Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_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: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 37
Found at i:3139242 original size:15 final size:15
Alignment explanation
Indices: 3139224--3139255 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3139214 TACAAAAAAT
3139224 TTTAATAAGGTTTTG
1 TTTAATAAGGTTTTG
3139239 TTTAATAAGGTTTTG
1 TTTAATAAGGTTTTG
3139254 TT
1 TT
3139256 CTTCGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (15 bp):
TTTAATAAGGTTTTG
Found at i:3144176 original size:21 final size:21
Alignment explanation
Indices: 3144149--3144328 Score: 116
Period size: 20 Copynumber: 8.8 Consensus size: 21
3144139 CGCGTTACAT
3144149 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATAGTTGAAA
* * ** *
3144170 ATCGCGTTGCGAT-TTTCCAT
1 TTCGCGTTGCGATAGTTGAAA
3144190 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATAGTTGAAA
* ** *
3144211 TTCGCGTTGCGAT-TTTCCAT
1 TTCGCGTTGCGATAGTTGAAA
**
3144231 TTCGCGTTGTTATAGTTGAAA
1 TTCGCGTTGCGATAGTTGAAA
* * * ** *
3144252 ATCGTGTTGCGAT-TTTCCAT
1 TTCGCGTTGCGATAGTTGAAA
*
3144272 TTTGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATAGTTGAAA
* * * ** *
3144293 ATCGCATTGCGAT-TTTCCAT
1 TTCGCGTTGCGATAGTTGAAA
3144313 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
3144329 CTACAGTTGT
Statistics
Matches: 110, Mismatches: 45, Indels: 8
0.67 0.28 0.05
Matches are distributed among these distances:
20 56 0.51
21 54 0.49
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTTGAAA
Found at i:3144191 original size:41 final size:41
Alignment explanation
Indices: 3144146--3144328 Score: 312
Period size: 41 Copynumber: 4.5 Consensus size: 41
3144136 ATTCGCGTTA
3144146 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
3144187 CATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
** *
3144228 CATTTCGCGTTGTTATAGTTGAAAATCGTGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
3144269 CATTTTGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
3144310 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
3144329 CTACAGTTGT
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 131 1.00
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.39
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:3144345 original size:22 final size:22
Alignment explanation
Indices: 3144317--3144369 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
3144307 TTCCATTTCG
3144317 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* *
3144339 TGTTGCGAAAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
3144361 CGTTGCGAT
1 CGTTGCGAT
3144370 TTTCCAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:3144478 original size:6 final size:6
Alignment explanation
Indices: 3144467--3144505 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
3144457 AGACACGTAT
3144467 GACCAC GACCAC GACCAC GACCAC GACCAC GACC-C GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACC
3144506 CGAGACAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.31, C:0.51, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:3145134 original size:20 final size:20
Alignment explanation
Indices: 3145109--3145309 Score: 206
Period size: 20 Copynumber: 9.9 Consensus size: 20
3145099 ACAACGAATT
3145109 TGGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAA
**
3145129 TGGAAAATCGCAACGCGATT
1 TGGAAAATCGCAACGCGAAA
** *
3145149 TTCAACTATCGCAACGCGAAA
1 TGGAA-AATCGCAACGCGAAA
*
3145170 TGGAAAATCGCAACGC-AATT
1 TGGAAAATCGCAACGCGAA-A
** * *
3145190 TTCAACTATCGCAACGCGAAC
1 TGGAA-AATCGCAACGCGAAA
3145211 TGGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAA
*
3145231 CGGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAA
*
3145251 TGGAAAATCGCAACGCGAAT
1 TGGAAAATCGCAACGCGAAA
** * * *
3145271 TTCAACTATCGCAATGCGAAT
1 TGGAA-AATCGCAACGCGAAA
3145292 TGGAAAATCGCAACGCGA
1 TGGAAAATCGCAACGCGA
3145310 TTTTCAACTA
Statistics
Matches: 146, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.01
20 98 0.67
21 44 0.30
22 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (20 bp):
TGGAAAATCGCAACGCGAAA
Found at i:3145160 original size:41 final size:41
Alignment explanation
Indices: 3145115--3145330 Score: 326
Period size: 41 Copynumber: 5.3 Consensus size: 41
3145105 AATTTGGAAA
3145115 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
*
3145156 ATCGCAACGCGAAATGGAAAATCGCAACGCAATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
* ***** *
3145197 ATCGCAACGCGAACTGGAAAATCGCAACGCGAAACGGAA-A
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
*
3145237 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
* *
3145278 ATCGCAATGCGAATTGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
3145319 ATCGCAACGCGA
1 ATCGCAACGCGA
3145331 TTTTCAATTA
Statistics
Matches: 155, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 34 0.22
41 121 0.78
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:3145327 original size:122 final size:122
Alignment explanation
Indices: 3145110--3145330 Score: 406
Period size: 122 Copynumber: 1.8 Consensus size: 122
3145100 CAACGAATTT
*
3145110 GGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAA
1 GGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAA
3145175 AATCGCAACGCAATTTTCAACTATCGCAACGCGAACTGGAAAATCGCAACGCGAAAC
66 AATCGCAACGCAATTTTCAACTATCGCAACGCGAACTGGAAAATCGCAACGCGAAAC
* *
3145232 GGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAATGCGAATTGGAA
1 GGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAA
*
3145297 AATCGCAACGCGATTTTCAACTATCGCAACGCGA
66 AATCGCAACGCAATTTTCAACTATCGCAACGCGA
3145331 TTTTCAATTA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
122 95 1.00
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (122 bp):
GGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAA
AATCGCAACGCAATTTTCAACTATCGCAACGCGAACTGGAAAATCGCAACGCGAAAC
Found at i:3148389 original size:9 final size:8
Alignment explanation
Indices: 3148371--3148405 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
3148361 TTTATTCTTC
3148371 AAAGAAAA
1 AAAGAAAA
3148379 AAAGAAAA
1 AAAGAAAA
* *
3148387 AAATAATA
1 AAAGAAAA
3148395 AAAGAAAA
1 AAAGAAAA
3148403 AAA
1 AAA
3148406 TGAATCACTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.06
Consensus pattern (8 bp):
AAAGAAAA
Found at i:3160308 original size:35 final size:35
Alignment explanation
Indices: 3160245--3160353 Score: 125
Period size: 34 Copynumber: 3.1 Consensus size: 35
3160235 TTATCGTTTT
* *
3160245 TTTTTTACATCAATAC-TCGCACCAAAAACAATATCG
1 TTTTTTGCATCAATACAT-GCA-CTAAAACAATATCG
* *
3160281 TTTTTTGCATCAATACATGTA-TCAAAACGATATC-
1 TTTTTTGCATCAATACATGCACT-AAAACAATATCG
*
3160315 TTTTTTGCATCAATACTTGCACTAAAACAATATCG
1 TTTTTTGCATCAATACATGCACTAAAACAATATCG
3160350 TTTT
1 TTTT
3160354 GTCTATGTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
34 29 0.47
35 15 0.24
36 17 0.27
37 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (35 bp):
TTTTTTGCATCAATACATGCACTAAAACAATATCG
Found at i:3161650 original size:13 final size:14
Alignment explanation
Indices: 3161625--3161661 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
3161615 ACTAAATTAA
3161625 ACAAATATAAAA-TT
1 ACAAAT-TAAAATTT
3161639 ACAAATTAAAATTT
1 ACAAATTAAAATTT
3161653 A-AAATTAAA
1 ACAAATTAAA
3161662 TAAATTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATTAAAATTT
Found at i:3161818 original size:20 final size:20
Alignment explanation
Indices: 3161793--3161833 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3161783 ATATAATATG
3161793 TATGATGAATGT-TATGATAA
1 TATGATGAATGTATAT-ATAA
*
3161813 TATGATGCATGTATATATAA
1 TATGATGAATGTATATATAA
3161833 T
1 T
3161834 GTGCATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.41
Consensus pattern (20 bp):
TATGATGAATGTATATATAA
Found at i:3161922 original size:25 final size:27
Alignment explanation
Indices: 3161894--3161953 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
3161884 TATAAATAAG
*
3161894 TATAAGTATAT-AAAGTATATACA-TA
1 TATAAGTATATCAAAGTATATAAACTA
3161919 TAT-A-TATATGCAAAGTATATAAACTA
1 TATAAGTATAT-CAAAGTATATAAACTA
3161945 TA-AAGTATA
1 TATAAGTATA
3161954 AGTATAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
23 5 0.17
24 1 0.03
25 14 0.48
26 5 0.17
27 4 0.14
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (27 bp):
TATAAGTATATCAAAGTATATAAACTA
Found at i:3161926 original size:29 final size:29
Alignment explanation
Indices: 3161892--3162018 Score: 92
Period size: 29 Copynumber: 4.5 Consensus size: 29
3161882 TATATAAATA
3161892 AGTATAAGTATATAAAGTATATAC-ATAT
1 AGTATAAGTATATAAAGTATATACTATAT
** *
3161920 A-TAT-A-TATGCAAAGTATATAAACTATAA
1 AGTATAAGTATATAAAGTATAT--ACTATAT
3161948 AGTATAAGTATA-AATCA-TATATTA-TATAT
1 AGTATAAGTATATAA--AGTATA-TACTATAT
* *
3161977 A-TATAAAGTATATAAACTATAAACTATA-
1 AGTAT-AAGTATATAAAGTATATACTATAT
3162005 AGTATAAGTATATA
1 AGTATAAGTATATA
3162019 TATGAAGTAT
Statistics
Matches: 79, Mismatches: 6, Indels: 28
0.70 0.05 0.25
Matches are distributed among these distances:
25 12 0.15
26 1 0.01
27 5 0.06
28 20 0.25
29 26 0.33
30 6 0.08
31 7 0.09
32 2 0.03
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (29 bp):
AGTATAAGTATATAAAGTATATACTATAT
Found at i:3161995 original size:51 final size:50
Alignment explanation
Indices: 3161891--3162077 Score: 187
Period size: 54 Copynumber: 3.4 Consensus size: 50
3161881 ATATATAAAT
*
3161891 AAGTATAAGTATATAAAGTATATACATATATATATATGCAAAGTATATAAACTATA
1 AAGTATAAG--TATAAA-TATATA-TTATATATATAT--AAAGTATATAAACTATA
3161947 AAGTATAAGTATAAATCATATATTATATATATATAAAGTATATAAACTATA
1 AAGTATAAGTATAAAT-ATATATTATATATATATAAAGTATATAAACTATA
* * *
3161998 AACTATAAGTATAAGTATATATATGAAGTATATATATAAA-TATATAAAAGTATA
1 AAGTATAAGTATAA--ATATATAT-TA-TATATATATAAAGTATAT-AAACTATA
3162052 AAGTATCTGTAAGTATAAATATATAT
1 AAGTA----TAAGTATAAATATATAT
3162078 AAAATTAATA
Statistics
Matches: 116, Mismatches: 5, Indels: 20
0.82 0.04 0.14
Matches are distributed among these distances:
51 30 0.26
52 6 0.05
53 20 0.17
54 34 0.29
56 17 0.15
58 9 0.08
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.36
Consensus pattern (50 bp):
AAGTATAAGTATAAATATATATTATATATATATAAAGTATATAAACTATA
Found at i:3162051 original size:8 final size:7
Alignment explanation
Indices: 3161936--3162057 Score: 51
Period size: 7 Copynumber: 17.4 Consensus size: 7
3161926 ATGCAAAGTA
*
3161936 TATAAAC
1 TATAAAG
3161943 TATAAAG
1 TATAAAG
3161950 TAT-AAG
1 TATAAAG
3161956 TATAAA-
1 TATAAAG
* *
3161962 TCATATAT
1 T-ATAAAG
3161970 TATATATA-
1 TATA-A-AG
3161978 TATAAAG
1 TATAAAG
*
3161985 TATATAAAC
1 --TATAAAG
*
3161994 TATAAAC
1 TATAAAG
3162001 TAT-AAG
1 TATAAAG
3162007 TAT-AAG
