Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1085
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: 1639209
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.20
Warning! 665865 characters in sequence are not A, C, G, or T
File 2 of 7
Found at i:156265 original size:19 final size:19
Alignment explanation
Indices: 156241--156290 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
156231 ATCGATACAA
156241 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
156260 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
156279 TGTATCGATACA
1 TGTATCGATACA
156291 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:156361 original size:13 final size:13
Alignment explanation
Indices: 156343--156367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
156333 ATTACCCAAA
156343 TGTATCGATACAT
1 TGTATCGATACAT
156356 TGTATCGATACA
1 TGTATCGATACA
156368 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:156505 original size:52 final size:52
Alignment explanation
Indices: 156376--156506 Score: 183
Period size: 52 Copynumber: 2.5 Consensus size: 52
156366 CACTGATCTT
* * *
156376 TGTATCGATACATGCAGGTAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
* * *
156428 TGTATCGATACATACAGGCCAATTTTCCCA-ACTGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGA-TGTATCGATACACTATAAAA
*
156480 TGTATCGATACATGCAGGCGAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
156507 ATATTTCGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
51 1 0.01
52 69 0.99
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
Found at i:162198 original size:44 final size:44
Alignment explanation
Indices: 162147--162234 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
162137 TTTTTTTCTT
162147 CAAAGCCCACACAAGCTGATGGCACCATTTATCTTTTCTAGTCC
1 CAAAGCCCACACAAGCTGATGGCACCATTTATCTTTTCTAGTCC
* *
162191 CAAAGCCCACACAAGCTGGTGGCACTATTTATCTTTTCTAGTCC
1 CAAAGCCCACACAAGCTGATGGCACCATTTATCTTTTCTAGTCC
162235 TTAAAGAGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (44 bp):
CAAAGCCCACACAAGCTGATGGCACCATTTATCTTTTCTAGTCC
Found at i:162307 original size:117 final size:115
Alignment explanation
Indices: 162092--162300 Score: 285
Period size: 117 Copynumber: 1.8 Consensus size: 115
162082 CCATATAAAT
**
162092 TGGTGGCATCATTTATCTTTCTAGTCCTCAAAGAGTTGGACCCCTTTTTTTTCTTCAAAGCCCAC
1 TGGTGGCATCATTTATCTTTCTAGTCCTCAAAGAGGAGGACCCCTTTTTTTTCTTCAAAGCCCAC
* **
162157 ACAAGCTGATGGCACCATTTATCTTTTCTAGTCCCAAAGCCCACACAAGC
66 ACAAGCTGATGACACCACGTATCTTTTCTAGTCCCAAAGCCCACACAAGC
* * *
162207 TGGTGGCA-CTATTTATCTTTTCTAGTCCTTAAAGAGGAGGATGCCTTTTTTTTTCTTCAAAGCC
1 TGGTGGCATC-ATTTATC-TTTCTAGTCCTCAAAGAGGAGGA-CCCCTTTTTTTTCTTCAAAGCC
* * *
162271 CACACAAGGTGGTGACATCACGTATCTTTT
63 CACACAAGCTGATGACACCACGTATCTTTT
162301 TCAGTCCTTA
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
114 1 0.01
115 15 0.19
116 20 0.25
117 44 0.55
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (115 bp):
TGGTGGCATCATTTATCTTTCTAGTCCTCAAAGAGGAGGACCCCTTTTTTTTCTTCAAAGCCCAC
ACAAGCTGATGACACCACGTATCTTTTCTAGTCCCAAAGCCCACACAAGC
Found at i:162310 original size:73 final size:73
Alignment explanation
Indices: 162191--162885 Score: 611
Period size: 74 Copynumber: 9.5 Consensus size: 73
162181 TTTCTAGTCC
* * *
162191 CAAAGCCCACACAAGCTGGTGGCA-CTATTTATC-TTTTCTAGTCCTTAAAGAGGAGGATGCCTT
1 CAAAGCCCACACAAGCTGGTGGCATC-ACTTATCTTTTTC-AATCCTTAAAGAGCAGGATGCCTT
162254 TTTTTTTCTT
64 TTTTTTTCTT
* * * * * **
162264 CAAAGCCCACACAAGGTGGTGACATCACGTATCTTTTTCAGTCCTTAAAGAGCAAGACACC--TT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTTAAAGAGCAGGATGCCTTTT
*
162327 TTTTTCTC
66 TTTTTCTT
* * * * * * *
162335 CAAAGCCCACACAAACTAGTGGCATCACTTATCTCTTCCAATCCTCAAA-TGTAGGATGCCTTTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTTAAAGAGCAGGATGCC-TTT
162399 TTTTTTCCTT
65 TTTTTT-CTT
* * * * *
162409 CAGAGCCCATACAAGCTGGTGGCATCACTTATCTTTTTCAATCTTTAAACAG-TGGAATGCCTTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTTAAAGAGCAGG-ATGCCTTT
162473 TTTTTTCTT
65 TTTTTTCTT
* * * * * * * * *
162482 CAAAGGCCACACGAGCTAGTGGCATCATTTATCTTTTTTAGTCCTTAAAGAGC-CGA-GACATTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTTAAAGAGCAGGATGCCTTTT
162545 TTTTTCTT
66 TTTTTCTT
* * * ***
162553 CAAAGCCCACACAAACTGGTGGCATCACTTATCTTTTCCAATCCTCAAAGAGCAGGACATCTTTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTTAAAGAGCAGGATGCCTTTT
162618 CTTTTTCTT
66 -TTTTTCTT
* * * * * **
162627 TAAAGCCCACACGAGCTGGTAGCATCACTTATCTTTTCCAATCCTTAAAGTGCAATATGCTTTTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTTAAAGAGCAGGATGC-----
*
162692 CTTTTTTTTTTTT
61 CTTTTTTTTTCTT
* * * *
162705 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTCCAATCCTCAAAGAGCAAGA--CATTTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTTAAAGAGCAGGATGCCTTTT
*
162768 TTCTTTTTT
66 TT-TTTCTT
* * * * * * * **
162777 AAAAGCCTACACAAGCTGGTGGCATCATTTATCTTTTTCTAGTCCTCAAGGAGCACGACATTTCT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTC-AATCCTTAAAGAGCA-G-GATGCCT
162842 TTTTTTCTT-TT
63 TTTTTT-TTCTT
* *
162853 CAAAACCCATACAAGCTGGTGGCATCACTTATC
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATC
162886 CACTTCAGTC
Statistics
Matches: 504, Mismatches: 94, Indels: 45
0.78 0.15 0.07
Matches are distributed among these distances:
70 6 0.01
71 112 0.22
72 44 0.09
73 115 0.23
74 117 0.23
75 7 0.01
76 32 0.06
77 8 0.02
78 58 0.12
79 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (73 bp):
CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTTAAAGAGCAGGATGCCTTTT
TTTTTCTT
Found at i:162432 original size:74 final size:71
Alignment explanation
Indices: 162191--162885 Score: 540
Period size: 73 Copynumber: 9.5 Consensus size: 71
162181 TTTCTAGTCC
* * *
162191 CAAAGCCCACACAAGCTGGTGGCA-CTATTTATCTTTTCTAGTCCTTAAAGAGGAGGATGCC-TT
1 CAAAGCCCACACAAGCTGGTGGCATC-ACTTATCTTTTCCAATCCTT-AA-A-GAGGATGCCTTT
162254 TTTTTTTCTT
62 TTTTTTTCTT
* * * * * * * * ***
162264 CAAAGCCCACACAAGGTGGTGACATCACGTATCTTTTTCAGTCCTTAAAGAGCAAGACACCTTTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTCCAATCCTTAAAGAGGATGCCTTTTTTT
*
162329 TTTCTC
66 TTTCTT
* * * *
162335 CAAAGCCCACACAAACTAGTGGCATCACTTATCTCTTCCAATCCTCAAATGTAGGATGCCTTTTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTCCAATCCTTAAA-G-AGGATGCCTTTTT
162400 TTTTTCCTT
64 TTTTT-CTT
* * * * *
162409 CAGAGCCCATACAAGCTGGTGGCATCACTTATCTTTTTCAATCTTTAAACAGTGGAATGCC-TTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTCCAATCCTT-AA-AGAGG-ATGCCTTTT
162473 TTTTTTCTT
63 TTTTTTCTT
* * * * ** * * *
162482 CAAAGGCCACACGAGCTAGTGGCATCATTTATCTTTTTTAGTCCTTAAAGAGCCGA-GAC-ATTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTCCAATCCTTAAAGAG--GATGCCTTTTT
162545 TTTTTCTT
64 TTTTTCTT
* * * *
162553 CAAAGCCCACACAAACTGGTGGCATCACTTATCTTTTCCAATCCTCAAAGAGCAGGACATCTTTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTCCAATCCTTAAAGAGGATG-C--CTTTT
*
162618 CTTTTTCTT
63 TTTTTTCTT
* * * **
162627 TAAAGCCCACACGAGCTGGTAGCATCACTTATCTTTTCCAATCCTTAAAGTGCAATATGCTTTTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTCCAATCCTTAAA--G-AGGATGC-----
162692 CTTTTTTTTTT-TT
58 CTTTTTTTTTTCTT
* * * *
162705 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTCCAATCCTCAAAGAGCAAGACATTTTTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTCCAATCCTTAAAGAGGATG-CCTTTTTT
162770 CTTTT-TT
65 -TTTTCTT
* * * * * * * * * *
162777 AAAAGCCTACACAAGCTGGTGGCATCATTTATCTTTTTCTAGTCCTCAAGGAGCACGACATTTCT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATC-TTTTCCAATCCTTAAAGAGGATG-CCTTT-T
162842 TTTTTTCTTTT
63 TTTTTTC--TT
* *
162853 CAAAACCCATACAAGCTGGTGGCATCACTTATC
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATC
162886 CACTTCAGTC
Statistics
Matches: 502, Mismatches: 92, Indels: 53
0.78 0.14 0.08
Matches are distributed among these distances:
69 1 0.00
70 7 0.01
71 115 0.23
72 42 0.08
73 121 0.24
74 109 0.22
75 11 0.02
76 35 0.07
77 3 0.01
78 47 0.09
79 11 0.02
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (71 bp):
CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTCCAATCCTTAAAGAGGATGCCTTTTTTT
TTTCTT
Found at i:162442 original size:145 final size:144
Alignment explanation
Indices: 162191--162921 Score: 665
Period size: 145 Copynumber: 5.0 Consensus size: 144
162181 TTTCTAGTCC
162191 CAAAGCCCACACAAGCTGGTGGCA-CTATTTATCTTTTCTAGTCCTTAAAGAGGAGGATGCC-TT
1 CAAAGCCCACACAAGCTGGTGGCATC-ATTTATCTTTTCTAGTCCTT-AA-AGGAGGATGCCTTT
* * * * *
162254 TTTTTTTCTTCAAAGCCCACACAAGGTGGTGACATCACGTATCTTTTTCAGTCCTTAAAGAGCAA
63 TTTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTCAAAGAGCAA
* *
162319 GACAC-CTTTTTTTCTC
128 GACACTTTTTTTTTCTT
* * * * * * * *
162335 CAAAGCCCACACAAACTAGTGGCATCACTTATCTCTTCCAATCCTCAAATGTAGGATGCCTTTTT
1 CAAAGCCCACACAAGCTGGTGGCATCATTTATCTTTTCTAGTCCTTAAA-GGAGGATGCCTTTTT
* * * * * *
162400 TTTTTCCTTCAGAGCCCATACAAGCTGGTGGCATCACTTATCTTTTTCAATCTTTAAACAGTGGA
65 TTTTT-CTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATC-CTCAA-AGAGCA
162465 ATG-C-CTTTTTTTTTCTT
127 A-GACACTTTTTTTTTCTT
* * * * * *
162482 CAAAGGCCACACGAGCTAGTGGCATCATTTATCTTTTTTAGTCCTTAAA-GAGCCGA-GAC-ATT
1 CAAAGCCCACACAAGCTGGTGGCATCATTTATCTTTTCTAGTCCTTAAAGGAG--GATGCCTTTT
* * *
162544 TTTTTTCTTCAAAGCCCACACAAACTGGTGGCATCACTTATCTTTTCCAATCCTCAAAGAGCAGG
64 TTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTCAAAGAGCAAG
162609 ACATCTTTTCTTTTTCTT
129 ACA-CTTTT-TTTTTCTT
* * * * * * **
162627 TAAAGCCCACACGAGCTGGTAGCATCACTTATCTTTTCCAATCCTTAAAGTGCAATATGCTTTTT
1 CAAAGCCCACACAAGCTGGTGGCATCATTTATCTTTTCTAGTCCTTAAAG-G-AGGATGC-----
*
162692 CTTTTTTTTTT-TTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTCCAATCCTCAAAGA
59 CTTTTTTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTCAAAGA
*
162756 GCAAGACA-TTTTTTCTTTTTT
124 GCAAGACACTTTTTT-TTTCTT
* * * * * *
162777 AAAAGCCTACACAAGCTGGTGGCATCATTTATCTTTTTCTAGTCC-TCAAGGAGCACGACATTTC
1 CAAAGCCCACACAAGCTGGTGGCATCATTTATC-TTTTCTAGTCCTTAAAGGAGGATG-CCTTT-
* * *** * *
162841 TTTTTTTCTTTTCAAAACCCATACAAGCTGGTGGCATCACTTATCCACTTCAGTCCTCAAAAAGC
63 TTTTTTTC--TTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTCAAAGAGC
**
162906 AAGACGTTTTTTTTTT
126 AAGACACTTTTTTTTT
162922 TTTGCTTTTT
Statistics
Matches: 478, Mismatches: 77, Indels: 60
0.78 0.13 0.10
Matches are distributed among these distances:
141 1 0.00
142 6 0.01
143 14 0.03
144 96 0.20
145 107 0.22
146 7 0.01
147 59 0.12
148 60 0.13
149 10 0.02
150 41 0.09
151 9 0.02
152 60 0.13
153 8 0.02
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (144 bp):
CAAAGCCCACACAAGCTGGTGGCATCATTTATCTTTTCTAGTCCTTAAAGGAGGATGCCTTTTTT
TTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTCAAAGAGCAAGAC
ACTTTTTTTTTCTT
Found at i:162579 original size:218 final size:217
Alignment explanation
Indices: 162191--162885 Score: 733
Period size: 218 Copynumber: 3.2 Consensus size: 217
162181 TTTCTAGTCC
* * *
162191 CAAAGCCCACACAAGCTGGTGGCA-CTATTTATC-TTTTCTAGTCCTTAAAGAG-GAGGATGCCT
1 CAAAGCCCACACAAGCTGGTGGCATC-ACTTATCTTTTTC-AATCCTTAAA-AGTGAGAATGCCT
* * *
162253 TTTTTTTTCTTCAAAGCCCACACAAGGTGGTGACATCACGTATCTTTTTCAGTCCTTAAAGAGCA
63 TTTTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAGTCCTTAAAGAGCA
* * * *
162318 AGACACCTTTTTTTCTCCAAAGCCCACACAAACTAGTGGCATCACTTATCTCTTCCAATCCTCAA
128 AGACACTTTTTTTTCTTCAAAGCCCACACAAACTGGTGGCATCACTTATCTTTTCCAATCCTCAA
* *
162383 ATGTAGGATGCCTTTTTTTTTTCCTT
193 A-GCAGGACGCCTTTTTTTTTTCCTT
* * *
162409 CAGAGCCCATACAAGCTGGTGGCATCACTTATCTTTTTCAATCTTTAAACAGTG-GAATGCCTTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTTAAA-AGTGAGAATGCCTTT
* * * * * *
162473 TTTTTTCTTCAAAGGCCACACGAGCTAGTGGCATCATTTATCTTTTTTAGTCCTTAAAGAGCCGA
65 TTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAGTCCTTAAAGAG-CAA
162538 GACA-TTTTTTTTCTTCAAAGCCCACACAAACTGGTGGCATCACTTATCTTTTCCAATCCTCAAA
129 GACACTTTTTTTTCTTCAAAGCCCACACAAACTGGTGGCATCACTTATCTTTTCCAATCCTC-AA
** *
162602 GAGCAGGACATCTTTTCTTTTT-CTT
193 -AGCAGGACGCCTTTTTTTTTTCCTT
* * * *
162627 TAAAGCCCACACGAGCTGGTAGCATCACTTATCTTTTCCAATCCTT-AAAGTGCA-ATATGCTTT
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTTAAAAGTG-AGA-ATGC---
* * * *
162690 TTCTTTTTTTTTTTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTCCAATCCTCAAAG
61 --CTTTTTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAGTCCTTAAAG
* * * * * * * *
162755 AGCAAGACATTTTTTCTTTTTTAAAAGCCTACACAAGCTGGTGGCATCATTTATCTTTTTCTAGT
124 AGCAAGACACTTTTT-TTTCTTCAAAGCCCACACAAACTGGTGGCATCACTTATC-TTTTCCAAT
* * * *
162820 CCTC-AAGGAGCACGACATTTCTTTTTTTCTTTT
187 CCTCAAAGCAGGACG-CCTTT-TTTTTTTC-CTT
* *
162853 CAAAACCCATACAAGCTGGTGGCATCACTTATC
1 CAAAGCCCACACAAGCTGGTGGCATCACTTATC
162886 CACTTCAGTC
Statistics
Matches: 395, Mismatches: 61, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
216 4 0.01
217 3 0.01
218 199 0.50
219 30 0.08
220 1 0.00
222 12 0.03
223 65 0.16
224 40 0.10
225 11 0.03
226 30 0.08
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (217 bp):
CAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAATCCTTAAAAGTGAGAATGCCTTTT
TTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTTTCAGTCCTTAAAGAGCAAGA
CACTTTTTTTTCTTCAAAGCCCACACAAACTGGTGGCATCACTTATCTTTTCCAATCCTCAAAGC
AGGACGCCTTTTTTTTTTCCTT
Found at i:163487 original size:18 final size:18
Alignment explanation
Indices: 163464--163498 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
163454 ATAAATGAGG
163464 ATAAAATCAAAAGACAAA
1 ATAAAATCAAAAGACAAA
*
163482 ATAAAATCAAAGGACAA
1 ATAAAATCAAAAGACAA
163499 CTGCCATGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.11, G:0.09, T:0.11
Consensus pattern (18 bp):
ATAAAATCAAAAGACAAA
Found at i:166110 original size:28 final size:29
Alignment explanation
Indices: 166073--166133 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
166063 ACCCTTTCGC
* *
166073 TTTT-TAAGTCTACAACTCCATGGCA-CT
1 TTTTCTAAGTCCACAACTCCATGACACCT
*
166100 TTTTCTAAGTCCACAACTCCGTGACACCT
1 TTTTCTAAGTCCACAACTCCATGACACCT
166129 TTTTC
1 TTTTC
166134 CTTTTAAGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.14
28 18 0.62
29 7 0.24
ACGTcount: A:0.23, C:0.30, G:0.10, T:0.38
Consensus pattern (29 bp):
TTTTCTAAGTCCACAACTCCATGACACCT
Found at i:166197 original size:32 final size:31
Alignment explanation
Indices: 166161--166303 Score: 123
Period size: 32 Copynumber: 4.6 Consensus size: 31
166151 CTGTGGTAGA
* **
166161 CTTTTAAGTCCATAACTCCATGGCACCATTTC
1 CTTTTAAGTCCACAACTCTGTGGCA-CATTTC
* *
166193 CTTTTTAAAATCCACAACTCTGTGGCACATTTTT
1 C-TTTT-AAGTCCACAACTCTGTGGCACA-TTTC
