Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_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: 2854393
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 15
Found at i:1761899 original size:30 final size:28
Alignment explanation
Indices: 1761836--1761908 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 28
1761826 TTTAAATACC
1761836 TATTTTGA-CATAAAATACTTTAGATATT
1 TATTTTGATCA-AAAATACTTTAGATATT
*
1761864 AATTTTGATCAAAAGATAACTTTA-AGTATT
1 TATTTTGATCAAAA-AT-ACTTTAGA-TATT
*
1761894 TATTTTGATAAAAAA
1 TATTTTGATCAAAAA
1761909 ATATTTGAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 10 0.26
29 6 0.16
30 22 0.58
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.42
Consensus pattern (28 bp):
TATTTTGATCAAAAATACTTTAGATATT
Found at i:1761920 original size:29 final size:30
Alignment explanation
Indices: 1761847--1761911 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
1761837 ATTTTGACAT
*
1761847 AAAAT-ACTTT-AGATATTAATTTTGATCAA
1 AAAATAACTTTAAG-TATTAATTTTGATAAA
* *
1761876 AAGATAACTTTAAGTATTTATTTTGATAAA
1 AAAATAACTTTAAGTATTAATTTTGATAAA
1761906 AAAATA
1 AAAATA
1761912 TTTGAAGTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 4 0.13
30 24 0.80
31 2 0.07
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (30 bp):
AAAATAACTTTAAGTATTAATTTTGATAAA
Found at i:1763206 original size:29 final size:29
Alignment explanation
Indices: 1763164--1763223 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
1763154 CTACAGTGGT
1763164 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1763193 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1763222 CT
1 CT
1763224 GTGTGTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.13, C:0.32, G:0.37, T:0.18
Consensus pattern (29 bp):
CTTGGAGGTCGCCATGGCATCCGGGCGAC
Found at i:1763268 original size:18 final size:18
Alignment explanation
Indices: 1763245--1763281 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1763235 AGAATAGGGC
1763245 CATGCAATCAACATGGGA
1 CATGCAATCAACATGGGA
1763263 CATGCAATCAACATGGGA
1 CATGCAATCAACATGGGA
1763281 C
1 C
1763282 GTGGGAATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (18 bp):
CATGCAATCAACATGGGA
Found at i:1763311 original size:44 final size:44
Alignment explanation
Indices: 1763263--1763354 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
1763253 CAACATGGGA
1763263 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
1763307 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
1763351 CATG
1 CATG
1763355 GGGTGAGAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.27, C:0.14, G:0.42, T:0.16
Consensus pattern (44 bp):
CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
Found at i:1763387 original size:65 final size:66
Alignment explanation
Indices: 1763313--1763439 Score: 220
Period size: 65 Copynumber: 1.9 Consensus size: 66
1763303 GATGCATGCA
1763313 ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGG-GTGAGAATGCATGGGGGAGG
1 ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGGAGTGAGAATGCATGGGGGAGG
1763377 G
66 G
* *
1763378 ATCAACATGGGATGTGGGAATGCATGGGGGAGGGGATGCATGGGACGTGGGAATGCATGGGG
1 ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGGA-GTGAGAATGCATGGGG
1763440 TGGGAATGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
65 43 0.74
67 15 0.26
ACGTcount: A:0.24, C:0.09, G:0.50, T:0.17
Consensus pattern (66 bp):
ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGGAGTGAGAATGCATGGGGGAGG
G
Found at i:1763434 original size:82 final size:83
Alignment explanation
Indices: 1763328--1763504 Score: 225
Period size: 82 Copynumber: 2.2 Consensus size: 83
1763318 CATGGGACGT
* * *
1763328 GGGAATGCATGGG-GGAGGGGATGCATGGGGTGAGAATGCATGGGGGA-GGGAT-CAACATGGGA
1 GGGAATGCATGGGACGTGGGAATGCATGGGGTGAGAATGCATGGGGGAGGGGATGCAACATGGGA
*
1763390 TGTGGGAATGCATGGGGGA
66 CGTGGGAATGCAT-GGGGA
* * *** *
1763409 GGGGATGCATGGGACGTGGGAATGCATGGGGTGGGAATGCATGGGGGAGGGGATGGTGCATTGGA
1 GGGAATGCATGGGACGTGGGAATGCATGGGGTGAGAATGCATGGGGGAGGGGATGCAACATGGGA
*
1763474 CGTGGGAATGCATGGGGT
66 CGTGGGAATGCATGGGGA
1763492 GGGAATGCATGGG
1 GGGAATGCATGGG
1763505 GGAGGGGATG
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 12 0.15
82 30 0.37
83 21 0.26
84 18 0.22
ACGTcount: A:0.22, C:0.08, G:0.53, T:0.18
Consensus pattern (83 bp):
GGGAATGCATGGGACGTGGGAATGCATGGGGTGAGAATGCATGGGGGAGGGGATGCAACATGGGA
CGTGGGAATGCATGGGGA
Found at i:1763490 original size:51 final size:51
Alignment explanation
Indices: 1763391--1763532 Score: 254
Period size: 51 Copynumber: 2.8 Consensus size: 51
1763381 AACATGGGAT
*
1763391 GTGGGAATGCATGGGGGAGGGGA---TGCATGGGACGTGGGAATGCATGGG
1 GTGGGAATGCATGGGGGAGGGGATGGTGCATTGGACGTGGGAATGCATGGG
1763439 GTGGGAATGCATGGGGGAGGGGATGGTGCATTGGACGTGGGAATGCATGGG
1 GTGGGAATGCATGGGGGAGGGGATGGTGCATTGGACGTGGGAATGCATGGG
1763490 GTGGGAATGCATGGGGGAGGGGATGGTGCATTGGACGTGGGAA
1 GTGGGAATGCATGGGGGAGGGGATGGTGCATTGGACGTGGGAA
1763533 CTGTGCATGG
Statistics
Matches: 90, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
48 23 0.26
51 67 0.74
ACGTcount: A:0.20, C:0.08, G:0.54, T:0.18
Consensus pattern (51 bp):
GTGGGAATGCATGGGGGAGGGGATGGTGCATTGGACGTGGGAATGCATGGG
Found at i:1763495 original size:15 final size:15
Alignment explanation
Indices: 1763326--1763505 Score: 128
Period size: 15 Copynumber: 11.1 Consensus size: 15
1763316 AACATGGGAC
1763326 GTGGGAATGCATGGGG
1 GTGGGAATGCAT-GGG
* *
1763342 GAGGGGATGCATGGG
1 GTGGGAATGCATGGG
*
1763357 GTGAGAATGCATGGG
1 GTGGGAATGCATGGG
* *
1763372 G-GAGGGATCAACATGGG
1 GTG-GGAAT--GCATGGG
1763389 ATGTGGGAATGCATGGGG
1 --GTGGGAATGCAT-GGG
* *
1763407 GAGGGGATGCATGGG
1 GTGGGAATGCATGGG
1763422 ACGTGGGAATGCATGGG
1 --GTGGGAATGCATGGG
1763439 GTGGGAATGCATGGGG
1 GTGGGAATGCAT-GGG
* * *
1763455 GAGGGGATGGTGCATTGGAC
1 G-TGGGA--ATGCA-TGG-G
1763475 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
1763490 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
1763505 G
1 G
1763506 GAGGGGATGG
Statistics
Matches: 129, Mismatches: 20, Indels: 31
0.72 0.11 0.17
Matches are distributed among these distances:
14 1 0.01
15 50 0.39
16 27 0.21
17 30 0.23
18 3 0.02
19 15 0.12
20 3 0.02
ACGTcount: A:0.22, C:0.08, G:0.53, T:0.18
Consensus pattern (15 bp):
GTGGGAATGCATGGG
Found at i:1763646 original size:32 final size:32
Alignment explanation
Indices: 1763605--1763668 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1763595 AAGGTCCTGC
1763605 TGCATGCATGCGTTGCATCATAGCTCATAGCT
1 TGCATGCATGCGTTGCATCATAGCTCATAGCT
1763637 TGCATGCATGCGTTGCATCATAGCTCATAGCT
1 TGCATGCATGCGTTGCATCATAGCTCATAGCT
1763669 CAGAGATTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (32 bp):
TGCATGCATGCGTTGCATCATAGCTCATAGCT
Found at i:1764026 original size:21 final size:21
Alignment explanation
Indices: 1763978--1764026 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1763968 ACTAAAATCT
*
1763978 AGTTAATTAGTTTGTTAGTATA
1 AGTT-ATTAGTTTGTAAGTATA
* *
1764000 AATTATTAGTTTGTAAGTTTA
1 AGTTATTAGTTTGTAAGTATA
1764021 AGTTAT
1 AGTTAT
1764027 ATTATATTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (21 bp):
AGTTATTAGTTTGTAAGTATA
Found at i:1764036 original size:28 final size:30
Alignment explanation
Indices: 1764003--1764065 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
1763993 TAGTATAAAT
*
1764003 TATTAGTTTGTAAGTTTAAG-T-TATATTA
1 TATTAGTTTATAAGTTTAAGTTATATATTA
*
1764031 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATAAGTTTAAGTTATATATTA
1764061 TATTA
1 TATTA
1764066 TATAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 18 0.58
29 1 0.03
30 12 0.39
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (30 bp):
TATTAGTTTATAAGTTTAAGTTATATATTA
Found at i:1764615 original size:20 final size:21
Alignment explanation
Indices: 1764571--1764615 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1764561 AAATATTGTG
**
1764571 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
1764592 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
1764612 TTTA
1 TTTA
1764616 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:1764901 original size:26 final size:25
Alignment explanation
Indices: 1764872--1764930 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
1764862 AAATCATATT
*
1764872 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
1764898 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
1764924 ATTATTA
1 ATTATTA
1764931 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:1767836 original size:26 final size:26
Alignment explanation
Indices: 1767807--1768301 Score: 371
Period size: 26 Copynumber: 20.2 Consensus size: 26
1767797 TTTGATGATT
1767807 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
1767833 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* *
1767859 TAATAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* *
1767881 TA--AAT-ATTTAATGAACAAAT-ATT-
1 TAGTAATGATTTGAT-AA-TAATCATTA
1767904 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
1767930 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
1767956 TAATAATGATTT-ATTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
1767982 TAAAAATGATTTAATAATAAT--TTA
1 TAGTAATGATTTGATAATAATCATTA
* * * * * * *
1768006 -AATATTTA-ATGAT-TTGATGATT-
1 TAGTAATGATTTGATAATAATCATTA
1768028 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
1768054 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* *
1768080 TAATAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
1768102 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
1768126 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
1768152 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
1768178 TAATAATGATTT-AGTAAT-A--ATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
1768201 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
1768223 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
1768247 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* * *
1768273 TAATAATGATTTTATAATAATTATT-
1 TAGTAATGATTTGATAATAATCATTA
1768298 TAGT
1 TAGT
1768302 TATTATTTAG
Statistics
Matches: 388, Mismatches: 41, Indels: 81
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.01
20 19 0.05
21 4 0.01
22 14 0.04
23 56 0.14
24 31 0.08
25 36 0.09
26 212 0.55
27 13 0.03
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:1767944 original size:97 final size:98
Alignment explanation
Indices: 1767752--1768169 Score: 383
Period size: 98 Copynumber: 4.3 Consensus size: 98
1767742 ATGTATTTAT
* ****
1767752 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGAACAAATGATTTAGTAATGAT
1767817 TTGATAATAATCATTATAGTAATGATTTGATAA
66 TTGATAATAATCATTATAGTAATGATTTGATAA
1767850 TAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGAACAAAT-ATTTAGTAATGAT