1 TATAAAG
*
3162013 TATATA-
1 TATAAAG
*
3162019 TATGAAG
1 TATAAAG
*
3162026 TATATA-
1 TATAAAG
*
3162032 TATAAATA
1 TATAAA-G
3162040 TATAAAAG
1 TAT-AAAG
3162048 TATAAAG
1 TATAAAG
3162055 TAT
1 TAT
3162058 CTGTAAGTAT
Statistics
Matches: 90, Mismatches: 12, Indels: 26
0.70 0.09 0.20
Matches are distributed among these distances:
6 28 0.31
7 41 0.46
8 11 0.12
9 10 0.11
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.36
Consensus pattern (7 bp):
TATAAAG
Found at i:3162075 original size:54 final size:53
Alignment explanation
Indices: 3161919--3162073 Score: 142
Period size: 51 Copynumber: 2.9 Consensus size: 53
3161909 TATATACATA
* * *
3161919 TATATATATGCAAAGTATATAAACTATAAAGTATAAGTATAA--ATCATATAT-TA-
1 TATATATAT--AAAGTATATAAACTATAAACTAT-ACTATAAGTAT-ATATATGAAG
*
3161972 TATATATATAAAGTATATAAACTATAAACTATAAGTATAAGTATATATATGAAG
1 TATATATATAAAGTATATAAACTATAAACTAT-ACTATAAGTATATATATGAAG
* * * *
3162026 TATATATATAAA-TATATAAAAGTATAAAGTAT-CTGTAAGTATAAATAT
1 TATATATATAAAGTATAT-AAACTATAAACTATACTATAAGTATATATAT
3162074 ATATAAAATT
Statistics
Matches: 90, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
51 30 0.33
52 19 0.21
53 17 0.19
54 24 0.27
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (53 bp):
TATATATATAAAGTATATAAACTATAAACTATACTATAAGTATATATATGAAG
Found at i:3166833 original size:12 final size:12
Alignment explanation
Indices: 3166816--3166858 Score: 59
Period size: 12 Copynumber: 3.4 Consensus size: 12
3166806 TGTGTGTGTA
3166816 ATATATATAATT
1 ATATATATAATT
*
3166828 ATATATATACTT
1 ATATATATAATT
3166840 ATATATTTATAATT
1 ATATA--TATAATT
3166854 ATATA
1 ATATA
3166859 AAGTATCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 16 0.59
14 11 0.41
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
ATATATATAATT
Found at i:3166926 original size:2 final size:2
Alignment explanation
Indices: 3166919--3167121 Score: 100
Period size: 2 Copynumber: 99.0 Consensus size: 2
3166909 TAATTATAAG
* * *
3166919 TA TA TA TA TA TA TA TA TA TA TA TA AA CTA TA AA GTG 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
* * * *
3166963 TA TA TA TA TA CA CA AA GTA TA TA AA CTA TA TA GTA TA -A GTA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA -TA TA
* *
3167006 -A GCA TA TA TA TA TA TA TA TA TA TA TA TA TA AA GTA TA -A GTA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* *
3167047 TA -A TG TA TA TA TA T- TA AA TA TA -A GTA TA TA GTA TA -A GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA
* *
3167086 TA -A TA TA TA AA GTA TA AA GTA TA -A 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
3167122 AGTATAAAGT
Statistics
Matches: 156, Mismatches: 22, Indels: 46
0.70 0.10 0.21
Matches are distributed among these distances:
1 9 0.06
2 132 0.85
3 15 0.10
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.39
Consensus pattern (2 bp):
TA
Found at i:3166935 original size:26 final size:27
Alignment explanation
Indices: 3166913--3167165 Score: 164
Period size: 28 Copynumber: 8.9 Consensus size: 27
3166903 AAAATATAAT
*
3166913 TATAAGTATATA-TATATATATATATA
1 TATAAGTATAAAGTATATATATATATA
* *
3166939 TATAAACTATAAAGTGTATATATATATA
1 TAT-AAGTATAAAGTATATATATATATA
* * *
3166967 TATATA-CACAAAGTATATAAACTATATA
1 TATA-AGTATAAAGTATATATA-TATATA
3166995 GTATAAGTAT-AAGCATATATATATATATA
1 -TATAAGTATAAAG--TATATATATATATA
*
3167024 TATATATATATAAAGTATAAGTATAATGTATATA
1 TATA-A-GTATAAAGTAT-A-TAT-A--TATATA
*
3167058 TATTAAATAT-AAGTATATAGTATAAGTATAATA
1 TA-TAAGTATAAAG--TATA-TAT-A-TAT-ATA
3167091 TATAAAGTATAAAGTATA-ATATATATA
1 TAT-AAGTATAAAGTATATATATATATA
*
3167118 TATAAGTATAAAGTATA-A-A-GTATA
1 TATAAGTATAAAGTATATATATATATA
*
3167142 TATAAGTAT-AAGTATATAAATATA
1 TATAAGTATAAAGTATATATATATA
3167166 AAGTATTAAA
Statistics
Matches: 188, Mismatches: 14, Indels: 50
0.75 0.06 0.20
Matches are distributed among these distances:
23 7 0.04
24 14 0.07
25 2 0.01
26 20 0.11
27 25 0.13
28 34 0.18
29 16 0.09
30 13 0.07
31 6 0.03
32 13 0.07
33 21 0.11
34 15 0.08
35 2 0.01
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (27 bp):
TATAAGTATAAAGTATATATATATATA
Found at i:3167164 original size:6 final size:6
Alignment explanation
Indices: 3166888--3167187 Score: 101
Period size: 6 Copynumber: 47.5 Consensus size: 6
3166878 AAGTATAAGT
* * * * * *
3166888 ATATAA ATAAAA ATAAAA ATATAA TTATAA GTATATAT ATATAT ATATAT
1 ATATAA ATATAA ATATAA ATATAA ATATAA --ATATAA ATATAA ATATAA
* * * * *
3166938 ATATAA ACTATAA AGTGT-- ATATAT ATATAT ATATAC ACA-AA GTATATAA
1 ATATAA A-TATAA A-TATAA ATATAA ATATAA ATATAA ATATAA --ATATAA
* * ** * * * *
3166987 ACTATATA GTATAA GTATAA GCATAT ATATAT ATATAT ATATAT ATATAA
1 A-TATA-A ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
* * * * * *
3167037 AGTATAA GTATAA TGTATAT ATATTAA ATATAA GTATATA GTATAA GTATAA
1 A-TATAA ATATAA -ATATAA ATA-TAA ATATAA ATATA-A ATATAA ATATAA
* *
3167089 TATATAA AGTATAA AGTATAA TATATAT ATATAA GTATAA AGTATAA AGTAT--
1 -ATATAA A-TATAA A-TATAA -ATATAA ATATAA ATATAA A-TATAA A-TATAA
*
3167141 ATATAA GTATAA GTATATAA ATATAA AGTATTAA ATAT-- ATATAA ATA
1 ATATAA ATATAA --ATATAA ATATAA A-TA-TAA ATATAA ATATAA ATA
3167188 AATTAATAAA
Statistics
Matches: 237, Mismatches: 31, Indels: 52
0.74 0.10 0.16
Matches are distributed among these distances:
4 9 0.04
5 3 0.01
6 134 0.57
7 74 0.31
8 17 0.07
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (6 bp):
ATATAA
Found at i:3167175 original size:14 final size:13
Alignment explanation
Indices: 3167026--3167179 Score: 97
Period size: 13 Copynumber: 11.8 Consensus size: 13
3167016 TATATATATA
*
3167026 TATATATATAAAG
1 TATAAATATAAAG
* *
3167039 TATAAGTATAATG
1 TATAAATATAAAG
*
3167052 TATATATATTAAA-
1 TATAAATA-TAAAG
* *
3167065 TATAAGTATATAG
1 TATAAATATAAAG
*
3167078 TATAAGTATAATA-
1 TATAAATATAA-AG
3167091 TATAAAGTATAAAG
1 TATAAA-TATAAAG
*
3167105 TATAATATATATA-
1 TATAA-ATATAAAG
*
3167118 TATAAGTATAAAG
1 TATAAATATAAAG
3167131 TATAAAGTAT--A-
1 TATAAA-TATAAAG
*
3167142 TATAAGTAT-AAG
1 TATAAATATAAAG
3167154 TATATAAATATAAAG
1 --TATAAATATAAAG
3167169 TATTAAATATA
1 TA-TAAATATA
3167180 TATAAATAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
10 3 0.03
11 6 0.05
12 9 0.08
13 50 0.45
14 38 0.35
15 4 0.04
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (13 bp):
TATAAATATAAAG
Found at i:3167197 original size:22 final size:22
Alignment explanation
Indices: 3167087--3167220 Score: 88
Period size: 22 Copynumber: 6.1 Consensus size: 22
3167077 GTATAAGTAT
3167087 AATATATAAAGTATAAAGT-AT-
1 AATATATAAA-TATAAAGTAATA
*
3167108 AATATATATATAT-AAGT-ATA
1 AATATATAAATATAAAGTAATA
3167128 AAGTATA-AAGTATATATAAGT-ATA
1 AA-TATATAA--ATATA-AAGTAATA
* *
3167152 AGTATATAAATATAAAGTATTA
1 AATATATAAATATAAAGTAATA
*
3167174 AATATATATAA-ATAAATTAATA
1 AATATATA-AATATAAAGTAATA
*
3167196 AAT-T-TAAGTATTAAAGTATATA
1 AATATATAAATA-TAAAGTA-ATA
3167218 AAT
1 AAT
3167221 TCAAATTTCC
Statistics
Matches: 92, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
19 7 0.08
20 9 0.10
21 24 0.26
22 36 0.39
23 6 0.07
24 10 0.11
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (22 bp):
AATATATAAATATAAAGTAATA
Found at i:3167215 original size:64 final size:64
Alignment explanation
Indices: 3166916--3167188 Score: 207
Period size: 63 Copynumber: 4.3 Consensus size: 64
3166906 ATATAATTAT
* * * * * *
3166916 AAGTATATATATATATATATATA-TATAAACTATAAAGTGTATAT-A-TAT-ATATATATA-CAC
1 AAGTATA-ATATATATAAATA-AGTATAAAGTATAAAGTATATATAAGTATAATATATAAAGTAT
3166976 A
64 A
* * * *
3166977 AAGTATATAAACTATATAGTATAAGTAT-AAGCATATA-TATATATATA-TATATATATATAAAG
1 AAGTATA-ATA-TATATA-AATAAGTATAAAGTATAAAGTATATATA-AGTATA-ATATATAAAG
3167039 TAT-
61 TATA
* * * *
3167042 AAGTATAATGTATATATATTAAATAT-AAGTAT--A-TA-GTATAAGTATAATATATAAAGTATA
1 AAGTATAATATATATA-AATAAGTATAAAGTATAAAGTATATATAAGTATAATATATAAAGTATA
*
3167102 AAGTATAATATATATATATAAGTATAAAGTATAAAGTATATATAAGTATAAGTATATAAA-TATA
1 AAGTATAATATATATAAATAAGTATAAAGTATAAAGTATATATAAGTATAA-TATATAAAGTATA
3167166 AAGTATTAAATATATATAAATAA
1 AAGTA-T-AATATATATAAATAA
3167189 ATTAATAAAT
Statistics
Matches: 172, Mismatches: 22, Indels: 31
0.76 0.10 0.14
Matches are distributed among these distances:
59 20 0.12
60 29 0.17
61 19 0.11
62 14 0.08
63 30 0.17
64 21 0.12
65 24 0.14
66 15 0.09
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.38
Consensus pattern (64 bp):
AAGTATAATATATATAAATAAGTATAAAGTATAAAGTATATATAAGTATAATATATAAAGTATA
Found at i:3167227 original size:36 final size:36
Alignment explanation
Indices: 3167085--3167217 Score: 116
Period size: 38 Copynumber: 3.7 Consensus size: 36
3167075 TAGTATAAGT
* *
3167085 ATAATATATAAAGTA-TAAAGTATA-ATATATATA-T-
1 ATAA-ATATAAAGTATTAAA-TATATATAAATAAATTA
* * *
3167119 ATAAGTATAAAGTA-TAAAGTATATATAAGTATAAGTA
1 ATAAATATAAAGTATTAAA-TATATATAAATA-AATTA
3167156 TATAAATATAAAGTATTAAATATATATAAATAAATTA
1 -ATAAATATAAAGTATTAAATATATATAAATAAATTA
*
3167193 ATAAAT-TTAAGTATTAAAGTATATA
1 ATAAATATAAAGTATTAAA-TATATA
3167218 AATTCAAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
33 18 0.21
34 9 0.11
35 12 0.14
36 13 0.15
37 4 0.05
38 24 0.29
39 4 0.05
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.37
Consensus pattern (36 bp):
ATAAATATAAAGTATTAAATATATATAAATAAATTA
Found at i:3167260 original size:23 final size:23
Alignment explanation
Indices: 3167234--3167281 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
3167224 AATTTCCTAT
3167234 TTATACTTGAACTAAAATTCAAA
1 TTATACTTGAACTAAAATTCAAA
* **
3167257 TTATATTTGAGTTAAAATTCAAA
1 TTATACTTGAACTAAAATTCAAA
3167280 TT
1 TT
3167282 CAAATTCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (23 bp):
TTATACTTGAACTAAAATTCAAA
Found at i:3170999 original size:16 final size:16
Alignment explanation
Indices: 3170980--3171013 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3170970 CAATATACGA
3170980 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
3170996 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
3171012 AT
1 AT
3171014 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:3171088 original size:16 final size:18
Alignment explanation
Indices: 3171056--3171089 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
3171046 TATTAATGTA
3171056 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
3171074 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
3171090 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:3171764 original size:130 final size:130
Alignment explanation
Indices: 3171560--3171807 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
3171550 AATTTTCTTC
* * *
3171560 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGGTCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