* *
166227 CTTTAAAGTCCACAACTTTGTGGCAC----C
1 CTTTTAAGTCCACAACTCTGTGGCACATTTC
*
166254 CTTTTAAGTCCACAACTCTGTGGCACCTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCA-CATTTC
* *
166286 CTTTAAAGTTCACAACTC
1 CTTTTAAGTCCACAACTC
166304 CATGGCTCCT
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
27 23 0.26
28 1 0.01
32 37 0.41
33 9 0.10
34 20 0.22
ACGTcount: A:0.25, C:0.29, G:0.10, T:0.36
Consensus pattern (31 bp):
CTTTTAAGTCCACAACTCTGTGGCACATTTC
Found at i:166258 original size:93 final size:94
Alignment explanation
Indices: 166074--166289 Score: 239
Period size: 93 Copynumber: 2.4 Consensus size: 94
166064 CCCTTTCGCT
* * * *
166074 TTTTAAGTCTACAACTCCATGGCA-C--TT--TTTCT-AAGTCCACAACTCCGTGACACCTTTTT
1 TTTTAAGTCCACAACTCCATGGCACCATTTCCTTTTTAAAATCCACAACTCCGTGACACATTTTT
* * * *
166133 CCTTTTAAGTCCGCAACTCTGTGGTAGAC
66 CCTTTAAAGTCCACAACTCTGTGGCACAC
* * *
166162 TTTTAAGTCCATAACTCCATGGCACCATTTCCTTTTTAAAATCCACAACTCTGTGGCACATTTTT
1 TTTTAAGTCCACAACTCCATGGCACCATTTCCTTTTTAAAATCCACAACTCCGTGACACATTTTT
* *
166227 -CTTTAAAGTCCACAACTTTGTGGCACCC
66 CCTTTAAAGTCCACAACTCTGTGGCACAC
** *
166255 TTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTT
1 TTTTAAGTCCACAACTCCATGGCACCATTTCCTTT
166290 AAAGTTCACA
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
88 22 0.21
89 1 0.01
91 2 0.02
93 57 0.54
94 23 0.22
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (94 bp):
TTTTAAGTCCACAACTCCATGGCACCATTTCCTTTTTAAAATCCACAACTCCGTGACACATTTTT
CCTTTAAAGTCCACAACTCTGTGGCACAC
Found at i:166711 original size:20 final size:19
Alignment explanation
Indices: 166686--166739 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
166676 CGACCATTGT
166686 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
166706 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
166726 TTGTATCGATACAT
1 TTGTATCGATACAT
166740 TGCTTCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:173820 original size:20 final size:19
Alignment explanation
Indices: 173730--173821 Score: 58
Period size: 20 Copynumber: 4.7 Consensus size: 19
173720 AACCCTTATA
* * *
173730 TGTATCGATACACACCCAGA
1 TGTATCGATACATACACA-T
** *
173750 TGTATCGATACATTATGCTT
1 TGTATCGATACA-TACACAT
***
173770 TGTATCGATACATGTTCAT
1 TGTATCGATACATACACAT
* *
173789 TATATTGATACATACACAAT
1 TGTATCGATACATACAC-AT
173809 TGTATCGATACAT
1 TGTATCGATACAT
173822 GAAACTGGCA
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
19 16 0.29
20 37 0.67
21 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATACACAT
Found at i:173889 original size:33 final size:32
Alignment explanation
Indices: 173852--173916 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
173842 TACCATTATT
173852 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
*
173885 TGTATTGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGA-GAATTGTATCGATACA
173917 TTGCTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:175210 original size:606 final size:607
Alignment explanation
Indices: 174050--175263 Score: 1855
Period size: 606 Copynumber: 2.0 Consensus size: 607
174040 AAACACAATC
* * *
174050 ATTCAACCTTCAACGGGTATGTCAACTTTCAAGCCTATAAAATTGAGTTTCCAACAGCTGAACTT
1 ATTCAACCTCCAACGAGTATGTCAACATTCAAGCCTATAAAATTGAGTTTCCAACAGCTGAACTT
* * *
174115 GAAGAGAATAAACCAAGAAACATTAAGATATCAAAGCATTCAAGTTTGATTTATTTTCTCATTTT
66 GAAGAGAATAAACCAAGAAACATCAAGAGATCAAAGCATTCAAGTTTAATTTATTTTCTCATTTT
*
174180 TAAAAGCTTTTGCATTCATTGTTGTTATTTTTCGAAAGCTCTTTTGTATTTGTTTTGAGCTCATT
131 TAAAAGCTGTTGCATTCATTGTTGTTATTTTTCGAAAGCTCTTTTGTATTTGTTTTGAGCTCATT
* *
174245 CTTTCACAAACACCAGCCTACATAGAGGCAATTCTTATTTGTATAATTTCTTTGTTTACATGAGG
196 CCTTCACAAACACCAGCCTACATAGAGGCAATTCTTATTTGTATAATTTCTTTGTTTACATAAGG
* *
174310 TTATGTTCAACCTTGAGTGATAATCTCTTAGGAACTTGGGGTATAGTTCTTAAAGAGATTGAGAG
261 TTATGTTCAACCTTGAGTCATAATCTCCTAGGAACTTGGGGTATAGTTCTTAAAGAGATTGAGAG
* *
174375 GTTGTTATCTTAGCCTTTAAAATATAAGGTTTGTAAGGTTATACATTTTCCTTAAAGGTAATCAA
326 GTTGTTATCTTAGCCTTTAAAAGATAAGGTTTGTAAGGTTATACATTTGCCTTAAAGGTAATCAA
* * * * * *
174440 TTCTTGTAGTGAATTGGATAACCACTCGACGAGGTAGTGTCGAGGAGAGAGGACTTAGGTACCAG
391 TTCTTATAGTAAATTGGATAACCACTCGACGAGGAAGTGTCGAGAAGAAAGGACGTAGGTACCAG
* * * * * * ** *
174505 ACTGGGCCGAACCTTTATCAACTCTTGTGTTGTGCATTTCTTCCTTAGTCCTTTTATCTTTCGAA
456 ACTGGACCAAACCTCTATAAACTCTTGTATCGACCATTTCTTCCTTAATCCTTTTATCTTTCGAA
* * *
174570 TTGTTTTGCACCAAATCCTTCAAAATACTCAAAATTCGAAAAGAACCAATTCA-CCCCCTTTTGG
521 TTGTTTTGCACCAAATCCTTCAAAACACTCAAAATTCGAAAAGAACCAATCCACCCCCCTCTTGG
174634 TTCATTATTCCTTGAGCTTTCA
586 TTCATTATTCCTTGAGCTTTCA
174656 ATTCAACCTCCAACGAGTATGTCAACATTCAAGCCTATAAAATTGAGTTTCCAACAGCTGAACTT
1 ATTCAACCTCCAACGAGTATGTCAACATTCAAGCCTATAAAATTGAGTTTCCAACAGCTGAACTT
* *
174721 GAAGAGAAT-CACTCAAGAAACATCAAGAGATCAAATCATTCAAAGTTTAATTTATTTTCTCATT
66 GAAGAGAATAAAC-CAAGAAACATCAAGAGATCAAAGCATTC-AAGTTTAATTTATTTTCTCATT
* * * *
174785 TTCT-AGAGCTGTTGCATTCATTGTTGTTATTTTTTGAAAGCTTTTTTGTATTTGTTTTGAGCTT
129 TT-TAAAAGCTGTTGCATTCATTGTTGTTATTTTTCGAAAGCTCTTTTGTATTTGTTTTGAGCTC
* * * *
174849 ATTCCTTCACAAACACTAGCCTACTTAGAGGCAATTCTTCTTTGTATAATTTCTTTGTTTAGATA
193 ATTCCTTCACAAACACCAGCCTACATAGAGGCAATTCTTATTTGTATAATTTCTTTGTTTACATA
* *
174914 AGGTTGTGTTCAACCTTGAGTCATAATCTCCTAGGAACTTGGGGTATAGTTCTTGGAA-AG-TTG
258 AGGTTATGTTCAACCTTGAGTCATAATCTCCTAGGAACTTGGGGTATAGTTCTT-AAAGAGATTG
*
174977 AGAGGTTGTTATCTTAGCCTTTAAAAGATAAGGTTTGTAAGGTTATACCTTTGCCTTAAAGGTAA
322 AGAGGTTGTTATCTTAGCCTTTAAAAGATAAGGTTTGTAAGGTTATACATTTGCCTTAAAGGTAA
* *
175042 TTAATTCTTATAGTAAATTGGATAATCACTCGACGAGGAAGTGTCGAGAAGAAAGGACGTAGGTA
387 TCAATTCTTATAGTAAATTGGATAACCACTCGACGAGGAAGTGTCGAGAAGAAAGGACGTAGGTA
* *
175107 CC-GAATTGGACCAAACCTCTATAAACTCTTGTATCGACCATTTCTTCCTTAATCTTTTTATCTT
452 CCAG-ACTGGACCAAACCTCTATAAACTCTTGTATCGACCATTTCTTCCTTAATCCTTTTATCTT
* * * * *
175171 TCGAATTGTTTTGTACTAAATCTTTTAAAACATTCAAAATTCGAAAAGAACCAATCCACCCCCCC
516 TCGAATTGTTTTGCACCAAATCCTTCAAAACACTCAAAATTCGAAAAGAACCAATCCA-CCCCCC
175236 TCTTGGTTCATTATTCCTTGAGCTTTCA
580 TCTTGGTTCATTATTCCTTGAGCTTTCA
175264 CTCTTTTTTT
Statistics
Matches: 548, Mismatches: 53, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
605 3 0.01
606 320 0.58
607 190 0.35
608 35 0.06
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (607 bp):
ATTCAACCTCCAACGAGTATGTCAACATTCAAGCCTATAAAATTGAGTTTCCAACAGCTGAACTT
GAAGAGAATAAACCAAGAAACATCAAGAGATCAAAGCATTCAAGTTTAATTTATTTTCTCATTTT
TAAAAGCTGTTGCATTCATTGTTGTTATTTTTCGAAAGCTCTTTTGTATTTGTTTTGAGCTCATT
CCTTCACAAACACCAGCCTACATAGAGGCAATTCTTATTTGTATAATTTCTTTGTTTACATAAGG
TTATGTTCAACCTTGAGTCATAATCTCCTAGGAACTTGGGGTATAGTTCTTAAAGAGATTGAGAG
GTTGTTATCTTAGCCTTTAAAAGATAAGGTTTGTAAGGTTATACATTTGCCTTAAAGGTAATCAA
TTCTTATAGTAAATTGGATAACCACTCGACGAGGAAGTGTCGAGAAGAAAGGACGTAGGTACCAG
ACTGGACCAAACCTCTATAAACTCTTGTATCGACCATTTCTTCCTTAATCCTTTTATCTTTCGAA
TTGTTTTGCACCAAATCCTTCAAAACACTCAAAATTCGAAAAGAACCAATCCACCCCCCTCTTGG
TTCATTATTCCTTGAGCTTTCA
Found at i:175365 original size:27 final size:27
Alignment explanation
Indices: 175335--175388 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
175325 CACCCTTTTT
*
175335 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
175362 CCTTTTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
175389 TTCTTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:176974 original size:87 final size:85
Alignment explanation
Indices: 176741--176982 Score: 222
Period size: 85 Copynumber: 2.8 Consensus size: 85
176731 TCAAAGGAAA
* * *
176741 ACTCCAACCCCGTTCTAGCAAAAATTCAAATTTTCCTCGTATAATTTTGTCCTTAAGGAAACTCC
1 ACTCCAACCCCGTTCTA--AAAAATTCAAATTTTCCTCATATAATTTTGTCCTTAGGGAAACTCA
*
176806 ATCCCTATTATTACGAGGGGAT
64 ATCCCTATTATTACGAAGGGAT
* *** ** * ** * * * *
176828 CCTCCAACCATATTCTAACTAA-TCAAACTCACTTTCATATGATTTTATCCTTGGGGAAACTCTA
1 ACTCCAACCCCGTTCTAAAAAATTCAAATTTTC-CTCATATAATTTTGTCCTTAGGGAAACTC--
176892 AAT-CC-ATTATT-CTGAAGGGAT
63 AATCCCTATTATTAC-GAAGGGAT
*
176913 ACTCCAACCCCGTTCTTAAAAAATTTCAAATTTTCCTCATATAATTTTGTCCTTAGGGAAACTCC
1 ACTCCAACCCCGTTC-TAAAAAA-TTCAAATTTTCCTCATATAATTTTGTCCTTAGGGAAACTCA
176978 ATCCC
64 ATCCC
176983 CACTATTTCA
Statistics
Matches: 116, Mismatches: 31, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
84 8 0.07
85 52 0.45
86 9 0.08
87 40 0.34
88 7 0.06
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (85 bp):
ACTCCAACCCCGTTCTAAAAAATTCAAATTTTCCTCATATAATTTTGTCCTTAGGGAAACTCAAT
CCCTATTATTACGAAGGGAT
Found at i:177038 original size:172 final size:171
Alignment explanation
Indices: 176741--177064 Score: 368
Period size: 172 Copynumber: 1.9 Consensus size: 171
176731 TCAAAGGAAA
*
176741 ACTCCAACCCCGTTCTAGCAAAAATTCAAATTTTCCTCGTATAATTTTGTCCTTAAGGAAACTCC
1 ACTCCAACCCCGTTCTA-CAAAAATTCAAATTTTCCTCATATAATTTTGTCCTTAAGGAAACTCC
* * * * * * * * ** *
176806 ATCCCTATTATTACGAGGGGATCCTCCAACCATATTCTAACTAATCAAACTCACTTTCAT-ATGA
65 ATCCCCACTATTACAAAGGAATACTCCAAACATATTATAAAAAATCAAACT-ACTTTCATAATAA
176870 TTTTATCCTTGGGGAAACTCTAAATCCATTATTCTGAAGGGAT
129 TTTTATCCTTGGGGAAACTCTAAATCCATTATTCTGAAGGGAT
*
176913 ACTCCAACCCCGTTCTTA-AAAAATTTCAAATTTTCCTCATATAATTTTGTCCTTAGGGAAACTC
1 ACTCCAACCCCGTTC-TACAAAAA-TTCAAATTTTCCTCATATAATTTTGTCCTTAAGGAAACTC
* * * * *
176977 CATCCCCACTATTTCAAAGGAATACTCTAAACTTGTTATAGAAAAATTTCAAA-T-TTTTCATAA
64 CATCCCCACTATTACAAAGGAATACTCCAAACATATTATA-AAAAA--TCAAACTACTTTCAT-A
*
177040 CATAATTTTATCTTTGGGGAAACTC
125 -ATAATTTTATCCTTGGGGAAACTC
177065 CATCGTTGTT
Statistics
Matches: 125, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
171 5 0.04
172 87 0.70
173 5 0.04
174 1 0.01
175 27 0.22
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (171 bp):
ACTCCAACCCCGTTCTACAAAAATTCAAATTTTCCTCATATAATTTTGTCCTTAAGGAAACTCCA
TCCCCACTATTACAAAGGAATACTCCAAACATATTATAAAAAATCAAACTACTTTCATAATAATT
TTATCCTTGGGGAAACTCTAAATCCATTATTCTGAAGGGAT
Found at i:180644 original size:79 final size:77
Alignment explanation
Indices: 180547--180795 Score: 241
Period size: 79 Copynumber: 3.2 Consensus size: 77
180537 ACAACGAGGC
* *
180547 TGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCAAGGTTGAAGTATCCCATT
1 TGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC-GGGTTGGAGTATCCC-TT
180612 GAAAATAACGGGGT
64 GAAAATAACGGGGT
* * * **
180626 TGGAGTATCCCCGGTTGTGAAAAATCGATGA--TTAGGAAATAAAATCGGGATTGGAGTATCCCC
1 TGGAGTATCCCCGATTGTGAGAAATCAAT-ATTTTA-GAAATAAAGCCGGG-TTGGAGTAT-CCC
* *
180689 TCGGAAATAACGGGGT
62 TTGAAAATAACGGGGT
* * * * * * *
180705 TAGAGTATCCTCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGCATCCCTTC
1 TGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC-GGGTTGGAGTATCCCTT-
** *
180770 GAAGGTAATGGGGT
64 GAAAATAACGGGGT
180784 TGGAGTATCCCC
1 TGGAGTATCCCC
180796 AATGACATAA
Statistics
Matches: 134, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
78 10 0.07
79 115 0.86
80 9 0.07
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (77 bp):
TGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGTTGGAGTATCCCTTGA
AAATAACGGGGT
Found at i:180959 original size:51 final size:51
Alignment explanation
Indices: 180809--181203 Score: 251
Period size: 52 Copynumber: 7.6 Consensus size: 51
180799 GACATAACGA
* * * * *
180809 GGTTGAAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTGGAAATAAAACCGG
* * * *
180861 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTT-GAAGATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGGAA-ATAAAACCGG
* * * * *
180913 GGTTGTAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
* * * * * * *
180964 GGTTGGAGTATTCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
* * *** * * * * * *
181015 GGTGGGAGTATCCCCTCGA--AGGTAACGGGGTTGGAGTATCGCCGATAA-AATAA-TGA
1 GGTTGGAGTAT-CCC-CGATTATG-AA--AAATTAGTGTTTTG--GA-AATAA-AACCGG
* * * *
181071 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGATTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTGGAAATAAAACCGG
* * * * *
181123 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGGAAATAAAACCGG
*
181175 GGTTGGAGTATCCCCGATTATGAACAATT
1 GGTTGGAGTATCCCCGATTATGAAAAATT
181204 GAGAAACTTA
Statistics
Matches: 259, Mismatches: 66, Indels: 37
0.72 0.18 0.10
Matches are distributed among these distances:
51 87 0.34
52 108 0.42
53 30 0.12
54 10 0.04
55 4 0.02
56 17 0.07
57 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
Found at i:181036 original size:262 final size:262
Alignment explanation
Indices: 180701--181203 Score: 819
Period size: 262 Copynumber: 1.9 Consensus size: 262
180691 GGAAATAACG
* *
180701 GGGTTAGAGTATCCTCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGCATCC
1 GGGTTAGAGTATCCTCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTGGGAGCATCC
* * * *
180766 CTTCGAAGGTAATGGGGTTGGAGTATCCCCAATGACATAACGAGGTTGAAGTATCCTCGATTGTG
66 CCTCGAAGGTAACGGGGTTGGAGTATCCCCAATAAAATAACGAGGTTGAAGTATCCTCGATTGTG
*
180831 AAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
131 AAAAATTGGTGATTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
* * *
180896 TTTGAAGATAAAACCGGGGTTGTAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAT
196 TTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAAT
180961 CA
261 CA
* * * *
180963 GGGTTGGAGTATTCC-CGATTATGAGAAATCAATATTTTGGAAATAAAGCTGGGGTGGGAGTATC
1 GGGTTAGAGTA-TCCTCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTGGGAGCATC
* * * *
181027 CCCTCGAAGGTAACGGGGTTGGAGTATCGCCGATAAAATAATGAGGTTGGAGTATCCTCGATTGT
65 CCCTCGAAGGTAACGGGGTTGGAGTATCCCCAATAAAATAACGAGGTTGAAGTATCCTCGATTGT
181092 GAAAAATTGGTGATTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
130 GAAAAATTGGTGATTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
*
181157 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAACAATT
195 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATT
181204 GAGAAACTTA
Statistics
Matches: 221, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
262 218 0.99
263 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (262 bp):
GGGTTAGAGTATCCTCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTGGGAGCATCC
CCTCGAAGGTAACGGGGTTGGAGTATCCCCAATAAAATAACGAGGTTGAAGTATCCTCGATTGTG
AAAAATTGGTGATTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
TTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAAT
CA
Found at i:183588 original size:21 final size:21
Alignment explanation
Indices: 183559--183599 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
183549 ACAAAGATCG
*
183559 ATGTATCGATACATTTCCTTA
1 ATGTATCGATACATGTCCTTA
*
183580 ATGTGTCGATACATGTCCTT
1 ATGTATCGATACATGTCCTT
183600 GGCAGTAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATGTCCTTA
Found at i:183652 original size:19 final size:18
Alignment explanation
Indices: 183624--183686 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
183614 AACGATACAT
*
183624 TGTATTGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
183643 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
183656 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
183675 TGTATCGATACA
1 TGTATCGATACA
183687 TTTTCTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
18 1 0.03
19 22 0.59
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:183657 original size:32 final size:32
Alignment explanation
Indices: 183616--183688 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
183606 AGCTTCGTAA
*
183616 CGATACATTGTATTGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
183648 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
183680 CGATACATT
1 CGATACATT
183689 TTCTGTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:183661 original size:13 final size:13
Alignment explanation
Indices: 183643--183667 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
183633 ACAAAACTTA
183643 TGTATCGATACAT
1 TGTATCGATACAT
183656 TGTATCGATACA
1 TGTATCGATACA
183668 ACACTTATGT
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:184544 original size:89 final size:85
Alignment explanation
Indices: 184417--184588 Score: 220
Period size: 89 Copynumber: 2.0 Consensus size: 85
184407 TTTCGAGAAA
* * *
184417 AAAGGAAAAAAGGAAAATGAAATGTGTCCTGCTCTTTGAGGACTAGAAGGGAAAAGAAGG-AAAT
1 AAAGGAAAAAAGGAAAACGAAATGCGTCCTGCTCTTTGAGGAC-A-AA-AG-AAAG-AGGAAAAT
* *
184481 AAAGAGCGTCCTGCTCTTTGAGGAT
61 AAAGAGAGTCCTACTCTTTGAGGAT
* * *
184506 AAAGGAGAAAAGGAAAACGAAATGCGTCCTGCTTTTTGAGGACAAAAGAAAGAGGAAAATAAAGT
1 AAAGGAAAAAAGGAAAACGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGA
184571 GAGTCCTACTCTTTGAGG
66 GAGTCCTACTCTTTGAGG
184589 CTACCAAATG
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 3 0.04
85 28 0.38
86 1 0.01
87 2 0.03
88 1 0.01
89 39 0.53
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (85 bp):
AAAGGAAAAAAGGAAAACGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGA
GAGTCCTACTCTTTGAGGAT
Found at i:184546 original size:43 final size:42
Alignment explanation
Indices: 184417--184588 Score: 161
Period size: 42 Copynumber: 4.0 Consensus size: 42
184407 TTTCGAGAAA
*
184417 AAAGGAAAAAAGGAAAATGAAATGTGTCCTGCTCTTTGAGGACT
1 AAAGGAAAAAAGGAAAA-GAAATGCGTCCTGCTCTTTGAGGA-T
184461 AGAAGGGAAAAGAAGGAAATA-AAGA-GCGTCCTGCTCTTTGAGGAT
1 A-AA-GGAAAA-AAGGAAA-AGAA-ATGCGTCCTGCTCTTTGAGGAT
* * *
184506 AAAGGAGAAAAGGAAAACGAAATGCGTCCTGCTTTTTGAGGAC
1 AAAGGAAAAAAGGAAAA-GAAATGCGTCCTGCTCTTTGAGGAT
* * * * *
184549 AAAAG-AAAGAGGAAAATAAAGTGAGTCCTACTCTTTGAGG
1 AAAGGAAAAAAGGAAAAGAAA-TGCGTCCTGCTCTTTGAGG
184589 CTACCAAATG
Statistics
Matches: 108, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
41 4 0.04
42 33 0.31
43 29 0.27
44 3 0.03
45 4 0.04
46 26 0.24
47 8 0.07
48 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (42 bp):
AAAGGAAAAAAGGAAAAGAAATGCGTCCTGCTCTTTGAGGAT
Found at i:184677 original size:62 final size:56
Alignment explanation
Indices: 184597--184766 Score: 175
Period size: 55 Copynumber: 3.0 Consensus size: 56
184587 GGCTACCAAA
* * * * * *
184597 TGCCACCAACTTGAGTGGGCTTTGAAAAGGAAAATGTGTCCTGTTCTTTGAGGACTGGAGGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAA-G-----GTGTCCTGCTCTTTGAAGACTGAAAGC
* *
184659 TGCCACCAACTCGTGTGGGCCTT-AAAAGGTGTCCTGCTCTTTGAAGACTGAAAGC
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGGTGTCCTGCTCTTTGAAGACTGAAAGC
* *
184714 TGCCACCAACTTGTGTGGGCTTTG-AAAGGCGTCCTGCTCTTTGAGGACT-AAAG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGGTGTCCTGCTCTTTGAAGACTGAAAG
184767 GGTGAAAAGA
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
54 4 0.04
55 66 0.69
60 1 0.01
61 4 0.04
62 20 0.21
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (56 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAGGTGTCCTGCTCTTTGAAGACTGAAAGC
Found at i:184718 original size:55 final size:55
Alignment explanation
Indices: 184627--184766 Score: 183
Period size: 55 Copynumber: 2.6 Consensus size: 55
184617 TTTGAAAAGG
* * * * *
184627 AAAATGTGTCCTGTTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCCTT
1 AAAAGGTGTCCTGCTCTTTGAGGACTGAAAGCTGCCACCAACTCGTGTGGGCCTT
* * *
184682 AAAAGGTGTCCTGCTCTTTGAAGACTGAAAGCTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGTGTCCTGCTCTTTGAGGACTGAAAGCTGCCACCAACTCGTGTGGGCCTT
* *
184737 GAAAGGCGTCCTGCTCTTTGAGGACT-AAAG
1 AAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
184767 GGTGAAAAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
54 4 0.05
55 70 0.95
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (55 bp):
AAAAGGTGTCCTGCTCTTTGAGGACTGAAAGCTGCCACCAACTCGTGTGGGCCTT
Found at i:184857 original size:210 final size:210
Alignment explanation
Indices: 184573--184955 Score: 558
Period size: 210 Copynumber: 1.8 Consensus size: 210
184563 AATAAAGTGA
* **
184573 GTCCTACTCTTTGAGGCTACCAAATGCCACCAACTTGAGTGGGCTTTGAAAAGGAAAATGTGTCC
1 GTCCTACTCTTTGAGGCTACCAAATGCCACCAACTTGAGTGGGCTTTGAAAAGGAAAAGGCATCC
* ** *
184638 TGTTCTTTGAGGACTG-GAGGGTGCCACCAACTCGTGTGGGCCTTAAAAGGTGTCCTGCTCTTTG
66 TGCTCTTTGAGGACTGAGA-AATGCCACCAACTCGTGTGGGCCTTAAAAGGCGTCCTGCTCTTTG
* *
184702 AAGACT-GAAAGCTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAA
130 AAGACTGGAAA-ATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAA
184766 GGGTGAAAAGAGAGAGC
194 GGGTGAAAAGAGAGAGC
* * *
184783 GTCCTACTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCAT
1 GTCCTACTCTTTGAGG-CTACCAA-ATGCCACCAACTTGAGTGGGCTTTGAAAAGGAAAAGGCAT
* *
184846 CCTGCTCTTTGAGGACTGAGAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
64 CCTGCTCTTTGAGGACTGAGAAATGCCACCAACTCGTGTGGGCCTTAAAAGGCGTCCTGCTCTTT
* *
184911 GAGGACTGGAAAATGCCATCAACTCGTGTGGGCTTTGAAAGGCGT
129 GAAGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGT
184956 AGGCGTCCTA
Statistics
Matches: 153, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
210 122 0.80
211 31 0.20
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (210 bp):
GTCCTACTCTTTGAGGCTACCAAATGCCACCAACTTGAGTGGGCTTTGAAAAGGAAAAGGCATCC
TGCTCTTTGAGGACTGAGAAATGCCACCAACTCGTGTGGGCCTTAAAAGGCGTCCTGCTCTTTGA
AGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
GTGAAAAGAGAGAGC
Found at i:184873 original size:61 final size:61
Alignment explanation
Indices: 184781--185427 Score: 729
Period size: 61 Copynumber: 10.9 Consensus size: 61
184771 AAAAGAGAGA
* *
184781 GCGTCCTACTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * *
184842 GCATCCTGCTCTTTGAGGACTGAGAAATGCCACCAACTCGTGTGGGCTTT-----GA-AAG
1 GCGTCCTGCTCTTTGAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * * * * *
184897 GCGTCCTGCTCTTTGAGGACTG-GAAAATGCCATCAACTCGTGTGGGCTTTGAAAGGCGTAG
1 GCGTCCTGCTCTTTGAGGACTGAG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * * *
184958 GCGTCCTACTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTAG
1 GCGTCCTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* *
185019 GCGTCCTACTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA--AGAAA
1 GCGTCCTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTTGTGTGGGCTTT--AAAAGGAGAAG
* * * * *
185080 GCATCCTGCTCTTTAAGGACTAAAAAGTGCCACCGACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* *
185141 GCGTCCTGCTTTTTGAGGACTGA-AGGTGCCACCAACTTGTGTGGGCTTT---A--A-AAG
1 GCGTCCTGCTCTTTGAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
*
185195 GCATCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGA-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * *
185256 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCGCCAACTTGTGTCGGCTTT-AAA--AG-A-
1 GCGTCCTGCTCTTTGAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* *
185312 -CGTCTTGCTCTTTGAGGATTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* *
185372 GCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGG
1 GCGTCCTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGG
185428 CATCCTGCTC
Statistics
Matches: 510, Mismatches: 43, Indels: 66
0.82 0.07 0.11
Matches are distributed among these distances:
53 1 0.00
54 25 0.05
55 116 0.23
56 5 0.01
57 2 0.00
58 5 0.01
59 5 0.01
60 33 0.06
61 308 0.60
62 7 0.01
63 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
Found at i:184910 original size:155 final size:149
Alignment explanation
Indices: 184641--184917 Score: 412
Period size: 155 Copynumber: 1.8 Consensus size: 149
184631 TGTGTCCTGT
* * *
184641 TCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCCTTAAAAGGTGTCCTGCTCTTTGAAGA
1 TCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCCTTAAAAGGGGTCCTGCTCTTTGAAGA
* *
184706 CTGAAAGCTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTG
66 CTGAAAGATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTG
184771 AAAAGAGAGAGCGTCCTAC
131 AAAAGAGAGAGCGTCCTAC
* *
184790 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCCTTAAAAGG----GG--TCCTGCTCTT
*
184855 TGAGGACTGAGAA-ATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
60 TGAAGACTGA-AAGATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
184918 GGAAAATGCC
Statistics
Matches: 113, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
149 43 0.38
153 1 0.01
155 67 0.59
156 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (149 bp):
TCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCCTTAAAAGGGGTCCTGCTCTTTGAAGA
CTGAAAGATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTG
AAAAGAGAGAGCGTCCTAC
Found at i:185453 original size:116 final size:117
Alignment explanation
Indices: 184781--185446 Score: 811
Period size: 116 Copynumber: 5.6 Consensus size: 117
184771 AAAAGAGAGA
*
184781 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT---A--AAAAGGCAT
*
184846 CCTGCTCTTTGAGGACTGAGAAA-TGCCACCAACTCGTGTGGGCTTT-----GA-AAG
61 CCTGCTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* ** * * * *
184897 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCATCAACTCGTGTGGGCTTTGAAAGGCGTAGGCGT
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAA----AAGGCAT
* * * *
184962 CCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTAG
61 CCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
*
185019 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCAT
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAAG---GCAT
* * *
185084 CCTGCTCTTTAAGGACTAAAAAGTGCCACCGACTTGTGTGGGCTTTAAAAGGAGAAG
61 CCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
*
185141 GCGTCCTGCTTTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCATCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTGC
*
185204 TCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
66 TCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * * * * *
185256 GCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCGCCAACTTGTGTCGGCTTT-AAAAGACGTCTTG
1 GCGTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTG
*
185319 CTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
65 CTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* *
185372 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAGGCATCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTGC
185436 TCTTTGAGGAC
66 TCTTTGAGGAC
185447 AAAAAGGCGA
Statistics
Matches: 477, Mismatches: 51, Indels: 43
0.84 0.09 0.08
Matches are distributed among these distances:
112 2 0.00
114 5 0.01
115 83 0.17
116 228 0.48
117 3 0.01
118 5 0.01
119 2 0.00
121 29 0.06
122 114 0.24
123 6 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (117 bp):
GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTGC
TCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
Found at i:185599 original size:155 final size:155
Alignment explanation
Indices: 185312--185610 Score: 465
Period size: 155 Copynumber: 1.9 Consensus size: 155
185302 CTTTAAAAGA
* * * * *
185312 CGTCTTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTC
1 CGTCCTGCTCTTTGAGGATAGAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * *
185377 CTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTG
66 CTACTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTAGGCTTTAAAAGGCACCCTGCTCTTTG
185442 AGGACAAAAAGGCGAAAGGAGGGAG
131 AGGACAAAAAGGCGAAAGGAGGGAG
* *
185467 CGTCCTGCTCTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTAT
1 CGTCCTGCTCTTTGAGGA-TAGAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
* *
185531 CCTACTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTAGGCTTTGAAAGGCGCCCTGCTCTTT
65 CCTACTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTAGGCTTTAAAAGGCACCCTGCTCTTT
*
185596 GAGGACTAAAAGGCG
130 GAGGACAAAAAGGCG
185611 CCACCAACTT
Statistics
Matches: 130, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
155 126 0.97
156 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (155 bp):
CGTCCTGCTCTTTGAGGATAGAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
CTACTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTAGGCTTTAAAAGGCACCCTGCTCTTTG
AGGACAAAAAGGCGAAAGGAGGGAG
Found at i:185607 original size:55 final size:55
Alignment explanation
Indices: 185470--185660 Score: 213
Period size: 55 Copynumber: 3.4 Consensus size: 55
185460 GAGGGAGCGT
* * * * *
185470 CCTGCTCTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTAT
1 CCTGCTCTTTGAGGACTA-AAAGGCGCCACCAACTTGTGTAGGCTTTGAAA-G---ACG--C
* * * *
185531 CCTACTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTAGGCTTTGAAAGGCGC
1 CCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTAGGCTTTGAAAGACGC
* *
185586 CCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGACGT
1 CCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTAGGCTTTGAAAGACGC
185641 CCTGCTCTTTGAGGACTAAA
1 CCTGCTCTTTGAGGACTAAA
185661 GGACGAAAGG
Statistics
Matches: 114, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
55 69 0.61
57 1 0.01
60 3 0.03
61 41 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (55 bp):
CCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTAGGCTTTGAAAGACGC
Found at i:185608 original size:210 final size:211
Alignment explanation
Indices: 185246--185763 Score: 712
Period size: 210 Copynumber: 2.5 Consensus size: 211
185236 GTGGGCTTTA
* *
185246 AAAGGAGA-AGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCGCCAACTTGTGTCGGCTTTAAAA
1 AAAGGAGAGA-GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * * *
185310 -G---ACG-TCTTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGA
65 GGAAAAGGATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTT---A-GAGA
* * * *
185370 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATCCTG
126 AGGCGCCCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGACATCCTG
185435 CTCTTTGAGGACAAAAAGG-CG
191 CTCTTTGAGGAC-AAAAGGACG
* * *
185456 AAAGGAGGGAGCGTCCTGCTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAG
1 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
185521 GAAAAGGTATCCTACTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTAGGCTTT-GA-AAGGC
66 GAAAAGG-ATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAGAGAAGGC
* *
185584 GCCCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGACGTCCTGCTCT
130 GCCCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGACATCCTGCTCT
*
185649 TTGAGGACTAAAGGACG
195 TTGAGGACAAAAGGACG
185666 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
185731 GAAAAGGCATCCTGCTCTTTTAGGACTGAAAAG
66 GAAAAGG-ATCCTGCTCTTTGAGGACT-AAAAG
185764 TGGAAGGAGA
Statistics
Matches: 274, Mismatches: 25, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
209 5 0.02
210 217 0.79
211 9 0.03
214 2 0.01
216 41 0.15
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (211 bp):
AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
GAAAAGGATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAGAGAAGGCG
CCCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGACATCCTGCTCTT
TGAGGACAAAAGGACG
Found at i:186738 original size:1 final size:1
Alignment explanation
Indices: 186734--186819 Score: 55
Period size: 1 Copynumber: 86.0 Consensus size: 1
186724 CTTTTCTCTC
* * * * * * * ** **
186734 TTTTTCTTTGTTTTGTTTTTCTGTTTTTTTTTGTTTTTTTTGTTTTTTTTTTTTTGCTTTTGCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
186799 TTGTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTT
186820 AGAAAAGAAG
Statistics
Matches: 61, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (1 bp):
T
Found at i:186760 original size:8 final size:7
Alignment explanation
Indices: 186719--186794 Score: 50
Period size: 7 Copynumber: 10.4 Consensus size: 7
186709 AAGTAGGTTC
186719 TTTTTCT
1 TTTTTCT
*
186726 TTTCTCT
1 TTTTTCT
186733 CTTTTTCT
1 -TTTTTCT
186741 TTGTTT-T
1 TT-TTTCT
186748 GTTTTTCT
1 -TTTTTCT
186756 GTTTTT-T
1 -TTTTTCT
186763 TTTGTT-T
1 TTT-TTCT
*
186770 TTTTTGT
1 TTTTTCT
*
186777 TTTTTTT
1 TTTTTCT
186784 TTTTTGCT
1 TTTTT-CT
186792 TTT
1 TTT
186795 GCTTTTGTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
6 5 0.09
7 31 0.53
8 22 0.38
ACGTcount: A:0.00, C:0.09, G:0.08, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:186766 original size:23 final size:23
Alignment explanation
Indices: 186720--186817 Score: 82
Period size: 23 Copynumber: 4.4 Consensus size: 23
186710 AGTAGGTTCT
* * *
186720 TTTTCTTTTCTCTCTTTTTCTTTG
1 TTTTGTTTT-TCTGTTTTTTTTTG
186744 TTTTGTTTTTCTGTTTTTTTTTG
1 TTTTGTTTTTCTGTTTTTTTTTG
186767 --TT-TTTTT-TGTTTTTTTTT-
1 TTTTGTTTTTCTGTTTTTTTTTG
* *
186785 TTTTGCTTTTGCT-TTTGTTTTTG
1 TTTTG-TTTTTCTGTTTTTTTTTG
*
186808 TTTTTTTTTT
1 TTTTGTTTTT
186818 TTAGAAAAGA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
19 11 0.18
20 7 0.11
21 2 0.03
22 16 0.26
23 17 0.28
24 8 0.13
ACGTcount: A:0.00, C:0.08, G:0.09, T:0.83
Consensus pattern (23 bp):
TTTTGTTTTTCTGTTTTTTTTTG
Found at i:186773 original size:35 final size:35
Alignment explanation
Indices: 186734--186819 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 35
186724 CTTTTCTCTC
* *
186734 TTTTTCTTTG-TTTTGTTTTTCTG-TTTT-TTTTTG
1 TTTTT-TTTGTTTTTTTTTTTCTGCTTTTGCTTTTG
*
186767 TTTTTTTTGTTTTTTTTTTTTTGCTTTTGCTTTTG
1 TTTTTTTTGTTTTTTTTTTTCTGCTTTTGCTTTTG
*
186802 TTTTTGTT-TTTTTTTTTT
1 TTTTTTTTGTTTTTTTTTT
186820 AGAAAAGAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
32 4 0.09
33 16 0.35
34 14 0.30
35 12 0.26
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (35 bp):
TTTTTTTTGTTTTTTTTTTTCTGCTTTTGCTTTTG
Found at i:192947 original size:13 final size:13
Alignment explanation
Indices: 192929--192953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
192919 CATAAAGTGT
192929 TGTATCGATACAA
1 TGTATCGATACAA
192942 TGTATCGATACA
1 TGTATCGATACA
192954 TAAGTTTTGT
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:192972 original size:32 final size:33
Alignment explanation
Indices: 192909--192974 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
192899 TTCAACGATT
*
192909 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
*
192942 TGTATCGATACAT-AAGTTTTGTATCAATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
192974 T
1 T
192975 TTAAGCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCAATACAA
Found at i:193033 original size:13 final size:13
Alignment explanation
Indices: 193015--193039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
193005 ATTACTCAAA
193015 TGTATCGATACAT
1 TGTATCGATACAT
193028 TGTATCGATACA
1 TGTATCGATACA
193040 CTGATCTTTA
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:194009 original size:20 final size:20
Alignment explanation
Indices: 193964--194010 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
193954 GTTAACAGCC
*
193964 CATGATTCATGCATTTTAAG
1 CATGTTTCATGCATTTTAAG
193984 CTATGTTTCATGCA-TTTACAG
1 C-ATGTTTCATGCATTTTA-AG
194005 CATGTT
1 CATGTT
194011 CAGCACCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (20 bp):
CATGTTTCATGCATTTTAAG
Found at i:206970 original size:8 final size:8
Alignment explanation
Indices: 206957--206989 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
206947 GGCGTCCTCC
206957 ACAAAAAA
1 ACAAAAAA
206965 ACAAAAAA
1 ACAAAAAA
206973 A-ACAAAAA
1 ACA-AAAAA
206981 ACAAAAAA
1 ACAAAAAA
206989 A
1 A
206990 AAACAGCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.04
8 21 0.91
9 1 0.04
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
ACAAAAAA
Found at i:206979 original size:16 final size:16
Alignment explanation
Indices: 206960--206990 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
206950 GTCCTCCACA
206960 AAAAAACAAAAAAAAC
1 AAAAAACAAAAAAAAC
206976 AAAAAACAAAAAAAA
1 AAAAAACAAAAAAAA
206991 AACAGCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAACAAAAAAAAC
Found at i:206980 original size:18 final size:18
Alignment explanation
Indices: 206957--206994 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
206947 GGCGTCCTCC
*
206957 ACAAAAAA-ACAAAAAAA
1 ACAAAAAACAAAAAAAAA
206974 ACAAAAAACAAAAAAAAA
1 ACAAAAAACAAAAAAAAA
206992 ACA
1 ACA
206995 GCAACAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (18 bp):
ACAAAAAACAAAAAAAAA
Found at i:208201 original size:52 final size:52
Alignment explanation
Indices: 208123--208276 Score: 175
Period size: 52 Copynumber: 2.9 Consensus size: 52
208113 ACATTGGCAC
208123 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTC-AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * *
208175 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAG-TCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
208230 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAG-TCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
208277 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 36 0.42
53 7 0.08
54 6 0.07
55 36 0.42
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (52 bp):
CTTTAAGTCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:208334 original size:67 final size:68
Alignment explanation
Indices: 208226--208352 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
208216 ATCCTTTTTC
* * *
208226 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
208290 TCT
66 TCT
* * * *
208293 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
208353 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:208402 original size:53 final size:52
Alignment explanation
Indices: 208293--208487 Score: 158
Period size: 53 Copynumber: 3.7 Consensus size: 52
208283 TTTCTCATCT
** * * * **
208293 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCA-CCTTC
1 TCATCTTTAAACCCAATATCGCTGGCCGTGAATCAGCACATTGGCATTTTTC
* * * *
208344 ATCATCTTTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATTTTTC
1 -TCATCTTT-AAACCCAATATCGCTGGCCGTGAATCAGCACATTGGCATTTTTC
* ** * * * *
208398 TCATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACATCCTTTTTC
1 TCATCTTTAAACCCAATATCGCTGGCCGTGAATCAGCACATTGGCA---TTTTTC
* *
208453 TCATCTTTGAACCCAATATCGTTGGCCGTGAATCA
1 TCATCTTTAAACCCAATATCGCTGGCCGTGAATCA
208488 ACGTATTGGT
Statistics
Matches: 114, Mismatches: 24, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
52 38 0.33
53 40 0.35
54 3 0.03
55 33 0.29
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (52 bp):
TCATCTTTAAACCCAATATCGCTGGCCGTGAATCAGCACATTGGCATTTTTC
Found at i:208482 original size:55 final size:52
Alignment explanation
Indices: 208345--208487 Score: 151
Period size: 55 Copynumber: 2.7 Consensus size: 52
208335 GGCACCTTCA
* * *
208345 TCATCTTTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATTTTTC
1 TCATCTTT-AAACCCAATGTCGTTGGCCGTGAATCAGCACATTGACATTTTTC
* ** * * *
208398 TCATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACATCCTTTTTC
1 TCATCTTTAAACCCAATGTCGTTGGCCGTGAATCAGCACATTGACA---TTTTTC
* *
208453 TCATCTTTGAACCCAATATCGTTGGCCGTGAATCA
1 TCATCTTTAAACCCAATGTCGTTGGCCGTGAATCA
208488 ACGTATTGGT
Statistics
Matches: 70, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
52 30 0.43
53 7 0.10
55 33 0.47
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (52 bp):
TCATCTTTAAACCCAATGTCGTTGGCCGTGAATCAGCACATTGACATTTTTC
Found at i:209192 original size:32 final size:33
Alignment explanation
Indices: 209132--209197 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
209122 TTCAACGATT
209132 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
* *
209165 TGTATTGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
209197 T
1 T
209198 TTAAGCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 19 0.61
33 12 0.39
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:210216 original size:20 final size:20
Alignment explanation
Indices: 210171--210217 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
210161 GTTAACAGCC
*
210171 CATGATTCATGCATTTTAAG
1 CATGTTTCATGCATTTTAAG
210191 CTATGTTTCATGCA-TTTACAG
1 C-ATGTTTCATGCATTTTA-AG
210212 CATGTT
1 CATGTT
210218 CAGCACCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (20 bp):
CATGTTTCATGCATTTTAAG
Found at i:219025 original size:79 final size:78
Alignment explanation
Indices: 218932--219187 Score: 291
Period size: 79 Copynumber: 3.2 Consensus size: 78
218922 TGGAGATAAC
* * *
218932 AACGGGGCTGGAGTATCCTCGATTGTGAGAAATCAATATTTTGGAAATAAAGTCGGAGTTAGAGT
1 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAATCGG-GTTAGAGT
* *
218997 ATCCCCTTGAAAAT
65 ATCCCCTCGGAAAT
* * * * * *
219011 AACGGGGTTCGAGTATCCCCGGTTGTGAAAAATCGATGA-TTAGGAAATAAAATCGGGATTGGAG
1 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAAT-ATTTTGGAAATAAAATCGGG-TTAGAG
*
219075 TATCTCCTCGGAAAT
64 TATCCCCTCGGAAAT
* * *
219090 AACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTT-GAGAATAAAACCGGGGTTAGAG
1 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGA-AATAAAATC-GGGTTAGAG
* **
219154 CATCCCCTCGGAGGT
64 TATCCCCTCGGAAAT
219169 AACGGGGTTGGAGTATCCC
1 AACGGGGTTGGAGTATCCC
219188 TAATGAAATA
Statistics
Matches: 147, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
78 4 0.03
79 139 0.95
80 4 0.03
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAATCGGGTTAGAGTA
TCCCCTCGGAAAT
Found at i:219265 original size:52 final size:52
Alignment explanation
Indices: 219202--219596 Score: 268
Period size: 52 Copynumber: 7.6 Consensus size: 52
219192 GAAATAACGA
* * * *
219202 GGTTGAAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAACCGG
* * * *
219254 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAGATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTGAAAATAAAACCGG
* * * *
219306 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAG-AAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAACCGG
* * *** * * * *
219357 GGTTGGAGTATCCTCGATTATGAGAAATCAAT-ATTTTGGAAATAAAGCTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAACCGG
* * *** * *** *
219408 GGTGGGAGTATCCCC--TTGAAGGTAACGGGGTTGGAGTATCCCGATGAAAT--AA-TGG
1 GGTTGGAGTATCCCCGATT--ATG-AA--AAATTGGTGT-TTTTGA--AAATAAAACCGG
* * * * *
219463 GGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAACCGG
* ** *
219515 AGTTGGAGTATCCCCGATTAAAAGAAAATTGGTG-TTTTGAAAATAAAACCAG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTTGAAAATAAAACCGG
*
219567 GGTTGGAGTATCCCCGATTATGAACAATTG
1 GGTTGGAGTATCCCCGATTATGAAAAATTG
219597 AGAAACTTAA
Statistics
Matches: 257, Mismatches: 68, Indels: 37
0.71 0.19 0.10
Matches are distributed among these distances:
49 6 0.02
50 4 0.02
51 83 0.32
52 115 0.45
53 20 0.08
54 3 0.01
55 17 0.07
56 3 0.01
57 2 0.01
58 4 0.02
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAACCGG
Found at i:219472 original size:27 final size:28
Alignment explanation
Indices: 219405--219480 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
219395 GAAATAAAGC
* ** *
219405 TGGGGTGGGAGTATCCCCTTGAAGGTAA
1 TGGGGTTGGAGTATCCCGATGAAGATAA
*
219433 CGGGGTTGGAGTATCCCGATGAA-ATAA
1 TGGGGTTGGAGTATCCCGATGAAGATAA
219460 TGGGGTTGGAGTATCCTCGAT
1 TGGGGTTGGAGTATCC-CGAT
219481 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 18 0.44
28 23 0.56
ACGTcount: A:0.22, C:0.14, G:0.37, T:0.26
Consensus pattern (28 bp):
TGGGGTTGGAGTATCCCGATGAAGATAA
Found at i:219563 original size:261 final size:262
Alignment explanation
Indices: 219092--219585 Score: 803
Period size: 261 Copynumber: 1.9 Consensus size: 262
219082 TCGGAAATAA
*
219092 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGAGAATAAAACCGGGGTTAGAGCAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGAGAATAAAACCGGGGTGAGAGCAT
*
219157 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCTAATGAAATAACGAGGTTGAAGTATCCTCGATTG
66 CCCCTCGAAGGTAACGGGGTTGGAGTATCCCTAATGAAATAACGAGGTTGAAGTATCCTCGATTG
* *
219222 TGAAAAATTGGTGTTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTAGTGTTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAAGAAAATTGGT
* *
219287 GTTTTGAAGATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAA
196 GTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAA
219352 AC
261 AC
* * * * * *
219354 CGGGGTTGGAGTATCCTCGATTATGAGAAATCAATATTTTG-GAAATAAAGCTGGGGTGGGAGTA
