Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003409.1 Hibiscus syriacus cultivar Beakdansim tig00007181_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: 462136
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:254184 original size:20 final size:20
Alignment explanation
Indices: 254159--254210 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
254149 GCTCTTTCAT
254159 AGAGTTTTGAAAATTTCCCC
1 AGAGTTTTGAAAATTTCCCC
*
254179 AGAGTTTTGAAAGTTTCCCC
1 AGAGTTTTGAAAATTTCCCC
254199 AGAGTTTT-AAAA
1 AGAGTTTTGAAAA
254211 GTTTGTGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
AGAGTTTTGAAAATTTCCCC
Found at i:258908 original size:3 final size:3
Alignment explanation
Indices: 258900--258948 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
258890 TTCAGTTTGC
* *
258900 TAT TAT TAT TAT TAT ACAT TAT TAT TAT ACAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
258947 TA
1 TA
258949 AATAAATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
3 36 0.90
4 4 0.10
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:258922 original size:13 final size:13
Alignment explanation
Indices: 258904--258940 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
258894 GTTTGCTATT
258904 ATTATTATTATAC
1 ATTATTATTATAC
258917 ATTATTATTATAC
1 ATTATTATTATAC
258930 ATTATTATTAT
1 ATTATTATTAT
258941 TATTATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTATTATTATAC
Found at i:258922 original size:16 final size:16
Alignment explanation
Indices: 258901--258943 Score: 65
Period size: 13 Copynumber: 2.9 Consensus size: 16
258891 TCAGTTTGCT
258901 ATTATTATTATTATAC
1 ATTATTATTATTATAC
258917 ---ATTATTATTATAC
1 ATTATTATTATTATAC
258930 ATTATTATTATTAT
1 ATTATTATTATTAT
258944 TATTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 13 0.54
16 11 0.46
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTATTATTATTATAC
Found at i:260249 original size:28 final size:28
Alignment explanation
Indices: 260195--260312 Score: 84
Period size: 28 Copynumber: 4.2 Consensus size: 28
260185 CGAATTAGAG
* *
260195 CACTAAGTTTAAATATTTTACATTTTAAT
1 CACTAAGTTTTAATATTTTA-TTTTTAAT
260224 CACTAA-TTTTAATAGTTTTATTTTTAA-
1 CACTAAGTTTTAATA-TTTTATTTTTAAT
* *
260251 CTAC-AAGTTTTATTACTTTTATATTTAAT
1 C-ACTAAGTTTTAATA-TTTTATTTTTAAT
* * *
260280 C-CTATTGTTTTAATTTTATTA-TTTTAGT
1 CACTA-AGTTTTAATATT-TTATTTTTAAT
260308 CACTA
1 CACTA
260313 TTTAATTGCA
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
27 4 0.06
28 42 0.59
29 25 0.35
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.54
Consensus pattern (28 bp):
CACTAAGTTTTAATATTTTATTTTTAAT
Found at i:260692 original size:128 final size:126
Alignment explanation
Indices: 260542--260799 Score: 444
Period size: 128 Copynumber: 2.0 Consensus size: 126
260532 AATATATATT
* *
260542 TTTAAAAGGGTTGTCTTAAAGCATCTAGAAGTCATTTTCTGATATTCTTAAATAAATAAATATCC
1 TTTAAAAGGGTTGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCC
* *
260607 TATTTTTATAAATTATATATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATA
66 TATTTTTATAAATTATACATTAATTTATTTTAATTATTTTTAGAGAAATATTTTATTAATA
*
260668 TTTAGAAATGGGTTGTCTTAAAGCACCTATAAGTCATTTTCTAATATTCTTAAATAAATAAATAT
1 TTTA-AAA-GGGTTGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATAT
*
260733 CCTATTTTTATAAATTATACATTAATTTATTTTTATTATTTTTAGAGAAATATTTTATTAATA
64 CCTATTTTTATAAATTATACATTAATTTATTTTAATTATTTTTAGAGAAATATTTTATTAATA
260796 TTTA
1 TTTA
260800 TTTATTTTTT
Statistics
Matches: 124, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
126 4 0.03
127 3 0.02
128 117 0.94
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (126 bp):
TTTAAAAGGGTTGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCC
TATTTTTATAAATTATACATTAATTTATTTTAATTATTTTTAGAGAAATATTTTATTAATA
Found at i:272469 original size:52 final size:54
Alignment explanation
Indices: 272412--272623 Score: 216
Period size: 54 Copynumber: 4.0 Consensus size: 54
272402 TTGACCAGAA
* ** *
272412 ATATGTGCATAAGCCAC-AG-CTGGATGAATGTATTGTCAAATGATTTACAAAC
1 ATATGTGCAGAAGCCACAAGAAAGGATGAATGTATTGTCAAATGTTTTACAAAC
* **
272464 ATATGTGTAGAAGCCAC-AG-TTGGATGAATGTATTGTCAAATGTTTTACAAAC
1 ATATGTGCAGAAGCCACAAGAAAGGATGAATGTATTGTCAAATGTTTTACAAAC
* * * * * * * *
272516 ATCTATTCATAAACCACAAGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
1 ATATGTGCAGAAGCCACAAGAAAGGATGAATGTATTGTCAAATGTTTTACAAAC
* * ** *
272570 ATCTGGGCAGAAGCCACGGGAAAGGATGAATGTATTGTCAAATGTTCTACAAAC
1 ATATGTGCAGAAGCCACAAGAAAGGATGAATGTATTGTCAAATGTTTTACAAAC
272624 CAGTGATTAT
Statistics
Matches: 132, Mismatches: 26, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
52 59 0.45
53 2 0.02
54 71 0.54
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (54 bp):
ATATGTGCAGAAGCCACAAGAAAGGATGAATGTATTGTCAAATGTTTTACAAAC
Found at i:273015 original size:22 final size:22
Alignment explanation
Indices: 272987--273087 Score: 175
Period size: 22 Copynumber: 4.6 Consensus size: 22
272977 ACATTTACAT
*
272987 TCTTCAAAGATGATAGATTCTA
1 TCTTCAAAGATGATAGATTCTC
273009 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
273031 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
273053 TCTTCAAAGATGATAGATTCTT
1 TCTTCAAAGATGATAGATTCTC
*
273075 TTTTCAAAGATGA
1 TCTTCAAAGATGA
273088 AAGCTTTATT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 76 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:273860 original size:45 final size:45
Alignment explanation
Indices: 273761--273970 Score: 278
Period size: 45 Copynumber: 4.7 Consensus size: 45
273751 TCCCATATCC
* *
273761 GTAAGCCCTTCAGTGAATGATGTTTTCAAAGCC-TCGGGTCATCT
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
* *
273805 GTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTTGGGTCATCT
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
* *
273850 GTAAGCCCTTCAATGTATGATGTTTTCAAAACCTTCGGGTCATCT
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
* * * * *
273895 GTAAGACCTACAATGCATGATGTTTTCAAAACCTTCGCGTCATCC
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
* * * *
273940 ATAAGACCTACAGTGCAGGATGTTTTCAAAA
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAA
273971 AATGCCTTCG
Statistics
Matches: 151, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
44 32 0.21
45 119 0.79
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (45 bp):
GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
Found at i:274043 original size:45 final size:45
Alignment explanation
Indices: 273990--274138 Score: 208
Period size: 45 Copynumber: 3.3 Consensus size: 45
273980 GGGATCTTTT
* *
273990 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* ***
274035 TGATGTTTTCAAATCCTTTATGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
274080 TGATGTTTTCAAAACCTTCGGGTCATCCGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
274125 TGATCTTTTCAAAA
1 TGATGTTTTCAAAA
274139 AAAGCCTTCG
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:274086 original size:123 final size:123
Alignment explanation
Indices: 273867--274093 Score: 346
Period size: 123 Copynumber: 1.8 Consensus size: 123
273857 CTTCAATGTA
*
273867 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCA
273932 CGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAATGCCTTCGGGATCTTTT
66 CGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAATGCCTTCGGGATCTTTT
* * * * *
273990 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAATCCTTTA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCA
* ** * * *
274055 TGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
66 CGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAA
274094 CCTTCGGGTC
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
123 92 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (123 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCA
CGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAATGCCTTCGGGATCTTTT
Found at i:274107 original size:168 final size:168
Alignment explanation
Indices: 273822--274305 Score: 770
Period size: 168 Copynumber: 2.9 Consensus size: 168
273812 CTTCAGTGCA
* *
273822 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAATGTATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCG
* * * * *
273887 GGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCGCGTCATCCATAAGACCTACA
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATCCGTAAGACCTACA
* * *
273952 GTGCAGGATGTTTTCAAAAAATGCCTTCGGGATCTTTT
131 GTGCATGATGTTTTCAAAAAAAGCCTTCGGGAGCTTTT
* **
273990 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAATCCTTTA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCG
* *
274055 TGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCGTAAGACCTACA
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATCCGTAAGACCTACA
*
274120 GTGCATGATCTTTTCAAAAAAAGCCTTCGGGAGCTTTT
131 GTGCATGATGTTTTCAAAAAAAGCCTTCGGGAGCTTTT
* *
274158 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCG
** * *
274223 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATTTGTAAGCCCTATA
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATCCGTAAGACCTACA
274288 GTGCATGATGTTTTCAAA
131 GTGCATGATGTTTTCAAA
274306 GCCTTCGGGT
Statistics
Matches: 290, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
168 290 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (168 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCG
GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATCCGTAAGACCTACA
GTGCATGATGTTTTCAAAAAAAGCCTTCGGGAGCTTTT
Found at i:274207 original size:45 final size:45
Alignment explanation
Indices: 274158--274395 Score: 406
Period size: 45 Copynumber: 5.3 Consensus size: 45
274148 GGGAGCTTTT
274158 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
274203 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
274248 TGATGTTTTCAAAACCTTCGAGTCATTTGTAAGCCCTAT-AGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCT-TCAGTGCA
274293 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
274338 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
274383 AGATGTTTTCAAA
1 TGATGTTTTCAAA
274396 AAGCCTTCAG
Statistics
Matches: 182, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
44 1 0.01
45 180 0.99
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:274209 original size:213 final size:210
Alignment explanation
Indices: 273761--274517 Score: 702
Period size: 213 Copynumber: 3.6 Consensus size: 210
273751 TCCCATATCC
*
273761 GTAAGCCCTTCAGTGAATGATGTTTTCAAAGCC-TCGGGTCATCTGTAAGCCCTTCAGTGCATGA
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGA
* * * *
273825 TGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAATGTATGATGTTTTCAAAACCTTCGGGT
66 TGTTTTCAAAACCTTT-AGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
273890 CATCTGTAAGACCTACAATGCATGATGTTTTC---AAAACCTTCGCGTCATCCATAAGACCTACA
130 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAAACCTTCGCGGCATCCATAAGACCTAAA
**
273952 GTGCAGGATGTTTTCAA
195 GTGCAGGA-GTCATCAA
** * * *
273969 AAAATG-CCTTC-GGGATCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAAT
1 GTAA-GCCCTTCAGTG--C---ATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGT
*
274032 GCATGATGTTTTCAAATCCTTTATGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCT
60 GCATGATGTTTTCAAAACCTTTA-GTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCT
* * * ***
274097 TCGGGTCATCCGTAAGACCTACAGTGCATGATCTTTTCAAAAAAAGCCTTCGGGAGC-TTTTTGA
124 TCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAAA-CCTTCGCG-GCATCCAT-A
* *** * *
274161 TGTTTTCAAAGCCTTC-GG-GTCATC-T
186 AGACCT-AAAG--TGCAGGAGTCATCAA
274186 GTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGA
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGA
* * *
274251 TGTTTTCAAAACCTTCGAGTCATTTGTAAGCCCTAT-AGTGCATGATGTTTTCAAAGCCTTCGGG
66 TGTTTTCAAAACCTT-TAGTCATCTGTAAGCCCT-TCAGTGCATGATGTTTTCAAAACCTTCGGG
* * * **
274315 TCATCTGTAAGCCCTTCAGTGCATGATGTTTTC---AAAGCCTTCG-GGTCATCTGTAAGACCTA
129 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAAACCTTCGCGG-CATCCATAAGACCTA
* * **
274376 CAGTGCAAGATGTTTTCAA
193 AAGTGCAGGA-GTCATCAA
* * * * * *
274395 -AAAG-CCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGC
1 GTAAGCCCTTCA-GTGC---ATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGC
** ** * * *
274458 ATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAA
62 ATGATGTTTTCAAAACCTT-TAGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
274518 AGCCTTCGAG
Statistics
Matches: 450, Mismatches: 67, Indels: 61
0.78 0.12 0.11
Matches are distributed among these distances:
205 2 0.00
206 1 0.00
207 12 0.03
208 22 0.05
209 10 0.02
210 3 0.01
211 92 0.20
212 16 0.04
213 251 0.56
214 2 0.00
216 6 0.01
217 16 0.04
218 10 0.02
219 3 0.01
220 2 0.00
221 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (210 bp):
GTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGA
TGTTTTCAAAACCTTTAGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
ATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAAACCTTCGCGGCATCCATAAGACCTAAAG
TGCAGGAGTCATCAA
Found at i:274358 original size:258 final size:256
Alignment explanation
Indices: 273990--274527 Score: 826
Period size: 258 Copynumber: 2.1 Consensus size: 256
273980 GGGATCTTTT
* * * *
273990 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAATCCTTTA
1 TGATGTTTTCAAAACCTTCGAGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAGCCTTCA
*
274055 TGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCGTAAGACCTACA
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCGTAAGACCTACA
* * * *
274120 GTGCATGATCTTTTCAAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATC
131 GTGCAAGATCTTTTC--AAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATC
* * ** * *
274185 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
194 TGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
* *
274248 TGATGTTTTCAAAACCTTCGAGTCATTTGTAAGCCCTAT-AGTGCATGATGTTTTCAAAGCCTTC
1 TGATGTTTTCAAAACCTTCGAGTCATCTGTAAGCCCT-TCAATGCATGATGTTTTCAAAGCCTTC
* * *
274312 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTAC
65 AGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCGTAAGACCTAC
*
274377 AGTGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCT
130 AGTGCAAGATCTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCT
274442 GTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
195 GTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
*
274504 GGATGTTTTCAAAAAGCCTTCGAG
1 TGATGTTTTC-AAAA-CCTTCGAG
274528 AGCTTTTTGA
Statistics
Matches: 255, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
256 111 0.44
257 4 0.02
258 139 0.55
259 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (256 bp):
TGATGTTTTCAAAACCTTCGAGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAGCCTTCA
GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCGTAAGACCTACA
GTGCAAGATCTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTG
TAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
Found at i:274470 original size:45 final size:45
Alignment explanation
Indices: 274414--274517 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
274404 AGGAGCTTTT
* ** *
274414 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
274459 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
*
274504 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
274518 AGCCTTCGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
Found at i:274512 original size:121 final size:121
Alignment explanation
Indices: 274293--274590 Score: 476
Period size: 121 Copynumber: 2.5 Consensus size: 121
274283 CTATAGTGCA
* * *
274293 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCG
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
**
274358 GGTCATCTGTAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTC-AGGAGCTTTT
66 GGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGA-GAGCTTTT
*
274414 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
*
274479 GGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTT
66 GGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGAGAGCTTTT
* * *
274535 TGATA-TTT-AAAGCCTTCGGGTCATCTGTAAGACCTACAATGCATGATGGTTTCAAA
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAA
274591 TGAGATTTTA
Statistics
Matches: 165, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 44 0.27
120 3 0.02
121 117 0.71
122 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (121 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
GGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGAGAGCTTTT
Found at i:274849 original size:3 final size:3
Alignment explanation
Indices: 274841--274870 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
274831 TTTTTTCATC
274841 TTA TTA TTA TTA TTA TATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
274871 TAAATAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:275382 original size:19 final size:19
Alignment explanation
Indices: 275358--275397 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
275348 TACACATCAT
*
275358 CGGAGCTTCCATGCACCAC
1 CGGAGCTTCCACGCACCAC
275377 CGGAGCTTCCACGCACCAC
1 CGGAGCTTCCACGCACCAC
275396 CG
1 CG
275398 AAGAATCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.45, G:0.23, T:0.12
Consensus pattern (19 bp):
CGGAGCTTCCACGCACCAC
