22914--22956 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
22904 GTGTAGCCCC
22914 GGCCGCCGCTCTCAGTCGCTCT
1 GGCCGCCGCTCTCAGTCGCTCT
22936 GGCCGCCGCTCTCAGTCGCTC
1 GGCCGCCGCTCTCAGTCGCTC
22957 CGGCGGCCAG
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:0.05, C:0.47, G:0.28, T:0.21
Consensus pattern (22 bp):
GGCCGCCGCTCTCAGTCGCTCT
Found at i:23882 original size:42 final size:40
Alignment explanation
Indices: 23819--23901 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 40
23809 TATATAAACG
* * *
23819 TTTTCAAAAACATATAATATATAAATTTTTAAAATGTTTTT
1 TTTTAAAAAACATATAATATATAAA-TTTCAAAATGGTTTT
* *
23860 TTTTAAAAAACTATATATTATATATATTTCAAAATGGTTTT
1 TTTTAAAAAAC-ATATAATATATAAATTTCAAAATGGTTTT
23901 T
1 T
23902 AAAAATTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 24 0.67
42 12 0.33
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (40 bp):
TTTTAAAAAACATATAATATATAAATTTCAAAATGGTTTT
Found at i:23928 original size:38 final size:38
Alignment explanation
Indices: 23814--23993 Score: 144
Period size: 35 Copynumber: 4.8 Consensus size: 38
23804 TAATATATAT
* *
23814 AAACGTTTTCAAAAACATATAATATATAAAT-TTTT-A
1 AAACGTTTTCAAAAATATATATTATATAAATATTTTCA
* *
23850 AAATGTTTTTTTTTAAAAAACTATATATTATAT--ATA-TTTCA
1 AAACG-----TTTTCAAAAA-TATATATTATATAAATATTTTCA
* * *
23891 AAATGGTTTTTAAAAAT-TATATTATATAAATGTTTTCA
1 AAA-CGTTTTCAAAAATATATATTATATAAATATTTTCA
* *
23929 TAACGTTTTCAAAAGTATATATTATAT--ATATTTT-A
1 AAACGTTTTCAAAAATATATATTATATAAATATTTTCA
23964 AAACGTTTTCAAAAACTATATATTATATAA
1 AAACGTTTTCAAAAA-TATATATTATATAA
23994 TTTTCAAAAA
Statistics
Matches: 114, Mismatches: 14, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
35 24 0.21
36 23 0.20
37 21 0.18
38 17 0.15
40 5 0.04
41 13 0.11
42 11 0.10
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (38 bp):
AAACGTTTTCAAAAATATATATTATATAAATATTTTCA
Found at i:23987 original size:27 final size:25
Alignment explanation
Indices: 23952--24054 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 25
23942 AGTATATATT
*
23952 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTATAAAA-GTTTTCAAAA
*
23978 ACTATATATTATATAA-TTTTCAAAA
1 A-TATATATTATAAAAGTTTTCAAAA
* *
24003 A-ATATATTTTCAAAATGGTTTTTAAAA
1 ATATATATTAT-AAAA--GTTTTCAAAA
24030 ATTATATATTATATAAATGTTTTCA
1 A-TATATATTATA-AAA-GTTTTCA
24055 TAACGTTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
23 8 0.13
24 3 0.05
25 10 0.16
26 1 0.02
27 21 0.34
28 7 0.11
29 11 0.18
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATATATTATAAAAGTTTTCAAAA
Found at i:23991 original size:36 final size:37
Alignment explanation
Indices: 23814--24205 Score: 196
Period size: 37 Copynumber: 10.1 Consensus size: 37
23804 TAATATATAT
* * *
23814 AAACGTTTTCAAAAAC-ATATAATATATAAATTTTTA
1 AAACGTTTTCAAAAACTATATATTATATATATTTTAA
* * *
23850 AAATGTTTTTTTTTAAAAAACTATATATTATATATATTTCAA
1 AAACG-----TTTTCAAAAACTATATATTATATATATTTTAA
** * * *
23892 AATGGTTTTTAAAAA-T-TATATTATATAAATGTTTTCA
1 AAACGTTTTCAAAAACTATATATTATAT--ATATTTTAA
* *
23929 TAACGTTTTC-AAAAGTATATATTATATATATTTT-A
1 AAACGTTTTCAAAAACTATATATTATATATATTTTAA
23964 AAACGTTTTCAAAAACTATATATTATATA-ATTTTCAAAAA
1 AAACGTTTTCAAAAACTATATATTATATATATTTT----AA
* * * * *
24004 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCA
1 A-A-A----C------GTTTTCAAAAACTATATATTATATATATTTTA--A
* *
24055 TAACGTTTTC-AAAAGTATATATTATATATATTTTAA
1 AAACGTTTTCAAAAACTATATATTATATATATTTTAA
*
24091 AAAAGTTTTCAAAAACTATATATTATATA-ATTTTCAA
1 AAACGTTTTCAAAAACTATATATTATATATATTTT-AA
** * *
24128 AAATATTTT-AAAAACTATATAATATACATATTTTCAA
1 AAACGTTTTCAAAAACTATATATTATATATATTTT-AA
*
24165 AAATGTTTT---AAACTATATATTATATATGTATTTTCAA
1 AAACGTTTTCAAAAACTATATATTATATA--TATTTT-AA
24202 AAAC
1 AAAC
24206 AATTTGCAAA
Statistics
Matches: 280, Mismatches: 40, Indels: 71
0.72 0.10 0.18
Matches are distributed among these distances:
35 40 0.14
36 63 0.22
37 76 0.27
38 31 0.11
39 5 0.02
40 2 0.01
41 11 0.04
42 20 0.07
45 1 0.00
46 1 0.00
49 1 0.00
50 1 0.00
51 1 0.00
52 23 0.08
53 4 0.01
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
AAACGTTTTCAAAAACTATATATTATATATATTTTAA
Found at i:24013 original size:15 final size:16
Alignment explanation
Indices: 23988--24017 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23978 ACTATATATT
23988 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
24004 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
24018 TGGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:24065 original size:126 final size:126
Alignment explanation
Indices: 23879--24130 Score: 463
Period size: 126 Copynumber: 2.0 Consensus size: 126
23869 ACTATATATT
23879 ATATATATTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAG
1 ATATATATTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAG
*
23944 TATATATTATATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 TATATATTATATATATTTTAAAAAAGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
24004 ATATAT-TTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
1 ATATATATTTCAAAATGGTTTTTAAAAA-T-TATATTATATAAATGTTTTCATAACGTTTTCAAA
24068 AGTATATATTATATATATTTTAAAAAAGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
64 AGTATATATTATATATATTTTAAAAAAGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
24131 TATTTTAAAA
Statistics
Matches: 123, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
124 21 0.17
125 7 0.06
126 55 0.45
127 40 0.33
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (126 bp):
ATATATATTTCAAAATGGTTTTTAAAAATTATATTATATAAATGTTTTCATAACGTTTTCAAAAG
TATATATTATATATATTTTAAAAAAGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
Found at i:24119 original size:37 final size:37
Alignment explanation
Indices: 24004--24204 Score: 198
Period size: 37 Copynumber: 5.4 Consensus size: 37
23994 TTTTCAAAAA
** *
24004 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTAT
1 ATATATTTTCAAAAAAG-TTTTAAAAACTATATATTAT
* * * * *
24042 ATAAATGTTTTC-ATAACGTTTTCAAAAGTATATATTAT
1 AT--ATATTTTCAAAAAAGTTTTAAAAACTATATATTAT
24080 ATATATTTT-AAAAAAGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAAAAGTTTT-AAAAACTATATATTAT
*
24117 ATA-ATTTTCAAAAATA-TTTTAAAAACTATATAATAT
1 ATATATTTTCAAAAA-AGTTTTAAAAACTATATATTAT
* *
24153 ACATATTTTCAAAAATGTTTT--AAACTATATATTAT
1 ATATATTTTCAAAAAAGTTTTAAAAACTATATATTAT
24188 ATATGTATTTTCAAAAA
1 ATA--TATTTTCAAAAA
24205 CAATTTGCAA
Statistics
Matches: 137, Mismatches: 16, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
35 15 0.11
36 36 0.26
37 53 0.39
38 23 0.17
39 3 0.02
40 7 0.05
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
ATATATTTTCAAAAAAGTTTTAAAAACTATATATTAT
Found at i:24217 original size:74 final size:71
Alignment explanation
Indices: 24065--24227 Score: 184
Period size: 74 Copynumber: 2.2 Consensus size: 71
24055 TAACGTTTTC
* * *
24065 AAAAGTATATATTATATATATTTTAAAAAAGTTTTCAAAAACTATATATTATATAATTTTCAAAA
