Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007790.1 Hibiscus syriacus cultivar Beakdansim tig00110076_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: 2956777
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 11
Found at i:771732 original size:16 final size:17
Alignment explanation
Indices: 771711--771757 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
771701 ACAATAAACC
771711 ATAATAATATA-ATACT
1 ATAATAATATATATACT
*
771727 ATAATATAATATATGTACT
1 AT-A-ATAATATATATACT
771746 AT-ATAATATATA
1 ATAATAATATATA
771758 ATATACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 11 0.42
17 1 0.04
18 8 0.31
19 6 0.23
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAATAATATATATACT
Found at i:771735 original size:18 final size:17
Alignment explanation
Indices: 771714--771769 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
771704 ATAAACCATA
771714 ATAATATAATACTATAAT
1 ATAATATAATACTAT-AT
*
771732 ATAATATATGTACTATAT
1 ATAATATA-ATACTATAT
*
771750 A-ATATATAATA-TACAT
1 ATA-ATATAATACTATAT
771766 ATAA
1 ATAA
771770 ATATTTTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 6 0.19
17 4 0.12
18 16 0.50
19 6 0.19
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (17 bp):
ATAATATAATACTATAT
Found at i:771737 original size:21 final size:20
Alignment explanation
Indices: 771711--771773 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
771701 ACAATAAACC
771711 ATAATAATATAATACTATAAT
1 ATAATAATATAATA-TATAAT
* *
771732 ATAATATATGTACTATATAAT
1 ATAATA-ATATAATATATAAT
771753 AT-ATAATATACATATA-AAT
1 ATAATAATATA-ATATATAAT
771772 AT
1 AT
771774 TTTCAAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 9 0.25
20 7 0.19
21 14 0.39
22 6 0.17
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (20 bp):
ATAATAATATAATATATAAT
Found at i:771772 original size:12 final size:12
Alignment explanation
Indices: 771714--771773 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 12
771704 ATAAACCATA
771714 ATAATATAATACT
1 ATAATATAATA-T
771727 ATAATATAATAT
1 ATAATATAATAT
771739 ATGTACTATATAATAT
1 A--TA--ATATAATAT
771755 ATAATATACATAT
1 ATAATATA-ATAT
771768 A-AATAT
1 ATAATAT
771774 TTTCAAAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
12 12 0.29
13 16 0.38
14 4 0.10
16 10 0.24
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (12 bp):
ATAATATAATAT
Found at i:771807 original size:26 final size:27
Alignment explanation
Indices: 771758--771808 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
771748 ATAATATATA
**
771758 ATATACATATAAATATTTTCAAAAACT
1 ATATACATATAAATATTTAAAAAAACT
*
771785 ATATA-ATATATATATTTAAAAAAA
1 ATATACATATAAATATTTAAAAAAA
771809 AAATCAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (27 bp):
ATATACATATAAATATTTAAAAAAACT
Found at i:771871 original size:37 final size:37
Alignment explanation
Indices: 771768--772177 Score: 441
Period size: 37 Copynumber: 10.9 Consensus size: 37
771758 ATATACATAT
* * *
771768 AAATATTTTCAAAAACTATATAATATATA-TATTTAA
1 AAATATTTTCAAAAACTATATATTATATATTTTTTCA
* ***
771804 AAAAAAAATCAAAAACTATATATTATATATATTTTTTCA
1 AAATATTTTCAAAAACTATATA-T-TATATATTTTTTCA
*
771843 AAATGTTTTCAAAAACTATATATTATATATATGTTTTCA
1 AAATATTTTCAAAAACTATATATTATATAT-T-TTTTCA
* * *
771882 AAATGTTTCCAAAAACTATATTATATATATATATATATTTAA
1 AAATATTTTCAAAAACTATA-TAT-TATATAT-T-T-TTTCA
* *
771924 AAATGTTTTCAAAAGCTATATATTATATATATGTTTTCA
1 AAATATTTTCAAAAACTATATATTATATAT-T-TTTTCA
* * * *
771963 AAATGTTTTTAAAAACTATATAATATATATATTTTCA
1 AAATATTTTCAAAAACTATATATTATATATTTTTTCA
* *
772000 AAATATTTTTAAAAACTATATATTATATATATTTTCA
1 AAATATTTTCAAAAACTATATATTATATATTTTTTCA
*
772037 AAATATTTTCAAAAATTATATATTATATA--TTTTCA
1 AAATATTTTCAAAAACTATATATTATATATTTTTTCA
* * * *
772072 AAATGTTTTCAAAAGCTATATATTATAAATATTTTCA
1 AAATATTTTCAAAAACTATATATTATATATTTTTTCA
* *
772109 AAATATTTTCAAAAACTACATATTATATATATTTTCA
1 AAATATTTTCAAAAACTATATATTATATATTTTTTCA
*
772146 AAAT-TATTTCAAAAATTATATATTATATATTT
1 AAATAT-TTTCAAAAACTATATATTATATATTT
772178 CAAAATCCCT
Statistics
Matches: 325, Mismatches: 38, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
35 31 0.10
36 19 0.06
37 141 0.43
38 8 0.02
39 78 0.24
40 13 0.04
41 13 0.04
42 22 0.07
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (37 bp):
AAATATTTTCAAAAACTATATATTATATATTTTTTCA
Found at i:772020 original size:109 final size:110
Alignment explanation
Indices: 771768--772175 Score: 453
Period size: 109 Copynumber: 3.6 Consensus size: 110
771758 ATATACATAT
* ** ****
771768 AAATATTTTCAAAAACTATATAATATATATATTTAAAAAAAAAATCAAAAACTATATATTATATA
1 AAATATTTTCAAAAAC-ATATATTATATATATTTTCAAAATTTTTCAAAAA-TATATATTATATA
* * *
771833 TATTTTTTCAAAATGTTTTCAAAAACTATATATTATATATATGTTTTCA
64 TATATTTTCAAAATGTTTTCAAAAACTATATA--ATATAAATATTTTCA
* * * *
771882 AAATGTTTCCAAAAACTATATTATATATATATATATATTTAAAAATGTTTTCAAAAGCTATATAT
1 AAATATTTTCAAAAAC---A-TATAT-TATATATAT-TTTCAAAAT-TTTTCAAAA-ATATATAT
* * *
771947 TATATATATGTTTTCAAAATGTTTTTAAAAACTATATAATATATATATTTTCA
58 TATATATATATTTTCAAAATGTTTTCAAAAACTATATAATATAAATATTTTCA
*
772000 AAATATTTTTAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAAT-TATA-TAT-TA
1 AAATATTTTCAAAAAC-ATATATTATATATATTTTCAAAAT-TTTTCAAAAATATATATTATATA
* *
772062 TATATTTTCAAAATGTTTTCAAAAGCTATATATTATAAATATTTTCA
64 TATATTTTCAAAATGTTTTCAAAAACTATATAATATAAATATTTTCA
*
772109 AAATATTTTCAAAAACTACATATTATATATATTTTCAAAATTATTTCAAAAATTATATATTATAT
1 AAATATTTTCAAAAAC-ATATATTATATATATTTTCAAAATT-TTTCAAAAA-TATATATTATAT
772174 AT
63 AT
772176 TTCAAAATCC
Statistics
Matches: 257, Mismatches: 25, Indels: 25
0.84 0.08 0.08
Matches are distributed among these distances:
108 1 0.00
109 92 0.36
110 4 0.02
111 8 0.03
112 4 0.02
113 20 0.08
114 23 0.09
115 5 0.02
116 4 0.02
117 4 0.02
118 36 0.14
119 7 0.03
120 49 0.19
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (110 bp):
AAATATTTTCAAAAACATATATTATATATATTTTCAAAATTTTTCAAAAATATATATTATATATA
TATTTTCAAAATGTTTTCAAAAACTATATAATATAAATATTTTCA
Found at i:772304 original size:13 final size:15
Alignment explanation
Indices: 772269--772297 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
772259 TTGAAATTAT
772269 TATATATA-TATATA
1 TATATATACTATATA
772283 TATATATACTATATA
1 TATATATACTATATA
772298 ATAATACGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TATATATACTATATA
Found at i:777865 original size:22 final size:22
Alignment explanation
Indices: 777840--777888 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
777830 AAAAATAAAA
777840 GAAAACAAAACAAAAAGGAAAG
1 GAAAACAAAACAAAAAGGAAAG
** * * *
777862 GAAAGGAAAACTAAAATGAATG
1 GAAAACAAAACAAAAAGGAAAG
777884 GAAAA
1 GAAAA
777889 AAAGTTAGTG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.67, C:0.06, G:0.20, T:0.06
Consensus pattern (22 bp):
GAAAACAAAACAAAAAGGAAAG
Found at i:778983 original size:19 final size:20
Alignment explanation
Indices: 778937--778984 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
778927 TAAATTGAAA
*
778937 AAACAAAAAAAGGTTAAAAT
1 AAACAATAAAAGGTTAAAAT
778957 AAATCAATAAAA-GTT-AAAT
1 AAA-CAATAAAAGGTTAAAAT
778976 ACAACAATA
1 A-AACAATA
778985 TTAAAAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 10 0.40
20 8 0.32
21 7 0.28
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (20 bp):
AAACAATAAAAGGTTAAAAT
Found at i:779095 original size:18 final size:19
Alignment explanation
Indices: 779059--779107 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
779049 TAAAAATTTT
*
779059 AAATTTTAAAAGAGAAGAA
1 AAATGTTAAAAGAGAAGAA
779078 AAATGTTAAAAG-GAAGAA
1 AAATGTTAAAAGAGAAGAA
779096 AAATGTTTAAAA
1 AAATG-TTAAAA
779108 ATGCTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATGTTAAAAGAGAAGAA
Found at i:780294 original size:9 final size:9
Alignment explanation
Indices: 780280--780319 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
780270 TCCCTAAACC
780280 TAAAAAAAA
1 TAAAAAAAA
780289 T--AAAAAA
1 TAAAAAAAA
780296 T--AAAAAA
1 TAAAAAAAA
780303 TAAAAAAAA
1 TAAAAAAAA
780312 TAAAAAAA
1 TAAAAAAA
780320 TAATAATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 14 0.48
9 15 0.52
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:780295 original size:8 final size:8
Alignment explanation
Indices: 780282--780322 Score: 59
Period size: 7 Copynumber: 5.2 Consensus size: 8
780272 CCTAAACCTA
780282 AAAAAAAT
1 AAAAAAAT
780290 -AAAAAAT
1 AAAAAAAT
780297 -AAAAAAT
1 AAAAAAAT
780304 AAAAAAAAT
1 -AAAAAAAT
780313 AAAAAAAT
1 AAAAAAAT
780321 AA
1 AA
780323 TAATACTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 14 0.45
8 10 0.32
9 7 0.23
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:780340 original size:16 final size:17
Alignment explanation
Indices: 780319--780359 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
780309 AAATAAAAAA
780319 ATAATAATA-CTATAAT
1 ATAATAATATCTATAAT
*
780335 ATAAT-ATATGTATAAT
1 ATAATAATATCTATAAT
780351 AT-ATAATAT
1 ATAATAATAT
780360 ACATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
ATAATAATATCTATAAT
Found at i:780366 original size:18 final size:17
Alignment explanation
Indices: 780319--780371 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
780309 AAATAAAAAA
780319 ATAATAATAC-TAT-AAT
1 ATAAT-ATACATATAAAT
**
780335 ATAATATATGTATAATAT
1 ATAATATACATATAA-AT
780353 ATAATATACATATAAAT
1 ATAATATACATATAAAT
780370 AT
1 AT
780372 TTTCAAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 3 0.10
16 8 0.26
17 5 0.16
18 15 0.48
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAATATACATATAAAT
Found at i:780386 original size:39 final size:39
Alignment explanation
Indices: 780343--780433 Score: 123
Period size: 39 Copynumber: 2.3 Consensus size: 39
780333 ATATAATATA
780343 TGTATAATATATAATATACA-TATAAATATTTTCAAAAAC
1 TGTATAATATATAATATACATTA-AAATATTTTCAAAAAC
*
780382 TGTATAATATAT-ATATATATTGAAAATATTTTCAAAAAC
1 TGTATAATATATAATATACATT-AAAATATTTTCAAAAAC
* *
780421 TATATATTATATA
1 TGTATAATATATA
780434 TATTTTTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
38 6 0.13
39 39 0.85
40 1 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (39 bp):
TGTATAATATATAATATACATTAAAATATTTTCAAAAAC
Found at i:780434 original size:39 final size:38
Alignment explanation
Indices: 780366--780595 Score: 283
Period size: 39 Copynumber: 6.1 Consensus size: 38
780356 ATATACATAT
* * * * *
780366 AAATATTTTCAAAAACTGTATAATATATATATATATTGA
1 AAATGTTTTCAAAAACTATATATTATATATAT-TTTTCA
* *
780405 AAATATTTTCAAAAACTATATATTATATATATTTTTTA
1 AAATGTTTTCAAAAACTATATATTATATATATTTTTCA
* *
780443 AAATTGTTTTTAAAAATTATATATTATATATATGTTTTCA
1 AAA-TGTTTTCAAAAACTATATATTATATATAT-TTTTCA
780483 AAATGTTTTCAAAAACTATATATTATATATATTTTTCA
1 AAATGTTTTCAAAAACTATATATTATATATATTTTTCA
*
780521 AAATGTTTTCATAAACTATATATTATATATA-TTTTCA
1 AAATGTTTTCAAAAACTATATATTATATATATTTTTCA
*
780558 AAAT-TATTT-AAAAAAT-TATA-TAT-TATATTTTTCA
1 AAATGT-TTTCAAAAACTATATATTATATATATTTTTCA
780592 AAAT
1 AAAT
780596 CCGTTTTTTT
Statistics
Matches: 174, Mismatches: 13, Indels: 13
0.87 0.06 0.06
Matches are distributed among these distances:
33 4 0.02
34 13 0.07
35 4 0.02
36 6 0.03
37 13 0.07
38 43 0.25
39 83 0.48
40 8 0.05
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (38 bp):
AAATGTTTTCAAAAACTATATATTATATATATTTTTCA
Found at i:780618 original size:75 final size:76
Alignment explanation
Indices: 780391--780618 Score: 229
Period size: 78 Copynumber: 3.0 Consensus size: 76
780381 CTGTATAATA
* * * * * *
780391 TATATATA-TATTGAAAATATTTTCAAAAACTATATATTATATATATTTTTTAAAAT-TGTTTTT
1 TATATATAGTTTTCAAAATGTTTTCAAAAAATATATATTATATATATTTTTCAAAATGTTTTTTT
780454 AAAAATTATATAT
66 AAAAA--ATATAT
* **
780467 TATATATATGTTTTCAAAATGTTTTCAAAAACTATATATTATATATATTTTTCAAAATGTTTTCA
1 TATATATA-GTTTTCAAAATGTTTTCAAAAAATATATATTATATATATTTTTCAAAATGTTTTTT
**
780532 TAAACTATATAT