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGAG-AATAAAACCGGGGTGAGAGCA
* * * * *
219418 TCCCCTTGAAGGTAACGGGGTTGGAGTATCCC-GATGAAATAATGGGGTTGGAGTATCCTCGATT
65 TCCCCTCGAAGGTAACGGGGTTGGAGTATCCCTAATGAAATAACGAGGTTGAAGTATCCTCGATT
*
219482 GTGAAAAATTAGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAAGAAAATTGG
130 GTGAAAAATTAGTGTTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAAGAAAATTGG
219547 TGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCGATT
195 TGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCGATT
219586 ATGAACAATT
Statistics
Matches: 213, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
261 128 0.60
262 85 0.40
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (262 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGAGAATAAAACCGGGGTGAGAGCAT
CCCCTCGAAGGTAACGGGGTTGGAGTATCCCTAATGAAATAACGAGGTTGAAGTATCCTCGATTG
TGAAAAATTAGTGTTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAAGAAAATTGGT
GTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAA
AC
Found at i:221973 original size:13 final size:13
Alignment explanation
Indices: 221955--221980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
221945 TCAAAGATCG
221955 ATGTATCGATACA
1 ATGTATCGATACA
221968 ATGTATCGATACA
1 ATGTATCGATACA
221981 TTTCCTTAAT
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):
ATGTATCGATACA
Found at i:221991 original size:21 final size:21
Alignment explanation
Indices: 221967--222009 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
221957 GTATCGATAC
*
221967 AATGTATCGATACATTTCCTT
1 AATGTATCAATACATTTCCTT
*
221988 AATGTATCAATACATTTTCTT
1 AATGTATCAATACATTTCCTT
222009 A
1 A
222010 GCAGTAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (21 bp):
AATGTATCAATACATTTCCTT
Found at i:222043 original size:13 final size:13
Alignment explanation
Indices: 222025--222076 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
222015 AGCTTCGTAG
222025 CGATACATTGTAT
1 CGATACATTGTAT
222038 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
222057 CGATACATTGTAT
1 CGATACATTGTAT
222070 CGATACA
1 CGATACA
222077 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:222057 original size:19 final size:18
Alignment explanation
Indices: 222033--222095 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
222023 AGCGATACAT
222033 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
222052 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
222065 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
222084 TGTATCAATACA
1 TGTATCGATACA
222096 TTTTCTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
18 1 0.03
19 22 0.59
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:222066 original size:32 final size:32
Alignment explanation
Indices: 222025--222097 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
222015 AGCTTCGTAG
222025 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
222057 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
222089 CAATACATT
1 CGATACATT
222098 TTCTGTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:222124 original size:19 final size:19
Alignment explanation
Indices: 222064--222125 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
222054 TATCGATACA
222064 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ACTGT
* * **
222083 ATGTATCAATACATTTTCTGT
1 TTGTATCGATACA--AACTGT
222104 TTGTATCGATACAAACTGT
1 TTGTATCGATACAAACTGT
222123 TTG
1 TTG
222126 AAGTTCAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 18 0.56
20 2 0.06
21 12 0.38
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACAAACTGT
Found at i:222888 original size:25 final size:26
Alignment explanation
Indices: 222853--222901 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
222843 CTACTATAGT
* *
222853 TATTTCATTCTATTTCAATTCTATTC
1 TATTTCATTCTATTACAACTCTATTC
222879 TATTT-ATTCTATTACAACTCTAT
1 TATTTCATTCTATTACAACTCTAT
222902 CCATCTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTTCATTCTATTACAACTCTATTC
Found at i:226007 original size:13 final size:13
Alignment explanation
Indices: 225989--226013 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
225979 TTTAAACAAA
225989 AAAATTATCATAG
1 AAAATTATCATAG
226002 AAAATTATCATA
1 AAAATTATCATA
226014 TTAATTTAAC
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:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
AAAATTATCATAG
Found at i:227395 original size:20 final size:20
Alignment explanation
Indices: 227310--227395 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
227300 AACTCTTATT
*
227310 TGTATCAATACACA-TGCAGA
1 TGTATCGATACACATTGCA-A
227330 TGTATCGATACA-AGTTGCAA
1 TGTATCGATACACA-TTGCAA
*
227350 TGTATTGAT--ACATTG---
1 TGTATCGATACACATTGCAA
227365 TG--TCGATACACATTGCAA
1 TGTATCGATACACATTGCAA
227383 TGTATCGATACAC
1 TGTATCGATACAC
227396 TATGGAAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
13 4 0.08
15 8 0.15
18 6 0.11
19 2 0.04
20 29 0.55
21 4 0.08
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (20 bp):
TGTATCGATACACATTGCAA
Found at i:227411 original size:21 final size:20
Alignment explanation
Indices: 227367--227412 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
227357 ATACATTGTG
* * *
227367 TCGATACACATTGCAATGTA
1 TCGATACACATGGAAATATA
227387 TCGATACACTATGGAAATATA
1 TCGATACAC-ATGGAAATATA
227408 TCGAT
1 TCGAT
227413 GCAATTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.30
Consensus pattern (20 bp):
TCGATACACATGGAAATATA
Found at i:227488 original size:21 final size:21
Alignment explanation
Indices: 227458--227535 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
227448 TACAACCATG
227458 AAATTGTATCGATACAAGTTC
1 AAATTGTATCGATACAAGTTC
*
227479 AAATTATATCGATAC-A--TC
1 AAATTGTATCGATACAAGTTC
*
227497 AAGAGTTGTGTCGATACAAGTTC
1 AA-A-TTGTATCGATACAAGTTC
*
227520 AAATTGTATCAATACA
1 AAATTGTATCGATACA
227536 TCAAGAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.09
19 1 0.02
20 11 0.23
21 26 0.55
22 1 0.02
23 4 0.09
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (21 bp):
AAATTGTATCGATACAAGTTC
Found at i:227521 original size:41 final size:41
Alignment explanation
Indices: 227437--227554 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 41
227427 CTACCTCTTC
* *
227437 AATTATATCGATACAACCATGAAATTGTATCGATACAAGTTCA
1 AATTATATCGATAC-ATCAAG-AATTGTATCGATACAAGTTCA
* *
227480 AATTATATCGATACATCAAGAGTTGTGTCGATACAAGTTCA
1 AATTATATCGATACATCAAGAATTGTATCGATACAAGTTCA
* *
227521 AATTGTATCAATACATCAAGAATT-TATCGATACA
1 AATTATATCGATACATCAAGAATTGTATCGATACA
227555 TTTGGCCAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 9 0.13
41 40 0.60
42 4 0.06
43 14 0.21
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (41 bp):
AATTATATCGATACATCAAGAATTGTATCGATACAAGTTCA
Found at i:228066 original size:34 final size:34
Alignment explanation
Indices: 228017--228106 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 34
228007 ATTAAGAGGC
* *
228017 TCTATTTAAGGCTTCGAAAAGAGAGT-GTAGAGGT
1 TCTATCTAAGCCTTCGAAAAGAGAGTAGTA-AGGT
* * * *
228051 TTTATCTTAGCCTTCGAAAAGATAGTATTAAGGT
1 TCTATCTAAGCCTTCGAAAAGAGAGTAGTAAGGT
*
228085 TCTATCTAAGCCTTTGAAAAGA
1 TCTATCTAAGCCTTCGAAAAGA
228107 TAAAGTTGTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
34 44 0.96
35 2 0.04
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (34 bp):
TCTATCTAAGCCTTCGAAAAGAGAGTAGTAAGGT
Found at i:228133 original size:36 final size:35
Alignment explanation
Indices: 228028--228134 Score: 105
Period size: 34 Copynumber: 3.1 Consensus size: 35
228018 CTATTTAAGG
* *
228028 CTTCGAAAAGAGAG--TGTAGAGGTTTTATCTTAGC
1 CTTCGAAAAGATAGTATGTA-AGGTTATATCTTAGC
* *
228062 CTTCGAAAAGATAGTAT-TAAGGTTCTATCTAAGC
1 CTTCGAAAAGATAGTATGTAAGGTTATATCTTAGC
* *
228096 CTTTGAAAAGATAAAGT-TGTAAGGTTATACCTTAGC
1 CTTCGAAAAGAT--AGTATGTAAGGTTATATCTTAGC
228132 CTT
1 CTT
228135 AAAGGAAACA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
34 37 0.61
35 3 0.05
36 21 0.34
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.34
Consensus pattern (35 bp):
CTTCGAAAAGATAGTATGTAAGGTTATATCTTAGC
Found at i:228581 original size:18 final size:19
Alignment explanation
Indices: 228554--228599 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
228544 ATTAAGGTTG
228554 CTTTTCTTTTA-ATCTTTA
1 CTTTTCTTTTACATCTTTA
*
228572 CTTTTGTTTTACATCTTT-
1 CTTTTCTTTTACATCTTTA
*
228590 TTTTTCTTTT
1 CTTTTCTTTT
228600 TATGTGAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.11, C:0.15, G:0.02, T:0.72
Consensus pattern (19 bp):
CTTTTCTTTTACATCTTTA
Found at i:229267 original size:19 final size:20
Alignment explanation
Indices: 229242--229295 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
229232 ATTTTAGGAA
229242 CATTTAAGTCATTTTTCATG
1 CATTTAAGTCATTTTTCATG
* *
229262 -ATTTAAGGCA-ATTTCATG
1 CATTTAAGTCATTTTTCATG
229280 CATTCTAAGGTCATTT
1 CATT-TAA-GTCATTT
229296 AAGTCATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
18 7 0.27
19 12 0.46
20 3 0.12
21 3 0.12
22 1 0.04
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (20 bp):
CATTTAAGTCATTTTTCATG
Found at i:229277 original size:49 final size:49
Alignment explanation
Indices: 229220--229318 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 49
229210 AGGCTATTAC
*
229220 GCAATTTCATACATT-TTAGGAACATTTAAGTCATTTTTCATGATTTAAG
1 GCAATTTCATACATTCTAAGG-ACATTTAAGTCATTTTTCATGATTTAAG
* * *
229269 GCAATTTCATGCATTCTAAGGTCATTTAAGTCATTTTTTATGATTTAAG
1 GCAATTTCATACATTCTAAGGACATTTAAGTCATTTTTCATGATTTAAG
229318 G
1 G
229319 GCTTTTATGC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 41 0.91
50 4 0.09
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (49 bp):
GCAATTTCATACATTCTAAGGACATTTAAGTCATTTTTCATGATTTAAG
Found at i:231438 original size:165 final size:166
Alignment explanation
Indices: 231208--231666 Score: 609
Period size: 165 Copynumber: 2.8 Consensus size: 166
231198 GAGTTTTCAT
* ** *
231208 CTCCGTAATTTTTTTTG-GGAGAATTTTTCTTAATTTTTAATTTTTAAAATTCATCAAACATCAT
1 CTCCGTAAATTTTTTTGAGGAG-ATTTTTCTTGGTTTTCAA-TTTTAAAATTCATCAAACATCAT
*
231272 TATTTATTTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCATAAGTTTTTGATTTTTTTC
64 TATTTATTTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTTTC
* ** *
231337 CTTGAAACTTCCCTTTTCT-G-AATATTGTGTTTTCTA
129 CTTAAAACTTCCCTTTTCTCGAAATACGGTATTTTCTA
** * * *
231373 CTTTGTAAATTTTTTCGAGGAGATTTTTCTTGGTTTTCAATTTTCGAAATTAATCAAACATCATT
1 CTCCGTAAATTTTTTTGAGGAGATTTTTCTTGGTTTTCAATTTT-AAAATTCATCAAACATCATT
* * * *
231438 ATTTACTTCATATTAATTCAGTTTTCAAAAATTAATTTATTTTCATGAGTTTTTTATTTTTTTCC
65 ATTTATTTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTTTCC
* *
231503 TTAAAACTTCCTTTTTTTCGAAATACGGTATTTTCTA
130 TTAAAACTTCCCTTTTCTCGAAATACGGTATTTTCTA
* * * *
231540 CTCCGTAAATTTTTTTAAAGAGACTTTTCTTGGTTTTCAATTTTTAGAATTCATCAAACATCATT
1 CTCCGTAAATTTTTTTGAGGAGATTTTTCTTGGTTTTCAA-TTTTAAAATTCATCAAACATCATT
* * * *
231605 AATTATTTTATATTAATTCAATTTTAAAAAATTAATTCATTTTCATGAGTTTTGGATTTTTT
65 ATTTATTTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTT
231667 GTTGAAATTT
Statistics
Matches: 252, Mismatches: 37, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
164 4 0.02
165 121 0.48
166 5 0.02
167 118 0.47
168 4 0.02
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.52
Consensus pattern (166 bp):
CTCCGTAAATTTTTTTGAGGAGATTTTTCTTGGTTTTCAATTTTAAAATTCATCAAACATCATTA
TTTATTTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTTTCCT
TAAAACTTCCCTTTTCTCGAAATACGGTATTTTCTA
Found at i:231622 original size:167 final size:165
Alignment explanation
Indices: 231232--231666 Score: 593
Period size: 167 Copynumber: 2.6 Consensus size: 165
231222 TTGGGAGAAT
** * *
231232 TTTTCTTAATTTTTAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAATTT
1 TTTTCTTGGTTTTCAATTTTTAGAATTCATCAAACATCATTATTTATTTCATATTAATTCAATTT
* * *
231297 TCAAAAATTAATTCATTTTCATAAGTTTTTGATTTTTTTCCTTGAAACTTCCCTTTTCTGAATAT
66 TCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTTTCCTTAAAACTTCCCTTTTCTGAATAC
* * ** * * *
231362 TGTGTTTTCTACTTTGTAAATTTTTTCGAGGAGAT
131 GGTATTTTCTACTCCGTAAATTTTTTCAAAGAGAC
* * * *
231397 TTTTCTTGGTTTTCAA-TTTTCGAAATTAATCAAACATCATTATTTACTTCATATTAATTCAGTT
1 TTTTCTTGGTTTTCAATTTTTAG-AATTCATCAAACATCATTATTTATTTCATATTAATTCAATT
* * * *
231461 TTCAAAAATTAATTTATTTTCATGAGTTTTTTATTTTTTTCCTTAAAACTTCCTTTTTTTCGAAA
65 TTCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTTTCCTTAAAACTTCCCTTTTCT-G-AA
*
231526 TACGGTATTTTCTACTCCGTAAATTTTTTTAAAGAGAC
128 TACGGTATTTTCTACTCCGTAAATTTTTTCAAAGAGAC
* *
231564 TTTTCTTGGTTTTCAATTTTTAGAATTCATCAAACATCATTAATTATTTTATATTAATTCAATTT
1 TTTTCTTGGTTTTCAATTTTTAGAATTCATCAAACATCATTATTTATTTCATATTAATTCAATTT
* *
231629 TAAAAAATTAATTCATTTTCATGAGTTTTGGATTTTTT
66 TCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTT
231667 GTTGAAATTT
Statistics
Matches: 233, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
164 4 0.02
165 105 0.45
166 1 0.00
167 118 0.51
168 5 0.02
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (165 bp):
TTTTCTTGGTTTTCAATTTTTAGAATTCATCAAACATCATTATTTATTTCATATTAATTCAATTT
TCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTTTCCTTAAAACTTCCCTTTTCTGAATAC
GGTATTTTCTACTCCGTAAATTTTTTCAAAGAGAC
Found at i:231831 original size:332 final size:332
Alignment explanation
Indices: 231232--231832 Score: 721
Period size: 332 Copynumber: 1.8 Consensus size: 332
231222 TTGGGAGAAT
* *
231232 TTTTCTTAATTTTTAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAATTT
1 TTTTCTTAATTTTCAATTTTTAAAATTCATCAAACATCATTAATTATTTCATATTAATTCAATTT
* * *
231297 TCAAAAATTAATTCATTTTCATAAGTTTTTGATTTTTTTCCTTGAAACTTCCCTTTTCTGAATAT
66 TAAAAAATTAATTCATTTTCATAAGTTTTGGATTTTTTTCCTTGAAACTTCCCTTTTCTGAATAC
* ** * * ** * *
231362 TGTGTTTTCTACTTTGTAAATTTTTTCGAGGAGATTTTTCTTGGTTTTCAATTTTCGAAATTAAT
131 TGAGTTTTCTACTCCGTAAATTTTTTCGAGGAGATTTTTCTTAGTCTAAAATTTTCAAAATGAAT
* * * * * * *
231427 CAAACATCATTATTTACTTCATATTAATTCAGTTTTCAAAAATTAATTTATTTTCATGAGTTTTT
196 CAAACATCATCATTAACTTCACATTAATTCAGTTTTCAAAAATTAAATTATTTTCATAAATTTTA
*
231492 TATTTTTTTCCTTAAAACTTCCTTTTTTTCGAAATACGGTATTTTCTACTCCGTAAATTTTTTTA
261 AATTTTTTTCCTTAAAACTTCCTTTTTTTCGAAATACGGTATTTTCTACTCCGTAAATTTTTTTA
231557 AAGAGAC
326 AAGAGAC
** * *
231564 TTTTCTTGGTTTTCAATTTTTAGAATTCATCAAACATCATTAATTATTTTATATTAATTCAATTT
1 TTTTCTTAATTTTCAATTTTTAAAATTCATCAAACATCATTAATTATTTCATATTAATTCAATTT
* * * *
231629 TAAAAAATTAATTCATTTTCATGAGTTTTGGA-TTTTTT-GTTGAAATTTCTCTTTTTCTAGAA-
66 TAAAAAATTAATTCATTTTCATAAGTTTTGGATTTTTTTCCTTGAAACTTC-CCTTTTCT-GAAT