1 AAAACTATATAATATACATATTTTAAAAAAGTTTT--AAAACTATATATTATATAATTTTCAAAA
* *
24130 ATATTTTA
64 ACAATTTA
*
24138 AAAACTATATAATATACATATTTTCAAAAATGTTTT-AAACTATATATTATATATGTATTTTCAA
1 AAAACTATATAATATACATATTTT-AAAAAAGTTTTAAAACTATATATTATATA---ATTTTCAA
*
24202 AAACAATTTG
62 AAACAATTTA
* *
24212 CAAACTGTATAATATA
1 AAAACTATATAATATA
24228 TATGTGTATA
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
71 17 0.22
73 21 0.27
74 39 0.51
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.42
Consensus pattern (71 bp):
AAAACTATATAATATACATATTTTAAAAAAGTTTTAAAACTATATATTATATAATTTTCAAAAAC
AATTTA
Found at i:24227 original size:37 final size:34
Alignment explanation
Indices: 24065--24228 Score: 105
Period size: 37 Copynumber: 4.5 Consensus size: 34
24055 TAACGTTTTC
* * *
24065 AAAAGTATATATTATATATATTTT-AAAAAAGTTTT
1 AAAACTATATAATATAT-TATTTTCAAAAAA-ATTT
* * *
24100 CAAAAACTATATATTATATAATTTTCAAAAATATTTT
1 --AAAACTATATAATATATTATTTTCAAAAA-AATTT
* **
24137 AAAAACTATATAATATACATATTTTCAAAAATGTTT
1 -AAAACTATATAATATA-TTATTTTCAAAAAAATTT
*
24173 TAAACTATATATTATATATGTATTTTCAAAAACAATTT
1 AAAACTATATA--ATATAT-TATTTTCAAAAA-AATTT
* *
24211 GCAAACTGTATAATATAT
1 -AAAACTATATAATATAT
24229 ATGTGTATAT
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
35 10 0.09
36 24 0.23
37 59 0.56
38 4 0.04
39 9 0.08
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.42
Consensus pattern (34 bp):
AAAACTATATAATATATTATTTTCAAAAAAATTT
Found at i:24329 original size:2 final size:2
Alignment explanation
Indices: 24318--24360 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
24308 GTTTGCAAAC
*
24318 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24359 TA
1 TA
24361 AATTAAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24569 original size:29 final size:29
Alignment explanation
Indices: 24476--24569 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
24466 GGGGATGGAA
* *
24476 TTAGAATGTTAAAAAGTTTAAGGA-CTAAT
1 TTAGAATATTCAAAAGTTTAAGGATC-AAT
** * * * *
24505 TTAGAATAAGCCATAGTTTAAGGATGAAA
1 TTAGAATATTCAAAAGTTTAAGGATCAAT
* *
24534 TTGGAATATTCAAAAGTCTAAGGATCAAT
1 TTAGAATATTCAAAAGTTTAAGGATCAAT
24563 TTAGAAT
1 TTAGAAT
24570 GAGGGTAATA
Statistics
Matches: 47, Mismatches: 17, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (29 bp):
TTAGAATATTCAAAAGTTTAAGGATCAAT
Found at i:27815 original size:23 final size:23
Alignment explanation
Indices: 27789--27836 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
27779 ATAAAGTACA
*
27789 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
27812 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
27835 AT
1 AT
27837 TTACTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:28279 original size:23 final size:23
Alignment explanation
Indices: 28218--28290 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
28208 ACACTTTACA
* *
28218 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
28241 ATATAAACGATGCCTATTACATT
1 ATATAAACGCTACCTATTACATT
** *
28264 ATATAAGGGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
28287 ATAT
1 ATAT
28291 GTTTACCTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:28747 original size:39 final size:39
Alignment explanation
Indices: 28693--28779 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
28683 TCAAGTTGTA
*
28693 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
28732 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
28771 GATTTTGAT
1 GATTTTGAT
28780 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:29058 original size:18 final size:18
Alignment explanation
Indices: 29035--29071 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29025 CGAAATATAT
29035 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
29053 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
29071 A
1 A
29072 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:29400 original size:25 final size:25
Alignment explanation
Indices: 29366--29416 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
29356 TTTTTCCAAA
*
29366 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
29391 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
29416 T
1 T
29417 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:29710 original size:21 final size:22
Alignment explanation
Indices: 29685--29736 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
29675 ACACTTTACA
*
29685 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
29708 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
29731 ATATAA
1 ATATAA
29737 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:29721 original size:23 final size:23
Alignment explanation
Indices: 29695--29757 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
29685 ATATAACCAC
29695 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
29718 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
29741 TACCTATTACATCATAT
1 TACCTATTACATTATAT
29758 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:30101 original size:25 final size:25
Alignment explanation
Indices: 30044--30109 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
30034 CACTCAAAAG
*
30044 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
30069 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
30094 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
30110 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:32884 original size:184 final size:184
Alignment explanation
Indices: 32575--33102 Score: 948
Period size: 184 Copynumber: 2.9 Consensus size: 184
32565 TTCAAATTAC
* * *
32575 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
* * *
32640 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
32705 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAAATGT
32759 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
32824 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
*
32889 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAAATGT
32943 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
33008 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
* * * **
33073 ATATTGCAAATTTACCTATTTTATTATAAT
131 ATATTACAAAATTATCTATTACATTATAAT
33103 ATGTTGAAAG
Statistics
Matches: 332, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
184 332 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (184 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAAATGT
Found at i:34723 original size:199 final size:199
Alignment explanation
Indices: 34191--35360 Score: 2209
Period size: 199 Copynumber: 5.9 Consensus size: 199
34181 TTTAAATTAG
34191 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
34256 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
34321 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG-AA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