Found at i:276136 original size:21 final size:21
Alignment explanation
Indices: 276092--276136 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
276082 TTACTTTGCA
* *
276092 ATTTAAATTTTATTTTTATAT
1 ATTTAAATTGTAATTTTATAT
276113 ATTTAAATTAGTAATTTTAT-T
1 ATTTAAATT-GTAATTTTATAT
276134 ATT
1 ATT
276137 ATTTTATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTAAATTGTAATTTTATAT
Found at i:285636 original size:3 final size:3
Alignment explanation
Indices: 285628--285689 Score: 70
Period size: 3 Copynumber: 19.7 Consensus size: 3
285618 TTCAGTTTGC
* * *
285628 TAT TAT TAT TAT TAT TGT TAT TAT ACAT TAT ACAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT TAT TA-T TAT
285676 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
285690 AATATTACAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
3 43 0.86
4 7 0.14
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:287264 original size:128 final size:127
Alignment explanation
Indices: 287106--287364 Score: 455
Period size: 128 Copynumber: 2.0 Consensus size: 127
287096 TAATATGTAT
*
287106 TTTAAAAAGGGCTGTCTGAAAGCACATAGAAGTCCTTTTCTGATATTCTTAAATAAATAAATATC
1 TTTAAAAAGGGCTGTCTGAAAGCACATAGAAGTCCTTTTCTAATATTCTTAAATAAATAAATATC
* *
287171 CTATTTTTATAAATTATATATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATA
66 CTATTTTTATAAATTATACATTAATTTATTTTAATTATTTTTAGAGAAATATTTTATTAATA
* * *
287233 TTTAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCCTTTTCTAATATTCTTAAATAAATAAATAT
1 TTTA-AAAAGGGCTGTCTGAAAGCACATAGAAGTCCTTTTCTAATATTCTTAAATAAATAAATAT
287298 CCTATTTTTATAAATTATACATTAATTTATTTTAATTATTTTTAGAGAAATATTTTATTAATA
65 CCTATTTTTATAAATTATACATTAATTTATTTTAATTATTTTTAGAGAAATATTTTATTAATA
287361 TTTA
1 TTTA
287365 TTTTTTTTTA
Statistics
Matches: 125, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
127 4 0.03
128 121 0.97
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.46
Consensus pattern (127 bp):
TTTAAAAAGGGCTGTCTGAAAGCACATAGAAGTCCTTTTCTAATATTCTTAAATAAATAAATATC
CTATTTTTATAAATTATACATTAATTTATTTTAATTATTTTTAGAGAAATATTTTATTAATA
Found at i:307334 original size:3 final size:3
Alignment explanation
Indices: 307312--307377 Score: 50
Period size: 3 Copynumber: 22.3 Consensus size: 3
307302 TTAAAAAGAT
* *
307312 ATA AT- ATA ATA A-A ATAA ATA ATA ATAA ATA A-A AGGA AAA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA AT-A ATA ATA A-TA ATA ATA ATA
*
307357 A-A ATA ATA ATA ATA GTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
307378 AGATAAAAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
2 8 0.15
3 36 0.69
4 8 0.15
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:307339 original size:39 final size:34
Alignment explanation
Indices: 307296--307370 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 34
307286 AGAATTACAG
307296 ATAAAATTAAAAAGATATAATATAATAAAATAAATAATA
1 ATAAAA-TAAAAAGA-A-AA-ATAATAAAAT-AATAATA
*
307335 AT-AAATAAAAGGAAAAATAATAAAATAATAATA
1 ATAAAATAAAAAGAAAAATAATAAAATAATAATA
307368 ATA
1 ATA
307371 GTAATAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
33 9 0.26
34 10 0.29
35 2 0.06
36 1 0.03
37 7 0.21
38 3 0.09
39 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (34 bp):
ATAAAATAAAAAGAAAAATAATAAAATAATAATA
Found at i:307369 original size:14 final size:14
Alignment explanation
Indices: 307312--307370 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
307302 TTAAAAAGAT
*
307312 ATAATATAATAA-A
1 ATAAAATAATAATA
307325 AT-AAATAATAATAA
1 ATAAAATAATAAT-A
* *
307339 ATAAAAGGAAAAATA
1 ATAAAA-TAATAATA
307354 ATAAAATAATAATA
1 ATAAAATAATAATA
307368 ATA
1 ATA
307371 GTAATAAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 8 0.22
13 2 0.05
14 12 0.32
15 10 0.27
16 5 0.14
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (14 bp):
ATAAAATAATAATA
Found at i:307423 original size:19 final size:19
Alignment explanation
Indices: 307393--307438 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
307383 AAAAGAGTTT
* *
307393 TTAAAA-AAAAGATAAGAA
1 TTAAAATAAAAGAAAACAA
307411 TTAAAATAAAAGAAAACAA
1 TTAAAATAAAAGAAAACAA
307430 TT-AAATAAA
1 TTAAAATAAA
307439 TAATTTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (19 bp):
TTAAAATAAAAGAAAACAA
Found at i:307435 original size:18 final size:18
Alignment explanation
Indices: 307393--307438 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
307383 AAAAGAGTTT
* * *
307393 TTAAAAAAAAGATAAGAA
1 TTAAATAAAAGAAAACAA
307411 TTAAAATAAAAGAAAACAA
1 TT-AAATAAAAGAAAACAA
307430 TTAAATAAA
1 TTAAATAAA
307439 TAATTTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (18 bp):
TTAAATAAAAGAAAACAA
Found at i:308135 original size:82 final size:82
Alignment explanation
Indices: 308031--308195 Score: 287
Period size: 82 Copynumber: 2.0 Consensus size: 82
308021 TCTTAAATCC
308031 TAATTAAAACACTTAAAACTATTTAAACTAAAATACCGAAAACAAAGATAAAATAAAATATTTAA
1 TAATTAAAACACTTAAAACTATTTAAACTAAAATACCGAAAACAAAGATAAAATAAAATATTTAA
308096 AATATTATCCTAAAACT
66 AATATTATCCTAAAACT
* * *
308113 TAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAATATTTA
1 TAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCGAAAACAAAGATAAAATAAAATATTTA
308177 AAATATTATCCTAAAACT
65 AAATATTATCCTAAAACT
308195 T
1 T
308196 GAGTTTAATC
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
81 5 0.06
82 74 0.94
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (82 bp):
TAATTAAAACACTTAAAACTATTTAAACTAAAATACCGAAAACAAAGATAAAATAAAATATTTAA
AATATTATCCTAAAACT
Found at i:308661 original size:163 final size:164
Alignment explanation
Indices: 308391--308719 Score: 651
Period size: 163 Copynumber: 2.0 Consensus size: 164
308381 GTGCAATTTC
308391 TAGAATCTGATGTCTTGCACAGAAAATGAATCAAAACGAACAAATAAGCCACAAAAACCAATGAT
1 TAGAATCTGATGTCTTGCACAGAAAATGAATCAAAACGAACAAATAAGCCACAAAAACCAATGAT
308456 TAAGGAGTAATTTAAAAGCAAAATATTAACTAAATTAAGCACTTATCAAATT-CCCCTCACTTAT
66 TAAGGAGTAATTTAAAAGCAAAATATTAACTAAATTAAGCACTTATCAAATTCCCCCTCACTTAT
308520 TCAATGCTTGTCCTCAAGTATTCCTTAATTAACA
131 TCAATGCTTGTCCTCAAGTATTCCTTAATTAACA
308554 TAGAATCTGATGTCTTGCACAGAAAATGAATCAAAACGAACAAATAAGCCACAAAAACCAATGAT
1 TAGAATCTGATGTCTTGCACAGAAAATGAATCAAAACGAACAAATAAGCCACAAAAACCAATGAT
308619 TAAGGAGTAATTTAAAAGCAAAATATTAACTAAATTAAGCACTTATCAAATTCCCCCTCACTTAT
66 TAAGGAGTAATTTAAAAGCAAAATATTAACTAAATTAAGCACTTATCAAATTCCCCCTCACTTAT
308684 TCAATGCTTGTCCTCAAGTATTCCTTAATTAACA
131 TCAATGCTTGTCCTCAAGTATTCCTTAATTAACA
308718 TA
1 TA
308720 TAGAAATCAT
Statistics
Matches: 165, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
163 117 0.71
164 48 0.29
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (164 bp):
TAGAATCTGATGTCTTGCACAGAAAATGAATCAAAACGAACAAATAAGCCACAAAAACCAATGAT
TAAGGAGTAATTTAAAAGCAAAATATTAACTAAATTAAGCACTTATCAAATTCCCCCTCACTTAT
TCAATGCTTGTCCTCAAGTATTCCTTAATTAACA
Found at i:309072 original size:14 final size:14
Alignment explanation
Indices: 309031--309072 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
309021 AAGAATTAAC
309031 AAAGAATAGATGAA
1 AAAGAATAGATGAA
* * *
309045 AAAAAACA-AGGAA
1 AAAGAATAGATGAA
309058 AAAGAATAGATGAA
1 AAAGAATAGATGAA
309072 A
1 A
309073 GACAATTGAA
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.69, C:0.02, G:0.19, T:0.10
Consensus pattern (14 bp):
AAAGAATAGATGAA
Found at i:315828 original size:19 final size:18
Alignment explanation
Indices: 315804--315877 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 18
315794 TTGAAAAGAT
315804 ATAATAAATAAAATAAATA
1 ATAAT-AATAAAATAAATA
*
315823 ATAATAAATAAAAGGGAAA-A
1 ATAAT-AATAAAA--TAAATA
315843 ATAATAATAAAATAAATA
1 ATAATAATAAAATAAATA
*
315861 ATAGTAATAAAGATAAA
1 ATAATAATAAA-ATAAA
315878 AAGGGTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 3 0.06
18 11 0.23
19 25 0.52
20 6 0.12
21 3 0.06
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
ATAATAATAAAATAAATA
Found at i:315833 original size:23 final size:23
Alignment explanation
Indices: 315806--315861 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
315796 GAAAAGATAT
315806 AATAAATAAAATAAATAATAAT-A
1 AATAAATAAAA-AAATAATAATAA
*
315829 AATAAA-AGGGAAAAATAATAATAA
1 AATAAATA--AAAAAATAATAATAA
315853 AATAAATAA
1 AATAAATAA
315862 TAGTAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
22 1 0.04
23 16 0.59
24 9 0.33
25 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.21
Consensus pattern (23 bp):
AATAAATAAAAAAATAATAATAA
Found at i:315924 original size:19 final size:19
Alignment explanation
Indices: 315900--315946 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
315890 AAAGTTTTTT
*
315900 TTAAAATAAAAGATAAGAA
1 TTAAAATAAAAGAAAAGAA
*
315919 TTAAAATAAAAGAAAATAA
1 TTAAAATAAAAGAAAAGAA
315938 TT-AAATAAA
