Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005728.1 Hibiscus syriacus cultivar Beakdansim tig00013386_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 971753
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 6
Found at i:164265 original size:34 final size:34
Alignment explanation
Indices: 164222--164288 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
164212 CAAATTTCAC
164222 CGTTGATCGGCCATTGTTGGTCATTTGTTGTCAT
1 CGTTGATCGGCCATTGTTGGTCATTTGTTGTCAT
164256 CGTTGATCGGCCATTGTTGGTCATTTGTTGTCA
1 CGTTGATCGGCCATTGTTGGTCATTTGTTGTCA
164289 CCATTGACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.12, C:0.18, G:0.27, T:0.43
Consensus pattern (34 bp):
CGTTGATCGGCCATTGTTGGTCATTTGTTGTCAT
Found at i:166063 original size:3 final size:3
Alignment explanation
Indices: 166016--166049 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
166006 TTTCCATTTG
166016 ATT ATT ATT -TAT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT A
166050 AAAAAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.03
3 27 0.93
4 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:167866 original size:149 final size:148
Alignment explanation
Indices: 167572--167866 Score: 323
Period size: 149 Copynumber: 2.0 Consensus size: 148
167562 TTTATATATG
* *
167572 TTTTTAATATTAAGAAATGGGTTGTCTTAAAACACCTAGAAGTCTTTTTCTGATATTCTTAAATA
1 TTTTTAATATCAAGAAATGGGTTGTCTTAAAACACCTAGAAGTCATTTTCTGATATTCTTAAATA
** * * ** *
167637 AATAAATATCATATTTTTATAAATTATATATATTAATTTATGTTAATTATTTTTATAGAAATGTT
66 AATAAATATCATATTAATATAAATTATATATA-TAATTTATATTAATAATTTAAATAGAAAGGTT
* *
167702 TTATTAATATTTATTTATT
130 TAATTAATATATATTTATT
* *
167721 TTTTTAATATCAAGAAATGGTTTGTCTTAAAGCACCTAGAAGTCATTTTCTGATATT-TCTAAAT
1 TTTTTAATATCAAGAAATGGGTTGTCTTAAAACACCTAGAAGTCATTTTCTGATATTCT-TAAAT
* ** *
167785 AAATAAATATCTTATTAATATATGTTCT-TA-A-AA-TTATATTAATAAATTTGAAATA-AAAGG
65 AAATAAATATCATATTAATATAAATTATATATATAATTTATATTAAT-AATTT-AAATAGAAAGG
167845 ATTATGAATTAAATATATATTT
128 -TT-T-AATT-AATATATATTT
167867 TTAAATTTTT
Statistics
Matches: 122, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
144 9 0.07
145 10 0.08
146 5 0.04
147 2 0.02
148 6 0.05
149 90 0.74
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.46
Consensus pattern (148 bp):
TTTTTAATATCAAGAAATGGGTTGTCTTAAAACACCTAGAAGTCATTTTCTGATATTCTTAAATA
AATAAATATCATATTAATATAAATTATATATATAATTTATATTAATAATTTAAATAGAAAGGTTT
AATTAATATATATTTATT
Found at i:172724 original size:7 final size:7
Alignment explanation
Indices: 172712--172739 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
172702 TAATTAATTG
172712 TTGCAAA
1 TTGCAAA
172719 TTGCAAA
1 TTGCAAA
172726 TTGCAAA
1 TTGCAAA
172733 TTGCAAA
1 TTGCAAA
172740 GGAAGACGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (7 bp):
TTGCAAA
Found at i:175262 original size:63 final size:63
Alignment explanation
Indices: 175168--175289 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 63
175158 CACTAATTTA
* *
175168 AAATAAAAACATCGAATGGCATCAGTGTATCGATGCACAAG-TAGTGCATCGATGCACCCCCTT
1 AAATAAAAACATCGAATGGCATCAGTATATCGATGCA-AAGATAGTGCATCGATACACCCCCTT
* * * *
175231 AAATACAAACATCGAATGGGATTTA-TATATCGATGCATAGATAGTGCATCGATACACCC
1 AAATAAAAACATCGAATGGCA-TCAGTATATCGATGCAAAGATAGTGCATCGATACACCC
175290 GTCAAGGGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
62 2 0.04
63 47 0.92
64 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (63 bp):
AAATAAAAACATCGAATGGCATCAGTATATCGATGCAAAGATAGTGCATCGATACACCCCCTT
Found at i:175966 original size:23 final size:23
Alignment explanation
Indices: 175933--175992 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
175923 AATCTTATGT
* * *
175933 GGCACTACGGTGTAATTCTACGC
1 GGCACTTCGGTGCAATTCTAAGC
*
175956 GGCACTTCGGTGCAATTCTAAGT
1 GGCACTTCGGTGCAATTCTAAGC
*
175979 GGCACTTCGATGCA
1 GGCACTTCGGTGCA
175993 TTTATACGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTAAGC
Found at i:176933 original size:19 final size:19
Alignment explanation
Indices: 176909--176950 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
176899 TGTTTTTATA
**
176909 AATAGTACTATATTGTATG
1 AATAGTACTATACGGTATG
176928 AATAGTACTATACGGTATG
1 AATAGTACTATACGGTATG
176947 AATA
1 AATA
176951 ATATCGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (19 bp):
AATAGTACTATACGGTATG
Found at i:177052 original size:21 final size:21
Alignment explanation
Indices: 177026--177090 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
177016 AATATAAATT
*
177026 GTGTATCGATGCACTGCTATA
1 GTGTATCGATGCACTGCTACA
*
177047 GTGTATCGATGCATTGCTACA
1 GTGTATCGATGCACTGCTACA
* *
177068 GTGTACCAATGCACTGCTACA
1 GTGTATCGATGCACTGCTACA
177089 GT
1 GT
177091 AACTTCCACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (21 bp):
GTGTATCGATGCACTGCTACA
Found at i:177647 original size:22 final size:22
Alignment explanation
Indices: 177619--177680 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
177609 AGCATGTGAA
*
177619 ATTTGTCCCGAATGACCTATGT
1 ATTTGTCCCGAAAGACCTATGT
*
177641 ATTTGTCCCGAAAGACCTCTGT
1 ATTTGTCCCGAAAGACCTATGT
* *
177663 ATATGTCCCCGAAGGACC
1 ATTTGT-CCCGAAAGACC
177681 GCGTAGACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 25 0.71
23 10 0.29
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (22 bp):
ATTTGTCCCGAAAGACCTATGT
Found at i:178026 original size:38 final size:38
Alignment explanation
Indices: 177975--178057 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
177965 ATTTCTCATG
177975 TGTTCATGTAAACATGCATGTCATATCTTGTTCACATA
1 TGTTCATGTAAACATGCATGTCATATCTTGTTCACATA
*
178013 TGTTCATGTAAACATGCATGTTATATCTTGTTCACATA
1 TGTTCATGTAAACATGCATGTCATATCTTGTTCACATA
178051 TGTTCAT
1 TGTTCAT
178058 ATATACATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (38 bp):
TGTTCATGTAAACATGCATGTCATATCTTGTTCACATA
Found at i:178254 original size:2 final size:2
Alignment explanation
Indices: 178247--178316 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
178237 CTCCTAACTC
178247 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178289 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178317 CCCAACTTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:182103 original size:5 final size:5
Alignment explanation
Indices: 182093--182125 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
182083 TGATTTACTC
182093 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
182126 ACCTTGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:183920 original size:6 final size:6
Alignment explanation
Indices: 183911--183945 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
183901 GATAAATCTC
*
183911 TCACCT TCACCT TCACCT TCACACC TCACCT TCAC
1 TCACCT TCACCT TCACCT TCAC-CT TCACCT TCAC
183946 TCTCACTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.20, C:0.51, G:0.00, T:0.29
Consensus pattern (6 bp):
TCACCT
Found at i:183951 original size:19 final size:18
Alignment explanation
Indices: 183908--183951 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
183898 AGAGATAAAT
*
183908 CTCTCACCTTCACCTTCA
1 CTCTCACCCTCACCTTCA
183926 C-CTTCACACCTCACCTTCA
1 CTC-TCAC-CCTCACCTTCA
183945 CTCTCAC
1 CTCTCAC
183952 TCGAAACACA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.05
18 5 0.23
19 15 0.68
20 1 0.05
ACGTcount: A:0.18, C:0.52, G:0.00, T:0.30
Consensus pattern (18 bp):
CTCTCACCCTCACCTTCA
Found at i:188125 original size:21 final size:22
Alignment explanation
Indices: 188090--188130 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
188080 AAATGAATAT
*
188090 AAATAAAATATGAACACATTTA
1 AAATAAAATACGAACACATTTA
188112 AAATAAAA-ACGAACACATT
1 AAATAAAATACGAACACATT
188131 AATATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (22 bp):
AAATAAAATACGAACACATTTA
Found at i:195366 original size:35 final size:36
Alignment explanation
Indices: 195326--195427 Score: 152
Period size: 35 Copynumber: 2.8 Consensus size: 36
195316 TCAACTTTAA
195326 AAAAATGATTTTCAAAGTTTGGTAAATGTTCCTTTG
1 AAAAATGATTTTCAAAGTTTGGTAAATGTTCCTTTG
* *
195362 -AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATGATTTTCAAAGTTTGGTAAATGTTCCTTTG
* *
195397 AAAAATAGTTTTTCAAAGTTTGGTAGATGTT
1 AAAAAT-GATTTTCAAAGTTTGGTAAATGTT
195428 TGTTGAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 33 0.55
36 5 0.08
37 22 0.37
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (36 bp):
AAAAATGATTTTCAAAGTTTGGTAAATGTTCCTTTG
Found at i:199976 original size:21 final size:20
Alignment explanation
Indices: 199952--200015 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
199942 AACTTTGAAA
199952 AAATGATTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
*
199973 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
199987 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
200008 AAATGTTT
1 AAATGTTT
200016 ATTTGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 4 0.12
19 4 0.12
20 7 0.21
21 10 0.29
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:199990 original size:35 final size:35
Alignment explanation
Indices: 199945--200066 Score: 165
Period size: 35 Copynumber: 3.4 Consensus size: 35
199935 GGTAACCAAC
199945 TTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
1 TTTG-AAAAATGATTTTCAAAGTTTGGTAAATGTTT
*
199981 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 -TTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* *
200016 ATTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 -TTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTT
*
200053 GTTGAAAAATGATT
1 TTTGAAAAATGATT
200067 ATGGGATAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
35 36 0.47
36 14 0.18
37 27 0.35
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (35 bp):
TTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:205854 original size:20 final size:19
Alignment explanation
Indices: 205829--205868 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
205819 CATTTAAATT
*
205829 TTTAAATTTTATTTAACAAA
1 TTTAAATTTAATTTAA-AAA
205849 TTTAAATTTAATTTAAAAA
1 TTTAAATTTAATTTAAAAA
205868 T
1 T
