Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold448
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: 1056520
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:335359 original size:19 final size:19
Alignment explanation
Indices: 335303--335363 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
335293 AGCGATACAT
* *
335303 TGTATCGATACAATACTTA
1 TGTATCGATATAACACTTA
335322 TGTATC-A-AT-ACA--T-
1 TGTATCGATATAACACTTA
335335 TGTATCGATATAACACTTA
1 TGTATCGATATAACACTTA
335354 TGTATCGATA
1 TGTATCGATA
335364 AAGTTACTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 6 0.18
14 2 0.06
15 2 0.06
16 5 0.15
17 1 0.03
18 2 0.06
19 16 0.47
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TGTATCGATATAACACTTA
Found at i:346285 original size:94 final size:93
Alignment explanation
Indices: 346160--346860 Score: 738
Period size: 94 Copynumber: 7.4 Consensus size: 93
346150 TAATCTTCAA
* * *
346160 ATCTTTCTTCTT-AAAGTTCACGACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGCA
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCA
*
346224 TCTCTTCCCAAAGTCCACAACTCAGTGGC
65 TCTCTTCCCAAAGTCCACGACTCAGTGGC
*
346253 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAATGGCA
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * *
346318 TCTCTTCACAAAGTCCACAACTAAGTGGC
65 TCTCTTCCCAAAGTCCACGACTCAGTGGC
* * *
346347 ATCTTTTTTCTTCAAAGTCCACAACTTAGTGGCAATCTCTTCTCAAAGTCCACGACTTAGTGGCA
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCA
*
346412 TCTCTTCCCAAAGTCCACAACTCAGTGGC
65 TCTCTTCCCAAAGTCCACGACTCAGTGGC
* * *
346441 ATCTTTTTTCTTCAAAGTCCACGACTTAGTGGCATCTCTTCCCAAAGTCCACAACTCAGTGGCAT
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCAT
* * *
346506 CTTTTTTCTTCAAAGTCCACGACTCAATGGC
66 C--TCTTC-CCAAAGTCCACGACTCAGTGGC
* * * *
346537 AATC--TCTTC-TCAAAGTCCACAACTCAGTGGCATCTCTTCCCAAAGTCCATGACTCAGTGGCA
1 -ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
346599 TCTTTTTTCTTCAAAGTCCACGACAT-AGTGGC
65 TC--TCTTC-CCAAAGTCCACGAC-TCAGTGGC
* * * *
346631 AATC--TCTTC-TCAAAGTCCACGACTCAATGGCATCTTTTTTCTTCCCAAAGTCCATGACTCAG
1 -ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATC-----TCTTCTCAAAGTCCACGACTCAG
*
346693 TGGCATCCTTTTCTTCC-AAGTCCACGACTCAAGTGGC
60 TGGCAT-CTCTTC--CCAAAGTCCACGACTC-AGTGGC
* * * * *
346730 ATTTTTTTTCATCAAAGTCCATGACTCAGTGGCATCTTTTTTCTTCAAAGTCCGCGACTCAGTGG
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATC--TCTTC-TCAAAGTCCACGACTCAGTGG
*
346795 CATCTCTTCCCAAAGTCTACGACTCTA-TGGC
63 CATCTCTTCCCAAAGTCCACGACTC-AGTGGC
* ** * *
346826 ACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1 A-TCTTTTTTCTTCAAAGTCCACGACTCAGTGGCA
346861 CCTTTTTAAG
Statistics
Matches: 539, Mismatches: 48, Indels: 38
0.86 0.08 0.06
Matches are distributed among these distances:
93 41 0.08
94 306 0.57
95 9 0.02
96 26 0.05
97 42 0.08
98 29 0.05
99 58 0.11
100 5 0.01
101 23 0.04
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (93 bp):
ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCAT
CTCTTCCCAAAGTCCACGACTCAGTGGC
Found at i:346475 original size:157 final size:157
Alignment explanation
Indices: 346201--346897 Score: 806
Period size: 157 Copynumber: 4.4 Consensus size: 157
346191 CAATCTCTTC
* * * **
346201 TCAAAGTCCATGACTCAGTGGCATCTCTTCCCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTC
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACAACTCAGTGGCATC--TCTTCACC
* * *
346266 AAAGTCCACGACTCAGTGGCAATC--TCTTC-TCAAAGTCCACGACTCAATGGCATCTCTTCACA
64 AAAGTCCACGACTCAGTGGC-ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCCCA
346328 AAGTCCACAACT-AAGTGGCATCTTTTTTCT
128 AAGTCCACAACTCAA-TGGCATCTTTTTTCT
* * * *
346358 TCAAAGTCCACAACTTAGTGGCAATCTCTTCTCAAAGTCCACGACTTAGTGGCATCTCTTC-CCA
1 TCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACAACTCAGTGGCATCTCTTCACCA
* *
346422 AAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTTAGTGGCATCTCTTCCCAAA
65 AAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAA
*
346487 GTCCACAACTCAGTGGCATCTTTTTTCT
130 GTCCACAACTCAATGGCATCTTTTTTCT
*
346515 TCAAAGTCCACGACTCAATGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCATCTCTTC-CCA
1 TCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACAACTCAGTGGCATCTCTTCACCA
* *
346579 AAGTCCATGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACAT-AGTGGCAATCTCTTCTCA
65 AAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGAC-TCAGTGGC-ATCTCTTCCCA
*
346643 AAGTCCACGACTCAATGGCATCTTTTTTCT
128 AAGTCCACAACTCAATGGCATCTTTTTTCT
* * * * * *
346673 TCCCAAAGTCCATGACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTCAAGTGGCATTTTTTT
1 T--CAAAGTCCACGACTCAGTGGCAT-CTCTTC-TCAAAGTCCACAACTC-AGTGGCA--TCTCT
* * *
346738 TCATCAAAGTCCATGACTCAGTGGCATCTTTTTTCTTCAAAGTCCGCGACTCAGTGGCATCTCTT
59 TCACCAAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
* * * *
346803 CCCAAAGTCTACGACTCTATGGCACTCTTTTTCCT
124 CCCAAAGTCCACAACTCAATGGCA-TCTTTTTTCT
** * * ** *
346838 TTTAAGTCCACAACTCCGTGGCA-C-CTT-TTTAAGTCCACAACTCCA-TGGCA-CTCTTTACCA
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACAACT-CAGTGGCATCTCTTCACCA
346898 TTTTAAGTCC
Statistics
Matches: 472, Mismatches: 50, Indels: 39
0.84 0.09 0.07
Matches are distributed among these distances:
154 9 0.02
155 20 0.04
156 8 0.02
157 188 0.40
158 84 0.18
159 3 0.01
160 26 0.06
161 15 0.03
162 7 0.01
163 17 0.04
164 34 0.07
165 61 0.13
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (157 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACAACTCAGTGGCATCTCTTCACCAA
AGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAG
TCCACAACTCAATGGCATCTTTTTTCT
Found at i:346644 original size:251 final size:250
Alignment explanation
Indices: 346172--346831 Score: 923
Period size: 251 Copynumber: 2.6 Consensus size: 250
346162 CTTTCTTCTT
* * * *
346172 AAAGTTCACGACTCAGTGGCAATCTCTTC-TCAAAGTCCATGACTCAGTGGCATCTCTTCCCAAA
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTTCAAAGTCCACGACTAAGTGGCATCTCTTCCCAAA
346236 GTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAG
65 GTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAG
*
346301 TCCACGACTCAATGGCATCTCTTCACAAAGTCCACAACTAAGTGGCATCTTTTTTCTTCAAAGTC
130 TCCACAACTCAATGGCATCTCTTCACAAAGTCCACAACTAAGTGGCATCTTTTTTCTTCAAAGTC
* * *
346366 CACAACTTAGTGGCAATCTCTTCTCAAAGTCCACGACTTAGTGGCATC-TCTTCCC
195 CACAACATAGTGGCAATCTCTTCTCAAAGTCCACGACTCAATGGCATCTTCTTCCC
* *
346421 AAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTTAGTGGCATCTCTTCCCAA
1 AAAGTCCACGACTCAGTGGCATC--TTTTCTTCAAAGTCCACGACTAAGTGGCATCTCTTCCCAA
*
346486 AGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAATGGCAATCTCTTCTCAAA
64 AGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAA
* * ** *
346551 GTCCACAACTCAGTGGCATCTCTTCCCAAAGTCCATGACTCAGTGGCATCTTTTTTCTTCAAAGT
129 GTCCACAACTCAATGGCATCTCTTCACAAAGTCCACAACTAAGTGGCATCTTTTTTCTTCAAAGT
*
346616 CCACGACATAGTGGCAATCTCTTCTCAAAGTCCACGACTCAATGGCATCTTTTTTCTTCCC
194 CCACAACATAGTGGCAATCTCTTCTCAAAGTCCACGACTCAATGGCATC----TTCTTCCC
* * * * *
346677 AAAGTCCATGACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTCAAGTGGCATTTTTTTTCAT
1 AAAGTCCACGACTCAGTGGCAT-CTTTTCTTCAAAGTCCACGACT-AAGTGGCA--TCTCTTC-C
** * *
346742 CAAAGTCCATGACTCAGTGGCATCTTTTTTCTTCAAAGTCCGCGACTCAGTGGC-ATCTCTTCCC
61 CAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTC
* * *
346806 AAAGTCTACGACTCTATGGCA-CTCTT
126 AAAGTCCACAACTCAATGGCATCTCTT
346832 TTTCCTTTTA
Statistics
Matches: 366, Mismatches: 32, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
248 3 0.01
249 18 0.05
250 4 0.01
251 200 0.55
255 20 0.05
256 34 0.09
257 6 0.02
258 31 0.08
259 50 0.14
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.31
Consensus pattern (250 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTAAGTGGCATCTCTTCCCAAAG
TCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGT
CCACAACTCAATGGCATCTCTTCACAAAGTCCACAACTAAGTGGCATCTTTTTTCTTCAAAGTCC
ACAACATAGTGGCAATCTCTTCTCAAAGTCCACGACTCAATGGCATCTTCTTCCC
Found at i:346860 original size:34 final size:34
Alignment explanation
Indices: 346822--347315 Score: 386
Period size: 34 Copynumber: 15.3 Consensus size: 34
346812 TACGACTCTA
346822 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCG
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCG
*
346856 TGGCAC-C----T--TTTTAAGTCCACAACTCCA
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCG
* *
346883 TGGCACTC-TTTACCATTTTAAGTCCACAACTCCA
1 TGGCACTCTTTTTCC-TTTTAAGTCCACAACTCCG
** *** *
346917 TGGCACTC-TTCACTCTTTTAAGTCTGTAACTCTG
1 TGGCACTCTTTTTC-CTTTTAAGTCCACAACTCCG
*
346951 TGGCTC-CTTTTTCCTTTTAAGTCCACAACTCCG
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCG
** *
346984 TGGCACTCTTCATCCTGTTAAGTCCACAACTCCG
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCG
*
347018 TGGCACTCTTTTTCCTTTTAAGTCCATAACTCCG
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCG
* *
347052 TGGTA--C-----CCTTTTAAG-CTCATAACTCCG
1 TGGCACTCTTTTTCCTTTTAAGTC-CACAACTCCG
*
347079 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCTG
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCG
* * * **
347113 TGGTA--C-----CCTTTTAAGTCTAAAACTTTG
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCG
*
347140 TGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCA
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCG
* * * * *
347173 TGGTAC-CTTGTTCTTTTTAAGTCCATAACTCTG
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCG
* * *
347206 TGGCAC-C-TTTTCTTTTTAAGTCCACGACTCTG
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCG
* ** *
347238 TGGCA-TCCTTTTCCCTTTTAAACCCACACCTCCG
1 TGGCACT-CTTTTTCCTTTTAAGTCCACAACTCCG
* *
347272 TGGCATCCCTTTTT-CTTGTAAGTCCACAACTCCG
1 TGGCA-CTCTTTTTCCTTTTAAGTCCACAACTCCG
347306 TGGCAC-CTTT
1 TGGCACTCTTT
347316 AAGTCCAATA
Statistics
Matches: 369, Mismatches: 60, Indels: 64
0.75 0.12 0.13
Matches are distributed among these distances:
26 1 0.00
27 69 0.19
28 2 0.01
29 2 0.01
32 33 0.09
33 73 0.20
34 182 0.49
35 7 0.02
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.37
Consensus pattern (34 bp):
TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCG
Found at i:346864 original size:26 final size:26
Alignment explanation
Indices: 346835--346893 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 26
346825 CACTCTTTTT
*
346835 CCTTTTAAGTCCACAACTCCGTGGCA
1 CCTTTTAAGTCCACAACTCCATGGCA
346861 CCTTTTTAAGTCCACAACTCCATGGCA
1 CC-TTTTAAGTCCACAACTCCATGGCA
346888 CTCTTT
1 C-CTTT
346894 ACCATTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 2 0.07
27 27 0.90
28 1 0.03
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (26 bp):
CCTTTTAAGTCCACAACTCCATGGCA
Found at i:347010 original size:101 final size:101
Alignment explanation
Indices: 346864--347311 Score: 398
Period size: 101 Copynumber: 4.6 Consensus size: 101
346854 CGTGGCACCT
* * *
346864 TTTTAAGTCCACAACTCCATGGCACTC-TTTACCATTTTAAGTCCACAACTCCATGGCACTCTTC
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCC-TTTTAAGTCCACAACTCCGTGGCACTCTT-
**
346928 ACTCTTTTAAGTCTGTAACTCTGTGGC-TCCTTTTTCC
64 ACTCTTTTAAGTCCATAACTCTGTGGCATCCTTTTTCC
** * **
346965 TTTTAAGTCCACAACTCCGTGGCACTCTTCATCCTGTTAAGTCCACAACTCCGTGGCACTCTTTT
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTAC
* *
347030 TCCTTTTAAGTCCATAACTCCGTGG--TAC-----CC
66 T-CTTTTAAGTCCATAACTCTGTGGCATCCTTTTTCC
* *
347060 TTTTAAG-CTCATAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGG------TA
1 TTTTAAGTC-CACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTA
* * * *
347118 CCCTTTTAAGTCTAAAACTTTGTGGCAT-CTTTTTCC
65 CTCTTTTAAGTCCATAACTCTGTGGCATCCTTTTTCC
* * * * * * *
347154 TTTTAAGTCCACAACTCCATGGTAC-CTTGTTCTTTTTAAGTCCATAACTCTGTGGCAC-CTT-T
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTAC
** *
347216 TCTTTTTAAGTCCACGACTCTGTGGCATCCTTTTCCC
66 TC-TTTTAAGTCCATAACTCTGTGGCATCCTTTTTCC
** * * *
347253 TTTTAAACCCACACCTCCGTGGCATCCCTTTTT-CTTGTAAGTCCACAACTCCGTGGCAC
1 TTTTAAGTCCACAACTCCGTGGCA-CTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
347312 CTTTAAGTCC
Statistics
Matches: 280, Mismatches: 47, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
88 19 0.07
89 2 0.01
90 1 0.00
93 27 0.10
94 23 0.08
95 52 0.19
97 1 0.00
98 22 0.08
99 26 0.09
100 26 0.09
101 78 0.28
102 3 0.01
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (101 bp):
TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTAC
TCTTTTAAGTCCATAACTCTGTGGCATCCTTTTTCC