1 TTAAAATAAA
315947 TAATTTGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (19 bp):
TTAAAATAAAAGAAAAGAA
Found at i:316654 original size:82 final size:81
Alignment explanation
Indices: 316540--316703 Score: 258
Period size: 82 Copynumber: 2.0 Consensus size: 81
316530 TCTTAAATCC
*
316540 TAATTAAAAACTTAAAACTATTTAAACAAAAATACCTAAAACAATGATAAAATAAAATATTTAAA
1 TAATTAAAAACTTAAAACTATTTAAACAAAAATACCTAAAACAAAGATAAAATAAAATATTTAAA
316605 ATATTATCCTAAAACT
66 ATATTATCCTAAAACT
* * *
316621 TAATTAAAATAC-TAAAACATATTTAAACTAAAATACCTAAAAGAAAGATAAAATATAATATTTA
1 TAATTAAAA-ACTTAAAAC-TATTTAAACAAAAATACCTAAAACAAAGATAAAATAAAATATTTA
*
316685 AAATATTATTCTAAAACT
64 AAATATTATCCTAAAACT
316703 T
1 T
316704 GAGTTTAATC
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
81 15 0.20
82 61 0.80
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (81 bp):
TAATTAAAAACTTAAAACTATTTAAACAAAAATACCTAAAACAAAGATAAAATAAAATATTTAAA
ATATTATCCTAAAACT
Found at i:321520 original size:19 final size:19
Alignment explanation
Indices: 321488--321525 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
321478 TAAGTAAATT
321488 AATAAAATTATAACGTAAAA
1 AATAAAATTATAAC-TAAAA
321508 AATAAAA-TATAACTAAAA
1 AATAAAATTATAACTAAAA
321526 GTTTAGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (19 bp):
AATAAAATTATAACTAAAA
Found at i:321700 original size:12 final size:12
Alignment explanation
Indices: 321685--321735 Score: 68
Period size: 12 Copynumber: 4.2 Consensus size: 12
321675 GGACACAAGT
321685 AAAATAAAATAA
1 AAAATAAAATAA
321697 AAAAT-AAATATA
1 AAAATAAAATA-A
*
321709 AAAATAAAAAAA
1 AAAATAAAATAA
*
321721 AAAAAAAAATAA
1 AAAATAAAATAA
321733 AAA
1 AAA
321736 GATATATCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.15
12 25 0.74
13 4 0.12
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:321717 original size:6 final size:6
Alignment explanation
Indices: 321685--321735 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
321675 GGACACAAGT
* *
321685 AAAAT- AAAATAA AAAATA AATATA AAAATA AAAA-A AAAAAA AAAATA
1 AAAATA AAAAT-A AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
321732 AAAA
1 AAAA
321736 GATATATCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
5 10 0.25
6 25 0.62
7 5 0.12
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:322097 original size:2 final size:2
Alignment explanation
Indices: 322090--322114 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
322080 GTTAATATCA
322090 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
322115 ATCCCTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:322649 original size:48 final size:48
Alignment explanation
Indices: 322597--322753 Score: 233
Period size: 48 Copynumber: 3.3 Consensus size: 48
322587 CCATCTCTTT
* * *
322597 GTGGAGATTAAATCTGAAAACCTTAATGATTTGCTTCACAATATTTTC
1 GTGGAGATCAAATCTAAAAACTTTAATGATTTGCTTCACAATATTTTC
* *
322645 GTGGAAATCAAATCTAAAAACTTTAATGATTTGCTTCACAATATTTTT
1 GTGGAGATCAAATCTAAAAACTTTAATGATTTGCTTCACAATATTTTC
* * *
322693 GTGGAGATCAAATCTAAAAACTTTAATGATTTACTTCACCATCTTTTC
1 GTGGAGATCAAATCTAAAAACTTTAATGATTTGCTTCACAATATTTTC
*
322741 GTGAAGATCAAAT
1 GTGGAGATCAAAT
322754 ATGGAAACTT
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (48 bp):
GTGGAGATCAAATCTAAAAACTTTAATGATTTGCTTCACAATATTTTC
Found at i:322673 original size:96 final size:96
Alignment explanation
Indices: 322548--322799 Score: 267
Period size: 96 Copynumber: 2.6 Consensus size: 96
322538 TTGTCTCTTT
* * * *
322548 GTGAAGGTCAAATTTGAAAAACTATAATGATTTGATCTACCATCTCTTTGTGGAGATTAAATCTG
1 GTGAAGATCAAATAT-AAAAACTTTAATGATTTGATCTACCATCTCTTTGTGGAGATTAAATCTA
*
322613 AAAACCTTAATGATTTGCTTCACAATATTTTC
65 AAAACCTTAATGATTTACTTCACAATATTTTC
* * * * * *
322645 GTGGAA-ATCAAATCTAAAAACTTTAATGATTTGCT-TCACAATATTTTTGTGGAGATCAAATCT
1 GT-GAAGATCAAATATAAAAACTTTAATGATTTGATCT-ACCATCTCTTTGTGGAGATTAAATCT
* * *
322708 AAAAACTTTAATGATTTACTTCACCATCTTTTC
64 AAAAACCTTAATGATTTACTTCACAATATTTTC
** * * * *
322741 GTGAAGATCAAATATGGAAACTTTGATGATCT-ACTCCACCATCTCTTTGTGGATATTAA
1 GTGAAGATCAAATATAAAAACTTTAATGATTTGA-TCTACCATCTCTTTGTGGAGATTAA
322800 TATGGACATT
Statistics
Matches: 125, Mismatches: 25, Indels: 11
0.78 0.16 0.07
Matches are distributed among these distances:
95 4 0.03
96 109 0.87
97 9 0.07
98 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (96 bp):
GTGAAGATCAAATATAAAAACTTTAATGATTTGATCTACCATCTCTTTGTGGAGATTAAATCTAA
AAACCTTAATGATTTACTTCACAATATTTTC
Found at i:322762 original size:48 final size:48
Alignment explanation
Indices: 322548--322784 Score: 212
Period size: 48 Copynumber: 4.9 Consensus size: 48
322538 TTGTCTCTTT
* * *
322548 GTGAAGGTCAAATTTGAAAAACTATAATGATTTGA--TCTACCATCTCTTT-
1 GTGAAGATCAAATCT-AAAAACTTTAATGATTT-ACTTC-ACCATCT-TTTC
* * * * * * *
322597 GTGGAGATTAAATCTGAAAACCTTAATGATTTGCTTCACAATATTTTC
1 GTGAAGATCAAATCTAAAAACTTTAATGATTTACTTCACCATCTTTTC
* * * *
322645 GTGGAA-ATCAAATCTAAAAACTTTAATGATTTGCTTCACAATATTTTT
1 GT-GAAGATCAAATCTAAAAACTTTAATGATTTACTTCACCATCTTTTC
*
322693 GTGGAGATCAAATCTAAAAACTTTAATGATTTACTTCACCATCTTTTC
1 GTGAAGATCAAATCTAAAAACTTTAATGATTTACTTCACCATCTTTTC
* ** * * *
322741 GTGAAGATCAAATATGGAAACTTTGATGATCTACTCCACCATCT
1 GTGAAGATCAAATCTAAAAACTTTAATGATTTACTTCACCATCT
322785 CTTTGTGGAT
Statistics
Matches: 156, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
47 5 0.03
48 136 0.87
49 15 0.10
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (48 bp):
GTGAAGATCAAATCTAAAAACTTTAATGATTTACTTCACCATCTTTTC
Found at i:322934 original size:19 final size:19
Alignment explanation
Indices: 322902--322938 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
322892 ATGACCAACA
*
322902 AAATCACAATGCGATCTCT
1 AAATCACAACGCGATCTCT
*
322921 AAATCGCAACGCGATCTC
1 AAATCACAACGCGATCTC
322939 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (19 bp):
AAATCACAACGCGATCTCT
Found at i:323012 original size:20 final size:20
Alignment explanation
Indices: 322984--323036 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
322974 AATTTGGATA
322984 ATCGCAATGCGATTCTGACT
1 ATCGCAATGCGATTCTGACT
* *
323004 ATCGTAATGTGATTCTGACT
1 ATCGCAATGCGATTCTGACT
323024 ATCGCAATGCGAT
1 ATCGCAATGCGAT
323037 AGTCCAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (20 bp):
ATCGCAATGCGATTCTGACT
Found at i:323049 original size:21 final size:21
Alignment explanation
Indices: 323025--323065 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
323015 ATTCTGACTA
323025 TCGCAATGCGATAGTCCAAAT
1 TCGCAATGCGATAGTCCAAAT
**
323046 TCGCGTTGCGATAGTCCAAA
1 TCGCAATGCGATAGTCCAAA
323066 ATCATTGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGATAGTCCAAAT
Found at i:323075 original size:19 final size:20
Alignment explanation
Indices: 323031--323078 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
323021 ACTATCGCAA
* *
323031 TGCGATAGTCCAAATTCGCGT
1 TGCGATAGTCCAAAATC-CAT
323052 TGCGATAGTCCAAAAT-CAT
1 TGCGATAGTCCAAAATCCAT
323071 TGCGATAG
1 TGCGATAG
323079 CACTGTTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.40
21 15 0.60
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (20 bp):
TGCGATAGTCCAAAATCCAT
Found at i:323096 original size:21 final size:21
Alignment explanation
Indices: 323070--323130 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
323060 TCCAAAATCA
323070 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
*
323091 TTGCGATAGCACTGTTTACCG
1 TTGCGATAGCACTGTTCACCG
*
323112 TTGCGATAACACTGTTCAC
1 TTGCGATAGCACTGTTCAC
323131 ATTGTGAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (21 bp):
TTGCGATAGCACTGTTCACCG
Found at i:323313 original size:16 final size:17
Alignment explanation
Indices: 323286--323337 Score: 72
Period size: 16 Copynumber: 3.1 Consensus size: 17
323276 TTTATTTATG
323286 ATAAACTATAAATTTTAA
1 ATAAA-TATAAATTTTAA
*
323304 AT-AATATAAA-ATTAA
1 ATAAATATAAATTTTAA
323319 ATAAATATAAATTTTAA
1 ATAAATATAAATTTTAA
323336 AT
1 AT
323338 TATTTATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 6 0.20
16 14 0.47
17 8 0.27
18 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAATATAAATTTTAA
Found at i:323652 original size:22 final size:22
Alignment explanation
Indices: 323595--323640 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
323585 CTTACAAAAA
* *
323595 TTGTTCAAGTTTTTATCTTATT
1 TTGTACAAATTTTTATCTTATT
*
323617 TTGTACAAATTTTTATCTTGTT
1 TTGTACAAATTTTTATCTTATT
323639 TT
1 TT
323641 TGTAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.63
Consensus pattern (22 bp):
TTGTACAAATTTTTATCTTATT
Found at i:323923 original size:20 final size:21
Alignment explanation
Indices: 323888--323928 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
323878 AATTCGCAAT