1 TAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGAACAAATGATTTAGTAATGAT
1767914 TTGATAATAATCATTATAGTAATGATTTGATAA
66 TTGATAATAATCATTATAGTAATGATTTGATAA
* * * * * * *
1767947 TAATCATTATAATAATGATTTATTAATAATCATTATAAA-AATGATTTAA-TAATAATTTA--AA
1 TAATCATTATAATAATGA--T-TTAATAATGATT-TAAATATTTAATGAACAAATGATTTAGTAA
* * * *
1768008 T-ATTTAATGATTTGATGATT-TAGTAATGATTTGATAA
62 TGATTTGAT-A-ATAATCATTATAGTAATGATTTGATAA
* * * * * * * *
1768045 TAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAA-TAATGATTTA--AAT
1 TAATCATTATAATAATGATTTAATAATGAT--TTA-AATATTTAATGAACAAATGATTTAGTAAT
* * * *
1768107 -ATTTAATGATTTGATGATT-TAGTAATGATTTGATAA
63 GATTTGAT-A-ATAATCATTATAGTAATGATTTGATAA
* *
1768143 TAATCATTATAGTAATGATTTGATAAT
1 TAATCATTATAATAATGATTTAATAAT
1768170 AATCATTATA
Statistics
Matches: 290, Mismatches: 19, Indels: 22
0.88 0.06 0.07
Matches are distributed among these distances:
95 9 0.03
96 3 0.01
97 73 0.25
98 169 0.58
99 10 0.03
100 22 0.08
101 4 0.01
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (98 bp):
TAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGAACAAATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAA
Found at i:1768065 original size:98 final size:98
Alignment explanation
Indices: 1767930--1768294 Score: 516
Period size: 98 Copynumber: 3.8 Consensus size: 98
1767920 ATAATCATTA
* *
1767930 TAGTAATGATTTGATAATAATCATTATAATAATGATTT-ATTAATAATCATTATAAAAATGATTT
1 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGA-TAATAATCATTATAATAATGATTT
1767994 AATAATAATTTAAATATTTAATGATTTGATGATT
65 AATAATAATTTAAATATTTAATGATTTGATGATT
1768028 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTA
*
1768093 ATAATGATTTAAATATTTAATGATTTGATGATT
66 ATAATAATTTAAATATTTAATGATTTGATGATT
1768126 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTA
*
1768191 GTAATAATTATAAAAATGATTTAAT-A----ATGATT
66 ATAATAATT-T--AAAT-ATTTAATGATTTGATGATT
* * * *
1768223 TA--AAT-ATTTAATGATTTGATGATT-TAGTAATGATTTGATAATAATCATTATAATAATGATT
1 TAGTAATGATTTGAT-A-ATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATT
*
1768284 TTATAATAATT
64 TAATAATAATT
1768295 ATTTAGTTAT
Statistics
Matches: 249, Mismatches: 11, Indels: 17
0.90 0.04 0.06
Matches are distributed among these distances:
94 6 0.02
95 50 0.20
96 6 0.02
97 8 0.03
98 165 0.66
99 2 0.01
101 5 0.02
102 7 0.03
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.45
Consensus pattern (98 bp):
TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTA
ATAATAATTTAAATATTTAATGATTTGATGATT
Found at i:1768156 original size:124 final size:121
Alignment explanation
Indices: 1767807--1768301 Score: 509
Period size: 124 Copynumber: 4.0 Consensus size: 121
1767797 TTTGATGATT
* * * *
1767807 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATT--ATA-ATAATGAT
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAATAATGAT--TTAAATATTTAATGA-
* *
1767869 TTAATAATGATTTAAATATTTAATGAACAAAT-ATTTAGTAATGATTTGATAATAATCATTA
63 TT--TGATGATTTAAATATTTAATGAA-TAATCATTTAGTAATGATTTGATAATAATCATTA
*
1767930 TAGTAATGATTTGATAATAATCATTATAATAATGATTTATTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGA--T-TTAATAATGATT-T--AAAT-ATTTA
* * * *
1767995 AT-A----ATAATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
59 ATGATTTGATGATTTAAATATTTAATGA-ATAATCATTTAGTAATGATTTGATAATAATCATTA
1768054 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATTT
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATTT
*
1768119 GATGATTTAGTAATGATTTGAT-AATAATCATTATAGTAATGATTTGATAATAATCATTA
66 GATGATTTA--AAT-ATTTAATGAATAATCATT-TAGTAATGATTTGATAATAATCATTA
* *
1768178 TAATAATGATTT-AGTAAT-A--ATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATT
1 TAGTAATGATTTGA-TAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATT
* * * *
1768239 TGATGATTTAGTAATGATTTGAT-AATAATCATTATAATAATGATTTTATAATAATTATT-
65 TGATGATTTA--AAT-ATTTAATGAATAATCATT-TAGTAATGATTTGATAATAATCATTA
1768298 TAGT
1 TAGT
1768302 TATTATTTAG
Statistics
Matches: 330, Mismatches: 20, Indels: 47
0.83 0.05 0.12
Matches are distributed among these distances:
117 7 0.02
118 5 0.02
120 4 0.01
121 108 0.33
122 8 0.02
123 63 0.19
124 110 0.33
125 8 0.02
126 9 0.03
129 2 0.01
130 2 0.01
131 4 0.01
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (121 bp):
TAGTAATGATTTGATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATTT
GATGATTTAAATATTTAATGAATAATCATTTAGTAATGATTTGATAATAATCATTA
Found at i:1768215 original size:20 final size:22
Alignment explanation
Indices: 1768168--1768226 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
1768158 TGATTTGATA
* *
1768168 ATAATCATTATAATAATGATTT
1 ATAATAATTATAAAAATGATTT
1768190 AGTAATAATTATAAAAATGATTT
1 A-TAATAATTATAAAAATGATTT
*
1768213 AATAATGATT-TAAA
1 -ATAATAATTATAAA
1768227 TATTTAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 5 0.16
23 26 0.81
24 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.41
Consensus pattern (22 bp):
ATAATAATTATAAAAATGATTT
Found at i:1768354 original size:121 final size:121
Alignment explanation
Indices: 1768031--1768293 Score: 420
Period size: 121 Copynumber: 2.1 Consensus size: 121
1768021 GATGATTTAG
* * *
1768031 TAATGATTTGATAATAATCATTATAGTAATGATTT-GATAATAATCATTATAATAATGATTTAAT
1 TAATGATTTGATAATAATCATTATAATAATGATTTAG-TAATAA-C--TATAAAAATGATTCAAT
*
1768095 AATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAG
62 AATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAA
* *
1768155 TAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATTATAAAAATGATTTAATAATG
1 TAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAACTATAAAAATGATTCAATAATG
1768220 ATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAA
66 ATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAA
*
1768276 TAATGATTTTATAATAAT
1 TAATGATTTGATAATAAT
1768294 TATTTAGTTA
Statistics
Matches: 133, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
121 92 0.69
124 40 0.30
125 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.44
Consensus pattern (121 bp):
TAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAACTATAAAAATGATTCAATAATG
ATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAA
Found at i:1770983 original size:44 final size:47
Alignment explanation
Indices: 1770886--1770983 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 47
1770876 TCAACAAACA
1770886 AATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTT
1 AATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTT
* * *
1770933 TATATAAC-TAACTA-TTAAC-AATACAAACTAATT-AATTATTTTT
1 AATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTT
1770976 AACTATAA
1 AA-TATAA
1770984 ACTATCAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 10 0.22
44 18 0.39
45 5 0.11
46 6 0.13
47 7 0.15
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (47 bp):
AATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTT
Found at i:1771204 original size:17 final size:16
Alignment explanation
Indices: 1771205--1771236 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1771195 CCCTTTCTTT
1771205 CTTTCTTTCCTTTCTCC
1 CTTTCTTT-CTTTCTCC
1771222 CTTTCTTTCTTTCTC
1 CTTTCTTTCTTTCTC
1771237 GGCTGCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
CTTTCTTTCTTTCTCC
Found at i:1771206 original size:4 final size:4
Alignment explanation
Indices: 1771178--1771235 Score: 53
Period size: 4 Copynumber: 14.0 Consensus size: 4
1771168 TTTCGAATTC
* ** **
1771178 TTCT TACT TTCCT TTCT CCCT TTCT TTCT TTCT TTCCT TTCT CCCT TTCT
1 TTCT TTCT TT-CT TTCT TTCT TTCT TTCT TTCT TT-CT TTCT TTCT TTCT
1771228 TTCT TTCT
1 TTCT TTCT
1771236 CGGCTGCAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
4 34 0.81
5 8 0.19
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (4 bp):
TTCT
Found at i:1771212 original size:25 final size:25
Alignment explanation
Indices: 1771178--1771235 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
1771168 TTTCGAATTC
*
1771178 TTCTTACTTTCCTTTCTCCCTTTCT
1 TTCTTTCTTTCCTTTCTCCCTTTCT
1771203 TTCTTTCTTTCCTTTCTCCCTTTCT
1 TTCTTTCTTTCCTTTCTCCCTTTCT
1771228 TTCTTTCT
1 TTCTTTCT
1771236 CGGCTGCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (25 bp):
TTCTTTCTTTCCTTTCTCCCTTTCT
Found at i:1771325 original size:25 final size:25
Alignment explanation
Indices: 1771297--1771348 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
1771287 TTTCTTTTAT
*
1771297 AACCGGCTGCCTCAATTATTTCACC
1 AACCGACTGCCTCAATTATTTCACC
*
1771322 AACCGACTGCCTTAATTATTTCACC
1 AACCGACTGCCTCAATTATTTCACC
1771347 AA
1 AA
1771349 TAATTGTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (25 bp):
AACCGACTGCCTCAATTATTTCACC
Found at i:1771496 original size:23 final size:23
Alignment explanation
Indices: 1771469--1771515 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1771459 GAATCTATAT
1771469 GGCTGCATGTGAATGGATGATGG
1 GGCTGCATGTGAATGGATGATGG
1771492 GGCTGCATGTGAATGGATGATGG
1 GGCTGCATGTGAATGGATGATGG
1771515 G
1 G
1771516 AATGGACGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.09, G:0.45, T:0.26
Consensus pattern (23 bp):
GGCTGCATGTGAATGGATGATGG
Found at i:1771520 original size:13 final size:13
Alignment explanation
Indices: 1771502--1771533 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1771492 GGCTGCATGT
*
1771502 GAATGGATGATGG
1 GAATGGACGATGG
1771515 GAATGGACGATGG
1 GAATGGACGATGG
1771528 GAATGG
1 GAATGG
1771534 CACCGGGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.47, T:0.19
Consensus pattern (13 bp):
GAATGGACGATGG
Found at i:1771569 original size:29 final size:29
Alignment explanation
Indices: 1771536--1771642 Score: 162
Period size: 29 Copynumber: 3.7 Consensus size: 29
1771526 GGGAATGGCA
*
1771536 CCGGGACTACATGGCGACCTATAAGGTCG
1 CCGGGACTACATGGCGACCTACAAGGTCG
*
1771565 CCGGGAGTACATGGCGACCTACAAGGTCG
1 CCGGGACTACATGGCGACCTACAAGGTCG
1771594 CCGGGACTACATGGCGACCTACAAGGTCG
1 CCGGGACTACATGGCGACCTACAAGGTCG
* *
1771623 CCTAGG-CTGCATGGCGACCT
1 CC-GGGACTACATGGCGACCT
1771643 CTCTATTCCA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 70 0.97
30 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.32, T:0.16
Consensus pattern (29 bp):
CCGGGACTACATGGCGACCTACAAGGTCG
Found at i:1771698 original size:43 final size:43
Alignment explanation
Indices: 1771637--1771800 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 43
1771627 GGCTGCATGG
1771637 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
1 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
***
1771680 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCG--
1 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
* * **
1771721 C-A-CTC-GTATGGCTCGTA-TGCATGGGGACCTCGCATGGGGAGAA