Found at i:347054 original size:68 final size:66
Alignment explanation
Indices: 346822--347314 Score: 436
Period size: 61 Copynumber: 7.7 Consensus size: 66
346812 TACGACTCTA
346822 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C--CT--TTTTAAGTCCACAACTCC
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTCCTTTTAAGTCCACAACTCC
*
346882 A
66 G
* * * ***
346883 TGGCACTC-TTTACCATTTTAAGTCCACAACTCCATGGCACTCTTCACTCTTTTAAGTCTGTAAC
1 TGGCACTCTTTTTCC-TTTTAAGTCCACAACTCCGTGGCAC-CTTCTC-CTTTTAAGTCCACAAC
*
346947 TCTG
63 TCCG
* *
346951 TGGCTC-CTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTCATCCTGTTAAGTCCACAACT
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTTC-TCCTTTTAAGTCCACAACT
347015 CCG
64 CCG
* * *
347018 TGGCACTCTTTTTCCTTTTAAGTCCATAACTCCGTGG----TAC-CCTTTTAAG-CTCATAACTC
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTCCTTTTAAGTC-CACAACTC
347077 CG
65 CG
* * * * **
347079 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGG----TAC-CCTTTTAAGTCTAAAACTTT
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTCCTTTTAAGTCCACAACTCC
347139 G
66 G
* * * * *
347140 TGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCATGGTACCTTGTTCTTTTTAAGTCCATAACTC
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT-CTCCTTTTAAGTCCACAACTC
*
347204 TG
65 CG
* * * * ** *
347206 TGGCAC-C-TTTTCTTTTTAAGTCCACGACTCTGTGGCATCCTTTTCCCTTTTAAACCCACACCT
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTCT-CCTTTTAAGTCCACAACT
347269 CCG
64 CCG
* *
347272 TGGCATCCCTTTTT-CTTGTAAGTCCACAACTCCGTGGCACCTT
1 TGGCA-CTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
347315 TAAGTCCAAT
Statistics
Matches: 356, Mismatches: 51, Indels: 44
0.79 0.11 0.10
Matches are distributed among these distances:
60 35 0.10
61 106 0.30
62 1 0.00
63 3 0.01
64 1 0.00
65 28 0.08
66 47 0.13
67 55 0.15
68 76 0.21
69 4 0.01
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.37
Consensus pattern (66 bp):
TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTCCTTTTAAGTCCACAACTCC
G
Found at i:347061 original size:27 final size:27
Alignment explanation
Indices: 347031--347129 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 27
347021 CACTCTTTTT
347031 CCTTTTAAGTCCATAACTCCGTGGTAC
1 CCTTTTAAGTCCATAACTCCGTGGTAC
*
347058 CCTTTTAAG-CTCATAACTCCGTGGCACTC
1 CCTTTTAAGTC-CATAACTCCGTGGTA--C
* *
347087 TTTTTCCTTTTAAGTCCACAACTCTGTGGTAC
1 -----CCTTTTAAGTCCATAACTCCGTGGTAC
347119 CCTTTTAAGTC
1 CCTTTTAAGTC
347130 TAAAACTTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
26 1 0.02
27 34 0.58
29 1 0.02
32 1 0.02
34 21 0.36
35 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.13, T:0.37
Consensus pattern (27 bp):
CCTTTTAAGTCCATAACTCCGTGGTAC
Found at i:347151 original size:27 final size:27
Alignment explanation
Indices: 347092--347144 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
347082 CACTCTTTTT
* *
347092 CCTTTTAAGTCCACAACTCTGTGGTAC
1 CCTTTTAAGTCCAAAACTCTGTGGCAC
* *
347119 CCTTTTAAGTCTAAAACTTTGTGGCA
1 CCTTTTAAGTCCAAAACTCTGTGGCA
347145 TCTTTTTCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (27 bp):
CCTTTTAAGTCCAAAACTCTGTGGCAC
Found at i:347408 original size:51 final size:48
Alignment explanation
Indices: 347312--347773 Score: 307
Period size: 48 Copynumber: 9.9 Consensus size: 48
347302 TCCGTGGCAC
* * * * *
347312 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGTACCTT-T
1 CTTTATGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
*
347359 ACCATCTTGA-GTCAAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTGT
1 --C-T-TT-ATGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
**
347411 CTTTATGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
1 CTTTATGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* * ** * * *
347459 CTTTAAGACCGATGTCGCTGGCCTTGAATTAGCACATTGGCA------
1 CTTTATGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* * * *
347501 C---AAGCCTAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGT
1 CTTTATGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* ** * * * *
347546 CTTCAAATCTAATGTCGCTGGCCTTGAATCAGCACATTGTCA-C--G-
1 CTTTATGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* * * *
347590 ----A-GCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTATGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GT
* ** * *
347634 CTTTAAGTCTGATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTATGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT
* * * * * * *
347683 CTTTAAGACCAATGTCTCTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTATGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GT
* * *
347732 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA
1 CTTTATGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCA
347774 TCTTCAACAT
Statistics
Matches: 336, Mismatches: 51, Indels: 52
0.77 0.12 0.12
Matches are distributed among these distances:
39 60 0.18
40 2 0.01
42 1 0.00
45 2 0.01
47 2 0.01
48 113 0.34
49 113 0.34
50 4 0.01
51 37 0.11
52 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (48 bp):
CTTTATGTCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
Found at i:347450 original size:48 final size:48
Alignment explanation
Indices: 347312--347773 Score: 415
Period size: 49 Copynumber: 9.9 Consensus size: 48
347302 TCCGTGGCAC
* * *
347312 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGTACCTT-T
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* * *
347359 ACCATCTTGAGTCAAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTGT
1 --C-T-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* *
347411 CTTTATGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* * * * *
347459 CTTTAAGACCGATGTCGCTGGCCTTGAATTAGCACATTGGCA------
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
*
347501 C---AAG-CCTAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGT
1 CTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* * * * * *
347546 CTTCAAATCTAATGTCGCTGGCCTTGAATCAGCACATTGTCA-C--G-
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* * *
347590 -----AGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GT
** * *
347634 CTTTAAGTCTGATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT
* * * * *
347683 CTTTAAGACCAATGTCTCTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GT
*
347732 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
347774 TCTTCAACAT
Statistics
Matches: 335, Mismatches: 52, Indels: 52
0.76 0.12 0.12
Matches are distributed among these distances:
38 2 0.01
39 60 0.18
40 1 0.00
42 1 0.00
45 2 0.01
47 1 0.00
48 110 0.33
49 115 0.34
50 4 0.01
51 38 0.11
52 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (48 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
Found at i:347537 original size:39 final size:39
Alignment explanation
Indices: 347473--347627 Score: 130
Period size: 39 Copynumber: 3.7 Consensus size: 39
347463 AAGACCGATG
* *
347473 TCGCTGGCCTTGAATTAGCACATTGGCACAAGCCTAATA
1 TCGCTAGCCTTGAATCAGCACATTGGCACAAGCCTAATA
* ** *
347512 TCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAATCTAATG
1 TCGCTAGCCTTGAATCAGCACATTGGCA---------CAAGCCTAATA
* * * *
347560 TCGCTGGCCTTGAATCAGCACATTGTCACGAGCCCAATA
1 TCGCTAGCCTTGAATCAGCACATTGGCACAAGCCTAATA
*
347599 TCGCTAGCCTTGAATCAGCATATTGGCAC
1 TCGCTAGCCTTGAATCAGCACATTGGCAC
347628 CTTCATCTTT
Statistics
Matches: 90, Mismatches: 17, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
39 57 0.63
48 33 0.37
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (39 bp):
TCGCTAGCCTTGAATCAGCACATTGGCACAAGCCTAATA
Found at i:347568 original size:87 final size:87
Alignment explanation
Indices: 347422--347676 Score: 368
Period size: 87 Copynumber: 2.9 Consensus size: 87
347412 TTTATGTCCG
* *
347422 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA-CCGATGTCGCTGGCCTTGA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAA-ATCTGATGTCGCTGGCCTTGA
* *
347486 ATTAGCACATTGGCACAAGCCTA
65 ATCAGCACATTGGCACAAGCCCA
* *
347509 ATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAATCTAATGTCGCTGGCCTTGAA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAATCTGATGTCGCTGGCCTTGAA
* *
347574 TCAGCACATTGTCACGAGCCCA
66 TCAGCACATTGGCACAAGCCCA
* * * *
347596 ATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTGATATTGCTGGCCTTGA
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAATCTGATGTCGCTGGCCTTGA
*
347661 ATCAGCATATTGGCAC
65 ATCAGCACATTGGCAC
347677 CTTTATCTTT
Statistics
Matches: 150, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
86 1 0.01
87 112 0.75
88 37 0.25
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (87 bp):
ATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAATCTGATGTCGCTGGCCTTGAA
TCAGCACATTGGCACAAGCCCA
Found at i:347677 original size:49 final size:49
Alignment explanation
Indices: 347593--347869 Score: 297
Period size: 49 Copynumber: 5.6 Consensus size: 49
347583 TGTCACGAGC
*
347593 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
** * * *
347642 CTGATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
* * *
347691 CCAATGTCTCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
* * * *
347740 CCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCAACATTCCTAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TT--TAAGT
* * ** * * * *
347792 CCAATGTCGTTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAAT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
* * *
347839 CTAATGTCGCTGGCCTTGAATCAGCACATTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTG
347870 TCATTCTTCT
Statistics
Matches: 191, Mismatches: 34, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
47 29 0.15
49 122 0.64
50 6 0.03
52 34 0.18
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (49 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
Found at i:347762 original size:98 final size:100
Alignment explanation
Indices: 347605--347869 Score: 333
Period size: 98 Copynumber: 2.7 Consensus size: 100
347595 AATATCGCTA
* * *
347605 GCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTGATATTGCTGGCCTTGAATCAGCATA
1 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATA
* *
347670 TTGGCACCTTTATC-TT-TAAGACCAATGTC-TCTG
66 TTGGCACCTTCAACATTCTAAGACCAATGTCGT-TG
* *
347703 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATA
1 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATA
* *
347768 TTGGCATCTTCAACATTCCTAAGCCCAATGTCGTTG
66 TTGGCACCTTCAACATT-CTAAGACCAATGTCGTTG
** * * * * *
347804 GCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAATCTAATGTCGCTGGCCTTGAATCAGCACA
1 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATA
347867 TTG
66 TTG
347870 TCATTCTTCT
Statistics
Matches: 145, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
98 71 0.49
99 39 0.27
101 34 0.23
102 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (100 bp):
GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATA
TTGGCACCTTCAACATTCTAAGACCAATGTCGTTG
Found at i:348669 original size:13 final size:13
Alignment explanation
Indices: 348651--348676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
348641 ACATAAGTGT
348651 TGTATCGATACAA
1 TGTATCGATACAA
348664 TGTATCGATACAA
1 TGTATCGATACAA
348677 AGTTGCCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:350257 original size:19 final size:19
Alignment explanation
Indices: 350233--350283 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
350223 CTTAACTATT
350233 TGTATCGATACATACAAGA
1 TGTATCGATACATACAAGA
350252 TGTATCGATACATACAAGA
1 TGTATCGATACATACAAGA
350271 TGTATCGATACAT
1 TGTATCGATACAT
350284 TGTATCAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (19 bp):
TGTATCGATACATACAAGA
Found at i:356493 original size:13 final size:13
Alignment explanation
Indices: 356475--356500 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
356465 CAATTTTTTG
356475 TGTATCGATACAT
1 TGTATCGATACAT
356488 TGTATCGATACAT
1 TGTATCGATACAT
356501 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:356515 original size:32 final size:33
Alignment explanation
Indices: 356455--356518 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
356445 TACAAGCCAA
** *
356455 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
356488 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
356519 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:357247 original size:21 final size:21
Alignment explanation