3171625 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
3171690 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
3171755 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
3171808 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:3172255 original size:35 final size:35
Alignment explanation
Indices: 3172205--3172280 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
3172195 AATTGAATTT
* *
3172205 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
3172240 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
3172275 AATTGA
1 AATTGA
3172281 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:3174311 original size:93 final size:94
Alignment explanation
Indices: 3174143--3174330 Score: 272
Period size: 93 Copynumber: 2.0 Consensus size: 94
3174133 TAGGTCGCTT
* * ** *
3174143 ACCTCTAATGTGATTTATCCATTCGTTTATAGATTGGTAATTTAAAAGGTTATTGCATTGAAAGC
1 ACCTATAATGTGATTTATCCATTCATTTATAGATTGGTAATTTAAAAGGACATTGCATGGAAAGC
*
3174208 TGTCCAATCCCATTGATGCAAATTGAATG
66 TGTCCAATCCCATTGATGCAAAATGAATG
*
3174237 ACCTATAATGTGATTTATCCATTTATTTATAGATCT-GT-ATTTAAAAGGACATTGCATGGAAAG
1 ACCTATAATGTGATTTATCCATTCATTTATAGAT-TGGTAATTTAAAAGGACATTGCATGGAAAG
* *
3174300 GTGTCCCATCCCATTGATGCAAAATGAATG
65 CTGTCCAATCCCATTGATGCAAAATGAATG
3174330 A
1 A
3174331 ATTCAGCTGG
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
93 50 0.60
94 33 0.39
95 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (94 bp):
ACCTATAATGTGATTTATCCATTCATTTATAGATTGGTAATTTAAAAGGACATTGCATGGAAAGC
TGTCCAATCCCATTGATGCAAAATGAATG
Found at i:3176292 original size:8 final size:8
Alignment explanation
Indices: 3176279--3176313 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
3176269 CGTTAAATTA
3176279 AAAAAAAT
1 AAAAAAAT
3176287 AAAAAAAT
1 AAAAAAAT
3176295 AAAAAAAT
1 AAAAAAAT
*
3176303 -TAAAAAT
1 AAAAAAAT
3176310 AAAA
1 AAAA
3176314 GACGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAAAAT
Found at i:3176298 original size:15 final size:16
Alignment explanation
Indices: 3176279--3176313 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
3176269 CGTTAAATTA
3176279 AAAAAAATAAAAAAAT
1 AAAAAAATAAAAAAAT
*
3176295 AAAAAAAT-TAAAAAT
1 AAAAAAATAAAAAAAT
3176310 AAAA
1 AAAA
3176314 GACGTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAAAATAAAAAAAT
Found at i:3177580 original size:2 final size:2
Alignment explanation
Indices: 3177575--3177632 Score: 86
Period size: 2 Copynumber: 30.0 Consensus size: 2
3177565 GTTAATTTAT
3177575 TA TA TA -A TA -A TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
3177616 TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA
3177633 ATTTGAGCGG
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
1 3 0.06
2 47 0.90
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3185756 original size:20 final size:20
Alignment explanation
Indices: 3185731--3185769 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3185721 ATTCATAATC
*
3185731 ATAAACAAAACTGCTAAAAG
1 ATAAACAAAACGGCTAAAAG
*
3185751 ATAAACAAGACGGCTAAAA
1 ATAAACAAAACGGCTAAAA
3185770 AGTCATCACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.15, G:0.13, T:0.13
Consensus pattern (20 bp):
ATAAACAAAACGGCTAAAAG
Found at i:3214176 original size:2 final size:2
Alignment explanation
Indices: 3214169--3214198 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3214159 TTTCAAATTA
3214169 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3214199 CATTTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3214438 original size:28 final size:28
Alignment explanation
Indices: 3214398--3214485 Score: 167
Period size: 28 Copynumber: 3.1 Consensus size: 28
3214388 TCTTTCATAC
3214398 AAGATATGAGTAAATCTTAAATTGATAA
1 AAGATATGAGTAAATCTTAAATTGATAA
3214426 AAGATATGAGTAAATCTTAAATTGATAA
1 AAGATATGAGTAAATCTTAAATTGATAA
*
3214454 AAGATATGAGTAAATCTTAAATTAATAA
1 AAGATATGAGTAAATCTTAAATTGATAA
3214482 AAGA
1 AAGA
3214486 AATCTTCAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.52, C:0.03, G:0.14, T:0.31
Consensus pattern (28 bp):
AAGATATGAGTAAATCTTAAATTGATAA
Found at i:3214959 original size:31 final size:31
Alignment explanation
Indices: 3214923--3214983 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
3214913 AAATCACAAA
3214923 ATTTTGAT-AAATTTAATAATCATTTTGTAAC
1 ATTTTGATCAAATTTAATAA-CATTTTGTAAC
*
3214954 ATTTTGATCAAATTTAATGACATTTTGTAA
1 ATTTTGATCAAATTTAATAACATTTTGTAA
3214984 TAGTTCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.48
Consensus pattern (31 bp):
ATTTTGATCAAATTTAATAACATTTTGTAAC
Found at i:3219541 original size:12 final size:12
Alignment explanation
Indices: 3219524--3219609 Score: 91
Period size: 12 Copynumber: 7.2 Consensus size: 12
3219514 AGAGAACCGA
3219524 ATAAACAAGTTT
1 ATAAACAAGTTT
* **
3219536 ATAAACGAGTCA
1 ATAAACAAGTTT
3219548 ATAAACAAGTTT
1 ATAAACAAGTTT
* **
3219560 ATAAACGAGTCA
1 ATAAACAAGTTT
3219572 ATAAACAAGTTT
1 ATAAACAAGTTT
**
3219584 ATAAACAAGTCA
1 ATAAACAAGTTT
*
3219596 ATAAACGAGTTT
1 ATAAACAAGTTT
3219608 AT
1 AT
3219610 CCAAAATAAA
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 57 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (12 bp):
ATAAACAAGTTT
Found at i:3219552 original size:24 final size:24
Alignment explanation
Indices: 3219523--3219609 Score: 156
Period size: 24 Copynumber: 3.6 Consensus size: 24
3219513 AAGAGAACCG
3219523 AATAAACAAGTTTATAAACGAGTC
1 AATAAACAAGTTTATAAACGAGTC
3219547 AATAAACAAGTTTATAAACGAGTC
1 AATAAACAAGTTTATAAACGAGTC
*
3219571 AATAAACAAGTTTATAAACAAGTC
1 AATAAACAAGTTTATAAACGAGTC
*
3219595 AATAAACGAGTTTAT
1 AATAAACAAGTTTAT
3219610 CCAAAATAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (24 bp):
AATAAACAAGTTTATAAACGAGTC
Found at i:3221012 original size:31 final size:31
Alignment explanation
Indices: 3220945--3221004 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
3220935 CAATTTAAGG
*
3220945 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
3220976 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
3221005 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:3221102 original size:19 final size:19
Alignment explanation
Indices: 3221069--3221135 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
3221059 AATGTTTTTA
* *
3221069 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
*
3221088 TGCACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
* *
3221107 TGAACAGTAAATCACTGTT
1 TGAACAGTAAATTACTATT
3221126 TGAACAGTAA
1 TGAACAGTAA
3221136 CCCGAGGCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:3222197 original size:26 final size:26
Alignment explanation
Indices: 3222161--3222216 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
3222151 CCACTTCCAT
3222161 AATACGATTCATGTGTTTGCCTATTG
1 AATACGATTCATGTGTTTGCCTATTG
3222187 AATACGATTCATGTGTTTGCCTATTG
1 AATACGATTCATGTGTTTGCCTATTG
3222213 AATA
1 AATA
3222217 GAAGCTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (26 bp):
AATACGATTCATGTGTTTGCCTATTG
Found at i:3226053 original size:185 final size:175
Alignment explanation
Indices: 3225809--3226254 Score: 624
Period size: 185 Copynumber: 2.5 Consensus size: 175
3225799 ATCGAACCAA
* * *
3225809 AATTTCGGTTCAATTAATGTTAAAGAAAAAAATTCGGTTAATTTGGTTCGGTTAATAATTTTCAA
1 AATTTCGGTTCGATTAATGTTAAAGAAAAAAA-TCGGTTGATTTGGTTCAGTTAATAATTTTCAA
* * * *
3225874 ATAAATTTTGGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAATGTTAAAGAAAAAAATCGG
65 ATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGTTAAAGAAAAAAATCAG
* *
3225939 TGGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTTGATTAACGGTCAAAT
130 TGGATTTGGTTCGG---------TT--AATAAATTTCGGATCGATTAACGGTCAAAT
*
3225996 AATTTTGGTTCGATTAATGTTAAAG-AAAAAATCGGTTGATTTGGTTCAGTTAATAATTTTCAAA
1 AATTTCGGTTCGATTAATGTTAAAGAAAAAAATCGGTTGATTTGGTTCAGTTAATAATTTTCAAA
*
3226060 TAAATTTCGGTTCGATTAACTGTCAAATAATTTCGGTTCAATTAATGTTAAAGAAAAAAATCAGT
66 TAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGTTAAAGAAAAAAATCAGT
* *
3226125 TGATTTGGTTCGGTTAATAAATTTCGGATCGATTAACGGTGAAAT
131 GGATTTGGTTCGGTTAATAAATTTCGGATCGATTAACGGTCAAAT
* * *
3226170 AATTTCGGTTCGATTAATGTTAAAGAAAAAAAATCAGTGGATTTGGTTCTGTTAATAATTTTCAA
1 AATTTCGGTTCGATTAATGTTAAAG-AAAAAAATCGGTTGATTTGGTTCAGTTAATAATTTTCAA
3226235 ATAAATTTCGGTTCGATTAA
65 ATAAATTTCGGTTCGATTAA
3226255 TGTTAAAGAA
Statistics
Matches: 240, Mismatches: 17, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
174 51 0.21
176 57 0.24
185 103 0.43
186 6 0.03
187 23 0.10
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (175 bp):
AATTTCGGTTCGATTAATGTTAAAGAAAAAAATCGGTTGATTTGGTTCAGTTAATAATTTTCAAA
TAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGTTAAAGAAAAAAATCAGT
GGATTTGGTTCGGTTAATAAATTTCGGATCGATTAACGGTCAAAT
Found at i:3226068 original size:92 final size:93
Alignment explanation
Indices: 3225809--3226254 Score: 646
Period size: 93 Copynumber: 4.9 Consensus size: 93
3225799 ATCGAACCAA
* *
3225809 AATTTCGGTTCAATTAATGTTAAAGAAAAAAATTCGGTTAATTTGGTTCGGTTAATAATTTTCAA
1 AATTTCGGTTCGATTAATGTTAAAGAAAAAAA-TCGGTTGATTTGGTTCGGTTAATAATTTTCAA
*
3225874 ATAAATTTTGGTTCGATTAACGGTCAAAT
65 ATAAATTTCGGTTCGATTAACGGTCAAAT
* *
3225903 AATTTTGGTTCGATTAATGTTAAAGAAAAAAATCGGTGGATTTGGTTCGGTTAATAATTTTCAAA
1 AATTTCGGTTCGATTAATGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATTTTCAAA
*
3225968 TAAATTTCGGTTTGATTAACGGTCAAAT
66 TAAATTTCGGTTCGATTAACGGTCAAAT
* *
3225996 AATTTTGGTTCGATTAATGTTAAAG-AAAAAATCGGTTGATTTGGTTCAGTTAATAATTTTCAAA
1 AATTTCGGTTCGATTAATGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATTTTCAAA
*
3226060 TAAATTTCGGTTCGATTAACTGTCAAAT
66 TAAATTTCGGTTCGATTAACGGTCAAAT
* *
3226088 AATTTCGGTTCAATTAATGTTAAAGAAAAAAATCAGTTGATTTGGTTCGG---------TT--AA
1 AATTTCGGTTCGATTAATGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATTTTCAAA
* *
3226142 TAAATTTCGGATCGATTAACGGTGAAAT
66 TAAATTTCGGTTCGATTAACGGTCAAAT
* * *
3226170 AATTTCGGTTCGATTAATGTTAAAGAAAAAAAATCAGTGGATTTGGTTCTGTTAATAATTTTCAA
1 AATTTCGGTTCGATTAATGTTAAAG-AAAAAAATCGGTTGATTTGGTTCGGTTAATAATTTTCAA
3226235 ATAAATTTCGGTTCGATTAA
65 ATAAATTTCGGTTCGATTAA
3226255 TGTTAAAGAA
Statistics
Matches: 318, Mismatches: 21, Indels: 26
0.87 0.06 0.07
Matches are distributed among these distances:
82 51 0.16
83 23 0.07
84 2 0.01
92 88 0.28
93 104 0.33
94 50 0.16
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (93 bp):
AATTTCGGTTCGATTAATGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATTTTCAAA
TAAATTTCGGTTCGATTAACGGTCAAAT
Found at i:3226195 original size:82 final size:83
Alignment explanation
Indices: 3226058--3226232 Score: 280
Period size: 82 Copynumber: 2.1 Consensus size: 83
3226048 ATAATTTTCA
* *
3226058 AATAAATTTCGGTTCGATTAACTGTCAAATAATTTCGGTTCAATTAATGTTAAAG-AAAAAAATC