205869 CATACATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAAATTTAATTTAAAAA
Found at i:206477 original size:13 final size:13
Alignment explanation
Indices: 206459--206483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
206449 AAGAAAAGTG
206459 TTATTATTTTTTA
1 TTATTATTTTTTA
206472 TTATTATTTTTT
1 TTATTATTTTTT
206484 TTAATAAAAT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:213019 original size:12 final size:14
Alignment explanation
Indices: 212992--213029 Score: 67
Period size: 14 Copynumber: 2.6 Consensus size: 14
212982 ATCACGTCAA
212992 ATTTTAAAATATAT
1 ATTTTAAAATATAT
213006 ATTTTAAAATATAT
1 ATTTTAAAATATAT
213020 ATTTTTAAAA
1 A-TTTTAAAA
213030 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTAAAATATAT
Found at i:214555 original size:44 final size:44
Alignment explanation
Indices: 214499--214612 Score: 228
Period size: 44 Copynumber: 2.6 Consensus size: 44
214489 TAGGAATTAT
214499 AATCCAATTCCATATTCTGTTTGGTTGACAGGAAATTGAATTGG
1 AATCCAATTCCATATTCTGTTTGGTTGACAGGAAATTGAATTGG
214543 AATCCAATTCCATATTCTGTTTGGTTGACAGGAAATTGAATTGG
1 AATCCAATTCCATATTCTGTTTGGTTGACAGGAAATTGAATTGG
214587 AATCCAATTCCATATTCTGTTTGGTT
1 AATCCAATTCCATATTCTGTTTGGTT
214613 CGGAGACATG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (44 bp):
AATCCAATTCCATATTCTGTTTGGTTGACAGGAAATTGAATTGG
Found at i:214886 original size:22 final size:22
Alignment explanation
Indices: 214857--214901 Score: 83
Period size: 21 Copynumber: 2.1 Consensus size: 22
214847 CGGGTTGGGT
214857 CGGGTTTTTGGTCCACC-GACC
1 CGGGTTTTTGGTCCACCTGACC
214878 CGGGTTTTTGGTCCACCTGACC
1 CGGGTTTTTGGTCCACCTGACC
214900 CG
1 CG
214902 ACCTGAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.09, C:0.33, G:0.29, T:0.29
Consensus pattern (22 bp):
CGGGTTTTTGGTCCACCTGACC
Found at i:215497 original size:263 final size:250
Alignment explanation
Indices: 214933--215541 Score: 824
Period size: 257 Copynumber: 2.4 Consensus size: 250
214923 CATCCGAGAT
*
214933 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAG-AA----ACCCT
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCG
* * *
214993 ACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAATATATAT
66 ACCCGAAATAATAAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAATATAT
* ** *
215058 ATAGAGAGGGATATTATTGTAATTATTTCTAAATATATAAGGTAAAATTATATATTTTTTGGGTT
131 ATAGAGAGGGATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTAATT--GTC
*
215123 AGGTCGGGTATTTTTGACCCTAAACCCGAACCCGAATAGCACACTTAAAAAACCGAC
194 AGGTCGGGTATTTTTCACCCTAAACCCGAACCCGAATAGCACACTTAAAAAACCGAC
* * * *
215180 CTGACCCGACCAAAATAAAATTTCACCTGACCCGATCCGAATATATGAATTAGAAATCCGACCCG
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCG
*
215245 ACCCGACCTGAAATAATAAAAAAAATATTTTTATTCATTAAAAACAGTGACTTAATTGAAAAAAA
66 A--C--CC-GAAATAATAAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAA
215310 TTATATATAGAG-GGG-TATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA-TAAT
126 -TATATATAGAGAGGGATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTAAT
*
215372 T-TCAGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACCTGACTCGAATATCACACTTAAAAA
190 TGTCAGGTCGGGTATTTTTCACCCTAAACCCG-A----A-C---C-CGAATAGCACACTTAAAAA
215436 ACCCGAC
245 A-CCGAC
* *
215443 CCGATCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCTG
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCG
215508 ACCCGAAATAA-AAAAAAAATATTTTTATTCAATA
66 ACCCGAAATAATAAAAAAAATATTTTTATTCAATA
215542 TACGAATAAG
Statistics
Matches: 318, Mismatches: 22, Indels: 34
0.85 0.06 0.09
Matches are distributed among these distances:
247 49 0.15
248 2 0.01
252 33 0.10
253 1 0.00
254 1 0.00
255 3 0.01
256 44 0.14
257 78 0.25
258 19 0.06
259 2 0.01
261 2 0.01
262 19 0.06
263 65 0.20
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (250 bp):
CCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCG
ACCCGAAATAATAAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAATATAT
ATAGAGAGGGATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTAATTGTCAG
GTCGGGTATTTTTCACCCTAAACCCGAACCCGAATAGCACACTTAAAAAACCGAC
Found at i:235449 original size:21 final size:21
Alignment explanation
Indices: 235407--235449 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
235397 TTTTCGGGCT
* *
235407 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
235428 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
235449 A
1 A
235450 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:235510 original size:66 final size:66
Alignment explanation
Indices: 235429--235577 Score: 237
Period size: 66 Copynumber: 2.3 Consensus size: 66
235419 ACCCATTCAA
* *
235429 GGGGAATCGATACCCCCTCAACGAATATGATTTCCAGAATGCTAGAGGGGAATCGATACCCCCA-
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATA-CCCCAG
235493 GG
65 GG
* *
235495 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGTTAGTGGGGAATCGATACCCCAGG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCAGG
235560 G
66 G
*
235561 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
235578 ATGAAAAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
65 5 0.06
66 72 0.94
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (66 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCAGG
G
Found at i:236219 original size:22 final size:23
Alignment explanation
Indices: 236187--236245 Score: 93
Period size: 22 Copynumber: 2.6 Consensus size: 23
236177 ATCATTATAT
* *
236187 GGCACTACGGTGCAATTCTAC-G
1 GGCACTTCGGTGCAATTCAACGG
236209 GGCACTTCGGTGCAATTCAACGG
1 GGCACTTCGGTGCAATTCAACGG
236232 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
236246 TTTATACGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 19 0.56
23 15 0.44
ACGTcount: A:0.20, C:0.27, G:0.31, T:0.22
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCAACGG
Found at i:242337 original size:21 final size:21
Alignment explanation
Indices: 242295--242337 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
242285 TTTTCGGGCT
* * *
242295 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
242316 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
242337 A
1 A
242338 CGAATATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:242397 original size:66 final size:66
Alignment explanation
Indices: 242317--242465 Score: 246
Period size: 66 Copynumber: 2.3 Consensus size: 66
242307 ACCCATTCAA
*
242317 GGGGAACCGATACCCCCTCAACGAATATGATTTCCAGAATGCTAGAGGGGAATCGATACCCCCA-
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATA-CCCCAG
242381 GG
65 GG
* *
242383 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGTTAGTGGGGAATCGATACCCCAGG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCAGG
242448 G
66 G
*
242449 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
242466 ATGAAAAAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
65 5 0.06
66 73 0.94
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.17
Consensus pattern (66 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCAGG
G
Found at i:243128 original size:23 final size:23
Alignment explanation
Indices: 243076--243144 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
243066 ATCATTATAT
*
243076 GGCACTACGGTGCAATTCTACG-
1 GGCACTTCGGTGCAATTCTACGA
243098 GGCACTTCGGTGCAATTCTACGA
1 GGCACTTCGGTGCAATTCTACGA
* *
243121 GGCACTTCGGTGCATTTATACGA
1 GGCACTTCGGTGCAATTCTACGA
243144 G
1 G
243145 CTGTGGTGAC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
22 21 0.49
23 22 0.51
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.26
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGA
Found at i:250792 original size:39 final size:39
Alignment explanation
Indices: 250738--250832 Score: 163
Period size: 39 Copynumber: 2.4 Consensus size: 39
250728 AACATTAGTG
250738 ACTATTTGTATAGTTTATCCTTTTTAATTTAATAAATTA
1 ACTATTTGTATAGTTTATCCTTTTTAATTTAATAAATTA
* **
250777 ACTATTTGTGTAGTTTATTTTTTTTAATTTAATAAATTA
1 ACTATTTGTATAGTTTATCCTTTTTAATTTAATAAATTA
250816 ACTATTTGTATAGTTTA
1 ACTATTTGTATAGTTTA
250833 CCCCTTAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (39 bp):
ACTATTTGTATAGTTTATCCTTTTTAATTTAATAAATTA
Found at i:265897 original size:31 final size:31
Alignment explanation
Indices: 265853--265951 Score: 80
Period size: 31 Copynumber: 3.3 Consensus size: 31
265843 GTTTATTATC
*
265853 CAAAAATACTTTCATCCTTAGGAATATTTTT
1 CAAATATACTTTCATCCTTAGGAATATTTTT
* * ** * *
265884 CAAATATATTTTCAAT-ATT--GTTTATTATC
1 CAAATATACTTTC-ATCCTTAGGAATATTTTT
*
265913 CGAAA-ATACTTTCATCCCTAGGAATATTTTT
1 C-AAATATACTTTCATCCTTAGGAATATTTTT
265944 CAAATATA
1 CAAATATA
265952 TTTTTTTTAA
Statistics
Matches: 48, Mismatches: 14, Indels: 12
0.65 0.19 0.16
Matches are distributed among these distances:
28 2 0.04
29 15 0.31
30 6 0.12
31 23 0.48
32 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (31 bp):
CAAATATACTTTCATCCTTAGGAATATTTTT
Found at i:265909 original size:60 final size:60
Alignment explanation
Indices: 265837--265955 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
265827 TTGTCTCTTT
*
265837 AATATTGTTTATTATCCAAAAATACTTTCATCCTTAGGAATATTTTTCAAATATATTTTC
1 AATATTGTTTATTATCCAAAAATACTTTCATCCCTAGGAATATTTTTCAAATATATTTTC
*
265897 AATATTGTTTATTATCCGAAAATACTTTCATCCCTAGGAATATTTTTCAAATATATTTT
1 AATATTGTTTATTATCCAAAAATACTTTCATCCCTAGGAATATTTTTCAAATATATTTT
265956 TTTTAAATAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.46
Consensus pattern (60 bp):
AATATTGTTTATTATCCAAAAATACTTTCATCCCTAGGAATATTTTTCAAATATATTTTC
Found at i:265926 original size:29 final size:28
Alignment explanation
Indices: 265833--265926 Score: 66
Period size: 29 Copynumber: 3.2 Consensus size: 28
265823 AGCTTTGTCT
265833 CTTT-AATATTGTTTATTATCCAAAAATA
1 CTTTCAATATTGTTTATTATCC-AAAATA
* ** * *
265861 CTTTC-ATCCTTAGGAATATTTTTCAAATATA
1 CTTTCAAT-ATT--GTTTATTATCCAAA-ATA
*
265892 TTTTCAATATTGTTTATTATCCGAAAATA
1 CTTTCAATATTGTTTATTATCC-AAAATA
265921 CTTTCA
1 CTTTCA
265927 TCCCTAGGAA
Statistics
Matches: 47, Mismatches: 12, Indels: 13
0.65 0.17 0.18
Matches are distributed among these distances:
28 6 0.13
29 17 0.36
30 6 0.13
31 16 0.34