1 CGACCTCTCTAT---TC-CACTGCATGGCCACCTCGCATGGGGAGAA
1771764 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGG
1 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGG
1771801 CTCGCACTCG
Statistics
Matches: 97, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
38 3 0.03
39 3 0.03
40 1 0.01
41 22 0.23
42 2 0.02
43 59 0.61
44 1 0.01
45 3 0.03
46 3 0.03
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.23
Consensus pattern (43 bp):
CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
Found at i:1771754 original size:41 final size:41
Alignment explanation
Indices: 1771697--1771828 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 41
1771687 TCTATTCCAC
1771697 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
** *** * *
1771738 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTAT---TC-CA
1 TGCATGGCCACCTCGCATGGCTCG--C-A-CTC-GTATGGCTCGTA
1771780 CTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1 -TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1771822 TGCATGG
1 TGCATGG
1771829 GGAGAACCAT
Statistics
Matches: 67, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
38 3 0.04
39 3 0.04
40 1 0.01
41 29 0.43
42 2 0.03
43 22 0.33
44 1 0.01
45 3 0.04
46 3 0.04
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.23
Consensus pattern (41 bp):
TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
Found at i:1771795 original size:84 final size:84
Alignment explanation
Indices: 1771654--1771831 Score: 338
Period size: 84 Copynumber: 2.1 Consensus size: 84
1771644 TCTATTCCAC
**
1771654 TGCATGGCCACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
1 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
1771719 CGCACTCGTATGGCTCGTA
66 CGCACTCGTATGGCTCGTA
1771738 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
1 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
1771803 CGCACTCGTATGGCTCGTA
66 CGCACTCGTATGGCTCGTA
1771822 TGCATGGGGA
1 TGCATGGGGA
1771832 GAACCATTGG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.18, C:0.32, G:0.28, T:0.22
Consensus pattern (84 bp):
TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
CGCACTCGTATGGCTCGTA
Found at i:1771853 original size:35 final size:35
Alignment explanation
Indices: 1771807--1771919 Score: 226
Period size: 35 Copynumber: 3.2 Consensus size: 35
1771797 ATGGCTCGCA
1771807 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
1 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
1771842 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
1 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
1771877 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
1 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
1771912 CTCGTATG
1 CTCGTATG
1771920 TTCCCGTATG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 78 1.00
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.27
Consensus pattern (35 bp):
CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
Found at i:1773733 original size:13 final size:14
Alignment explanation
Indices: 1773708--1773736 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1773698 TTAATTTGTA
1773708 AATATATAAATATT
1 AATATATAAATATT
1773722 AATATA-AAATATT
1 AATATATAAATATT
1773735 AA
1 AA
1773737 CTAAAGGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATATAAATATT
Found at i:1780583 original size:14 final size:13
Alignment explanation
Indices: 1780548--1780574 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1780538 CATAGTTGAA
1780548 CAGTCTTCATATG
1 CAGTCTTCATATG
1780561 CAGTCTTCATATG
1 CAGTCTTCATATG
1780574 C
1 C
1780575 GCGTCTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:1793757 original size:2 final size:2
Alignment explanation
Indices: 1793752--1793776 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1793742 TCTCTCTCTC
1793752 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1793777 TACTAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1801471 original size:20 final size:21
Alignment explanation
Indices: 1801448--1801488 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1801438 CATTATATGT
**
1801448 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
1801468 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
1801489 TAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:1802411 original size:19 final size:19
Alignment explanation
Indices: 1802387--1802423 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1802377 CTAGTTTGTT
1802387 TTTTTTTTC-TTTCTCTGTA
1 TTTTTTTTCGTTT-TCTGTA
1802406 TTTTTTTTCGTTTTCTGT
1 TTTTTTTTCGTTTTCTGT
1802424 TTCTGTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.03, C:0.14, G:0.08, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCGTTTTCTGTA
Found at i:1802938 original size:3 final size:3
Alignment explanation
Indices: 1802922--1803074 Score: 193
Period size: 3 Copynumber: 51.7 Consensus size: 3
1802912 TTAATATATT
*
1802922 TAA T-A TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** *
1802968 TAA TAA TAT TAA TAA TAA TAA GGA TAA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * ** *
1803016 TAA GGA TAA TAA TAA TAT TAA TAA TAA TAA GGA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1803064 TAA TAA TAA TA
1 TAA TAA TAA TA
1803075 TGGATAAAAA
Statistics
Matches: 126, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
2 4 0.03
3 122 0.97
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1803524 original size:113 final size:113
Alignment explanation
Indices: 1803326--1804284 Score: 1372
Period size: 113 Copynumber: 8.5 Consensus size: 113
1803316 TCTTGATGAG
1803326 TTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-C
1 TTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTC
* * *
1803389 TGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
64 TGGAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
1803439 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * *
1803504 GAAAAGATGATTCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
* *
1803552 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * * * *
1803617 GCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAG
66 GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
*
1803665 TTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * *
1803730 GAAAAGCTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAA
66 GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
1803778 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * **
1803843 GAAATA-CTGATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAA
66 GAAA-AGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
* *
1803891 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * * *
1803956 GCAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAG
66 GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
*
1804004 TTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * * * *
1804068 GAAATGTTAATCCATCAAGTGATGAATTCGAGCAAAAGGTTAAACAAG
66 GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
* *
1804116 TTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTCCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * * * *
1804180 GAAAAAATAATTCATCAATTAATGAATTCAGGGAAAAGGTTGAACAAA
66 GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
*
1804228 TTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1804285 CTAACTGACA
Statistics
Matches: 768, Mismatches: 74, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
112 236 0.31
113 530 0.69
114 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
Found at i:1803944 original size:339 final size:336
Alignment explanation
Indices: 1803324--1804346 Score: 1547
Period size: 339 Copynumber: 3.0 Consensus size: 336
1803314 GCTCTTGATG
1803324 AGTTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC
1 AGTTCTTCTCATTATGAACTTCT-TCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-C
*
1803388 -CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
63 TCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
1803452 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATTC
128 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA-ATGATTC
* *
1803517 ACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
192 ATC-AATGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
* *
1803582 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTA
256 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATCAAGTGATGAATTTA
*
1803647 AACAAAAAGTTGAACA
321 AGCAAAAAGTTGAACA
1803663 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * * * *
1803728 TGGAAAAGCTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGA
65 TGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
* *
1803793 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATACTGATCCAT
130 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA-AATGATTCAT
*
1803858 CGAATGATGGATT-TGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCT
194 C-AATGATGGATTCAG-GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCT
* *
1803922 TCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAA
257 TCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATCAAGTGATGAATTTAA
* *
1803987 GCAAAAGGTTAAACA
322 GCAAAAAGTTGAACA
* *
1804002 AGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
* * * * *
1804067 GGAAATGTTAATCCATCAAGTGATGAATTCGAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAA
66 GGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
* * *
1804132 CTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTCCTCTGGAAAAAATAATTCATC
131 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG-AAAAATGATTCATC
* * *
1804196 AATTAATGAATTCAGGGAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTC
195 AA-TGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
* * * * **
1804260 AGATGAGTTCTTCTCATTATGAA-C-TCTAACTGACACTGCTGATCCACCGGGTGATGAATTTAA
259 AGATGAGTTCTTCTCATTATGAACCTTCT--CTGGCAATGATGATCCATCAAGTGATGAATTTAA
1804323 GCAAAAAGTTGAACA
322 GCAAAAAGTTGAACA
1804338 AGTTCTTCT
1 AGTTCTTCT
1804347 TCTTCAAATG
Statistics
Matches: 624, Mismatches: 50, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
334 3 0.00
335 1 0.00
336 78 0.12
337 94 0.15
338 108 0.17
339 338 0.54
340 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (336 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
GGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATGATTCATCA
ATGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATCAAGTGATGAATTTAAGCAA
AAAGTTGAACA
Found at i:1804842 original size:22 final size:22
Alignment explanation
Indices: 1804817--1804869 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