1 AATAAATTTCGGATCGATTAACGGTCAAATAATTTCGGTTCAATTAATGTTAAAGAAAAAAAATC
*
3226122 AGTTGATTTGGTTCGGTT
66 AGTGGATTTGGTTCGGTT
* *
3226140 AATAAATTTCGGATCGATTAACGGTGAAATAATTTCGGTTCGATTAATGTTAAAGAAAAAAAATC
1 AATAAATTTCGGATCGATTAACGGTCAAATAATTTCGGTTCAATTAATGTTAAAGAAAAAAAATC
*
3226205 AGTGGATTTGGTTCTGTT
66 AGTGGATTTGGTTCGGTT
*
3226223 AATAATTTTC
1 AATAAATTTC
3226233 AAATAAATTT
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
82 51 0.60
83 34 0.40
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (83 bp):
AATAAATTTCGGATCGATTAACGGTCAAATAATTTCGGTTCAATTAATGTTAAAGAAAAAAAATC
AGTGGATTTGGTTCGGTT
Found at i:3258131 original size:22 final size:22
Alignment explanation
Indices: 3258065--3258138 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
3258055 TGATTATTAT
*
3258065 TAAATTATAAAGT-ATTAAACATA
1 TAAA-TATAAATTAATTAAA-ATA
* * *
3258088 TAATTATAAATTATTTAAAAATC
1 TAAATATAAATTAATT-AAAATA
*
3258111 TAAATATAATTTAATTAAAATA
1 TAAATATAAATTAATTAAAATA
3258133 -AAATAT
1 TAAATAT
3258139 TTATAAAACA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
21 6 0.15
22 12 0.29
23 20 0.49
24 3 0.07
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (22 bp):
TAAATATAAATTAATTAAAATA
Found at i:3258984 original size:44 final size:44
Alignment explanation
Indices: 3258916--3259035 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
3258906 CATACTAGCC
*
3258916 ATAATTCAAAGGA--TAATCAATGAAATG-ATTTTCTATAATTCT
1 ATAATACAAAGGATTTAATCAATGAAA-GAATTTTCTATAATTCT
*
3258958 AT-ATAAGAAAGGATTTAATCAATGAAAGAATTTTCTATAATTCT
1 ATAAT-ACAAAGGATTTAATCAATGAAAGAATTTTCTATAATTCT
*
3259002 ATAATTCAAAGGATTTAATCAATGAAAGAATTTT
1 ATAATACAAAGGATTTAATCAATGAAAGAATTTT
3259036 GTGATTTGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
41 2 0.03
42 8 0.12
43 1 0.01
44 56 0.81
45 2 0.03
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (44 bp):
ATAATACAAAGGATTTAATCAATGAAAGAATTTTCTATAATTCT
Found at i:3272119 original size:7 final size:7
Alignment explanation
Indices: 3272107--3272196 Score: 58
Period size: 7 Copynumber: 12.9 Consensus size: 7
3272097 TATGTGATAA
3272107 GGTTTAG
1 GGTTTAG
3272114 GGTTTAG
1 GGTTTAG
*
3272121 GATTTAG
1 GGTTTAG
*
3272128 AGTTTA-
1 GGTTTAG
* *
3272134 TGTGATAG
1 GGT-TTAG
* *
3272142 GATTTAA
1 GGTTTAG
*
3272149 GGTTTAA
1 GGTTTAG
*
3272156 AGTTTAG
1 GGTTTAG
*
3272163 AGTTTAG
1 GGTTTAG
3272170 GGTTTA-
1 GGTTTAG
*
3272176 TGTGTTAG
1 GGT-TTAG
3272184 GGTTTAG
1 GGTTTAG
3272191 GGTTTA
1 GGTTTA
3272197 TGTGCTAGGG
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
6 4 0.06
7 57 0.89
8 3 0.05
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:3272142 original size:21 final size:21
Alignment explanation
Indices: 3272117--3272214 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
3272107 GGTTTAGGGT
3272117 TTAGGATTTAGAGTTTATGTG
1 TTAGGATTTAGAGTTTATGTG
* *
3272138 ATAGGATTTA-AGGTTTAAAGT-
1 TTAGGATTTAGA-GTTT-ATGTG
*
3272159 TTA-GAGTTTAGGGTTTATGTG
1 TTAGGA-TTTAGAGTTTATGTG
* *
3272180 TTAGGGTTTAGGGTTTATGTG
1 TTAGGATTTAGAGTTTATGTG
* *
3272201 CTAGGGTTTA-AGTT
1 TTAGGATTTAGAGTT
3272215 ATACCATGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
20 9 0.14
21 50 0.79
22 4 0.06
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.45
Consensus pattern (21 bp):
TTAGGATTTAGAGTTTATGTG
Found at i:3272153 original size:35 final size:35
Alignment explanation
Indices: 3272096--3272168 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
3272086 TCATAACTAA
* *
3272096 TTATGTGATAAGGTTTAGGGTTT-AGGATTTAGAGT
1 TTATGTGATAAGGTTTAAGGTTTAAAG-TTTAGAGT
3272131 TTATGTGAT-AGGATTTAAGGTTTAAAGTTTAGAGT
1 TTATGTGATAAGG-TTTAAGGTTTAAAGTTTAGAGT
3272166 TTA
1 TTA
3272169 GGGTTTATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 3 0.09
35 29 0.85
36 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (35 bp):
TTATGTGATAAGGTTTAAGGTTTAAAGTTTAGAGT
Found at i:3272169 original size:42 final size:42
Alignment explanation
Indices: 3272104--3272196 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
3272094 AATTATGTGA
**
3272104 TAAGGTTTAGGGTTTAGGATTTAGAGTTTATGTGATAGGATT
1 TAAGGTTTAAAGTTTAGGATTTAGAGTTTATGTGATAGGATT
* * *
3272146 TAAGGTTTAAAGTTTA-GAGTTTAGGGTTTATGTGTTAGGGTT
1 TAAGGTTTAAAGTTTAGGA-TTTAGAGTTTATGTGATAGGATT
*
3272188 TAGGGTTTA
1 TAAGGTTTA
3272197 TGTGCTAGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (42 bp):
TAAGGTTTAAAGTTTAGGATTTAGAGTTTATGTGATAGGATT
Found at i:3274299 original size:17 final size:17
Alignment explanation
Indices: 3274277--3274313 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
3274267 ATTCGAGTTT
*
3274277 GAGTTCGAGCTTTAATC
1 GAGTTCGAGCTTGAATC
3274294 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
3274311 GAG
1 GAG
3274314 CTTGAATCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:3274312 original size:11 final size:11
Alignment explanation
Indices: 3274298--3274373 Score: 80
Period size: 11 Copynumber: 6.6 Consensus size: 11
3274288 TTAATCGAGT
3274298 TCGAGCTTGAA
1 TCGAGCTTGAA
3274309 TCGAGCTTGAA
1 TCGAGCTTGAA
**
3274320 TCGAGCTCAAAA
1 TCGAGCT-TGAA
3274332 TCGAGCTTGAA
1 TCGAGCTTGAA
* *
3274343 TCGAGCTCGAGTC
1 TCGAGCTTGA--A
*
3274356 TCGAGCTTCAA
1 TCGAGCTTGAA
3274367 TCGAGCT
1 TCGAGCT
3274374 CTTGAATTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
11 36 0.68
12 9 0.17
13 8 0.15
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:3274336 original size:23 final size:24
Alignment explanation
Indices: 3274307--3274374 Score: 93
Period size: 23 Copynumber: 2.9 Consensus size: 24
3274297 TTCGAGCTTG
3274307 AATCGAGCTTGAATCGAGCTC-AA
1 AATCGAGCTTGAATCGAGCTCGAA
*
3274330 AATCGAGCTTGAATCGAGCTCGAG
1 AATCGAGCTTGAATCGAGCTCGAA
** *
3274354 TCTCGAGCTTCAATCGAGCTC
1 AATCGAGCTTGAATCGAGCTC
3274375 TTGAATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 21 0.52
24 19 0.47
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (24 bp):
AATCGAGCTTGAATCGAGCTCGAA
Found at i:3275138 original size:24 final size:26
Alignment explanation
Indices: 3275094--3275145 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
3275084 CGTTCGTCAA
*
3275094 CGTTCGATTATATGTTTATTTATATT
1 CGTTCGATTATATGTTCATTTATATT
*
3275120 CGTTC-ATT-TATGTTCATTTATGTT
1 CGTTCGATTATATGTTCATTTATATT
3275144 CG
1 CG
3275146 AACATATGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.67
25 3 0.12
26 5 0.21
ACGTcount: A:0.19, C:0.12, G:0.13, T:0.56
Consensus pattern (26 bp):
CGTTCGATTATATGTTCATTTATATT
Found at i:3276268 original size:57 final size:57
Alignment explanation
Indices: 3275992--3276271 Score: 416
Period size: 57 Copynumber: 4.9 Consensus size: 57
3275982 CAACCCCATG
* * * **
3275992 ACGAACAGTAAGGCTCTGAGCACAAAGCCAAGGAACCTGCAAGTAATCAACCCCGTC
1 ACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCCCCGTC
** * **
3276049 ACGAGTAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTACAAGTATTCAACCCCGTC
1 ACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCCCCGTC
* *
3276106 ACGAACAGTAAGGCTCTCAGCACAATGCCGAGGAACCTCCAAGTATTCTTCCCCGTC
1 ACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCCCCGTC
*
3276163 ACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGCATTCTTCCCCGTC
1 ACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCCCCGTC
* * *
3276220 ACGAACAATAAGGCTCTCAGCACAAAGCTGAGGAACCTGTAAGTATTCTTCC
1 ACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCC
3276272 TCCAACTATA
Statistics
Matches: 204, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 204 1.00
ACGTcount: A:0.33, C:0.30, G:0.20, T:0.17
Consensus pattern (57 bp):
ACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCCCCGTC
Found at i:3277420 original size:20 final size:20
Alignment explanation
Indices: 3277372--3277510 Score: 226
Period size: 20 Copynumber: 7.0 Consensus size: 20
3277362 ATCCTATTCC
*
3277372 CTGGTAATCTTATATT-CCA
1 CTGGTAATCTTACATTCCCA
* *
3277391 TTGGTAATCTTATATTCCCA
1 CTGGTAATCTTACATTCCCA
*
3277411 CTGATAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
*
3277431 CTGATAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
3277451 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
3277471 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
3277491 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
3277511 ATATTTTTAA
Statistics
Matches: 114, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
19 15 0.13
20 99 0.87
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:3277714 original size:20 final size:20
Alignment explanation
Indices: 3277669--3277745 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
3277659 ATCCTATTCC
3277669 CTGGTAATCTTATATT-CCA
1 CTGGTAATCTTATATTCCCA
* *
3277688 TTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTATATTCCCA
*
3277708 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTATATTCCCA
*
3277728 CTGGTAATCTTACATTCC
1 CTGGTAATCTTATATTCC
3277746 GTGAACTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
19 14 0.27
20 38 0.73
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTATATTCCCA
Found at i:3286200 original size:2 final size:2
Alignment explanation
Indices: 3286193--3286222 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3286183 AAATTTTACA
3286193 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3286223 TATTTTCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3292908 original size:3 final size:3
Alignment explanation
Indices: 3292902--3292931 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3292892 GAAGATTATG
3292902 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3292932 ATTGATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3297186 original size:61 final size:60
Alignment explanation
Indices: 3297085--3297207 Score: 149
Period size: 61 Copynumber: 2.0 Consensus size: 60
3297075 AATAAAGGGT
*
3297085 AAAGTACACAAATAGTCCCTCGAATATAGAGTGATACTTTGTTGAATCCCTCGACTATTAA
1 AAAGTACACAAATAGTCCCTAGAATATAGAGTGATACTTTGTTGAATCCCT-GACTATTAA
* * * * * * *
3297146 AAAGTTACA-AAATAGTCCTTAGACTATAGGGTGTTGCTTTGTTGAGTCCCTGATTATTAA
1 AAAG-TACACAAATAGTCCCTAGAATATAGAGTGATACTTTGTTGAATCCCTGACTATTAA
3297206 AA
1 AA
3297208 GCTATAAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
60 10 0.19
61 39 0.74
62 4 0.08
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (60 bp):
AAAGTACACAAATAGTCCCTAGAATATAGAGTGATACTTTGTTGAATCCCTGACTATTAA
Found at i:3300439 original size:223 final size:223
Alignment explanation
Indices: 3300031--3300488 Score: 706
Period size: 223 Copynumber: 2.1 Consensus size: 223
3300021 TCGGTTTGTA
* * *
3300031 TCGATACTTTATAAAAATATATTGATCTATAACAATATAACAGGTAAAAAATGACAAAACCAGTC
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAATGAAAAAACCAGTC
* *
3300096 TATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTATAAAAATA
66 TATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTAAAAATGTCGATACTTTATAAAAATA
*
3300161 TATTAATCCATAACAATATAACAGGTAAAAAAATGACAAAACCAGTCTATAAATGACAAAACAGG
131 TATCAATCCATAACAATATAACAGGTAAAAAAATGACAAAACCAGTCTATAAATGACAAAACAGG
3300226 TAAAGCGCTACC-GAATATATTGAA-AGTG
196 TAAAGCGCTACCAG-ATATATT-AATAGTG
* * *
3300254 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGAAAAAACCGGT
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGT-AAAAAATGAAAAAACCAGT
**
3300319 CTATAAATGACAAAACAGGTAAAGCGCTACTGGATATATTAAAAATGTCGATACTTTATAAAAAT
65 CTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTAAAAATGTCGATACTTTATAAAAAT
* * * * * *
3300384 GTATCGATCCATAACAATATAACATGT-AAAAAATGACAAAATCGGTCTATAAATGACAAAGCAG
130 ATATCAATCCATAACAATATAACAGGTAAAAAAATGACAAAACCAGTCTATAAATGACAAAACAG
*
3300448 GTAAAGCGCTACCAGATATGTTAATAGTG
195 GTAAAGCGCTACCAGATATATTAATAGTG
3300477 TCGATACTTTAT
1 TCGATACTTTAT
3300489 TATAAGTATT
Statistics
Matches: 214, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
222 2 0.01
223 110 0.51
224 102 0.48
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (223 bp):
TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAATGAAAAAACCAGTC
TATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTAAAAATGTCGATACTTTATAAAAATA
TATCAATCCATAACAATATAACAGGTAAAAAAATGACAAAACCAGTCTATAAATGACAAAACAGG
TAAAGCGCTACCAGATATATTAATAGTG
Found at i:3300479 original size:111 final size:112
Alignment explanation
Indices: 3300031--3300488 Score: 708
Period size: 112 Copynumber: 4.1 Consensus size: 112
3300021 TCGGTTTGTA
* *
3300031 TCGATACTTTATAAAAATATATTGATCTATAACAATATAACAGGT-AAAAAATGACAAAACCAGT
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCAGT
3300095 CTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTG
**
3300142 TCGATACTTTATAAAAATATATTAATCCATAACAATATAACAGGTAAAAAAATGACAAAACCAGT
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCAGT
3300207 CTATAAATGACAAAACAGGTAAAGCGCTACC-GAATATATTGAAAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCAG-ATATATTGAAAGTG
* * * *
3300254 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGAAAAAACCGGT
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCAGT
** * *
3300319 CTATAAATGACAAAACAGGTAAAGCGCTACTGGATATATTAAAAATG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTG
* * * *
3300366 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGT-AAAAAATGACAAAATCGGT
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCAGT
* *
3300430 CTATAAATGACAAAGCAGGTAAAGCGCTACCAGATATGTT-AATAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAA-AGTG
3300477 TCGATACTTTAT
1 TCGATACTTTAT
3300489 TATAAGTATT
Statistics
Matches: 323, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
110 2 0.01
111 112 0.35
112 208 0.64
113 1 0.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (112 bp):
TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCAGT
CTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTG
Found at i:3300689 original size:182 final size:181
Alignment explanation
Indices: 3300364--3300853 Score: 743
Period size: 182 Copynumber: 2.7 Consensus size: 181
3300354 ATATTAAAAA
* *
3300364 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAATGACAAAATCGG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACCGG
*
3300429 TCTATAAATGACAAAGCAGGTAAAGCGCTACC-AGATATGTT-AATAGTGTCGATACTTTATTAT
66 TCTATAAATGACAAAACAGGTAAAGCGCTACCGA-ATATGTTGAA-AGTGTCGATACTTTATTAT
* * * *
3300492 AAGTATTGGCACTTTTTGAATTTAAAAGAGAAGAAATTATAGCGCTAAT-AATG
129 AAGTATCGACACTTTTCGAATTTAAAAGAAAAGAAATTATAGCGCTAATGAA-G
*
3300545 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCA
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA-ATGACAAAACCG
** * * *
3300610 GTCTCGAAATGATAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTATTATA
65 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGATACTTTATTATA
*
3300675 AGTATCGACACTTTTCGAATTTAAAAGAAAAGAAGTTATAGCGCTAATGAAG
130 AGTATCGACACTTTTCGAATTTAAAAGAAAAGAAATTATAGCGCTAATGAAG
*
3300727 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAAATGACAAAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT--AAAAAATGACAAAACC
* * *
3300792 GGTTTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT
64 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGATACTTTAT
3300854 AAAAATGTAT
Statistics
Matches: 279, Mismatches: 24, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
181 51 0.18
182 154 0.55
183 69 0.25
184 5 0.02
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (181 bp):
TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACCGG
TCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGATACTTTATTATAA
GTATCGACACTTTTCGAATTTAAAAGAAAAGAAATTATAGCGCTAATGAAG
Found at i:3300898 original size:295 final size:294
Alignment explanation
Indices: 3300544--3301147 Score: 1001
Period size: 295 Copynumber: 2.1 Consensus size: 294
3300534 CGCTAATAAT
*
3300544 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACC
* * *
3300609 AGTCTCGAAATGATAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTATTAT
66 AGTCTCGAAATGACAAAACCGGCAAAGAGCTACCGAATATGTTGAAAGTATCGATACTTTATTAT
*
3300674 AAGTATCGACACTTTTCGAATTTAAAAGAAAAGAAGTTATAGCGCTAATGAAGTGTCGATACTTT
131 AAGTATCGACACTTTTCGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAGTGTCGATACTTT
* * *
3300739 ATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAAATGACAAAACCGGTTTATAAATG
196 ATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAACCGGTCTAGAAATG
* * *
3300804 ACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
260 ACAAAACAGGTAAAGAGCTACCAGATACATTGAAA
*
3300839 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACC
*
3300904 AGTCTCGAAATGACAAAACCGGCAAAGAGCTACCGGATATGTTGAAAGTATCGATACTTTATTAT
66 AGTCTCGAAATGACAAAACCGGCAAAGAGCTACCGAATATGTTGAAAGTATCGATACTTTATTAT
* *
3300969 AAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATACTTT
131 AAGTATCGACACTTTTCGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAGTGTCGATACTTT
* * * *
3301034 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCGAAATGA
196 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTAGAAATGA
* * *
3301099 TAAAACTGGTAAAGAGCTACCAGATACGTTGAAA
261 CAAAACAGGTAAAGAGCTACCAGATACATTGAAA
3301133 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
3301148 TATAAGTATC
Statistics
Matches: 287, Mismatches: 22, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
294 67 0.23
295 220 0.77
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (294 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACC
AGTCTCGAAATGACAAAACCGGCAAAGAGCTACCGAATATGTTGAAAGTATCGATACTTTATTAT
AAGTATCGACACTTTTCGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAGTGTCGATACTTT
ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTAGAAATGA
CAAAACAGGTAAAGAGCTACCAGATACATTGAAA
Found at i:3300958 original size:112 final size:113
Alignment explanation
Indices: 3300724--3300965 Score: 360
Period size: 112 Copynumber: 2.2 Consensus size: 113
3300714 AGCGCTAATG
* *
3300724 AAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAAATGACAAA
1 AAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAAAAATGACAAA
* * * * *
3300789 ACCGGTTTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGA
66 ACCAGTCTAGAAATGACAAAACAGGCAAAGAGCTACCGGATATATTGA
*
3300837 AAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGAT-AAAAATATGACAAA
1 AAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAAAAATGACAAA
* * * *
3300901 ATCAGTCTCGAAATGACAAAACCGGCAAAGAGCTACCGGATATGTTGA
66 ACCAGTCTAGAAATGACAAAACAGGCAAAGAGCTACCGGATATATTGA
*
3300949 AAGTATCGATACTTTAT
1 AAGTGTCGATACTTTAT
3300966 TATAAGTATC
Statistics
Matches: 116, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
112 68 0.59
113 48 0.41
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (113 bp):
AAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAAAAATGACAAA
ACCAGTCTAGAAATGACAAAACAGGCAAAGAGCTACCGGATATATTGA
Found at i:3301027 original size:477 final size:475
Alignment explanation
Indices: 3300248--3301286 Score: 1706
Period size: 477 Copynumber: 2.2 Consensus size: 475
3300238 GAATATATTG
*
3300248 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGAAAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGACAAA
*
3300313 ACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACTGGATATATTAAAAATGTCGATACTTTAT
66 ACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTAAAAATGTCGATACTTTAT
* *
3300378 AAAAATGTATCGATCCATAACAATATAACATGTAAAAAATGACAAAATCGGTCTATAAATGACAA
131 AAAAATGTATCGATCCATAACAATATAACATGTAAAAAATGACAAAATCAGTCTAGAAATGACAA
* * * * * *
3300443 AGCAGGTAAAGCGCTACCAGATATGTTAATAGTGTCGATACTTTATTATAAGTATTGGCACTTTT
196 AACAGGCAAAGAGCTACCAGATATGTTAATAGTATCGATACTTTATTATAAGTATCGACACTTTT
* *
3300508 TGAATTTAAAAGAGAAGAAATTATAGCGCTAATAATGTGTCGATACTTTATAAAAATGTATCGAT
261 GGAATTTAAAAGAGAAGAAATTATAGCGCTAATAAAGTGTCGATACTTTATAAAAATGTATCGAT
3300573 CCATAACAATATAACAGGTAAAAATATGACAAAACCAGTCTCGAAATGATAAAACCGGTAAAGAG
326 CCATAACAATATAACAGGTAAAAATATGACAAAACCAGTCTCGAAATGATAAAACCGGTAAAGAG
*
3300638 CTACC-GAATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTCGAATTTAAAAG
391 CTACCAG-ATACGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTCGAATTTAAAAG
* *
3300702 AAAAGAAGTTATAGCGCTAAT
455 AAAAGAAGTTATAGCACCAAT
*
3300723 GAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAAATGACAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGT-AAAAAAATGACAA
* * *
3300788 AACCGGTTTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTA
65 AACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTAAAAATGTCGATACTTTA
*
3300853 TAAAAATGTATCGATCCATAACAATATAACA-GATAAAAATATGACAAAATCAGTCTCGAAATGA
130 TAAAAATGTATCGATCCATAACAATATAACATG-TAAAAA-ATGACAAAATCAGTCTAGAAATGA
* *
3300917 CAAAACCGGCAAAGAGCTACCGGATATGTTGAA-AGTATCGATACTTTATTATAAGTATCGACAC
193 CAAAACAGGCAAAGAGCTACCAGATATGTT-AATAGTATCGATACTTTATTATAAGTATCGACAC
*
3300981 TTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATACTTTATAAAAATGTAT
257 TTTTGGAATTTAAAAGAGAAGAAATTATAGCGCTAATAAAGTGTCGATACTTTATAAAAATGTAT
* * * *
3301046 CGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCGAAATGATAAAACTGGTAA
322 CGATCCATAACAATATAACAGGTAAAAATATGACAAAACCAGTCTCGAAATGATAAAACCGGTAA
*
3301111 AGAGCTACCAGATACGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAA
387 AGAGCTACCAGATACGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTCGAATTTAA
3301176 AAGAAAAGAAGTTATAGCACCAAT
452 AAGAAAAGAAGTTATAGCACCAAT
* * *
3301200 AAATTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGACAAA
* **
3301265 ACCAGTCTCGAAATGACAAAAC
66 ACCGGTCTATAAATGACAAAAC
3301287 TAGTAGTAAA
Statistics