32 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.47
Consensus pattern (28 bp):
CTTTCAATATTGTTTATTATCCAAAATA
Found at i:271048 original size:2 final size:2
Alignment explanation
Indices: 271043--271077 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
271033 CGTGTAGAAC
*
271043 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
271078 AGAAATCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:271231 original size:3 final size:3
Alignment explanation
Indices: 271223--271254 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
271213 ATATATATAT
271223 ATA ATA ATA ATA ATA AT- ATA A-A ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
271255 AGACAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:271283 original size:30 final size:29
Alignment explanation
Indices: 271247--271309 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
271237 AATATAAAAT
*
271247 AATAATA-AAGACAAAAGACTAAAAAAGAAA
1 AATAATATAAGACAAAA-AAT-AAAAAGAAA
* *
271277 AATAATATAATATAAAAAATAAAAAGAAA
1 AATAATATAAGACAAAAAATAAAAAGAAA
271306 AATA
1 AATA
271310 CACTTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 13 0.45
30 9 0.31
31 7 0.24
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (29 bp):
AATAATATAAGACAAAAAATAAAAAGAAA
Found at i:271378 original size:44 final size:42
Alignment explanation
Indices: 271319--271459 Score: 127
Period size: 44 Copynumber: 3.4 Consensus size: 42
271309 ACACTTATAT
271319 ATAATTATAAAAT-ATA-ATATTTAAATAA-AGAAATAAATAAA
1 ATAATTA-AAAATAATATATA-TTAAATAACAGAAATAAATAAA
* *
271360 ATAATTAAAAATACATATATATT-AATAATAGGTATATAAATAAA
1 ATAATTAAAAATA-ATATATATTAAATAACA-G-AAATAAATAAA
* * * *
271404 ACATTTAAAAAT-ATATGTA-TACATAACA-AAATAAATAAA
1 ATAATTAAAAATAATATATATTAAATAACAGAAATAAATAAA
271443 ATAA-TAAAAATAATATA
1 ATAATTAAAAATAATATA
271460 AGGGTTAAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
38 7 0.09
39 16 0.20
40 5 0.06
41 13 0.16
42 17 0.21
43 4 0.05
44 20 0.24
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (42 bp):
ATAATTAAAAATAATATATATTAAATAACAGAAATAAATAAA
Found at i:271836 original size:20 final size:20
Alignment explanation
Indices: 271811--271848 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
271801 CGCCTCGCCG
**
271811 CCGTCGTTGGTCGGCGGCGA
1 CCGTCGTTCATCGGCGGCGA
271831 CCGTCGTTCATCGGCGGC
1 CCGTCGTTCATCGGCGGC
271849 CAAACACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.34, G:0.39, T:0.21
Consensus pattern (20 bp):
CCGTCGTTCATCGGCGGCGA
Found at i:272673 original size:2 final size:2
Alignment explanation
Indices: 272661--272706 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
272651 AATAATACTG
*
272661 AT AT A- AT AT AT AT AT AT GT A- AT AT AT A- AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
272699 AT AT AT AT
1 AT AT AT AT
272707 GTTCTTTCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
1 4 0.11
2 34 0.89
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:272684 original size:7 final size:7
Alignment explanation
Indices: 272661--272706 Score: 67
Period size: 7 Copynumber: 6.6 Consensus size: 7
272651 AATAATACTG
272661 ATATAAT
1 ATATAAT
272668 ATATATAT
1 ATATA-AT
*
272676 ATGTAAT
1 ATATAAT
272683 ATATAAT
1 ATATAAT
272690 ATATAAT
1 ATATAAT
272697 ATAT-AT
1 ATATAAT
272703 ATAT
1 ATAT
272707 GTTCTTTCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 6 0.17
7 24 0.67
8 6 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (7 bp):
ATATAAT
Found at i:273479 original size:99 final size:98
Alignment explanation
Indices: 273214--273791 Score: 719
Period size: 94 Copynumber: 5.9 Consensus size: 98
273204 GAAATTGTTT
* *
273214 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCTAATATCCCTT
1 GTTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT-CCTT
** *
273279 -GCCGTGAAGTTGAAATTGGCTCTGAAATTTAGAA
65 CGTTGTGAAGTTGAAATTGGCT-TGAAATTGAGAA
* * *
273313 GTTGTTTGTTGACAACTAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
1 -------GTTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
273378 ATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAA
59 ATCCTTCGTTGTGAAGTTGAAATTGGC-TTGAAATTGAGAA
* *** *
273419 GTTGACAGTCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTC
1 GTTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
* ***
273484 GTTGTGAAGCTGAAATTGG---GAAATTGTTTA
66 GTTGTGAAGTTGAAATTGGCTTGAAATTGAGAA
273514 -TTGAC-GACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTT
1 GTTGACAG-CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTT
*
273577 CGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAA
65 CGTTGTGAAGTTGAAATTGGCT-TGAAATTGAGAA
* * *** *
273612 GTTGACAGTCAGCGGTCCCTTCGTCGTGAAGTTGAGCTTGTACTGTCTTGAGTCCAATATCCTTC
1 GTTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
***
273677 GTTGTGAAGTTGAAATTGG---GAAATTGTTTA
66 GTTGTGAAGTTGAAATTGGCTTGAAATTGAGAA
273707 -TTGAC-GACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTT
1 GTTGACAG-CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTT
273770 CGTTGTGAAGTTGAAATTGGCT
65 CGTTGTGAAGTTGAAATTGGCT
273792 CTGGGTAAAA
Statistics
Matches: 416, Mismatches: 44, Indels: 34
0.84 0.09 0.07
Matches are distributed among these distances:
93 2 0.00
94 149 0.36
95 16 0.04
98 8 0.02
99 149 0.36
100 1 0.00
105 4 0.01
106 86 0.21
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (98 bp):
GTTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
GTTGTGAAGTTGAAATTGGCTTGAAATTGAGAA
Found at i:273629 original size:193 final size:193
Alignment explanation
Indices: 273300--273794 Score: 891
Period size: 193 Copynumber: 2.6 Consensus size: 193
273290 GAAATTGGCT
** * * * * *
273300 CTGAAATTTAGAAGTTGTTTGTTGACAACTAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGGGAAATTGTTTATTGACGACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
273365 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAGTTGACAGTCA
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGACAGTCA
273430 GCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTCGTTGTGAAG
131 GCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTCGTTGTGAAG
273493 CTGAAATTGGGAAATTGTTTATTGACGACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGGGAAATTGTTTATTGACGACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
273558 TCTGGAGTCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAAGTTGACAGTCA
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGACAGTCA
*
273623 GCGGTCCCTTCGTCGTGAAGTTGAGCTTGTACTGTCTTGAGTCCAATATCCTTCGTTGTGAAG
131 GCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTCGTTGTGAAG
*
273686 TTGAAATTGGGAAATTGTTTATTGACGACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGGGAAATTGTTTATTGACGACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
273751 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
273795 GGTAAAACCT
Statistics
Matches: 290, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
193 290 1.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (193 bp):
CTGAAATTGGGAAATTGTTTATTGACGACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGACAGTCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTCGTTGTGAAG
Found at i:285048 original size:2 final size:2
Alignment explanation
Indices: 285043--285101 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
285033 TGTAGAACAA
285043 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
285085 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
285102 AACCTAATAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:285232 original size:2 final size:2
Alignment explanation
Indices: 285225--285254 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
285215 GTTAGGTTAG
285225 AT AT AT AT A- 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 AT A
285255 ATAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:285251 original size:21 final size:18
Alignment explanation
Indices: 285225--285284 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
285215 GTTAGGTTAG
285225 ATATATATAATATATATATA
1 ATATATATAATA-ATA-ATA
285245 TATATATATAATAATAATA
1 -ATATATATAATAATAATA
*
285264 ATAATATAAAATAA-AATA
1 AT-ATATATAATAATAATA
285282 ATA
1 ATA
285285 ATAAAGACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 1 0.03
18 8 0.22
19 13 0.35
20 3 0.08
21 12 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATATATAATAATAATA
Found at i:285260 original size:3 final size:3
Alignment explanation
Indices: 285252--285288 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
285242 ATATATATAT
285252 ATA ATA ATA ATA ATA AT- ATA A-A ATA A-A ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
285289 AGACAAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 6 0.19
3 25 0.81
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:286209 original size:16 final size:16
Alignment explanation
Indices: 286188--286220 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
286178 TCTTTTGTCT
*
286188 TTATTATTATTTTATA
1 TTATTATTATTATATA
286204 TTATTATTATTATATA
1 TTATTATTATTATATA
286220 T
1 T
286221 ATATATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTATTATTATATA
Found at i:286376 original size:2 final size:2
Alignment explanation
Indices: 286358--286418 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
286348 TTAGGTTTCT
* *
286358 TA TA TT TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
286400 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
286419 TTGTTCTACA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:297401 original size:14 final size:14
Alignment explanation
Indices: 297382--297411 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
297372 TTATTGGGTG
297382 AAGATTCACACTCC
1 AAGATTCACACTCC
297396 AAGATTCACACTCC
1 AAGATTCACACTCC
297410 AA
1 AA
297412 TAATCATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (14 bp):
AAGATTCACACTCC
Found at i:298734 original size:29 final size:31
Alignment explanation
Indices: 298688--298745 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
298678 TTTTTAACAT
*
298688 TTATTTTTTATTCTGAG-TCTAATTTTTTCA