34385 AAAA
196 AAAA
34389 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
34454 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
34519 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
34584 AAAA
196 AAAA
34588 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
34653 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
34718 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
34783 AAAA
196 AAAA
34787 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
34852 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* ** *
34916 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
34981 AAAA
196 AAAA
34985 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
35050 ATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
35115 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
35180 AAAA
196 AAAA
35184 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
35249 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
35314 TTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
35361 GGCCATATTG
Statistics
Matches: 956, Mismatches: 13, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
198 386 0.40
199 509 0.53
200 61 0.06
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
AAAA
Found at i:34924 original size:397 final size:398
Alignment explanation
Indices: 34191--35360 Score: 2218
Period size: 397 Copynumber: 2.9 Consensus size: 398
34181 TTTAAATTAG
34191 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
34256 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
34321 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG-AA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
34385 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
34450 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
34515 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCTGG
*
34580 GAAAAAAA
391 AAAAAAAA
34588 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
34653 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
34718 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
34783 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
34848 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
* *
34912 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCTGG
34977 AAAAAAAA
391 AAAAAAAA
34985 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
35050 ATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
35115 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
35180 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
* *
35245 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTT
*
35310 GGGATTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
35361 GGCCATATTG
Statistics
Matches: 757, Mismatches: 13, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
397 580 0.77
398 117 0.15
399 60 0.08
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (398 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCTGG
AAAAAAAA
Found at i:35525 original size:19 final size:19
Alignment explanation
Indices: 35479--35527 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
35469 TTATATTCAC
*
35479 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
35498 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
35517 ATACAAAATTA
1 ATACAAAATTA
35528 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:37362 original size:32 final size:32
Alignment explanation
Indices: 37320--37380 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
37310 TTAATATCAC
*
37320 CCCTTAACACCCCAACTTCTTTCACCACTTCA
1 CCCTCAACACCCCAACTTCTTTCACCACTTCA
* *
37352 CCCTCAACACCTCTACTTCTTTCACCACT
1 CCCTCAACACCCCAACTTCTTTCACCACT
37381 CCATCTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.30
Consensus pattern (32 bp):
CCCTCAACACCCCAACTTCTTTCACCACTTCA
Found at i:39741 original size:19 final size:20
Alignment explanation
Indices: 39707--39752 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
39697 TCCGGTATCA
39707 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
39726 TTGTTACCGG-TTTATCATAT
1 TT-TTACCGGTTTTATCATAT
39746 TTTTACC
1 TTTTACC
39753 TGTTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:39899 original size:20 final size:20
Alignment explanation
Indices: 39873--39918 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
39863 CACTTTTAAA
39873 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
39892 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
39913 TTTACC
1 TTTACC
39919 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:41936 original size:21 final size:20
Alignment explanation
Indices: 41850--42005 Score: 82
Period size: 21 Copynumber: 7.7 Consensus size: 20
41840 AAATGACCAA
**
41850 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
41869 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
41889 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
41909 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
41930 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
41951 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
41971 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
41992 GAAAATCGCAACGC
1 CAAAATCGCAACGC
42006 AAACACATAA
Statistics
Matches: 102, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.16
20 39 0.38
21 47 0.46
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:42036 original size:20 final size:20
Alignment explanation
Indices: 42013--42243 Score: 243
Period size: 20 Copynumber: 11.6 Consensus size: 20
42003 CGCAAACACA
42013 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
42033 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
*
42053 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
42073 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
42093 TATATCGGAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
42113 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
*** *
42133 TAAATCGCAACGAAAATCTG
1 TAAATCGCAACGCGTATCCG
*
42153 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
42173 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
42193 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
42213 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
42233 TAAATCACAAC
1 TAAATCGCAAC
42244 ACTGAAATTT
Statistics
Matches: 180, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 177 0.98
21 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.22
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:42060 original size:40 final size:40
Alignment explanation
Indices: 41974--42243 Score: 280
Period size: 40 Copynumber: 6.8 Consensus size: 40
41964 CGATTTTCCA
* ** * *
41974 AAATCGCAACGCGAATATGAAAATCGCAACGCA-AA-CACAT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATC-CGT
* * *
42014 AAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAT-AATCCGT