*
323888 GTGAACAGTGCTATCGTAACG
1 GTGAACAGTGCTATCGCAACG
323909 GTGAACAGT-CTATCGCAACG
1 GTGAACAGTGCTATCGCAACG
323929 CGAATTCGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
GTGAACAGTGCTATCGCAACG
Found at i:323973 original size:21 final size:21
Alignment explanation
Indices: 323918--323967 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
323908 GGTGAACAGT
323918 CTATCGCAACGCGAATTCGGA
1 CTATCGCAACGCGAATTCGGA
*
323939 CTATCGCAACGCGAATTTGGA
1 CTATCGCAACGCGAATTCGGA
323960 CTATCGCA
1 CTATCGCA
323968 TTGCGATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (21 bp):
CTATCGCAACGCGAATTCGGA
Found at i:324056 original size:19 final size:19
Alignment explanation
Indices: 324032--324068 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
324022 TGCGATACTG
*
324032 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
*
324051 GAGATCGTATTGCGATTT
1 GAGATCGCATTGCGATTT
324069 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:324238 original size:49 final size:50
Alignment explanation
Indices: 324160--324295 Score: 152
Period size: 48 Copynumber: 2.8 Consensus size: 50
324150 TCTTTAATGA
* * * *
324160 TTTGCTTCACCATCTCTTCGTGAAGATCAAATCTAGAAAAATGTGACTAT
1 TTTGCTCCACCATCTCTTCATGAAGATCAAATCTAGAAAAACGTGAATAT
*** * * * *
324210 TTT-CTTTGCCATCTCTTCATGAAAATCAAATAT-G-AAAACGTTAATGT
1 TTTGCTCCACCATCTCTTCATGAAGATCAAATCTAGAAAAACGTGAATAT
324257 TTTGCTCCACCATCTCTTCATGAAGATCAAATCTAGAAA
1 TTTGCTCCACCATCTCTTCATGAAGATCAAATCTAGAAA
324296 GGTGATAATT
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
47 12 0.17
48 26 0.38
49 26 0.38
50 5 0.07
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (50 bp):
TTTGCTCCACCATCTCTTCATGAAGATCAAATCTAGAAAAACGTGAATAT
Found at i:324337 original size:47 final size:46
Alignment explanation
Indices: 324269--324423 Score: 132
Period size: 47 Copynumber: 3.3 Consensus size: 46
324259 TGCTCCACCA
* *
324269 TCTCTTCATGAAGATCAAATCTAGAAAGGTGATAATTCACTCCACTG
1 TCTCTTCGTGAAGATCAAATCT-GAAAGATGATAATTCACTCCACTG
* * ** *
324316 TCTCTTCGTGAAAGAT-GAATCTGTAAAAGTTGATAATTTTCTCCATTG
1 TCTCTTCGTG-AAGATCAAATCTG--AAAGATGATAATTCACTCCACTG
* * * * * * *
324364 TCTCTTTGCGGAGATCAAATATGGGAAGATGATTATTCACTCCACTA
1 TCTCTTCGTGAAGATCAAATCT-GAAAGATGATAATTCACTCCACTG
324411 TCTCTTCGTGAAG
1 TCTCTTCGTGAAG
324424 GATGAATCAG
Statistics
Matches: 82, Mismatches: 21, Indels: 10
0.73 0.19 0.09
Matches are distributed among these distances:
46 1 0.01
47 44 0.54
48 36 0.44
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (46 bp):
TCTCTTCGTGAAGATCAAATCTGAAAGATGATAATTCACTCCACTG
Found at i:325435 original size:20 final size:21
Alignment explanation
Indices: 325412--325458 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
325402 TGAACTCTCA
325412 TTTTTATTT-TTT-ACTCTTCT
1 TTTTTATTTCTTTCACTCTT-T
* *
325432 TTTTCATTTCTTTCCCTCTTT
1 TTTTTATTTCTTTCACTCTTT
325453 TTTTTA
1 TTTTTA
325459 CTTAGTGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTATTTCTTTCACTCTTT
Found at i:327282 original size:18 final size:18
Alignment explanation
Indices: 327259--327296 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
327249 CCGAACCTAT
*
327259 TTGACCTAACCTGTTGAC
1 TTGACCCAACCTGTTGAC
*
327277 TTGACCCGACCTGTTGAC
1 TTGACCCAACCTGTTGAC
327295 TT
1 TT
327297 TGGTCAGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.34
Consensus pattern (18 bp):
TTGACCCAACCTGTTGAC
Found at i:328754 original size:19 final size:19
Alignment explanation
Indices: 328691--328756 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
328681 ATATAGGTTG
*
328691 ATCTTTGATTTCTGTTCTA
1 ATCTCTGATTTCTGTTCTA
* * * * *
328710 AACTTTGATATATGTTCTG
1 ATCTCTGATTTCTGTTCTA
* *
328729 ATGTCTGATTTCTGATCTA
1 ATCTCTGATTTCTGTTCTA
328748 ATCTCTGAT
1 ATCTCTGAT
328757 CTCTACTCTA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.50
Consensus pattern (19 bp):
ATCTCTGATTTCTGTTCTA
Found at i:328766 original size:19 final size:19
Alignment explanation
Indices: 328744--328780 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
328734 TGATTTCTGA
328744 TCTAATCTCTGATCTCTAC
1 TCTAATCTCTGATCTCTAC
* *
328763 TCTAATTTTTGATCTCTA
1 TCTAATCTCTGATCTCTA
328781 TTTACGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.24, G:0.05, T:0.49
Consensus pattern (19 bp):
TCTAATCTCTGATCTCTAC
Found at i:331372 original size:6 final size:6
Alignment explanation
Indices: 331362--331394 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
331352 TATGTTCCTT
*
331362 ATGACT ATGACA ATGACA ATGACA ATGACA ATG
1 ATGACA ATGACA ATGACA ATGACA ATGACA ATG
331395 TGAGCATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (6 bp):
ATGACA
Found at i:341734 original size:12 final size:12
Alignment explanation
Indices: 341717--341749 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
341707 ATATTTTCTT
341717 TGATTTCTGTTC
1 TGATTTCTGTTC
341729 TGATTTCTGTTC
1 TGATTTCTGTTC
*
341741 TAATTTCTG
1 TGATTTCTG
341750 ATATCTCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (12 bp):
TGATTTCTGTTC
Found at i:344504 original size:161 final size:161
Alignment explanation
Indices: 344239--344546 Score: 598
Period size: 161 Copynumber: 1.9 Consensus size: 161
344229 TATAGTGATC
344239 TAAACCAAATCTCAGTTCAATGAATAAATCAGTAAATCAAATAATCTCTGAACGCGTAATTTATA
1 TAAACCAAATCTCAGTTCAATGAATAAATCAGTAAATCAAATAATCTCTGAACGCGTAATTTATA
*
344304 ATTAATCTTGTTAATGATTAAATGTAAGAAATATTTGGATATGAAATTACCGAAAAGAAGTTCAT
66 ATTAATCTTGTTAATGATTAAATGTAAGAAATATTTGGATATGAAATTACCGAAAAGAAGGTCAT
344369 GGTTAAATTATGAAAATAATCTCTGAACGCG
131 GGTTAAATTATGAAAATAATCTCTGAACGCG
*
344400 TAAACCAAATCTCAGTTCAATGAATAAATCAGTAAATCAAATAATCTCTGAACGCGTAATTTCTA
1 TAAACCAAATCTCAGTTCAATGAATAAATCAGTAAATCAAATAATCTCTGAACGCGTAATTTATA
344465 ATTAATCTTGTTAATGATTAAATGTAAGAAATATTTGGATATGAAATTACCGAAAAGAAGGTCAT
66 ATTAATCTTGTTAATGATTAAATGTAAGAAATATTTGGATATGAAATTACCGAAAAGAAGGTCAT
344530 GGTTAAATTATGAAAAT
131 GGTTAAATTATGAAAAT
344547 GCCCTTGTAC
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 145 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (161 bp):
TAAACCAAATCTCAGTTCAATGAATAAATCAGTAAATCAAATAATCTCTGAACGCGTAATTTATA
ATTAATCTTGTTAATGATTAAATGTAAGAAATATTTGGATATGAAATTACCGAAAAGAAGGTCAT
GGTTAAATTATGAAAATAATCTCTGAACGCG
Found at i:345488 original size:12 final size:12
Alignment explanation
Indices: 345471--345524 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
345461 TATTTTTTTT
*
345471 ATTTCTATTCTG
1 ATTTCTACTCTG
* *
345483 ATTTCTGCTCTT
1 ATTTCTACTCTG
* *
345495 ATTTCTATTTTG
1 ATTTCTACTCTG
*
345507 ATTTCTGCTCTG
1 ATTTCTACTCTG
345519 ATTTCT
1 ATTTCT
345525 GATATCTCTG
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.13, C:0.19, G:0.09, T:0.59
Consensus pattern (12 bp):
ATTTCTACTCTG
Found at i:345496 original size:24 final size:24
Alignment explanation
Indices: 345469--345524 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
345459 AATATTTTTT
345469 TTATTTCTATTCTGATTTCTGCTC
1 TTATTTCTATTCTGATTTCTGCTC
*
345493 TTATTTCTATTTTGATTTCTGCTC
1 TTATTTCTATTCTGATTTCTGCTC
*
345517 TGATTTCT
1 TTATTTCT
345525 GATATCTCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.12, C:0.18, G:0.09, T:0.61
Consensus pattern (24 bp):
TTATTTCTATTCTGATTTCTGCTC
Found at i:345525 original size:12 final size:12
Alignment explanation
Indices: 345479--345525 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
345469 TTATTTCTAT
345479 TCTGATTTCTGC
1 TCTGATTTCTGC
* **
345491 TCTTATTTCTAT
1 TCTGATTTCTGC
*
345503 TTTGATTTCTGC
1 TCTGATTTCTGC
345515 TCTGATTTCTG
1 TCTGATTTCTG
345526 ATATCTCTGT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.57
Consensus pattern (12 bp):
TCTGATTTCTGC
Found at i:351818 original size:2 final size:2
Alignment explanation
Indices: 351811--351842 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
351801 AAAACCATTC
351811 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
351843 TAAAAGTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:352533 original size:35 final size:35
Alignment explanation
Indices: 352469--352535 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
352459 CTTAGCTCCG
*
352469 TAAGGAATTACCAGCTCGATTGGTCTGAACCTATA
1 TAAGGAATTACCAGCTCGATCGGTCTGAACCTATA
* *
352504 TAAGGAATTACCAGTTTGATCGAGT-TGAACCT
1 TAAGGAATTACCAGCTCGATCG-GTCTGAACCT
352536 GCATACTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 26 0.93
36 2 0.07
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (35 bp):
TAAGGAATTACCAGCTCGATCGGTCTGAACCTATA
Found at i:355703 original size:24 final size:25
Alignment explanation
Indices: 355653--355708 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
355643 AAATGTTAGT
*