* * *
231691 ACTGAGTTTTCTTCTCCGTAAATATTTTTGGAGG-GA-TTTTCTTCAGTCTAAAATTTTTAAAAT
129 ACTGAGTTTTCTACTCCGTAAAT-TTTTTCGAGGAGATTTTTCTT-AGTCTAAAATTTTCAAAAT
* * * ** * **
231754 GCATCTAATATTGTCATTGAAC-TCCCATTAATTCAGTTTT-AAGAAATTCAAATTATTTTTTTA
192 GAATCAAACATCATCATT-AACTTCACATTAATTCAGTTTTCAA-AAATT-AAATTATTTTCATA
231817 AATTTTAAATTTTTTT
254 AATTTTAAATTTTTTT
231833 ATATGTTGAA
Statistics
Matches: 221, Mismatches: 41, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
330 18 0.08
331 78 0.35
332 125 0.57
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (332 bp):
TTTTCTTAATTTTCAATTTTTAAAATTCATCAAACATCATTAATTATTTCATATTAATTCAATTT
TAAAAAATTAATTCATTTTCATAAGTTTTGGATTTTTTTCCTTGAAACTTCCCTTTTCTGAATAC
TGAGTTTTCTACTCCGTAAATTTTTTCGAGGAGATTTTTCTTAGTCTAAAATTTTCAAAATGAAT
CAAACATCATCATTAACTTCACATTAATTCAGTTTTCAAAAATTAAATTATTTTCATAAATTTTA
AATTTTTTTCCTTAAAACTTCCTTTTTTTCGAAATACGGTATTTTCTACTCCGTAAATTTTTTTA
AAGAGAC
Found at i:238012 original size:43 final size:42
Alignment explanation
Indices: 237932--238509 Score: 299
Period size: 43 Copynumber: 13.6 Consensus size: 42
237922 CTACCTATCG
* ** * **
237932 GCTTAGACCCAAGAGACTTCTTCATCTTTCGTCTGCCCGTTG
1 GCTTAGACCCGAGAGACTTCTTCATCAATCGTCTACCCGTCA
* *
237974 GCTTAGACCCGGGAGACTTCCTTCATCAATCGTCTGCCCGTCA
1 GCTTAGACCCGAGAGACTT-CTTCATCAATCGTCTACCCGTCA
* * * * *
238017 GTTTAGACCCTAGAGACTTTCTTTATCAATCATCTACCCATCA
1 GCTTAGACCCGAGAGAC-TTCTTCATCAATCGTCTACCCGTCA
* * **
238060 GCTTA-AGCCCAAGAGACTTTTTCATCTTTCGTCTACCCCGTCA
1 GCTTAGA-CCCGAGAGACTTCTTCATCAATCGTCTA-CCCGTCA
* * ** * *
238103 GCTTAAACCCGGGAGACTTCTTCATCTTTTGTCTACCTGTCA
1 GCTTAGACCCGAGAGACTTCTTCATCAATCGTCTACCCGTCA
* * *
238145 GCTTAGACTCG-GAAGACTTCCTTCATCAATCATCCT-CCCGT-T
1 GCTTAGACCCGAG-AGACTT-CTTCATCAATCGT-CTACCCGTCA
* * * * *
238187 GATTCAGACCTGAGAGACTTCCTTTATCAATCGTCTA-CCATTA
1 GCTT-AGACCCGAGAGACTT-CTTCATCAATCGTCTACCCGTCA
* * ** **
238230 ACTTAGACCC-AGGAGACTTCTTAATCTTTCAGTCTACCCGTTG
1 GCTTAGACCCGA-GAGACTTCTTCATCAATC-GTCTACCCGTCA
** * * *
238273 GCTTAGACTTGAAAGACTTCCTTTATCAATCGTCTGCCCGTCA
1 GCTTAGACCCGAGAGACTT-CTTCATCAATCGTCTACCCGTCA
** * * ** * * **
238316 GCTTAGACTTGGGAAACTTCTTCATCTTTCGCCTACCTGTTG
1 GCTTAGACCCGAGAGACTTCTTCATCAATCGTCTACCCGTCA
* * * ** * * * * *
238358 GCTTAGACTCGGGAGATTTCTTCATCTTTTGTCTGCCTGCCG
1 GCTTAGACCCGAGAGACTTCTTCATCAATCGTCTACCCGTCA
* * * * *
238400 GCTTAGACCCAAGAGACTTCCTTCATCAATCATCCATCCGTTA
1 GCTTAGACCCGAGAGACTT-CTTCATCAATCGTCTACCCGTCA
* * * * *
238443 G-TTCGAACC-AGAGACTTCCTTTATCAATTGTCTACCCATCA
1 GCTTAGACCCGAGAGACTT-CTTCATCAATCGTCTACCCGTCA
* * *
238484 ACTTAAACCCGAGAGACCTCTTCATC
1 GCTTAGACCCGAGAGACTTCTTCATC
238510 TTTTGTCTGC
Statistics
Matches: 408, Mismatches: 108, Indels: 40
0.73 0.19 0.07
Matches are distributed among these distances:
41 35 0.09
42 158 0.39
43 200 0.49
44 15 0.04
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (42 bp):
GCTTAGACCCGAGAGACTTCTTCATCAATCGTCTACCCGTCA
Found at i:238151 original size:128 final size:127
Alignment explanation
Indices: 237921--238534 Score: 436
Period size: 128 Copynumber: 4.8 Consensus size: 127
237911 TCAGCTTTTG
* * * *
237921 TCTACCTATCGGCTTAGACCCAAGAGACTTCTTCATCTTTCGTCTGCCCGTTGGCTTAGACCCGG
1 TCTACCCATCAGCTTAGACCCAAGAGACTTCTTCATCTTTCGTCTACCCGTTAGCTTAGACCCGG
** * * * * *
237986 GAGACTTCCTTCATCAATCGTCTGCCCGTCAGTTTAGACCCTAGAGACTTTCTTTATCAATCA
66 GAGACTT-CTTCATCTTTTGTCTACCCGTCAGCTTAGACCCTAGAGACTTCCTTCATCAATCA
* * *
238049 TCTACCCATCAGCTTA-AGCCCAAGAGACTTTTTCATCTTTCGTCTACCCCGTCAGCTTAAACCC
1 TCTACCCATCAGCTTAGA-CCCAAGAGACTTCTTCATCTTTCGTCTA-CCCGTTAGCTTAGACCC
* * *
238113 GGGAGACTTCTTCATCTTTTGTCTACCTGTCAGCTTAGACTC-GGAAGACTTCCTTCATCAATCA
64 GGGAGACTTCTTCATCTTTTGTCTACCCGTCAGCTTAGACCCTAG-AGACTTCCTTCATCAATCA
* * * ** * ** * *
238177 TCCT-CCCGT-TGATTCAGACCTGAGAGACTTCCTTTATCAATCGTCTA-CCATTAACTTAGACC
1 T-CTACCCATCAGCTT-AGACCCAAGAGACTT-CTTCATCTTTCGTCTACCCGTTAGCTTAGACC
* * * ** * * *
238239 CAGGAGACTTCTTAATCTTTCAGTCTACCCGTTGGCTTAGA-CTTGAAAGACTTCCTTTATCAAT
63 CGGGAGACTTCTTCATCTTT-TGTCTACCCGTCAGCTTAGACCCT-AGAGACTTCCTTCATCAAT
*
238303 CG
126 CA
* * **** * * * * *
238305 TCTGCCCGTCAGCTTAGACTTGGGAAACTTCTTCATCTTTCGCCTACCTGTTGGCTTAGACTCGG
1 TCTACCCATCAGCTTAGACCCAAGAGACTTCTTCATCTTTCGTCTACCCGTTAGCTTAGACCCGG
* * * * * *
238370 GAGATTTCTTCATCTTTTGTCTGCCTGCCGGCTTAGACCCAAGAGACTTCCTTCATCAATCA
66 GAGACTTCTTCATCTTTTGTCTACCCGTCAGCTTAGACCCTAGAGACTTCCTTCATCAATCA
* * * * * * * * * * * *
238432 TCCATCCGTTAG-TTCGAACC-AGAGACTTCCTTTATCAATT-GTCTACCCATCAACTTAAACCC
1 TCTACCCATCAGCTTAGACCCAAGAGACTT-CTTCATC-TTTCGTCTACCCGTTAGCTTAGACCC
* * * **
238494 GAGAGACCTCTTCATCTTTTGTCTGCCCGTTGGCTTAGACC
64 GGGAGACTTCTTCATCTTTTGTCTACCCGTCAGCTTAGACC
238535 TGGGAGACCT
Statistics
Matches: 375, Mismatches: 95, Indels: 34
0.74 0.19 0.07
Matches are distributed among these distances:
125 6 0.02
126 59 0.16
127 91 0.24
128 178 0.47
129 41 0.11
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (127 bp):
TCTACCCATCAGCTTAGACCCAAGAGACTTCTTCATCTTTCGTCTACCCGTTAGCTTAGACCCGG
GAGACTTCTTCATCTTTTGTCTACCCGTCAGCTTAGACCCTAGAGACTTCCTTCATCAATCA
Found at i:238267 original size:171 final size:171
Alignment explanation
Indices: 237944--238268 Score: 417
Period size: 171 Copynumber: 1.9 Consensus size: 171
237934 TTAGACCCAA
* ** * *
237944 GAGACTTCTTCATCTTTCGTCTGCCCGTTGGCTTAGACCCGGGAGACTTCCTTCATCAATCGTCT
1 GAGACTTCTTCATCTTTCGTCTACCCGTCAGCTTAGACCCGGAAGACTTCCTTCATCAATCATCT
* * *
238009 GCCCGTCAGTTTAGACCCTAGAGACTTTCTTTATCAATCATCTACCCATCAGCTTAAGCCCAAGA
66 GCCCGTCAGTTCAGACCCTAGAGACTTCCTTTATCAATCATCTACCCATCAACTTAAGCCCAAGA
* *
238074 GACTTTTTCATCTTTCGTCTACCCCGTCAGCTTAAACCCGG
131 GACTTCTTAATCTTTCGTCTACCCCGTCAGCTTAAACCCGG
* * *
238115 GAGACTTCTTCATCTTTTGTCTACCTGTCAGCTTAGACTCGGAAGACTTCCTTCATCAATCATCC
1 GAGACTTCTTCATCTTTCGTCTACCCGTCAGCTTAGACCCGGAAGACTTCCTTCATCAATCAT-C
* * *
238180 T-CCCGT-TGATTCAGA-CCTGAGAGACTTCCTTTATCAATCGTCTA-CCATTAACTT-AGACCC
65 TGCCCGTCAG-TTCAGACCCT-AGAGACTTCCTTTATCAATCATCTACCCATCAACTTAAG-CCC
*
238240 AGGAGACTTCTTAATCTTTCAGTCTACCC
127 AAGAGACTTCTTAATCTTTC-GTCTACCC
238269 GTTGGCTTAG
Statistics
Matches: 132, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
169 2 0.02
170 32 0.24
171 96 0.73
172 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (171 bp):
GAGACTTCTTCATCTTTCGTCTACCCGTCAGCTTAGACCCGGAAGACTTCCTTCATCAATCATCT
GCCCGTCAGTTCAGACCCTAGAGACTTCCTTTATCAATCATCTACCCATCAACTTAAGCCCAAGA
GACTTCTTAATCTTTCGTCTACCCCGTCAGCTTAAACCCGG
Found at i:238318 original size:171 final size:171
Alignment explanation
Indices: 237932--238341 Score: 406
Period size: 171 Copynumber: 2.4 Consensus size: 171
237922 CTACCTATCG
* ** ** * *
237932 GCTTAGACCC-AAGAGACTTCTTCATCTTTCGTCTGCCCGTTGGCTTAGACCCGGGAGACTTCCT
1 GCTTAAACCCGAA-AGACTTCTTCATCAATCGTCTGCCCGTCAGCTTAGACTCGGAAGACTTCCT
* * * *
237996 TCATCAATCGTCTGCCCGTCAGTTTAGACCCTAGAGACTTTCTTTATCAATCATCTACCCATCAG
65 TCATCAATCATCTGCCCGTCAGTTCAGACCCTAGAGACTTCCTTTATCAATCATCTACCCATCAA
* *
238061 CTTAAGCCCAAGAGACTTTTTCATCTTTCGTCTACCCCGTCA
130 CTTAAGCCCAAGAGACTTCTTAATCTTTCGTCTACCCCGTCA
** ** * * *
238103 GCTTAAACCCGGGAGACTTCTTCATCTTTTGTCTACCTGTCAGCTTAGACTCGGAAGACTTCCTT
1 GCTTAAACCCGAAAGACTTCTTCATCAATCGTCTGCCCGTCAGCTTAGACTCGGAAGACTTCCTT
* * *
238168 CATCAATCATCCT-CCCGT-TGATTCAGA-CCTGAGAGACTTCCTTTATCAATCGTCTA-CCATT
66 CATCAATCAT-CTGCCCGTCAG-TTCAGACCCT-AGAGACTTCCTTTATCAATCATCTACCCATC
* **
238229 AACTT-AGACCCAGGAGACTTCTTAATCTTTCAGTCTA-CCCGTTG
128 AACTTAAG-CCCAAGAGACTTCTTAATCTTTC-GTCTACCCCGTCA
* ** * *
238273 GCTTAGACTTGAAAGACTTCCTTTATCAATCGTCTGCCCGTCAGCTTAGACTTGGGAA-ACTT-C
1 GCTTAAACCCGAAAGACTT-CTTCATCAATCGTCTGCCCGTCAGCTTAGAC-TCGGAAGACTTCC
238336 TTCATC
64 TTCATC
238342 TTTCGCCTAC
Statistics
Matches: 197, Mismatches: 34, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
169 2 0.01
170 58 0.29
171 130 0.66
172 7 0.04
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (171 bp):
GCTTAAACCCGAAAGACTTCTTCATCAATCGTCTGCCCGTCAGCTTAGACTCGGAAGACTTCCTT
CATCAATCATCTGCCCGTCAGTTCAGACCCTAGAGACTTCCTTTATCAATCATCTACCCATCAAC
TTAAGCCCAAGAGACTTCTTAATCTTTCGTCTACCCCGTCA
Found at i:238352 original size:85 final size:84
Alignment explanation
Indices: 238133--238366 Score: 231
Period size: 85 Copynumber: 2.7 Consensus size: 84
238123 TTCATCTTTT
* ** * *
238133 GTCTACCTGTCAGCTTAGACTCGGAAGACTTCCTTCATCAATCATCCT-CCCGTT-GATTCAGAC
1 GTCTACC-GTCAGCTTAGACTAGGAA-ACTT-CTTCATCTTTCAGCCTACCCGTTGGCTT-AGAC
* *
238196 CTGAGAGACTTCCTTTATCAATC
62 TTGAAAGACTTCCTTTATCAATC
* * * * * * *
238219 GTCTACCATTAACTTAGACCCAGGAGACTTCTTAATCTTTCAGTCTACCCGTTGGCTTAGACTTG
1 GTCTACCGTCAGCTTAGA-CTAGGAAACTTCTTCATCTTTCAGCCTACCCGTTGGCTTAGACTTG
238284 AAAGACTTCCTTTATCAATC
65 AAAGACTTCCTTTATCAATC
* * *
238304 GTCTGCCCGTCAGCTTAGACTTGGGAAACTTCTTCATCTTTC-GCCTACCTGTTGGCTTAGACT
1 GTCT-ACCGTCAGCTTAGAC-TAGGAAACTTCTTCATCTTTCAGCCTACCCGTTGGCTTAGACT
238367 CGGGAGATTT
Statistics
Matches: 119, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
84 11 0.09
85 67 0.56
86 41 0.34
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.33
Consensus pattern (84 bp):
GTCTACCGTCAGCTTAGACTAGGAAACTTCTTCATCTTTCAGCCTACCCGTTGGCTTAGACTTGA
AAGACTTCCTTTATCAATC
Found at i:240268 original size:166 final size:167
Alignment explanation
Indices: 240047--240600 Score: 636
Period size: 166 Copynumber: 3.3 Consensus size: 167
240037 ATAATGAGGC
* * ** *
240047 TTTCTTCTCCGTAAATTTTTTCG-GGAGGATTTTTCTTAATTTTTTATTTTTAAAATTCATAAAA
1 TTTCTACTCCGTAAATTTTTTCGAGG-GGATTTTTCTTAGTTTTAAATTTTTAAAATTCATCAAA
* * *
240111 CATCATTATTTATTTCTTATTAATTCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTTATT
65 CATCATTATTTATTTCATATTAATTTAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATT
240176 TTTTCCGTGAAACTTCCCTTTC-TCCAAAATACAGTGT
130 TTTTCCGTGAAACTTCCCTTTCTTCCAAAATACAGTGT
* *
240213 TTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTTCAATTATTAAAATTCATCAAAC
1 TTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTTAAATTTTTAAAATTCATCAAAC
* *
240278 ATCATTATTTATTTCATGTTAATTTATTTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTT
66 ATCATTATTTATTTCATATTAATTTAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGA-TT
* * * * * **
240343 TTTTCCTTGAAACTTTCTTTTCTTTCGAAATATGGTGT
130 TTTTCCGTGAAACTTCCCTTTCTTCCAAAATACAGTGT
* ** *
240381 TTTCTACTCCGTAAA-TTTTTCAAGGTAATTTTTCTTGGTTTTAAATTTTTAAAATTCATCAAAC
1 TTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTTAAATTTTTAAAATTCATCAAAC
* * * * * *
240445 ATTATTTTTTATTTCATATTAATTTAGTTTTAAAAAATTAATTTATTTTCATGAGTTTTGGATTT
66 ATCATTATTTATTTCATATTAATTTAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTT
* * * ** * * *
240510 TTT-TGTTGAAA-TTTCCTTTTTTTGAGAA-ACTGAGT
131 TTTCCG-TGAAACTTCCCTTTCTTCCAAAATACAGTGT
* * * * * *
240545 TTTCTTCTCCATAAATATTTTCGGGGGGA-TTTTCTTCAGTCTAAAATTTTTAAAAT
1 TTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTT-AGTTTTAAATTTTTAAAAT
240601 GCATATAATA
Statistics
Matches: 331, Mismatches: 51, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
164 24 0.07
165 36 0.11
166 124 0.37
167 121 0.37
168 26 0.08
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.51
Consensus pattern (167 bp):
TTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTTAAATTTTTAAAATTCATCAAAC
ATCATTATTTATTTCATATTAATTTAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTT
TTTCCGTGAAACTTCCCTTTCTTCCAAAATACAGTGT
Found at i:240458 original size:167 final size:167
Alignment explanation
Indices: 240047--240529 Score: 618
Period size: 167 Copynumber: 2.9 Consensus size: 167
240037 ATAATGAGGC
* * ** *
240047 TTTCTTCTCCGTAAATTTTTTC--GGGAGGATTTTTCTTAATTTTTTATTTTTAAAATTCATAAA
1 TTTCTACTCCGTAAATTTTTTCAAGGGA--ATTTTTCTTAGTTTTAAATTTTTAAAATTCATCAA
* * *
240110 ACATCATTATTTATTTCTTATTAATTCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTTA-
64 ACATCATTATTTATTTCATATTAATTTAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGAT
* * *
240174 TTTTTTCCGTGAAACTTCCCTTTCTCCAAAATACAGTGT
129 TTTTTTCCTTGAAACTTTCTTTTCTCCAAAATACAGTGT
* * * *
240213 TTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTAGTTTTCAATTATTAAAATTCATCAAAC
1 TTTCTACTCCGTAAATTTTTTCAAGGGAATTTTTCTTAGTTTTAAATTTTTAAAATTCATCAAAC
* *
240278 ATCATTATTTATTTCATGTTAATTTATTTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTT
66 ATCATTATTTATTTCATATTAATTTAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTT
* * **
240343 TTTTCCTTGAAACTTTCTTTTCTTTCGAAATATGGTGT
131 TTTTCCTTGAAACTTTCTTTTC-TCCAAAATACAGTGT
* *
240381 TTTCTACTCCGTAAA-TTTTTCAAGGTAATTTTTCTTGGTTTTAAATTTTTAAAATTCATCAAAC
1 TTTCTACTCCGTAAATTTTTTCAAGGGAATTTTTCTTAGTTTTAAATTTTTAAAATTCATCAAAC
* * * * * *
240445 ATTATTTTTTATTTCATATTAATTTAGTTTTAAAAAATTAATTTATTTTCATGAGTTTTGGATTT
66 ATCATTATTTATTTCATATTAATTTAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTT
*
240510 TTTT-GTTGAAA-TTTCCTTTT
131 TTTTCCTTGAAACTTT-CTTTT
240530 TTTGAGAAAC
Statistics
Matches: 279, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
165 3 0.01
166 121 0.43
167 126 0.45
168 29 0.10
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.52
Consensus pattern (167 bp):
TTTCTACTCCGTAAATTTTTTCAAGGGAATTTTTCTTAGTTTTAAATTTTTAAAATTCATCAAAC
ATCATTATTTATTTCATATTAATTTAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTT
TTTTCCTTGAAACTTTCTTTTCTCCAAAATACAGTGT
Found at i:241852 original size:10 final size:10
Alignment explanation
Indices: 241833--241863 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
241823 GTATCGATAC
241833 ATGAACAGTG
1 ATGAACAGTG
*
241843 ATGAATAGTG
1 ATGAACAGTG
241853 ATGAACAGTG
1 ATGAACAGTG
241863 A
1 A
241864 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:241909 original size:13 final size:13
Alignment explanation
Indices: 241891--241915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
241881 TGCCAATGCT
241891 ATGTATCGATACA
1 ATGTATCGATACA
241904 ATGTATCGATAC
1 ATGTATCGATAC
241916 TTAGCAAAAT
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:242036 original size:21 final size:21
Alignment explanation
Indices: 241996--242036 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
241986 GTCAACCTTG
*
241996 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
242017 TGTATTGATA-CAACACGTAT
1 TGTATTGATACCAACA-GTAT
242037 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:246182 original size:51 final size:51
Alignment explanation
Indices: 246119--246235 Score: 216
Period size: 51 Copynumber: 2.3 Consensus size: 51
246109 GAAAATAATA
*
246119 GGGTTGGTGTATCCCTGAATATAGAAAATCGATATTTTGAAAATAAAATCG