Indices: 357206--357249 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
357196 CTCCCCTTTA
* *
357206 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
357227 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
357248 TC
1 TC
357250 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:358652 original size:21 final size:22
Alignment explanation
Indices: 358618--358658 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
358608 GCTGGTTTTG
358618 GTGAAAAACGAAGTAATTTGAA
1 GTGAAAAACGAAGTAATTTGAA
*
358640 GTGAAAAAC-AAGTATTTTG
1 GTGAAAAACGAAGTAATTTG
358659 CAAAAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (22 bp):
GTGAAAAACGAAGTAATTTGAA
Found at i:358797 original size:13 final size:13
Alignment explanation
Indices: 358779--358804 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
358769 ATAATCACCC
358779 TGTATCGATACAA
1 TGTATCGATACAA
358792 TGTATCGATACAA
1 TGTATCGATACAA
358805 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:360894 original size:15 final size:15
Alignment explanation
Indices: 360874--360904 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
360864 ATTTCTTGTG
*
360874 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
360889 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
360904 G
1 G
360905 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:362754 original size:21 final size:21
Alignment explanation
Indices: 362708--362752 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
362698 AAGTTTTCAT
362708 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
362728 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
362750 TTT
1 TTT
362753 CAACTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:364983 original size:13 final size:13
Alignment explanation
Indices: 364965--364990 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
364955 CAATTTTTTG
364965 TGTATCGATACAT
1 TGTATCGATACAT
364978 TGTATCGATACAT
1 TGTATCGATACAT
364991 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:365005 original size:32 final size:33
Alignment explanation
Indices: 364945--365008 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
364935 TACAAGCCAA
** *
364945 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
364978 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
365009 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:365772 original size:13 final size:13
Alignment explanation
Indices: 365754--365788 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
365744 CATTCTCTAC
*
365754 ATCGATACATTGT
1 ATCGATACAGTGT
365767 ATCGATACAGTGT
1 ATCGATACAGTGT
365780 ATCGATACA
1 ATCGATACA
365789 AAGGGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (13 bp):
ATCGATACAGTGT
Found at i:366777 original size:18 final size:18
Alignment explanation
Indices: 366754--366788 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
366744 CCAAAGAGGG
* *
366754 TCTAGTGCCTCCAAACAT
1 TCTAGTCCCTCAAAACAT
366772 TCTAGTCCCTCAAAACA
1 TCTAGTCCCTCAAAACA
366789 AAGCCACTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.34, G:0.09, T:0.26
Consensus pattern (18 bp):
TCTAGTCCCTCAAAACAT
Found at i:370316 original size:27 final size:26
Alignment explanation
Indices: 370284--370334 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
370274 TTTATTCATC
370284 GGGGACACTCCAACCCCGTTCTTCAGA
1 GGGGACACTCCAACCCCGTT-TTCAGA
*
370311 GGGGACACTCCAACCTCGTTTTCA
1 GGGGACACTCCAACCCCGTTTTCA
370335 ACCAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.22
Consensus pattern (26 bp):
GGGGACACTCCAACCCCGTTTTCAGA
Found at i:375941 original size:15 final size:16
Alignment explanation
Indices: 375921--375951 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
375911 AAAATTCTTA
375921 TTTAATTAA-AATGAT
1 TTTAATTAATAATGAT
375936 TTTAATTAATAATGAT
1 TTTAATTAATAATGAT
375952 AATCTTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
TTTAATTAATAATGAT
Found at i:384607 original size:71 final size:71
Alignment explanation
Indices: 384491--384634 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
384481 TACCCCACAT
384491 CAGCACTTTAATAGATAACACCATAAAGAACTCTTTAGTTGAATTCTCAAGCTATAATCAAATAA
1 CAGCACTTTAATAGATAACACCATAAAGAACTCTTTAGTTGAATTCTCAAGCTATAATCAAATAA
384556 AAAAGG
66 AAAAGG
384562 CAGCACTTTAATAGATAACACCATAAAGAACTCTTTAGTTGAATTCTCAAGCTATAATCAAATAA
1 CAGCACTTTAATAGATAACACCATAAAGAACTCTTTAGTTGAATTCTCAAGCTATAATCAAATAA
384627 AAAAGG
66 AAAAGG
384633 CA
1 CA
384635 CTGAAGACAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.26
Consensus pattern (71 bp):
CAGCACTTTAATAGATAACACCATAAAGAACTCTTTAGTTGAATTCTCAAGCTATAATCAAATAA
AAAAGG
Found at i:389181 original size:62 final size:63
Alignment explanation
Indices: 388973--389199 Score: 223
Period size: 62 Copynumber: 3.6 Consensus size: 63
388963 ACCCTAATTC
* *
388973 TTTTCTTTTAAGTTGAATTTACTT-TCTTAGAAGTAGGTTAAGCTTGGGATCAAACTCTAGG-TT
1 TTTTCTTTTAAGTTGAATTTGCTTCTC-TAGAAGTAGGTTAAGCTT-GGATCGAACTCTAGGTTT
* * * * * * *
389036 TTTTCTTTTGAG-TGAAATATGCTTCCCTAGAAATAGG-TAGAGCTTAGGAAT-GAAGTTTATGT
1 TTTTCTTTTAAGTTG-AATTTGCTTCTCTAGAAGTAGGTTA-AGCTT-GG-ATCGAACTCTAGGT
*
389098 AT
62 TT
* * *
389100 TTTTCTTTTAAGTTAAATTTGCTTTTCAAGAAGTAGGTTAAGCTT-GATCGAACTCTAGGTTT
1 TTTTCTTTTAAGTTGAATTTGCTTCTCTAGAAGTAGGTTAAGCTTGGATCGAACTCTAGGTTT
* *
389162 TTTTCTTTTATGTTGAATTTGCTTCTCTAGGAGTAGGT
1 TTTTCTTTTAAGTTGAATTTGCTTCTCTAGAAGTAGGT
389200 CGAGCCCAAG
Statistics
Matches: 129, Mismatches: 27, Indels: 17
0.75 0.16 0.10
Matches are distributed among these distances:
61 2 0.02
62 47 0.36
63 40 0.31
64 37 0.29
65 3 0.02
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.44
Consensus pattern (63 bp):
TTTTCTTTTAAGTTGAATTTGCTTCTCTAGAAGTAGGTTAAGCTTGGATCGAACTCTAGGTTT
Found at i:392298 original size:20 final size:19
Alignment explanation
Indices: 392222--392296 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
392212 CTTTTACCAG
392222 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTT-A
* * *
392242 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TTTTA
*
392262 ATGTATCGATACGTTCTTTA
1 ATGTATCGATACATT-TTTA
*
392282 ATGTATCAATACATT
1 ATGTATCGATACATT
392297 CTATCTTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 41 0.93
21 2 0.05
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTTTA
Found at i:393262 original size:20 final size:22
Alignment explanation
Indices: 393222--393269 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
393212 TAGCCTTTGA
*
393222 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
393244 CCATGCA-TTTTTAAC-ATG-T
1 CCATGCATTTTTTAACTATGTT
393263 CCA-GCAT
1 CCATGCAT
393270 CTCATTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 4 0.17
20 3 0.12
21 7 0.29
22 7 0.29
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:394463 original size:13 final size:13
Alignment explanation
Indices: 394445--394469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
394435 ATAATGCACA
394445 GTATCGATACATT
1 GTATCGATACATT
394458 GTATCGATACAT
1 GTATCGATACAT
394470 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:394556 original size:13 final size:13
Alignment explanation
Indices: 394538--394564 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
394528 CCTTAACTGT
394538 TTGTATCGATACA
1 TTGTATCGATACA
394551 TTGTATCGATACA
1 TTGTATCGATACA
394564 T
1 T
394565 GACCAAACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:400773 original size:13 final size:13
Alignment explanation
Indices: 400752--400787 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
400742 GCATTCTCAA
400752 TATCGATACATTG
1 TATCGATACATTG
*
400765 TATCAATACATTG
1 TATCGATACATTG
400778 TATCGATACA
1 TATCGATACA
400788 AGGGGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:401245 original size:24 final size:25
Alignment explanation
Indices: 401218--401274 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 25
401208 AGGCTCTCTA
*
401218 GGCAACCCTCACCAGGTCGCGACC-
1 GGCAACCCTCACCAGGTCGCAACCG
401242 GGC-A--CTC-CCAGGTCGCAACCG
1 GGCAACCCTCACCAGGTCGCAACCG
*
401263 GGCAGCCCTCAC
1 GGCAACCCTCAC
401275 ACTCACAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
20 12 0.46
21 6 0.23
23 1 0.04
24 6 0.23
25 1 0.04
ACGTcount: A:0.19, C:0.46, G:0.26, T:0.09
Consensus pattern (25 bp):
GGCAACCCTCACCAGGTCGCAACCG
Found at i:403412 original size:33 final size:33
Alignment explanation
Indices: 403368--403436 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
403358 CCTTAACTGT
*
403368 TTGTATCGATACATTACAAAATGTATCAATACA
1 TTGTATCGATACATGACAAAATGTATCAATACA
* * *
403401 TTGTATTGATACATGACCAAATGTATCGATACA
1 TTGTATCGATACATGACAAAATGTATCAATACA
403434 TTG
1 TTG
403437 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATGACAAAATGTATCAATACA
Found at i:410753 original size:21 final size:20
Alignment explanation
Indices: 410705--410757 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
410695 ATTGATACAT
**
410705 TGTATCGATACATGACCAAA
1 TGTATCGATACATGAAAAAA
* *
410725 TATATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAA-AA
410746 TGTATCGATACA
1 TGTATCGATACA
410758 GGTCATTGGG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:410852 original size:33 final size:32
Alignment explanation
Indices: 410789--410856 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
410779 GTAGCCAAAT
* *
410789 TTGTATCGATACACACAATATGTATTGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
**
410821 TTGTATCGATACATTCTAAAATGTATCGATACA
1 TTGTATCGATACACAC-AAAATGTATCGATACA
410854 TTG
1 TTG
410857 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:417035 original size:13 final size:13
Alignment explanation
Indices: 417017--417054 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
417007 CAGCATTCTC
*
417017 TGTATCGATACAT
1 TGTATCGATACAG
417030 TGTATCGATACAG
1 TGTATCGATACAG
417043 TGTATCGATACA
1 TGTATCGATACA
417055 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:418943 original size:22 final size:22
Alignment explanation
Indices: 418917--418961 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
418907 CGAAAGTGTT
*
418917 AAATTATTTT-ACTAAGGTGGAG
1 AAATT-TTTTGACTAAGGGGGAG
*
418939 AAATTTTTTGATTAAGGGGGAG
1 AAATTTTTTGACTAAGGGGGAG
418961 A
1 A
418962 CAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.36
Consensus pattern (22 bp):
AAATTTTTTGACTAAGGGGGAG
Found at i:419541 original size:20 final size:21
Alignment explanation
Indices: 419516--419565 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
419506 GATACATTGA
**
419516 ATCGATACATGACCA-AATGT
1 ATCGATACATGAAAAGAATGT
*
419536 ATCGATACTTGAAAAGAATGT
1 ATCGATACATGAAAAGAATGT
419557 ATCGATACA
1 ATCGATACA
419566 GGTCATTGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (21 bp):
ATCGATACATGAAAAGAATGT
Found at i:419635 original size:13 final size:13
Alignment explanation
Indices: 419617--419642 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
419607 ACACACAATA
419617 TGTATCGATACAT
1 TGTATCGATACAT
419630 TGTATCGATACAT
1 TGTATCGATACAT
419643 CCTAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:419661 original size:33 final size:33
Alignment explanation
Indices: 419597--419675 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
419587 GTAGCCAAAT
* *
419597 TTGTATCGATACA-CACAATATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCAATACA
419629 TTGTATCGATACATC-CTAAAATGTATCAATACA
1 TTGTATCGATACATCAC-AAAATGTATCAATACA
*
419662 ATGTATCGATACAT
1 TTGTATCGATACAT
419676 TCTTGGCTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.33
33 28 0.67
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCAATACA
Found at i:423840 original size:16 final size:16
Alignment explanation
Indices: 423819--423852 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
423809 AATGTTAGGG
423819 CAACATATCAACGAGC
1 CAACATATCAACGAGC
423835 CAACATATCAACGAGC
1 CAACATATCAACGAGC
423851 CA
1 CA
423853 TGGTAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.32, G:0.12, T:0.12
Consensus pattern (16 bp):
CAACATATCAACGAGC
Found at i:426575 original size:17 final size:16
Alignment explanation
Indices: 426555--426635 Score: 81
Period size: 17 Copynumber: 4.6 Consensus size: 16
426545 CTCAAAAAGC
426555 AAAACAAAATAAAAATAA
1 AAAACAAAA-AAAAA-AA
426573 AAAAGCCAAAAAAACAAAA
1 AAAA--CAAAAAAA-AAAA
*
426592 AAAACAACAAAAAAACA
1 AAAACAA-AAAAAAAAA
426609 AAAACAAAAAAAAAAA
1 AAAACAAAAAAAAAAA
*
426625 CAATACAAAAA
1 -AAAACAAAAA
426636 GGGAGGGGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