65 TAAAAAATATAT
780544 TATATATA-TTTTCAAAAT-TATTT-AAAAAAT-TATA-TAT-TATATTTTTCAAAATCCGTTTT
1 TATATATAGTTTTCAAAATGT-TTTCAAAAAATATATATTATATATATTTTTCAAAAT--G-TTT
780603 TTTTAAAAAACTATAT
62 TTTTAAAAAA-TATAT
780619 ACGTTTTCAA
Statistics
Matches: 130, Mismatches: 14, Indels: 17
0.81 0.09 0.11
Matches are distributed among these distances:
71 15 0.12
72 3 0.02
73 5 0.04
74 16 0.12
75 18 0.14
76 8 0.06
77 14 0.11
78 44 0.34
79 7 0.05
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (76 bp):
TATATATAGTTTTCAAAATGTTTTCAAAAAATATATATTATATATATTTTTCAAAATGTTTTTTT
AAAAAATATAT
Found at i:801297 original size:58 final size:58
Alignment explanation
Indices: 801164--801328 Score: 154
Period size: 58 Copynumber: 2.8 Consensus size: 58
801154 CAAATGGCAA
* * * * * * *
801164 AGTGTGAAAAAATGTTAAGAAATTCATACTAAGTGTATGATTTTCCGTATTTGGCACTT
1 AGTGTGCAAAAA-GATAAGAAATTCATACTAAGTGTATAAATTTCCGTAATGGGCACCT
* * * * *
801223 TGTGTGTAAAATGATAAGAAATTCATACTAAGTGTTTAAATTTCTGTAATGGGCACCCT
1 AGTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATAAATTTCCGTAATGGGCA-CCT
* * *
801282 AG-GTGCAAAAAGATAACAAATTCATACCAAAG-GTATGAATTTCCGTA
1 AGTGTGCAAAAAGATAAGAAATTCATA-CTAAGTGTATAAATTTCCGTA
801329 TGAGAAATAT
Statistics
Matches: 85, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
58 69 0.81
59 16 0.19
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (58 bp):
AGTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATAAATTTCCGTAATGGGCACCT
Found at i:801654 original size:68 final size:68
Alignment explanation
Indices: 801539--801999 Score: 593
Period size: 68 Copynumber: 6.8 Consensus size: 68
801529 TAAAAGATTA
* * * * *
801539 TGAGGGCTAACTATGCATATAATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGGTAAGTGC
1 TGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGC
801604 CTT
66 CTT
* * * * *
801607 TGAGGCCTTACTATGCATATGACAGAAAGGTGTCATTTATTCTAGTTAGATGAAAGGGTAAGTGC
1 TGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGC
801672 CTT
66 CTT
* * * **
801675 TGAGGCCTAACTGTGAATATAACAGAAAGGTGTCATTTATGCCAATTAGATGAAATACTAAGTGC
1 TGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGC
801740 CTT
66 CTT
* * *
801743 TGAGGTCTAACTGTGCATATGATAGAAAGGTGTCTTTTATGCCAGTTAGATGAAAGG-TAAGTGC
1 TGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGC
801807 CTT
66 CTT
* * * * **
801810 TGAGGCCTAACTGTGCATATAATAGAAATGTGTTATTTATGATAGTTAGATGAAAGGCTAAGTGC
1 TGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGC
801875 CTT
66 CTT
* * * * *
801878 TTAGGCCTAACTGTACATATGACAGAAAAGTGTCATGTATGCTCA-TTAGATGAAAGGCTAACTG
1 TGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGC-CAGTTAGATGAAAGGCTAAGTG
*
801942 CTTT
65 CCTT
* * * *
801946 TGAGGCCTAACCGTGCATATGACAGAAAGGTGTCAATCATGCCAATTAGATGAA
1 TGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
802000 CAGTTAAATA
Statistics
Matches: 341, Mismatches: 49, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
67 62 0.18
68 278 0.82
69 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (68 bp):
TGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGC
CTT
Found at i:801905 original size:203 final size:204
Alignment explanation
Indices: 801539--801999 Score: 640
Period size: 203 Copynumber: 2.3 Consensus size: 204
801529 TAAAAGATTA
* * *
801539 TGAGGGCTAACTATGCATATAATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGGTAAGTGC
1 TGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGGTAAGTGC
* * ** *
801604 CTTTGAGGCCTTACTATGCATATGACAGAAAGGTGTCATTTATTCTAGTTAGATGAAAGGGTAAG
66 CTTTGAGGCCTAACTATGCATATAACAGAAAGGTGTCATTTATGATAGTTAGATGAAAGGCTAAG
* * *
801669 TGCCTTTGAGGCCTAACTGTGAATATAACAGAAAGGTGTCATTTATGC-CAATTAGATGAAATAC
131 TGCCTTTGAGGCCTAACTGTGAATATAACAGAAAAGTGTCATGTATGCTC-ATTAGATGAAAGAC
*
801733 TAAGTGCCTT
195 TAACTGCCTT
* *
801743 TGAGGTCTAACTGTGCATATGATAGAAAGGTGTCTTTTATGCCAGTTAGATGAAA-GGTAAGTGC
1 TGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGGTAAGTGC
* * * *
801807 CTTTGAGGCCTAACTGTGCATATAATAGAAATGTGTTATTTATGATAGTTAGATGAAAGGCTAAG
66 CTTTGAGGCCTAACTATGCATATAACAGAAAGGTGTCATTTATGATAGTTAGATGAAAGGCTAAG
* * *
801872 TGCCTTTTAGGCCTAACTGT-ACATATGACAGAAAAGTGTCATGTATGCTCATTAGATGAAAGGC
131 TGCCTTTGAGGCCTAACTGTGA-ATATAACAGAAAAGTGTCATGTATGCTCATTAGATGAAAGAC
*
801936 TAACTGCTTT
195 TAACTGCCTT
* * * * *
801946 TGAGGCCTAACCGTGCATATGACAGAAAGGTGTCAATCATGCCAATTAGATGAA
1 TGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAA
802000 CAGTTAAATA
Statistics
Matches: 227, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
202 1 0.00
203 174 0.77
204 52 0.23
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (204 bp):
TGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGGTAAGTGC
CTTTGAGGCCTAACTATGCATATAACAGAAAGGTGTCATTTATGATAGTTAGATGAAAGGCTAAG
TGCCTTTGAGGCCTAACTGTGAATATAACAGAAAAGTGTCATGTATGCTCATTAGATGAAAGACT
AACTGCCTT
Found at i:802087 original size:81 final size:81
Alignment explanation
Indices: 801951--802265 Score: 438
Period size: 81 Copynumber: 3.9 Consensus size: 81
801941 GCTTTTGAGG
* * * *
801951 CCTAACCGTGC-ATATGACAGAAAGGTGTCAATCATGCCAATTAGATGAACAGTTAAATATCATT
1 CCTAACTGTGCAAT-TGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAATATCATT
802015 GAGTAAAAGAATAATGT
65 GAGTAAAAGAATAATGT
* * *
802032 CCTAACTGTGCAATTGGCAGAAATGTGTCAATCATGCTAGTTAGATGAACGGTTAAATACCATTG
1 CCTAACTGTGCAATTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAATATCATTG
802097 AGTAAAAGAATAATGT
66 AGTAAAAGAATAATGT
* * * * **
802113 CCTAACTGTGTAATTGGTAGAAATGTGTCAATCATGCCAGTTAGATGAACGATTAAA-ATTTGTT
1 CCTAACTGTGCAATTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAATA-TCATT
802177 GAGTAAAAGAATAATGT
65 GAGTAAAAGAATAATGT
* * *
802194 CCTAACTGTGCAATTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATA-CTGTT
1 CCTAACTGTGCAATTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAATATC-ATT
802258 GAGTAAAA
65 GAGTAAAA
802266 AGATGAAAGG
Statistics
Matches: 209, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.00
81 205 0.98
82 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (81 bp):
CCTAACTGTGCAATTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAATATCATTG
AGTAAAAGAATAATGT
Found at i:802272 original size:30 final size:30
Alignment explanation
Indices: 802236--802295 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
802226 TATGCCAGTT
* * * *
802236 AGATGAACGGTTAAATACTGTTGAGTAAAA
1 AGATGAAAGGTCAAACACTATTGAGTAAAA
*
802266 AGATGAAAGGTCAAACATTATTGAGTAAAA
1 AGATGAAAGGTCAAACACTATTGAGTAAAA
802296 GAATAATGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.25
Consensus pattern (30 bp):
AGATGAAAGGTCAAACACTATTGAGTAAAA
Found at i:806951 original size:58 final size:58
Alignment explanation
Indices: 806831--806960 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 58
806821 GCAAAAATGT
* * *** * * * *
806831 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTTGGCATTTTGTGTGCAAAATGT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAATGGGCACCCTATGTGAAAAAAGA
*
806889 TAAGAAATTCATACTAAGTGTATGAATTTCTGTAATGGGCACCCTATGTGAAAAAAGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAATGGGCACCCTATGTGAAAAAAGA
*
806947 TAAGAAACTCATAC
1 TAAGAAATTCATAC
806961 CAAAGGTATG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (58 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTAATGGGCACCCTATGTGAAAAAAGA
Found at i:807294 original size:68 final size:68
Alignment explanation
Indices: 807183--807446 Score: 413
Period size: 68 Copynumber: 3.9 Consensus size: 68
807173 AAAGATTATA
* * * *
807183 AGGCCTAACTTTACATATGACAGAAAGGTGTCCTTTATCCCAGTTAGATGAAAGACTAAGTGCCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCCT
807248 TTG
66 TTG
**
807251 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGGTAAGTGCCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCCT
*
807316 TTC
66 TTG
* * *
807319 AGGCCTAACTGTGCATATGACATAAAGGTGTCATTTATGCCAATTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCCT
807384 TTG
66 TTG
*
807387 AGGCCTAACTTTGCATATGACAGAAAGGTGTCATTTA-GACCAGTTAGATGAAAGACTAAG
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATG-CCAGTTAGATGAAAGACTAAG
807447 GTGATGTTTG
Statistics
Matches: 180, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
67 1 0.01
68 179 0.99
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (68 bp):
AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCCT
TTG
Found at i:807726 original size:30 final size:30
Alignment explanation
Indices: 807690--807923 Score: 290
Period size: 30 Copynumber: 7.5 Consensus size: 30
807680 TAATAAGGTT
807690 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
*
807720 ATTTATTTTAAAATAATTTATCATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
807750 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
*
807780 ATTTATTTTAAAATAATTCATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
* *
807810 ATTTATTATAAAATAATTTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
* * *
807840 AATTATTATAAAATATGGATTGATTTATTTTAAAATA
1 ATTTATT-TTAAA-AT--A---ATTTATTATAAAATA
* *
807877 ATTTATTTT-AAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAAATAATTTATTA-TA--AAATA
807909 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
807924 TGGATTGATT
Statistics
Matches: 179, Mismatches: 14, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
29 7 0.04
30 122 0.68
31 3 0.02
32 15 0.08
33 5 0.03
34 3 0.02
35 2 0.01
36 1 0.01
37 21 0.12
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (30 bp):
ATTTATTTTAAAATAATTTATTATAAAATA
Found at i:807747 original size:45 final size:45
Alignment explanation
Indices: 807690--807923 Score: 290
Period size: 45 Copynumber: 5.0 Consensus size: 45
807680 TAATAAGGTT
807690 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATA
** * *
807735 ATTTATCATAAAATAATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATA
* *
807780 ATTTATTTTAAAATAATTCATTATAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATA
*
807825 ATTTATTTTAAAATAAATTATTATAAAATATGGATTGATTTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTAT-AAA-AT--A---ATTTATTTTAAAATA
* *
807877 ATTTATTTT-AAATAATTTATTAGTATGAATTGATTTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTA-TA--AAATAATTTATTTTAAAATA
807924 TGGATTGATT
Statistics
Matches: 165, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
45 104 0.63
46 3 0.02
47 17 0.10
49 1 0.01
51 13 0.08
52 25 0.15
53 2 0.01
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (45 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATA
Found at i:807891 original size:14 final size:15
Alignment explanation
Indices: 807690--807897 Score: 265
Period size: 15 Copynumber: 13.5 Consensus size: 15
807680 TAATAAGGTT
807690 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
807705 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
807720 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
**
807735 ATTTATCATAAAATA
1 ATTTATTTTAAAATA
807750 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
807765 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
807780 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
807795 ATTCATTATAAAATA
1 ATTTATTTTAAAATA
*
807810 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
807825 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
807840 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
807859 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
807877 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
807891 ATTTATT
1 ATTTATT
807898 AGTATGAATT
Statistics
Matches: 170, Mismatches: 16, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
14 12 0.07
15 138 0.81
16 4 0.02
17 2 0.01
18 1 0.01
19 1 0.01
20 2 0.01
21 4 0.02
22 6 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:807916 original size:22 final size:22