1 GGGTTGGAGTATCCCTGAATATAGAAAATCGATATTTTGAAAATAAAATCG
*
246170 GGGTTGGAGTATCCCTGATTATAGAAAATCGATATTTTGAAAATAAAATCG
1 GGGTTGGAGTATCCCTGAATATAGAAAATCGATATTTTGAAAATAAAATCG
246221 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
246236 CGCAAAAATA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (51 bp):
GGGTTGGAGTATCCCTGAATATAGAAAATCGATATTTTGAAAATAAAATCG
Found at i:246251 original size:79 final size:79
Alignment explanation
Indices: 246168--246316 Score: 219
Period size: 79 Copynumber: 1.9 Consensus size: 79
246158 AAAATAAAAT
* *
246168 CGGGGTTGGAGTATCCCTGATTAT-AGAAAATCGATATTTTGAAAATAAAATCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGA-AAAATCGATATTTTGAAAATAAAATCGGAGTTGGAGTA
246232 TCCCCGCAAAAATAA
65 TCCCCGCAAAAATAA
* * * * *
246247 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAATCGGAGTTGGAGTAT
246312 CCCCG
66 CCCCG
246317 ATTATGGAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 61 0.98
80 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAATCGGAGTTGGAGTAT
CCCCGCAAAAATAA
Found at i:246314 original size:51 final size:51
Alignment explanation
Indices: 246251--246366 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 51
246241 AAATAACGGG
* * *
246251 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCGGA
* *
246302 GTTGGAGTATCCCCGATTATGGAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCGGA
246353 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
246367 TCAAAAATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:246385 original size:28 final size:28
Alignment explanation
Indices: 246342--246417 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
246332 TATTTTAGAA
246342 ATAAAAT--CGGGGTTGGAGTATCCCCTC
1 ATAAAATAACGGGGTTGGAGTATCCCC-C
* *
246369 A-AAAATAACGGGATTGGAGTATCCCCG
1 ATAAAATAACGGGGTTGGAGTATCCCCC
*
246396 ATGAAATAACGGGGTTGGAGTA
1 ATAAAATAACGGGGTTGGAGTA
246418 CCCTGATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.12
27 2 0.05
28 35 0.83
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (28 bp):
ATAAAATAACGGGGTTGGAGTATCCCCC
Found at i:246397 original size:130 final size:129
Alignment explanation
Indices: 246045--246397 Score: 458
Period size: 130 Copynumber: 2.7 Consensus size: 129
246035 AACTAGGCTA
* * * * *
246045 GAGTATCCCCGATTATGAAAAATCGGTGTTCTAGAAATAAAAATTGGGGTTGGAGTATCCCCTCG
1 GAGTATCCCCGATTATGGAAAATCGGTATTTTAGAAAT-AAAATCGGGGTTGGAGTATCCCCTCA
* * * * *
246110 AAAATAATAGGGTTGGTGTATCCCTGAATATAGAAAATCGATATTTTGAAAATAAAATCGGGGTT
65 AAAATAA-CGGGTTGGAGTATCCCCGATTATAGAAAATCGATATTTTGAAAATAAAATCGGAGTT
246175 G
129 G
* * * *
246176 GAGTATCCCTGATTATAGAAAATCGATATTTT-GAAAATAAAATCGGGGTTGGAGTATCCCCGCA
1 GAGTATCCCCGATTATGGAAAATCGGTATTTTAG-AAATAAAATCGGGGTTGGAGTATCCCCTCA
* * * * *
246240 AAAATAACGGGGTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGGAAATAAAATCGGAGT
65 AAAATAAC-GGGTTGGAGTATCCCCGATTATAG-AAAATCGATATTTTGAAAATAAAATCGGAGT
246304 TG
128 TG
*
246306 GAGTATCCCCGATTATGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAA
1 GAGTATCCCCGATTATGGAAAATCGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAA
246371 AAATAACGGGATTGGAGTATCCCCGAT
66 AAATAACGGG-TTGGAGTATCCCCGAT
246398 GAAATAACGG
Statistics
Matches: 193, Mismatches: 24, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
129 4 0.02
130 158 0.82
131 31 0.16
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.28
Consensus pattern (129 bp):
GAGTATCCCCGATTATGGAAAATCGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAA
AAATAACGGGTTGGAGTATCCCCGATTATAGAAAATCGATATTTTGAAAATAAAATCGGAGTTG
Found at i:246498 original size:28 final size:28
Alignment explanation
Indices: 246457--246530 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
246447 GATATAAAGC
** *
246457 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGAGAAAATAA
* *
246485 TGGGGTTGGAGTATCCCCGATAAAATAA
1 CGGGGTTGGAGTATCCCCGAGAAAATAA
*
246513 CAGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
246531 AATTGTGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGAAAATAA
Found at i:246542 original size:108 final size:108
Alignment explanation
Indices: 246334--246534 Score: 294
Period size: 108 Copynumber: 1.9 Consensus size: 108
246324 AAAATTGGTA
* *
246334 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAGTATCCCCGATG
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAGTATCCCCGATA
* **
246399 AAATAACGGGGTTGGAGTACCCTGATTATAAAAAAAACAATAT
66 AAATAACAGGGTTGGAGTACCCCAATTATAAAAAAAACAATAT
* * ** * *
246442 TTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATA
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAGTATCCCCGATA
246507 AAATAACAGGGTTGGAGTATCCCCAATT
66 AAATAACAGGGTTGGAGTA-CCCCAATT
246535 GTGAAAAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
108 75 0.93
109 6 0.07
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (108 bp):
TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAGTATCCCCGATA
AAATAACAGGGTTGGAGTACCCCAATTATAAAAAAAACAATAT
Found at i:249092 original size:19 final size:21
Alignment explanation
Indices: 249068--249119 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
249058 AGCGATACAC
*
249068 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
249087 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
249108 TGTATCGATACA
1 TGTATCGATACA
249120 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:250947 original size:33 final size:33
Alignment explanation
Indices: 250904--250972 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
250894 CCGTTTGAAG
*
250904 CAATGTATCGATACAAT-T-CATCATGTATCGATA
1 CAATGGATCGATACAATGTGC--CATGTATCGATA
250937 CAATGGATCGATACAATGTGCCATGTATCGATA
1 CAATGGATCGATACAATGTGCCATGTATCGATA
250970 CAA
1 CAA
250973 ACAGTGATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (33 bp):
CAATGGATCGATACAATGTGCCATGTATCGATA
Found at i:250948 original size:13 final size:13
Alignment explanation
Indices: 250930--250954 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
250920 TTCATCATGT
250930 ATCGATACAATGG
1 ATCGATACAATGG
250943 ATCGATACAATG
1 ATCGATACAATG
250955 TGCCATGTAT
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:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (13 bp):
ATCGATACAATGG
Found at i:251024 original size:20 final size:20
Alignment explanation
Indices: 251001--251058 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
250991 CTGCTAGTTT
* *
251001 CATGTATCGATACAATTGTC
1 CATGTATCAATACAATTGTA
*
251021 CATGTATCAATACAA-TGAA
1 CATGTATCAATACAATTGTA
251040 CATGTATCAATAC-ATTGTA
1 CATGTATCAATACAATTGTA
251059 TCGATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.55
20 14 0.42
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (20 bp):
CATGTATCAATACAATTGTA
Found at i:251912 original size:148 final size:148
Alignment explanation
Indices: 251575--251995 Score: 469
Period size: 148 Copynumber: 2.8 Consensus size: 148
251565 CCCTAAGGTT
* * * * *
251575 TACCATCGAC-TCAAAAGTACC-CAGCGATCTTAGAGGACTTAAAAAGGAAAAGTGAAC-CTTCG
1 TACCATCGACAT-AAAAGTACCTGA-AGATCCTAGAGGACTTAAAAAGGAAAAGTGAACACCTAG
* ** * * *
251637 CATAATACGTACCCTTTGCATAAAAGCGTCCTGGTGACAAATTAGGACT-TGATTCTAAAAATTT
64 CCTAATACGTACCCTCAGCATAAAAGCGACCTGATGACAAATTAGGACTCTGATTCTAAAAACTT
* * *
251701 ATCGGGATATCTCTAAGACT
129 ATCAGGATATCGCTAAGACC
* * * * **
251721 TACCATCGACATAAAAGTA-CTCGGAGATCCTAGTGGTCCTAAAAAGGAAAAACGAACACCTAGC
1 TACCATCGACATAAAAGTACCT-GAAGATCCTAGAGGACTTAAAAAGGAAAAGTGAACACCTAGC
* * * * *
251785 CTAATACGTACCCTCGGCACAAAAGCGACCCGATGACAAATTAGGACTCT-TTTCTAGAAACCTT
65 CTAATACGTACCCTCAGCATAAAAGCGACCTGATGACAAATTAGGACTCTGATTCTA-AAAACTT
*
251849 ATTAGGATATCGCTAAGACC
129 ATCAGGATATCGCTAAGACC
*
251869 TACCATCGACATAAAAGTACCTGAAGATCCTAGAGGGCTTAAAAAGGAAAAGTGAACACCTACGC
1 TACCATCGACATAAAAGTACCTGAAGATCCTAGAGGACTTAAAAAGGAAAAGTGAACACCTA-GC
* *
251934 CTAATATGTACCCTCAGTATATAGAAGCGACCTGATGACAAATTAGGACTC-GATTCTAAAAA
65 CTAATACGTACCCTCAGCATA-A-AAGCGACCTGATGACAAATTAGGACTCTGATTCTAAAAA
251996 AAATTATGAA
Statistics
Matches: 226, Mismatches: 38, Indels: 18
0.80 0.13 0.06
Matches are distributed among these distances:
145 1 0.00
146 43 0.19
147 51 0.23
148 75 0.33
149 21 0.09
150 4 0.02
151 31 0.14
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (148 bp):
TACCATCGACATAAAAGTACCTGAAGATCCTAGAGGACTTAAAAAGGAAAAGTGAACACCTAGCC
TAATACGTACCCTCAGCATAAAAGCGACCTGATGACAAATTAGGACTCTGATTCTAAAAACTTAT
CAGGATATCGCTAAGACC
Found at i:252098 original size:17 final size:17
Alignment explanation
Indices: 252076--252112 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
252066 GGAAAAATGA
252076 ACCTACACCTAATATGT
1 ACCTACACCTAATATGT
252093 ACCTACACCTAATATGT
1 ACCTACACCTAATATGT
252110 ACC
1 ACC
252113 CTCAGCATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.32, G:0.05, T:0.27
Consensus pattern (17 bp):
ACCTACACCTAATATGT
Found at i:252219 original size:165 final size:166
Alignment explanation
Indices: 251926--252260 Score: 400
Period size: 165 Copynumber: 2.0 Consensus size: 166
251916 AAAAGTGAAC
* * *
251926 ACCTACGCCTAATATGTACCCTCAGTATATAGAAGCGACCTGATGACAAATTAGGACTCGATTCT
1 ACCTACACCTAATATGTACCCTCAG-ACATAGAAACGACCTGATGACAAATTAGGACTCGATTCT
*
251991 AAAAAAAATTATGAAAATACCTCTATGGGATACCTTCAACTTAAAAGTGCTCGATACCCCTAAAA
65 AAAAAAAATTATGAAAATACCTCTATGGGATACCTTCAACATAAAAGTGCTCGATACCCCTAAAA
*
252056 GACTTA-AAAAGGAAA-AATGAACCTACACCTAATATGT
130 GACTTAGAAAA--AAATAATGAACCTACACCTAATACGT
* *
252093 ACCTACACCTAATATGTACCCTCAG-CATAGAAACGACTCT-ATGACAAATTAGGACTTGGTT-T
1 ACCTACACCTAATATGTACCCTCAGACATAGAAACGAC-CTGATGACAAATTAGGACTCGATTCT
* * * *
252155 TAAAAAAATTATGAAAATA-CTCCTATGGGTATACCTTCGACATGAAA--GCATCCGGTGA-CCC
65 AAAAAAAATTATGAAAATACCT-CTATGGG-ATACCTTCAACATAAAAGTGC-T-CGAT-ACCCC
* * *
252216 TAAAGGACTTAGAAAAAAATAGTGAACTTACACCTAATACGT
125 TAAAAGACTTAGAAAAAAATAATGAACCTACACCTAATACGT
252258 ACC
1 ACC
252261 CTCGCATAGA
Statistics
Matches: 146, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
163 4 0.03
164 30 0.21
165 81 0.55
166 7 0.05
167 24 0.16
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (166 bp):
ACCTACACCTAATATGTACCCTCAGACATAGAAACGACCTGATGACAAATTAGGACTCGATTCTA
AAAAAAATTATGAAAATACCTCTATGGGATACCTTCAACATAAAAGTGCTCGATACCCCTAAAAG
ACTTAGAAAAAAATAATGAACCTACACCTAATACGT
Found at i:253068 original size:100 final size:100
Alignment explanation
Indices: 252895--253103 Score: 409
Period size: 100 Copynumber: 2.1 Consensus size: 100
252885 GGATTCAGCC
252895 AAACATCATGGCCTTAAGATTAAATGTTTACTATGTTTTGCAAAGTGGTCCCTAAACTTTACAAA
1 AAACATCATGGCCTTAAGATTAAATGTTTACTATGTTTTGCAAAGTGGTCCCTAAACTTTACAAA
252960 ATTGCATTTTGATGCCTACATGGTAAACTGTCACA
66 ATTGCATTTTGATGCCTACATGGTAAACTGTCACA
*
252995 AAACATCATGGCCTTAAGATTAAATTTTTACTATGTTTTGCAAAGTGGTCCCTAAACTTTACAAA
1 AAACATCATGGCCTTAAGATTAAATGTTTACTATGTTTTGCAAAGTGGTCCCTAAACTTTACAAA
253060 ATTGCATTTTGATGCCTACATGGTAAACTGTCACA
66 ATTGCATTTTGATGCCTACATGGTAAACTGTCACA
253095 AAACATCAT
1 AAACATCAT
253104 AACAAATCAT
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 108 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (100 bp):
AAACATCATGGCCTTAAGATTAAATGTTTACTATGTTTTGCAAAGTGGTCCCTAAACTTTACAAA
ATTGCATTTTGATGCCTACATGGTAAACTGTCACA
Found at i:254688 original size:164 final size:162
Alignment explanation
Indices: 254398--254897 Score: 492
Period size: 164 Copynumber: 3.0 Consensus size: 162
254388 ATATTAAATT
** * * * *
254398 AATTTTAAAAATTTTAAA-TCAAGAAAAATCTTCCAAAAACATTTACGGAATAGAAAACTCAATT
1 AATTTTAAAAATTTTAAACT-AAGAAAAATCCCCCGAAAACATTTATGGAGTAGAAAACTCAATA
* * * *
254462 TTTTGAAAATAAG-AAATTTTAAAGAAAAAATGAAAAACTTATGAAAATAAATGAATTTTTCAAA
65 TTTTGAAAATAAGAAAATTTTAAA-AAAAAATCAAAAACTCATGAATA-AAAGGAATTTTTCAAA
254526 ACTAACTTATTATGAATTAAATGATGATATTTGATG
128 ACTAA-TTATTATGAATTAAATGATGATATTTGATG
* * **
254562 AATTTTAAAAACTATAAACTAAGAAAAATCCCCTCGAAAACA-TTATGGAGTAGAAAACTCCGTA
1 AATTTTAAAAATTTTAAACTAAGAAAAATCCCC-CGAAAACATTTATGGAGTAGAAAACTCAATA
* *
254626 TTTCGAAAATAAGAAAATTTTAAGAAAAAAAT-AAAAA-TCCATGAACTAAAAGGAAATTTTCAA
65 TTTTGAAAATAAGAAAATTTTAA-AAAAAAATCAAAAACT-CATGAA-TAAAAGGAATTTTTCAA
* * * * *
254689 AACTGATT-TAATGTAAATTAAGTAATAATATTTGATG
127 AACTAATTATTATG--AATTAAATGATGATATTTGATG
* * * *
254726 AATTTTAAAAATTTTAAGCTAAGAAAAATCTCCCCGAAAACATTTATAGAGAAGAAAACTCTATA
1 AATTTTAAAAATTTTAAACTAAGAAAAATC-CCCCGAAAACATTTATGGAGTAGAAAACTCAATA
* * ** * * *
254791 TTTTGAAAATATGAAAGACTCCAAAAGAAAATCAATAACTCATGAAATAAAAGGAATTTTTTAAA
65 TTTTGAAAATAAGAAA-ATTTTAAAAAAAAATCAAAAACTCATG-AATAAAAGGAATTTTTCAAA
* * * *
254856 ACTAATT-TAATGGTAATTAAATGGTGATATTTAAAG
128 ACTAATTATTAT-G-AATTAAATGATGATATTTGATG
254892 AATTTT
1 AATTTT
254898 GAAATTAAAA
Statistics
Matches: 277, Mismatches: 44, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
162 4 0.01
163 3 0.01
164 138 0.50
165 67 0.24
166 61 0.22
167 4 0.01
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (162 bp):
AATTTTAAAAATTTTAAACTAAGAAAAATCCCCCGAAAACATTTATGGAGTAGAAAACTCAATAT
TTTGAAAATAAGAAAATTTTAAAAAAAAATCAAAAACTCATGAATAAAAGGAATTTTTCAAAACT
AATTATTATGAATTAAATGATGATATTTGATG
Found at i:256070 original size:170 final size:170
Alignment explanation
Indices: 255857--256229 Score: 412
Period size: 170 Copynumber: 2.2 Consensus size: 170
255847 CAAAGGAGAC
* * * * * * * * *
255857 AAAAGTTGATCGGGATGGAACTAATAAGTCAACAAAGGATAAAAGGATTTAC-CAAAGATTAAGC
1 AAAAGTTAATCGAGATTGAACTAACAAGTTAACAAAAGATAAAAAGATTTACTC-AAGACTAACC
** * * * *
255921 TAGTAGGTAAACAAAAGATA-AAAAGGTTGATCGGGGTTAAATCGACAAGCCAACAAAGGATAAA
65 TAACAAGTAAACAAAAGATACAAAA-ATTGATAGAGGTTAAATCGACAAGCCAACAAAGGATAAA
* * * * * *
255985 AGGATTTTCCTACTACTAAGCCGATAGATAAACAAAGGATA-
129 AGAATTTACCCACGACTAAGCCAATAGATAAACAAAAGATAT
**
256026 AAAAGGTTAA-CTGAGATTGAACTAACAAGTTAACAAAAGATAAAAAGATTTACTCGGGACTAAC
1 AAAA-GTTAATC-GAGATTGAACTAACAAGTTAACAAAAGATAAAAAGATTTACTCAAGACTAAC
* *
256090 CTAACAAGTAAATAAAGGATACAAAAATTGATAGAGGTTAAATCGACAAGCCAACAAAGGATAAA
64 CTAACAAGTAAACAAAAGATACAAAAATTGATAGAGGTTAAATCGACAAGCCAACAAAGGATAAA
* * *
256155 AGAATTTACCCAGGACTAAGCCAATAGGTAAATAAAAGATAT
129 AGAATTTACCCACGACTAAGCCAATAGATAAACAAAAGATAT
* *
256197 AAAAGTTGATCGAGATTGAACTCACAAGTTAAC
1 AAAAGTTAATCGAGATTGAACTAACAAGTTAAC
256230 CAATTAAAAA
Statistics
Matches: 168, Mismatches: 30, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
169 5 0.03
170 153 0.91
171 10 0.06
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (170 bp):
AAAAGTTAATCGAGATTGAACTAACAAGTTAACAAAAGATAAAAAGATTTACTCAAGACTAACCT
AACAAGTAAACAAAAGATACAAAAATTGATAGAGGTTAAATCGACAAGCCAACAAAGGATAAAAG