* * *
42054 ATATCGCAACGCGTATCCGTAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAA--CGATAATCCGT
* * * *
42094 ATATCGGAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
42134 AAATCGCAACGAAAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
42174 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
42214 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
42244 ACTGAAATTT
Statistics
Matches: 207, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 1 0.00
40 200 0.97
41 1 0.00
42 3 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:42961 original size:24 final size:24
Alignment explanation
Indices: 42922--42968 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
42912 AAATTTGGTC
42922 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
42946 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
42969 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:45449 original size:33 final size:34
Alignment explanation
Indices: 45398--45562 Score: 183
Period size: 33 Copynumber: 4.7 Consensus size: 34
45388 CGGAAATTAC
* *
45398 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
*
45431 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
45465 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C--AATGAAAATCGCAATGCGAAATGAA
* *
45503 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
45536 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--C--AATGAAAATCGCAA
45563 CGAGAGAATC
Statistics
Matches: 113, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 50 0.44
34 16 0.14
35 1 0.01
36 2 0.02
37 1 0.01
38 26 0.23
39 16 0.14
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:45481 original size:19 final size:19
Alignment explanation
Indices: 45412--45600 Score: 210
Period size: 19 Copynumber: 10.7 Consensus size: 19
45402 GCAACGAGAG
45412 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
45431 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
45445 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
45465 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
45484 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
45503 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
45517 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
45536 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
45555 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
45569 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
* *
45588 AATGGCATTGCGA
1 AATCGCAATGCGA
45601 TTCTCCCGTT
Statistics
Matches: 145, Mismatches: 9, Indels: 32
0.78 0.05 0.17
Matches are distributed among these distances:
14 32 0.22
15 2 0.01
16 5 0.03
17 5 0.03
18 2 0.01
19 83 0.57
20 16 0.11
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:45539 original size:52 final size:52
Alignment explanation
Indices: 45398--45600 Score: 272
Period size: 52 Copynumber: 3.9 Consensus size: 52
45388 CGGAAATTAC
*
45398 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
45445 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
45503 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* * *
45555 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATGGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
45601 TTCTCCCGTT
Statistics
Matches: 139, Mismatches: 6, Indels: 17
0.86 0.04 0.10
Matches are distributed among these distances:
47 8 0.06
49 1 0.01
50 1 0.01
52 84 0.60
53 29 0.21
55 2 0.01
56 1 0.01
58 13 0.09
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:45649 original size:19 final size:19
Alignment explanation
Indices: 45609--45706 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
45599 GATTCTCCCG
45609 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
45629 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
45648 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
45662 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
45681 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
45700 TTGCGAT
1 TTGCGAT
45707 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:45703 original size:52 final size:53
Alignment explanation
Indices: 45592--45706 Score: 214
Period size: 53 Copynumber: 2.2 Consensus size: 53
45582 AATTAAAATG
45592 GCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTC
1 GCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTC
*
45645 GCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTTC
1 GCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTC
45697 GCATTGCGAT
1 GCATTGCGAT
45707 AGTCAATTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.49
53 31 0.51
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (53 bp):
GCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTC
Found at i:45829 original size:13 final size:14
Alignment explanation
Indices: 45813--45848 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
45803 CATCAATTAC
45813 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
*
45826 ACAAATCATCTTTT
1 ACAAATCAACTTTT
45840 ACAAATCAA
1 ACAAATCAA
45849 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:47798 original size:20 final size:20
Alignment explanation
Indices: 47773--47838 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 20
47763 TAGTTTACTT
* *
47773 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAACTCAAAA
47793 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
* *
47812 TCGCAATGCGAAA-TGAAAA
1 TCGCAACGCGAAACTCAAAA
47831 TCGCAACG
1 TCGCAACG
47839 ACAGAATCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
19 27 0.68
20 13 0.32
ACGTcount: A:0.45, C:0.26, G:0.17, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:47848 original size:14 final size:14
Alignment explanation
Indices: 47829--47885 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
47819 GCGAAATGAA
*
47829 AATCGCAACGACAG
1 AATCGCAACGAAAG
47843 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
47860 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
47876 AATCGCAACG
1 AATCGCAACG
47886 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:47852 original size:33 final size:33
Alignment explanation
Indices: 47810--47902 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
47800 GCGAAACCAA
*
47810 AATCGCAATGCGAAATGAAAATCGCAACGACAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
47843 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
47876 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
47903 TGCGATTTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:47867 original size:19 final size:19
Alignment explanation
Indices: 47789--47907 Score: 123
Period size: 19 Copynumber: 6.8 Consensus size: 19
47779 CACGAAACTT
* **
47789 AAAATCGCAACGCGAAACC
1 AAAATCGCAATGCGAAATG
47808 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
*
47827 AAAATCGCAA--CGACA-G