1 TTATTTTTTATTCAGAGTTCTAATTTTTTCA
*
298718 TTATTTTTTATT-AGAGTTTTAATTTTTT
1 TTATTTTTTATTCAGAGTTCTAATTTTTT
298746 TTCAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (31 bp):
TTATTTTTTATTCAGAGTTCTAATTTTTTCA
Found at i:302035 original size:15 final size:15
Alignment explanation
Indices: 302015--302067 Score: 97
Period size: 15 Copynumber: 3.5 Consensus size: 15
302005 ACATATATTT
*
302015 ACATATATTACTTTC
1 ACATATCTTACTTTC
302030 ACATATCTTACTTTC
1 ACATATCTTACTTTC
302045 ACATATCTTACTTTC
1 ACATATCTTACTTTC
302060 ACATATCT
1 ACATATCT
302068 CTTGTTATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.30, C:0.25, G:0.00, T:0.45
Consensus pattern (15 bp):
ACATATCTTACTTTC
Found at i:303104 original size:25 final size:24
Alignment explanation
Indices: 303076--303124 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
303066 AACTCCTTCT
303076 ATTTCAATAATTCACTCAAAAACTC
1 ATTTCAATAATTCAC-CAAAAACTC
* * *
303101 ATTTTACTAATTCACCAATAACTC
1 ATTTCAATAATTCACCAAAAACTC
303125 CCCATTCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (24 bp):
ATTTCAATAATTCACCAAAAACTC
Found at i:306548 original size:2 final size:2
Alignment explanation
Indices: 306541--306587 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
306531 AAACTTTTAT
306541 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
306583 TA TA T
1 TA TA T
306588 TGTTGATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:321952 original size:20 final size:19
Alignment explanation
Indices: 321929--321975 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
321919 CGATATACCA
321929 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
321949 GGTAACAAAATGATAAAATC
1 GGTAA-AAAATGATAAAACC
321969 GGTAAAA
1 GGTAAAA
321976 CGTTACCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:322093 original size:181 final size:182
Alignment explanation
Indices: 321726--322189 Score: 660
Period size: 181 Copynumber: 2.6 Consensus size: 182
321716 TCAGTTCGTG
* * * * **
321726 TCGATCCAAAACGATATAATAGGTAAAACTATAACAAAACCGGTATTGAAATGATAAAACCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTA
* * ** * * *
321791 AAGCGCTACATGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTCGTGAATTTA
66 AAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTA
* * *
321856 AAAGAGAAGCAGTTTTAAATCCTATAAAATGTCGATACTTTTAAAAAATGTA
131 AAAGAGAAGCAGTTTTAAAGCCTATAAAATGTCGATACTTTAAAAAAATATA
* * *
321908 TCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATAAAATCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTA
* *
321973 AAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTTGTGAATTTA
66 AAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTA
* ** **
322037 AAAGAGAATCAGTTTTAGCGCCTATAATGTGTCGATACTTTAAAAAAATATA
131 AAAGAGAAGCAGTTTTAAAGCCTATAAAATGTCGATACTTTAAAAAAATATA
*
322089 TCGATCCATAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTA
* *
322154 AAATGATACCGGATATATTGAAAGTGACGATACTTT
66 AAACGATACCGGATATATTGAAAGTGTCGATACTTT
322190 CGTAAGTACG
Statistics
Matches: 250, Mismatches: 32, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
181 165 0.66
182 85 0.34
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTA
AAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTA
AAAGAGAAGCAGTTTTAAAGCCTATAAAATGTCGATACTTTAAAAAAATATA
Found at i:322133 original size:20 final size:19
Alignment explanation
Indices: 322110--322156 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
322100 CGATATAACA
322110 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
322130 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
322150 GGTAAAA
1 GGTAAAA
322157 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:322158 original size:17 final size:19
Alignment explanation
Indices: 322119--322161 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
322109 AGGTAAAAAT
322119 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
322139 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
322156 ATGATA
1 ATGATA
322162 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:324405 original size:21 final size:21
Alignment explanation
Indices: 324379--324443 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
324369 AAGACAATCA
*
324379 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
324400 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
324421 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
324442 AG
1 AG
324444 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:324519 original size:33 final size:33
Alignment explanation
Indices: 324477--324542 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
324467 AAATAGATGG
*
324477 AGTGGTGAAAGAAGTAGAGGTGTTCAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
324510 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
324543 TATTAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.02, G:0.45, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:325872 original size:245 final size:242
Alignment explanation
Indices: 325423--325911 Score: 935
Period size: 245 Copynumber: 2.0 Consensus size: 242
325413 TGAAAGGACA
325423 TTATGTAAATTTAATGCATAATTTTTTGGATCATAACTTCTTCTATTTTAATGCAGATTAAAATA
1 TTATGTAAATTTAATGCATAATTTTTTGGATCATAACTTCTTCTATTTTAATGCAGATTAAAATA
325488 TTAGATTTTATAATAAGAAACACATTTGGGTTGAATCCTGTGGATCTCTAGGAAAGTATCCTTGA
66 TTAGATTTTATAATAAGAAACACATTTGGGTTGAATCCTGTGGATCTCTAGGAAAGTATCCTTGA
325553 AAAATTTCAAATTTGTGGAGCATAAGAAGAATAAGCAATTGAATGGGTATGAGATGTTATCACAA
131 AAAATTTCAAATTTGTGGAGCATAAGAAGAATAAGCAATTGAATGGGTATGAGATGTTATCACAA
325618 ATAGAAAGCTTAATTTATGCAGTATT-ATCATAATTGACATGTGTGG
196 ATAGAAAGCTTAATTTATGCAGTATTCATCATAATTGACATGTGTGG
325664 TTATGTAAATTATAATGCATAATTTTTTTGGATCATAACTTCTTCTATTTTAATGCAGATTAAAA
1 TTATGTAAATT-TAATGCATAA-TTTTTTGGATCATAACTTCTTCTATTTTAATGCAGATTAAAA
325729 TATTAGATTTTTATAATAAGAAACACATTTGGGTTGAATCCTGTGGATCTCTAGGAAAGTATCCC
64 TATTAGA-TTTTATAATAAGAAACACATTTGGGTTGAATCCTGTGGATCTCTAGGAAAGTAT-CC
325794 TTGAAAAATTTCAAATTTGTGGAGCATAAGAAGAATAAGCAATTGAATGGGTATGAGATGTTATC
127 TTGAAAAATTTCAAATTTGTGGAGCATAAGAAGAATAAGCAATTGAATGGGTATGAGATGTTATC
325859 ACAAATAGAAAGCTTAATTTATGCAGTATTCATCATAATTGACATGTGTGG
192 ACAAATAGAAAGCTTAATTTATGCAGTATTCATCATAATTGACATGTGTGG
325910 TT
1 TT
325912 TTCAAATTTT
Statistics
Matches: 243, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
241 11 0.05
242 10 0.04
243 49 0.20
244 54 0.22
245 97 0.40
246 22 0.09
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (242 bp):
TTATGTAAATTTAATGCATAATTTTTTGGATCATAACTTCTTCTATTTTAATGCAGATTAAAATA
TTAGATTTTATAATAAGAAACACATTTGGGTTGAATCCTGTGGATCTCTAGGAAAGTATCCTTGA
AAAATTTCAAATTTGTGGAGCATAAGAAGAATAAGCAATTGAATGGGTATGAGATGTTATCACAA
ATAGAAAGCTTAATTTATGCAGTATTCATCATAATTGACATGTGTGG
Found at i:326259 original size:19 final size:19
Alignment explanation
Indices: 326235--326283 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
326225 AATGTAGGGT
326235 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
326254 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
326273 TAATTTTGTAT
1 TAATTTTGTAT
326284 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:326739 original size:200 final size:200
Alignment explanation
Indices: 326396--327757 Score: 2365
Period size: 200 Copynumber: 6.8 Consensus size: 200
326386 AATTTACAAT
326396 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
326461 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAGGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
326526 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCAATATTTTTGATACAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
326591 AATGA
196 AATGA
*
326596 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
326661 TGAAACCTAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
326726 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
326791 AATGA
196 AATGA
* *
326796 ATGACAAACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
326861 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
326926 ATGAGAGAATAGATCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
326991 AATGA
196 AATGA
326996 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
327061 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
327126 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
327191 AATGA
196 AATGA
327196 ATGGCAAACA-GG-GCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
327258 CGAAATCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
327323 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTACAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
327388 AATGA
196 AATGA
* * *
327393 ATGGCAAACATGGTGCAGCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
327458 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * * *
327523 ATGAGATAATAGGTCTAAATAATGTGTCGACGCTTTTTTTAGTTTGTGTCGATATTTTTGGTCCA
131 ATGAGAGAATAGGTCTAAATAATGTATCGACAC-TTTTGTAGTTTGTGTCGATATTTTTGGTCCA
327588 GAATGA
195 GAATGA
* *
327594 ATGGCAAACAGGATGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
327659 CGAAACCCATAAGTATAATGTAATA-GATAATTTTTCAATCTAACTGGTACAAGTATACCAGTTT
66 CGAAACCCAAAAGTATAATGTAATATG-TAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
* * *
327723 TATGAGAGAATTGGTATATAAT-ATGTATCAACACT
130 TATGAGAGAATAGGTCTA-AATAATGTATCGACACT
327758 ATTTAATGTT
Statistics
Matches: 1115, Mismatches: 41, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
197 166 0.15
198 29 0.03
199 27 0.02
200 709 0.64
201 181 0.16
202 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:329277 original size:12 final size:12
Alignment explanation
Indices: 329260--329297 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
329250 GGTCAATGAA
329260 GATGAAGCTGAC
1 GATGAAGCTGAC
329272 GATGAAGCTGAC
1 GATGAAGCTGAC
*
329284 GATGAAGATGAC
1 GATGAAGCTGAC
329296 GA
1 GA
329298 CGATGATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.37, C:0.13, G:0.34, T:0.16
Consensus pattern (12 bp):
GATGAAGCTGAC
Found at i:330873 original size:183 final size:183
Alignment explanation