AATTTACCCACGACTAAGCCAATAGATAAACAAAAGATAT
Found at i:256224 original size:85 final size:84
Alignment explanation
Indices: 255857--256224 Score: 278
Period size: 85 Copynumber: 4.3 Consensus size: 84
255847 CAAAGGAGAC
* * * * * * * * * *
255857 AAAAGTTGATCGGGATGGAACTAATAAGTCAACAAAGGATAAAAGGATTTACCAAAGATTAAGCT
1 AAAAGTTGATCGAGATTGAACTCACAAGCCAACAAAGGATAAAAGAATTTACCCAGGACTAAGCC
*
255922 AGTAGGTAAACAAAAGATA
66 AATAGGTAAACAAAAGATA
* * * * * * **
255941 AAAAGGTTGATCGGGGTT-AAATCGACAAGCCAACAAAGGATAAAAGGATTTTCCTACTACTAAG
1 AAAA-GTTGATCGAGATTGAACTC-ACAAGCCAACAAAGGATAAAAGAATTTACCCAGGACTAAG
* * *
256005 CCGATAGATAAACAAAGGATA
64 CCAATAGGTAAACAAAAGATA
* * ** * * *
256026 AAAAGGTT-AACTGAGATTGAACTAACAAGTTAACAAAAGATAAAA-AGATTTACTCGGGACTAA
1 AAAA-GTTGATC-GAGATTGAACTCACAAGCCAACAAAGGATAAAAGA-ATTTACCCAGGACTAA
* * * *
256089 -CCTAACAAGTAAATAAAGGATA
63 GCC-AATAGGTAAACAAAAGATA
* * * *
256111 CAAAAATTGATAGAGGTT-AAATCGACAAGCCAACAAAGGATAAAAGAATTTACCCAGGACTAAG
1 -AAAAGTTGATCGAGATTGAACTC-ACAAGCCAACAAAGGATAAAAGAATTTACCCAGGACTAAG
*
256175 CCAATAGGTAAATAAAAGATA
64 CCAATAGGTAAACAAAAGATA
256196 TAAAAGTTGATCGAGATTGAACTCACAAG
1 -AAAAGTTGATCGAGATTGAACTCACAAG
256225 TTAACCAATT
Statistics
Matches: 217, Mismatches: 55, Indels: 23
0.74 0.19 0.08
Matches are distributed among these distances:
84 14 0.06
85 188 0.87
86 15 0.07
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (84 bp):
AAAAGTTGATCGAGATTGAACTCACAAGCCAACAAAGGATAAAAGAATTTACCCAGGACTAAGCC
AATAGGTAAACAAAAGATA
Found at i:256442 original size:46 final size:45
Alignment explanation
Indices: 256315--256442 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 45
256305 GTCAACTGGG
* * * *
256315 AATGAAAAGGGTTTAACTAGAGTGGTAACTAATACAATCAAATGAA
1 AATGAAAAGGGTTTGACTAGGGTGGTAAC-AATATAGTCAAATGAA
* * * * *
256361 AA-GAAAAGGGTTTGACCAAGGCGGTAATCGATATAGTCACATGAA
1 AATGAAAAGGGTTTGACTAGGGTGGTAA-CAATATAGTCAAATGAA
*
256406 AATGAAAAGGGTTTGACTAGGGTGGTGACAAGTATAG
1 AATGAAAAGGGTTTGACTAGGGTGGTAACAA-TATAG
256443 CTAAACGATG
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
45 36 0.55
46 29 0.45
ACGTcount: A:0.41, C:0.09, G:0.27, T:0.23
Consensus pattern (45 bp):
AATGAAAAGGGTTTGACTAGGGTGGTAACAATATAGTCAAATGAA
Found at i:256746 original size:35 final size:35
Alignment explanation
Indices: 256445--256749 Score: 331
Period size: 35 Copynumber: 8.7 Consensus size: 35
256435 AAGTATAGCT
* * *
256445 AAACGATGATGAAAAGAGTTTAACCTGATACAGCC
1 AAACGATGATGAAAAGAGTTTGACCAGATACAACC
* * * * *
256480 AAACAATGATGAAAAGAGTTTAACCAGATATAGCT
1 AAACGATGATGAAAAGAGTTTGACCAGATACAACC
* * * * * *
256515 AAACGATGACGAAAAGAGTATAACTAGATATAGCC
1 AAACGATGATGAAAAGAGTTTGACCAGATACAACC
* ** * *
256550 AAACGATGATGGAAAGAGTTCAACCATATGCAACC
1 AAACGATGATGAAAAGAGTTTGACCAGATACAACC
* * * *
256585 AAATGATGATGAAAAGAGTTTGACTAGATGCAGCC
1 AAACGATGATGAAAAGAGTTTGACCAGATACAACC
* * * *
256620 AAACAATGATGAAAAGAGCTTGACCAGATGCAATC
1 AAACGATGATGAAAAGAGTTTGACCAGATACAACC
* *
256655 AAATGATGATGAAAAGAGTTTGACCAGATGCAACC
1 AAACGATGATGAAAAGAGTTTGACCAGATACAACC
* *
256690 AAACGATGATGATAAGAGTTTGACTAGATACAACC
1 AAACGATGATGAAAAGAGTTTGACCAGATACAACC
256725 AAACGATGATGAAAAGAGTTTGACC
1 AAACGATGATGAAAAGAGTTTGACC
256750 GATTATAGTT
Statistics
Matches: 229, Mismatches: 41, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 229 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (35 bp):
AAACGATGATGAAAAGAGTTTGACCAGATACAACC
Found at i:256748 original size:105 final size:105
Alignment explanation
Indices: 256445--256749 Score: 367
Period size: 105 Copynumber: 2.9 Consensus size: 105
256435 AAGTATAGCT
* * * * * *
256445 AAACGATGATGAAAAGAGTTTAACCTGATACAGCCAAACAATGATGAAAAGAGTTTAACCAGATA
1 AAACGATGATGAAAAGAGTTTAACCAGATGCAACCAAACGATGATGAAAAGAGTTTGACTAGATA
* * * * * * * *
256510 TAGCTAAACGATGACGAAAAGAGTATAACTAGATATAGCC
66 CAGCCAAACGATGATGAAAAGAGTTTGACCAGATACAACC
* * * * *
256550 AAACGATGATGGAAAGAGTTCAACCATATGCAACCAAATGATGATGAAAAGAGTTTGACTAGATG
1 AAACGATGATGAAAAGAGTTTAACCAGATGCAACCAAACGATGATGAAAAGAGTTTGACTAGATA
* * * *
256615 CAGCCAAACAATGATGAAAAGAGCTTGACCAGATGCAATC
66 CAGCCAAACGATGATGAAAAGAGTTTGACCAGATACAACC
* * *
256655 AAATGATGATGAAAAGAGTTTGACCAGATGCAACCAAACGATGATGATAAGAGTTTGACTAGATA
1 AAACGATGATGAAAAGAGTTTAACCAGATGCAACCAAACGATGATGAAAAGAGTTTGACTAGATA
*
256720 CAACCAAACGATGATGAAAAGAGTTTGACC
66 CAGCCAAACGATGATGAAAAGAGTTTGACC
256750 GATTATAGTT
Statistics
Matches: 166, Mismatches: 34, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
105 166 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (105 bp):
AAACGATGATGAAAAGAGTTTAACCAGATGCAACCAAACGATGATGAAAAGAGTTTGACTAGATA
CAGCCAAACGATGATGAAAAGAGTTTGACCAGATACAACC
Found at i:258487 original size:19 final size:20
Alignment explanation
Indices: 258458--258503 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
258448 CCTAGAGCTT
*
258458 CATTCTTTCTTTTTTTTTTTA
1 CATT-TTTCTTTTTTTTATTA
258479 C-TTTTTCTTTTTTTTATTA
1 CATTTTTCTTTTTTTTATTA
258498 CATTTT
1 CATTTT
258504 ATCACGTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 16 0.70
20 6 0.26
21 1 0.04
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (20 bp):
CATTTTTCTTTTTTTTATTA
Found at i:263219 original size:29 final size:28
Alignment explanation
Indices: 263170--263225 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
263160 AATAAGTGGG
263170 TATTTTTTAAATGTTAGGAGAGTAAATA
1 TATTTTTTAAATGTTAGGAGAGTAAATA
*
263198 TATTTTTATAAAATTTTA-GAGAGTAAAT
1 TATTTTT-T-AAATGTTAGGAGAGTAAAT
263226 GCTTTTTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.28
29 11 0.44
30 7 0.28
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (28 bp):
TATTTTTTAAATGTTAGGAGAGTAAATA
Found at i:270411 original size:19 final size:19
Alignment explanation
Indices: 270365--270419 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 19
270355 ATTCAAAATT
270365 TATGAAAATAAATGAATT--
1 TATG-AAATAAATGAATTAA
*
270383 T-TTAAA-AAATGAATTAA
1 TATGAAATAAATGAATTAA
270400 TATGAAATAAAT-AA-TAA
1 TATGAAATAAATGAATTAA
270417 TAT
1 TAT
270420 TTTATGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 9 0.29
16 3 0.10
17 8 0.26
18 7 0.23
19 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
TATGAAATAAATGAATTAA
Found at i:270577 original size:166 final size:165
Alignment explanation
Indices: 270030--270830 Score: 946
Period size: 165 Copynumber: 4.9 Consensus size: 165
270020 CAAAGAGAGG
* * * *
270030 AAAAATTCAAAATTCATAGCAATGAATGAATTTTTTAAAACTGAATTAATATGAAATAAATAATA
1 AAAAATTCAAAATTCATGGAAATGAATGAATTTTTAAAAACTAAATTAATATGAAATAAATAATA
* * *** *
270095 ATATTTGATGAATTTT---A--AAAATA-AA-AAAAATCTTCTTAAAAAAATTTACGGAGCAGAA
66 ATATTTGATGAATTTTAAAATCAAAAAACAAGAAAAATCTCCCCGAAAAAATTTACGGAGTAGAA
* *
270153 ACCTCCGTATTTTAGAAAAAAGGAAATTTCAAAGA
131 AACTCCGTATTTTAGAAAAAAGGAAATTTCAAGGA
* * * * * *
270188 AAAAAATCACAATTTATGGAAATGAATGAATTTTTGAAAACTAAATTAAAATGAAGTAAATAATA
1 AAAAATTCAAAATTCATGGAAATGAATGAATTTTTAAAAACTAAATTAATATGAAATAAATAATA
* * * * *
270253 ATATTTTATGAATTTTAAAATTAAAAACCAAGAAAAATC-CTCCCGAAAAAATTTACGAACTAGA
66 ATATTTGATGAATTTTAAAATCAAAAAACAAGAAAAATCTC-CCCGAAAAAATTTACGGAGTAGA
* *
270317 AAACTCCGTATTTCAG-AAAAAGAAAATTTCAA-GA
130 AAACTCCGTATTTTAGAAAAAAGGAAATTTCAAGGA
* * * * *
270351 AAAAATTCAAAATTTATGAAAATAAATGAATTTTTAAAAAATGAATTAATATGAAATAAATAATA
1 AAAAATTCAAAATTCATGGAAATGAATGAATTTTTAAAAACTAAATTAATATGAAATAAATAATA
* **
270416 ATATTTTATGAATTTTAAATATCAAAAAACAAGAAAAATCTCCCCGAAAAAATTTATAGAGTAGA
66 ATATTTGATGAATTTTAAA-ATCAAAAAACAAGAAAAATCTCCCCGAAAAAATTTACGGAGTAGA
* * * *
270481 AAACTCTGTATTTTGGAAAAAGGGAGATTTCAAGGA
130 AAACTCCGTATTTTAGAAAAAAGGAAATTTCAAGGA
* *
270517 AAAAATTCAAAATTCATGGAAATGAATGAATTTTTAAAAACTAAATTTATATGTAATAAATAATA
1 AAAAATTCAAAATTCATGGAAATGAATGAATTTTTAAAAACTAAATTAATATGAAATAAATAATA
* * * * *
270582 ATATTTGATGAATTTTAAAATTAAAAACCAAGAAAACTCAT-CTCGAAAAAATTTACGGACTAGA
66 ATATTTGATGAATTTTAAAATCAAAAAACAAGAAAAATC-TCCCCGAAAAAATTTACGGAGTAGA
* * * * *
270646 AAACTTCATA-TTTCGAAAAAAAGAGAATTTCAAGAA
130 AAACTCCGTATTTTAGAAAAAAGGA-AATTTCAAGGA
* *
270682 AAAAATTCACAATTCATGGAAATGAATGAATTTTTGAAAAA-TTAATTAATATGAAATAAATAAT
1 AAAAATTCAAAATTCATGGAAATGAATGAATTTTT-AAAAACTAAATTAATATGAAATAAATAAT
** *
270746 AATATTTGATGAATTTTAAAAATCAAAAAACAAGAAAAATCTCCCTAAAAAAATTAACGGAGTAG
65 AATATTTGATGAATTTT-AAAATCAAAAAACAAGAAAAATCTCCCCGAAAAAATTTACGGAGTAG
* *
270811 AAAACCCCGTAATTT-GAAAA
129 AAAACTCCGTATTTTAGAAAA
270831 CATAAAGAAT
Statistics
Matches: 544, Mismatches: 81, Indels: 28
0.83 0.12 0.04
Matches are distributed among these distances:
158 71 0.13
161 1 0.00
163 81 0.15
164 78 0.14
165 176 0.32
166 134 0.25
167 3 0.01
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (165 bp):
AAAAATTCAAAATTCATGGAAATGAATGAATTTTTAAAAACTAAATTAATATGAAATAAATAATA
ATATTTGATGAATTTTAAAATCAAAAAACAAGAAAAATCTCCCCGAAAAAATTTACGGAGTAGAA
AACTCCGTATTTTAGAAAAAAGGAAATTTCAAGGA
Found at i:270631 original size:329 final size:331
Alignment explanation
Indices: 270030--270830 Score: 1106
Period size: 329 Copynumber: 2.5 Consensus size: 331
270020 CAAAGAGAGG
* * *
270030 AAAAATTCAAAATTCAT-AGCAATGAATGAATTTTTTAAAACTGAATTAATATGAAATAAATAAT
1 AAAAATTCAAAATTCATGA-AAATGAATGAATTTTTAAAAAATGAATTAATATGAAATAAATAAT
* * * *
270094 AATATTTGATGAA-TTT---TA--AAAATA-AA-AAAAATCTTCTTAAAAAAATTTACGGAGCAG
65 AATATTTGATGAATTTTAAATATCAAAAAACAAGAAAAATCTCCCTAAAAAAATTTACGGAGTAG
* * *
270151 AAACCTCCGTATTTTAGAAAAAAGGAAATTTCAAAGAAAAAAATCACAATTTATGGAAATGAATG
130 AAAACTCCGTATTTTAGAAAAAAGGAAATTTCAAAGAAAAAAATCAAAATTCATGGAAATGAATG
* *
270216 AATTTTTGAAAACTAAATTAAAATGAAGTAAATAATAATATTTTATGAATTTTAAAATTAAAAAC
195 AATTTTTAAAAACTAAATTAAAATGAAGTAAATAATAATATTTGATGAATTTTAAAATTAAAAAC
* * *
270281 CAAGAAAAATCCTCCCGAAAAAATTTACGAACTAGAAAACTCCGTATTTC-AGAAAAAGAAAATT
260 CAAGAAAAATCATCCCGAAAAAATTTACGAACTAGAAAACTCCATATTTCGAAAAAAAGAAAATT
270345 TCAAG-A
325 TCAAGAA
* *
270351 AAAAATTCAAAATTTATGAAAATAAATGAATTTTTAAAAAATGAATTAATATGAAATAAATAATA
1 AAAAATTCAAAATTCATGAAAATGAATGAATTTTTAAAAAATGAATTAATATGAAATAAATAATA
* ** **
270416 ATATTTTATGAATTTTAAATATCAAAAAACAAGAAAAATCTCCCCGAAAAAATTTATAGAGTAGA
66 ATATTTGATGAATTTTAAATATCAAAAAACAAGAAAAATCTCCCTAAAAAAATTTACGGAGTAGA
* * * * * *
270481 AAACTCTGTATTTTGGAAAAAGGGAGATTTCAAGGAAAAAATTCAAAATTCATGGAAATGAATGA
131 AAACTCCGTATTTTAGAAAAAAGGAAATTTCAAAGAAAAAAATCAAAATTCATGGAAATGAATGA
* *
270546 ATTTTTAAAAACTAAATTTATATGTAA-TAAATAATAATATTTGATGAATTTTAAAATTAAAAAC
196 ATTTTTAAAAACTAAATTAAAATG-AAGTAAATAATAATATTTGATGAATTTTAAAATTAAAAAC
* * * * *
270610 CAAGAAAACTCATCTCGAAAAAATTTACGGACTAGAAAACTTCATATTTCGAAAAAAAGAGAATT
260 CAAGAAAAATCATCCCGAAAAAATTTACGAACTAGAAAACTCCATATTTCGAAAAAAAGAAAATT
270675 TCAAGAA
325 TCAAGAA
* * * *
270682 AAAAATTCACAATTCATGGAAATGAATGAATTTTTGAAAAATTAATTAATATGAAATAAATAATA
1 AAAAATTCAAAATTCATGAAAATGAATGAATTTTTAAAAAATGAATTAATATGAAATAAATAATA
* *
270747 ATATTTGATGAATTTTAAAAATCAAAAAACAAGAAAAATCTCCCTAAAAAAATTAACGGAGTAGA
66 ATATTTGATGAATTTTAAATATCAAAAAACAAGAAAAATCTCCCTAAAAAAATTTACGGAGTAGA
* *
270812 AAACCCCGTAATTT-GAAAA
131 AAACTCCGTATTTTAGAAAA
270831 CATAAAGAAT
Statistics
Matches: 417, Mismatches: 51, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
321 69 0.17
322 4 0.01
325 2 0.00
327 5 0.01
328 2 0.00
329 182 0.44
330 24 0.06
331 129 0.31
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (331 bp):
AAAAATTCAAAATTCATGAAAATGAATGAATTTTTAAAAAATGAATTAATATGAAATAAATAATA
ATATTTGATGAATTTTAAATATCAAAAAACAAGAAAAATCTCCCTAAAAAAATTTACGGAGTAGA
AAACTCCGTATTTTAGAAAAAAGGAAATTTCAAAGAAAAAAATCAAAATTCATGGAAATGAATGA
ATTTTTAAAAACTAAATTAAAATGAAGTAAATAATAATATTTGATGAATTTTAAAATTAAAAACC
AAGAAAAATCATCCCGAAAAAATTTACGAACTAGAAAACTCCATATTTCGAAAAAAAGAAAATTT
CAAGAA
Found at i:278904 original size:20 final size:18
Alignment explanation
Indices: 278870--278912 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
278860 ATGTTCTTAA
278870 TAATGCATTAAAAAATTTT
1 TAATGCATTAAAAAA-TTT
*
278889 TAATGTATTGAAAAAATTT
1 TAATGCATT-AAAAAATTT
278908 TAATG
1 TAATG
278913 ATCTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (18 bp):
TAATGCATTAAAAAATTT
Found at i:279725 original size:16 final size:17
Alignment explanation
Indices: 279706--279755 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
279696 TTTATGTAAA
279706 ATTAATTTA-ATTTTAT
1 ATTAATTTATATTTTAT
*
279722 ATTATTTTATGATTTTAT
1 ATTAATTTAT-ATTTTAT
*
279740 A-TCATTTATATTTTAT
1 ATTAATTTATATTTTAT
279756 CCATTCAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 15 0.52
17 6 0.21
18 8 0.28
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
ATTAATTTATATTTTAT
Found at i:280719 original size:2 final size:2
Alignment explanation
Indices: 280712--280740 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
280702 ACCAAATACA
280712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
280741 ACTTTCATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:283797 original size:97 final size:98
Alignment explanation
Indices: 283675--283858 Score: 291
Period size: 97 Copynumber: 1.9 Consensus size: 98
283665 AAATGTCCCC
* * * *
283675 GATGATGACAATTTAGGCAATGATAAGATTCAAATCTTGA-ATGTTTTAAAAATGGGGTTGGAGT
1 GATGATGACAATTTAGGCAAGGATAAGATTCAAATCTTGACATGTTTCAAAAACGGGGTTGAAGT
*
283739 ATC-CTCTCGGAGGAATGGGGTTGGAGTATCCTT
66 ATCTCT-TCGGAGGAATGAGGTTGGAGTATCCTT
283772 GATGATGACAATTTAGGCAAGGATAAGATTCAAATCTTGACATGTTTCAAAAACGGGGTTGAAGT
1 GATGATGACAATTTAGGCAAGGATAAGATTCAAATCTTGACATGTTTCAAAAACGGGGTTGAAGT
*
283837 ATCTCTTTGGAGGAATGAGGTT
66 ATCTCTTCGGAGGAATGAGGTT
283859 AAAATTTTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
97 39 0.49
98 38 0.48
99 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (98 bp):
GATGATGACAATTTAGGCAAGGATAAGATTCAAATCTTGACATGTTTCAAAAACGGGGTTGAAGT
ATCTCTTCGGAGGAATGAGGTTGGAGTATCCTT
Found at i:286058 original size:50 final size:50
Alignment explanation
Indices: 286002--286146 Score: 202
Period size: 50 Copynumber: 2.9 Consensus size: 50
285992 TTTTAACTAG
*
286002 ATGTATCGATACATTGAAAAATGTGTCGATACACTAGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACACTAGGTAAAAAGACAGA
* * *
286052 ATGTATCTATACATTGAAGAATGTATCGATACATCTAGG-GAAAAGACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACA-CTAGGTAAAAAGACAGA
* * *
286102 ATATATCGATACATTAAAAAATGTATCGATACCTCTAGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATA-CACTAGGTAAAAA
286147 TATGACTTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
50 72 0.88
51 10 0.12
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.26
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATGTATCGATACACTAGGTAAAAAGACAGA
Done.