1804807 TAAAGTTTTT
*
1804817 ATCTTTGAAAAGAGAATCTGTC
1 ATCTTTGAAAAGAGAATCTATC
1804839 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
1804861 ATCTTTGAA
1 ATCTTTGAA
1804870 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:1807372 original size:83 final size:84
Alignment explanation
Indices: 1807233--1807476 Score: 395
Period size: 83 Copynumber: 2.9 Consensus size: 84
1807223 GTAGTTCCTA
* * *
1807233 CCAAACCAGATCAAATAACTCAAAGAATACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
*
1807298 ATTCAATGATTGGTTTTG-
66 ATTCAATGATTGGTTCTGT
*
1807316 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
*
1807381 ATTCAATGATTGATTCTGT
66 ATTCAATGATTGGTTCTGT
*
1807400 CC-AACCAGATCAGATAACTCAAAGAATACTTCTAGAAGATGCTATT-GACAAATTCATCTTCCA
1 CCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTAG-CAAATTCATCTTCCA
1807463 AATTCAATGATTGG
65 AATTCAATGATTGG
1807477 ACTAAGATAT
Statistics
Matches: 150, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
82 1 0.01
83 147 0.98
84 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.28
Consensus pattern (84 bp):
CCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTGT
Found at i:1809620 original size:17 final size:17
Alignment explanation
Indices: 1809583--1809620 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1809573 TTGATTCAAT
*
1809583 TTTCCTTTTTCTTTTTT
1 TTTCCTTTTTCTTTTTC
1809600 TTTCCTTTTT-TTTCTTC
1 TTTCCTTTTTCTTT-TTC
1809617 TTTC
1 TTTC
1809621 TTTGCTGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCCTTTTTCTTTTTC
Found at i:1812923 original size:14 final size:14
Alignment explanation
Indices: 1812889--1812941 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
1812879 TTGTGCAATA
*
1812889 CAAATGCAAAAATG
1 CAAATGTAAAAATG
*
1812903 CCAAATGTAAATATG
1 -CAAATGTAAAAATG
1812918 CAAATGTAAAAATG
1 CAAATGTAAAAATG
*
1812932 TAAATGTAAA
1 CAAATGTAAA
1812942 TTATTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.55, C:0.09, G:0.13, T:0.23
Consensus pattern (14 bp):
CAAATGTAAAAATG
Found at i:1815314 original size:20 final size:21
Alignment explanation
Indices: 1815291--1815331 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1815281 CATTATATGT
**
1815291 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
1815311 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
1815332 TAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:1816255 original size:19 final size:19
Alignment explanation
Indices: 1816231--1816267 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1816221 AGTTTGTTTT
1816231 TTTTTTTTC-TTTCTCTGTA
1 TTTTTTTTCGTTT-TCTGTA
1816250 TTTTTTTTCGTTTTCTGT
1 TTTTTTTTCGTTTTCTGT
1816268 TTCTGTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.03, C:0.14, G:0.08, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCGTTTTCTGTA
Found at i:1816263 original size:25 final size:23
Alignment explanation
Indices: 1816227--1816273 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
1816217 TACTAGTTTG
1816227 TTTTTTTTTTTTCT-TTCTCTGTA
1 TTTTTTTTTTTTCTGTT-TCTGTA
1816250 TTTTTTTTCGTTTTCTGTTTCTGT
1 TTTTTTTT--TTTTCTGTTTCTGT
1816274 CTCTGTCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 8 0.38
25 11 0.52
26 2 0.10
ACGTcount: A:0.02, C:0.13, G:0.09, T:0.77
Consensus pattern (23 bp):
TTTTTTTTTTTTCTGTTTCTGTA
Found at i:1816767 original size:9 final size:9
Alignment explanation
Indices: 1816753--1816781 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
1816743 TTATATTATG
1816753 TATTTAATA
1 TATTTAATA
1816762 TATTTAATA
1 TATTTAATA
1816771 TATTTAATA
1 TATTTAATA
1816780 TA
1 TA
1816782 AAATAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTTAATA
Found at i:1816791 original size:3 final size:3
Alignment explanation
Indices: 1816775--1816927 Score: 193
Period size: 3 Copynumber: 51.7 Consensus size: 3
1816765 TTAATATATT
*
1816775 TAA T-A TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** *
1816821 TAA TAA TAA TAT TAA TAA TAA TAA GGA TAA TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * ** *
1816869 TAA GGA TAA TAA TAA TAT TAA TAA TAA TAA GGA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1816917 TAA TAA TAA TA
1 TAA TAA TAA TA
1816928 TGGATAAAAA
Statistics
Matches: 126, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
2 4 0.03
3 122 0.97
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1816823 original size:27 final size:27
Alignment explanation
Indices: 1816775--1816925 Score: 252
Period size: 27 Copynumber: 5.7 Consensus size: 27
1816765 TTAATATATT
**
1816775 TAATA-TAA-AATAATAATAATAATAA
1 TAATATTAATAATAATAAGGATAATAA
* *
1816800 TAATAATAATAATAATAATGATAATAA
1 TAATATTAATAATAATAAGGATAATAA
1816827 TAATATTAATAATAATAAGGATAATAA
1 TAATATTAATAATAATAAGGATAATAA
1816854 TAATATTAATAATAATAAGGATAATAA
1 TAATATTAATAATAATAAGGATAATAA
1816881 TAATATTAATAATAATAAGGATAATAA
1 TAATATTAATAATAATAAGGATAATAA
1816908 TAATATTAATAATAATAA
1 TAATATTAATAATAATAA
1816926 TATGGATAAA
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
25 5 0.04
26 3 0.02
27 113 0.93
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (27 bp):
TAATATTAATAATAATAAGGATAATAA
Found at i:1817610 original size:49 final size:45
Alignment explanation
Indices: 1817505--1817613 Score: 139
Period size: 45 Copynumber: 2.3 Consensus size: 45
1817495 ACGTAAGGCA
* *
1817505 ATAGCGCGGGGCAAGGGTCGCGCCTTACCTTTAATTCAATTATAT
1 ATAGCGCGGTGCAGGGGTCGCGCCTTACCTTTAATTCAATTATAT
*
1817550 ATAGCGCGGTGCAGGGGTCGCGCCTTAGCTTTAACTGATACAATTATAT
1 ATAGCGCGGTGCAGGGGTCGCGCCTTACCTTTAA-T--T-CAATTATAT
1817599 A-AGGCGCGGTGCAGG
1 ATA-GCGCGGTGCAGG
1817614 TACCACGCCT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
45 31 0.55
46 1 0.02
48 2 0.04
49 22 0.39
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (45 bp):
ATAGCGCGGTGCAGGGGTCGCGCCTTACCTTTAATTCAATTATAT
Found at i:1817820 original size:14 final size:15
Alignment explanation
Indices: 1817798--1817844 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
1817788 TATAAGGTAA
*
1817798 TTTTGTTATAATT-T
1 TTTTATTATAATTAT
*
1817812 TTTTATTATACTTAT
1 TTTTATTATAATTAT
*
1817827 TGTTTATTATGATTAT
1 T-TTTATTATAATTAT
1817843 TT
1 TT
1817845 GAAAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 11 0.41
15 3 0.11
16 13 0.48
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTATAATTAT
Found at i:1817888 original size:23 final size:24
Alignment explanation
Indices: 1817829--1817888 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 24
1817819 ATACTTATTG
*
1817829 TTTATTATGATTATTTGAAAAAAT
1 TTTATTATGATTATGTGAAAAAAT
* * * *
1817853 ATTA-TACGTTTATGTGTAAAAAT
1 TTTATTATGATTATGTGAAAAAAT
1817876 TTTATTATG-TTAT
1 TTTATTATGATTAT
1817889 ATTTTCGTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
TTTATTATGATTATGTGAAAAAAT
Found at i:1823549 original size:17 final size:17
Alignment explanation
Indices: 1823523--1823560 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
1823513 AATTAAATAT
*
1823523 AATA-TTAAATAATTTA
1 AATACTTAAATAAATTA
1823539 AATACTTAAATAAATTA
1 AATACTTAAATAAATTA
1823556 AATAC
1 AATAC
1823561 AAAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATACTTAAATAAATTA
Found at i:1823565 original size:24 final size:24
Alignment explanation
Indices: 1823538--1823583 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1823528 TAAATAATTT
*
1823538 AAATACTTAAATA-AATTAAATACA
1 AAATA-TTAAATATAATAAAATACA
1823562 AAATATTAAATATAATAAAATA
1 AAATATTAAATATAATAAAATA
1823584 TACCTTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATATTAAATATAATAAAATACA
Found at i:1824151 original size:45 final size:45
Alignment explanation
Indices: 1824087--1824175 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
1824077 GAAGAATTGA
**
1824087 CATCCTTACATTACTTCCTTTCCAAACTTTGTAAACACACTTTTC
1 CATCCTTACATTACTTCCTTTCCAAACTTCATAAACACACTTTTC
*
1824132 CATCCTTACATTACTTCCTTTCCAAACTTCATAAACACGCTTTT
1 CATCCTTACATTACTTCCTTTCCAAACTTCATAAACACACTTTT
1824176 TCATGAAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.39
Consensus pattern (45 bp):
CATCCTTACATTACTTCCTTTCCAAACTTCATAAACACACTTTTC
Found at i:1824714 original size:21 final size:20
Alignment explanation
Indices: 1824675--1824716 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
1824665 TTAATTAATT
1824675 ATTTAAAAATTTAAATAAAA
1 ATTTAAAAATTTAAATAAAA
1824695 ATTTAAAATGATTT-AATAAAA
1 ATTTAAAA--ATTTAAATAAAA
1824716 A
1 A
1824717 AACAGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 8 0.40
22 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
ATTTAAAAATTTAAATAAAA
Found at i:1831116 original size:20 final size:20
Alignment explanation
Indices: 1831093--1831158 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
1831083 CTGGGTATCA
1831093 ATACTGGAACCTGAGTATTG
1 ATACTGGAACCTGAGTATTG
* * * *
1831113 ATACTCCTTGAA--GGGGTATCG
1 ATA---CTGGAACCTGAGTATTG
1831134 ATACTGGAACCTGAGTATTG
1 ATACTGGAACCTGAGTATTG
1831154 ATACT
1 ATACT
1831159 CCTCCAGTAC
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
18 5 0.15
20 14 0.42
21 9 0.27
23 5 0.15
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (20 bp):
ATACTGGAACCTGAGTATTG
Found at i:1834176 original size:20 final size:20
Alignment explanation
Indices: 1834153--1834202 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1834143 TTGCCTGTGG
**
1834153 GTATCGATACT-GGCCCTTCA
1 GTATCGATACTAACCCCTT-A
1834173 GTATCGATACTAACCCCTTA
1 GTATCGATACTAACCCCTTA
1834193 GTATCGATAC
1 GTATCGATAC
1834203 CCACATGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACTAACCCCTTA
Found at i:1846132 original size:20 final size:20
Alignment explanation
Indices: 1846107--1846144 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1846097 AATATATTTT
* *
1846107 TTCATTTGTGTTCGTTTACG
1 TTCATTTATGTTCATTTACG
1846127 TTCATTTATGTTCATTTA
1 TTCATTTATGTTCATTTA
1846145 TTGTGTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.58
Consensus pattern (20 bp):
TTCATTTATGTTCATTTACG
Found at i:1846145 original size:10 final size:10
Alignment explanation
Indices: 1846107--1846145 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
1846097 AATATATTTT
*
1846107 TTCATTTGTG
1 TTCATTTATG
* *
1846117 TTCGTTTACG
1 TTCATTTATG
1846127 TTCATTTATG
1 TTCATTTATG
1846137 TTCATTTAT
1 TTCATTTAT
1846146 TGTGTTAGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.59
Consensus pattern (10 bp):
TTCATTTATG
Found at i:1847893 original size:24 final size:23
Alignment explanation
Indices: 1847866--1847936 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
1847856 GTTCATTTAC
1847866 GTTCGTGAACGTTCAG-TTATGTTT
1 GTTCGT-AACGTTC-GTTTATGTTT
* *
1847890 GTTCAGTTATGTTCGTTTATGTTT
1 GTTC-GTAACGTTCGTTTATGTTT
* *
1847914 GTTCGGTTATGTTCGTTTATGTT