355653 AAGTTAGTAAGAACAATAAAAATAA
1 AAGTTAGTAAGAACAATAAAAAGAA
*
355678 AAGTTAGTATGAACAAT-AAAAGAA
1 AAGTTAGTAAGAACAATAAAAAGAA
*
355702 AATTTAG
1 AAGTTAG
355709 AATATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.59, C:0.04, G:0.14, T:0.23
Consensus pattern (25 bp):
AAGTTAGTAAGAACAATAAAAAGAA
Found at i:355954 original size:4 final size:4
Alignment explanation
Indices: 355945--355978 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
355935 TAAGAGAAAC
355945 AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
355979 CAATAGTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:355976 original size:125 final size:124
Alignment explanation
Indices: 355738--355978 Score: 328
Period size: 125 Copynumber: 1.9 Consensus size: 124
355728 CGTTAGCAGC
* *
355738 TAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGGTCTTACCCCGGATCGGGTTACCACAAGGT
1 TAGTGGTTAGCAGAGTCCGAACCATAATAATGTGGGTCTTACCCCGGATCGGGTCACCACAAGGT
* * * *
355803 CGAATAGAATAATGTAATCAAATATATAAAAATAAAATAAAATAAAATAAATAAAAAAGT
66 CGAATA-AATAATGGAAACAAAAATATAAAAATAAAAAAAAATAAAATAAATAAAAAAGT
*
355863 TAGTTGTTAGCAGAGTCCGAACCATAATAATGTGGGTCTTACCCCGGATCGGGTCACCACAAGGT
1 TAGTGGTTAGCAGAGTCCGAACCATAATAATGTGGGTCTTACCCCGGATCGGGTCACCACAAGGT
*
355928 CGAGT-AATAA-GAGAAACAATAAATA-AATAAATAAATAAATAAAT-AAATAAA
66 CGAATAAATAATG-GAAACAA-AAATATAA-AAATAAA-AAA-AAATAAAATAAA
355979 CAATAGTTAG
Statistics
Matches: 103, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
122 1 0.01
123 12 0.12
124 11 0.11
125 75 0.73
126 4 0.04
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (124 bp):
TAGTGGTTAGCAGAGTCCGAACCATAATAATGTGGGTCTTACCCCGGATCGGGTCACCACAAGGT
CGAATAAATAATGGAAACAAAAATATAAAAATAAAAAAAAATAAAATAAATAAAAAAGT
Found at i:357187 original size:44 final size:44
Alignment explanation
Indices: 357122--357644 Score: 231
Period size: 44 Copynumber: 11.9 Consensus size: 44
357112 CTACCTCCTT
* * * *
357122 CTCCTTATGTGATAGAATTGAGCAAAAGGTTGATGGTGATCCAA
1 CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATCCAA
* ** *** * *
357166 CTCCTTCTGTGATGGATTTGAGTGAAATGAAAAAGTTGATCCAC
1 CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATCCAA
* * * * * * * * * *
357210 CTCCTTTTATGATGGAATCGAACAAGATGTCGGTGCTGATCTAT
1 CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATCCAA
* * ** *
357254 CTCCTTCTATGATAGAATCAAGCAAAAAGTTGATGTTGATCCAA
1 CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATCCAA
** ** *** *
357298 CTCCTTCTGTGATGGGTTTGAGTGAAATGAAAATGTTGATCCAC
1 CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATCCAA
* * * * * * * * * ** * *
357342 CTTCTTTTATGATGAAATTAAACAAGATGTAGGTACTGATCTAC
1 CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATCCAA
** * * *
357386 CTTATTCTGTGATAGAATCGAGCAAAAAGTTGATGTTGATCCAA
1 CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATCCAA
** * * * ** *
357430 CTTATTATGTGATGGATTTGAGCGAAA--TAAATGTTGATCCAT
1 CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATCCAA
* * * * * * *
357472 CTCCTTCTGTGATGGAATCGAACATAATGTTGACGCTGATCTAC
1 CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATCCAA
* ** ** * **
357516 CTCATTCTGTGATATAATCAAGCAAAAAGTTGATACTGATCCAA
1 CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATCCAA
* **** * *
357560 CTCCTTCTGTGATGGATTTGAGCAAAATAAAAATGTCGATCCAC
1 CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATCCAA
* * * * * *
357604 CTCATTCTGCGGTGGAATTGAACGAGATGTTGATGTTGATC
1 CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATC
357645 TACCTCTTTT
Statistics
Matches: 332, Mismatches: 145, Indels: 4
0.69 0.30 0.01
Matches are distributed among these distances:
42 31 0.09
44 301 0.91
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (44 bp):
CTCCTTCTGTGATGGAATTGAGCAAAATGTTGATGTTGATCCAA
Found at i:357680 original size:132 final size:132
Alignment explanation
Indices: 357057--357663 Score: 634
Period size: 132 Copynumber: 4.6 Consensus size: 132
357047 AATCTAGATG
* * * * *
357057 AAAATATTGGTCCACCTCATTCTGTGATGGAATCAAACATA-ATGTCTG-TGCTGATCTACCTCC
1 AAAATGTTGATCCACCTCCTTCTATGATGGAATCGAACA-AGATGT-TGATGCTGATCTACCT-C
** * *
357120 TTCTCCTTATGTGATAGAATTGAGCAAAAGGTTGATGGTGATCCAACTCCTTCTGTGATGGATTT
63 TT-T-C---TGTGATAGAATCAAGCAAAAAGTTGATGTTGATCCAACTCCTTCTGTGATGGATTT
*
357185 GAGTGAAATGA
123 GAGCGAAAT-A
* * * * *
357196 AAAA-GTTGATCCACCTCCTTTTATGATGGAATCGAACAAGATGTCGGTGCTGATCTATCTCCTT
1 AAAATGTTGATCCACCTCCTTCTATGATGGAATCGAACAAGATGTTGATGCTGATCTACCTCTTT
* * *
357260 CTATGATAGAATCAAGCAAAAAGTTGATGTTGATCCAACTCCTTCTGTGATGGGTTTGAGTGAAA
66 CTGTGATAGAATCAAGCAAAAAGTTGATGTTGATCCAACTCCTTCTGTGATGGATTTGAGCGAAA
*
357325 TG
131 TA
* * * ** * * *
357327 AAAATGTTGATCCACCTTCTTTTATGATGAAATTAAACAAGATGTAGGTACTGATCTACCT-TAT
1 AAAATGTTGATCCACCTCCTTCTATGATGGAATCGAACAAGATGTTGATGCTGATCTACCTCT-T
* ** *
357391 TCTGTGATAGAATCGAGCAAAAAGTTGATGTTGATCCAACTTATTATGTGATGGATTTGAGCGAA
65 TCTGTGATAGAATCAAGCAAAAAGTTGATGTTGATCCAACTCCTTCTGTGATGGATTTGAGCGAA
357456 AT-
130 ATA
* * * *
357458 -AAATGTTGATCCATCTCCTTCTGTGATGGAATCGAACATA-ATGTTGACGCTGATCTACCTCAT
1 AAAATGTTGATCCACCTCCTTCTATGATGGAATCGAACA-AGATGTTGATGCTGATCTACCTCTT
* ** *
357521 TCTGTGATATAATCAAGCAAAAAGTTGATACTGATCCAACTCCTTCTGTGATGGATTTGAGCAAA
65 TCTGTGATAGAATCAAGCAAAAAGTTGATGTTGATCCAACTCCTTCTGTGATGGATTTGAGCGAA
357586 ATA
130 ATA
* * ** * * * *
357589 AAAATGTCGATCCACCTCATTCTGCGGTGGAATTGAACGAGATGTTGATGTTGATCTACCTCTTT
1 AAAATGTTGATCCACCTCCTTCTATGATGGAATCGAACAAGATGTTGATGCTGATCTACCTCTTT
*
357654 TTGTGATAGA
66 CTGTGATAGA
357664 TTCGAGTAAA
Statistics
Matches: 396, Mismatches: 63, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
130 107 0.27
131 6 0.02
132 229 0.58
135 1 0.00
136 1 0.00
137 4 0.01
138 44 0.11
139 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (132 bp):
AAAATGTTGATCCACCTCCTTCTATGATGGAATCGAACAAGATGTTGATGCTGATCTACCTCTTT
CTGTGATAGAATCAAGCAAAAAGTTGATGTTGATCCAACTCCTTCTGTGATGGATTTGAGCGAAA
TA
Found at i:358099 original size:36 final size:36
Alignment explanation
Indices: 357995--358113 Score: 134
Period size: 36 Copynumber: 3.3 Consensus size: 36
357985 AGAGAAGGTC
* * * *
357995 TCTCAAGTGAGATAAATTTTATTTCGAGGGAAAACTG
1 TCTCAAGAGAGATAAAATTCATTTCAAGGG-AAACTG
* * * *
358032 TCTC-A-AGCGACAAAACTCGTTTCAAGGGAAACTG
1 TCTCAAGAGAGATAAAATTCATTTCAAGGGAAACTG
*
358066 TCTCAAGAGAGATAAAATTCATTTCAAGAGAAACTG
1 TCTCAAGAGAGATAAAATTCATTTCAAGGGAAACTG
358102 TCTCAAGAGAGA
1 TCTCAAGAGAGA
358114 CAAACTTTGT
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
34 10 0.15
35 16 0.24
36 37 0.55
37 4 0.06
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (36 bp):
TCTCAAGAGAGATAAAATTCATTTCAAGGGAAACTG
Found at i:358119 original size:71 final size:72
Alignment explanation
Indices: 357995--358128 Score: 173
Period size: 71 Copynumber: 1.9 Consensus size: 72
357985 AGAGAAGGTC
* * * * * *
357995 TCTCAAGTGAGATAAATTTTATTTCGAGGGAAAACTGTCTCAAGCGACAAAAC-TCGTTTCAAGG
1 TCTCAAGAGAGATAAAATTCATTTCAAGAGAAAACTGTCTCAAGAGACAAAACTTCGTTTCAAGG
358059 GAAACTG
66 GAAACTG
* *
358066 TCTCAAGAGAGATAAAATTCATTTCAAGAG-AAACTGTCTCAAGAGAGACAAACTTTGTTTCAA
1 TCTCAAGAGAGATAAAATTCATTTCAAGAGAAAACTGTCTCAAGAGACA-AAACTTCGTTTCAA
358129 AAGAAATAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
70 16 0.30
71 29 0.55
72 8 0.15
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (72 bp):
TCTCAAGAGAGATAAAATTCATTTCAAGAGAAAACTGTCTCAAGAGACAAAACTTCGTTTCAAGG
GAAACTG
Found at i:358127 original size:36 final size:35
Alignment explanation
Indices: 358026--358134 Score: 130
Period size: 36 Copynumber: 3.1 Consensus size: 35
358016 TTTCGAGGGA
* * *
358026 AAACTGTCTCAAGCGACAAAAC-TCGTTTCAAGGG
1 AAACTGTCTCAAGAGAGAAAACTTCGTTTCAAGAG
* *
358060 AAACTGTCTCAAGAGAGATAAAATTCATTTCAAGAG
1 AAACTGTCTCAAGAGAGA-AAACTTCGTTTCAAGAG
* *
358096 AAACTGTCTCAAGAGAGACAAACTTTGTTTCAAAAG
1 AAACTGTCTCAAGAGAGA-AAACTTCGTTTCAAGAG
358132 AAA
1 AAA
358135 TAACCTCAGG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
34 16 0.25
35 3 0.05
36 44 0.70
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (35 bp):
AAACTGTCTCAAGAGAGAAAACTTCGTTTCAAGAG
Found at i:358387 original size:42 final size:41
Alignment explanation
Indices: 358326--358424 Score: 135
Period size: 42 Copynumber: 2.4 Consensus size: 41
358316 GGTTGGCTTG
*
358326 AAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCA
1 AAGGACTTATCATCATGCTCGAAAGACTTACAGATGACCCA
* * * *
358367 AAGGATTTATGCATCATGCTCGAAAGACTTACTGATGGCCCG
1 AAGGACTTAT-CATCATGCTCGAAAGACTTACAGATGACCCA
358409 AAGGACTTACTCATCA
1 AAGGACTTA-TCATCA
358425 AGAAACCCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 9 0.18
42 40 0.80
43 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (41 bp):