16 8 0.15
17 22 0.40
18 9 0.16
19 9 0.16
20 7 0.13
ACGTcount: A:0.83, C:0.12, G:0.01, T:0.04
Consensus pattern (16 bp):
AAAACAAAAAAAAAAA
Found at i:426594 original size:20 final size:19
Alignment explanation
Indices: 426555--426627 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
426545 CTCAAAAAGC
426555 AAAACAAAATAAA-AATAAAA
1 AAAACAAAA-AAACAA-AAAA
**
426575 AAGCCAAAAAAACAAAAAA
1 AAAACAAAAAAACAAAAAA
*
426594 AACAACAAAAAAACAAAAAC
1 AA-AACAAAAAAACAAAAAA
426614 AAAA-AAAAAAACAA
1 AAAACAAAAAAACAA
426628 TACAAAAAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
18 10 0.22
19 11 0.24
20 25 0.54
ACGTcount: A:0.84, C:0.12, G:0.01, T:0.03
Consensus pattern (19 bp):
AAAACAAAAAAACAAAAAA
Found at i:426604 original size:29 final size:29
Alignment explanation
Indices: 426555--426636 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
426545 CTCAAAAAGC
* *
426555 AAAACAAAATAAA-AATAAAAAAGCCAAA
1 AAAACAAAAAAAACAATAAAAAAGACAAA
*
426583 AAAACAAAAAAAACAACAAAAAA-ACAAA
1 AAAACAAAAAAAACAATAAAAAAGACAAA
*
426611 AACAAAAAAAAAAACAATACAAAAAG
1 AA-AACAAAAAAAACAATA-AAAAAG
426637 GGAGGGGTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 18 0.40
29 22 0.49
30 5 0.11
ACGTcount: A:0.82, C:0.12, G:0.02, T:0.04
Consensus pattern (29 bp):
AAAACAAAAAAAACAATAAAAAAGACAAA
Found at i:426635 original size:12 final size:12
Alignment explanation
Indices: 426580--426627 Score: 69
Period size: 12 Copynumber: 3.8 Consensus size: 12
426570 TAAAAAAGCC
426580 AAAAAAACAAAA
1 AAAAAAACAAAA
*
426592 AAAACAACAAAAA
1 AAAAAAAC-AAAA
426605 AACAAAAACAAAA
1 AA-AAAAACAAAA
426618 AAAAAAACAA
1 AAAAAAACAA
426628 TACAAAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 15 0.47
13 12 0.38
14 5 0.16
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:429181 original size:19 final size:19
Alignment explanation
Indices: 429157--429277 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
429147 AAACAGTAAC
429157 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
429176 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
429189 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
429208 TGTATCGAT--ATAA----
1 TGTATCGATACATAAGTGT
429221 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
429240 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
429253 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
429272 TGTATC
1 TGTATC
429278 AATAAAATGT
Statistics
Matches: 84, Mismatches: 0, Indels: 36
0.70 0.00 0.30
Matches are distributed among these distances:
13 31 0.37
15 8 0.10
17 8 0.10
19 37 0.44
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:429194 original size:13 final size:13
Alignment explanation
Indices: 429176--429264 Score: 61
Period size: 13 Copynumber: 5.9 Consensus size: 13
429166 ACATAAGTGT
429176 TGTATCGATACAA
1 TGTATCGATACAA
429189 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
429204 GTGTTGTATCGATATAA
1 ----TGTATCGATACAA
429221 TGTATCGATACATAA
1 TGTATCGATAC--AA
429236 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
429253 TGTATCGATACA
1 TGTATCGATACA
429265 TAAGTGTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 24
0.70 0.02 0.27
Matches are distributed among these distances:
13 33 0.53
15 4 0.06
17 4 0.06
19 21 0.34
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:429198 original size:32 final size:32
Alignment explanation
Indices: 429157--429296 Score: 244
Period size: 32 Copynumber: 4.4 Consensus size: 32
429147 AAACAGTAAC
429157 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
429189 TGTATCGATACATAAGTGTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
429221 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
429253 TGTATCGATACATAAGTGTTGTATCAATAAAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
429285 TGTATCGCTACA
1 TGTATCGATACA
429297 AAGCTATTGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 103 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:429352 original size:13 final size:13
Alignment explanation
Indices: 429334--429359 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
429324 CATTACTCAA
429334 TGTATCGATACAT
1 TGTATCGATACAT
429347 TGTATCGATACAT
1 TGTATCGATACAT
429360 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:436380 original size:13 final size:12
Alignment explanation
Indices: 436333--436379 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
436323 TCAAAAGTGC
*
436333 AAACACAAAAAA
1 AAACAAAAAAAA
*
436345 AAACAACACAAAA
1 AAACAA-AAAAAA
*
436358 AAACAAAAATAA
1 AAACAAAAAAAA
436370 AAACAAAAAA
1 AAACAAAAAA
436380 TGCACACAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (12 bp):
AAACAAAAAAAA
Found at i:437647 original size:32 final size:31
Alignment explanation
Indices: 437612--437892 Score: 322
Period size: 32 Copynumber: 9.0 Consensus size: 31
437602 TTCACATCTC
437612 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
*
437643 CTTCTCAAAGTCCACGACTTAGTGGCATCTCTT
1 -TTCTCAAAGTCCACGACTCAGTGGCATCT-TT
* *
437676 TTCCCAAAGTCCACAACTCAGTGGCATCTCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCT-TT
*
437708 TTCT--AAGTCCACGACTCAGTGGCATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
437737 TTCTTCAAAGTCCACGA-TCAGTGGCAATC-TT
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCTTT
* * * * *
437768 TTCCCAAAGTCCATGACTCAATGGCATCCTA
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
* *
437799 TTCTTCAAAGTCCATGACTCATTGGCA-CTCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATCT-TT
* * *
437831 TTCTCAAAGTCCATGACTCAGTGGCCTC-TC
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
*
437861 TTCCCAAAGTCCACGACTCAGTGGCATCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
437892 T
1 T
437893 CTTTTAAGTC
Statistics
Matches: 216, Mismatches: 22, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
29 5 0.02
30 62 0.29
31 48 0.22
32 99 0.46
33 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (31 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTTT
Found at i:437723 original size:62 final size:61
Alignment explanation
Indices: 437612--437892 Score: 311
Period size: 62 Copynumber: 4.5 Consensus size: 61
437602 TTCACATCTC
*
437612 TTCT-CAAAGTCCACGACTCAGTGGCATCTTTCTTCTCAAAGTCCACGACTTAGTGGCATCTCTT
1 TTCTCCAAAGTCCACGACTCAGTGGCATCTTT-TTCT--AAGTCCACGACTCAGTGGCATC-CTT
*
437676 TTC-CCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTT
1 TTCTCCAAAGTCCACGACTCAGTGGCATCT-TTTTCTAAGTCCACGACTCAGTGGCATCCTT
* * * * * *
437737 TTCTTCAAAGTCCACGA-TCAGTGGCAATCTTTTCCCAAAGTCCATGACTCAATGGCATCCTA
1 TTCTCCAAAGTCCACGACTCAGTGGC-ATCTTTT-TCTAAGTCCACGACTCAGTGGCATCCTT
* * * * * * *
437799 TTCTTCAAAGTCCATGACTCATTGGCACTCTTTTCTCAAAGTCCATGACTCAGTGGCCT-CTC
1 TTCTCCAAAGTCCACGACTCAGTGGCA-TCTTTT-TCTAAGTCCACGACTCAGTGGCATCCTT
437861 TTC-CCAAAGTCCACGACTCAGTGGCATCTTTT
1 TTCTCCAAAGTCCACGACTCAGTGGCATCTTTT
437893 CTTTTAAGTC
Statistics
Matches: 192, Mismatches: 18, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
60 6 0.03
61 37 0.19
62 81 0.42
63 35 0.18
64 31 0.16
65 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (61 bp):
TTCTCCAAAGTCCACGACTCAGTGGCATCTTTTTCTAAGTCCACGACTCAGTGGCATCCTT
Found at i:437810 original size:94 final size:93
Alignment explanation
Indices: 437606--437905 Score: 376
Period size: 94 Copynumber: 3.2 Consensus size: 93
437596 CAGTTCTTCA
* * *
437606 CATCTCTTC-TCAAAGTCCACGACTCAGTGGCATCTTTCTTCTCAAAGTCCACGACTTAGTGGCA
1 CATCTATTCTTCAAAGTCCACGACTCAGTGGCATCCTT-TTCTCAAAGTCCACGACTCAGTGGCA
*
437670 TCTCTTTTCCCAAAGTCCACAACTCAGTGG
65 -CTCTTTTCCCAAAGTCCACGACTCAGTGG
* *
437700 CATCTCTT-TTCTAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGA-TCAGTGGCA
1 CATCTATTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTC-TCAAAGTCCACGACTCAGTGGCA
* * *
437763 ATCTTTTCCCAAAGTCCATGACTCAATGG
65 CTCTTTTCCCAAAGTCCACGACTCAGTGG
* * *
437792 CATCCTATTCTTCAAAGTCCATGACTCATTGGCA-CTCTTTTCTCAAAGTCCATGACTCAGTGGC
1 CAT-CTATTCTTCAAAGTCCACGACTCAGTGGCATC-CTTTTCTCAAAGTCCACGACTCAGTGGC
*
437856 -CTCTCTTCCCAAAGTCCACGACTCAGTGG
64 ACTCTTTTCCCAAAGTCCACGACTCAGTGG
* **
437885 CATCTTTTCTTTTAAGTCCAC
1 CATCTATTCTTCAAAGTCCAC
437906 AATTTTGTGA
Statistics
Matches: 180, Mismatches: 20, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
92 42 0.23
93 56 0.31
94 82 0.46
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (93 bp):
CATCTATTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTCAAAGTCCACGACTCAGTGGCAC
TCTTTTCCCAAAGTCCACGACTCAGTGG
Found at i:438025 original size:92 final size:89
Alignment explanation
Indices: 437867--438047 Score: 238
Period size: 92 Copynumber: 2.0 Consensus size: 89
437857 TCTCTTCCCA
* * *
437867 AAGTCCACGACTCAGTGGCATCTTTTCTTTTAAGTCCACAATTTTGTGACACCTTTCCTTTCAAG
1 AAGTCCACAACTCAGTGGCATCTTTTCTTTTAAGTCCACAACTCTGTGACACCTTTCCTTTCAAG
*
437932 TCCATAGCTCTATGGCAC-CTTTT
66 TCCATAACTCTATGGCACTCTTTT
* * *
437955 AAGTCCACAACTCCGTGGCATCTTTTTCTTTTTAAGTCCATAACTCTGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCAGTGGCATC-TTTTC-TTTTAAGTCCACAACTCTGTGACACC-T-TTCCTTT
* *
438020 TAAGTCCATAACTCTGTGGCACTCTTTT
62 CAAGTCCATAACTCTATGGCACTCTTTT
438048 CCCTTTTAAG
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
88 20 0.25
89 5 0.06
90 22 0.28
91 1 0.01
92 26 0.33
93 5 0.06
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (89 bp):
AAGTCCACAACTCAGTGGCATCTTTTCTTTTAAGTCCACAACTCTGTGACACCTTTCCTTTCAAG
TCCATAACTCTATGGCACTCTTTT
Found at i:438053 original size:34 final size:33
Alignment explanation
Indices: 437949--438207 Score: 264
Period size: 34 Copynumber: 8.0 Consensus size: 33
437939 CTCTATGGCA
*
437949 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
437982 CTTTTTAAGTCCATAACTCTGTGGCACCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * *
438015 CCTTTTAAGTCCATAACTCTGTGGCACTCTTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTT
* *
438049 CCTTTTAAGTCCACAATTCTGTGGCA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* *
438076 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTT
*
438110 CCTTTTAAGTCCACAACTCCGTGGTACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * *
438143 CTTTTTAAAGCCCACAATTCCGTGGCACC--TTT
1 CCTTTT-AAGTCCACAACTCCGTGGCACCTTTTT
* * *
438175 CTTTTTAAGTCCATAACTCCGTGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
438208 AAGTCTACAA
Statistics
Matches: 193, Mismatches: 22, Indels: 22
0.81 0.09 0.09
Matches are distributed among these distances:
27 24 0.12
29 1 0.01
31 19 0.10
32 10 0.05
33 68 0.35
34 71 0.37
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.39
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:438074 original size:126 final size:123
Alignment explanation
Indices: 437867--438242 Score: 432
Period size: 126 Copynumber: 3.0 Consensus size: 123
437857 TCTCTTCCCA
* * * * *
437867 AAGTCCACGACTCAGTGGCATCTTTT-CTTTTAAGTCCACAATTTTGTGACACCTTTCCTTTCAA
1 AAGTCCACAACTCAGTGGCACCTTTTCCTTTTAAGTCCACAATTCTGTGGCACCTTTCCTTTTAA
* *
437931 GTCCATAGCTCTATGGCA-CCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCTTTTT
66 GTCCATAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCTTTTT
* * * *
437988 AAGTCCATAACTCTGTGGCACCTTGTTCCTTTTAAGTCCATAACTCTGTGGCACTCTTTTCCCTT
1 AAGTCCACAACTCAGTGGCACCTT-TTCCTTTTAAGTCCACAATTCTGTGGCAC-C-TTT-CCTT
* * * * *
438053 TTAAGTCCACAATTCTGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTT
62 TTAAGTCCATAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTTCTTTTT
* * * * * *
438116 AAGTCCACAACTCCGTGGTACCTTTTTCTTTTTAAAGCCCACAATTCCGTGGCACCTTTCTTTTT
1 AAGTCCACAACTCAGTGGCACC-TTTTCCTTTT-AAGTCCACAATTCTGTGGCACCTTTCCTTTT
* * * * *
438181 AAGTCCATAACTCCGTGGCACCCTTTTAAGTCTACAATTCCATGGCATCTTTCTCTTTTT
64 AAGTCCATAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCTTTTT
438241 AA
1 AA
438243 CCACACAAGT
Statistics
Matches: 211, Mismatches: 35, Indels: 14
0.81 0.13 0.05
Matches are distributed among these distances:
121 20 0.09
122 2 0.01
123 22 0.10
124 1 0.00
125 16 0.08
126 65 0.31
127 27 0.13
128 39 0.18
129 19 0.09
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.38
Consensus pattern (123 bp):
AAGTCCACAACTCAGTGGCACCTTTTCCTTTTAAGTCCACAATTCTGTGGCACCTTTCCTTTTAA
GTCCATAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCTTTTT
Found at i:438089 original size:27 final size:27
Alignment explanation
Indices: 438048--438108 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
438038 GCACTCTTTT
* *
438048 CCCTTTTAAGTCCACAATTCTGTGGCA