1 GTTC-GTAACGTTCGTTTATGTT
1847937 CATTCATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 1 0.02
24 39 0.93
25 2 0.05
ACGTcount: A:0.13, C:0.10, G:0.24, T:0.54
Consensus pattern (23 bp):
GTTCGTAACGTTCGTTTATGTTT
Found at i:1847895 original size:14 final size:14
Alignment explanation
Indices: 1847876--1847926 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
1847866 GTTCGTGAAC
1847876 GTTCAGTTATGTTT
1 GTTCAGTTATGTTT
*
1847890 GTTCAGTTATGTTC
1 GTTCAGTTATGTTT
1847904 G-T---TTATGTTT
1 GTTCAGTTATGTTT
*
1847914 GTTCGGTTATGTT
1 GTTCAGTTATGTT
1847927 CGTTTATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
13 1 0.03
14 21 0.68
ACGTcount: A:0.12, C:0.08, G:0.24, T:0.57
Consensus pattern (14 bp):
GTTCAGTTATGTTT
Found at i:1847947 original size:24 final size:24
Alignment explanation
Indices: 1847882--1847950 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
1847872 GAACGTTCAG
1847882 TTATGTTTGTTCAGTTATGTTCGT
1 TTATGTTTGTTCAGTTATGTTCGT
*
1847906 TTATGTTTGTTCGGTTATGTTCGT
1 TTATGTTTGTTCAGTTATGTTCGT
** *
1847930 TTATGTTCATTCATTTATGTT
1 TTATGTTTGTTCAGTTATGTT
1847951 TAAGCCAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.13, C:0.09, G:0.19, T:0.59
Consensus pattern (24 bp):
TTATGTTTGTTCAGTTATGTTCGT
Found at i:1848598 original size:16 final size:16
Alignment explanation
Indices: 1848573--1848639 Score: 84
Period size: 16 Copynumber: 4.3 Consensus size: 16
1848563 GTCTCCAATG
*
1848573 TTTATATTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
1848589 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
* *
1848605 TTTATGTTTGTGTTCG
1 TTTATGTTCGTGTTCA
1848621 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
1848635 TTTAT
1 TTTAT
1848640 TAAATAAACG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 5 0.11
15 2 0.04
16 39 0.85
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:1855095 original size:16 final size:16
Alignment explanation
Indices: 1855076--1855110 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1855066 AGGATAATTT
1855076 GATAGAATTAAAGCTA
1 GATAGAATTAAAGCTA
*
1855092 GATAGAATTAAAGTTA
1 GATAGAATTAAAGCTA
1855108 GAT
1 GAT
1855111 TCGATTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.29
Consensus pattern (16 bp):
GATAGAATTAAAGCTA
Found at i:1855471 original size:26 final size:28
Alignment explanation
Indices: 1855411--1855472 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
1855401 GAGTATTGCT
*
1855411 GAGCTCGACTCGACTCGAAAACTCTGAAATG
1 GAGCTCGACTCGACTCGAAAACTCTG--A-C
1855442 GAGCTCGACTCGACTCGAAAACTC-G-C
1 GAGCTCGACTCGACTCGAAAACTCTGAC
1855468 GAGCT
1 GAGCT
1855473 TAAAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.17
30 1 0.03
31 24 0.80
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (28 bp):
GAGCTCGACTCGACTCGAAAACTCTGAC
Found at i:1855990 original size:65 final size:65
Alignment explanation
Indices: 1855886--1856030 Score: 245
Period size: 65 Copynumber: 2.2 Consensus size: 65
1855876 TTACAGCCTT
* *
1855886 ACTCATATGAGTCATGTACCTTTCTGGTGCATGAGGTGGAGTGATAATTAAATTTTGTACAAACC
1 ACTCATATGAATCATGTACCTTTCTGGTGCATGAGGTGGAGTGATAATTAAATATTGTACAAACC
*
1855951 ACTCATATGAATCATGTATCTTTCTGGTGCATGAGGTGGAGTGATAATTAAATATTGTACAAACC
1 ACTCATATGAATCATGTACCTTTCTGGTGCATGAGGTGGAGTGATAATTAAATATTGTACAAACC
* *
1856016 ACTTATATGACTCAT
1 ACTCATATGAATCAT
1856031 AGGGGTGTGC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 75 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (65 bp):
ACTCATATGAATCATGTACCTTTCTGGTGCATGAGGTGGAGTGATAATTAAATATTGTACAAACC
Found at i:1856255 original size:16 final size:15
Alignment explanation
Indices: 1856231--1856266 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
1856221 ATTATATAAA
*
1856231 ATATAATGAATTATTT
1 ATATTATGAATTA-TT
1856247 ATATTATGAATTATT
1 ATATTATGAATTATT
1856262 ATATT
1 ATATT
1856267 TTGTATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
ATATTATGAATTATT
Found at i:1856416 original size:15 final size:15
Alignment explanation
Indices: 1856396--1856452 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
1856386 AATCAGGTAT
1856396 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
**
1856411 CGGGTACCCGCAAAATC
1 CGGGTACCCG-ATTA-C
1856428 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
1856443 CGGGTACCCG
1 CGGGTACCCG
1856453 TAACATCCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 21 0.58
16 4 0.11
17 11 0.31
ACGTcount: A:0.21, C:0.35, G:0.28, T:0.16
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:1856437 original size:32 final size:32
Alignment explanation
Indices: 1856396--1856462 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
1856386 AATCAGGTAT
1856396 CGGGTACCCGATTACCGGGTACCCGCAAAATC
1 CGGGTACCCGATTACCGGGTACCCGCAAAATC
* *
1856428 CGGGTACCCGATTACCGGGTACCCGTAACATC
1 CGGGTACCCGATTACCGGGTACCCGCAAAATC
1856460 CGG
1 CGG
1856463 ATCGAGACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.34, G:0.27, T:0.16
Consensus pattern (32 bp):
CGGGTACCCGATTACCGGGTACCCGCAAAATC
Found at i:1856519 original size:16 final size:16
Alignment explanation
Indices: 1856490--1856529 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
1856480 GAAATTGTCG
*
1856490 ACCCGGAAACTCCGGGT
1 ACCC-GAAAATCCGGGT
1856507 ACCCGAAAATCCGGGT
1 ACCCGAAAATCCGGGT
1856523 ACCCGAA
1 ACCCGAA
1856530 TTTGCACACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.30, C:0.35, G:0.25, T:0.10
Consensus pattern (16 bp):
ACCCGAAAATCCGGGT
Found at i:1858570 original size:25 final size:25
Alignment explanation
Indices: 1858531--1858582 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
1858521 TCTGTTCACG
* *
1858531 TCATTACACCATTAAGATTTAATGA
1 TCATTACAACATTAAAATTTAATGA
*
1858556 TCATTACAACGTTAAAATTTAATGA
1 TCATTACAACATTAAAATTTAATGA
1858581 TC
1 TC
1858583 TAGTGGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (25 bp):
TCATTACAACATTAAAATTTAATGA
Found at i:1867082 original size:20 final size:22
Alignment explanation
Indices: 1867057--1867099 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
1867047 TAAATCAAGT
1867057 GAAAAAAA-TAA-AAAAAATAA
1 GAAAAAAATTAACAAAAAATAA
1867077 GAAAAAAATTAATCAAAAAATAA
1 GAAAAAAATTAA-CAAAAAATAA
1867100 AATAATAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
23 9 0.45
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (22 bp):
GAAAAAAATTAACAAAAAATAA
Found at i:1867200 original size:42 final size:43
Alignment explanation
Indices: 1867093--1867202 Score: 111
Period size: 42 Copynumber: 2.6 Consensus size: 43
1867083 AATTAATCAA
*
1867093 AAAATAAAATAATAGATAAAAATAAATCGAAGAGGGGAAAAAGAT
1 AAAATAAAATAATA-AT-AAAATAAATCGAAGAGGGCAAAAAGAT
* * * *
1867138 AAAATAAAAAAAT-ATTAAATAAATC-AA-ATGTCAAAAA-AT
1 AAAATAAAATAATAATAAAATAAATCGAAGAGGGCAAAAAGAT
1867177 AATAATAATAATAATAATAAAATAAA
1 AA-AATAA-AATAATAATAAAATAAA
1867203 AAATAAAAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
39 4 0.07
40 12 0.22
41 7 0.13
42 18 0.33
43 2 0.04
45 12 0.22
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (43 bp):
AAAATAAAATAATAATAAAATAAATCGAAGAGGGCAAAAAGAT
Found at i:1867207 original size:12 final size:13
Alignment explanation
Indices: 1867172--1867210 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
1867162 CAAATGTCAA
1867172 AAAATAATAATAAT
1 AAAATAATAA-AAT
1867186 AATAATAATAAAAT
1 AA-AATAATAAAAT
1867200 AAAA-AATAAAA
1 AAAATAATAAAA
1867211 AGTTGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.29
13 2 0.08
14 7 0.29
15 8 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:1868543 original size:20 final size:20
Alignment explanation
Indices: 1868515--1868557 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1868505 TTATATATAT
*
1868515 TTTCTAAAACATTTTCAAAA
1 TTTCAAAAACATTTTCAAAA
*
1868535 TTTCAAAAACGTTTTCAAAA
1 TTTCAAAAACATTTTCAAAA
1868555 TTT
1 TTT
1868558 ATATATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTCAAAAACATTTTCAAAA
Found at i:1868601 original size:58 final size:60
Alignment explanation
Indices: 1868539--1868652 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
1868529 TCAAAATTTC
**
1868539 AAAAACGTTTTCAAAATTTATA-TAT-TATATATAT-TTAAAAAATGTTTTAAAAAAACTA
1 AAAAACGTTTTCAAAAACTATATTATATATATATATATT-AAAAATGTTTTAAAAAAACTA
* * *
1868597 AAAAATGTTTTCAAAAACTATATTATATATATATATATTCAAAATGTTTTCAAAAA
1 AAAAACGTTTTCAAAAACTATATTATATATATATATATTAAAAATGTTTTAAAAAA
1868653 CCATATTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 19 0.40
59 3 0.06
60 24 0.50
61 2 0.04
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (60 bp):
AAAAACGTTTTCAAAAACTATATTATATATATATATATTAAAAATGTTTTAAAAAAACTA
Found at i:1868616 original size:20 final size:21
Alignment explanation
Indices: 1868574--1868613 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1868564 TATATATATT
1868574 TAAAAAATGTTTTAAAAAAAC
1 TAAAAAATGTTTTAAAAAAAC
*
1868595 TAAAAAATGTTTTCAAAAA
1 TAAAAAATGTTTTAAAAAA
1868614 CTATATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAAAATGTTTTAAAAAAAC
Found at i:1868707 original size:2 final size:2
Alignment explanation
Indices: 1868700--1868729 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1868690 TTTTCAAAAT
1868700 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1868730 TCAAAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1868733 original size:48 final size:46
Alignment explanation
Indices: 1868615--1868746 Score: 203
Period size: 48 Copynumber: 2.8 Consensus size: 46
1868605 TTTCAAAAAC
1868615 TATAT-TATATATATATATATTCAAAATGTTTTCAAAAACCATATTA
1 TATATATATATATATATATATTCAAAATGTTTTC-AAAACCATATTA
* **
1868661 TATATATATATATATATATTTTCAAAATGTTTTCAAAATTATATATA
1 TATATATATATATATATATATTCAAAATGTTTTCAAAACCATAT-TA
1868708 TTATATATATATATATATATATTCAAAATGTTTTCAAAA
1 -TATATATATATATATATATATTCAAAATGTTTTCAAAA
1868747 ACTTCCAAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
46 13 0.16
47 29 0.37
48 37 0.47
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATATATATATATATATATTCAAAATGTTTTCAAAACCATATTA
Found at i:1868838 original size:48 final size:47
Alignment explanation
Indices: 1868598--1868842 Score: 178
Period size: 48 Copynumber: 5.1 Consensus size: 47
1868588 AAAAAACTAA
*
1868598 AAAATGTTTTCAAAAACTATATTATATATATATATATTCAAAATGTTTTC
1 AAAATGTTTT--AAAA-TATATAATATATATATATATTCAAAATGTTTTC
** * * *
1868648 AAAAACCATATT-ATATATAT-ATATATATATATTTTCAAAATGTTTTC
1 -AAAA-TGTTTTAAAATATATAATATATATATATATTCAAAATGTTTTC
* * *
1868695 AAAAT-TATATATATTATATATATATATATATATATTCAAAATGTTTTC
1 AAAATGT-TTTAAAATATATA-ATATATATATATATTCAAAATGTTTTC
** ** * * * *
1868743 AAAAACTTCCAAAATATTTTCAAAACTATATAT-TA-T-ATATATTTTTTC
1 AAAATGTTTTAAAATA-TAT-AATA-TATATATATATTCA-AAATGTTTTC
*
1868791 AAAATGTTTTAAAAAACTATAATATATATATATATTCAAAATGTTTTC