AAGGACTTATCATCATGCTCGAAAGACTTACAGATGACCCA
Found at i:358525 original size:39 final size:39
Alignment explanation
Indices: 358457--358922 Score: 596
Period size: 39 Copynumber: 11.9 Consensus size: 39
358447 TAGTTTCTTT
* * * * *
358457 AAATCTTTTGTTTCGAGAGAAACTGTCTCAAGTGAGA-A
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
* * *
358495 AAACTCTTCTATTTCGAA-TGAAACTATCTCAAGCAAGACA
1 AAA-TCTTCTGTTTC-AAGGGAAACTATCTCAAGCGAGACA
* * *
358535 AAATCTTCTATTTCTAGGGAAACTATCTCAAGCGAGAAA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
*
358574 AAATCTTATGTTTCAAGGGAAACTATCTCAAGCGAGACA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
* * * *
358613 AAATCTTCTCTTTCGAGTGAAACTATCTTAAGCGAGACA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
* * *
358652 AAATCTTTTGTTTCAAGTGAAACTATCTCAAGCGAGATA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
* * * *
358691 AAATCTTTTGTTTCGAGGGAAACTATCTCAAGAGAGATA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
*
358730 AAATCTTATGTTTCAAGGGAAACTATCTCAAGCGAGACA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
* *
358769 AAATCTTTTGTTTCAAGGGAAACTATCTCCAGCGAGACA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
* *
358808 TAATCTTCTATTTCAAGGGAAACTATCTCAAGCGAGACA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
358847 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
* * * *
358886 AATTTTTTTGTTTCCAA-GGAAACTATCTCAAGAGAGA
1 AAATCTTCTGTTT-CAAGGGAAACTATCTCAAGCGAGA
358923 TACAATATTC
Statistics
Matches: 379, Mismatches: 44, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
38 4 0.01
39 367 0.97
40 8 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (39 bp):
AAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACA
Found at i:359030 original size:77 final size:75
Alignment explanation
Indices: 358936--359181 Score: 316
Period size: 77 Copynumber: 3.2 Consensus size: 75
358926 AATATTCTTT
* * *
358936 AAAAATAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAACTGTCTCAAGTGAGACAAAT
1 AAAAACAATCTTAAGTGAAATGAAATGTCTTCTTTCGAGTAAAAATTGTCTCAAGTGAGACAAAT
359001 ATTGTTTTAAGG
66 -TTGTTTTAA-G
* * * * *
359013 AAAAACAATCTTGAGTGAAAT-AAATCTTCTTGTTTCGAGTAAAAATTGTCCCAAGCGAGACAAA
1 AAAAACAATCTTAAGTGAAATGAAAT-GTCTTCTTTCGAGTAAAAATTGTCTCAAGTGAGACAAA
*
359077 TCTTCTTTTAAG
65 T-TTGTTTTAAG
* *
359089 AAAAACAATCTTAACTCAAATGAAATGTCTTCTTTCGAGT-AAAATTGTCTCAAGTGAGACAAAG
1 AAAAACAATCTTAAGTGAAATGAAATGTCTTCTTTCGAGTAAAAATTGTCTCAAGTGAGACAAA-
*
359153 TCTGTTTTAAG
65 TTTGTTTTAAG
*
359164 AAAAACAGTCTTAAGTGA
1 AAAAACAATCTTAAGTGA
359182 GATAAATCTG
Statistics
Matches: 146, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
75 44 0.30
76 36 0.25
77 66 0.45
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (75 bp):
AAAAACAATCTTAAGTGAAATGAAATGTCTTCTTTCGAGTAAAAATTGTCTCAAGTGAGACAAAT
TTGTTTTAAG
Found at i:361385 original size:14 final size:15
Alignment explanation
Indices: 361368--361421 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 15
361358 AAATATGTAC
361368 ATGC-AAATGCAAAG
1 ATGCAAAATGCAAAG
361382 ATGCAAAAATG-AAAG
1 ATGC-AAAATGCAAAG
*
361397 -TGCAAAATGC-GAG
1 ATGCAAAATGCAAAG
361410 ATGC-AAATGCAA
1 ATGCAAAATGCAA
361422 CAAGAAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
13 14 0.42
14 10 0.30
15 4 0.12
16 5 0.15
ACGTcount: A:0.50, C:0.13, G:0.22, T:0.15
Consensus pattern (15 bp):
ATGCAAAATGCAAAG
Found at i:361400 original size:28 final size:28
Alignment explanation
Indices: 361352--361416 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
361342 ACTAATGTAG
* *
361352 AGATGCAAATATGTACATGC-AAATGCAA
1 AGATGCAAAAATGTAAATGCAAAATGC-A
*
361380 AGATGCAAAAATG-AAAGTGCAAAATGCG
1 AGATGCAAAAATGTAAA-TGCAAAATGCA
361408 AGATGCAAA
1 AGATGCAAA
361417 TGCAACAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 24 0.75
29 6 0.19
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.17
Consensus pattern (28 bp):
AGATGCAAAAATGTAAATGCAAAATGCA
Found at i:363991 original size:23 final size:24
Alignment explanation
Indices: 363961--364014 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 24
363951 AAATGTTAGT
363961 AAGTTAGTAAGAACAATAAAAT-A
1 AAGTTAGTAAGAACAATAAAATAA
*
363984 AAGTTAGTATGAACAATAAAATAA
1 AAGTTAGTAAGAACAATAAAATAA
364008 AAGTTAG
1 AAGTTAG
364015 AATATATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 21 0.72
24 8 0.28
ACGTcount: A:0.57, C:0.04, G:0.15, T:0.24
Consensus pattern (24 bp):
AAGTTAGTAAGAACAATAAAATAA
Found at i:364139 original size:5 final size:5
Alignment explanation
Indices: 364129--364161 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
364119 CAAATATATA
364129 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
364162 AAGTTAGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:364162 original size:15 final size:15
Alignment explanation
Indices: 364120--364162 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
364110 TAATATAAAC
*
364120 AAATATATAAAAATA
1 AAATAAATAAAAATA
364135 AAATAAA-ATAAAATA
1 AAATAAATA-AAAATA
364150 AAATAAATAAAAA
1 AAATAAATAAAAA
364163 AGTTAGTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAATAAAAATA
Found at i:364258 original size:4 final size:4
Alignment explanation
Indices: 364249--364275 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
364239 AGAGAAACAG
364249 TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA
364276 TAGTTAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:372295 original size:16 final size:17
Alignment explanation
Indices: 372269--372312 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
372259 CCGAATATGT
372269 TTCTATTTTTTC-AAAGC
1 TTCT-TTTTTTCGAAAGC
*
372286 TTCTTTTTTTCGAATGC
1 TTCTTTTTTTCGAAAGC
372303 TCTCTTTTTT
1 T-TCTTTTTT
372313 CTCTGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 9 0.38
18 8 0.33
ACGTcount: A:0.14, C:0.18, G:0.07, T:0.61
Consensus pattern (17 bp):
TTCTTTTTTTCGAAAGC
Found at i:372464 original size:10 final size:11
Alignment explanation
Indices: 372449--372477 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
372439 GTTGGGGCAT
372449 GATTTCCTC-G
1 GATTTCCTCGG
372459 GATTTCCTCGG
1 GATTTCCTCGG
372470 GATTTCCT
1 GATTTCCT
372478 TTTGTACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.10, C:0.28, G:0.21, T:0.41
Consensus pattern (11 bp):
GATTTCCTCGG
Found at i:372912 original size:3 final size:3
Alignment explanation
Indices: 372906--372964 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
372896 CAAAAAAATG
* * * *
372906 TAA TAA TAT TAA TAG TAA TAA AAA GTAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
372952 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
372965 TTAAAATTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:373961 original size:33 final size:33
Alignment explanation
Indices: 373919--373984 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
373909 ACTACATATA
* * *
373919 GGAAGGGTAAGAGCTCCTAAAGTACCCAAAATT
1 GGAAGGGTAAGAACTCCCAAAGCACCCAAAATT
*
373952 GGAAGGGTAAGAACTCCCAAAGCGCCCAAAATT
1 GGAAGGGTAAGAACTCCCAAAGCACCCAAAATT
373985 AGTACCTCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.15
Consensus pattern (33 bp):
GGAAGGGTAAGAACTCCCAAAGCACCCAAAATT
Found at i:375703 original size:17 final size:17
Alignment explanation
Indices: 375683--375716 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
375673 TACGTTATTA
375683 TATAAATCA-TATTATAT
1 TATAAAT-ATTATTATAT
375700 TATAAATATTATTATAT
1 TATAAATATTATTATAT
375717 AGCCCGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAAATATTATTATAT
Found at i:377092 original size:21 final size:21
Alignment explanation
Indices: 377041--377093 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
377031 GATTATTATT
*
377041 ATTAATATTAAATTAGTAATTA
1 ATTAA-ATTAAATTAGTAATAA
* * * *
377063 TTTATATTAAATTATTAGTAA
1 ATTAAATTAAATTAGTAATAA
377084 ATTAAATTAA
1 ATTAAATTAA
377094 TTACAAGTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
ATTAAATTAAATTAGTAATAA
Found at i:383305 original size:65 final size:65
Alignment explanation
Indices: 383178--383309 Score: 176
Period size: 65 Copynumber: 2.0 Consensus size: 65
383168 ACCTTGTTCA
* * ** *
383178 AGATTTGATTAGATATGGAGACATGAAAGGAATTAGAATAAATCCTTTTTATTAGTTATTTCAAG
1 AGATTTGATTAGATATGAAGACATGAAAGAAATTAGAATAAATCCTTCATATGAGTTATTTCAAG
* * *
383243 AGATTTGATTAGATATGAAGACATGAAAGAAATTAGGATAAATCCTTCATGTGA-TATGTTTCAA
1 AGATTTGATTAGATATGAAGACATGAAAGAAATTAGAATAAATCCTTCATATGAGT-TATTTCAA
383307 G
65 G
383308 AG
1 AG
383310 TCAAATCAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 1 0.02
65 57 0.98
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (65 bp):