1 CCCTTTTAAGCCCACAACTCTGTGGCA
438075 CCCTTTTAAGCCCACAACTCTGTGGCA
1 CCCTTTTAAGCCCACAACTCTGTGGCA
*
438102 CTCTTTT
1 CCCTTTT
438109 TCCTTTTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (27 bp):
CCCTTTTAAGCCCACAACTCTGTGGCA
Found at i:438128 original size:95 final size:96
Alignment explanation
Indices: 437981--438207 Score: 289
Period size: 95 Copynumber: 2.4 Consensus size: 96
437971 GGCATCTTTT
* * *
437981 TCTTTTTAAGTCCATAACTCTGTGGCACCTTGTTCCTTTTAAGTCCATAACTCTGTGGCACTCTT
1 TCTTTTTAAGTCCATAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTT
* *
438046 TTCCCTTTT-AAGTCCACAATTCTGTGGCACC
65 TTCCCTTTTAAAGCCCACAATTCCGTGGCACC
* * *
438077 -C-TTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGTACCTT
1 TCTTTTTAAGTCCATAACTCTGTGGCAC-CTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
* *
438140 TTTCTTTTTAAAGCCCACAATTCCGTGGCACC
65 TTCCCTTTTAAAGCCCACAATTCCGTGGCACC
* *
438172 TTTCTTTTTAAGTCCATAACTCCGTGGCACCCTTTT
1 --TCTTTTTAAGTCCATAACTCTGTGGCACCTTTTT
438208 AAGTCTACAA
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
94 33 0.30
95 50 0.45
98 6 0.05
99 22 0.20
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.39
Consensus pattern (96 bp):
TCTTTTTAAGTCCATAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTT
TCCCTTTTAAAGCCCACAATTCCGTGGCACC
Found at i:438407 original size:39 final size:39
Alignment explanation
Indices: 438348--438686 Score: 237
Period size: 39 Copynumber: 8.0 Consensus size: 39
438338 ACTTTATCTT
* * *
438348 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCG
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
438387 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
438426 CCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 ---------TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
438474 TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGG--C---A
* *
438518 TCTTTAAGACCAATGTCGCTGGCTTTGAATCAGCACATTGGCA
1 ----TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
438561 TAAGCCCAAAATCGCTAGCCTTGAATCAACATATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
438600 CTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGTACATTGGCA
1 ---------TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
438648 CAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
438687 CCTTTATCTT
Statistics
Matches: 236, Mismatches: 37, Indels: 54
0.72 0.11 0.17
Matches are distributed among these distances:
39 132 0.56
41 1 0.00
43 1 0.00
44 1 0.00
46 1 0.00
48 100 0.42
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:438447 original size:87 final size:87
Alignment explanation
Indices: 438301--438735 Score: 699
Period size: 87 Copynumber: 5.0 Consensus size: 87
438291 ATCTTTTTCC
* *
438301 AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCACTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCTGG
*
438366 CCTTGAATCAGCACATTGGCGT
66 CCTTGAATCAGCACATTGGCAT
* *
438388 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCTGG
438453 CCTTGAATCAGCACATTGGCAT
66 CCTTGAATCAGCACATTGGCAT
*
438475 AAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTATCTTTAAGACCAATGTCGCTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCTGG
*
438540 CTTTGAATCAGCACATTGGCAT
66 CCTTGAATCAGCACATTGGCAT
* * * *
438562 AAGCCCAAAATCGCTAGCCTTGAATCAACATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCTGG
* *
438627 CCTTGAATCAGTACATTGGCAC
66 CCTTGAATCAGCACATTGGCAT
* * *
438649 AAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTTG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGACCAATGTCGCTG
* *
438714 GCCTTAAATCAGCACATCGGCA
65 GCCTTGAATCAGCACATTGGCA
438736 CCTCAACCAT
Statistics
Matches: 322, Mismatches: 25, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
87 280 0.87
88 42 0.13
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (87 bp):
AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCTGG
CCTTGAATCAGCACATTGGCAT
Found at i:438596 original size:174 final size:174
Alignment explanation
Indices: 438301--439039 Score: 778
Period size: 174 Copynumber: 4.0 Consensus size: 174
438291 ATCTTTTTCC
* *
438301 AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCACTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCTGG
* * *
438366 CCTTGAATCAGCACATTGGCGTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTG
66 CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACATTG
438431 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
131 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
*
438475 AAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTATCTTTAAGACCAATGTCGCTGG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCTGG
* * * *
438540 CTTTGAATCAGCACATTGGCATAAGCCCAAAATCGCTAGCCTTGAATCAACATATTGGCACTTTG
66 CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACATTG
* *
438605 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGTACATTGGCAC
131 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
* * *
438649 AAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTTG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGACCAATGTCGCTG
* *
438714 GCCTTAAATCAGCACATCGGCACCTCAACCATCTTTAAGCCCAATATCGCTGGCCTTGAAT-AAG
65 GCCTTGAATCAGCACATTGG---------CA----TAAGCCCAATATCGCTGGCCTTGAATCAA-
* ** * *
438778 TATATTGGCACATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATCGGCACCTTCAT
116 CATATTGGCACATTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA-
438843 CTTT
174 ---T
* * * *
438847 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCTCCTTCGTCATCTTTATGTCCAATGTCG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACTT--T-ATCTTTAAGACCAATGTCG
* * *
438912 CTGGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
62 CTGGCCTTGAATCAGCACATTG------GCA----TAAGCCCAATATCGCTGGCCTTGAATCAAC
* * **
438977 ATATTGGCATCTTTGTCATCTTTAAAACCCAATGTCATTGGCCTTGAATCAGCACATTGGCAT
117 ATATTGGCA-CATTG---TCTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
439040 TCTTCTCATC
Statistics
Matches: 475, Mismatches: 49, Indels: 63
0.81 0.08 0.11
Matches are distributed among these distances:
174 199 0.42
175 41 0.09
184 2 0.00
187 2 0.00
188 73 0.15
193 1 0.00
194 2 0.00
197 2 0.00
198 78 0.16
199 3 0.01
200 1 0.00
201 35 0.07
202 7 0.01
203 29 0.06
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (174 bp):
AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCTGG
CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACATTG
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
Found at i:438736 original size:49 final size:49
Alignment explanation
Indices: 438659--439087 Score: 428
Period size: 49 Copynumber: 8.5 Consensus size: 49
438649 AAGCCCAGTA
* * * *
438659 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * * * *
438708 TCGTTGGCCTTAAATCAGCACATCGGCACCTCAACCATCTTTAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACCT---TCATCTTTAAGTCCAATG
* * * *
438760 TCGCTGGCCTTGAATAAGTATATTGGCA-CATCATCTTTAAGTCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
438808 TCGCTGGCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
438857 TCGCTGGCCTTGAATCAGCATATTGGCTCCTTCGTCATCTTTATGTCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACC-T--TCATCTTTAAGTCCAATG
* *
438909 TCGCTGGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * **
438958 TCGCTGGCCTTGAATCAGCATATTGGCATCTTTGTCATCTTTAAAACCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCA-C-CT-TCATCTTT-AAGTCCAATG
** * * * *
439011 TCATTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGACTAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCATCTTTAAGTCCAATG
** *
439063 TCGCTGATCGTGAATCAGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
439088 ACATTCTTTA
Statistics
Matches: 314, Mismatches: 54, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
48 39 0.12
49 114 0.36
50 2 0.01
51 3 0.01
52 113 0.36
53 41 0.13
54 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
Found at i:438930 original size:101 final size:100
Alignment explanation
Indices: 438657--439038 Score: 479
Period size: 101 Copynumber: 3.8 Consensus size: 100
438647 ACAAGCCCAG
* * * *
438657 TATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATCTTTAAGACCGATGTCGTTGGCCTT
1 TATCGCTGGCCTTGAATCAGCATATTGGC-TCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTT
* * *
438719 AAATCAGCACATCGGCACCTCAACCATCTTTAAGCCCAA
65 GAATCAGCACATCGGCACCT---TCATCTTTAAGTCCAA
* * * *
438758 TATCGCTGGCCTTGAATAAGTATATTGG--C-ACATCATCTTTAAGTCCAATGTCGCTGGCCTTG
1 TATCGCTGGCCTTGAATCAGCATATTGGCTCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTG
438820 AATCAGCACATCGGCACCTTCATCTTTAAGTCCAA
66 AATCAGCACATCGGCACCTTCATCTTTAAGTCCAA
*
438855 TATCGCTGGCCTTGAATCAGCATATTGGCTCCTTCGTCATCTTTATGTCCAATGTCGCTGGCCTT
1 TATCGCTGGCCTTGAATCAGCATATTGGCT-CTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTT
* *
438920 GAATCAGCACATTGACACCTTCATCTTTAAGTCCAA
65 GAATCAGCACATCGGCACCTTCATCTTTAAGTCCAA
* ** **
438956 TATCGCTGGCCTTGAATCAGCATATTGGCATCTTTGTCATCTTTAAAACCCAATGTCATTGGCCT
1 TATCGCTGGCCTTGAATCAGCATATTGGC-TCTTCGTCATCTTT-AAGTCCAATGTCGCTGGCCT
*
439021 TGAATCAGCACATTGGCA
64 TGAATCAGCACATCGGCA
439039 TTCTTCTCAT
Statistics
Matches: 249, Mismatches: 23, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
97 40 0.16
98 1 0.00
99 1 0.00
100 44 0.18
101 130 0.52
102 33 0.13
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (100 bp):
TATCGCTGGCCTTGAATCAGCATATTGGCTCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTG
AATCAGCACATCGGCACCTTCATCTTTAAGTCCAA
Found at i:439104 original size:105 final size:102
Alignment explanation
Indices: 438648--439134 Score: 332
Period size: 101 Copynumber: 4.8 Consensus size: 102
438638 TACATTGGCA
* * * * * * * * *
438648 CAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCA-CCTT-T-ATCTTTAAGA-CCGATGT
1 CAAGACCAATATCGCTGACCGTGAATCAGCACATTGACATCTTTATCATCTTTAAAACCCAATGT
* * * *
438709 CGTTGGCCTTAAATCAGCACATCGGCACCTCAACCATCTT
66 CGTTGGCCTTGAATCAGCACATTGACACCT---TCATCTT
* * * * * * * * **
438749 TAAGCCCAATATCGCTGGCCTTGAATAAGTATATTGGCA-C---ATCATCTTT-AAGTCCAATGT
1 CAAGACCAATATCGCTGACCGTGAATCAGCACATTGACATCTTTATCATCTTTAAAACCCAATGT
* * *
438809 CGCTGGCCTTGAATCAGCACATCGGCACCTTCATCTT
66 CGTTGGCCTTGAATCAGCACATTGACACCTTCATCTT
* * * * * * ** ***
438846 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-TCCTTCGTCATCTTT-ATGTCCAATG
1 CAAGACCAATATCGCTGACCGTGAATCAGCACATTGACAT-CTTTATCATCTTTAAAACCCAATG
*
438909 TCGCTGGCCTTGAATCAGCACATTGACACCTTCATCTT
65 TCGTTGGCCTTGAATCAGCACATTGACACCTTCATCTT
* * * * * * *
438947 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTGTCATCTTTAAAACCCAATGT
1 CAAGACCAATATCGCTGACCGTGAATCAGCACATTGACATCTTTATCATCTTTAAAACCCAATGT
* * *
439012 CATTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTT
66 CGTTGGCCTTGAATCAGCACATTGACA--CCT-TCATCTT
* * * * *
439052 CAAGACTAATGTCGCTGATCGTGAATCAGCACATTGACATTCTTTAT-ATCTTTGAAACCCAATA
1 CAAGACCAATATCGCTGACCGTGAATCAGCACATTGACA-TCTTTATCATCTTTAAAACCCAATG
*
439116 TCGTTGGCCGTGAATCAGC
65 TCGTTGGCCTTGAATCAGC
439135 GTATTGGTCC
Statistics
Matches: 333, Mismatches: 39, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
97 41 0.12
98 1 0.00
99 2 0.01
100 40 0.12
101 139 0.42
102 33 0.10
104 2 0.01
105 69 0.21
106 6 0.02
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (102 bp):
CAAGACCAATATCGCTGACCGTGAATCAGCACATTGACATCTTTATCATCTTTAAAACCCAATGT
CGTTGGCCTTGAATCAGCACATTGACACCTTCATCTT
Found at i:439790 original size:19 final size:19
Alignment explanation
Indices: 439766--439828 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
439756 AAACAGTAAC
439766 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
439785 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
439798 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
439817 TGTATCGATACA
1 TGTATCGATACA
439829 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:439803 original size:13 final size:13
Alignment explanation
Indices: 439785--439842 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
439775 ACATAAGTGT
439785 TGTATCGATACAA
1 TGTATCGATACAA
439798 TGTATCGATACATAA
1 TGTATCGATAC--AA
439813 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
439830 TGTATCGCTACAA
1 TGTATCGATACAA
439843 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:439807 original size:32 final size:32
Alignment explanation
Indices: 439766--439841 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
439756 AAACAGTAAC