Matches: 523, Mismatches: 36, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
475 51 0.10
476 141 0.27
477 328 0.63
478 3 0.01
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (475 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGACAAA
ACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTAAAAATGTCGATACTTTAT
AAAAATGTATCGATCCATAACAATATAACATGTAAAAAATGACAAAATCAGTCTAGAAATGACAA
AACAGGCAAAGAGCTACCAGATATGTTAATAGTATCGATACTTTATTATAAGTATCGACACTTTT
GGAATTTAAAAGAGAAGAAATTATAGCGCTAATAAAGTGTCGATACTTTATAAAAATGTATCGAT
CCATAACAATATAACAGGTAAAAATATGACAAAACCAGTCTCGAAATGATAAAACCGGTAAAGAG
CTACCAGATACGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTCGAATTTAAAAGA
AAAGAAGTTATAGCACCAAT
Found at i:3301143 original size:182 final size:182
Alignment explanation
Indices: 3300836--3301287 Score: 778
Period size: 182 Copynumber: 2.5 Consensus size: 182
3300826 GGATATATTG
*
3300836 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * *
3300901 ATCAGTCTCGAAATGACAAAACCGGCAAAGAGCTACCGGATATGTTGAAAGTATCGATACTTTAT
66 ATCAGTCTCGAAATGACAAAACTGGCAAAGAGCTACCAGATACGTTGAAAGTATCGATACTTTAT
* * *
3300966 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACCAAT
*
3301018 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * * *
3301083 ATCGGTCTCGAAATGATAAAACTGGTAAAGAGCTACCAGATACGTTGAAAGTGTCGATACTTTAT
66 ATCAGTCTCGAAATGACAAAACTGGCAAAGAGCTACCAGATACGTTGAAAGTATCGATACTTTAT
3301148 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACCAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACCAAT
*
3301200 AAATTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
*
3301265 ACCAGTCTCGAAATGACAAAACT
66 ATCAGTCTCGAAATGACAAAACT
3301288 AGTAGTAAAA
Statistics
Matches: 253, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
182 253 1.00
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ATCAGTCTCGAAATGACAAAACTGGCAAAGAGCTACCAGATACGTTGAAAGTATCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACCAAT
Found at i:3301718 original size:23 final size:24
Alignment explanation
Indices: 3301671--3301723 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
3301661 AAAATAGGTC
*
3301671 AATATAAGCGCTACCTATTACATT
1 AATATAAGCGCTACCTAATACATT
* *
3301695 -ATATAAGTGCTACCTAATATATT
1 AATATAAGCGCTACCTAATACATT
3301718 AATATA
1 AATATA
3301724 CTTGATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.36
Consensus pattern (24 bp):
AATATAAGCGCTACCTAATACATT
Found at i:3303571 original size:20 final size:22
Alignment explanation
Indices: 3303546--3303603 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
3303536 TTCCCCTTGA
3303546 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
3303566 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
3303589 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
3303604 CTACCCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:3303685 original size:45 final size:45
Alignment explanation
Indices: 3303610--3303713 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 45
3303600 TGCACTACCC
* * * *
3303610 ATGCATCGATACACAAATTACCTTCAATGTTTTCAT-TTTAAGGGG
1 ATGCATCGATGCACAAATTACATTCAATG-TTTCATCTTTAAAGAG
* * * *
3303655 ATGCATCGATGCACCAATTGCATTCGATGTTTCTTCTTTAAAGAG
1 ATGCATCGATGCACAAATTACATTCAATGTTTCATCTTTAAAGAG
3303700 -TGCATCGATGCACA
1 ATGCATCGATGCACA
3303714 TTGAATATGC
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 18 0.37
45 31 0.63
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (45 bp):
ATGCATCGATGCACAAATTACATTCAATGTTTCATCTTTAAAGAG
Found at i:3305610 original size:20 final size:20
Alignment explanation
Indices: 3305581--3305618 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3305571 TTTCAAAGTG
3305581 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
3305601 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
3305619 TATTTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:3305687 original size:45 final size:46
Alignment explanation
Indices: 3305638--3305727 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 46
3305628 AAACATCGAA
* *
3305638 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
3305683 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCA
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCA
3305728 AGCTTTTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:3307398 original size:43 final size:42
Alignment explanation
Indices: 3307321--3307503 Score: 224
Period size: 43 Copynumber: 4.3 Consensus size: 42
3307311 AAAACAACAA
* * * * *
3307321 AATTAACGTCGTTGGTGGCAAAAATACCACTAAAGATAAGAG
1 AATTAGCGGCGTTTGTGGCAAAAACACCACTAAAGAGAAGAG
* *
3307363 AATTAGTGGCGTTTGTGGCTATAAACACCACTAAAGAGAAGAG
1 AATTAGCGGCGTTTGTGGC-AAAAACACCACTAAAGAGAAGAG
* * * *
3307406 AATTAGCGGCGTTTGTGGCCAAAACGCCACTAAAAACAAGAG
1 AATTAGCGGCGTTTGTGGCAAAAACACCACTAAAGAGAAGAG
*
3307448 AATTAGCGGCGTTTGTGGCAAAAA-ATGTCACTAAAGAGAAGAG
1 AATTAGCGGCGTTTGTGGCAAAAACA--CCACTAAAGAGAAGAG
3307491 AATTAGCGGCGTT
1 AATTAGCGGCGTT
3307504 ATTCTTTCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 56 0.47
43 64 0.53
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.21
Consensus pattern (42 bp):
AATTAGCGGCGTTTGTGGCAAAAACACCACTAAAGAGAAGAG
Found at i:3307436 original size:85 final size:85
Alignment explanation
Indices: 3307347--3307503 Score: 242
Period size: 85 Copynumber: 1.8 Consensus size: 85
3307337 GGCAAAAATA
* * * * *
3307347 CCACTAAAGATAAGAGAATTAGTGGCGTTTGTGGCTATAAACACCACTAAAGAGAAGAGAATTAG
1 CCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGCAAAAAACACCACTAAAGAGAAGAGAATTAG
3307412 CGGCGTTTGTGGCCAAAACG
66 CGGCGTTTGTGGCCAAAACG
***
3307432 CCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGCAAAAAATGTCACTAAAGAGAAGAGAATTAG
1 CCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGCAAAAAACACCACTAAAGAGAAGAGAATTAG
3307497 CGGCGTT
66 CGGCGTT
3307504 ATTCTTTCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.20
Consensus pattern (85 bp):
CCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGCAAAAAACACCACTAAAGAGAAGAGAATTAG
CGGCGTTTGTGGCCAAAACG
Found at i:3307449 original size:42 final size:42
Alignment explanation
Indices: 3307300--3307503 Score: 219
Period size: 43 Copynumber: 4.8 Consensus size: 42
3307290 TTTGTATTAC
* * * * * * *
3307300 AAACGCCATTAAAAACAACAAAATTAACGTCGTTGGTGGCAA
1 AAACGCCACTAAAGACAAGAGAATTAGCGGCGTTTGTGGCAA
** * * *
3307342 AAATACCACTAAAGATAAGAGAATTAGTGGCGTTTGTGGCTAT
1 AAACGCCACTAAAGACAAGAGAATTAGCGGCGTTTGTGGC-AA
* * *
3307385 AAACACCACTAAAGAGAAGAGAATTAGCGGCGTTTGTGGCCA
1 AAACGCCACTAAAGACAAGAGAATTAGCGGCGTTTGTGGCAA
*
3307427 AAACGCCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGCAAA
1 AAACGCCACTAAAGACAAGAGAATTAGCGGCGTTTGTGGC-AA
* * *
3307470 AAATGTCACTAAAGAGAAGAGAATTAGCGGCGTT
1 AAACGCCACTAAAGACAAGAGAATTAGCGGCGTT
3307504 ATTCTTTCAA
Statistics
Matches: 135, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 66 0.49
43 69 0.51
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (42 bp):
AAACGCCACTAAAGACAAGAGAATTAGCGGCGTTTGTGGCAA
Found at i:3307771 original size:43 final size:44
Alignment explanation
Indices: 3307716--3307838 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
3307706 TTTGTATCAC
* * * *
3307716 AAAACGCCGCTATGTACCA-ACTTTTAGCGGCGTTTGTATCCTA
1 AAAATGCCGCTATATACCATACCTATAGCGGCGTTTGTATCCTA
* *
3307759 AAAATGCCGCTATATACCATGCCTATCGCGGCGTTTGTATCCTA
1 AAAATGCCGCTATATACCATACCTATAGCGGCGTTTGTATCCTA
* *
3307803 AAAATGCCGCTAAATACCATACCTATTGCGGCGTTT
1 AAAATGCCGCTATATACCATACCTATAGCGGCGTTT
3307839 TTATAAAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
43 17 0.24
44 53 0.76
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (44 bp):
AAAATGCCGCTATATACCATACCTATAGCGGCGTTTGTATCCTA
Found at i:3307850 original size:44 final size:44
Alignment explanation
Indices: 3307742--3307972 Score: 166
Period size: 44 Copynumber: 5.2 Consensus size: 44
3307732 CCAACTTTTA
* ** * * * *
3307742 GCGGCGTTTGTATCCTAAAAATGCCGCTATATACCATGCCTATC
1 GCGGCGTTTTTATAATAAAAATGCCGCTAAATATCATACCTATT
* ** *
3307786 GCGGCGTTTGTATCCTAAAAATGCCGCTAAATACCATACCTATT
1 GCGGCGTTTTTATAATAAAAATGCCGCTAAATATCATACCTATT
* *
3307830 GCGGCGTTTTTATAAAAAAAAATGCCGCGAAATATCA-ACACTTATT
1 GCGGCGTTTTTAT-AATAAAAATGCCGCTAAATATCATAC-C-TATT
* ** * *
3307876 GCGGCG--TTTATGATAAAAGCGCCGCTAAATATTGACACCTATT
1 GCGGCGTTTTTATAATAAAAATGCCGCTAAATA-TCATACCTATT
* * * *
3307919 GCGGCG-TGTT-TAAGACAAACGCCGCTAAATATCAGTACCTATTT
1 GCGGCGTTTTTATAATAAAAATGCCGCTAAATATCA-TACCTA-TT
*
3307963 ACGGCGTTTT
1 GCGGCGTTTT
3307973 GGTTAACAAA
Statistics
Matches: 154, Mismatches: 24, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
42 2 0.01
43 47 0.31
44 72 0.47
45 23 0.15
46 10 0.06
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
GCGGCGTTTTTATAATAAAAATGCCGCTAAATATCATACCTATT
Found at i:3307919 original size:43 final size:42
Alignment explanation
Indices: 3307802--3307961 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 42
3307792 TTTGTATCCT
* * * * *
3307802 AAAAATGCCGCTAAATA-CCATACCTATTGCGGCGTTTTTATAAAA
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGCG--GTT-T-AAG
* * * *
3307847 AAAAATGCCGCGAAATATCAACACTTATTGCGGC-GTTTATG
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGCGGTTTAAG
**
3307888 ATAAAAGCGCCGCTAAATATTGACACCTATTGCGGCGTGTTTAAG
1 A-AAAA-CGCCGCTAAATATCAACACCTATTGCGGCG-GTTTAAG
* **
3307933 ACAAACGCCGCTAAATATCAGTACCTATT
1 AAAAACGCCGCTAAATATCAACACCTATT
3307962 TACGGCGTTT
Statistics
Matches: 92, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 46 0.50
44 3 0.03
45 23 0.25
46 13 0.14
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAATATCAACACCTATTGCGGCGGTTTAAG
Found at i:3309696 original size:17 final size:17
Alignment explanation
Indices: 3309663--3309694 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3309653 ATTTGTTTCG
3309663 ATAAAAATAAACTAAAT
1 ATAAAAATAAACTAAAT
3309680 ATAAAAATAAA-TAAA
1 ATAAAAATAAACTAAA
3309695 ATTTTCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (17 bp):
ATAAAAATAAACTAAAT
Found at i:3310163 original size:5 final size:5
Alignment explanation
Indices: 3310153--3310301 Score: 280
Period size: 5 Copynumber: 29.8 Consensus size: 5
3310143 ATCCAATTCC
* *
3310153 AATAT AATAT AATAT AATAT AATAT AATAC AATAC AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
3310203 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
3310253 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
3310302 CAAATTTCAT
Statistics
Matches: 142, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
5 142 1.00
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:3310543 original size:20 final size:20
Alignment explanation
Indices: 3310518--3310591 Score: 114
Period size: 20 Copynumber: 3.7 Consensus size: 20
3310508 GACCAACAAA