Indices: 330520--332922 Score: 4414
Period size: 183 Copynumber: 13.1 Consensus size: 183
330510 CAAAGTTTTC
* * * *
330520 ACACTTTTTAATATTGTGTCGGTACGTTATGTCCAGAATGGAAGAAAAATGTGTCGATACATTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
* * *
330585 CAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
* *
330648 TATAATCGGTATAAATATACCGGTTTTATGAGTGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
330704 ACACTTTTTAATATTGTGTCGGTACTTTATGTCAAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
* *
330769 CAAAAAGTGTCGACATTTACACATCGAAACCTAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
330834 AACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCA
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
330887 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
330952 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
331017 AACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
331070 ATACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
331135 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
331200 AACCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
331253 ACACTTTTTAATATTGTGTTGGTACTTTATGTCCAAATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
331318 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
331383 AATCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
331436 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
331501 CAAAAAGTGTCGACATTTACACATCGGAACCCAAAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
331566 AACCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
331619 ACACTTTTTAATATTGTGTCGGTTCTTTATGTCTAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
331684 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
331749 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
331802 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
331867 CAAAAAGTGTCGACATTTACACATCGGAACCCAAAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
331932 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACTTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
331985 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGAAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
332050 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
332115 AACCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
332168 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
332233 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATATATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
332298 AATCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
332351 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
332416 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
332481 AACCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
332534 ACACTTTTTAATATTGTGTCGGTTCTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
332599 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTATAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
332664 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
332717 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
332782 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
332847 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
332900 ACACTTTTTAATATTGTGTCGGT
1 ACACTTTTTAATATTGTGTCGGT
332923 TATTTTAAGT
Statistics
Matches: 2153, Mismatches: 64, Indels: 5
0.97 0.03 0.00
Matches are distributed among these distances:
183 2078 0.97
184 72 0.03
186 3 0.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:335798 original size:23 final size:23
Alignment explanation
Indices: 335768--335835 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
335758 TAAAAATACG
335768 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
*
335791 ATGTAATAGGTAGCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
*
335814 ATGTAATATGTA-CTGCTTATAT
1 ATGTAATAGGTAGC-GCTTATAT
335836 TGTAAAGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 1 0.02
23 40 0.98
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:336235 original size:22 final size:22
Alignment explanation
Indices: 336191--336235 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
336181 ATTACATAAC
*
336191 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
336213 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
336235 T
1 T
336236 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:336284 original size:23 final size:23
Alignment explanation
Indices: 336253--336325 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
336243 ATAGGTAAAA
*
336253 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
336276 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
336299 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
336322 ATAT
1 ATAT
336326 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:336775 original size:23 final size:23
Alignment explanation
Indices: 336744--336816 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
336734 ATAGGTAAAA
* *
336744 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
*
336767 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
336790 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
336813 ATAT
1 ATAT
336817 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:336965 original size:491 final size:490
Alignment explanation
Indices: 335415--337218 Score: 3272
Period size: 491 Copynumber: 3.7 Consensus size: 490
335405 AGGTATGTAC
335415 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
335480 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
* *
335545 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
* *
335610 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
335675 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGA
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGAT-CTTTTTTATAAAAAGTATGAA
*
335740 CACTTTCAATATAATAGGTAAAAATACGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
325 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
* *
335805 GTTTATATAATGTAATATGTACTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
390 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
335870 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
455 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
335906 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
335971 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
336036 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
336101 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
336166 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAAC
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGAAC
336231 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
336296 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
391 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
*
336361 ACTTTTTTCACTGTGAAAAACATTAATTTAAGGTT
456 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
*
336396 ATCTTTTGAGTGAGTTTTAATATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
* * *
336461 GTTATGATATATATTATTATTAAATTAAAAACAATAAATATATATATTGCATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
336526 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAATAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
336591 AATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
336656 AAAATTCAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTTATAAAAAGTATGAA
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATC-TTTTTTATAAAAAGTATGAA
*
336721 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGC
325 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
336786 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
390 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
* *
336851 TACTTATTTCACTATGGAAAACATTAATTTAAGGTT
455 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
* * ** *
336887 ATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATTTATTTTTTAT
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
* *
336952 GTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
337017 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
* *
337082 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATAAAACACTATT--AA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
337145 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAATGTAT-AG
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAA-GTATGA-
337209 ACACTTTCAA
324 ACACTTTCAA
337219 CATATTATAA
Statistics
Matches: 1271, Mismatches: 39, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
488 14 0.01
489 59 0.05
490 477 0.38
491 721 0.57
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (490 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGAAC
ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
Found at i:347651 original size:16 final size:17
Alignment explanation
Indices: 347625--347657 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
347615 TTAATAAGGT
347625 TTAATTTTTTATTTTAA
1 TTAATTTTTTATTTTAA
347642 TTAA-TTTTTATTTTAA
1 TTAATTTTTTATTTTAA
347658 AAAATCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTAATTTTTTATTTTAA
Found at i:349033 original size:39 final size:39
Alignment explanation
Indices: 348990--349079 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
348980 CATAATCCTC
*
348990 AAATTATTTCACTCTAACATTATAAAATCCTAATTTCTT
1 AAATTATTTCACTATAACATTATAAAATCCTAATTTCTT
* ** * * *
349029 AAATT-TTGACACTATAAGGTTCTAAATTCTTAATTTCTT
1 AAATTATT-TCACTATAACATTATAAAATCCTAATTTCTT
349068 AAATTATTTCAC
1 AAATTATTTCAC
349080 ATTAACCATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
38 2 0.05
39 37 0.90
40 2 0.05
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.44
Consensus pattern (39 bp):
AAATTATTTCACTATAACATTATAAAATCCTAATTTCTT
Found at i:349385 original size:25 final size:22
Alignment explanation
Indices: 349315--349389 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 22
349305 TATAATTATA
349315 TATATTAACTTA--AAATATTTT