439766 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
439798 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
439830 TGTATCGCTACA
1 TGTATCGATACA
439842 AAGCTACTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:439898 original size:13 final size:13
Alignment explanation
Indices: 439880--439905 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
439870 CATTACTCAA
439880 TGTATCGATACAT
1 TGTATCGATACAT
439893 TGTATCGATACAT
1 TGTATCGATACAT
439906 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:443508 original size:52 final size:52
Alignment explanation
Indices: 443430--443557 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
443420 CGAAATATGA
*
443430 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
443482 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
*
443534 AAA-TTACCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
443558 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 20 0.27
52 48 0.66
53 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:443584 original size:13 final size:13
Alignment explanation
Indices: 443566--443590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
443556 CAAAGATCAG
443566 TGTATCGATACAA
1 TGTATCGATACAA
443579 TGTATCGATACA
1 TGTATCGATACA
443591 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:448080 original size:19 final size:20
Alignment explanation
Indices: 448036--448087 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
448026 TTACAAGCCA
448036 ATGTATCGATACATTTGGTC
1 ATGTATCGATACATTTGGTC
448056 ATGTATCGATACATCTT-GT-
1 ATGTATCGATACAT-TTGGTC
448075 ATGTATCGATACA
1 ATGTATCGATACA
448088 AACAGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 16 0.52
21 2 0.06
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTGGTC
Found at i:448187 original size:13 final size:13
Alignment explanation
Indices: 448169--448193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
448159 ACATTTGGTC
448169 ATGTATCGATACA
1 ATGTATCGATACA
448182 ATGTATCGATAC
1 ATGTATCGATAC
448194 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:451501 original size:28 final size:27
Alignment explanation
Indices: 451458--451874 Score: 424
Period size: 28 Copynumber: 14.7 Consensus size: 27
451448 GTCAATACGA
451458 CACCTTTTCAAAGCCCACAAGTCAGTGG
1 CACC-TTTCAAAGCCCACAAGTCAGTGG
*
451486 CATCCTTTCAGAGCCCACAAGTCAGTGG
1 CA-CCTTTCAAAGCCCACAAGTCAGTGG
*
451514 CAACTCTTTTCAAAGCTCACAAG-CTAGTGG
1 C-AC-C-TTTCAAAGCCCACAAGTC-AGTGG
**
451544 CACCTTTCAAAGCCCGTAAGTCAGTGG
1 CACCTTTCAAAGCCCACAAGTCAGTGG
*
451571 CACCTTTTTC-AAGCCCGCAAGTCAGTGG
1 CACC--TTTCAAAGCCCACAAGTCAGTGG
451599 CATCCTTTCAAAGCCCACAAGTCAGTGG
1 CA-CCTTTCAAAGCCCACAAGTCAGTGG
* * *
451627 CACCCTTTAAAAACCTACAAGTCAGTGG
1 CA-CCTTTCAAAGCCCACAAGTCAGTGG
* *
451655 CACCTTGTCAAAGCCCGCAAGTCAATGG
1 CACCTT-TCAAAGCCCACAAGTCAGTGG
** *
451683 CACCTTTTCAAAGCCTGCACGTCAGTGG
1 CACC-TTTCAAAGCCCACAAGTCAGTGG
* *
451711 CATCCATTCAAAGCCCACAAGTCAATGG
1 CA-CCTTTCAAAGCCCACAAGTCAGTGG
*
451739 CATCCTTTCAAAGCCCATAAGTCAGTGG
1 CA-CCTTTCAAAGCCCACAAGTCAGTGG
* *
451767 CACCCTTTCAAAACCCACAAGTCAATGG
1 CA-CCTTTCAAAGCCCACAAGTCAGTGG
*
451795 CACCTTTTCAAAGCCCACAAGTCGGTGG
1 CACC-TTTCAAAGCCCACAAGTCAGTGG
*
451823 CAACCTCTTCTAAACCCCATACAAGTCAGTGG
1 C-ACCT-TTC-AAAGCCC--ACAAGTCAGTGG
*
451855 CAACCCTTCTAAAGCCCACA
1 C-ACCTTTC-AAAGCCCACA
451875 CAAGTTGGTG
Statistics
Matches: 331, Mismatches: 39, Indels: 37
0.81 0.10 0.09
Matches are distributed among these distances:
27 32 0.10
28 221 0.67
29 26 0.08
30 26 0.08
31 10 0.03
32 16 0.05
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (27 bp):
CACCTTTCAAAGCCCACAAGTCAGTGG
Found at i:451611 original size:56 final size:56
Alignment explanation
Indices: 451458--451874 Score: 468
Period size: 56 Copynumber: 7.3 Consensus size: 56
451448 GTCAATACGA
*
451458 CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAGAGCCCACAAGTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
* **
451514 CAACTCTTTTCAAAGCTCACAAG-CTAGTGGCA-CCTTTCAAAGCCCGTAAGTCAGTGG
1 C-AC-CTTTTCAAAGCCCACAAGTC-AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
*
451571 CACCTTTTTC-AAGCCCGCAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
1 CACC-TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
* * * * * *
451627 CACCCTTTAAAAACCTACAAGTCAGTGGCA-CCTTGTCAAAGCCCGCAAGTCAATGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGG
** * * *
451683 CACCTTTTCAAAGCCTGCACGTCAGTGGCATCCATTCAAAGCCCACAAGTCAATGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
* * * *
451739 CATCC-TTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAATGG
1 CA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
451795 CACCTTTTCAAAGCCCACAAGTCGGTGGCAACCTCTTCTAAACCCCATACAAGTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCC--ACAAGTCAGTGG
*
451855 CAACC-CTTCTAAAGCCCACA
1 C-ACCTTTTC-AAAGCCCACA
451875 CAAGTTGGTG
Statistics
Matches: 309, Mismatches: 35, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
55 26 0.08
56 191 0.62
57 34 0.11
58 30 0.10
60 15 0.05
61 13 0.04
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (56 bp):
CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:451847 original size:32 final size:31
Alignment explanation
Indices: 451810--451932 Score: 138
Period size: 32 Copynumber: 3.9 Consensus size: 31
451800 TTTCAAAGCC
451810 CACAAGTCGGTGGCAACCTCTTCTAAACCCCA
1 CACAAGTCGGTGGCAACC-CTTCTAAACCCCA
* * *
451842 TACAAGTCAGTGGCAACCCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTAAACCCCA
* * **
451873 CACAAGTTGGTGGCAACCTTCTCTAAAGTCCA
1 CACAAGTCGGTGGCAACCCT-TCTAAACCCCA
** *
451905 CATGAGTTGGTGGCAACCCTTCTAAACC
1 CACAAGTCGGTGGCAACCCTTCTAAACC
451933 TATTGTTGCT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
31 34 0.44
32 43 0.56
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (31 bp):
CACAAGTCGGTGGCAACCCTTCTAAACCCCA
Found at i:452939 original size:51 final size:50
Alignment explanation
Indices: 452864--452960 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 50
452854 AAAAGTCACA
*
452864 TCTTTTACCCAGATGTACCGATACATTTTTTAATGTATCGATACATTCTG
1 TCTTTTACCCAGATGTACCGATACATTTTTCAATGTATCGATACATTCTG
*
452914 TCTTTCTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
1 TCTTT-TACCCAGATGTACCGATACATTTTTCAATGTATCGATACAT
452961 CTAGTTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 5 0.11
51 39 0.89
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (50 bp):
TCTTTTACCCAGATGTACCGATACATTTTTCAATGTATCGATACATTCTG
Found at i:456620 original size:9 final size:9
Alignment explanation
Indices: 456608--456638 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
456598 ATAATACACA
456608 TTTAGATAT
1 TTTAGATAT
456617 TTTAGATAT
1 TTTAGATAT
456626 TTTAGATAT
1 TTTAGATAT
456635 TTTA
1 TTTA
456639 AAGTATTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (9 bp):
TTTAGATAT
Found at i:462178 original size:22 final size:22
Alignment explanation
Indices: 462121--462179 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
462111 TAAAAAATTA
*
462121 AAATAAATATAT-TAATTATTT
1 AAATAAATATATATACTTATTT
*
462142 ATAAT-AATATTTATACTT-TTT
1 A-AATAAATATATATACTTATTT
462163 AAATTAAATATATATAC
1 AAA-TAAATATATATAC
462180 CAAACAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 2 0.06
21 12 0.39
22 17 0.55
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATAAATATATATACTTATTT
Found at i:467368 original size:161 final size:161
Alignment explanation
Indices: 467176--467500 Score: 623
Period size: 161 Copynumber: 2.0 Consensus size: 161
467166 GTTCTGATAC
*
467176 TTCGTTGTTGGGTTTGGATATTTAGCATTCTGGATTACACTGCATTTCAATTGTTCCAGCCTCGA
1 TTCGTTGTTGGGTTTGGATATTTAGCATTCTGGATTACACTGCATTTCAATTGTTCCAGCCCCGA
*
467241 TGTTCAATTCAGTAAGTTTTTCAGTCAGAGTTGGTTAAAGTCTAGGTGTATAACTGAGCCAATTC
66 TGTTCAATTCAGTAAGTTTTTCAGCCAGAGTTGGTTAAAGTCTAGGTGTATAACTGAGCCAATTC
467306 AAGTTGGAAACAAGGATAAGCTTGAACTCAA
131 AAGTTGGAAACAAGGATAAGCTTGAACTCAA
*
467337 TTCGTTGTTGGGTTTGGATATTTAGCATTCTGGATTACACTGCATTTGAATTGTTCCAGCCCCGA
1 TTCGTTGTTGGGTTTGGATATTTAGCATTCTGGATTACACTGCATTTCAATTGTTCCAGCCCCGA
467402 TGTTCAATTCAGTAAGTTTTTCAGCCAGAGTTGGTTAAAGTCTAGGTGTATAACTGAGCCAATTC
66 TGTTCAATTCAGTAAGTTTTTCAGCCAGAGTTGGTTAAAGTCTAGGTGTATAACTGAGCCAATTC
467467 AAGTTGGAAACAAGGATAAGCTTGAACTCAA
131 AAGTTGGAAACAAGGATAAGCTTGAACTCAA
467498 TTC
1 TTC
467501 AATTACAAAA
Statistics
Matches: 161, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 161 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (161 bp):
TTCGTTGTTGGGTTTGGATATTTAGCATTCTGGATTACACTGCATTTCAATTGTTCCAGCCCCGA
TGTTCAATTCAGTAAGTTTTTCAGCCAGAGTTGGTTAAAGTCTAGGTGTATAACTGAGCCAATTC
AAGTTGGAAACAAGGATAAGCTTGAACTCAA
Found at i:472039 original size:2 final size:2
Alignment explanation
Indices: 472032--472062 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
472022 AGACAACGAT
472032 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
472063 GGAACTCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:473298 original size:18 final size:18
Alignment explanation
Indices: 473263--473307 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
473253 AAATAAAAAA
473263 TATTTTTAAGTAAATAAT
1 TATTTTTAAGTAAATAAT
*
473281 TAATTTTTAA-TAAGTAAT
1 T-ATTTTTAAGTAAATAAT
473299 TATTTTTAA
1 TATTTTTAA
473308 AAATAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 8 0.32
18 9 0.36
19 8 0.32
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (18 bp):
TATTTTTAAGTAAATAAT
Found at i:475006 original size:32 final size:28
Alignment explanation
Indices: 474984--475046 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
474974 GATACATTGT
474984 ATTGATAAATGTTCATAGTATCGATACAC
1 ATTGA-AAATGTTCATAGTATCGATACAC
*
475013 ATTGAATATGTTCATAGTATCGATACAC
1 ATTGAAAATGTTCATAGTATCGATACAC
475041 ATTGAA
1 ATTGAA
475047 TTGTATTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 28 0.85
29 5 0.15
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (28 bp):
ATTGAAAATGTTCATAGTATCGATACAC
Found at i:475025 original size:28 final size:28
Alignment explanation
Indices: 474992--475047 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
474982 GTATTGATAA
474992 ATGTTCATAGTATCGATACACATTGAAT
1 ATGTTCATAGTATCGATACACATTGAAT
475020 ATGTTCATAGTATCGATACACATTGAAT
1 ATGTTCATAGTATCGATACACATTGAAT
475048 TGTATTGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (28 bp):
ATGTTCATAGTATCGATACACATTGAAT
Found at i:476709 original size:3 final size:3
Alignment explanation
Indices: 476701--476750 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
476691 TCAACCATCA
* *
476701 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA ATA ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
476749 AT
1 AT
476751 AAAGTTGACT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:481944 original size:33 final size:33
Alignment explanation
Indices: 481907--481973 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
481897 TTCAACGATT
481907 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
481940 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
481973 T
1 T
481974 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:481945 original size:13 final size:13
Alignment explanation
Indices: 481927--481951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
481917 CATAAAATGT
481927 TGTATCGATACAA
1 TGTATCGATACAA
481940 TGTATCGATACA
1 TGTATCGATACA
481952 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:482032 original size:13 final size:13
Alignment explanation
Indices: 482014--482038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
482004 ATTACTCAAA
482014 TGTATCGATACAT
1 TGTATCGATACAT
482027 TGTATCGATACA
1 TGTATCGATACA
482039 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:482140 original size:52 final size:52
Alignment explanation
Indices: 482047--482170 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
482037 CACTGATCTT
*
482047 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
482098 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
482150 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
482171 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 19 0.28
52 50 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:491720 original size:166 final size:165
Alignment explanation
Indices: 491434--491909 Score: 484
Period size: 166 Copynumber: 2.9 Consensus size: 165
491424 GTTTTAAACA
* * * * * *
491434 TTAAAATT-ATTCAAATATTATTATTTA-ATTACCATCAAATCAGTTTTAAAAAATTCCTT-TTG