1 AAAATGTTTTAAAATA-TATAATATATATATATATTCAAAATGTTTTC
1868839 AAAA
1 AAAA
1868843 CTATATATTA
Statistics
Matches: 150, Mismatches: 31, Indels: 29
0.71 0.15 0.14
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 16 0.11
47 32 0.21
48 75 0.50
49 10 0.07
50 8 0.05
51 4 0.03
52 3 0.02
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (47 bp):
AAAATGTTTTAAAATATATAATATATATATATATTCAAAATGTTTTC
Found at i:1868844 original size:75 final size:74
Alignment explanation
Indices: 1868752--1869019 Score: 319
Period size: 75 Copynumber: 3.6 Consensus size: 74
1868742 CAAAAACTTC
* *
1868752 CAAAATATTTTCAAAACTATATATTATATATATTTTTTCAAAATGTTTTAAAAAACTATAATATA
1 CAAAATGTTTTCAAAACTATATATTATATATATGTTTTCAAAATGTTTT-AAAAACTATAATATA
*
1868817 TATATATATT
65 TATATATTTT
* *
1868827 CAAAATGTTTTCAAAACTATATATTATATATATGTTTTCAAAATATTTTCAAAACTATATATTAT
1 CAAAATGTTTTCAAAACTATATATTATATATATGTTTTCAAAATGTTTTAAAAACTATA-A-TAT
*
1868892 ATATATTTTTT
64 ATATATATTTT
* * * *
1868903 CAAAATGTTTTAAAAAACTATATA--ATATATATGTTTCCAAACTGTTTTAAGAACTAT-ATAT-
1 CAAAATGTTTT-CAAAACTATATATTATATATATGTTTTCAAAATGTTTTAAAAACTATAATATA
1868964 TATATATTTT
65 TATATATTTT
* * * *
1868974 TAAAATGTTTTGAAAAATAATATATAATATATATATTTTTTCAAAA
1 CAAAATGTTTTCAAAACT-ATATAT--TATATATATGTTTTCAAAA
1869020 ATCAATTTTT
Statistics
Matches: 166, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
70 5 0.03
71 24 0.14
72 3 0.02
73 1 0.01
74 9 0.05
75 90 0.54
76 23 0.14
77 11 0.07
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (74 bp):
CAAAATGTTTTCAAAACTATATATTATATATATGTTTTCAAAATGTTTTAAAAACTATAATATAT
ATATATTTT
Found at i:1868877 original size:113 final size:110
Alignment explanation
Indices: 1868752--1869019 Score: 382
Period size: 113 Copynumber: 2.4 Consensus size: 110
1868742 CAAAAACTTC
1868752 CAAAATATTTTCAAAACTATATATTATATATATTTTTTCAAAATGTTTTAAAAAACTATAATATA
1 CAAAATATTTTCAAAACTATATATTATATATATTTTTTCAAAATGTTTTAAAAAACTAT-ATA-A
1868817 TATATAT-ATT-CAAAATGTTTTCAA-AACTATATATTATATATATGTTTT
64 TATATATGATTCCAAAATGTTTT-AAGAACTATATA-T-TATATAT-TTTT
1868865 CAAAATATTTTCAAAACTATATATTATATATATTTTTTCAAAATGTTTTAAAAAACTATATAATA
1 CAAAATATTTTCAAAACTATATATTATATATATTTTTTCAAAATGTTTTAAAAAACTATATAATA
* *
1868930 TATATGTTTCCAAACTGTTTTAAGAACTATATATTATATATTTTT
66 TATATGATTCCAAAATGTTTTAAGAACTATATATTATATATTTTT
* * *
1868975 -AAAATGTTTTGAAAAATAATATATAATATATATATTTTTTCAAAA
1 CAAAATATTTTCAAAACT-ATATAT--TATATATATTTTTTCAAAA
1869020 ATCAATTTTT
Statistics
Matches: 144, Mismatches: 5, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
109 14 0.10
110 10 0.07
111 15 0.10
112 27 0.19
113 78 0.54
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (110 bp):
CAAAATATTTTCAAAACTATATATTATATATATTTTTTCAAAATGTTTTAAAAAACTATATAATA
TATATGATTCCAAAATGTTTTAAGAACTATATATTATATATTTTT
Found at i:1870924 original size:21 final size:22
Alignment explanation
Indices: 1870899--1870953 Score: 103
Period size: 21 Copynumber: 2.5 Consensus size: 22
1870889 AAACCATTTA
1870899 GGGGGAATCGGTACCCCATT-G
1 GGGGGAATCGGTACCCCATTGG
1870920 GGGGGAATCGGTACCCCATTGG
1 GGGGGAATCGGTACCCCATTGG
1870942 GGGGGAATCGGT
1 GGGGGAATCGGT
1870954 TCCCTCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 20 0.61
22 13 0.39
ACGTcount: A:0.18, C:0.20, G:0.44, T:0.18
Consensus pattern (22 bp):
GGGGGAATCGGTACCCCATTGG
Found at i:1873537 original size:21 final size:21
Alignment explanation
Indices: 1873507--1873585 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 21
1873497 AGAACCTCCT
*
1873507 GGGGGTATCGATTCCCCTACA
1 GGGGGAATCGATTCCCCTACA
* *
1873528 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGATTCCCC-T-ACA
* * *
1873551 AGGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGATTCCCCTAC-A
*
1873573 GGGGGTATCGATT
1 GGGGGAATCGATT
1873586 GCCTCTGCAC
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 15 0.33
22 13 0.28
23 18 0.39
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (21 bp):
GGGGGAATCGATTCCCCTACA
Found at i:1873558 original size:23 final size:23
Alignment explanation
Indices: 1873529--1873572 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
1873519 TCCCCTACAG
1873529 GGGGAATCGGTTCCCCTTCAAAA
1 GGGGAATCGGTTCCCCTTCAAAA
1873552 GGGGAATCGGTTCCCCTTCAA
1 GGGGAATCGGTTCCCCTTCAA
1873573 GGGGGTATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (23 bp):
GGGGAATCGGTTCCCCTTCAAAA
Found at i:1874564 original size:17 final size:17
Alignment explanation
Indices: 1874542--1874581 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
1874532 ATGTAGTGTC
1874542 AACCTTCCCTTTTAAAA
1 AACCTTCCCTTTTAAAA
**
1874559 AACCTTTTCTTTTAAAA
1 AACCTTCCCTTTTAAAA
1874576 AACCTT
1 AACCTT
1874582 TTTCAATTTA
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:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (17 bp):
AACCTTCCCTTTTAAAA
Found at i:1874585 original size:18 final size:17
Alignment explanation
Indices: 1874550--1874583 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1874540 TCAACCTTCC
1874550 CTTTTAAAAAACCTTTT
1 CTTTTAAAAAACCTTTT
1874567 CTTTTAAAAAACCTTTT
1 CTTTTAAAAAACCTTTT
1874584 TCAATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (17 bp):
CTTTTAAAAAACCTTTT
Found at i:1874594 original size:18 final size:17
Alignment explanation
Indices: 1874552--1874594 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
1874542 AACCTTCCCT
*
1874552 TTTAAAAAACCTTTTCT
1 TTTAAAAAACCTTTTCA
1874569 TTTAAAAAACCTTTTTCAA
1 TTTAAAAAACC-TTTTC-A
1874588 TTTAAAA
1 TTTAAAA
1874595 GTTTGACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.48
18 5 0.22
19 7 0.30
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAAAAAACCTTTTCA
Found at i:1875948 original size:297 final size:298
Alignment explanation
Indices: 1875413--1876012 Score: 1130
Period size: 297 Copynumber: 2.0 Consensus size: 298
1875403 ACAACTAAAG
1875413 TTCTTTTATTAAATACTCGATAAGCTTTAGAACTTAAGGAATAACCCAGAAAAATTCCTTTATCA
1 TTCTTTTATTAAATACTCGATAAGCTTTAGAACTTAAGGAATAACCCAGAAAAATTCCTTTATCA
1875478 CTTTTAGCATCAAATTTACCAAGATTGTCTTTACCGTTGTTTAAAACAAAACATTTACATCCAAA
66 CTTTTAGCATCAAATTTACCAAGATTGTCTTTACCGTTGTTTAAAACAAAACATTTACATCCAAA
1875543 AGGATGAAAATAGCTAATATTAGGCTTTTTATTTTTAAAAAGTTCATATGGAGTTTTCTTCAAAA
131 AGGATGAAAATAGCTAATATTAGGCTTTTTATTTTTAAAAAGTTCATATGGAGTTTTCTTCAAAA
*
1875608 TAGGCCTAATCATTACTCGATTAATAACATAACAAGCAGTATTTGTAGCTTCCGCCCAAAAATAT
196 TAGGCCTAATCATTACTCGATTAATAACATAACAAGAAGTATTTGTAGCTTCCGCCCAAAAATAT
*
1875673 TTTAGCAAATTGTTTTCACAAAGCATGGTTCTAGTCAT
261 TTTAGCAAATTGTTTTCACAAAGCATGGTTCTAGCCAT
1875711 TTCTTTTATTAAATACTCGATAAGCTTTAGAACTTAAGGAAT-ACCCAGAAAAATTCCTTTATCA
1 TTCTTTTATTAAATACTCGATAAGCTTTAGAACTTAAGGAATAACCCAGAAAAATTCCTTTATCA
*
1875775 CTTTTAGCATCAAATTTGCCAAGATTGTCTTTACCGTTGTTTAAAACAAAACATTTACATCCAAA
66 CTTTTAGCATCAAATTTACCAAGATTGTCTTTACCGTTGTTTAAAACAAAACATTTACATCCAAA
* *
1875840 AGGATGAAATTAGCTAATGTTAGGCTTTTTATTTTTAAAAAGTTCATATGGAGTTTTCTTCAAAA
131 AGGATGAAAATAGCTAATATTAGGCTTTTTATTTTTAAAAAGTTCATATGGAGTTTTCTTCAAAA
*
1875905 TAGGCCTAATCATTACTCGATTAATAACATAACAAGAAGTATTTGTGGCTTCCGCCCAAAAATAT
196 TAGGCCTAATCATTACTCGATTAATAACATAACAAGAAGTATTTGTAGCTTCCGCCCAAAAATAT
*
1875970 TTTGGCAAATTGTTTTCACAAAGCATGGTTCTAGCCAT
261 TTTAGCAAATTGTTTTCACAAAGCATGGTTCTAGCCAT
1876008 TTCTT
1 TTCTT
1876013 CTCAAGTTTG
Statistics
Matches: 295, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
297 253 0.86
298 42 0.14
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (298 bp):
TTCTTTTATTAAATACTCGATAAGCTTTAGAACTTAAGGAATAACCCAGAAAAATTCCTTTATCA
CTTTTAGCATCAAATTTACCAAGATTGTCTTTACCGTTGTTTAAAACAAAACATTTACATCCAAA
AGGATGAAAATAGCTAATATTAGGCTTTTTATTTTTAAAAAGTTCATATGGAGTTTTCTTCAAAA
TAGGCCTAATCATTACTCGATTAATAACATAACAAGAAGTATTTGTAGCTTCCGCCCAAAAATAT
TTTAGCAAATTGTTTTCACAAAGCATGGTTCTAGCCAT
Found at i:1890814 original size:12 final size:12
Alignment explanation
Indices: 1890797--1890821 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1890787 TCCAGCTTCG
1890797 TTCTTCTTTTTC
1 TTCTTCTTTTTC
1890809 TTCTTCTTTTTC
1 TTCTTCTTTTTC
1890821 T
1 T
1890822 CCACCAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTCTTTTTC
Found at i:1890971 original size:161 final size:163
Alignment explanation
Indices: 1890793--1891116 Score: 634
Period size: 161 Copynumber: 2.0 Consensus size: 163
1890783 TTGATCCAGC
1890793 TTCGTTCTTCTTTTTCTTCTTCTTTTTCTCCACCAAAGCAGAGTTCTCAGCACCTATATCTGCTG
1 TTCGTTCTTCTTTTTCTTCTTCTTTTTCTCCACCAAAGCAGAGTTCTCAGCACCTATATCTGCTG
1890858 AAGTTCGTTTTTTCACTTTCTTCAACCCACCCTCAGCACTCATACCACCAGAGCGC-TTATATCA
66 AAGTTCGTTTTTTCACTTTCTTCAACCCACCCTCAGCACTCATACCACCAGAGCGCTTTATATCA
1890922 ACC-AAGGATGCCCACCAGTGAGACCATCTTGA
131 ACCAAAGGATGCCCACCAGTGAGACCATCTTGA
1890954 TTCGTTCTTCTTTTTCTTCTTCTTTTTCTCCACCAAAGCAGAGTTCTCAGCACCTATATCTGCTG
1 TTCGTTCTTCTTTTTCTTCTTCTTTTTCTCCACCAAAGCAGAGTTCTCAGCACCTATATCTGCTG
1891019 AAGTTCGTTTTTTCACTTTCTTCAACCCACCCTCAGCACTCATACCACCAGAGCGCTTTATATCA
66 AAGTTCGTTTTTTCACTTTCTTCAACCCACCCTCAGCACTCATACCACCAGAGCGCTTTATATCA
1891084 ACCAAAGGATGCCCACCAGTGAGACCATCTTGA
131 ACCAAAGGATGCCCACCAGTGAGACCATCTTGA
1891117 ATTTGATCTA
Statistics
Matches: 161, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
161 121 0.75
162 11 0.07
163 29 0.18
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.34
Consensus pattern (163 bp):
TTCGTTCTTCTTTTTCTTCTTCTTTTTCTCCACCAAAGCAGAGTTCTCAGCACCTATATCTGCTG
AAGTTCGTTTTTTCACTTTCTTCAACCCACCCTCAGCACTCATACCACCAGAGCGCTTTATATCA
ACCAAAGGATGCCCACCAGTGAGACCATCTTGA
Found at i:1890975 original size:12 final size:12
Alignment explanation
Indices: 1890958--1890982 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1890948 TCTTGATTCG
1890958 TTCTTCTTTTTC
1 TTCTTCTTTTTC
1890970 TTCTTCTTTTTC
1 TTCTTCTTTTTC
1890982 T
1 T
1890983 CCACCAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTCTTTTTC
Found at i:1894328 original size:37 final size:37
Alignment explanation
Indices: 1894252--1894328 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
1894242 TTTTTATATT
*
1894252 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
1894289 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
1894326 TTT
1 TTT
1894329 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:1895117 original size:18 final size:20
Alignment explanation
Indices: 1895094--1895133 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1895084 TTCTCAGTAA
1895094 TTTTATTC-C-CTAGTAATC
1 TTTTATTCTCACTAGTAATC
*
1895112 TTTTATTCTCACTGGTAATC
1 TTTTATTCTCACTAGTAATC
1895132 TT
1 TT
1895134 ACATTCCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (20 bp):
TTTTATTCTCACTAGTAATC
Found at i:1895145 original size:629 final size:620
Alignment explanation
Indices: 1893937--1895160 Score: 1823