1 TATATTAACTTATTAAAT-TTTT
349336 TATATTAACTTATTAAATTTATTT
1 TATATTAACTTATTAAA-TT-TTT
349360 TACTATTAACTATATTTAAATTTTT
1 TA-TATTAACT-TA-TTAAATTTTT
349385 T-TATT
1 TATATT
349390 TTCATTTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
21 12 0.26
23 8 0.17
24 6 0.13
25 12 0.26
26 4 0.09
27 5 0.11
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.57
Consensus pattern (22 bp):
TATATTAACTTATTAAATTTTT
Found at i:350347 original size:2 final size:2
Alignment explanation
Indices: 350340--350374 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
350330 TTTATTTTAT
350340 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
350375 TAATTTACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:350519 original size:38 final size:39
Alignment explanation
Indices: 350477--350617 Score: 157
Period size: 38 Copynumber: 3.7 Consensus size: 39
350467 ATTGGTTTTT
* * **
350477 AAAATCTATATATTATATAG-TTTTGAAAGTGATTTTGA
1 AAAATATATATAATATATAGTTTTTGAAAGACATTTTGA
*
350515 AAAATATATATAATATATAATTTTT--AAGACATTTTGA
1 AAAATATATATAATATATAGTTTTTGAAAGACATTTTGA
* * * * *
350552 AAACT-TCTAAAATATGTAGTTTTTAAAAGACATTTTG-
1 AAAATATATATAATATATAGTTTTTGAAAGACATTTTGA
350589 AAAATATATATAATATATAGTTTTTGAAA
1 AAAATATATATAATATATAGTTTTTGAAA
350618 ATATATATAA
Statistics
Matches: 84, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
36 15 0.18
37 18 0.21
38 47 0.56
39 4 0.05
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (39 bp):
AAAATATATATAATATATAGTTTTTGAAAGACATTTTGA
Found at i:350616 original size:26 final size:26
Alignment explanation
Indices: 350584--350644 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
350574 TTAAAAGACA
350584 TTTTGAAAATATATATAATATATAGT
1 TTTTGAAAATATATATAATATATAGT
*
350610 TTTTGAAAATATATATAATATGTAGT
1 TTTTGAAAATATATATAATATATAGT
*
350636 TTTTTAAAA
1 TTTTGAAAA
350645 CATTTCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (26 bp):
TTTTGAAAATATATATAATATATAGT
Found at i:350642 original size:101 final size:100
Alignment explanation
Indices: 350509--350719 Score: 241
Period size: 101 Copynumber: 2.1 Consensus size: 100
350499 TTGAAAGTGA
* * * *
350509 TTTTGAAAAATATATATAATATATAATTTTTAAGACATTTTGAAA-ACT-TCTA-A-AATATGTA
1 TTTTG-AAAATATATATAATATATAATTTTTAAAACA-TTTCAAATA-TATATATATAATATATA
* *
350570 GTTTTTAAAAGACATTTTGAAAATATATATAATATATAGT
63 G--TTTAAAAAACATTTTGAAAACATATATAATATATAGT
* * *
350610 TTTTGAAAATATATATAATATGTAGTTTTTTAAAACATTTCAAATATATATATATATTATATAGT
1 TTTTGAAAATATATATAATATATA-ATTTTTAAAACATTTCAAATATATATATATAATATATAGT
*
350675 TTAAAAAACATTTTGAAAACATATATATTATATAGT
65 TTAAAAAACATTTTGAAAACATATATAATATATAGT
*
350711 TTTTAAAAA
1 TTTTGAAAA
350720 CATTTTGAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
100 25 0.27
101 61 0.65
102 1 0.01
103 7 0.07
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.44
Consensus pattern (100 bp):
TTTTGAAAATATATATAATATATAATTTTTAAAACATTTCAAATATATATATATAATATATAGTT
TAAAAAACATTTTGAAAACATATATAATATATAGT
Found at i:350661 original size:65 final size:65
Alignment explanation
Indices: 350562--350789 Score: 196
Period size: 75 Copynumber: 3.4 Consensus size: 65
350552 AAACTTCTAA
*
350562 AATATGTAGTTTTTAAAAGACATTTTGAA-A-ATATATATAATATATAGTTTTTGAAAATATATA
1 AATATATAGTTTTTAAAA-ACATTTTGAATATATATATATAATATATAGTTTTTGAAAATATATA
350625 T
65 T
* * ** *
350626 AATATGTAGTTTTTTAAAACATTTCAAATATATATATATATTATATAGTTTAAAAAACATTTTGA
1 AATATATAGTTTTTAAAAACATTTTGAATATATATATATAATATATAG--T--------TTTTGA
*
350691 AAACATATAT
56 AAATATATAT
* * * *
350701 ATTATATAGTTTTTAAAAACATTTTGAATATAATATATATATATATATA-TATAT-ATAATATAT
1 AATATATAGTTTTTAAAAACATTTTGAATAT-ATATATATA-ATATATAGTTTTTGAAAATATAT
350764 AT
64 AT
*
350766 -ATATATAGTTTTTTAAAACATTTT
1 AATATATAGTTTTTAAAAACATTTT
350790 AGAAATTATA
Statistics
Matches: 133, Mismatches: 17, Indels: 28
0.75 0.10 0.16
Matches are distributed among these distances:
63 8 0.06
64 40 0.30
65 25 0.19
66 2 0.02
67 1 0.01
74 1 0.01
75 41 0.31
76 9 0.07
77 6 0.05
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (65 bp):
AATATATAGTTTTTAAAAACATTTTGAATATATATATATAATATATAGTTTTTGAAAATATATAT
Found at i:350686 original size:139 final size:139
Alignment explanation
Indices: 350518--350788 Score: 352
Period size: 139 Copynumber: 1.9 Consensus size: 139
350508 ATTTTGAAAA
** * * * *
350518 ATATATATAATATATAATTTTTAAGACATTTTGAAAACTTCTAAAATATGTAGTTTTTAAAAGAC
1 ATATATATAATATATAATTTAAAAAACATTTTGAAAACATATAAAATATATAGTTTTTAAAA-AC
* * *
350583 ATTTTG-A-A-AATATATATA-ATATATAGTTTTTGAAAATATATATAATATGTAGTTTTTTAAA
65 ATTTTGAATATAATATATATATATATATA-TATAT-AAAATATATAT-ATATATAGTTTTTTAAA
350644 ACATTTCAAATAT
127 ACATTTCAAATAT
* * * *
350657 ATATATATATTATATAGTTTAAAAAACATTTTGAAAACATATATATTATATAGTTTTTAAAAACA
1 ATATATATAATATATAATTTAAAAAACATTTTGAAAACATATAAAATATATAGTTTTTAAAAACA
*
350722 TTTTGAATATAATATATATATATATATATATATATAATATATATATATATAGTTTTTTAAAACAT
66 TTTTGAATATAATATATATATATATATATATATAAAATATATATATATATAGTTTTTTAAAACAT
350787 TT
131 TT
350789 TAGAAATTAT
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
138 8 0.07
139 75 0.66
140 11 0.10
141 13 0.11
142 7 0.06
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (139 bp):
ATATATATAATATATAATTTAAAAAACATTTTGAAAACATATAAAATATATAGTTTTTAAAAACA
TTTTGAATATAATATATATATATATATATATATAAAATATATATATATATAGTTTTTTAAAACAT
TTCAAATAT
Found at i:350699 original size:36 final size:38
Alignment explanation
Indices: 350610--350747 Score: 149
Period size: 37 Copynumber: 3.7 Consensus size: 38
350600 AATATATAGT
* * * **
350610 TTTTGAAAAT-ATATATAATATGTAGTTTTTTAAAACA
1 TTTTGAATATAATATATATTATATAGTTTTAAAAAACA
**
350647 TTTCAAATATATATATATATTATATAG-TTTAAAAAACA
1 TTTTGAATATA-ATATATATTATATAGTTTTAAAAAACA
*
350685 TTTTGAA-A-ACATATATATTATATAGTTTTTAAAAACA
1 TTTTGAATATA-ATATATATTATATAGTTTTAAAAAACA
350722 TTTTGAATATAATATATATATATATA
1 TTTTGAATATAATATATAT-TATATA
350748 TATATATATA
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
36 16 0.19
37 25 0.30
38 23 0.27
39 20 0.24
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
TTTTGAATATAATATATATTATATAGTTTTAAAAAACA
Found at i:350740 original size:2 final size:2
Alignment explanation
Indices: 350728--350772 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
350718 AACATTTTGA
350728 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
350768 AT AT A
1 AT AT A
350773 GTTTTTTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:351174 original size:21 final size:21
Alignment explanation
Indices: 351150--351189 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
351140 TATCCCATAA
*
351150 AACATCCAAATCG-GAGCAAGT
1 AACAT-CAAAACGAGAGCAAGT
351171 AACATCAAAACGAGAGCAA
1 AACATCAAAACGAGAGCAA
351190 ATAGCCCCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.50, C:0.23, G:0.17, T:0.10
Consensus pattern (21 bp):
AACATCAAAACGAGAGCAAGT
Found at i:352057 original size:18 final size:16
Alignment explanation
Indices: 352025--352066 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
352015 TTTTCCTTTG
*
352025 ATTTATTTATTATTTT
1 ATTTTTTTATTATTTT
352041 ATTATTTTTATTTATTTT
1 ATT-TTTTTA-TTATTTT
352059 ATTTTTTT
1 ATTTTTTT
352067 CTTTGACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 10 0.43
18 10 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTTTTATTATTTT
Found at i:352071 original size:47 final size:51
Alignment explanation
Indices: 352010--352149 Score: 153
Period size: 47 Copynumber: 2.7 Consensus size: 51
352000 TTGTAAGTAT
352010 TCATTTTTTCCTTTGATTTATTT-ATTATTTTATTATTTTTA-TTTATTT-
1 TCATTTTTTCCTTTGATTTATTTCATTATTTTATTATTTTTATTTTATTTA
* * *
352058 T-ATTTTTTTCTTTGACTTATTTTCCTTTAGTTATTATTTATTTTTATTTTTATTTA
1 TCATTTTTTCCTTTGATTTA-TTT-CATTA-TT-TTA-TTATTTTTA-TTTTATTTA
*
352114 TCATTTTTTCCTTTGATTTATTTAATATATTTTATT
1 TCATTTTTTCCTTTGATTTATTTCAT-TATTTTATT
352150 TTATTTTTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
47 16 0.22
48 4 0.05
50 3 0.04
51 2 0.03
52 3 0.04
53 11 0.15
54 3 0.04
55 10 0.14
56 6 0.08
57 16 0.22
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (51 bp):
TCATTTTTTCCTTTGATTTATTTCATTATTTTATTATTTTTATTTTATTTA
Found at i:352077 original size:26 final size:23
Alignment explanation
Indices: 352007--352079 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 23
351997 AAATTGTAAG
*
352007 TATTCATTTTTTCCTTTGATTTATT
1 TATT-ATTTTTTTCTTTGA-TTATT
* *
352032 TATTATTTTATTATTT--TTATT
1 TATTATTTTTTTCTTTGATTATT
352053 TATTTTATTTTTTTCTTTGACTTATT
1 TA--TTATTTTTTTCTTTGA-TTATT
352079 T
1 T
352080 TCCTTTAGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
21 7 0.18
23 12 0.32
24 9 0.24
25 4 0.11
26 6 0.16
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.73
Consensus pattern (23 bp):
TATTATTTTTTTCTTTGATTATT
Found at i:352096 original size:57 final size:57
Alignment explanation
Indices: 352015--352136 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 57
352005 AGTATTCATT
* * *
352015 TTTTCCTTTGATTTATT-TATTATTTTATTATTTTTATTTATTTTATTTTTTTCTTTGACTTA
1 TTTTCCTTT-AGTTATTAT-TTA-TTT-TTATTTTTATTTA--TCATTTTTTCCTTTGACTTA
*
352077 TTTTCCTTTAGTTATTATTTATTTTTATTTTTATTTATCATTTTTTCCTTTGATTTA
1 TTTTCCTTTAGTTATTATTTATTTTTATTTTTATTTATCATTTTTTCCTTTGACTTA
352134 TTT
1 TTT
352137 AATATATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
57 20 0.36
59 13 0.24
60 3 0.05
61 9 0.16
62 10 0.18
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (57 bp):
TTTTCCTTTAGTTATTATTTATTTTTATTTTTATTTATCATTTTTTCCTTTGACTTA
Found at i:352133 original size:36 final size:36
Alignment explanation
Indices: 352093--352167 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
352083 TTTAGTTATT
*
352093 ATTTATTT-TTAT-TTTTATTTATCATTTTTTCCTTTG
1 ATTTATTTAATATATTTTATTT-T-ATTTTTTCCTTTG
*
352129 ATTTATTTAATATATTTTATTTTATTTTTTTCTTTG
1 ATTTATTTAATATATTTTATTTTATTTTTTCCTTTG
352165 ATT
1 ATT
352168 CTTTATTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 23 0.66
37 4 0.11
38 8 0.23
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (36 bp):
ATTTATTTAATATATTTTATTTTATTTTTTCCTTTG
Found at i:352135 original size:43 final size:43
Alignment explanation