3310518 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
3310538 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
3310558 TTCGCAAC-CTAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
3310578 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
3310592 ATATAAATCG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.04
20 44 0.92
21 2 0.04
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:3310660 original size:20 final size:20
Alignment explanation
Indices: 3310635--3310686 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
3310625 TGCGATTTTC
3310635 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
*
3310655 CAAATTCTCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
3310675 CAAATTCGCAAC
1 CAAATTCGCAAC
3310687 TGAATTTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (20 bp):
CAAATTCGCAACGCGATAGT
Found at i:3313328 original size:18 final size:18
Alignment explanation
Indices: 3313305--3313340 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3313295 AAGCAAAAGG
3313305 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
3313323 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
3313341 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:3313839 original size:25 final size:25
Alignment explanation
Indices: 3313793--3313842 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
3313783 AAATCAATTA
* *
3313793 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGATACATTATTTG
*
3313818 AACATTGTTATGGATACTTTATTTG
1 AACATTGTTATGGATACATTATTTG
3313843 GAAAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.46
Consensus pattern (25 bp):
AACATTGTTATGGATACATTATTTG
Found at i:3314248 original size:24 final size:23
Alignment explanation
Indices: 3314221--3314271 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
3314211 TTTCATATGT
3314221 AATTGAAGTTTGAATTTAAATTTC
1 AATTG-AGTTTGAATTTAAATTTC
* *
3314245 AATTTGAGTTTGAGTTTGAATTTC
1 AA-TTGAGTTTGAATTTAAATTTC
3314269 AAT
1 AAT
3314272 ATAAATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 20 0.83
25 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
AATTGAGTTTGAATTTAAATTTC
Found at i:3314548 original size:35 final size:35
Alignment explanation
Indices: 3314473--3314548 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
3314463 AATGGCAACT
*
3314473 AAAATCATAAGTCCGAAATGCTTCTGAGTACCATC
1 AAAATCATAAGTCCGAAATGCTTCCGAGTACCATC
* *
3314508 CAAATCATAAGTCCGAAATGCTTCCGA-TGCTCATC
1 AAAATCATAAGTCCGAAATGCTTCCGAGTAC-CATC
3314543 AAAATC
1 AAAATC
3314549 CAAAGCTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 34 0.94
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (35 bp):
AAAATCATAAGTCCGAAATGCTTCCGAGTACCATC
Found at i:3314585 original size:39 final size:39
Alignment explanation
Indices: 3314540--3314626 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
3314530 TCCGATGCTC
3314540 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
3314579 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
3314618 ATCAAAATC
1 ATCAAAATC
3314627 TACAACTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:3314910 original size:20 final size:20
Alignment explanation
Indices: 3314885--3314942 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
3314875 AAACCGAAAA
3314885 TCGCATTGCGAATTTGACTT
1 TCGCATTGCGAATTTGACTT
3314905 TCGCATTGCGAATTTGACTT
1 TCGCATTGCGAATTTGACTT
* *
3314925 TCACGTTGCGAATTTGAC
1 TCGCATTGCGAATTTGAC
3314943 GATCGCAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGAATTTGACTT
Found at i:3314986 original size:20 final size:20
Alignment explanation
Indices: 3314957--3314994 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3314947 GCAACGCTTA
3314957 TTTCGCGTTGAGAATTTGAC
1 TTTCGCGTTGAGAATTTGAC
* *
3314977 TTTCGTGTTGCGAATTTG
1 TTTCGCGTTGAGAATTTG
3314995 TACATTCAAC
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:0.26, T:0.45
Consensus pattern (20 bp):
TTTCGCGTTGAGAATTTGAC
Found at i:3315184 original size:61 final size:63
Alignment explanation
Indices: 3315053--3315193 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 63
3315043 TTTTAGAAAC
*
3315053 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATT
1 AACAAATCAACTTTTACAAATCAATT--A-AAGCAAAAAAATAAATCTTATTTACAAATCAAATT
3315118 A
63 A
* * ** *
3315119 AACAAATCAACTTTTACAAATCAATT-AATC-AAAAAATAAATCTTATTTCCTCATC-AATTGT
1 AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATT-A
3315180 AACAAATCAACTTT
1 AACAAATCAACTTT
3315194 CAATGTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
60 4 0.06
61 35 0.51
62 3 0.04
66 26 0.38
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.31
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATTA
Found at i:3316647 original size:42 final size:42
Alignment explanation
Indices: 3316569--3316668 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
3316559 GGCGGGACCA
* * * * * * * *
3316569 CTTGAACGATGACAGTGGTCTCTTGAACGGTGGGAGGGGCTT
1 CTTGAATGATGATAGGGGCCTCTTGAACGATAGGAGGCGCCT
3316611 CTTCG-ATGATGATAGGGGCCTCTTGAACGATAGGAGGCGCCT
1 CTT-GAATGATGATAGGGGCCTCTTGAACGATAGGAGGCGCCT
3316653 CTTGAATGATGATAGG
1 CTTGAATGATGATAGG
3316669 TGCATAGGGC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 46 0.96
43 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (42 bp):
CTTGAATGATGATAGGGGCCTCTTGAACGATAGGAGGCGCCT
Found at i:3317725 original size:21 final size:22
Alignment explanation
Indices: 3317683--3317725 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
3317673 ATACACAAAC
*
3317683 ATTAGTAATTGTTAAATAATTA
1 ATTAGTAATTGTTAAAAAATTA
3317705 ATTA-TAATT-TTAAAAACATTA
1 ATTAGTAATTGTTAAAAA-ATTA
3317726 TATAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTAGTAATTGTTAAAAAATTA
Found at i:3318902 original size:13 final size:13
Alignment explanation
Indices: 3318884--3318915 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3318874 GGGTTTCTTC
*
3318884 AACAAAAAGATAA
1 AACAAAAAGACAA
3318897 AACAAAAAGACAA
1 AACAAAAAGACAA
3318910 AACAAA
1 AACAAA
3318916 GACAAATACT
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:0.78, C:0.12, G:0.06, T:0.03
Consensus pattern (13 bp):
AACAAAAAGACAA
Found at i:3319311 original size:20 final size:20
Alignment explanation
Indices: 3319286--3319350 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
3319276 GCGTAAAAAC
3319286 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
3319306 ATTTGACTTTCGCGTTGAGA
1 ATTTGACTTTCGCGTTGCGA
*
3319326 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
3319346 ATTTG
1 ATTTG
3319351 GAATATCGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:3319359 original size:21 final size:21
Alignment explanation
Indices: 3319295--3319492 Score: 110
Period size: 20 Copynumber: 9.8 Consensus size: 21
3319285 CATTTGACTT
* *
3319295 TCGCGTTGCGAATTT-GACTT
1 TCGCGTTGCGAATTTGGAATA
* *
3319315 TCGCGTTGAGAATTT-GACTA
1 TCGCGTTGCGAATTTGGAATA
3319335 TCGCGTTGCGAATTTGGAATA
1 TCGCGTTGCGAATTTGGAATA
*** * *
3319356 TCGCAACGTGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAATA
**** *
3319377 TCGCAACACGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAATA
** *
3319398 TCGCAATGTG-ATTT--ACATA
1 TCGCGTTGCGAATTTGGA-ATA
*
3319417 TTCGCGTTGCGAAATTGGAA-A
1 -TCGCGTTGCGAATTTGGAATA
* *
3319438 -CTGAGTTGCGAAATTGGAAT-
1 TC-GCGTTGCGAATTTGGAATA
*
3319458 TCGCGTTGCGAATTT-G-AGA
1 TCGCGTTGCGAATTTGGAATA
3319477 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
3319493 TTGGTCATTA
Statistics
Matches: 144, Mismatches: 23, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
18 2 0.01
19 19 0.13
20 70 0.49
21 51 0.35
22 1 0.01
23 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (21 bp):
TCGCGTTGCGAATTTGGAATA
Found at i:3321429 original size:29 final size:30
Alignment explanation
Indices: 3321372--3321443 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
3321362 AGCTTAATTT
*
3321372 TTTAAA-AAAAAATAAATAGCTATTTAATA-
1 TTTAAATAAAAAATAAATAGCTA-TAAATAG
*
3321401 TTTAAATAAAAAATAATATTGCTA-AAATAG
1 TTTAAATAAAAAATAA-ATAGCTATAAATAG
*
3321431 TTCAAATAAAAAA
1 TTTAAATAAAAAA
3321444 ATTCAATATC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 10 0.27
30 21 0.57
31 6 0.16
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (30 bp):
TTTAAATAAAAAATAAATAGCTATAAATAG
Found at i:3327786 original size:45 final size:43
Alignment explanation
Indices: 3327735--3327818 Score: 105
Period size: 45 Copynumber: 1.9 Consensus size: 43
3327725 AATAATCAAA
*
3327735 CTGGAAACAAGAGCAGCAGGAAACCGAAGAAACAAAAGCAGAATC
1 CTGGAAACAAGAGCAGCAGGAAAAC--AGAAACAAAAGCAGAATC
** * *
3327780 CTGGAAACCCGATCAGCAGGAAAACAGAAACAGAAGCAG
1 CTGGAAACAAGAGCAGCAGGAAAACAGAAACAAAAGCAG
3327819 TATCTAGTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 13 0.38
45 21 0.62
ACGTcount: A:0.49, C:0.21, G:0.25, T:0.05
Consensus pattern (43 bp):
CTGGAAACAAGAGCAGCAGGAAAACAGAAACAAAAGCAGAATC
Found at i:3344726 original size:28 final size:28
Alignment explanation
Indices: 3344686--3344742 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
3344676 TTGTTGTCAA
3344686 TGATAAATGGTGACTCATGACTAAAGGT
1 TGATAAATGGTGACTCATGACTAAAGGT
3344714 TGATAAATGGTGACTCATGACTAAAGGT
1 TGATAAATGGTGACTCATGACTAAAGGT
3344742 T
1 T
3344743 TTGATTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (28 bp):
TGATAAATGGTGACTCATGACTAAAGGT
Found at i:3349495 original size:20 final size:20
Alignment explanation
Indices: 3349454--3349505 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
3349444 TTAACATTAA
3349454 TTATAGTATAATATATTAATT
1 TTATA-TATAATATATTAATT
*
3349475 TTATATATATTAT-TTATATT
1 TTATATATAATATATTA-ATT
3349495 TTATATTATAA
1 TTATA-TATAA
3349506 AATTAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 15 0.56
21 9 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTATATATAATATATTAATT
Found at i:3351057 original size:22 final size:22
Alignment explanation
Indices: 3351032--3351081 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
3351022 TTAAAAAAAA
*
3351032 ATTACA-TATAAATATATTATAG
1 ATTACATTATAAA-ATATTAAAG
*
3351054 ATTATATTATAAAATATTAAAG
1 ATTACATTATAAAATATTAAAG
3351076 ATTACA
1 ATTACA
3351082 CTATGATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (22 bp):
ATTACATTATAAAATATTAAAG
Found at i:3352538 original size:30 final size:31
Alignment explanation
Indices: 3352475--3352538 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
3352465 GTTATACGAG
*
3352475 CTATGTGATAAAGGTATGGAAAATGACATGT
1 CTATGTGATAAAGGTATGGAAAATAACATGT
*
3352506 CTATGTGATAAAGGTATGG-AAATAATATGT
1 CTATGTGATAAAGGTATGGAAAATAACATGT
3352536 CTA
1 CTA
3352539 CGCGATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.31
Consensus pattern (31 bp):
CTATGTGATAAAGGTATGGAAAATAACATGT