Period size: 629 Copynumber: 2.0 Consensus size: 620
1893927 CATTCCCATA
* * * *
1893937 TTTGGTTGGCCGGGAATCTCATTCCTGGTAATGTTTTATTACCAATAGTAAATTTTTTGGGGTAT
1 TTTGGTTGGCCGGGAATCACATTCCTGGTAATCTTATATTACCAATAGTAAATCTTTTGGGGTAT
* * * * *
1894002 ATTACTGGGAATGTCATTACCTCCCTTTCCTTAGGTATTGTAACATTACCGGTGTTTTGGACTAA
66 ATTACCGAGAATCTCATTACCTCCCTTTCCTTAGATATTGTAACATTACCGGTATTTTGGACTAA
* *
1894067 AATGCCCTTAAATTTTTTTTTCTATCAATATTTCTGTCATTGAATAATAAAAATTCTACGAAGGT
131 AATGCCCTTAAATTTTTTTTTCTATCAATATTTCTGTCATTAAATAATAAAAATTCTACGAAAGT
* *
1894132 TAAATTACAAATTTATCCTTAAATTATTTTAGATTTACAAAAAAAAATCTATAATTAAATTTTTA
196 TAAATTACAAATTTATCCTTAAAATATTTTAGATTTACAAAAAAAAATCTATAATTAAAATTTTA
* * *
1894197 TATGAAGTTCAAGGGTTAAAAAAAATTTACCCTTTCATTAAATCTTTTTTATATTTTTAATTTTG
261 TATGAAGTTCAAGGGTTAAAAAAAATTTACCCTTTCATTAAATCCTTTTTATATTTTCAATATTG
* *
1894262 TAAAAAAAATTATATAAATATTATGAATTTAATTTTTTAAAGAAAATATATAAATATTTTACAAT
326 TAAAAAAAATTATATAAATATTATGAATTTAAATTTTTAAAGAAAATATATAAATATTTTACAAC
* * *
1894327 TTGTAATATTATACAAATATATAATAAGGACAATTTGGTCAAATATACATTCTAATAATCTTTTA
391 TTGTAAAAATATACAAATATATAATAAGGACAATTTGGTCAAATATACATTCCAATAATCTTTTA
1894392 TTCCTTTAACCAAACAAGGTAATCTTACATTCCTGCTAAACCAACCAAACACAAAATACAACATT
456 TTCCTTTAACCAAACAAGGTAATCTTACATTCCTGCTAAACCAACCAAACACAAAATACAACATT
1894457 CCCAGTAATCCTATTCCCTAGTAATCTTTTATTCTCACTGGTAATCTTACATTCCGTGAACCAAA
521 CCCAGTAATCCTATTCCCTAGTAATCTTTTATTCTCACTGGTAATCTTACATTCCGTGAACCAAA
1894522 CGCACCCTTATGGGAATAGAATCTATATTCCCCCT
586 CGCACCCTTATGGGAATAGAATCTATATTCCCCCT
* *
1894557 TTTGGTTGGCCGGGAATGACATTTCC-GGTAATCTTATATTACCAATAGTAGATCTTTTGGGGTA
1 TTTGGTTGGCCGGGAATCACA-TTCCTGGTAATCTTATATTACCAATAGTAAATCTTTTGGGGTA
* *** **
1894621 TATTACCGAGAATCTCATTACCTCGCTTTCCTTAGATATTGTTGGATTA-TTGTAATTTTGGACT
65 TATTACCGAGAATCTCATTACCTCCCTTTCCTTAGATATTGTAACATTACCGGT-ATTTTGGACT
* * *
1894685 AAAATGCCCTT-AA-TTTTTTTTCTTTCAAAAATATTCTTATTTTTTCATTAAATAATAAAAATT
129 AAAATGCCCTTAAATTTTTTTTTCTATC---AATA----T-TTCTGTCATTAAATAATAAAAATT
*
1894748 CTACGAAAGTTAAATTATAAATTTATCCTTAAAATATTTTAGATTTACAAAAAAAAATCTATAAT
186 CTACGAAAGTTAAATTACAAATTTATCCTTAAAATATTTTAGATTTACAAAAAAAAATCTATAAT
*
1894813 TAAAATTTTATATGAAGTTC-AGGAG-TAAAATAAAATTTTATCCTTTCATTAAA-CCTTTTTAT
251 TAAAATTTTATATGAAGTTCAAGG-GTTAAAA-AAAA-TTTACCCTTTCATTAAATCCTTTTTAT
*
1894875 ATTTTCAATATTGTAAAAAAAATTATATAAATTTTATGAATTTAAAATTTTTAAAGAAAATATAT
313 ATTTTCAATATTGTAAAAAAAATTATATAAATATTATGAATTT-AAATTTTTAAAGAAAATATAT
* * * * *
1894940 AAATATTTTCCAACTTGTTAAAAAATATATATATATATAATAAGGACAATTTGGTTAAATATATA
377 AAATATTTTACAACTTG-T-AAAAATATACAAATATATAATAAGGACAATTTGGTCAAATATACA
* * * *
1895005 TTCCAATAATCTTTTATTTCTTTAATCAAACACGGTAATCTTACATTCCTGCTAAACTAACCAAA
440 TTCCAATAATCTTTTATTCCTTTAACCAAACAAGGTAATCTTACATTCCTGCTAAACCAACCAAA
* **
1895070 CACAAAATACAACATTCTCAGTAATTTTATTCCCTAGTAATCTTTTATTCTCACTGGTAATCTTA
505 CACAAAATACAACATTCCCAGTAATCCTATTCCCTAGTAATCTTTTATTCTCACTGGTAATCTTA
*
1895135 CATTCCGTGAATCAAACGCACCCTTA
570 CATTCCGTGAACCAAACGCACCCTTA
1895161 AGATTATACT
Statistics
Matches: 540, Mismatches: 48, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
618 12 0.02
619 4 0.01
620 114 0.21
621 8 0.01
625 9 0.02
626 155 0.29
627 51 0.09
628 1 0.00
629 186 0.34
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (620 bp):
TTTGGTTGGCCGGGAATCACATTCCTGGTAATCTTATATTACCAATAGTAAATCTTTTGGGGTAT
ATTACCGAGAATCTCATTACCTCCCTTTCCTTAGATATTGTAACATTACCGGTATTTTGGACTAA
AATGCCCTTAAATTTTTTTTTCTATCAATATTTCTGTCATTAAATAATAAAAATTCTACGAAAGT
TAAATTACAAATTTATCCTTAAAATATTTTAGATTTACAAAAAAAAATCTATAATTAAAATTTTA
TATGAAGTTCAAGGGTTAAAAAAAATTTACCCTTTCATTAAATCCTTTTTATATTTTCAATATTG
TAAAAAAAATTATATAAATATTATGAATTTAAATTTTTAAAGAAAATATATAAATATTTTACAAC
TTGTAAAAATATACAAATATATAATAAGGACAATTTGGTCAAATATACATTCCAATAATCTTTTA
TTCCTTTAACCAAACAAGGTAATCTTACATTCCTGCTAAACCAACCAAACACAAAATACAACATT
CCCAGTAATCCTATTCCCTAGTAATCTTTTATTCTCACTGGTAATCTTACATTCCGTGAACCAAA
CGCACCCTTATGGGAATAGAATCTATATTCCCCCT
Found at i:1896474 original size:4 final size:4
Alignment explanation
Indices: 1896461--1896509 Score: 55
Period size: 4 Copynumber: 12.0 Consensus size: 4
1896451 GTTAGATAAC
* *
1896461 AAAT -AAT AAAT AAAT TAAT AAAT AAAT AAAT AAAAT AAAGT AAAA AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA-T AAAT AAAT
1896510 CAAAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
3 3 0.08
4 27 0.71
5 8 0.21
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1896560 original size:24 final size:24
Alignment explanation
Indices: 1896533--1896683 Score: 75
Period size: 23 Copynumber: 6.2 Consensus size: 24
1896523 AATGAAAATG
1896533 AAAATAGATAAAAAAAAAAT-ATAA
1 AAAATA-ATAAAAAAAAAATAATAA
* **
1896557 AAAATATTAAAATGAAAATAATAA
1 AAAATAATAAAAAAAAAATAATAA
** *
1896581 AAAATAA-AGATAAGCGAAATTAAGTAA
1 AAAATAATA-A-AA-AAAAAATAA-TAA
* *
1896608 AAAA-AAT-AAAATAAAAGAAT-A
1 AAAATAATAAAAAAAAAATAATAA
1896629 AAAATAATAAAAAAATAAA-AA-AA
1 AAAATAATAAAAAAA-AAATAATAA
1896652 ACAAGATAGA-AAATAAAAAAATAATAA
1 A-AA-ATA-ATAAA-AAAAAAATAATAA
1896679 TAAAA
1 -AAAA
1896684 AGGTTAAATT
Statistics
Matches: 99, Mismatches: 11, Indels: 32
0.70 0.08 0.23
Matches are distributed among these distances:
21 5 0.05
22 4 0.04
23 25 0.25
24 24 0.24
25 12 0.12
26 17 0.17
27 11 0.11
28 1 0.01
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.17
Consensus pattern (24 bp):
AAAATAATAAAAAAAAAATAATAA
Found at i:1896603 original size:37 final size:37
Alignment explanation
Indices: 1896521--1896593 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
1896511 AAAAAAAATG
* *
1896521 AAAATGAAAATGAAAATAGATAAAAAAAAAATATAAA
1 AAAATTAAAATGAAAATAGATAAAAAAAAAAGATAAA
*
1896558 AAATATTAAAATGAAAATA-ATAAAAAATAAAGATAA
1 AAA-ATTAAAATGAAAATAGATAAAAAAAAAAGATAA
1896594 GCGAAATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 18 0.56
38 14 0.44
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (37 bp):
AAAATTAAAATGAAAATAGATAAAAAAAAAAGATAAA
Found at i:1896640 original size:29 final size:29
Alignment explanation
Indices: 1896480--1896683 Score: 86
Period size: 29 Copynumber: 6.8 Consensus size: 29
1896470 ATAAATTAAT
* **
1896480 AAAT-AAATAAATAAAATAAAGTAA-A-A
1 AAATAAAAAAAATAAAATAAAAGAATAGA
1896506 AAATCAAAAAAAATGAAAATGAAAATGAAAATAGA
1 AAAT-AAAAAAAAT-AAAAT-AAAA-G--AATAGA
*
1896541 TAAA-AAAAAAATATAAAA-AATATTAAAAT-GA
1 -AAATAAAAAAA-ATAAAATAA-A--AGAATAGA
** **
1896572 AAATAATAAAAAATAAAGATAAGCGAA-ATT
1 AAATAA-AAAAAATAAA-ATAAAAGAATAGA
*
1896602 AAGTAAAAAAAATAAAATAAAAGAATA-A
1 AAATAAAAAAAATAAAATAAAAGAATAGA
*
1896630 AAATAATAAAAAAATAAAA-AAAACAAGATAGA
1 AAAT-A-AAAAAAATAAAATAAAA-GA-ATAGA
1896662 AAAT-AAAAAAATAATAATAAAA
1 AAATAAAAAAAATAA-AATAAAA
1896684 AGGTTAAATT
Statistics
Matches: 136, Mismatches: 15, Indels: 49
0.68 0.08 0.25
Matches are distributed among these distances:
26 4 0.03
28 17 0.12
29 31 0.23
30 28 0.21
31 16 0.12
32 16 0.12
33 5 0.04
34 12 0.09
35 4 0.03
36 3 0.02
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.17
Consensus pattern (29 bp):
AAATAAAAAAAATAAAATAAAAGAATAGA
Found at i:1896648 original size:17 final size:17
Alignment explanation
Indices: 1896617--1896649 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1896607 AAAAAAATAA
*
1896617 AATAAAAGAATAAAAAT
1 AATAAAAAAATAAAAAT
1896634 AATAAAAAAATAAAAA
1 AATAAAAAAATAAAAA
1896650 AAACAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
AATAAAAAAATAAAAAT
Found at i:1896665 original size:32 final size:30
Alignment explanation
Indices: 1896606--1896684 Score: 90
Period size: 32 Copynumber: 2.6 Consensus size: 30
1896596 GAAATTAAGT
*
1896606 AAAAAAAAT-AAAATAAAAGAATAAAAATA
1 AAAAAAAATAAAAAAAAAAGAATAAAAATA
1896635 ATAAAAAAATAAAAAAAACAAG-ATAGAAAATA
1 A-AAAAAAATAAAAAAAA-AAGAATA-AAAATA
*
1896667 AAAAAATAATAATAAAAA
1 AAAAAA-AATAAAAAAAA
1896685 GGTTAAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
29 1 0.02
30 8 0.19
31 14 0.33
32 20 0.47
ACGTcount: A:0.81, C:0.01, G:0.04, T:0.14
Consensus pattern (30 bp):
AAAAAAAATAAAAAAAAAAGAATAAAAATA
Found at i:1898825 original size:94 final size:94
Alignment explanation
Indices: 1898713--1899684 Score: 1368
Period size: 94 Copynumber: 10.0 Consensus size: 94
1898703 TGGAACTGGA
* * * *
1898713 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1898778 ATATCCTTCGTTGTGAAGTTGAAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGG
1898807 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1898872 ATATCCTTCGCTGTGAAGTTGAAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGG
1898901 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1898966 ATGTCCTTCGTTGTGAAGTTGAAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGG
* *
1898995 AAATTGTTTGTTGATAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
1899060 ATATCCTTCGCTGTGAAATTGAAATTGGC
66 ATATCCTTCGTTGTGAAGTTGAAATTGGG
1899089 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1899154 ATATCCTTCGCTGTGAAGTTGAAATTAGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGG
* *
1899183 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTTCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1899248 ATATCCTTCGCTGTGAAGTTGAAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGG
* *
1899277 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1899342 ATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTG
66 ATATCCTTCGTTGTGAAGTTGAAATT-G----G-----G
*
1899381 AGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1 A-AA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1899446 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG
64 CAATATCCTTCGTTGTGAAGTTGAAATT-G----G-----G
*
1899487 AGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1 A-AA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1899552 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG
64 CAATATCCTTCGTTGTGAAGTTGAAATT-G----G-----G
* * *
1899593 AGAAGTTGTTTATTGACAACCACCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTC
1 A-AA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * * * *
1899658 CAATTTTCTTCGCTGCGAAGTAGAAAT
64 CAATATCCTTCGTTGTGAAGTTGAAAT
1899685 AGACTCTGAA
Statistics
Matches: 831, Mismatches: 35, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
94 537 0.65
95 1 0.00
99 1 0.00
104 2 0.00
105 2 0.00
106 288 0.35
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (94 bp):
AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGG
Found at i:1899451 original size:106 final size:106
Alignment explanation
Indices: 1899267--1899720 Score: 721
Period size: 106 Copynumber: 4.2 Consensus size: 106
1899257 GCTGTGAAGT
* * * *
1899267 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTACGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
*
1899332 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