1 TTAAAATTCA-TCAAATATTATTATTTATTTTA-TATTAAATCAGTTTTCAAAAATTCATTCAT-
* * * * * * *
491496 TTTTTTGAATTATTG-ATTTTCTT-TTGGAATTCCTCATATTTTC-AAATTACGTAGTTTTCTTC
63 TTTTATGAGTTTTTGAATTTT-TTCTTGAAATT-CTCTTATTTTCGAAA-TACGAAGTTTTCTAC
*
491558 TCTATGAAA-ATTTTCAAGAAGA-TTTTCAAGATATTAAAAATT
125 TCCAT-AAATATTTTCAAG-AGATTTTTCAAG-TATTAAAAATT
491600 TTAAAATTCATCAAATATTATTATTTATTTTATATTAAATCAGTTTTCAAAAATTCATTCATTTT
1 TTAAAATTCATCAAATATTATTATTTATTTTATATTAAATCAGTTTTCAAAAATTCATTCATTTT
* *
491665 TATGAGTTTTTGAATTTTTTCTTGAAATTCTCTTATTTTCGAAATACGGAGTTTTCTACTCCGTA
66 TATGAGTTTTTGAATTTTTTCTTGAAATTCTCTTATTTTCGAAATACGAAGTTTTCTACTCCATA
* * * ** * ** *
491730 AATTTTTTTAAGGGATTTTTCTTGTTTTTTAATTT
131 AATATTTTCAAGAGATTTTTCAAGTATTAAAAATT
* * *
491765 TTAAAATTCATAAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTT
1 TTAAAATTCATCAAATATTATTATTTATTTTATATTAAATCAGTTTTCAAAAATTCATTCATTTT
* * * *
491830 CATGAGTTTTTAAATTTTTTCCTTCAAATTC-CTCTATTTTCGAAATACGAAGTTTTCTACTCCC
66 TATGAGTTTTTGAATTTTTT-CTTGAAATTCTCT-TATTTTCGAAATACGAAGTTTTCTACTCCA
* *
491894 TAAATTTTTTCGAGAG
129 TAAATATTTTCAAGAG
491910 GATTCATCTC
Statistics
Matches: 265, Mismatches: 35, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
165 94 0.35
166 151 0.57
167 20 0.08
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (165 bp):
TTAAAATTCATCAAATATTATTATTTATTTTATATTAAATCAGTTTTCAAAAATTCATTCATTTT
TATGAGTTTTTGAATTTTTTCTTGAAATTCTCTTATTTTCGAAATACGAAGTTTTCTACTCCATA
AATATTTTCAAGAGATTTTTCAAGTATTAAAAATT
Found at i:491802 original size:165 final size:166
Alignment explanation
Indices: 491598--491903 Score: 517
Period size: 165 Copynumber: 1.8 Consensus size: 166
491588 ATATTAAAAA
* *
491598 TTTTAAAATTCATCAAATATTATTATTTATTTTATATTAAATCAGTTTTCAAAAATTCATTCATT
1 TTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTCATT
* * * *
491663 TTTATGAGTTTTTGAATTTTTT-CTTGAAATT-CTCTTATTTTCGAAATACGGAGTTTTCTACTC
66 TTCATGAGTTTTTAAATTTTTTCCTTCAAATTCCTC-TATTTTCGAAATACGAAGTTTTCTACTC
*
491726 CGTAAATTTTTTTAAGGGATTTTTCTTGTTTTTTAAT
130 CCTAAATTTTTTTAAGGGATTTTTCTTGTTTTTTAAT
*
491763 TTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTCATT
1 TTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTCATT
491828 TTCATGAGTTTTTAAATTTTTTCCTTCAAATTCCTCTATTTTCGAAATACGAAGTTTTCTACTCC
66 TTCATGAGTTTTTAAATTTTTTCCTTCAAATTCCTCTATTTTCGAAATACGAAGTTTTCTACTCC
491893 CTAAATTTTTT
131 CTAAATTTTTT
491904 CGAGAGGATT
Statistics
Matches: 131, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
165 82 0.63
166 46 0.35
167 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (166 bp):
TTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTCATT
TTCATGAGTTTTTAAATTTTTTCCTTCAAATTCCTCTATTTTCGAAATACGAAGTTTTCTACTCC
CTAAATTTTTTTAAGGGATTTTTCTTGTTTTTTAAT
Found at i:492179 original size:42 final size:42
Alignment explanation
Indices: 492111--492258 Score: 149
Period size: 42 Copynumber: 3.5 Consensus size: 42
492101 ATCGGCCCAG
** * *
492111 TCCCATGTAAACCCCTTTATCC-TTGTTAACTTGTCGATTCAA
1 TCCCA-GTAAACTTCTTTATCCTTTGTTAACCTATCGATTCAA
* * *
492153 TCCCAGTTAACTTCTTTATCCTTTGTTTACCTATCGATTTAA
1 TCCCAGTAAACTTCTTTATCCTTTGTTAACCTATCGATTCAA
* *
492195 TCCTAGATAAATCTT-TTTA-CCTTTTGTTGACCTATCGATTCAA
1 TCCCAG-TAAA-CTTCTTTATCC-TTTGTTAACCTATCGATTCAA
*
492238 TCCCAGTCAACTTCTTTATCC
1 TCCCAGTAAACTTCTTTATCC
492259 GTTACTTACC
Statistics
Matches: 87, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
41 16 0.18
42 35 0.40
43 33 0.38
44 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.08, T:0.43
Consensus pattern (42 bp):
TCCCAGTAAACTTCTTTATCCTTTGTTAACCTATCGATTCAA
Found at i:492309 original size:85 final size:85
Alignment explanation
Indices: 492144--492312 Score: 196
Period size: 85 Copynumber: 2.0 Consensus size: 85
492134 TGTTAACTTG
* * ** * *
492144 TCGATTCAATCCCAGTTAACTTCTTTATCCTTTGTTTACCTATCGATTTAATCCTAGATAAATCT
1 TCGATTCAATCCCAGTCAACTTCTTTATCCGTTACTTACCTATCGACTTAATCCCAGATAAATCT
* *
492209 TTTTACCTTTTGTTGACCTA
66 TTTCACCTTTCGTTGACCTA
* * * * *
492229 TCGATTCAATCCCAGTCAACTTCTTTATCCGTTACTTACCTATTGGCTTAGTCCCGGATAACTAC
1 TCGATTCAATCCCAGTCAACTTCTTTATCCGTTACTTACCTATCGACTTAATCCCAGATAAAT-C
*
492294 -TTTCATCTTTCGTTGACCT
65 TTTTCACCTTTCGTTGACCT
492313 GACTGTCTGG
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
85 68 0.99
86 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.43
Consensus pattern (85 bp):
TCGATTCAATCCCAGTCAACTTCTTTATCCGTTACTTACCTATCGACTTAATCCCAGATAAATCT
TTTCACCTTTCGTTGACCTA
Found at i:493521 original size:166 final size:166
Alignment explanation
Indices: 493349--494267 Score: 1074
Period size: 166 Copynumber: 5.5 Consensus size: 166
493339 ATAGGTTTAA
493349 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTC
1 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTC
* * *
493414 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTTCTTGTTTCTAAAGTATTGAGTTTTTTAC
66 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTTCTTATTTCTAAAATACTGAGTTTTTTAC
493479 TCTGTAAATTTTTTAAGGGGATTTTTCTTGGTTTTT
131 TCTGTAAATTTTTTAAGGGGATTTTTCTTGGTTTTT
* * * * * * *
493515 AATTTTTACAATTAATAAAATATTATTATTTATTTCTTATTCAATTAGTTTTCAACAATGCATTC
1 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTC
* * *
493580 ATTTTCATGAGTTTTTGAATTTTTTTCTTGAAATTTTCTTGTTTCTAAAGTACTGAGTTTTTTAC
66 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTTCTTATTTCTAAAATACTGAGTTTTTTAC
493645 TCTGTAAATTTTTTAAGGGGATTTTTCTTGGTTTTT
131 TCTGTAAATTTTTTAAGGGGATTTTTCTTGGTTTTT
* * * * * * *
493681 AATTTTTACAATTAATAAAATATTATTATTTATTTCTTATTCAATTAGTTTTCAACAATGCATTC
1 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTC
* * **
493746 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTCTCTTATTT-TCAAAATACGGAGTTTTCAA
66 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTTCTTATTTCT-AAAATACTGAGTTTTTTA
* * *
493810 CTCCGTAAATTTTTT-CGGAAGGATTTTTCTTAGTTTTT
130 CTCTGTAAATTTTTTAAGG--GGATTTTTCTTGGTTTTT
*
493848 AATTTTTAAAATTCATAAAATATTATTATTTATTTTATATTAAATCAGTTTTCAAAAATTCATTC
1 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTC
* *
493913 A--TTCATTAGTTTTTGAA-TTTTTCCTTGAAATTTTCCTATTTCTAAAATA-TAGAGTTTTTTA
66 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTTCTTATTTCTAAAATACT-GAGTTTTTTA
**
493974 CT-TAGTAAATTTTTCGAGGGGATTTTTCTTGGTTTTT
130 CTCT-GTAAATTTTTTAAGGGGATTTTTCTTGGTTTTT
* * **
494011 AATTTTTAAAATTCATAAAATATTACTATTTAATTCATATTAAATTGGTTTTCAAAAATTCATTC
1 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTC
* * * * * * *
494076 ATTTTCATTCA-TTTTT-CATTTTTTTCTTAAAATTTT-TCTATTTTCGAAAA-ACCGAGTTTTC
66 ATTTTCA-TGAGTTTTTGAATTTTTTCCTTGAAATTTTCT-TA-TTTCTAAAATACTGAGTTTTT
* * * ** * **
494137 TACTCTATAAATGTTTTCAGGAGGGGTTTTCTTAGTTTAA
128 TACTCTGTAAATTTTTTAAGG-GGATTTTTCTTGGTTTTT
* ** * * * * * *
494177 AATTTTTTAAATTCATCTAATATTGTGTCATTAAATTCACATTAAATCAGTTTTTAAAAATTAAA
1 AATTTTTAAAATTCATAAAATATTAT-T-ATTTATTTCATATTAAATCAGTTTTCAAAAATT--C
*
494242 ATT-A-TTTCATGA-ATTTTGAATTTTTT
62 ATTCATTTTCATGAGTTTTTGAATTTTTT
494268 TGTATAAATT
Statistics
Matches: 659, Mismatches: 73, Indels: 40
0.85 0.09 0.05
Matches are distributed among these distances:
163 78 0.12
164 49 0.07
165 70 0.11
166 336 0.51
167 82 0.12
168 40 0.06
169 1 0.00
170 3 0.00
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.52
Consensus pattern (166 bp):
AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTC
ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTTCTTATTTCTAAAATACTGAGTTTTTTAC
TCTGTAAATTTTTTAAGGGGATTTTTCTTGGTTTTT
Found at i:494035 original size:330 final size:331
Alignment explanation
Indices: 493349--494267 Score: 1108
Period size: 330 Copynumber: 2.8 Consensus size: 331
493339 ATAGGTTTAA
*
493349 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTC
1 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTC
* * * ** *
493414 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTTCTT-GTTTCTAAAGTATTGAGTTTTTTA
66 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAA-TTTCTTATTTTCGAAAATACCGAGTTTTCTA
* * * *
493478 CTCTGTAAATTTTTTAAGG-GGATTTTTCTTGGTTTTTAATTTTTACAATTAATAAAATATTATT
130 CTCTGTAAATTTTTT-CGGAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATAAAATATTATT
* * * * *
493542 ATTTATTTCT-TATTCAATTAGTTTTCAACAATGCATTCATTTTCATGAGTTTTTGAATTTTTTT
194 ATTTATTT-TATATTAAATCAGTTTTCAAAAATTCATTCA-TTTCATGAGTTTTTGAATTTTTTC
* * * *
493606 CTTGAAATTTTCTTGTTTCTAAAGTACTGAGTTTTTTACTCTGTAAATTTTTTAAGGGGATTTTT
257 CTTGAAATTTTCCTATTTCTAAAATACTGAGTTTTTTACTCTGTAAATTTTTCAAGGGGATTTTT
493671 CTTGGTTTTT
322 CTTGGTTTTT
* * * * * *
493681 AATTTTTACAATTAATAAAATATTATTATTTATTTCTTATTCAATTAGTTTTCAACAATGCATTC
1 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTC
* *
493746 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTCTCTTATTTTC-AAAATACGGAGTTTTCAA
66 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATT-TCTTATTTTCGAAAATACCGAGTTTTCTA
*
493810 CTCCGTAAATTTTTTCGGAAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATAAAATATTATT
130 CTCTGTAAATTTTTTCGG-AGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATAAAATATTATT
*
493875 ATTTATTTTATATTAAATCAGTTTTCAAAAATTCATTCA-TTCATTAGTTTTTGAA-TTTTTCCT
194 ATTTATTTTATATTAAATCAGTTTTCAAAAATTCATTCATTTCATGAGTTTTTGAATTTTTTCCT
*
493938 TGAAATTTTCCTATTTCTAAAATA-TAGAGTTTTTTACT-TAGTAAATTTTTCGAGGGGATTTTT
259 TGAAATTTTCCTATTTCTAAAATACT-GAGTTTTTTACTCT-GTAAATTTTTCAAGGGGATTTTT
494001 CTTGGTTTTT
322 CTTGGTTTTT
* * *
494011 AATTTTTAAAATTCATAAAATATTACTATTTAATTCATATTAAATTGGTTTTCAAAAATTCATTC
1 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTC
* * * * *
494076 ATTTTCATTCA-TTTTT-CATTTTTTTCTTAAAATTTTTCTATTTTCGAAAA-ACCGAGTTTTCT
66 ATTTTCA-TGAGTTTTTGAATTTTTTCCTTGAAATTTCT-TATTTTCGAAAATACCGAGTTTTCT
* * ** ** * ** *
494138 ACTCTATAAATGTTTTCAGGAGGGGTTTTCTTAGTTTAAAATTTTTTAAATTCATCTAATATTGT
129 ACTCTGTAAATTTTTTC-GGAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATAAAATATTAT
* * * * * * *
494203 GTCATTAAATTCACATTAAATCAGTTTTTAAAAATTAAAATT-ATTTCATGA-ATTTTGAATTTT
193 -T-ATTTATTTTATATTAAATCAGTTTTCAAAAATT--CATTCATTTCATGAGTTTTTGAATTTT
494266 TT
254 TT
494268 TGTATAAATT
Statistics
Matches: 506, Mismatches: 64, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
328 2 0.00
329 85 0.17
330 146 0.29
331 49 0.10
332 131 0.26
333 93 0.18
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.52
Consensus pattern (331 bp):
AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTC
ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTCTTATTTTCGAAAATACCGAGTTTTCTAC
TCTGTAAATTTTTTCGGAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATAAAATATTATTAT
TTATTTTATATTAAATCAGTTTTCAAAAATTCATTCATTTCATGAGTTTTTGAATTTTTTCCTTG
AAATTTTCCTATTTCTAAAATACTGAGTTTTTTACTCTGTAAATTTTTCAAGGGGATTTTTCTTG
GTTTTT
Found at i:494514 original size:76 final size:75
Alignment explanation
Indices: 494383--494576 Score: 244
Period size: 76 Copynumber: 2.5 Consensus size: 75
494373 AGAATTGATT
* * * *
494383 TGATATTTAAAATTTTCATCAACAGCTAAAACAAATTGATGACAAGCTGAAGGAAAGGAACATGA
1 TGATTTTTAAAATTTTCATCAACAGC-AAAACAAATTGATAACAAGCTAAAGGAAAAGAACATGA
*
494448 TGGAGAATATG
65 TGGAGAATATA
* *
494459 TGATTTTTAAAATTTTCATCAACAGTCGAAACAAATTGATAACAGGCTAAAGGAAAAGAACATGA
1 TGATTTTTAAAATTTTCATCAACAG-CAAAACAAATTGATAACAAGCTAAAGGAAAAGAACATGA
*
494524 TGGGGAATATA
65 TGGAGAATATA
* * * * *
494535 TTATTTCTACAATTCTCATCAACAACCAAAACAAATTGATAA
1 TGATTTTTAAAATTTTCATCAAC-AGCAAAACAAATTGATAA
494577 GAGTAATGAT
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
76 100 0.98
77 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (75 bp):
TGATTTTTAAAATTTTCATCAACAGCAAAACAAATTGATAACAAGCTAAAGGAAAAGAACATGAT
GGAGAATATA
Found at i:496578 original size:10 final size:9
Alignment explanation
Indices: 496563--496628 Score: 56
Period size: 10 Copynumber: 7.9 Consensus size: 9
496553 CTTAAAGCTT
496563 ATTTTTTTCC
1 ATTTTTTT-C
496573 ATTTTTTTC
1 ATTTTTTTC
496582 A---TTTTC
1 ATTTTTTTC
496588 -TTTTTTTCC
1 ATTTTTTT-C
496597 ATTTTTTTC
1 ATTTTTTTC
*
496606 ATTTTCTT-
1 ATTTTTTTC
496614 -TTTTTTTC
1 ATTTTTTTC
496622 -TTTTTTT
1 ATTTTTTT
496629 ATTACTTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
6 5 0.10
7 6 0.12
8 11 0.23
9 11 0.23
10 15 0.31
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.79
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:496596 original size:24 final size:24
Alignment explanation
Indices: 496564--496618 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
496554 TTAAAGCTTA