1 AAAATCGCAATGCGAAATG
47843 --AATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
47860 AAAATCGCAA--CGAAA-G
1 AAAATCGCAATGCGAAATG
*
47876 --AATCGCAACGCGAAATG
1 AAAATCGCAATGCGAAATG
47893 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
47908 TTTTGGTTTC
Statistics
Matches: 84, Mismatches: 6, Indels: 20
0.76 0.05 0.18
Matches are distributed among these distances:
14 16 0.19
16 11 0.13
17 11 0.13
19 46 0.55
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:47919 original size:19 final size:19
Alignment explanation
Indices: 47903--48017 Score: 141
Period size: 19 Copynumber: 6.3 Consensus size: 19
47893 AAAATCGCAA
47903 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
47922 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
47936 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
**
47955 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
47974 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
47993 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
48013 TGCGA
1 TGCGA
48018 AAGTAAACTA
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
14 11 0.13
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 54 0.66
20 13 0.16
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:48181 original size:93 final size:93
Alignment explanation
Indices: 48065--48533 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
48055 ATGGATTGCA
48065 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
48129 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
48157 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
48222 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
48250 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
48315 TAGCAGAATTGGCTGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
48343 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
48408 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
48436 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
48501 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
48529 TTACT
1 TTACT
48534 AAGCAATCTA
Statistics
Matches: 373, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 369 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:50256 original size:14 final size:14
Alignment explanation
Indices: 50237--50326 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
50227 TTGAAATGAA
50237 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
50251 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
50270 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
50284 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
50303 AATCGCAACGACAG
1 AATCGCAACGAGAG
50317 AATCGCAACG
1 AATCGCAACG
50327 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 29 0.49
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.34
ACGTcount: A:0.44, C:0.23, G:0.22, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:50268 original size:33 final size:33
Alignment explanation
Indices: 50229--50342 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
50219 TCTTTTGGTT
50229 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
50262 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
50295 GAAATGAAAATCGCAACGACAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
50328 GAAATG-AAATCGCAA
1 GAAATGAAAATCGCAA
50343 TGCGATTTGG
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 9 0.12
33 69 0.88
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:50275 original size:19 final size:19
Alignment explanation
Indices: 50251--50347 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 19
50241 GCAACGAGAG
50251 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
50270 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
50284 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
50303 AATCGCAA--CGACA-G--
1 AATCGCAACGCGAAATGAA
50317 AATCGCAACGCGAAATG-A
1 AATCGCAACGCGAAATGAA
*
50335 AATCGCAATGCGA
1 AATCGCAACGCGA
50348 TTTGGTTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
14 18 0.29
15 1 0.02
16 6 0.10
17 6 0.10
18 13 0.21
19 18 0.29
ACGTcount: A:0.44, C:0.23, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:50393 original size:33 final size:33
Alignment explanation
Indices: 50353--50422 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
50343 TGCGATTTGG
50353 TTTCGCGTTGCGATTCTCTAGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTAGTTGCGATTTTCA
*
50386 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTAGTTGCGATTTTCA
50419 TTTC
1 TTTC
50423 TCTCGTTGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTAGTTGCGATTTTCA
Found at i:50410 original size:14 final size:14
Alignment explanation
Indices: 50358--50414 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
50348 TTTGGTTTCG
50358 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
50372 AGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
50391 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
50405 CGTTGCGATT
1 CGTTGCGATT
50415 TTCATTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:50455 original size:41 final size:41
Alignment explanation
Indices: 50398--50475 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
50388 TCGCGTTGCG
*
50398 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
50439 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
50476 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:50460 original size:20 final size:21
Alignment explanation
Indices: 50399--50474 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
50389 CGCGTTGCGA
50399 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
50420 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
50440 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
50461 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
50475 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:50594 original size:33 final size:33
Alignment explanation
Indices: 50555--50622 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
50545 TACTAACTTG
*
50555 AAATCGCAACGAGAGAATAGCAACGCGAAATGA
1 AAATCGCAACGACAGAATAGCAACGCGAAATGA
* *
50588 AAATCGCAACGACAGAATCGTAACGCGAAATGA
1 AAATCGCAACGACAGAATAGCAACGCGAAATGA
50621 AA
1 AA
50623 TCTAAGTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.49, C:0.19, G:0.22, T:0.10
Consensus pattern (33 bp):
AAATCGCAACGACAGAATAGCAACGCGAAATGA
Found at i:50856 original size:22 final size:22
Alignment explanation
Indices: 50804--50858 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
50794 TGGTTGTGAG
**
50804 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
50826 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
50848 GGATTTCTTCG
1 GGATTTCTTCG
50859 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:51030 original size:20 final size:20
Alignment explanation