Alignment explanation
Indices: 807900--807942 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
807890 AATTTATTAG
807900 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
807922 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
807943 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:807916 original size:32 final size:31
Alignment explanation
Indices: 807877--807974 Score: 115
Period size: 32 Copynumber: 3.4 Consensus size: 31
807867 TTTTAAAATA
807877 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTG
807909 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
807931 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
807963 ATTTATTTTAAA
1 ATTTATTTTAAA
807975 ATATGGATTG
Statistics
Matches: 56, Mismatches: 0, Indels: 20
0.74 0.00 0.26
Matches are distributed among these distances:
22 13 0.23
23 3 0.05
24 2 0.04
26 3 0.05
27 2 0.04
28 3 0.05
30 2 0.04
31 2 0.04
32 26 0.46
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (31 bp):
ATTTATTTTAAATAATTTATTAGTATGATTG
Found at i:807925 original size:69 final size:67
Alignment explanation
Indices: 807803--807952 Score: 205
Period size: 69 Copynumber: 2.2 Consensus size: 67
807793 TAATTCATTA
807803 TAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGATTGATTTAT
1 TAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGATTGATTTAT
807868 TT
66 TT
* * * * * *
807870 TAAAATAATTTATT-TTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATT
1 TAAAATAATTTATTATAAAATAATTTATT--T-TAAAATAAATTATTATAAAATATGGATTGATT
807934 TATTT
63 TATTT
807939 T-AAATAATTTATTA
1 TAAAATAATTTATTA
807953 GTATGGATTG
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
66 13 0.18
67 14 0.19
68 13 0.18
69 33 0.45
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (67 bp):
TAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGATTGATTTAT
TT
Found at i:807942 original size:54 final size:54
Alignment explanation
Indices: 807877--807991 Score: 221
Period size: 54 Copynumber: 2.1 Consensus size: 54
807867 TTTTAAAATA
807877 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
*
807931 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
807985 ATTTATT
1 ATTTATT
807992 ATTGTAGTTG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
Found at i:807968 original size:18 final size:18
Alignment explanation
Indices: 807945--807992 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
807935 ATTTTAAATA
*
807945 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
807963 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
807985 ATTTATTA
1 ATTTATTA
807993 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:808015 original size:80 final size:80
Alignment explanation
Indices: 807922--808071 Score: 264
Period size: 80 Copynumber: 1.9 Consensus size: 80
807912 TATTTTAAAA
* * * *
807922 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTAATTTATATTAAATAATTTATTAGTATGAATTGATTTACTTTAAAATATGGATTGAT
807987 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
808002 TATGGATTAATTTATATTAAATAATTTATTAGTATGAATTGATTTACTTTAAAATATGGATTGAT
1 TATGGATTAATTTATATTAAATAATTTATTAGTATGAATTGATTTACTTTAAAATATGGATTGAT
808067 TTATT
66 TTATT
808072 TTAAATAATT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.51
Consensus pattern (80 bp):
TATGGATTAATTTATATTAAATAATTTATTAGTATGAATTGATTTACTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:808037 original size:32 final size:32
Alignment explanation
Indices: 808001--808359 Score: 234
Period size: 32 Copynumber: 11.7 Consensus size: 32
807991 TATTGTAGTT
* *
808001 GTATGGATTAATTTATATTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
808033 GTATGAATTGATTTA-CTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
808056 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
808087 GTATGGATTGATTTATTTT-AA-AA--TA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
808113 G--T--ATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
808141 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
808173 GTATGGATTGATTTATTTTAAAATATGGATTTATTTATTA
1 GTATGGATTGATTTATTTT--AA-AT--A---ATTTATTA
* * * ** * *
808213 TTGTAGTGTATGGATTGA-TTTATTTTAAATAATTTA
1 --GTA-TGGATTGATTTATTTTA-AATAATTTA-TTA
* * * * *
808249 TTA-GTATGGATTGA-TTT--AT--TTTA-AA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
808274 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
808306 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
808338 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
808360 ATATAGATTG
Statistics
Matches: 261, Mismatches: 26, Indels: 80
0.71 0.07 0.22
Matches are distributed among these distances:
22 26 0.10
23 5 0.02
24 3 0.01
25 4 0.02
26 14 0.05
27 7 0.03
28 6 0.02
29 4 0.02
30 3 0.01
31 9 0.03
32 142 0.54
34 4 0.02
35 5 0.02
36 3 0.01
37 1 0.00
38 1 0.00
40 9 0.03
42 6 0.02
43 9 0.03
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:808059 original size:22 final size:22
Alignment explanation
Indices: 808034--808076 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
808024 AATTTATTAG
808034 TATGAATTGATTTACTTTAAAA
1 TATGAATTGATTTACTTTAAAA
* *
808056 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTACTTTAAA
808077 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (22 bp):
TATGAATTGATTTACTTTAAAA
Found at i:808069 original size:54 final size:54
Alignment explanation
Indices: 808002--808327 Score: 399
Period size: 54 Copynumber: 6.0 Consensus size: 54
807992 ATTGTAGTTG
* * * *
808002 TATGGATTAATTTATATTAAATAATTTATTAGTATGAATTGATTTACTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
808056 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
808110 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * ** * * * * * ***
808163 TA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTTATTTATTATTGTAGTG
1 TATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGA--T-TTATTTTAAAA
808221 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
808275 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
808328 TAATTTATTT
Statistics
Matches: 230, Mismatches: 31, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
50 16 0.07
52 2 0.01
53 5 0.02
54 169 0.73
55 1 0.00
56 1 0.00
57 16 0.07
58 2 0.01
59 2 0.01
61 16 0.07
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:808139 original size:22 final size:22
Alignment explanation
Indices: 808088--808130 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
808078 AATTTATTAG
*
808088 TATGGATTGATTTATTTTAAAA
1 TATGTATTGATTTATTTTAAAA
808110 TATGTATTGATTTATTTTAAA
1 TATGTATTGATTTATTTTAAA
808131 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGTATTGATTTATTTTAAAA
Found at i:808257 original size:165 final size:166
Alignment explanation
Indices: 808056--808416 Score: 688
Period size: 165 Copynumber: 2.2 Consensus size: 166
808046 TACTTTAAAA
*
808056 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGTATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
808121 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
* *
808186 TATTTTAAAATATGGATTTATTTATTATTGTAG-TG
131 TATTTTAAAATATAGATTGATTTATTATTGTAGTTG
808221 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
808286 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
808351 TATTTTAAAATATAGATTGATTTATTATTGTAGTTG
131 TATTTTAAAATATAGATTGATTTATTATTGTAGTTG
808387 TATGGATTGATTTATTTTAAATAATTTATT
1 TATGGATTGATTTATTTTAAATAATTTATT
808417 TTAAATTTCA
Statistics
Matches: 192, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
165 160 0.83
166 32 0.17
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (166 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
TATTTTAAAATATAGATTGATTTATTATTGTAGTTG
Found at i:808278 original size:22 final size:22
Alignment explanation
Indices: 808253--808295 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
808243 AATTTATTAG
808253 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
808275 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
808296 TAATTTATTA
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:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:808415 original size:14 final size:14
Alignment explanation
Indices: 808396--808422 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
808386 GTATGGATTG
808396 ATTTATTTTAAATA
1 ATTTATTTTAAATA
808410 ATTTATTTTAAAT
1 ATTTATTTTAAAT
808423 TTCAGTATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:808752 original size:68 final size:68
Alignment explanation
Indices: 808643--809046 Score: 630
Period size: 68 Copynumber: 6.0 Consensus size: 68
808633 CAAACACCAC
* * *
808643 CTAAGTTCCTTTGAGGCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATAAA
1 CTAAGTGCCTTTGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAA
808708 AGG
66 AGG
* *
808711 CTAAGTGCCTTTGAGGCCTAACTGTGCATATGATAGAAAGGTTTCATTTATGCCAATTAGATGAA
1 CTAAGTGCCTTTGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAA
808776 AGG
66 AGG
* *
808779 CTAAGTGCCTTTGAGGCCTAACTGTGCATATGATAGAAAGGTGACATTTGTGCCAGTTAGATGAA
1 CTAAGTGCCTTTGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAA
808844 AGG
66 AGG
* *
808847 CTAAGTGCCTTTGAGGCCTAGCTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
1 CTAAGTGCCTTTGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAA
808912 AGG
66 AGG
*
808915 CTAAGTGTCTTTGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATG-CAGTTAGATGAA
1 CTAAGTGCCTTTGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAA
808979 AGG
66 AGG
* * * * * * * * *
808982 CTTAGTGCCTTTGAGGCCTAACTATGCAAATGACAGAAATGTGTCAATCATACCAGATAGATGAA
1 CTAAGTGCCTTTGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAA
809047 CGGTTAAATA
Statistics
Matches: 309, Mismatches: 26, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
67 58 0.19
68 251 0.81
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (68 bp):
CTAAGTGCCTTTGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAA
AGG
Found at i:809134 original size:81 final size:81
Alignment explanation
Indices: 808998--809312 Score: 416
Period size: 81 Copynumber: 3.9 Consensus size: 81
808988 GCCTTTGAGG
* * * * * *
808998 CCTAACTATGCAAATGACAGAAATGTGTCAATCATACCAGATAGATGAACGGTTAAATATC-GTT
1 CCTAACTGTGCAATTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAATA-CAGTT
*
809062 GCGTAAAAGAATAATGT
65 GAGTAAAAGAATAATGT
* * * * * *
809079 CCTAACTGTGTAATTGGCATAAAGGTTTCAATCATGTCTGTTAGATGAATGGTTAAATACAGTTG
1 CCTAACTGTGCAATTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAATACAGTTG
809144 AGTAAAAGAATAATGT
66 AGTAAAAGAATAATGT
* * * *
809160 CCTAACTGTGCAATTGGTAGAAAGGTGTCAACCATGCCAGTTAGATGAACGATTAAATACCGTTG
1 CCTAACTGTGCAATTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAATACAGTTG
809225 AGTAAAAGAATAATGT
66 AGTAAAAGAATAATGT
* * * * *
809241 CTTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAATTAGATGAACGGTTAAATACTGTTG
1 CCTAACTGTGCAATTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAATACAGTTG
809306 AGTAAAA
66 AGTAAAA
809313 AGATGAAAGG
Statistics
Matches: 202, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
80 1 0.00
81 201 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (81 bp):
CCTAACTGTGCAATTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAATACAGTTG
AGTAAAAGAATAATGT
Found at i:809319 original size:30 final size:30
Alignment explanation
Indices: 809283--809341 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
809273 TATGCCAATT
* *
809283 AGATGAACGGTTAAAT-ACTGTTGAGTAAAA
1 AGATGAAAGG-TAAATCACTGTTAAGTAAAA
*
809313 AGATGAAAGGTCAATCACTGTTAAGTAAA
1 AGATGAAAGGTAAATCACTGTTAAGTAAA
809342 TGAATAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.25
Consensus pattern (30 bp):