Indices: 352042--352151 Score: 111
Period size: 44 Copynumber: 2.5 Consensus size: 43
352032 TATTATTTTA
* *
352042 TTATTT-TTATTTATTTTATTTTTTTCTTTGACTTATTTTCCT
1 TTATTTATTATTTATTTTATTTTTTTCTATCACTTATTTTCCT
*
352084 TTAGTTATTATTTATTTTTATTTTTATT-TATCA-TT-TTTTCCT
1 TTATTTATTATTTA-TTTTATTTTT-TTCTATCACTTATTTTCCT
*
352126 TTGATTTATTTAATATATTTTATTTT
1 TT-ATTTA-TT-ATTTATTTTATTTT
352152 ATTTTTTTCT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
42 14 0.25
43 13 0.23
44 24 0.42
45 6 0.11
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (43 bp):
TTATTTATTATTTATTTTATTTTTTTCTATCACTTATTTTCCT
Found at i:352172 original size:25 final size:24
Alignment explanation
Indices: 352143--352206 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 24
352133 ATTTAATATA
*
352143 TTTTATTTTATTTTTTTCTTTGAT
1 TTTTATTTTATTTTTTCCTTTGAT
*
352167 TCTTTATTTTCTTTTTTCCTTTGAT
1 T-TTTATTTTATTTTTTCCTTTGAT
352192 TTATTATTATTATTT
1 TT-TTATT-TTATTT
352207 ATGATTTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.06
25 27 0.79
26 5 0.15
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (24 bp):
TTTTATTTTATTTTTTCCTTTGAT
Found at i:352196 original size:104 final size:104
Alignment explanation
Indices: 352009--352263 Score: 263
Period size: 106 Copynumber: 2.4 Consensus size: 104
351999 ATTGTAAGTA
* * *
352009 TTCATTTTTTCCTTTGATTTATTT-ATTATTTTATTATT-TTTATTTATTTTATTTTTTTCTTTG
1 TTCATTTTTTCCTTTGATTTATTTAATTATTTTATT-TTATTTTTTTATTTGATTTTTATCTTT-
352072 ACTTATTTTCCTTTAGTTATTATTTATT-TTTAT-TTTTATT
64 ACTTATTTTCCTTTAGTTATTA-TTATTATTTATATTTTATT
*
352112 TATCATTTTTTCCTTTGATTTATTTAATATATTTTATTTTATTTTTTTCTTTGATTCTTTAT-TT
1 T-TCATTTTTTCCTTTGATTTATTTAAT-TATTTTATTTTATTTTTTTATTTGATT-TTTATCTT
* *
352176 T-CTT-TTTTCCTTTGATTTATTATTATTATTTATGATTTTCTT
63 TACTTATTTTCCTTT-AGTTATTATTATTATTTAT-ATTTTATT
* * * * *
352218 TTTATGTTTTTTCTTTTATTTATTTAATGTTTATTTATTATATTTT
1 TTCAT-TTTTTCCTTTGATTTATTTAAT-TAT-TTTATTTTATTTT
352264 ATCTAATATT
Statistics
Matches: 129, Mismatches: 12, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
103 15 0.12
104 38 0.29
105 7 0.05
106 53 0.41
107 16 0.12
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.72
Consensus pattern (104 bp):
TTCATTTTTTCCTTTGATTTATTTAATTATTTTATTTTATTTTTTTATTTGATTTTTATCTTTAC
TTATTTTCCTTTAGTTATTATTATTATTTATATTTTATT
Found at i:353001 original size:24 final size:23
Alignment explanation
Indices: 352969--353014 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
352959 AATGAATATC
352969 TAAAATTTAATATATATTTTAATG
1 TAAAATTTAATAT-TATTTTAATG
* * *
352993 TAAATTTTATTATTTTTTTAAT
1 TAAAATTTAATATTATTTTAAT
353015 ATCTTAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TAAAATTTAATATTATTTTAATG
Found at i:353239 original size:35 final size:35
Alignment explanation
Indices: 353193--353260 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
353183 CCCTTCATAT
353193 CTCCTCGTATATATAGCAATAGATTTGAAAATAAC
1 CTCCTCGTATATATAGCAATAGATTTGAAAATAAC
*
353228 CTCCTCGTATATGTAGCAATAGATTTGAAAATA
1 CTCCTCGTATATATAGCAATAGATTTGAAAATA
353261 TTTTTTGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.32
Consensus pattern (35 bp):
CTCCTCGTATATATAGCAATAGATTTGAAAATAAC
Found at i:353920 original size:21 final size:20
Alignment explanation
Indices: 353853--353991 Score: 91
Period size: 21 Copynumber: 6.8 Consensus size: 20
353843 AAATGACCAA
* *
353853 CAAAATCGCAACGCGATCTC
1 CAAAATCGCAACGCGATTTT
* ** *
353873 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
353893 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
353914 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
353935 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
353955 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
353976 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
353992 ACACATAAAT
Statistics
Matches: 91, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
19 1 0.01
20 43 0.47
21 47 0.52
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:354020 original size:20 final size:20
Alignment explanation
Indices: 353958--354187 Score: 223
Period size: 20 Copynumber: 11.5 Consensus size: 20
353948 CGATTTTCCA
* ** *
353958 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
353978 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
353998 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
354018 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
354038 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
354058 AAATCGCAATGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
354078 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
354098 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
354118 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
354138 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
354158 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
354178 AAATCACAAC
1 AAATCGCAAC
354188 ACTGAAATTT
Statistics
Matches: 174, Mismatches: 30, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 170 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:354914 original size:24 final size:24
Alignment explanation
Indices: 354870--354916 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
354860 AAATTTGGTC
*
354870 TTGGTCAATATCTGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
354894 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
354917 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:355108 original size:12 final size:12
Alignment explanation
Indices: 355091--355115 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
355081 ATATAATCCT
355091 GAAGAAGAAAAA
1 GAAGAAGAAAAA
355103 GAAGAAGAAAAA
1 GAAGAAGAAAAA
355115 G
1 G
355116 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:357450 original size:33 final size:33
Alignment explanation
Indices: 357399--357632 Score: 264
Period size: 33 Copynumber: 6.9 Consensus size: 33
357389 CGGAAATTAC
*
357399 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
357432 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAAAATCGCAATGC-GAAATGAA
*
357466 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
357499 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
357532 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
*
357570 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
357603 AATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAACGAGAAAATCGCAATGCGAAAT
357633 TATAAACGCA
Statistics
Matches: 180, Mismatches: 8, Indels: 26
0.84 0.04 0.12
Matches are distributed among these distances:
32 1 0.01
33 117 0.65
34 31 0.17
35 5 0.03
36 4 0.02
37 2 0.01
38 20 0.11
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:357504 original size:19 final size:19
Alignment explanation
Indices: 357413--357610 Score: 211
Period size: 19 Copynumber: 11.4 Consensus size: 19
357403 GCAACGAGAG
357413 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
357432 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
357446 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
357466 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
357480 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
357499 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
357518 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
357532 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
357551 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
357570 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
357584 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
357603 AATCGCAA
1 AATCGCAA
357611 CGAGAGAATC
Statistics
Matches: 150, Mismatches: 8, Indels: 42
0.75 0.04 0.21
Matches are distributed among these distances:
14 42 0.28
15 3 0.02
16 7 0.05
17 6 0.04
18 4 0.03
19 75 0.50
20 13 0.09
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:357526 original size:52 final size:52
Alignment explanation
Indices: 357441--357610 Score: 331
Period size: 52 Copynumber: 3.2 Consensus size: 52
357431 AAATCCCAAC
357441 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
357494 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
357546 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
357598 ATGAAAATCGCAA
1 ATGAAAATCGCAA
357611 CGAGAGAATC
Statistics
Matches: 117, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 101 0.86
53 16 0.14
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:357589 original size:14 final size:14
Alignment explanation
Indices: 357570--357624 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
357560 GCGAAATGAA
357570 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
357584 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
357603 AATCGCAACGAGAG
1 AATCGCAACGAGAG
357617 AATCGCAA
1 AATCGCAA
357625 TGCGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:357743 original size:19 final size:19
Alignment explanation
Indices: 357657--357735 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
357647 GATTCTCTCG
357657 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
357677 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
357696 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
357710 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
357729 TTGCGAT
1 TTGCGAT
357736 AGTCATTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.12
16 7 0.13
17 7 0.13
19 17 0.33
20 15 0.29
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:357861 original size:14 final size:14
Alignment explanation
Indices: 357842--357878 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
357832 CATCAATTAC
357842 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
357856 ACAAATCATCTTTT
1 ACAAATCAACTTTT
357870 ACAAATCAA
1 ACAAATCAA
357879 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:359876 original size:14 final size:14
Alignment explanation
Indices: 359857--359913 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
359847 GCGAAATGAA
*
359857 AATCGCAACGACAG
1 AATCGCAACGAAAG