496564 TTTTTTTCCATTTTTTTCATTTTC
1 TTTTTTTCCATTTTTTTCATTTTC
496588 TTTTTTTCCATTTTTTTCATTTTC
1 TTTTTTTCCATTTTTTTCATTTTC
496612 TTTTTTT
1 TTTTTTT
496619 TTCTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTTTCCATTTTTTTCATTTTC
Found at i:496603 original size:34 final size:34
Alignment explanation
Indices: 496563--496628 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
496553 CTTAAAGCTT
496563 ATTTTTTTCCATTTT-TTTCATTTTCTTTTTTTCC
1 ATTTTTTT-CATTTTCTTTCATTTTCTTTTTTTCC
**
496597 ATTTTTTTCATTTTCTTTTTTTTTCTTTTTTT
1 ATTTTTTTCATTTTCTTTCATTTTCTTTTTTT
496629 ATTACTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.79
Consensus pattern (34 bp):
ATTTTTTTCATTTTCTTTCATTTTCTTTTTTTCC
Found at i:496946 original size:17 final size:16
Alignment explanation
Indices: 496883--496948 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 16
496873 TCTTCATTTC
496883 TTCTTCTCTTTTTTCTTT
1 TTCTTCT-TTTTTT-TTT
496901 TT-TTCTTTTTTTTTCAT
1 TTCTTCTTTTTTTTT--T
*
496918 TTCATGCATTTTTTTGTTT
1 TTC-TTC-TTTTTTT-TTT
496937 TTCTTCTTTTTT
1 TTCTTCTTTTTT
496949 CATTTTTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
15 2 0.05
16 6 0.15
17 13 0.32
18 4 0.10
19 6 0.15
20 7 0.17
21 2 0.05
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (16 bp):
TTCTTCTTTTTTTTTT
Found at i:496954 original size:17 final size:18
Alignment explanation
Indices: 496875--496959 Score: 52
Period size: 17 Copynumber: 4.7 Consensus size: 18
496865 ACTATATTTC
*
496875 TTCATTTCTTCTTCTCTTTT
1 TTCATTT-TTCAT-TCTTTT
* *
496895 TTCTTTTTTTC-TTTTTTT
1 TTC-ATTTTTCATTCTTTT
*
496913 TTCA--TTTCATGCATTTT
1 TTCATTTTTCATTC-TTTT
**
496930 TTTGTTTTTC-TTCTTTT
1 TTCATTTTTCATTCTTTT
496947 TTCATTTTTCATT
1 TTCATTTTTCATT
496960 TTTCTATTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
15 4 0.08
16 1 0.02
17 18 0.37
18 12 0.24
19 5 0.10
20 6 0.12
21 3 0.06
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.74
Consensus pattern (18 bp):
TTCATTTTTCATTCTTTT
Found at i:501002 original size:15 final size:15
Alignment explanation
Indices: 500982--501013 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
500972 ATACATCCTT
500982 GTGGCTTTGGTTATG
1 GTGGCTTTGGTTATG
*
500997 GTGGCTTTGGTTGTG
1 GTGGCTTTGGTTATG
501012 GT
1 GT
501014 AACTTAGAAC
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:0.03, C:0.06, G:0.44, T:0.47
Consensus pattern (15 bp):
GTGGCTTTGGTTATG
Found at i:502714 original size:79 final size:79
Alignment explanation
Indices: 502461--502847 Score: 431
Period size: 79 Copynumber: 4.9 Consensus size: 79
502451 TTTTCATCTC
* ** * *
502461 AGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCGA-TTTTCTACCATCGGGGATAATCTAA
1 AGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTC-ACCATCGGGGATACTCCAA
*
502525 CCTCGTTA-TTTCTGA
65 CCCCGTTATTTTC-GA
* * *
502540 AGAGATACTCCAACTCCGGTTTTATTTCTAAAACACTAATTTTCCACCATCGGGGGATACTCCAA
1 AGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACCATC-GGGGATACTCCAA
* * **
502605 CCCTGTTTTTTTTTA
65 CCCCGTTATTTTCGA
* ** *
502620 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACTAATTTTTCATCATCGGGGATACTCCAAC
1 AGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAAC
502685 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * * * * *
502699 GGGGATACTCTAACCCCGGTTTTATTTTTAAAACACCAATTTTCCACCATCAGGGAGACTCCAAC
1 AGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAAC
* *
502764 CTCGTTATTTTCAA
66 CCCGTTATTTTCGA
* * * * *
502778 AAGGATACTCAAACCCTGATTTT-TTTCTAAAATA-TCAATTTTTCACCATCGGGGATACTCCAA
1 AGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT-AATTTTTCACCATCGGGGATACTCCAA
502841 CCCCGTT
65 CCCCGTT
502848 TTCACTTTCA
Statistics
Matches: 257, Mismatches: 47, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
78 39 0.15
79 150 0.58
80 65 0.25
81 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
AGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:502940 original size:80 final size:78
Alignment explanation
Indices: 502831--503036 Score: 182
Period size: 79 Copynumber: 2.6 Consensus size: 78
502821 CACCATCGGG
* * * *
502831 GATACTCCAACCCCG-TTTTCACTTTCAAAACATTAAATTTTTTTATC-TTGGGGATACTCTAAC
1 GATACTCCAACCCCGATTTT-A-TTCCAAAACA-TAAA-TTTTTCACCATTAGGGATACTCTAAC
*
502894 CCTATTATTCTCAAGGA
62 CCCATTATTCTCAAGGA
* * *
502911 GATACTCCAACCCTGATTTTATTACCAAAATATCAATTTTTCACCATTAGGGATACTCTAACCCC
1 GATACTCCAACCCCGATTTTATT-CCAAAACATAAATTTTTCACCATTAGGGATACTCTAACCCC
* * ** *
502976 GTTATTTTTTAGGG
65 ATTATTCTCAAGGA
* * * *
502990 GATACTCTAACCCCGATTTTATCTCTAAAATATCAAAATTTTCACCA
1 GATACTCCAACCCCGATTTTAT-TCCAAAACAT-AAATTTTTCACCA
503037 GGGGATGTAC
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
78 7 0.07
79 59 0.57
80 33 0.32
81 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (78 bp):
GATACTCCAACCCCGATTTTATTCCAAAACATAAATTTTTCACCATTAGGGATACTCTAACCCCA
TTATTCTCAAGGA
Found at i:502970 original size:79 final size:80
Alignment explanation
Indices: 502881--503036 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 80
502871 TTTTATCTTG
* *
502881 GGGATACTCTAACCCTATTATTCTCAAGGAGATACTCCAACCCTGATTTTAT-TACCAAAATATC
1 GGGATACTCTAACCCCATTATTCTCAAGGAGATACTCCAACCCCGATTTTATCT-CCAAAATATC
*
502945 -AATTTTTCACCATTA
65 AAAATTTTCACCATTA
* * ** * * *
502960 GGGATACTCTAACCCCGTTATTTTTTAGGGGATACTCTAACCCCGATTTTATCTCTAAAATATCA
1 GGGATACTCTAACCCCATTATTCTCAAGGAGATACTCCAACCCCGATTTTATCTCCAAAATATCA
503025 AAATTTTCACCA
66 AAATTTTCACCA
503037 GGGGATGTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
79 53 0.82
80 12 0.18
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (80 bp):
GGGATACTCTAACCCCATTATTCTCAAGGAGATACTCCAACCCCGATTTTATCTCCAAAATATCA
AAATTTTCACCATTA
Found at i:502981 original size:209 final size:210
Alignment explanation
Indices: 502620--503036 Score: 484
Period size: 209 Copynumber: 2.0 Consensus size: 210
502610 TTTTTTTTTA
502620 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACTAATTTTTCATCATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACTAATTTTTCATCATCGGGGATACTCCAAC
* * * * * * ***
502685 CCCGTTATTTTCGAGGGGATACTCTAACCCCGGTTTTATTTTTAAAACACCAATTTTCCACCATC
66 CCCATTATTCTCAAGGAGATACTCCAACCCCGATTTTATTACCAAAACACCAATTTTCCACCATC
* * *
502750 AGGGAGACTCCAACCTCGTTATTTTCAAAAGGATACTCAAACCCTGATTTT-TTTCTAAAATATC
131 AGGGAGACTCCAACCCCGTTATTTTCAAAAGGATACTCAAACCCCGATTTTATCTCTAAAATATC
*
502814 -AATTTTTCACCATC
196 AAAATTTTCACCATC
* * * *
502828 GGGGATACTCCAACCCC-GTTTTCACTTTC-AAAACATTAAATTTTTTTATC-TTGGGGATACTC
1 GGGGATACTCCAACCCCAATTTT-A-TTTCTAAAACACT-AA-TTTTTCATCATCGGGGATACTC
* * * * * *
502890 TAACCCTATTATTCTCAAGGAGATACTCCAACCCTGATTTTATTACCAAAATATCAATTTTTCAC
62 CAACCCCATTATTCTCAAGGAGATACTCCAACCCCGATTTTATTACCAAAACACCAATTTTCCAC
* * * ** ** *
502955 CATTAGGGATACTCTAACCCCGTTATTTTTTAGGGGATACTCTAACCCCGATTTTATCTCTAAAA
127 CATCAGGGAGACTCCAACCCCGTTATTTTCAAAAGGATACTCAAACCCCGATTTTATCTCTAAAA
503020 TATCAAAATTTTCACCA
192 TATCAAAATTTTCACCA
503037 GGGGATGTAC
Statistics
Matches: 172, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
207 4 0.02
208 25 0.15
209 112 0.65
210 20 0.12
211 11 0.06
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (210 bp):
GGGGATACTCCAACCCCAATTTTATTTCTAAAACACTAATTTTTCATCATCGGGGATACTCCAAC
CCCATTATTCTCAAGGAGATACTCCAACCCCGATTTTATTACCAAAACACCAATTTTCCACCATC
AGGGAGACTCCAACCCCGTTATTTTCAAAAGGATACTCAAACCCCGATTTTATCTCTAAAATATC
AAAATTTTCACCATC
Found at i:504427 original size:151 final size:152
Alignment explanation
Indices: 504034--504437 Score: 409
Period size: 151 Copynumber: 2.6 Consensus size: 152
504024 CACACCTTTG
* * * *
504034 GCATAAAAGCATCCCAGTGACAACCTAAGACTTAATTCTAAACAAATTACAAAAATACCCTTAAG
1 GCATAAAAGCAACCCAGTGACTACCTAAGAC-TCATTTTAAA-AAATTACAAAAATACCCTTAAG
* * * * * *
504099 ATAAACCTTCAACATGAAAGTATCCCAATAACCCTATAAGACATGAAAGGATCAAAAAAAGGGCA
64 -TATACTTTCGACATGAAAGTATCTCAACAACCCTATAAGACATGAAAGGATCAAAAAAAGGACA
* **
504164 AAACTATCCTATAAATAGACCTTTG
128 AAACTATCCTATAAATAGACCGTCC
* * *
504189 GCATTAAAGCAACCCAGTAACTACCTAAGACTCGATTTTAAAAAATTTA-AAAAA-ACCCCTAAG
1 GCATAAAAGCAACCCAGTGACTACCTAAGACTC-ATTTTAAAAAA-TTACAAAAATACCCTTAAG
* * * * * * **
504252 TATACTTTCGATATGAAAGCATCTCAACAACCTTA-AAGAGATGAAAGGATCATAAAAATGATGA
64 TATACTTTCGACATGAAAGTATCTCAACAACCCTATAAGACATGAAAGGATCAAAAAAAGGACAA
* * **
504316 ACCTATCGTATATGTAGACCGTCC
129 AACTATCCTATAAATAGACCGTCC
* * * * *
504340 GCATAAAAGTAACCCAATGACTACCTAGGACTCATTTTAAAAAATTACAAAAATACCTTTATGTA
1 GCATAAAAGCAACCCAGTGACTACCTAAGACTCATTTTAAAAAATTACAAAAATACCCTTAAGTA
* * **
504405 TATTTTCGACATGATAGTATCTCAGTAACCCTA
66 TACTTTCGACATGAAAGTATCTCAACAACCCTA
504438 ACAGATAATA
Statistics
Matches: 202, Mismatches: 43, Indels: 12
0.79 0.17 0.05
Matches are distributed among these distances:
149 3 0.01
150 16 0.08
151 102 0.50
152 27 0.13
153 8 0.04
154 9 0.04
155 37 0.18
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (152 bp):
GCATAAAAGCAACCCAGTGACTACCTAAGACTCATTTTAAAAAATTACAAAAATACCCTTAAGTA
TACTTTCGACATGAAAGTATCTCAACAACCCTATAAGACATGAAAGGATCAAAAAAAGGACAAAA
CTATCCTATAAATAGACCGTCC
Found at i:505698 original size:20 final size:20
Alignment explanation
Indices: 505675--505739 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
505665 ACCTTCAGAT
505675 GTATCGATACATAATGCACA
1 GTATCGATACATAATGCACA
505695 GTATCGATACAT--T-----
1 GTATCGATACATAATGCACA
505708 GTATCGATACATAATGCACA
1 GTATCGATACATAATGCACA
505728 GTATCGATACAT
1 GTATCGATACAT
505740 TGTATCGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 12 0.32
15 1 0.03
18 1 0.03
20 24 0.63
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (20 bp):
GTATCGATACATAATGCACA
Found at i:505713 original size:13 final size:13
Alignment explanation
Indices: 505695--505752 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
505685 ATAATGCACA
505695 GTATCGATACATT
1 GTATCGATACATT
505708 GTATCGATACA-T
1 GTATCGATACATT
* *
505720 -AAT-G-CACA--
1 GTATCGATACATT
505728 GTATCGATACATT
1 GTATCGATACATT
505741 GTATCGATACAT
1 GTATCGATACAT
505753 GACCAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
9 5 0.14
10 2 0.06
11 5 0.14
12 1 0.03
13 23 0.64
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:505716 original size:33 final size:33
Alignment explanation
Indices: 505674--505752 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
505664 CACCTTCAGA
505674 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAATGCACAGTATCGATACAT
505707 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAATGCACAGTATCGATACAT
505740 TGTATCGATACAT
1 TGTATCGATACAT
505753 GACCAAATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATAATGCACAGTATCGATACAT
Found at i:505766 original size:33 final size:33
Alignment explanation
Indices: 505674--505770 Score: 115
Period size: 33 Copynumber: 2.9 Consensus size: 33
505664 CACCTTCAGA
* * *
505674 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAATCCAAAATATCGATACAT
* * *
505707 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAATCCAAAATATCGATACAT
*
505740 TGTATCGATACATGA-CCAAATATATCGATAC
1 TGTATCGATACATAATCCAAA-ATATCGATAC
505771 TTGCAAAGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 3 0.05
33 56 0.95
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACATAATCCAAAATATCGATACAT
Found at i:505861 original size:19 final size:20
Alignment explanation
Indices: 505834--505885 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
505824 CTTAACTGTT
505834 TGTATCGATACAT-A-CAAGA
1 TGTATCGATACATGACCAA-A
*
505853 TGTAACGATACATGACCAAA
1 TGTATCGATACATGACCAAA
505873 TGTATCGATACAT
1 TGTATCGATACAT
505886 TGGCTTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.41
20 14 0.48
21 3 0.10
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:511964 original size:22 final size:24
Alignment explanation
Indices: 511932--511979 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
511922 GTGATTAAAG
511932 GAAA-TTGTTTT-ATTAAGGGGGA
1 GAAATTTGTTTTGATTAAGGGGGA
*
511954 GAAATTTTTTTTGATTAAGGGGGA
1 GAAATTTGTTTTGATTAAGGGGGA
511978 GA
1 GA
511980 GAAAAGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 6 0.26
24 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (24 bp):
GAAATTTGTTTTGATTAAGGGGGA
Found at i:512657 original size:13 final size:13
Alignment explanation
Indices: 512639--512664 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
512629 ACATACAAGA
512639 TGTATCGATACAT
1 TGTATCGATACAT
512652 TGTATCGATACAT
1 TGTATCGATACAT
512665 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.