AGATGAAAGGTAAATCACTGTTAAGTAAAA
Found at i:810420 original size:32 final size:32
Alignment explanation
Indices: 810353--810424 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
810343 TAAGGTGGCC
* * *
810353 CTTGGGTAGGCTCAAAGGCCCCGATAATCTTT
1 CTTGGGTAGGCTCAAAGGCCCCAAGAATCTCT
* *
810385 CTTGGGTAGGCTCTACGGCCCCAAGACA-CTCT
1 CTTGGGTAGGCTCAAAGGCCCCAAGA-ATCTCT
810417 CTTGGGTA
1 CTTGGGTA
810425 AATTATGGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (32 bp):
CTTGGGTAGGCTCAAAGGCCCCAAGAATCTCT
Found at i:814231 original size:26 final size:28
Alignment explanation
Indices: 814201--814270 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 28
814191 AATTATATTA
814201 TTTATTTATTAATTAAAAT-A-AAATAT
1 TTTATTTATTAATTAAAATAATAAATAT
*
814227 TTTATTTTATT-CTTAAAATAATAAATAT
1 TTTA-TTTATTAATTAAAATAATAAATAT
814255 TATTAATTATATTAAT
1 T-TT-ATT-TATTAAT
814271 CACTTATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 11 0.31
27 7 0.20
28 7 0.20
29 4 0.11
30 5 0.14
31 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTATTTATTAATTAAAATAATAAATAT
Found at i:814486 original size:20 final size:19
Alignment explanation
Indices: 814461--814511 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
814451 ATATCATATA
*
814461 ATATTATAATATAACTAAAT
1 ATATTATAATAT-ACTAAAG
*
814481 ATATTACTAAAATACTAAAG
1 ATATTA-TAATATACTAAAG
814501 A-ATTATAATAT
1 ATATTATAATAT
814512 TGTATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 13 0.48
21 5 0.19
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (19 bp):
ATATTATAATATACTAAAG
Found at i:815295 original size:15 final size:15
Alignment explanation
Indices: 815275--815316 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
815265 AGGTTCTCTC
815275 GAAGAGGAGGAGGAA
1 GAAGAGGAGGAGGAA
815290 GAAGAGGAGGAGGAA
1 GAAGAGGAGGAGGAA
815305 GAAGAGGAGGAG
1 GAAGAGGAGGAG
815317 TTGTTCTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (15 bp):
GAAGAGGAGGAGGAA
Found at i:815633 original size:14 final size:14
Alignment explanation
Indices: 815614--815651 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
815604 CATGGGCAGT
*
815614 AATCCCTGCAAATA
1 AATCCCTGCAAAAA
815628 AATCCCTGCAAAAA
1 AATCCCTGCAAAAA
*
815642 AATCTCTGCA
1 AATCCCTGCA
815652 TATAGACAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.29, G:0.08, T:0.21
Consensus pattern (14 bp):
AATCCCTGCAAAAA
Found at i:816553 original size:13 final size:13
Alignment explanation
Indices: 816535--816568 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
816525 CTTAGACCTT
*
816535 TTCTTCCAAAGTA
1 TTCTTCCAAAGCA
816548 TTCTTCCAAAGCA
1 TTCTTCCAAAGCA
*
816561 GTCTTCCA
1 TTCTTCCA
816569 GGTAGCCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.35
Consensus pattern (13 bp):
TTCTTCCAAAGCA
Found at i:822237 original size:46 final size:46
Alignment explanation
Indices: 822155--822357 Score: 253
Period size: 46 Copynumber: 4.4 Consensus size: 46
822145 ATCGTGATGT
** * *
822155 ATTTTCATTGGTGGCATCCTTTCATGCCAATTATGCACCGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* *
822201 ATCTTAATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* * * * * *
822247 ATTTTTCATTTATGGTACCCTTTTATGCCGATAATTCACAGTTATGC
1 A-TTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* * * *
822294 ATGTTCATTTATGACTTCCGTTCATGCCTATAATGCACCGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
822340 ATTTTCATTTATGGCATC
1 ATTTTCATTTATGGCATC
822358 TGTCGTAACC
Statistics
Matches: 129, Mismatches: 27, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
46 91 0.71
47 38 0.29
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.41
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
Found at i:822787 original size:22 final size:22
Alignment explanation
Indices: 822762--822819 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 22
822752 TTAAAAGGTT
822762 GAAAAGAAAAAAATG-AATGAAA
1 GAAAAGAAAAAAATGTAAT-AAA
822784 G-AAAGAAAAAACATGTAATAAA
1 GAAAAGAAAAAA-ATGTAATAAA
822806 -AAAAGGAATAAAAA
1 GAAAA-GAA-AAAAA
822820 ATATATGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
21 10 0.32
22 10 0.32
23 7 0.23
24 4 0.13
ACGTcount: A:0.72, C:0.02, G:0.16, T:0.10
Consensus pattern (22 bp):
GAAAAGAAAAAAATGTAATAAA
Found at i:824061 original size:3 final size:3
Alignment explanation
Indices: 824053--824082 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
824043 GTAAATAGAA
824053 AAT AAT AAT AAT AAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
824083 ACTATATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:824123 original size:39 final size:36
Alignment explanation
Indices: 824080--824394 Score: 138
Period size: 38 Copynumber: 8.6 Consensus size: 36
824070 TAATAATATA
824080 TAAACTATATAATATATATATTTCAAAAAATAAGTTTTT
1 TAAACTATATAATATATATATTTC-AAAAAT-A-TTTTT
**
824119 TAAACTATAT--TATAT-T-TTT-AAAAATATTTCC
1 TAAACTATATAATATATATATTTCAAAAATATTTTT
* * *
824150 AAAACTATA-AAT-TTTATAGTTTTC--AAA-ATGTTT
1 TAAACTATATAATATATATA--TTTCAAAAATATTTTT
* *
824183 TAAA-AATATTATATA-AGT-TTTCAAAAAAATATTTTT
1 TAAACTATATAATATATA-TATTTC--AAAAATATTTTT
* * * *
824219 AAAACTATATATTATATAATTTTTCAAAAAATGTTTTTT
1 TAAACTATATAATATAT-ATATTTC-AAAAAT-ATTTTT
* *
824258 TAAAACTATATATTATATAATTTTTCAAAAATATTTTT
1 T-AAACTATATAATATAT-ATATTTCAAAAATATTTTT
* * * **
824296 AAAACTATATATTATATA-ATTTCTCAAAAATGTTATAA
1 TAAACTATATAATATATATA-TT-TCAAAAATATT-TTT
* * * *
824334 AAAACTATATATTATATATATATTT-TAAAATGTTTTCA
1 TAAACTATATA--ATATATATATTTCAAAAATATTTT-T
* *
824372 AAAACTATATAATATATAAATTT
1 TAAACTATATAATATATATATTT
824395 TCGAATATCA
Statistics
Matches: 220, Mismatches: 28, Indels: 59
0.72 0.09 0.19
Matches are distributed among these distances:
31 17 0.08
32 6 0.03
33 15 0.07
34 5 0.02
35 9 0.04
36 23 0.10
37 40 0.18
38 45 0.20
39 27 0.12
40 32 0.15
41 1 0.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (36 bp):
TAAACTATATAATATATATATTTCAAAAATATTTTT
Found at i:824298 original size:77 final size:75
Alignment explanation
Indices: 824188--824396 Score: 260
Period size: 77 Copynumber: 2.7 Consensus size: 75
824178 TGTTTTAAAA
*
824188 ATATTATATAAGTTTTCAAAAAAATATTTTTAAAACTATATATTATATAATTTTTCAAAAAATGT
1 ATATTATATAATTTTTC--AAAAATATTTTTAAAACTATATATTATATAATTTTTC-AAAAATG-
* **
824253 TTTTTTAAAACTAT
62 TTATAAAAAACTAT
*
824267 ATATTATATAATTTTTCAAAAATATTTTTAAAACTATATATTATATAATTTCTCAAAAATGTTAT
1 ATATTATATAATTTTTCAAAAATATTTTTAAAACTATATATTATATAATTTTTCAAAAATGTTAT
824332 AAAAAACTAT
66 AAAAAACTAT
* * * *
824342 ATATTATATATATATTTT--AAAATGTTTTCAAAAACTATATAATATATAAATTTTC
1 ATATTATATA-AT-TTTTCAAAAATATTTT-TAAAACTATATATTATATAATTTTTC
824397 GAATATCATT
Statistics
Matches: 117, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
75 30 0.26
76 31 0.26
77 40 0.34
79 16 0.14
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (75 bp):
ATATTATATAATTTTTCAAAAATATTTTTAAAACTATATATTATATAATTTTTCAAAAATGTTAT
AAAAAACTAT
Found at i:824347 original size:38 final size:38
Alignment explanation
Indices: 824188--824396 Score: 246
Period size: 38 Copynumber: 5.4 Consensus size: 38
824178 TGTTTTAAAA
* *
824188 ATATTATATAAGTTTTCAAAAAAATATTTTT-AAAACTAT
1 ATATTATATAATTTTTC--AAAAATGTTTTTAAAAACTAT
*
824227 ATATTATATAATTTTTCAAAAAATGTTTTTTTAAAACTAT
1 ATATTATATAATTTTTC-AAAAATG-TTTTTAAAAACTAT
*
824267 ATATTATATAATTTTTCAAAAATATTTTT-AAAACTAT
1 ATATTATATAATTTTTCAAAAATGTTTTTAAAAACTAT
* * *
824304 ATATTATATAATTTCTCAAAAATGTTATAAAAAACTAT
1 ATATTATATAATTTTTCAAAAATGTTTTTAAAAACTAT
*
824342 ATATTATATATATATTTT--AAAATGTTTTCAAAAACTAT
1 ATATTATATA-AT-TTTTCAAAAATGTTTTTAAAAACTAT
* *
824380 ATAATATATAAATTTTC
1 ATATTATATAATTTTTC
824397 GAATATCATT
Statistics
Matches: 152, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
36 4 0.03
37 34 0.22
38 57 0.38
39 29 0.19
40 28 0.18
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (38 bp):
ATATTATATAATTTTTCAAAAATGTTTTTAAAAACTAT
Found at i:824465 original size:2 final size:2
Alignment explanation
Indices: 824458--824500 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
824448 CAAGCAAAAC
824458 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
824500 A
1 A
824501 ACAAAATAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:825108 original size:84 final size:83
Alignment explanation
Indices: 824980--825901 Score: 923
Period size: 84 Copynumber: 11.1 Consensus size: 83
824970 TGAGCTATAT
*
824980 TGTAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCC
* * *
825045 TTCTAGCCTTGAGTTATGT
65 TTCTAGACTTAAGTTATGC
* * * *
825064 TGTAAATGATGTGCCTTGGAGCTGAGCATAGTCAAACTCGAAGGTTTTTTGGTGACATATAACCC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGGTGACAGATAACCC
* * * *
825129 TTCTAGCCTTGAGGTATGT
65 TTCTAGACTTAAGTTATGC
*
825148 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGCCAGATAACCC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCC
*
825213 TTCTTGACTTAAGTTATGC
65 TTCTAGACTTAAGTTATGC
* * * * *
825232 CGTAAATAATATGCCTTGGAGCTGATCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCC
825297 TTCTAGACTTAAGTTATAG-
65 TTCTAGACTTAAGTTAT-GC
* * * ** *
825316 TGCAAATGATATGCCTTGGAGCTGAGCGTAGTC-AAATAAAAGGTATTTTGGTGACAGATAACCC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTTGGTGACAGATAACCC
* *
825380 TTCTAGCCTTGAGTTATGC
65 TTCTAGACTTAAGTTATGC
* * * * * *
825399 TGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC-AGGGGTCTTT-G-G-CAGATAGCC
1 TGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGA-AGGTCTTTGGTGACAGATAACC
* *
825460 CTTCTCGACTTAAGCTATGC
64 CTTCTAGACTTAAGTTATGC
** * * * *
825480 TACAAATGCTGTGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGGTTGGCAGATAACCC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCC
* *
825545 TTCTCGACTTAAGTTATAC
65 TTCTAGACTTAAGTTATGC
* * *
825564 TATAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTGACAGATAACCC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCC
* * *
825629 TTCTAGCCTTGAGTTGTGC
65 TTCTAGACTTAAGTTATGC
* * * * * * ** *
825648 TGTAAATGATGTGCCCTCGAAGCT-AACTATAATTGAACT-GGGGGTCTTT-G-G-CAGATAGCC
1 TGTAAATGATGTG-CCTTGGAGCTGAGC-GTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACC
* *
825708 CTTCTCGACTTAAGCTATGC
64 CTTCTAGACTTAAGTTATGC
* * ** * *
825728 TGTAAATGATGTGGCTTGGAGCTGAGTGTAGTAAAACTTGAAGGTCTTTGGTTGGCAGATAACCC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCC
* * * *
825793 -TCTCGATTTAAGCTATGT
65 TTCTAGACTTAAGTTATGC
* * * * * *
825811 TGCAAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTTACAGATAACCC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCC
* *
825876 TTCTAGCCTTGAGTTATGC
65 TTCTAGACTTAAGTTATGC
*
825895 TGCAAAT
1 TGTAAAT
825902 AGTTTTTTTT
Statistics
Matches: 695, Mismatches: 119, Indels: 48
0.81 0.14 0.06
Matches are distributed among these distances:
79 14 0.02
80 73 0.11
81 38 0.05
82 3 0.00
83 122 0.18
84 417 0.60
85 28 0.04
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (83 bp):
TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCT
TCTAGACTTAAGTTATGC
Found at i:825556 original size:248 final size:248
Alignment explanation
Indices: 824980--825901 Score: 1233
Period size: 248 Copynumber: 3.7 Consensus size: 248
824970 TGAGCTATAT
* * *
824980 TGTAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGG-TGACAGATAACC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTTGGTTGGCAGATAACC
* * * * * *
825044 CTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTGGAGCTGAGCATAGTCAAACTCGAAGGT
65 CTTCTAGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGT
* * * * * *
825109 TTTTTGGTGACATATAACCCTTCTAGCCTTGAGGTATGTTGTAAATGATGTG-CCTTGGAGCTGA
130 CTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGA
* * * * * *
825173 GCGTAGTCGAACTCGAAGGTCTTTGGTTGCCAGATAACCCTTCTTGACTTAAGTTATGC
195 GTGTAATCGAACTCG-GGGTCTTT-G--G-CAGATAGCCCTTCTCGACTTAAGCTATGC