Found at i:3353434 original size:12 final size:12
Alignment explanation
Indices: 3353415--3353459 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
3353405 ATTTTTATGC
3353415 ACTGTTCATGAT
1 ACTGTTCATGAT
* *
3353427 ATTGTTCATGGT
1 ACTGTTCATGAT
*
3353439 ACTGTTCATGGT
1 ACTGTTCATGAT
*
3353451 ACTATTCAT
1 ACTGTTCAT
3353460 ACCGTATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (12 bp):
ACTGTTCATGAT
Found at i:3354792 original size:29 final size:29
Alignment explanation
Indices: 3354707--3354792 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 29
3354697 TCCTTATATT
* * *
3354707 AAATTGGTCTTTAAACTTTTGAATATTCC
1 AAATTAGTCCTTAAACTTTTGAATATTTC
* * *
3354736 AATTTTA-TCAC-CAAAC-TATGAATCATTTC
1 AA-ATTAGTC-CTTAAACTTTTGAAT-ATTTC
3354765 AAATTAGTCCTTAAACTTTTGAATATTT
1 AAATTAGTCCTTAAACTTTTGAATATTT
3354793 TAATTTCATT
Statistics
Matches: 42, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
28 10 0.24
29 24 0.57
30 8 0.19
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (29 bp):
AAATTAGTCCTTAAACTTTTGAATATTTC
Found at i:3356062 original size:22 final size:19
Alignment explanation
Indices: 3356037--3356078 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
3356027 GATGTATTGA
3356037 ATGAGTATTAATGAGTTCAAGT
1 ATGAGTA-T-ATGAGTT-AAGT
3356059 ATGAGTATATGAGTTAAGT
1 ATGAGTATATGAGTTAAGT
3356078 A
1 A
3356079 GATCTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
21 1 0.05
22 7 0.35
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (19 bp):
ATGAGTATATGAGTTAAGT
Found at i:3356253 original size:20 final size:20
Alignment explanation
Indices: 3356224--3356276 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
3356214 ATGTCAATAT
*
3356224 GGTATTGATACCCTATAGAG
1 GGTATCGATACCCTATAGAG
* *
3356244 GGTATCGATACCCTCTATAG
1 GGTATCGATACCCTATAGAG
3356264 GGTATCGATACCC
1 GGTATCGATACCC
3356277 CCTGAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCCTATAGAG
Found at i:3356334 original size:20 final size:20
Alignment explanation
Indices: 3356309--3356378 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
3356299 ATGTTATCTG
3356309 GGTATCTATACCATAGACAA
1 GGTATCTATACCATAGACAA
*
3356329 GGTATCTATATCATAGAC-A
1 GGTATCTATACCATAGACAA
* * *
3356348 GGATATATATACCATAGGCAG
1 GG-TATCTATACCATAGACAA
3356369 GGTATCTATA
1 GGTATCTATA
3356379 TCTCAGTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.07
20 37 0.88
21 2 0.05
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (20 bp):
GGTATCTATACCATAGACAA
Found at i:3365672 original size:58 final size:56
Alignment explanation
Indices: 3365574--3365684 Score: 204
Period size: 58 Copynumber: 1.9 Consensus size: 56
3365564 AATGTAATCT
3365574 TTTATACAGCATGTTTTCTTTGTGTAAGAACATGAAAACCTTTATGCCTTGATTTC
1 TTTATACAGCATGTTTTCTTTGTGTAAGAACATGAAAACCTTTATGCCTTGATTTC
3365630 TTTATACAGCATGTTTTCTTTATGTGTAAGAACATGAAAACCTTTATGCCTTGAT
1 TTTATACAGCATGTTTTC-TT-TGTGTAAGAACATGAAAACCTTTATGCCTTGAT
3365685 ATCTGTGTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
56 18 0.34
57 2 0.04
58 33 0.62
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.42
Consensus pattern (56 bp):
TTTATACAGCATGTTTTCTTTGTGTAAGAACATGAAAACCTTTATGCCTTGATTTC
Found at i:3369702 original size:3 final size:3
Alignment explanation
Indices: 3369694--3369821 Score: 184
Period size: 3 Copynumber: 41.7 Consensus size: 3
3369684 TTTATCCATT
* * * *
3369694 TTA TTA TTA TTA TTA TTA ATA TTA ATA TTA TTA TTA TCA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
3369742 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
3369788 TTA TTAA TTA TATA TTA TTA TTA TTA TTA TTA TT
1 TTA TT-A TTA T-TA TTA TTA TTA TTA TTA TTA TT
3369822 TAACAAATAA
Statistics
Matches: 112, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
3 104 0.93
4 8 0.07
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:3371097 original size:19 final size:19
Alignment explanation
Indices: 3371059--3371094 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3371049 CAATTTAGTC
3371059 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
3371078 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
3371095 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:3371164 original size:15 final size:15
Alignment explanation
Indices: 3371144--3371175 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3371134 AAATATTTTG
*
3371144 ATATATATCATAAAT
1 ATATATATAATAAAT
3371159 ATATATATAATAAAT
1 ATATATATAATAAAT
3371174 AT
1 AT
3371176 TAATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATATATAATAAAT
Found at i:3382479 original size:4 final size:4
Alignment explanation
Indices: 3382470--3382543 Score: 68
Period size: 4 Copynumber: 19.2 Consensus size: 4
3382460 TGCTTGAAGA
*
3382470 AAAG AAAG AAAAA AAAG AAAG AAAG AAAG AAAG AAA- AAA- AAAG AAA-
1 AAAG AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
* *
3382516 AAA- AAA- AAAG AAAAA AAAG AAAA AAAG A
1 AAAG AAAG AAAG -AAAG AAAG AAAG AAAG A
3382544 GGGTCAAGGT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
3 15 0.25
4 39 0.65
5 6 0.10
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:3382480 original size:9 final size:9
Alignment explanation
Indices: 3382466--3382543 Score: 83
Period size: 8 Copynumber: 9.0 Consensus size: 9
3382456 ATTATGCTTG
3382466 AAGAAAAGA
1 AAGAAAAGA
*
3382475 AAGAAAAAA
1 AAGAAAAGA
3382484 AAG-AAAGA
1 AAGAAAAGA
3382492 AAG-AAAGA
1 AAGAAAAGA
*
3382500 AAGAAAAAAA
1 AAG-AAAAGA
3382510 AAGAAAA-A
1 AAGAAAAGA
*
3382518 AAAAAAAGA
1 AAGAAAAGA
*
3382527 AAAAAAAGA
1 AAGAAAAGA
3382536 AA-AAAAGA
1 AAGAAAAGA
3382544 GGGTCAAGGT
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
8 28 0.45
9 27 0.44
10 7 0.11
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAGAAAAGA
Found at i:3382484 original size:1 final size:1
Alignment explanation
Indices: 3382478--3382541 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
3382468 GAAAAGAAAG
* * * * * * * *
3382478 AAAAAAAAGAAAGAAAGAAAGAAAGAAAAAAAAAGAAAAAAAAAAAAGAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3382542 GAGGGTCAAG
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:3382487 original size:13 final size:13
Alignment explanation
Indices: 3382469--3382541 Score: 93
Period size: 13 Copynumber: 6.0 Consensus size: 13
3382459 ATGCTTGAAG
3382469 AAAAGAAAGAAAA
1 AAAAGAAAGAAAA
3382482 AAAAGAAAG-AAA
1 AAAAGAAAGAAAA
*
3382494 GAAAGAAAG--AA
1 AAAAGAAAGAAAA
3382505 AAAA-AAAGAAAA
1 AAAAGAAAGAAAA
*
3382517 AAAAAAAAGAAAA
1 AAAAGAAAGAAAA
3382530 AAAAGAAA-AAAA
1 AAAAGAAAGAAAA
3382542 GAGGGTCAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
10 4 0.07
11 5 0.09
12 21 0.39
13 24 0.44
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAA
Found at i:3383558 original size:52 final size:52
Alignment explanation
Indices: 3383480--3384195 Score: 1314
Period size: 52 Copynumber: 13.8 Consensus size: 52
3383470 TATGTGCTCA
3383480 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
3383532 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
3383584 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
3383636 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
3383688 ATAGCATCTTCTGGAGGTGTTCTTTGAGTTATCTGATCTTGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
3383740 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
3383792 ATAGCATCTTCTGGAAGTGTTGTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
3383844 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
3383896 ATAGCATCTTCTGGAGGTGTTCTTTGAGTTATCTGATCTTGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
3383948 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
3384000 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
3384052 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG-A-
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
3384102 ATAGCATCTTCTGGAAGTGTTTCTTTGAGTTATCTGATCTGATTAGACAG-A-
1 ATAGCATCTTCTGGAAGTG-TTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
3384153 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
3384196 TGGTAAGAAC
Statistics
Matches: 648, Mismatches: 15, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
50 42 0.06
51 50 0.08
52 556 0.86
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.38
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:3384820 original size:21 final size:21
Alignment explanation
Indices: 3384796--3384835 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3384786 TATGTGGAAT
3384796 TTTTAACAGAA-ATTTCAAAGA
1 TTTTAACA-AAGATTTCAAAGA
*
3384817 TTTTAGCAAAGATTTCAAA
1 TTTTAACAAAGATTTCAAA
3384836 TTCATTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (21 bp):
TTTTAACAAAGATTTCAAAGA
Found at i:3385042 original size:113 final size:113
Alignment explanation
Indices: 3384841--3385377 Score: 921
Period size: 113 Copynumber: 4.8 Consensus size: 113
3384831 TCAAATTCAT
* *
3384841 TTGATGGATCAACAGTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * * *
3384906 AATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCGTCAC
66 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATCCATCAC
* *
3384954 TTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
1 TTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
3385019 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCAC
66 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATCCATCAC
3385067 TTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
3385132 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCAC
66 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATCCATCAC
3385180 TTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
3385245 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCAT
66 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATCCATCAC
* * *
3385293 TTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
3385358 AGTTCATAATGAGAAGAACT
66 AGTTCATAATGAGAAGAACT
3385378 CATCTGAAGA
Statistics
Matches: 405, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 405 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (113 bp):
TTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATCCATCAC
Found at i:3385362 original size:40 final size:40
Alignment explanation
Indices: 3385317--3385415 Score: 198
Period size: 40 Copynumber: 2.5 Consensus size: 40
3385307 TTTCCAGAGA
3385317 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
3385357 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
3385397 AAGTTCATAATGAGAAGAA
1 AAGTTCATAATGAGAAGAA
3385416 TTTGTTCAAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.48, C:0.09, G:0.24, T:0.18
Consensus pattern (40 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
Done.