Indices: 51005--51158 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
50995 CTTTAAATAT
51005 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
51025 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
51047 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
51066 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
51086 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
51106 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
51126 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
51146 CGCGTTGCGATTT
1 CGCGTTGCGATTT
51159 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:51132 original size:40 final size:40
Alignment explanation
Indices: 51004--51158 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
50994 GCTTTAAATA
*
51004 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
51045 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
51085 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
51125 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
51159 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:51175 original size:21 final size:21
Alignment explanation
Indices: 51145--51227 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
51135 ATTTTCATAT
*
51145 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
51166 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
51187 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
51208 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
51228 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:51218 original size:42 final size:43
Alignment explanation
Indices: 51125--51223 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
51115 ATTTATGTGT
* *
51125 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
51166 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
51208 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
51224 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:55385 original size:20 final size:19
Alignment explanation
Indices: 55360--55403 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
55350 CAATAACAAG
55360 GTTTTCATACCATAATTAAC
1 GTTTTC-TACCATAATTAAC
** *
55380 GTTTTCTTTCATAATTAAT
1 GTTTTCTACCATAATTAAC
55399 GTTTT
1 GTTTT
55404 TGCAGTATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.52
Consensus pattern (19 bp):
GTTTTCTACCATAATTAAC
Found at i:58029 original size:26 final size:27
Alignment explanation
Indices: 57992--58068 Score: 97
Period size: 26 Copynumber: 2.9 Consensus size: 27
57982 AAATATAAGG
* *
57992 ATTTATTTAAAATTAATTATTAATTAT
1 ATTTATTAAAAATTAATAATTAATTAT
58019 ATTT-TTAAAAATT-ATAATTTAATTAT
1 ATTTATTAAAAATTAATAA-TTAATTAT
*
58045 TTTTATTAAAAA-TAATAATTAATT
1 ATTTATTAAAAATTAATAATTAATT
58069 TAAACGATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
25 3 0.07
26 26 0.59
27 15 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTTATTAAAAATTAATAATTAATTAT
Found at i:58095 original size:24 final size:23
Alignment explanation
Indices: 58063--58118 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
58053 AAAATAATAA
* *
58063 TTAATTTAAACGATTTAATTTAT
1 TTAAATTAAACGATTTAAATTAT
***
58086 TTAAAATTAAATTTTTTAAATTAT
1 TT-AAATTAAACGATTTAAATTAT
58110 TTAAATTAA
1 TTAAATTAA
58119 GAATGACTCG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAAATTAAACGATTTAAATTAT
Found at i:58108 original size:14 final size:16
Alignment explanation
Indices: 58046--58105 Score: 50
Period size: 18 Copynumber: 3.6 Consensus size: 16
58036 TTTAATTATT
* *
58046 TTTATTAAAAATAATAA
1 TTTATTTAAAATTA-AA
* *
58063 TTAATTTAAACGATTTAA
1 TTTATTTAAA--ATTAAA
58081 TTTATTTAAAATTAAA
1 TTTATTTAAAATTAAA
58097 TTT-TTTAAA
1 TTTATTTAAA
58106 TTATTTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 6 0.17
16 8 0.23
17 8 0.23
18 11 0.31
19 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
TTTATTTAAAATTAAA
Found at i:59762 original size:11 final size:11
Alignment explanation
Indices: 59739--59771 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
59729 ATTATTTTCA
59739 ATAATTA-ATT
1 ATAATTATATT
59749 ATAATTATATT
1 ATAATTATATT
59760 ATAATTATATT
1 ATAATTATATT
59771 A
1 A
59772 AAAAATAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 7 0.32
11 15 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATAATTATATT
Found at i:63710 original size:30 final size:30
Alignment explanation
Indices: 63674--63739 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
63664 AGTGAACCGG
* * * *
63674 CGGTTCAAATCGGTTTTGCTGGTTTTCAGT
1 CGGTTCAAACCGATTTTACCGGTTTTCAGT
**
63704 CGGTTCATCCCGATTTTACCGGTTTTCAGT
1 CGGTTCAAACCGATTTTACCGGTTTTCAGT
63734 CGGTTC
1 CGGTTC
63740 TATTGATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.12, C:0.23, G:0.24, T:0.41
Consensus pattern (30 bp):
CGGTTCAAACCGATTTTACCGGTTTTCAGT
Found at i:63751 original size:20 final size:19
Alignment explanation
Indices: 63726--63763 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
63716 ATTTTACCGG
63726 TTTTCAGTCGGTTCTATTGA
1 TTTTCAGTCGGTTC-ATTGA
63746 TTTTCAGTCGGTTCATTG
1 TTTTCAGTCGGTTCATTG
63764 TCAGACCGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (19 bp):
TTTTCAGTCGGTTCATTGA
Found at i:64126 original size:21 final size:21
Alignment explanation
Indices: 64102--64216 Score: 108
Period size: 21 Copynumber: 5.6 Consensus size: 21
64092 TATCGCAAAT
64102 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
64123 TCGCGTTGCTAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
64143 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
64164 TCGCGTTGCTAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
64184 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
64205 TCGCGTTGCGAT
1 TCGCGTTGCGAT
64217 TTTCCATTTC
Statistics
Matches: 68, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 28 0.41
21 40 0.59
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:64148 original size:20 final size:20
Alignment explanation
Indices: 64123--64236 Score: 102
Period size: 20 Copynumber: 5.6 Consensus size: 20
64113 TAGTTGAAAA
*
64123 TCGCGTTGCTATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
64143 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
64164 TCGCGTTGCTATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
64184 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
64205 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
64225 TCGCGTTGCGAT
1 TCGCGTTGCGAT
64237 AGTCTACAGT
Statistics
Matches: 69, Mismatches: 23, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 40 0.58
21 29 0.42
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:64158 original size:41 final size:41
Alignment explanation
Indices: 64101--64239 Score: 269
Period size: 41 Copynumber: 3.4 Consensus size: 41
64091 CTATCGCAAA
64101 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCTATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCTATTTTCCAT
64142 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCTATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCTATTTTCCAT
*
64183 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCTATTTTCCAT
64224 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
64240 CTACAGTTGT
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTTGAAAATCGCGTTGCTATTTTCCAT
Found at i:64256 original size:22 final size:22
Alignment explanation
Indices: 64228--64299 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
64218 TTCCATTTCG
64228 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
64250 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
64269 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
64291 CGTTGCGAT
1 CGTTGCGAT
64300 TTTTCAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 19 0.49
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:64273 original size:19 final size:19
Alignment explanation
Indices: 64249--64317 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
64239 TCTACAGTTG
*
64249 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTACAAAT
* **
64268 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTACAAAT
*
64289 GTCGTTGCGATTTTTCAAAT
1 -TCGTTGCGATTTTACAAAT
64309 TCGTTGCGA
1 TCGTTGCGA
64318 AAATTCGTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 19 0.49
20 5 0.13
21 5 0.13
22 10 0.26
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (19 bp):
TCGTTGCGATTTTACAAAT
Found at i:64273 original size:41 final size:41
Alignment explanation
Indices: 64208--64317 Score: 177
Period size: 41 Copynumber: 2.7 Consensus size: 41
64198 TTGAAAATCG
*
64208 CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGT
64250 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
*
64291 CGTTGCGATTTTTCAAATTCGTTGCGA
1 CGTTGCGATTTTCCAAATTCGTTGCGA
64318 AAATTCGTTA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
41 48 0.74
42 14 0.22
43 3 0.05
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (41 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
Found at i:64273 original size:82 final size:81
Alignment explanation
Indices: 64099--64280 Score: 251
Period size: 82 Copynumber: 2.2 Consensus size: 81
64089 CACTATCGCA
*
64099 AATTCGCGTTGCGATAGTTGAAAATCGCGTTGCTATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 AATTC-CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
*
64164 TCGCGTTGCTATTTTCC
65 TCGCGTTGCGATTTTCC
* *
64181 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACA
1 AATTC-CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAA
* *
64245 GTTGTCGTTGCGATTTTCC
64 ATCG-CGTTGCGATTTTCC
64264 AAATT-CGTTGCGATAGT
1 -AATTCCGTTGCGATAGT
64281 CTACAGTTGT
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
82 73 0.81
83 14 0.16
84 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (81 bp):
AATTCCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAAT
CGCGTTGCGATTTTCC
Found at i:65051 original size:19 final size:19
Alignment explanation
Indices: 65027--65095 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
65017 CAACGAATTT
*
65027 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAATA
* * *
65046 TCGCAACGACAACTGTAGACTA
1 TCGCAACG--AA-TTTGGAATA
65068 TCGCAACGAATTTGGAATA
1 TCGCAACGAATTTGGAATA
65087 TCGCAACGA
1 TCGCAACGA
65096 CATCTGTAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 23 0.57
20 2 0.05
21 2 0.05
22 13 0.32
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (19 bp):
TCGCAACGAATTTGGAATA
Found at i:65072 original size:41 final size:41
Alignment explanation
Indices: 65027--65157 Score: 169
Period size: 41 Copynumber: 3.2 Consensus size: 41
65017 CAACGAATTT
65027 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
* *
65068 TCGCAACGAATTTGGAATATCGCAACGACATCTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
* * *
65109 TCGCAACGCGAA-ATGGAAAATCGCAACG-CAATTTTCA-ACTA
1 TCGCAA--CGAATTTGGAAAATCGCAACGACAACTGT-AGACTA
65150 TCGCAACG
1 TCGCAACG
65158 CGATTTTCAA
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
39 2 0.03
41 59 0.74
42 15 0.19
43 4 0.05
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (41 bp):
TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
Found at i:65073 original size:22 final size:22
Alignment explanation
Indices: 65045--65116 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
65035 AATTTGGAAA
65045 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * *
65067 ATCGCAACG--AA-TTTGGAAT
1 ATCGCAACGACAACTGTAGACT
*
65086 ATCGCAACGACATCTGTAGACT
1 ATCGCAACGACAACTGTAGACT
65108 ATCGCAACG
1 ATCGCAACG
65117 CGAAATGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 14 0.35
20 2 0.05
21 1 0.03
22 23 0.57
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:65154 original size:21 final size:21
Alignment explanation
Indices: 65128--65202 Score: 141
Period size: 21 Copynumber: 3.6 Consensus size: 21
65118 GAAATGGAAA
*
65128 ATCGCAACGCAATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
65149 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
65170 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
65191 ATCGCAACGCGA
1 ATCGCAACGCGA
65203 AATGCAACGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:65210 original size:21 final size:21
Alignment explanation
Indices: 65105--65203 Score: 121
Period size: 21 Copynumber: 4.8 Consensus size: 21
65095 ACATCTGTAG
* **
65105 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAATTTCA
*
65126 A-AATCGCAACGC-AATTTTCA
1 ACTATCGCAACGCGAA-TTTCA
*
65146 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAATTTCA
*
65167 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAATTTCA
65188 ACTATCGCAACGCGAA
1 ACTATCGCAACGCGAA
65204 ATGCAACGCG
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
19 2 0.03
20 13 0.19
21 52 0.76
22 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (21 bp):
ACTATCGCAACGCGAATTTCA
Found at i:66493 original size:24 final size:24
Alignment explanation
Indices: 66450--66529 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 24
66440 TATTGTTATA
*
66450 ATTATATTATT-ATAATATATAAT
1 ATTAAATTATTAATAATATATAAT
*
66473 ATTAAATTTTTAATAATATAT-A-
1 ATTAAATTATTAATAATATATAAT
*
66495 A-TAAATTATTAATAAAAT-TAAT
1 ATTAAATTATTAATAATATATAAT
*
66517 ATT-ATTTATTAAT
1 ATTAAATTATTAAT
66530 TTAATAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 1 0.02
21 16 0.33
22 11 0.23
23 11 0.23
24 9 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTAAATTATTAATAATATATAAT
Found at i:66520 original size:18 final size:18
Alignment explanation
Indices: 66468--66535 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
66458 ATTATAATAT
*
66468 ATAATATTAA-ATTTTTA
1 ATAATATTAATATTATTA
66485 ATAATATATAATAAATTATTA
1 ATAATAT-TAAT--ATTATTA
*
66506 ATAAAATTAATATTATTTA