* * * * *
825232 CGTAAATAATATGCCTTGGAGCTGATCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCC
*
825297 TTCTAGACTTAAGTTATAG-TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAA-TAAAAGGT
66 TTCTAGACTTAAGTTAT-GTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGT
*
825360 ATTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGA
130 CTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGA
825425 GTGTAATCGAACTCAGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
195 GTGTAATCGAACTC-GGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
** * *
825480 TACAAATGCTGTGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGGTTGGCAGATAACCC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCC
* ** ** *
825545 TTCTCGACTTAAGTTATACTATAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC
66 TTCTAGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTC
* * *
825610 TTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTGTGCTGTAAATGATGTGCCCTCGAAGCTAAC
131 TTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAG
* * *
825675 TATAATTGAACTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
196 TGTAATCGAACTCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
* * * *
825728 TGTAAATGATGTGGCTTGGAGCTGAGTGTAGTAAAACTTGAAGGTCTTTGGTTGGCAGATAACCC
1 TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCC
* * * * *
825793 -TCTCGATTTAAGCTATGTTGCAAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCAAAGGTC
66 TTCTAGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTC
* * *
825857 TTTTGTTTACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
131 TTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT
825902 AGTTTTTTTT
Statistics
Matches: 596, Mismatches: 68, Indels: 17
0.88 0.10 0.02
Matches are distributed among these distances:
247 96 0.16
248 229 0.38
249 79 0.13
251 60 0.10
252 130 0.22
253 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (248 bp):
TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCC
TTCTAGACTTAAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTC
TTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAG
TGTAATCGAACTCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
Found at i:825657 original size:332 final size:336
Alignment explanation
Indices: 824975--825879 Score: 958
Period size: 332 Copynumber: 2.7 Consensus size: 336
824965 AACCTTGAGC
* * * ** *
824975 TATATTGTAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGGTGACAGAT
1 TATAGTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAATAAAAGGTATTTTGGTGACAGAT
* * * *
825040 AACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTGGAGCTGAGCATAGTCAAACTCGA
66 AACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTCGAAGCTGAGCATAATCAAACTCGA
* * * * * * * **
825105 AGGTTTTTTGGTGACATATAACCCTTCTAGCCTTGAGGTATGTTGTAAATGATGTGCCTTGGAGC
131 AGGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGC
* * * * *
825170 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGCCAGATAACCCTTCTTGACTTAAGTTATGCCGT
196 TGAGCGTAGTCAAACTCAAAGGTCTTTGGTTGCCAGATAACCCTTCTCGACTTAAGTTATACCAT
* * *
825235 AAATAATATGCCTTGGAGCTGATCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
261 AAATAATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGACAGATAACCCTTC
825300 TAGACTTAAGT
326 TAGACTTAAGT
* *
825311 TATAGTGCAAATGATATGCCTTGGAGCTGAGCGTAGTC-AAATAAAAGGTATTTTGGTGACAGAT
1 TATAGTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAATAAAAGGTATTTTGGTGACAGAT
** *
825375 AACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC-
66 AACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG-CCTCGAAGCTGAGCATAATCAAACTCG
* * * *
825439 AGGGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGCTGTGCCTTGGAG
130 AAGGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGCTATGCTACAAATGATGTGCCTTGGAG
* *
825501 CTGAGCGTAGTCAAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTA
195 CTGAGCGTAGTCAAACTCAAAGGTCTTTGGTTGCCAGATAACCCTTCTCGACTTAAGTTATACCA
*
825566 TAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG-TGACAGATAACCCT
260 TAAATAATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTTGGTTGACAGATAACCCT
* *
825630 TCTAGCCTTGAGT
324 TCTAGACTTAAGT
* * * * * * * * *** *
825643 TGT-GCTGTAAATGATGTGCCCTCGAAGCT-AACTATAATTGAACT-GGGGGT-CTTT-G-G-CA
1 TATAG-TGTAAATGATGTG-CCTTGGAGCTGAGC-GTAGTCGAAATAAAAGGTATTTTGGTGACA
* * * * * * * * ** * *
825701 GATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGGCTTGGAGCTGAGTGTAGTAAAACT
63 GATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTCGAAGCTGAGCATAATCAAACT
* * * * * * * *
825766 TGAA-GGTCTTTGGTTGGCAGATAACCC-TCTCGATTTAAGCTATGTTGCAAATGATATGCCTTT
128 CGAAGGGTCTTTGG-TGACAGATAACCCTTCTAGACTTAAGCTATGCTACAAATGATGTGCCTTG
* * **
825829 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTTACAGATAACCCTTCT
192 GAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGGTTGCCAGATAACCCTTCT
825880 AGCCTTGAGT
Statistics
Matches: 479, Mismatches: 79, Indels: 27
0.82 0.14 0.05
Matches are distributed among these distances:
328 26 0.05
329 39 0.08
330 1 0.00
331 80 0.17
332 190 0.40
333 20 0.04
334 4 0.01
335 65 0.14
336 54 0.11
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (336 bp):
TATAGTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAATAAAAGGTATTTTGGTGACAGAT
AACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTCGAAGCTGAGCATAATCAAACTCGA
AGGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGC
TGAGCGTAGTCAAACTCAAAGGTCTTTGGTTGCCAGATAACCCTTCTCGACTTAAGTTATACCAT
AAATAATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGACAGATAACCCTTC
TAGACTTAAGT
Found at i:827240 original size:95 final size:98
Alignment explanation
Indices: 827023--827277 Score: 387
Period size: 95 Copynumber: 2.6 Consensus size: 98
827013 GGCTAGCTAG
* *
827023 ATCCATAAAGCTAGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAA--TATTATTGTATAGA
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCT-TTATTGTATAGA
*
827086 TATAATTACCACCTTTATTAGGCTAGATGAATATT
65 TATAATTA-CACCTTTATCAGGCTAGATGAATATT
827121 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATAG-T
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATAGAT
* * *
827185 ATAA-T-CACCTTTATCAGGCTAGCTGACTCTT
66 ATAATTACACCTTTATCAGGCTAGATGAATATT
827216 ATCCATAAAG-TCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATA
1 ATCCATAAAGCT-GGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATA
827278 TATGTAATAT
Statistics
Matches: 148, Mismatches: 6, Indels: 9
0.91 0.04 0.06
Matches are distributed among these distances:
94 1 0.01
95 82 0.55
97 1 0.01
98 52 0.35
99 11 0.07
100 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (98 bp):
ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATAGAT
ATAATTACACCTTTATCAGGCTAGATGAATATT
Found at i:833214 original size:12 final size:12
Alignment explanation
Indices: 833193--833234 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
833183 GATAAGTATT
833193 TAAAAAAATAAA
1 TAAAAAAATAAA
*
833205 TAAAATAATAAA
1 TAAAAAAATAAA
*
833217 TAAAAAAA-GAA
1 TAAAAAAATAAA
833228 TAAAAAA
1 TAAAAAA
833235 CTGAAAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:834542 original size:3 final size:3
Alignment explanation
Indices: 834534--834565 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
834524 ACAAGTAAAT
834534 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
834566 TAAACTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:834715 original size:33 final size:34
Alignment explanation
Indices: 834577--834715 Score: 100
Period size: 34 Copynumber: 4.2 Consensus size: 34
834567 AAACTATATA
*
834577 ATATATATA--TTTCAAAAAATAATTTTTTTAAACT
1 ATATATATAGTTTTCAAAAAAT-A-TTTTTAAAACT
* **
834611 ATAT-TATA-TTTT-TAAAAATATTTCCAAAACT
1 ATATATATAGTTTTCAAAAAATATTTTTAAAACT
*
834642 ATAAATTATATAGTTTTC--AAAAT-GTTTTAAGAA-T
1 AT--A-TATATAGTTTTCAAAAAATATTTTTAA-AACT
834676 AT-TATATAAGTTTTCAAAAAATATTTTTAAAACT
1 ATATATAT-AGTTTTCAAAAAATATTTTTAAAACT
834710 ATATAT
1 ATATAT
834716 TATATAATTA
Statistics
Matches: 83, Mismatches: 8, Indels: 27
0.70 0.07 0.23
Matches are distributed among these distances:
30 5 0.06
31 17 0.20
32 1 0.01
33 18 0.22
34 24 0.29
35 14 0.17
36 4 0.05
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (34 bp):
ATATATATAGTTTTCAAAAAATATTTTTAAAACT
Found at i:834717 original size:38 final size:38
Alignment explanation
Indices: 834567--834766 Score: 117
Period size: 33 Copynumber: 5.6 Consensus size: 38
834557 AATATAATAT
* ***
834567 AAACTATATAATATAT-ATATTTCAAAAAATAATTTTTTT
1 AAACTATATATTATATAAT-TTTCAAAAAAT-ATTTTCAA
*
834606 AAAC--TATATTATAT--TTTT--AAAAATA-TTTCCA
1 AAACTATATATTATATAATTTTCAAAAAATATTTTCAA
* * *
834637 AAACTATAAATTATATAGTTTTC--AAAATGTTTT-AA
1 AAACTATATATTATATAATTTTCAAAAAATATTTTCAA
* * *
834672 GAA-TAT-TA-TATA-AGTTTTCAAAAAATATTTT-TA
1 AAACTATATATTATATAATTTTCAAAAAATATTTTCAA
** *
834705 AAACTATATATTATATAATTATTTTAAAAATGTTTTCAA
1 AAACTATATATTATATAATT-TTCAAAAAATATTTTCAA
*
834744 AAACTATATAATATATAAATTTT
1 AAACTATATATTATAT-AATTTT
834767 TGAAACCAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
31 14 0.11
32 5 0.04
33 28 0.22
34 6 0.05
35 17 0.13
36 8 0.06
37 12 0.09
38 12 0.09
39 22 0.17
40 4 0.03
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.45
Consensus pattern (38 bp):
AAACTATATATTATATAATTTTCAAAAAATATTTTCAA
Found at i:834747 original size:39 final size:38
Alignment explanation
Indices: 834674--834766 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 38
834664 TGTTTTAAGA
*
834674 ATATTATATAAGTTTTCAAAAAATATTTTTAAAACTAT
1 ATATTATATAAGTTTTCAAAAAATATTTTAAAAACTAT
** *
834712 ATATTATATAA-TTATTTTAAAAATGTTTTCAAAAACTAT
1 ATATTATATAAGTT-TTCAAAAAATATTTT-AAAAACTAT
* *
834751 ATAATATATAAATTTT
1 ATATTATATAAGTTTT
834767 TGAAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 2 0.04
38 23 0.49
39 20 0.43
40 2 0.04
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (38 bp):
ATATTATATAAGTTTTCAAAAAATATTTTAAAAACTAT
Found at i:835670 original size:38 final size:35
Alignment explanation
Indices: 835609--835820 Score: 131
Period size: 38 Copynumber: 5.9 Consensus size: 35
835599 AACACATATT
* *
835609 TTTCAAAAATATTTTTAAAACTATATATTATATAA
1 TTTCAAAAATGTTTTAAAAACTATATATTATATAA
835644 TTTCACAAAAATGTTTTAAAAAACTATATATTATATAA
1 TTT--CAAAAATGTTTT-AAAAACTATATATTATATAA
* *
835682 GTTTTCAAAATTGTTCTAAAAAC--TATATTATAT-A
1 --TTTCAAAAATGTTTTAAAAACTATATATTATATAA
835716 --T---AAATGTTTTCAAAACTA-TATAT-TATATAT-A
1 TTTCAAAAATGTTTT-AAAA--ACTATATAT-TATATAA
* *
835747 TTTTAAAAATGTTTTCAAAAACTATATAATATATAAA
1 TTTCAAAAATGTTTT-AAAAACTATATATTATAT-AA
* * *
835784 TTTTCGAAAATCGTTTTCTGAAAATTATATATTATAT
1 -TTTCAAAAAT-G-TTT-TAAAAACTATATATTATAT
835821 TTCATCAAAA
Statistics
Matches: 141, Mismatches: 12, Indels: 43
0.72 0.06 0.22
Matches are distributed among these distances:
27 7 0.05
28 4 0.03
30 3 0.02
31 9 0.06
33 1 0.01
34 2 0.01
35 23 0.16
36 14 0.10
37 18 0.13
38 37 0.26
39 1 0.01
40 21 0.15
41 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (35 bp):
TTTCAAAAATGTTTTAAAAACTATATATTATATAA
Found at i:835735 original size:64 final size:65
Alignment explanation
Indices: 835652--835784 Score: 191
Period size: 64 Copynumber: 2.1 Consensus size: 65
835642 AATTTCACAA
* *
835652 AAATGTTTTAAAAAACTATATATTATATA-AGTTTTCAAAATTGTTCT-AAAAACTATATTATAT
1 AAATGTTTTAAAAAACTATATATTATATATA-TTTT-AAAAATGTTCTCAAAAACTATATAATAT
835715 AT
64 AT
* *
835717 AAATGTTTT-CAAAACTATATATTATATATATTTTAAAAATGTTTTCAAAAACTATATAATATAT
1 AAATGTTTTAAAAAACTATATATTATATATATTTTAAAAATGTTCTCAAAAACTATATAATATAT
835781 AAAT
1 AAAT
835785 TTTCGAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
63 9 0.15
64 43 0.69
65 10 0.16
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (65 bp):