1899373 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1899438 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
1899479 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1899544 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
1899585 TGAAATTGAGAAGTTGTTTATTGACAACCACCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
* * * * * * *
1899650 CTGGAGTCCAATTTTCTTCGCTGCGAAGTAGAAATAGACTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
1899691 TGAATGAAGTTG-GAAAGTTGTTTATTGACA
1 TG-A--AA-TTGAG-AAGTTGTTTATTGACA
1899721 GACAACTTTT
Statistics
Matches: 328, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
106 305 0.93
107 1 0.00
109 3 0.01
110 19 0.06
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (106 bp):
TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:1903526 original size:4 final size:4
Alignment explanation
Indices: 1903513--1903574 Score: 65
Period size: 4 Copynumber: 15.2 Consensus size: 4
1903503 GTTAGATAAC
*
1903513 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAAT AAAGT AAAA AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA-T AAAT AAAT
*
1903562 CAAA- AAAA AAAT A
1 -AAAT AAAT AAAT A
1903575 TGAAAATGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
3 6 0.12
4 33 0.66
5 11 0.22
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:1903548 original size:25 final size:25
Alignment explanation
Indices: 1903517--1903709 Score: 70
Period size: 26 Copynumber: 7.9 Consensus size: 25
1903507 GATAACAAAT
1903517 AATAAAT-AAATAAATAAATAAATA
1 AATAAATAAAATAAATAAATAAATA
* *
1903541 AATAAAATAAAGTAAAAAAATCAAA-A
1 AAT-AAATAAAATAAATAAAT-AAATA
* ** *
1903567 AAAAAATATGA-AAAT-GA-AAATA
1 AATAAATAAAATAAATAAATAAATA
* * *
1903589 GATAAAAAAATATAAATATATAAA-A
1 AATAAATAAA-ATAAATAAATAAATA
* * *
1903614 AAT-ATTAAAAT-GA-CAAT-AATA
1 AATAAATAAAATAAATAAATAAATA
* *
1903635 AA-AAATAAAGATAAGTGAAATTAAGTA
1 AATAAATAAA-ATAAAT-AAA-TAAATA
* *
1903662 AA-ATAATAAAATAAAAAAATTAAAAA
1 AATA-AATAAAATAAATAAA-TAAATA
*
1903688 AATAAA-AAAATAAAAAAATAAA
1 AATAAATAAAATAAATAAATAAA
1903710 AAAAACAAGA
Statistics
Matches: 122, Mismatches: 29, Indels: 36
0.65 0.16 0.19
Matches are distributed among these distances:
20 2 0.02
21 13 0.11
22 9 0.07
23 4 0.03
24 18 0.15
25 27 0.22
26 29 0.24
27 14 0.11
28 6 0.05
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.21
Consensus pattern (25 bp):
AATAAATAAAATAAATAAATAAATA
Found at i:1903673 original size:8 final size:8
Alignment explanation
Indices: 1903513--1903740 Score: 79
Period size: 8 Copynumber: 28.1 Consensus size: 8
1903503 GTTAGATAAC
1903513 AAATAAT-
1 AAATAATA
1903520 AAATAA-A
1 AAATAATA
1903527 TAAATAA-A
1 -AAATAATA
1903535 TAAATAAATA
1 -AAAT-AATA
1903545 AAATAAAGTA
1 AAAT-AA-TA
*
1903555 AAAAAATCA
1 AAATAAT-A
1903564 AAA-AA-A
1 AAATAATA
1903570 AAAT-ATGA
1 AAATAAT-A
*
1903578 AAAT--GA
1 AAATAATA
1903584 AAATAGATA
1 AAATA-ATA
*
1903593 AAAAAATA
1 AAATAATA
1903601 TAAATATATA
1 -AAATA-ATA
1903611 AAA-AATA
1 AAATAATA
*
1903618 TTAA-AATGA
1 -AAATAAT-A
*
1903627 CAATAATA
1 AAATAATA
1903635 AAA-AATA
1 AAATAATA
1903642 AAGATAAGTGA
1 AA-ATAA-T-A
*
1903653 AATTAAGTA
1 AAATAA-TA
1903662 AAATAATA
1 AAATAATA
*
1903670 AAATAAAA
1 AAATAATA
*
1903678 AAATTAAAA
1 AAA-TAATA
*
1903687 AAATAAAA
1 AAATAATA
*
1903695 AAATAAAA
1 AAATAATA
1903703 AAATAA-A
1 AAATAATA
*
1903710 AAA-AACA
1 AAATAATA
* *
1903717 AGAT-AGA
1 AAATAATA
*
1903724 AAATAAAA
1 AAATAATA
1903732 AAATAATA
1 AAATAATA
1903740 A
1 A
1903741 TAAAAAGGTT
Statistics
Matches: 180, Mismatches: 16, Indels: 49
0.73 0.07 0.20
Matches are distributed among these distances:
6 12 0.07
7 27 0.15
8 76 0.42
9 47 0.26
10 15 0.08
11 3 0.02
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (8 bp):
AAATAATA
Found at i:1903711 original size:25 final size:25
Alignment explanation
Indices: 1903513--1903737 Score: 105
Period size: 25 Copynumber: 8.2 Consensus size: 25
1903503 GTTAGATAAC
* *
1903513 AAATAATAAATAAATAAATAAATAAAT
1 AAATAA-AAA-AAATAAAAAAATAAAA
*
1903540 AAATAAAATAAAGTAAAAAAATCAAAA
1 AAATAAAA-AAAATAAAAAAAT-AAAA
*
1903567 AAA-AAATATGAAAATGAAAATAGATAAAA
1 AAATAAA-A--AAAAT-AAAA-AAATAAAA
* *
1903596 AAATATAAATATATAAAAAATATTAAAA
1 AAATA-AAAAAAATAAAAAA-A-TAAAA
* *
1903624 TGACAATAATAAAAAAT--AAAGATAAGTGA
1 --A-AATAA-AAAAAATAAAAAAATAA--AA
* ** *
1903653 AATTAAGTAAAATAATAAAATAAAA
1 AAATAAAAAAAATAAAAAAATAAAA
*
1903678 AAATTAAAAAAATAAAAAAATAAAA
1 AAATAAAAAAAATAAAAAAATAAAA
*
1903703 AAATAAAAAAAACAAGATAGAAAATAAAA
1 AAATAAAAAAAA-TA-A-A-AAAATAAAA
1903732 AAATAA
1 AAATAA
1903738 TAATAAAAAG
Statistics
Matches: 150, Mismatches: 26, Indels: 42
0.69 0.12 0.19
Matches are distributed among these distances:
25 37 0.25
26 21 0.14
27 30 0.20
28 14 0.09
29 30 0.20
30 7 0.05
31 11 0.07
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (25 bp):
AAATAAAAAAAATAAAAAAATAAAA
Found at i:1905932 original size:2 final size:2
Alignment explanation
Indices: 1905925--1905973 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1905915 TCATCACCTT
1905925 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1905967 TA TA TA T
1 TA TA TA T
1905974 GGTATTATCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1908682 original size:74 final size:73
Alignment explanation
Indices: 1908561--1908708 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 73
1908551 ATCTACAGGT
1908561 GATAGAGATTAGTTACAAGTGTGTTACCTTGAACTTTTAAGTTGATGTCACACTTCTCTATCATC
1 GATAGAGATTAGTTACAAGTGTGTTACCTTGAACTTTTAAGTTGATGTCACACTTCTCTA-CATC
1908626 TAAGAGCTA
65 TAAGAGCTA
1908635 GATAGAGATTAGTTACAAGTGTGTTACCTTGAACTTTTAAGTTGATGTCACACTTCTCTACATCT
1 GATAGAGATTAGTTACAAGTGTGTTACCTTGAACTTTTAAGTTGATGTCACACTTCTCTACATCT
1908700 AAGAGCTA
66 AAGAGCTA
1908708 G
1 G
1908709 CTTTTTCTTT
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 14 0.19
74 60 0.81
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (73 bp):
GATAGAGATTAGTTACAAGTGTGTTACCTTGAACTTTTAAGTTGATGTCACACTTCTCTACATCT
AAGAGCTA
Found at i:1910474 original size:20 final size:21
Alignment explanation
Indices: 1910436--1910474 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1910426 TTTTAATAAA
1910436 ATAAAATATCTTATTCAAATC
1 ATAAAATATCTTATTCAAATC
1910457 ATAAAA-AT-TTATTTCAAA
1 ATAAAATATCTTA-TTCAAA
1910475 AATCTCATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 8 0.47
21 6 0.35
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAAATATCTTATTCAAATC
Found at i:1913211 original size:27 final size:25
Alignment explanation
Indices: 1913172--1913221 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
1913162 TTTAAATAAT
*
1913172 AAAAAAATATTTAATACAAAATTCG
1 AAAAAAATATTTAAAACAAAATTCG
1913197 AAAAAAATAATTTTAAAACAAAATT
1 AAAAAAAT-A-TTTAAAACAAAATT
1913222 TATGAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.36
26 1 0.05
27 13 0.59
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (25 bp):
AAAAAAATATTTAAAACAAAATTCG
Found at i:1913415 original size:18 final size:18
Alignment explanation
Indices: 1913392--1913429 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1913382 AATTTACAAT
1913392 AAAAAATCACAA-ATCACA
1 AAAAAATCA-AATATCACA
*
1913410 AAAAAATGAAATATCACA
1 AAAAAATCAAATATCACA
1913428 AA
1 AA
1913430 TTACAATCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.68, C:0.16, G:0.03, T:0.13
Consensus pattern (18 bp):
AAAAAATCAAATATCACA
Found at i:1914714 original size:20 final size:21
Alignment explanation
Indices: 1914689--1914740 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1914679 TTTTCCCAAT
*
1914689 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1914709 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1914730 TCGCAATGCGA
1 TCGCAATGCGA
1914741 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1914753 original size:41 final size:41
Alignment explanation
Indices: 1914726--1914857 Score: 133
Period size: 41 Copynumber: 3.2 Consensus size: 41
1914716 GCGAATTGGG
* * *
1914726 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAC
* * *
1914767 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTTAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA-ATAC
** * * *
1914809 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAC
*
1914848 ATAATCGCAA
1 AAAATCGCAA
1914858 TGCGATTTTC
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.04
40 30 0.41
41 38 0.51
42 3 0.04
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAC
Found at i:1914754 original size:20 final size:19
Alignment explanation
Indices: 1914729--1914863 Score: 99
Period size: 20 Copynumber: 6.7 Consensus size: 19
1914719 AATTGGGAAA
*
1914729 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACT-ACT
* * *
1914749 ATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATACTAC--T
*
1914770 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATAC-TACT
*
1914790 TTCGCAACGCGATACTTACT
1 ATCGCAACGCGATAC-TACT
* *
1914810 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACT-ACT
* *
1914830 TTCGCAACGCGATAATACAT
1 ATCGCAACGCGATACTAC-T
*
1914850 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
1914864 TTTCAAAGCG
Statistics
Matches: 96, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
19 5 0.05
20 65 0.68
21 23 0.24
22 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (19 bp):
ATCGCAACGCGATACTACT
Found at i:1914830 original size:24 final size:20
Alignment explanation
Indices: 1914771--1914843 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
1914761 TAATACAAAA
*
1914771 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTTACTT
1914791 TCGCAACGCGATACTTACTT
1 TCGCAACGCGATACTTACTT
* *
1914811 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTTACTT
1914831 TCGCAACGCGATA
1 TCGCAACGCGATA
1914844 ATACATAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATACTTACTT
Found at i:1915381 original size:20 final size:20
Alignment explanation
Indices: 1915322--1915385 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
1915312 GCGATTTTAG
*
1915322 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
1915342 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
1915362 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
1915382 TTTC
1 TTTC
1915386 AGAAACTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:1916726 original size:18 final size:18
Alignment explanation
Indices: 1916705--1916749 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1916695 TCCACTTCGG
*
1916705 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1916723 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1916741 GAGCCATCA
1 GAGCCATCA
1916750 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Done.