1 ATAATATTAATATTA-TTA
*
66525 TTAAT-TTAATA
1 ATAATATTAATA
66536 AAAATAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
17 7 0.17
18 13 0.31
19 6 0.14
20 4 0.10
21 12 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATATTAATATTATTA
Found at i:66661 original size:37 final size:37
Alignment explanation
Indices: 66620--66725 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 37
66610 TTTAATATTC
* * *
66620 TAATACTATTATTATTTTGATAAGTAATTAATATAAT
1 TAATAATATTATTATTTTAATAAATAATTAATATAAT
66657 TAATAATATATTATTCTTATTTTAATAAATAATTAATATAAT
1 TAAT-A-ATATTA---TTATTTTAATAAATAATTAATATAAT
*
66699 TTATAATAGTT-TTATTTTAATCAAATA
1 TAATAATA-TTATTATTTTAAT-AAATA
66726 TACTAATTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
37 14 0.24
38 6 0.10
39 5 0.09
40 3 0.05
41 3 0.05
42 27 0.47
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (37 bp):
TAATAATATTATTATTTTAATAAATAATTAATATAAT
Found at i:66690 original size:42 final size:42
Alignment explanation
Indices: 66626--66706 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
66616 ATTCTAATAC
* *
66626 TATTATTATTTTGATAAGTAATTAATATAATTAATAATATAT
1 TATTATTATTTTAATAAATAATTAATATAATTAATAATATAT
* *
66668 TATTCTTATTTTAATAAATAATTAATATAATTTATAATA
1 TATTATTATTTTAATAAATAATTAATATAATTAATAATA
66707 GTTTTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (42 bp):
TATTATTATTTTAATAAATAATTAATATAATTAATAATATAT
Found at i:68249 original size:17 final size:15
Alignment explanation
Indices: 68200--68254 Score: 92
Period size: 15 Copynumber: 3.7 Consensus size: 15
68190 TAAATCATTT
*
68200 TCTCTTCCTCTTCAC
1 TCTCTTCCCCTTCAC
68215 TCTCTTCCCCTTCAC
1 TCTCTTCCCCTTCAC
*
68230 TCTCTTTCCCTTCAC
1 TCTCTTCCCCTTCAC
68245 TCTCTTCCCC
1 TCTCTTCCCC
68255 GTCGCTTTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.05, C:0.51, G:0.00, T:0.44
Consensus pattern (15 bp):
TCTCTTCCCCTTCAC
Found at i:69157 original size:28 final size:28
Alignment explanation
Indices: 69103--69160 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
69093 AAACAGAACA
*
69103 AAAACAAGAGAGGGGGGAGAAGAAGATG
1 AAAACAAGAGAGGGGGAAGAAGAAGATG
* *
69131 AAAACAAGAG-GGAGGGAAGAGGGAGATG
1 AAAACAAGAGAGG-GGGAAGAAGAAGATG
69159 AA
1 AA
69161 CATGTGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.50, C:0.03, G:0.43, T:0.03
Consensus pattern (28 bp):
AAAACAAGAGAGGGGGAAGAAGAAGATG
Found at i:73172 original size:13 final size:13
Alignment explanation
Indices: 73154--73198 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
73144 ATGATAAATA
*
73154 AAAAAATTACAAT
1 AAAAAACTACAAT
* *
73167 AAAAAAGTCCAAT
1 AAAAAACTACAAT
*
73180 AAACAACTACAAT
1 AAAAAACTACAAT
73193 AAAAAA
1 AAAAAA
73199 GTACTAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.69, C:0.13, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAACTACAAT
Found at i:75412 original size:29 final size:29
Alignment explanation
Indices: 75344--75406 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
75334 TTTATATATG
*
75344 CAAA-AAAATTAATTAAATAAAATATTAAA
1 CAAATAAAA-TAATTAAATAAAATACTAAA
* *
75373 CAATTAAAATAATTAAATAAATTACTAAA
1 CAAATAAAATAATTAAATAAAATACTAAA
75402 -AAATA
1 CAAATA
75407 CTAATATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 4 0.14
29 21 0.72
30 4 0.14
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (29 bp):
CAAATAAAATAATTAAATAAAATACTAAA
Found at i:79918 original size:3 final size:3
Alignment explanation
Indices: 79912--79976 Score: 94
Period size: 3 Copynumber: 21.0 Consensus size: 3
79902 TTTATTTTTT
79912 TAA TAA TAA TAA TAA TAA TATA TAA TAA TAA TAA TATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA
**
79959 TAA TTT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
79977 ATTTAAAATG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 50 0.89
4 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:79980 original size:16 final size:16
Alignment explanation
Indices: 79912--79976 Score: 107
Period size: 16 Copynumber: 4.2 Consensus size: 16
79902 TTTATTTTTT
79912 TAATA-ATAATAATAA
1 TAATATATAATAATAA
79927 TAATATATAATAATAA
1 TAATATATAATAATAA
79943 TAATATATAATAATAA
1 TAATATATAATAATAA
*
79959 TAAT-TTTAATAATAA
1 TAATATATAATAATAA
79974 TAA
1 TAA
79977 ATTTAAAATG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
15 18 0.38
16 30 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATATAATAATAA
Found at i:84479 original size:12 final size:12
Alignment explanation
Indices: 84462--84499 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
84452 TTTATCTTTT
84462 AAATTTTATAAA
1 AAATTTTATAAA
*
84474 AAATTTTAT-AT
1 AAATTTTATAAA
84485 AAATTTTATTAAA
1 AAATTTTA-TAAA
84498 AA
1 AA
84500 GTATATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 9 0.41
12 10 0.45
13 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATTTTATAAA
Found at i:84488 original size:23 final size:21
Alignment explanation
Indices: 84461--84511 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
84451 ATTTATCTTT
*
84461 TAAATTTTATAAAAAATTTTATA
1 TAAATTTTATAAAAAA--GTATA
*
84484 TAAATTTTATTAAAAAGTATA
1 TAAATTTTATAAAAAAGTATA
84505 TAAATTT
1 TAAATTT
84512 AAAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 11 0.42
23 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAATTTTATAAAAAAGTATA
Found at i:84490 original size:11 final size:11
Alignment explanation
Indices: 84461--84511 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
84451 ATTTATCTTT
84461 TAAATTTTATAA
1 TAAATTTTAT-A
*
84473 AAAATTTTATA
1 TAAATTTTATA
84484 TAAATTTTAT-
1 TAAATTTTATA
***
84494 TAAAAAGTATA
1 TAAATTTTATA
84505 TAAATTT
1 TAAATTT
84512 AAAATAATAA
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
10 7 0.23
11 14 0.47
12 9 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (11 bp):
TAAATTTTATA
Found at i:89837 original size:7 final size:7
Alignment explanation
Indices: 89825--89875 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
89815 TATCATTTAA
89825 AAATATT
1 AAATATT
89832 AAATATT
1 AAATATT
*
89839 AAAAATT
1 AAATATT
*
89846 AAATTTAT
1 AAATAT-T
*
89854 AAATAAT
1 AAATATT
89861 -AATATT
1 AAATATT
89867 AAAT-TT
1 AAATATT
89873 AAA
1 AAA
89876 ATTCCAAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
6 10 0.28
7 21 0.58
8 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATATT
Found at i:91030 original size:9 final size:9
Alignment explanation
Indices: 91018--91076 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
91008 AAAAACAACA
*
91018 AAATAGAAT
1 AAATAAAAT
91027 AAATAAAAT
1 AAATAAAAT
91036 AAAATAAAATT
1 -AAATAAAA-T
* *
91047 TAA-AAAGT
1 AAATAAAAT
91055 -AATAAAAT
1 AAATAAAAT
*
91063 AAATGAAAT
1 AAATAAAAT
91072 AAATA
1 AAATA
91077 TATATATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
7 2 0.05
8 5 0.12
9 22 0.55
10 10 0.25
11 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (9 bp):
AAATAAAAT
Done.