AAATGTTTTAAAAAACTATATATTATATATATTTTAAAAATGTTCTCAAAAACTATATAATATAT
Found at i:835973 original size:46 final size:46
Alignment explanation
Indices: 835906--836261 Score: 457
Period size: 46 Copynumber: 7.8 Consensus size: 46
835896 GTGTCTACAA
* *
835906 CATCCTTTCATGCCTATAATGCACCGTTATGCATTTTTATCTATGG
1 CATCCTTTCATGCCTATAATGCACCGTTATGCATTTTCATTTATGG
* * *
835952 CATCCTTTTATTCCTATAATGCACCTTTATGCATTTTCATTTATGG
1 CATCCTTTCATGCCTATAATGCACCGTTATGCATTTTCATTTATGG
* * * *
835998 AATCCTTTCATGCCTATATTGCACCATTATGCATTTTCATTTTTGG
1 CATCCTTTCATGCCTATAATGCACCGTTATGCATTTTCATTTATGG
* ** * *
836044 CATACTTTCATAACGATCATGCACCGTTATGCATTTTCATTTATGG
1 CATCCTTTCATGCCTATAATGCACCGTTATGCATTTTCATTTATGG
* * *
836090 CATCATTTCATCCCTATAATGCACCGTTATGCATTTTCATTTATGA
1 CATCCTTTCATGCCTATAATGCACCGTTATGCATTTTCATTTATGG
* *
836136 CATCCTTTCATG-CTGATCATGCA-CATTATGCATTTT-ATTTATGG
1 CATCCTTTCATGCCT-ATAATGCACCGTTATGCATTTTCATTTATGG
* * *
836180 CATCCTTTCATGTCTGTAATGCACCGTTATGCATTTTCATTTATGA
1 CATCCTTTCATGCCTATAATGCACCGTTATGCATTTTCATTTATGG
* * *
836226 CATCCTTTCATGCCGATAATGTACCATTATGCATTT
1 CATCCTTTCATGCCTATAATGCACCGTTATGCATTT
836262 AGTCTTTTAT
Statistics
Matches: 265, Mismatches: 41, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
44 25 0.09
45 28 0.11
46 212 0.80
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (46 bp):
CATCCTTTCATGCCTATAATGCACCGTTATGCATTTTCATTTATGG
Found at i:836393 original size:82 final size:81
Alignment explanation
Indices: 836256--836517 Score: 335
Period size: 82 Copynumber: 3.2 Consensus size: 81
836246 GTACCATTAT
* * * *
836256 GCATTTAGTCTTTTATCCCAAAGGCGTTTAATCTTTCATCTAATTGGCATTATTGACACCTTTCT
1 GCATTTAGTCTTTTATCTCAAAGGCATTTAACCTTTCATCTAACT-GCATTATTGACACCTTTCT
836321 GCCAAATGCACAGCTAG
65 GCCAAATGCACAGCTAG
* *
836338 GCATTTAGTCTTTTATCTCAAAGTCATTTAACCTTTCATCTAACTGTCATTATTGACACATTTCT
1 GCATTTAGTCTTTTATCTCAAAGGCATTTAACCTTTCATCTAACTG-CATTATTGACACCTTTCT
*
836403 GCCAAATGCACAGCTAT
65 GCCAAATGCACAGCTAG
** * * ** * *
836420 GCATTTTCTCTTTTATTTCAAAGGCCTTTAACCTTTCATAAAACTAGCATTATTGGCACCTTTTT
1 GCATTTAGTCTTTTATCTCAAAGGCATTTAACCTTTCATCTAACT-GCATTATTGACACCTTTCT
* *
836485 GCCAAATTCACAACTAG
65 GCCAAATGCACAGCTAG
*
836502 ACATTTAGTCTTTTAT
1 GCATTTAGTCTTTTAT
836518 TTTGGAACAT
Statistics
Matches: 155, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
81 1 0.01
82 153 0.99
83 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (81 bp):
GCATTTAGTCTTTTATCTCAAAGGCATTTAACCTTTCATCTAACTGCATTATTGACACCTTTCTG
CCAAATGCACAGCTAG
Found at i:836819 original size:23 final size:23
Alignment explanation
Indices: 836789--836836 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
836779 ACATAATAAA
836789 TGCACTCACCTAATATGTTGTAG
1 TGCACTCACCTAATATGTTGTAG
836812 TGCACTCACCTAATATGTTGTAG
1 TGCACTCACCTAATATGTTGTAG
836835 TG
1 TG
836837 ATGTCCAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (23 bp):
TGCACTCACCTAATATGTTGTAG
Found at i:839061 original size:32 final size:32
Alignment explanation
Indices: 839025--839088 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
839015 TCTAACTAAC
*
839025 TCTTTAATTGTTTTTCATGCATATTTCATTTA
1 TCTTTAATTGTTTTCCATGCATATTTCATTTA
839057 TCTTTAATTGTTTTCCATGCATATTTCATTTA
1 TCTTTAATTGTTTTCCATGCATATTTCATTTA
839089 GTTTTGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (32 bp):
TCTTTAATTGTTTTCCATGCATATTTCATTTA
Found at i:840236 original size:11 final size:11
Alignment explanation
Indices: 840214--840249 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
840204 GTTTGATGTT
840214 TTCTCT-TTGA
1 TTCTCTCTTGA
*
840224 TTCTGTCTTGA
1 TTCTCTCTTGA
840235 TTCTCTCTTGA
1 TTCTCTCTTGA
840246 TTCT
1 TTCT
840250 TGTTGATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 5 0.22
11 18 0.78
ACGTcount: A:0.08, C:0.22, G:0.11, T:0.58
Consensus pattern (11 bp):
TTCTCTCTTGA
Found at i:840238 original size:21 final size:21
Alignment explanation
Indices: 840214--840257 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
840204 GTTTGATGTT
840214 TTCTCT-TTGATTCTGTCTTGA
1 TTCTCTCTTGATTCT-TCTTGA
*
840235 TTCTCTCTTGATTCTTGTTGA
1 TTCTCTCTTGATTCTTCTTGA
840256 TT
1 TT
840258 GTTGTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.09, C:0.18, G:0.14, T:0.59
Consensus pattern (21 bp):
TTCTCTCTTGATTCTTCTTGA
Found at i:841222 original size:52 final size:52
Alignment explanation
Indices: 841164--841262 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
841154 AAATTTAAGC
*
841164 AAATCCACATATAT-AGAT-AAGTTCAAATCATCC-AAAAACATCCAAAACATAA
1 AAATCCA-ATAT-TCAGATCAAATTCAAA-CATCCAAAAAACATCCAAAACATAA
* *
841216 AAATCCAATATTCATATCAAATTCAAACATCCAAAAAACATTCAAAA
1 AAATCCAATATTCAGATCAAATTCAAACATCCAAAAAACATCCAAAA
841263 TGTTAAAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
50 1 0.02
51 12 0.29
52 28 0.68
ACGTcount: A:0.55, C:0.21, G:0.02, T:0.22
Consensus pattern (52 bp):
AAATCCAATATTCAGATCAAATTCAAACATCCAAAAAACATCCAAAACATAA
Found at i:843689 original size:13 final size:13
Alignment explanation
Indices: 843668--843703 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
843658 TGTTTTTTCA
*
843668 TTCATAAAACTTG
1 TTCACAAAACTTG
843681 TTCACAAAAACTTG
1 TTCAC-AAAACTTG
843695 TTCACAAAA
1 TTCACAAAA
843704 ACTACCGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (13 bp):
TTCACAAAACTTG
Found at i:843692 original size:14 final size:14
Alignment explanation
Indices: 843673--843706 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
843663 TTTCATTCAT
843673 AAAACTTGTTCACA
1 AAAACTTGTTCACA
843687 AAAACTTGTTCACA
1 AAAACTTGTTCACA
843701 AAAACT
1 AAAACT
843707 ACCGGCTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (14 bp):
AAAACTTGTTCACA
Found at i:852167 original size:17 final size:17
Alignment explanation
Indices: 852147--852219 Score: 51
Period size: 17 Copynumber: 4.3 Consensus size: 17
852137 GGGAAGTAGA
*
852147 TCATTTATACATCTAGT
1 TCATTAATACATCTAGT
*
852164 TCATTGAATACA-CTACT
1 TCATT-AATACATCTAGT
* ** *
852181 TCATTCATGTATTTAGT
1 TCATTAATACATCTAGT
*
852198 TCATTAAT-CAAACTAGT
1 TCATTAATAC-ATCTAGT
852215 TCATT
1 TCATT
852220 TATTAAACTA
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
16 3 0.07
17 34 0.81
18 5 0.12
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.44
Consensus pattern (17 bp):
TCATTAATACATCTAGT
Found at i:852185 original size:34 final size:34
Alignment explanation
Indices: 852147--852240 Score: 84
Period size: 34 Copynumber: 2.8 Consensus size: 34
852137 GGGAAGTAGA
*
852147 TCATTTATACATCTAGTTCATTGAAT-ACACTACT
1 TCATTTATACATCTAGTTCATT-AATCAAACTACT
* ** * *
852181 TCATTCATGTATTTAGTTCATTAATCAAACTAGT
1 TCATTTATACATCTAGTTCATTAATCAAACTACT
* *
852215 TCATTTATTA-AACTAGTGCATTAATC
1 TCATTTA-TACATCTAGTTCATTAATC
852241 TAACCAACTC
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
33 3 0.06
34 43 0.91
35 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (34 bp):
TCATTTATACATCTAGTTCATTAATCAAACTACT
Found at i:852227 original size:17 final size:17
Alignment explanation
Indices: 852194--852240 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
852184 TTCATGTATT
852194 TAGTTCATTAATCAAAC
1 TAGTTCATTAATCAAAC
* *
852211 TAGTTCATTTATTAAAC
1 TAGTTCATTAATCAAAC
*
852228 TAGTGCATTAATC
1 TAGTTCATTAATC
852241 TAACCAACTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (17 bp):
TAGTTCATTAATCAAAC
Found at i:852286 original size:32 final size:32
Alignment explanation
Indices: 852250--852313 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
852240 CTAACCAACT
* *
852250 CTTTAATTGTTTTTCATGCATATTTCATTTAA
1 CTTTAAATGTTTTCCATGCATATTTCATTTAA
852282 CTTTAAATGTTTTCCATGCATATTTCATTTAA
1 CTTTAAATGTTTTCCATGCATATTTCATTTAA
852314 GTTTGAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.53
Consensus pattern (32 bp):
CTTTAAATGTTTTCCATGCATATTTCATTTAA
Found at i:854944 original size:17 final size:17
Alignment explanation
Indices: 854924--854963 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
854914 TTAATTAATT
854924 AAACTAGTTCATTCATC
1 AAACTAGTTCATTCATC
* *
854941 AAACTAGTTCATTTATT
1 AAACTAGTTCATTCATC
854958 AAACTA
1 AAACTA
854964 ACTCTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (17 bp):
AAACTAGTTCATTCATC
Found at i:858157 original size:21 final size:20
Alignment explanation
Indices: 858104--858157 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
858094 AACAATGATC
*
858104 TTGAAAGTAAAATTAAAGAA
1 TTGAAAATAAAATTAAAGAA
* * *
858124 TTGCAAATCAAAATTGAAGATT
1 TTGAAAAT-AAAATTAAAGA-A
858146 TTGAAAATAAAA
1 TTGAAAATAAAA
858158 ATTTCGATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGAAAATAAAATTAAAGAA
Found at i:861642 original size:25 final size:25
Alignment explanation
Indices: 861581--861643 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
861571 CATTTCGCTG
***
861581 AATTTTTAAATAAAATAGGGTTTTT
1 AATTTTTAAATAAAATAGGGTGAGT
*
861606 AA-TTTTGAATAAAATAGTGG-GAGT
1 AATTTTTAAATAAAATAG-GGTGAGT
861630 AATTTTTAAATAAA
1 AATTTTTAAATAAA
861644 GTCCTATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 17 0.55
25 14 0.45
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.41
Consensus pattern (25 bp):
AATTTTTAAATAAAATAGGGTGAGT
Found at i:865007 original size:21 final size:20
Alignment explanation
Indices: 864954--865007 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
864944 AACAATGATC
*
864954 TTGAAAGTAAAATTAAAGAA
1 TTGAAAATAAAATTAAAGAA
* * *
864974 TTGCAAATCAAAATTGAAGATT
1 TTGAAAAT-AAAATTAAAGA-A
864996 TTGAAAATAAAA
1 TTGAAAATAAAA
865008 ATTCCGATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGAAAATAAAATTAAAGAA
Found at i:875609 original size:21 final size:21
Alignment explanation
Indices: 875585--875653 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
875575 GAATCGATAC
875585 CCCCTTGAAGGGGAACCGATT
1 CCCCTTGAAGGGGAACCGATT
*
875606 CCCCCTTTGAATGGGAACCGATT
1 -CCCC-TTGAAGGGGAACCGATT
* * * *
875629 CCCCCTGTAGGGGAATCGATA
1 CCCCTTGAAGGGGAACCGATT
875650 CCCC
1 CCCC
875654 CCTGGGGTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 16 0.40
22 8 0.20
23 16 0.40
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.20
Consensus pattern (21 bp):
CCCCTTGAAGGGGAACCGATT
Found at i:875655 original size:23 final size:22
Alignment explanation
Indices: 875573--875654 Score: 94
Period size: 23 Copynumber: 3.7 Consensus size: 22
875563 TTAGGGCAGA
*
875573 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCTTGAAG
* *
875595 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATACCCCC-TTGAAG
* *
875618 GGGAACCGATTCCCCC-TGTAG
1 GGGAACCGATACCCCCTTGAAG
*
875639 GGGAATCGATACCCCC
1 GGGAACCGATACCCCC
875655 CTGGGGTTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 17 0.33
22 14 0.27
23 21 0.40
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.20
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:875657 original size:22 final size:22
Alignment explanation
Indices: 875573--875657 Score: 82
Period size: 22 Copynumber: 3.9 Consensus size: 22
875563 TTAGGGCAGA
* *
875573 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCCTGAAG
* * *
875595 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATACCCCC-CTGAAG
* *
875618 GGGAACCGAT-TCCCCCTGTAG
1 GGGAACCGATACCCCCCTGAAG
*
875639 GGGAATCGATACCCCCCTG
1 GGGAACCGATACCCCCCTG
875658 GGGTTCTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
21 12 0.23
22 25 0.48
23 15 0.29
ACGTcount: A:0.22, C:0.32, G:0.26, T:0.20
Consensus pattern (22 bp):
GGGAACCGATACCCCCCTGAAG
Found at i:877247 original size:18 final size:18
Alignment explanation
Indices: 877221--877266 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
877211 GAACCAAACT
*
877221 AGCACGAGGAACAAGCACG
1 AGCA-GAGGAACAAGCACA
877240 AGCAGAGGAACAAGCACA
1 AGCAGAGGAACAAGCACA
*
877258 ACCAGAGGA