359871 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
359888 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
359904 AATCGCAACG
1 AATCGCAACG
359914 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:359884 original size:33 final size:33
Alignment explanation
Indices: 359838--359930 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
359828 GCGAAACCAA
*
359838 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
359871 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
359904 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
359931 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:359895 original size:19 final size:19
Alignment explanation
Indices: 359801--359935 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
359791 TAGTTTACTT
* *
359801 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
359821 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
359840 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
359859 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
359873 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
359892 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
359906 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
359925 TCGCAATGCGA
1 TCGCAACGCGA
359936 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:359953 original size:19 final size:19
Alignment explanation
Indices: 359931--360059 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
359921 AAAATCGCAA
359931 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
359950 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
359964 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
359983 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
359997 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
360016 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
360035 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
360055 TGCGA
1 TGCGA
360060 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:359973 original size:33 final size:33
Alignment explanation
Indices: 359931--360022 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
359921 AAAATCGCAA
359931 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
359964 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
359997 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
360023 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:360223 original size:93 final size:93
Alignment explanation
Indices: 360107--360482 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
360097 ATGGATTGCA
*
360107 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATATACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
360171 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
360199 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
360264 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
360292 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
360357 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
360385 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACGCAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
360450 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
360478 TTACT
1 TTACT
360483 AAGCAATCTA
Statistics
Matches: 280, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 276 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:362202 original size:14 final size:14
Alignment explanation
Indices: 362183--362272 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
362173 TTGAAATGAA
362183 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
362197 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
362216 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
362230 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
362249 AATCGCAACGAGAG
1 AATCGCAACGAGAG
362263 AATCGCAACG
1 AATCGCAACG
362273 CGAAATTAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:362215 original size:33 final size:33
Alignment explanation
Indices: 362175--362289 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
362165 TCTTTTGGTT
362175 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
362208 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
362241 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
362274 GAAATTAAAATCGCAA
1 GAAATGAAAATCGCAA
362290 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:362221 original size:19 final size:19
Alignment explanation
Indices: 362197--362294 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
362187 GCAACGAGAG
362197 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
362216 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
362230 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
362249 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
362263 AATCGCAACGCGAAATTAA
1 AATCGCAACGCGAAATGAA
*
362282 AATCGCAATGCGA
1 AATCGCAACGCGA
362295 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:362325 original size:14 final size:14
Alignment explanation
Indices: 362306--362362 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
362296 TTTGGTTTCG
362306 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
362320 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
362339 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
362353 CGTTGCGATT
1 CGTTGCGATT
362363 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:362338 original size:33 final size:33
Alignment explanation
Indices: 362290--362370 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
362280 AAAATCGCAA
**
362290 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
362323 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
362356 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
362371 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:362373 original size:21 final size:21
Alignment explanation
Indices: 362347--362422 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
362337 CGCGTTGCGA
362347 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
362368 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
362388 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
362409 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
362423 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:362403 original size:41 final size:41
Alignment explanation
Indices: 362346--362423 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
362336 TCGCGTTGCG
*
362346 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
362387 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
362424 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:362544 original size:33 final size:33
Alignment explanation
Indices: 362502--362572 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
362492 AATACTAACT
*
362502 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
362535 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
362568 TGAAA
1 TGAAA
362573 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:362806 original size:22 final size:22
Alignment explanation
Indices: 362754--362808 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
362744 TGGTTGTGAG
**
362754 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
362776 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
362798 GGATTTCTTCG
1 GGATTTCTTCG
362809 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:362980 original size:20 final size:20
Alignment explanation
Indices: 362955--363148 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
362945 CTTTAAATAT
362955 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
362975 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
362997 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
363016 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
363036 CGCATTGCGATTTACTCATA
1 CGCGTTGCGATTTACGGATA
363056 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
363076 CACGTTGCGATTTACGGAAA
1 CGCGTTGCGATTTACGGATA
* *
363096 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
363116 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
363136 CGCGTTGCGATTT
1 CGCGTTGCGATTT
363149 TGGAAAATCG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:363142 original size:60 final size:60
Alignment explanation
Indices: 362954--363270 Score: 234
Period size: 60 Copynumber: 5.2 Consensus size: 60
362944 GCTTTAAATA
* * ** * *
362954 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGAAACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTTCAGAT
* * * * * * *
363015 ACGCGTTGCGATATACGGATACGCATTGCGATTTACT-CATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGAAACGCATTGCGATTTA-TGTATTCGCGTTGCGATTTTCAGAT
* * * * *
363075 ACACGTTGCGATTTACGGAAACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGAAACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * * *
363135 TCGCGTTGCGATTT-TGGAAAATCGCAATGCGAATT-TGTACTATCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTACGG-AAA-CGCATTGCGATTTATGTA-T-TCGCGTTGCGATTTTC-AGAT
* ** * * *
363198 TCGCGTTGCGATTT-TGGAAACTG-ATTTGCGATTCTGGGGA-TCGCGTTGCGATTTTTA-TT
1 TCGCGTTGCGATTTACGGAAAC-GCA-TTGCGATT-TATGTATTCGCGTTGCGATTTTCAGAT
363257 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
363271 TGTTGGTCAT
Statistics
Matches: 210, Mismatches: 35, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
59 17 0.08
60 90 0.43
61 56 0.27
62 25 0.12
63 20 0.10
64 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGAAACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
Found at i:363165 original size:21 final size:21
Alignment explanation
Indices: 363135--363217 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
363125 ATTTTCATAT
*
363135 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
363156 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
363177 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
363198 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
363218 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Done.