1 AGCAGAGGA
877267 TCAAATGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.46, C:0.24, G:0.30, T:0.00
Consensus pattern (18 bp):
AGCAGAGGAACAAGCACA
Found at i:883289 original size:41 final size:41
Alignment explanation
Indices: 883232--883370 Score: 251
Period size: 41 Copynumber: 3.4 Consensus size: 41
883222 CTATCGCAAA
* *
883232 TTCGCGTTGCGATAGTTGAAAATCGTGTTACGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
883273 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
*
883314 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCTAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
883355 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
883371 CTACAGTTGT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
Found at i:883298 original size:21 final size:21
Alignment explanation
Indices: 883233--883347 Score: 108
Period size: 21 Copynumber: 5.6 Consensus size: 21
883223 TATCGCAAAT
883233 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * * ** **
883254 TCGTGTTACGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
883274 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
883295 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
883315 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
883336 TCGCGTTGCGAT
1 TCGCGTTGCGAT
883348 TTTCTATTTC
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:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:883320 original size:20 final size:20
Alignment explanation
Indices: 883262--883367 Score: 95
Period size: 20 Copynumber: 5.2 Consensus size: 20
883252 AATCGTGTTA
*
883262 CGATTTTCCATTTCGCGTTG
1 CGATTTTCAATTTCGCGTTG
* * **
883282 CGATAGTTGAAAATCGCGTTG
1 CGAT-TTTCAATTTCGCGTTG
*
883303 CGATTTTCCATTTCGCGTTG
1 CGATTTTCAATTTCGCGTTG
* * **
883323 CGATAGTTGAAAATCGCGTTG
1 CGAT-TTTCAATTTCGCGTTG
*
883344 CGATTTTCTATTTCGCGTTG
1 CGATTTTCAATTTCGCGTTG
883364 CGAT
1 CGAT
883368 AGTCTACAGT
Statistics
Matches: 64, Mismatches: 20, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
20 34 0.53
21 30 0.47
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.39
Consensus pattern (20 bp):
CGATTTTCAATTTCGCGTTG
Found at i:883404 original size:19 final size:19
Alignment explanation
Indices: 883380--883425 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
883370 TCTACAGTTG
883380 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
*
883399 TCGTTGTGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
883418 TCGTTGCG
1 TCGTTGCG
883426 GTAGTCTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:883404 original size:82 final size:82
Alignment explanation
Indices: 883236--883489 Score: 250
Period size: 82 Copynumber: 3.1 Consensus size: 82
883226 CGCAAATTCG
* * * * *
883236 CGTTGCGATAGTTGAAAATCGTGTTACGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-C
1 CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCTATTTCGCGTTGCGATAGTCT-AAAGTTGTC
*
883299 GTTGCGATTTTCC-ATTT
65 GTTGCGATTTTCCAAATT
*
883316 CGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCTATTTCGCGTTGCGATAGTCTACAGTTGT
1 --CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCTATTTCGCGTTGCGATAGTCTAAAGTTGT
883381 CGTTGCGATTTTCCAAATT
64 CGTTGCGATTTTCCAAATT
* * ** * * ** * * *
883400 CGTTGTGAT-TTTCCAAAT-TCGTTGCGGTAGTCTACAGTT-GTTGTTGCGATAGTCTATAGTTG
1 CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCT--ATTTCG-CGTTGCGATAGTCTAAAGTTG
883462 TCGTTGCGATTTTCCAAATT
63 TCGTTGCGATTTTCCAAATT
883482 CGTTGCGA
1 CGTTGCGA
883490 AAATTCATTG
Statistics
Matches: 147, Mismatches: 19, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
80 11 0.07
81 7 0.05
82 111 0.76
83 15 0.10
84 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (82 bp):
CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCTATTTCGCGTTGCGATAGTCTAAAGTTGTCG
TTGCGATTTTCCAAATT
Found at i:883445 original size:22 final size:22
Alignment explanation
Indices: 883418--883471 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
883408 TTTTCCAAAT
*
883418 TCGTTGCGGTAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
* *
883440 TTGTTGCGATAGTCTATAGTTG
1 TCGTTGCGATAGTCTACAGTTG
883462 TCGTTGCGAT
1 TCGTTGCGAT
883472 TTTCCAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:883593 original size:6 final size:6
Alignment explanation
Indices: 883582--883640 Score: 81
Period size: 6 Copynumber: 10.5 Consensus size: 6
883572 GACACGTGTT
*
883582 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG A-CTCG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
883628 ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACC
883641 CGAGACGGAC
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
4 1 0.02
5 16 0.31
6 34 0.67
ACGTcount: A:0.29, C:0.53, G:0.17, T:0.02
Consensus pattern (6 bp):
ACCACG
Found at i:884317 original size:22 final size:22
Alignment explanation
Indices: 884292--884341 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
884282 TGGAAAATCG
884292 CAACGACAACTGTAGACTATCA
1 CAACGACAACTGTAGACTATCA
* *
884314 CAACAACAACTGTAGACTATCG
1 CAACGACAACTGTAGACTATCA
884336 CAACGA
1 CAACGA
884342 ATTTGGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.16
Consensus pattern (22 bp):
CAACGACAACTGTAGACTATCA
Found at i:884342 original size:63 final size:60
Alignment explanation
Indices: 884270--884420 Score: 178
Period size: 60 Copynumber: 2.5 Consensus size: 60
884260 CAACGAATTT
**
884270 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCACAACAACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACG--AA-TGTAGAAAATCACAACAACAACTGTAGACTA
* * * * *
884333 TCGCAACGAATTTGGAAAATCGCAACGAATTTGGAAAATTACTACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGAATGTAGAAAATCACAACAACAACTGTAGACTA
*
884393 TCGCAACGCGAA-ATGGAAAATCGCAACG
1 TCGCAA--CGAATTTGGAAAATCGCAACG
884421 CGATTTTCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
60 30 0.38
61 17 0.22
62 4 0.05
63 27 0.35
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (60 bp):
TCGCAACGAATTTGGAAAATCGCAACGAATGTAGAAAATCACAACAACAACTGTAGACTA
Found at i:884354 original size:19 final size:19
Alignment explanation
Indices: 884332--884371 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
884322 ACTGTAGACT
884332 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
884351 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
884370 AT
1 AT
884372 TACTACGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:884452 original size:21 final size:21
Alignment explanation
Indices: 884389--884452 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
884379 ACAACTGTAG
*
884389 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
884410 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
884430 ACTATCGTAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
884451 AC
1 AC
884453 GCAAATTTGC
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:888438 original size:18 final size:20
Alignment explanation
Indices: 888412--888452 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
888402 TAAAAAAATG
888412 TTTTGATTTAA-T-TGTTGT
1 TTTTGATTTAATTATGTTGT
*
888430 TTTTTATTTAATTATGTTGT
1 TTTTGATTTAATTATGTTGT
888450 TTT
1 TTT
888453 CATGAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 1 0.05
20 9 0.45
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (20 bp):
TTTTGATTTAATTATGTTGT
Found at i:890044 original size:33 final size:33
Alignment explanation
Indices: 890014--890101 Score: 131
Period size: 33 Copynumber: 2.7 Consensus size: 33
890004 TGAACAATAC
890014 CGTGAACAGTGTACCGATGCACTGCTACAATGA
1 CGTGAACAGTGTACCGATGCACTGCTACAATGA
* * * *
890047 CATGAATAGTGTACCGATGCACTGCTATAGTGA
1 CGTGAACAGTGTACCGATGCACTGCTACAATGA
*
890080 CGTGAACAGTATACCGATGCAC
1 CGTGAACAGTGTACCGATGCAC
890102 AAAAACATCG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (33 bp):
CGTGAACAGTGTACCGATGCACTGCTACAATGA
Found at i:891075 original size:64 final size:64
Alignment explanation
Indices: 890990--891213 Score: 218
Period size: 64 Copynumber: 3.5 Consensus size: 64
890980 TGTTTGAATG
* ** ** *
890990 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATTCAATTC
1 TGCATCGATGCATAAGTAGTGCATCGATGCATC-CAATTAATAATAAA-ACATCGAATGCAATTC
891053 A
64 A
* **
891054 TGCATCGATGCATAAGTAGTGCATCGATGCATCCAATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAAGTAGTGCATCGATGCATCCAATTAATAATAAAACATCGAATGCAATTCA
* * * *** * * ** *
891118 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGTAATAATACTGCATCAAATACCTTTTA
1 TGCATCGATGCATAAGTAGTGCATCGATGCATCCAATTAATAATAAAACATCGAATGCAATTCA
* *
891182 TGCACCGATGCATCAGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAGTAGTGCATCGATGCAT
891214 ACCTTCATTA
Statistics
Matches: 133, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
64 127 0.95
65 6 0.05
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (64 bp):
TGCATCGATGCATAAGTAGTGCATCGATGCATCCAATTAATAATAAAACATCGAATGCAATTCA
Found at i:891789 original size:31 final size:31
Alignment explanation
Indices: 891722--891883 Score: 243
Period size: 31 Copynumber: 5.2 Consensus size: 31
891712 AGAGTCGAGG
* *
891722 GTTTACATATGTTTAAAGACACACATATGAATA
1 GTTTACATATGTTTAAAG--GCACATATGAACA
*
891755 GTTTACATATGTTTAAAGGCATATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
891786 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
891817 GTTTATATATGTTTAAAGGAACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
891848 GTCTACATATGTTTAAAGGCATATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
891879 GTTTA
1 GTTTA
891884 TATTGTGACC
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
31 100 0.85
33 18 0.15
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:894985 original size:64 final size:64
Alignment explanation
Indices: 894900--895123 Score: 238
Period size: 64 Copynumber: 3.5 Consensus size: 64
894890 TGTTTGAATG
** **
894900 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTC
1 TGCACCGATGCATAAGTAGTGCATCGATGCATC-CCATTAACAAT-AATACATCGAATGCAATTC
894963 A
64 A
* **
894964 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAACAATGAA-ACATCGAATGCAATTGG
1 TGCACCGATGCATAAGTAGTGCATCGATGCATCCCATTAACAAT-AATACATCGAATGCAATTCA
* * * * * * * ** *
895028 TGCATCGATGCATAAGGAGTGCATCGATACATCCCAGTAATAATACTACATCGAATACCTTTTA
1 TGCACCGATGCATAAGTAGTGCATCGATGCATCCCATTAACAATAATACATCGAATGCAATTCA
*
895092 TGCACCGATGCATCAGTAGTGCATCGATGCAT
1 TGCACCGATGCATAAGTAGTGCATCGATGCAT
895124 ACCTTCATTA
Statistics
Matches: 135, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
63 1 0.01
64 128 0.95
65 6 0.04
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (64 bp):
TGCACCGATGCATAAGTAGTGCATCGATGCATCCCATTAACAATAATACATCGAATGCAATTCA
Found at i:895671 original size:31 final size:31
Alignment explanation
Indices: 895633--895815 Score: 303
Period size: 31 Copynumber: 5.9 Consensus size: 31
895623 GAGTCGAGGG
*
895633 TTTACATATGTTTAAAGGCACATATAAACAA
1 TTTACATATGTTTAAAGGCACATATGAACAA
*
895664 TTTACATATGTTTAAAGGCATATATGAACAA
1 TTTACATATGTTTAAAGGCACATATGAACAA
895695 TTTACATATGTTTAAAGGCACATATGAACAA
1 TTTACATATGTTTAAAGGCACATATGAACAA
*
895726 TTTACATATGTTTAAAGGCACATATGAACAG
1 TTTACATATGTTTAAAGGCACATATGAACAA
* *
895757 TTTATATATGTTTAAAGGCACATATGAACAG
1 TTTACATATGTTTAAAGGCACATATGAACAA
* *
895788 TCTACATATGTTTAAAGGCACATGTGAA
1 TTTACATATGTTTAAAGGCACATATGAA
895816 TAGTTTATAT
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 144 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (31 bp):
TTTACATATGTTTAAAGGCACATATGAACAA
Found at i:896833 original size:45 final size:45
Alignment explanation
Indices: 896759--896873 Score: 167
Period size: 45 Copynumber: 2.5 Consensus size: 45
896749 CTTATCAGTT
* * *
896759 TTCCTATAAGTTCGTAAGCTTATTCTACCAATATACTTACCATTTA
1 TTCC-ATAAGCTCGTAAGCTTATTTTACCAATACACTTACCATTTA
* *
896805 TTCCATAAGCTCGTAAGCCTATTTTACCAATACACTTACCATTTG
1 TTCCATAAGCTCGTAAGCTTATTTTACCAATACACTTACCATTTA
*
896850 TTCCATAAGCTCATAAGCTTATTT
1 TTCCATAAGCTCGTAAGCTTATTT
896874 GCATGGTTAC
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 58 0.94
46 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (45 bp):
TTCCATAAGCTCGTAAGCTTATTTTACCAATACACTTACCATTTA
Found at i:897038 original size:40 final size:40
Alignment explanation
Indices: 896978--897139 Score: 279
Period size: 40 Copynumber: 4.0 Consensus size: 40
896968 ACCGTAGTGC
896978 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
897018 TACACATAAGGTCGTACCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
897058 TACACATAAGGTCGTGCCCACCATATACACCGATGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* * *
897098 TACACATATGGTCGTGCCCACCATATACACTGAATTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
897138 TA
1 TA
897140 TAAACCTGTA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:910732 original size:14 final size:14
Alignment explanation
Indices: 910713--910742 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
910703 ATTTATGAAC
910713 AAATATTATTTTAT
1 AAATATTATTTTAT
910727 AAATATTATTTTAT
1 AAATATTATTTTAT
910741 AA
1 AA
910743 TCACATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AAATATTATTTTAT
Found at i:914094 original size:3 final size:3
Alignment explanation
Indices: 914088--914129 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
914078 TATTTATTAT
914088 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
914130 ATGGGCAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:914356 original size:39 final size:39
Alignment explanation
Indices: 914308--914805 Score: 503
Period size: 39 Copynumber: 12.9 Consensus size: 39
914298 AGGTTCAATA
* * * *
914308 AGTTCTTCAGAGTATGAACTTCTTCTTCCTCTTCAAATG
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGACG
* * * * * *
914347 CGTTTTTCAGATTATGAACTTCTTCTTCCTCTTAATATG
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGACG
* * *
914386 AGTTCCTCAGACTATGAAC-TCATTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTTC-TTTTTCCTCTTCAGACG
* * *
914425 AGTTCTTCAGATTATGAAC-TCATTTTTCATCTTTAGACA
1 AGTTCTTCAGATTATGAACTTC-TTTTTCCTCTTCAGACG
* * *
914464 AGTTTTTCAGA-T-TGAACTCCTTTTTCCT-TT-AGATG
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGACG
* *
914499 AGTTCTTCAGATTATGAACTCCTTTTTTCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGACG
* * *
914538 AGTTTTTCATATTATGAAC-TCTTTTTCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGACG
* * * *
914576 ATTTCTTCAGATTATGGACCTCTTCTT-C-CTTCAGACG
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGACG
* *
914613 AGTTCTTCATATTATGAA-TTCTTTTTTACTCTTCAGACG
1 AGTTCTTCAGATTATGAACTTC-TTTTTCCTCTTCAGACG
* *
914652 AGTTCTTCAGATTATGAACTCCTTTTTCATCTTCAGACG
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGACG
* * * *
914691 AATTCTTCAGATTATGAACTCCTTTTTCCTCTTTAGATG
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGACG
* ** *
914730 AGTTCTTCAGATTATGAACTCCTCCTTCCTCTTCAGACA
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGACG
* * * *
914769 AATTATTCAGATTATGAACTCCTTTTTTCTCTTCAGA
1 AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGA
914806 TTATGAACTC
Statistics
Matches: 387, Mismatches: 61, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
35 13 0.03
36 5 0.01
37 54 0.14
38 39 0.10
39 274 0.71
40 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (39 bp):
AGTTCTTCAGATTATGAACTTCTTTTTCCTCTTCAGACG
Found at i:914826 original size:26 final size:26
Alignment explanation
Indices: 914774--914829 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
914764 AGACAAATTA
**
914774 TTCAGATTATGAACTCCTTTTTTCTC
1 TTCAGATTATGAACTCCTTTTGCCTC
914800 TTCAGATTATGAACT-CTTTCTGCCTC
1 TTCAGATTATGAACTCCTTT-TGCCTC
914826 TTCA
1 TTCA
914830 AACTAGTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.46
Consensus pattern (26 bp):
TTCAGATTATGAACTCCTTTTGCCTC
Found at i:915589 original size:3 final size:3
Alignment explanation
Indices: 915583--915631 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
915573 TATTTATTAT
*
915583 TAA TAA TAA TAA T-A TAA TAA TAA TAC TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
915629 TAA
1 TAA
915632 ATGGGCAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:915605 original size:17 final size:18
Alignment explanation
Indices: 915583--915631 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
915573 TATTTATTAT
915583 TAATAATAATAAT-ATAA
1 TAATAATAATAATAATAA
*
915600 TAATAATACTAATAAT-A
1 TAATAATAATAATAATAA
915617 TAATAATAATAATAA
1 TAATAATAATAATAA
915632 ATGGGCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 27 0.93
18 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATAATAATAATAATAA
Found at i:915612 original size:20 final size:20
Alignment explanation
Indices: 915583--915631 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
915573 TATTTATTAT
915583 TAATAATAATAATATAATAA
1 TAATAATAATAATATAATAA
*
915603 TAATACTAATAATATAATAA
1 TAATAATAATAATATAATAA
915623 TAATAATAA
1 TAATAATAA
915632 ATGGGCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TAATAATAATAATATAATAA
Found at i:915858 original size:39 final size:39
Alignment explanation
Indices: 915810--916314 Score: 623
Period size: 39 Copynumber: 12.9 Consensus size: 39
915800 AGGTTCAATA
* * * * *
915810 AGTTCTTCAGAGTATGAACTTCTTCTTCCTCTTCAAATG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* * * * * * *
915849 CGTTTTTCAGATTATGAACTTCTTCTTCCTCTTAATATG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* * * *
915888 AGTTCCTCAGACTATGAACTCATTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* * * *
915927 AGTTCTTCAGATTATGAACTCATTTTTCATCTTTAGACA
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* *
915966 AGTTTTTCAGATTATGAACTCCTTTTTCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
*
916005 AGTTCTTCAGATTATGAACTCCTTTTTTCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* *
916044 AGTTCTTCAGATTATGAACTCTTTTTTCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* * * *
916083 ATTTCTTCAGATTATGGACTCCTTCTTCCTTTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* * * *
916122 AGTTCTTCATATTATGAATTCTTTTTTACTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
*
916161 AGTTCTTCAGATTATGAACTCCTTTTTCATCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* * *
916200 AATTCTTCAGATTATGAACTCCTTTTTCCTCTTTAGATG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
** *
916239 AGTTCTTCAGATTATGAACTCCTCCTTCCTCTTCAGACA
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* * *
916278 AATTATTCAGATTATGAACTCCTTTTTTCTCTTCAGA
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGA
916315 TTATGAACTC
Statistics
Matches: 400, Mismatches: 66, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 400 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (39 bp):
AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
Found at i:916021 original size:117 final size:115
Alignment explanation
Indices: 915810--916525 Score: 767
Period size: 117 Copynumber: 6.2 Consensus size: 115
915800 AGGTTCAATA
* * * * * * *
915810 AGTTCTTCAGAGTATGAACTTCTTCTTCCTCTTCAAATGC-GTTTTTCAGATTATGAACTTCTTC
1 AGTTCTTCAGATTATGAACTCCTT-TTTCTCTTCAGA--CAATTTTTCAGATTATGAACTCCTTT
* * * * *
915874 TTCCTCTTAATATGAGTTCCTCAGACTATGAACTCATTCTTCCTCTTCAGACG
63 TTCCTCTTCAGATGAGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* *
915927 AGTTCTTCAGATTATGAACTCATTTTTCATCTTTAGACAAGTTTTTCAGATTATGAACTCCTTTT
1 AGTTCTTCAGATTATGAACTCCTTTTTC-TCTTCAGACAA-TTTTTCAGATTATGAACTCCTTTT
* *
915992 TCCTCTTCAGATGAGTTCTTCAGATTATGAACTCCTTTTTTCTCTTCAGACG
64 TCCTCTTCAGATGAGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* ** * *
916044 AGTTCTTCAGATTATGAACTCTTTTTTCCTCTTCAGATGATTTCTTCAGATTATGGACTCCTTCT
1 AGTTCTTCAGATTATGAACTCCTTTTT-CTCTTCAGACAATTT-TTCAGATTATGAACTCCTTTT
* * * * * * *
916109 TCCTTTTCAGACGAGTTCTTCATATTATGAATTCTTTTTTACTCTTCAGACG
64 TCCTCTTCAGATGAGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
*
916161 AGTTCTTCAGATTATGAACTCCTTTTTCATCTTCAGACGAATTCTTCAGATTATGAACTCCTTTT
1 AGTTCTTCAGATTATGAACTCCTTTTTC-TCTTCAGAC-AATTTTTCAGATTATGAACTCCTTTT
* * *
916226 TCCTCTTTAGATGAGTTCTTCAGATTATGAACTCCTCCTTCCTCTTCAGACA
64 TCCTCTTCAGATGAGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * *
916278 AATTATTCAGATTATGAACTCCTTTTT-TC-T----C-----TTCAGATTATGAACT-CTTTCTG
1 AGTTCTTCAGATTATGAACTCCTTTTTCTCTTCAGACAATTTTTCAGATTATGAACTCCTTT-TT
* * * *
916331 CCTCTTCAAACT-AGTTCTTCAAATTATGAACTCCTTCTGCCTCTTCAGATG
65 CCTCTTCAGA-TGAGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
916382 AGTTCTTCAGATTATGAACTCATTTTTTTCTCTTCAGACGAGTTCTTCAGATTATGAACACCTTT
1 AGTTCTTCAGATTATGAACTC--CTTTTTCTCTTCAGAC-AATTTTTCAGATTATGAACTCCTTT
* * * * *
916447 TTCCTCTTCAGACGAGTTCTTCAAATTATGAACTCCTTTTTTCTCTTCGGACG
63 TTCCTCTTCAGATGAGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
*
916500 AGTTATTCAGATTATGAACTCCTTTT
1 AGTTCTTCAGATTATGAACTCCTTTT
916526 GGAAATGTTT
Statistics
Matches: 506, Mismatches: 68, Indels: 51
0.81 0.11 0.08
Matches are distributed among these distances:
103 4 0.01
104 77 0.15
105 1 0.00
106 5 0.01
107 2 0.00
108 1 0.00
110 1 0.00
112 1 0.00
114 1 0.00
115 3 0.01
116 11 0.02
117 313 0.62
118 82 0.16
119 4 0.01
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.43
Consensus pattern (115 bp):
AGTTCTTCAGATTATGAACTCCTTTTTCTCTTCAGACAATTTTTCAGATTATGAACTCCTTTTTC
CTCTTCAGATGAGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
Found at i:916315 original size:65 final size:65
Alignment explanation
Indices: 916242--916380 Score: 179
Period size: 65 Copynumber: 2.1 Consensus size: 65
916232 TTAGATGAGT
* * * * **
916242 TCTTCAGATTATGAACTCCTCCTTCCTCTTCAGACAAATTATTCAGATTATGAACTCCTTTTTTC
1 TCTTCAGATTATGAACTCCTCCTGCCTCTTCAAACAAATTATTCAAATTATGAACTCCTTCTGCC
* * * * *
916307 TCTTCAGATTATGAACTCTTTCTGCCTCTTCAAACTAGTTCTTCAAATTATGAACTCCTTCTGCC
1 TCTTCAGATTATGAACTCCTCCTGCCTCTTCAAACAAATTATTCAAATTATGAACTCCTTCTGCC
916372 TCTTCAGAT
1 TCTTCAGAT
916381 GAGTTCTTCA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.24, C:0.27, G:0.09, T:0.41
Consensus pattern (65 bp):
TCTTCAGATTATGAACTCCTCCTGCCTCTTCAAACAAATTATTCAAATTATGAACTCCTTCTGCC
Found at i:916335 original size:26 final size:26
Alignment explanation
Indices: 916283--916338 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
916273 AGACAAATTA
**
916283 TTCAGATTATGAACTCCTTTTTTCTC
1 TTCAGATTATGAACTCCTTTTGCCTC
916309 TTCAGATTATGAACT-CTTTCTGCCTC
1 TTCAGATTATGAACTCCTTT-TGCCTC
916335 TTCA
1 TTCA
916339 AACTAGTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.46
Consensus pattern (26 bp):
TTCAGATTATGAACTCCTTTTGCCTC
Found at i:916347 original size:104 final size:105
Alignment explanation
Indices: 916203--916419 Score: 296
Period size: 104 Copynumber: 2.1 Consensus size: 105
916193 TCAGACGAAT
* * * * *
916203 TCTTCAGATTATGAACTCCTTTTTCCTCTTTAGATGAGTTCTTCAGATTATGAACTCCTCCTTCC
1 TCTTCAGATTATGAACTCCTTTTGCCTCTTCAAATGAGTTCTTCAAATTATGAACTCCTCCTGCC
916268 TCTTCAGACAAATTATTCAGATTATGAACTC-CTTTTTTC
66 TCTTCAGACAAATTATTCAGATTATGAACTCACTTTTTTC
*
916307 TCTTCAGATTATGAACT-CTTTCTGCCTCTTCAAACT-AGTTCTTCAAATTATGAACTCCTTCTG
1 TCTTCAGATTATGAACTCCTTT-TGCCTCTTCAAA-TGAGTTCTTCAAATTATGAACTCCTCCTG
** * * *
916370 CCTCTTCAGATGAGTTCTTCAGATTATGAACTCATTTTTTTC
64 CCTCTTCAGACAAATTATTCAGATTATGAACTCACTTTTTTC
916412 TCTTCAGA
1 TCTTCAGA
916420 CGAGTTCTTC
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
103 4 0.04
104 79 0.80
105 16 0.16
ACGTcount: A:0.23, C:0.24, G:0.10, T:0.43
Consensus pattern (105 bp):
TCTTCAGATTATGAACTCCTTTTGCCTCTTCAAATGAGTTCTTCAAATTATGAACTCCTCCTGCC
TCTTCAGACAAATTATTCAGATTATGAACTCACTTTTTTC
Done.