AGATTTGATTAGATATGAAGACATGAAAGAAATTAGAATAAATCCTTCATATGAGTTATTTCAAG
Found at i:383420 original size:22 final size:22
Alignment explanation
Indices: 383390--383433 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
383380 CTGCAAGGAT
383390 GATAGATTCTCTTTTCAAAAAC
1 GATAGATTCTCTTTTCAAAAAC
* * *
383412 GATATATTCTTTTTTTAAAAAC
1 GATAGATTCTCTTTTCAAAAAC
383434 AAGAGCTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (22 bp):
GATAGATTCTCTTTTCAAAAAC
Found at i:384067 original size:20 final size:21
Alignment explanation
Indices: 384028--384137 Score: 104
Period size: 20 Copynumber: 5.5 Consensus size: 21
384018 TATTTCCACA
384028 AATTTGTAAAGCCT-TCGGGT
1 AATTTGTAAAGCCTCTCGGGT
* *
384048 CATTTATAAAGCCTCT-GGGT
1 AATTTGTAAAGCCTCTCGGGT
* **
384068 AATTTGTAAATCCTC-CTAGT
1 AATTTGTAAAGCCTCTCGGGT
* **
384088 ATTTTGTAAATTCTC-CGGGT
1 AATTTGTAAAGCCTCTCGGGT
384108 AATTTGTAAAGCCTCT-GGGT
1 AATTTGTAAAGCCTCTCGGGT
*
384128 AATTTCTAAA
1 AATTTGTAAA
384138 ATTCCTTGGG
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
20 71 0.99
21 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (21 bp):
AATTTGTAAAGCCTCTCGGGT
Found at i:384760 original size:235 final size:236
Alignment explanation
Indices: 384342--384919 Score: 878
Period size: 235 Copynumber: 2.5 Consensus size: 236
384332 AAATTTACTT
*
384342 TCCACAAAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGATCTTCACGGAAGAGTAGTGAA
1 TCCACAGAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGATCTTCACGGAAGAGTAGTGAA
* *
384407 GAAATTCAAGTTTAAATCTGAACTTCAC-AAACGAGTAGTGAAGCAGAAGAAGAAACCAGAATAA
66 GAAATTCAAGTTTGAATCTGAACTTCACGGAA-GAGTAGTGAAGCAGAAGAAGAAACCAGAATAA
* ***
384471 AATTCAGTTTTCATGGAAGAGTAGTGGAACATATTTTTTAGCAATCATATTCAAACTTCGTGGAA
130 AATTCAGTTTTCACGGAAGAGTAGTGGAACATATTTTTTAGCAATCATATTCAAACTTCACAGAA
* *
384536 GAGTAGTGAAGCGAAAAGCAAGAACCCGGAT-AAATTCGAAC
195 GAGTAGTGAAGCAAAAAGCAAGAACCCGGATAAAATTCCAAC
* * **
384577 TCCACAGAAGAGTAGTGGAACGGATTTTTCAGCAGAGTATGAGATCTTCAAAGAAGAGTAGTGAA
1 TCCACAGAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGATCTTCACGGAAGAGTAGTGAA
384642 GAAATTCAAGTTTGAATCTGAACTTCACGGAAGAGTAGTGAAGCAGAA-ACAGAAACCAGAATAA
66 GAAATTCAAGTTTGAATCTGAACTTCACGGAAGAGTAGTGAAGCAGAAGA-AGAAACCAGAATAA
*
384706 AATTCAGTTTTCACGGAAGAGTAGTGGAATGA-ATTTTTTAGCAATCATATTCAAACTTCACAGA
130 AATTCAGTTTTCACGGAAGAGTAGTGGAA-CATATTTTTTAGCAATCATATTCAAACTTCACAGA
*
384770 AGAGTAGTGAAGCAAAAAGCAAGAACCCTGATAAAATTCCAAC
194 AGAGTAGTGAAGCAAAAAGCAAGAACCCGGATAAAATTCCAAC
* *
384813 TCCACGGAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGATCTTCACGGAAGAGTAGTAAA
1 TCCACAGAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGATCTTCACGGAAGAGTAGTGAA
* * * ** *
384878 GTAATCCAA-TTGTGAGTCTGATTTTTACGGAAGAGTAGTGAA
66 GAAATTCAAGTT-TGAATCTGAACTTCACGGAAGAGTAGTGAA
384920 ATTAGATTCT
Statistics
Matches: 311, Mismatches: 27, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
234 1 0.00
235 206 0.66
236 104 0.33
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (236 bp):
TCCACAGAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGATCTTCACGGAAGAGTAGTGAA
GAAATTCAAGTTTGAATCTGAACTTCACGGAAGAGTAGTGAAGCAGAAGAAGAAACCAGAATAAA
ATTCAGTTTTCACGGAAGAGTAGTGGAACATATTTTTTAGCAATCATATTCAAACTTCACAGAAG
AGTAGTGAAGCAAAAAGCAAGAACCCGGATAAAATTCCAAC
Found at i:384840 original size:98 final size:97
Alignment explanation
Indices: 384662--384847 Score: 234
Period size: 98 Copynumber: 1.9 Consensus size: 97
384652 TTTGAATCTG
* * ** *
384662 AACTTCACGGAAGAGTAGTGAAGCAGAAACAGAAACCAGAATAAAATTCAGTTTTCACGGAAGAG
1 AACTTCACAGAAGAGTAGTGAAGCAAAAACAGAAACCAGAATAAAATTCAGACTCCACGGAAGAG
* *
384727 TAGTGGAATGAATTTTTTAGCAATCATATTCA
66 TAGTGGAAAGAATTTTTCAGCAATCATATTCA
* *
384759 AACTTCACAGAAGAGTAGTGAAGCAAAAAGCAAGAACCCTG-ATAAAATTCCA-ACTCCACGGAA
1 AACTTCACAGAAGAGTAGTGAAGCAAAAA-C-AGAAACCAGAATAAAATT-CAGACTCCACGGAA
384822 GAGTAGTGGAACAG-ATTTTTCAGCAA
63 GAGTAGTGGAA-AGAATTTTTCAGCAA
384848 AGTATGAGAT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
97 27 0.36
98 39 0.51
99 10 0.13
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (97 bp):
AACTTCACAGAAGAGTAGTGAAGCAAAAACAGAAACCAGAATAAAATTCAGACTCCACGGAAGAG
TAGTGGAAAGAATTTTTCAGCAATCATATTCA
Found at i:384874 original size:97 final size:96
Alignment explanation
Indices: 384662--384874 Score: 229
Period size: 97 Copynumber: 2.2 Consensus size: 96
384652 TTTGAATCTG
* ** *
384662 AACTTCACGGAAGAGTAGTGAAGCAGAAACAGAAACCAGAATAAAATTCAGTTTTCACGGAAGAG
1 AACTTCACGGAAGAGTAGTGAAGCAAAAACAGAAACCAGAATAAAATTCAGACTCCACGGAAGAG
* *
384727 TAGTGGAATGAATTTTTTAGCAATCATATTCA
66 TAGTGGAAAGAATTTTTCAGCAA-CATATTCA
* * *
384759 AACTTCACAGAAGAGTAGTGAAGCAAAAAGCAAGAACCCTG-ATAAAATTCCA-ACTCCACGGAA
1 AACTTCACGGAAGAGTAGTGAAGCAAAAA-C-AGAAACCAGAATAAAATT-CAGACTCCACGGAA
*
384822 GAGTAGTGGAACAG-ATTTTTCAGCAA-AGTA-TGA
63 GAGTAGTGGAA-AGAATTTTTCAGCAACA-TATTCA
*
384855 GATCTTCACGGAAGAGTAGT
1 -AACTTCACGGAAGAGTAGT
384875 AAAGTAATCC
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
96 3 0.03
97 46 0.47
98 39 0.40
99 10 0.10
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (96 bp):
AACTTCACGGAAGAGTAGTGAAGCAAAAACAGAAACCAGAATAAAATTCAGACTCCACGGAAGAG
TAGTGGAAAGAATTTTTCAGCAACATATTCA
Found at i:385281 original size:14 final size:14
Alignment explanation
Indices: 385264--385301 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
385254 ATATACGTTG
385264 TTATATATATAATA
1 TTATATATATAATA
385278 TTATAT-TATAAATA
1 TTATATATAT-AATA
385292 TTAT-TATATA
1 TTATATATATA
385302 GCCCGAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATATATATAATA
Found at i:385441 original size:24 final size:24
Alignment explanation
Indices: 385414--385467 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
385404 AGATCCAAGC
385414 CCAGCATTCAAGTCAGGCCCAATT
1 CCAGCATTCAAGTCAGGCCCAATT
385438 CCAGCATTCAAGTCAGGCCCAATT
1 CCAGCATTCAAGTCAGGCCCAATT
385462 CCAGCA
1 CCAGCA
385468 AGCCTGTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.30, C:0.35, G:0.17, T:0.19
Consensus pattern (24 bp):
CCAGCATTCAAGTCAGGCCCAATT
Found at i:386664 original size:21 final size:20
Alignment explanation
Indices: 386627--386671 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
386617 TTATAGAAGG
*
386627 ATTATTAATATTAATATTAA
1 ATTAGTAATATTAATATTAA
*
386647 ATTAGTAATTATTTATATTAA
1 ATTAGTAA-TATTAATATTAA
386668 ATTA
1 ATTA
386672 TTAGTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTAGTAATATTAATATTAA
Found at i:386674 original size:24 final size:26
Alignment explanation
Indices: 386627--386689 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 26
386617 TTATAGAAGG
386627 ATTATTAATATTAATATTAAATTAGTA
1 ATTATTAATATTAATATT-AATTAGTA
*
386654 ATTATTTATATTAA-ATT-ATTAGTA
1 ATTATTAATATTAATATTAATTAGTA
386678 A--ATTAA-ATTAAT
1 ATTATTAATATTAAT
386690 TATAAGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 5 0.15
22 4 0.12
24 8 0.24
26 3 0.09
27 13 0.39
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (26 bp):
ATTATTAATATTAATATTAATTAGTA
Found at i:386687 original size:21 final size:21
Alignment explanation
Indices: 386627--386692 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
386617 TTATAGAAGG
386627 ATTATTAAT--ATTAATATTAA
1 ATTATTAATAAATTAA-ATTAA
* * * *
386647 ATTAGTAATTATTTATATTAA
1 ATTATTAATAAATTAAATTAA
*
386668 ATTATTAGTAAATTAAATT-A
1 ATTATTAATAAATTAAATTAA
386688 ATTAT
1 ATTAT
386693 AAGTTTATCA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 14 0.39
21 19 0.53
22 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
ATTATTAATAAATTAAATTAA
Found at i:389252 original size:18 final size:19
Alignment explanation
Indices: 389231--389270 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
389221 TATGTTTCTA
389231 TTTTTTCAAAGCT-TCTTT
1 TTTTTTCAAAGCTCTCTTT
* *
389249 TTTTTTGAATGCTCTCTTT
1 TTTTTTCAAAGCTCTCTTT
389268 TTT
1 TTT
389271 CTATGTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.12, C:0.15, G:0.07, T:0.65
Consensus pattern (19 bp):
TTTTTTCAAAGCTCTCTTT
Found at i:389897 original size:21 final size:21
Alignment explanation
Indices: 389871--389913 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
389861 GTAATAACAT
389871 TAATAGTAATAAAAGTAATAA
1 TAATAGTAATAAAAGTAATAA
* *
389892 TAATAGTAATAATATTAATAA
1 TAATAGTAATAAAAGTAATAA
389913 T
1 T
389914 TTAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (21 bp):
TAATAGTAATAAAAGTAATAA
Found at i:389941 original size:20 final size:20
Alignment explanation
Indices: 389905--389945 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
389895 TAGTAATAAT
*
389905 ATTAATAATTTAAAATTAAA
1 ATTAATAATTAAAAATTAAA
389925 ATTAATAA-TAAACAATTAAA
1 ATTAATAATTAAA-AATTAAA
389945 A
1 A
389946 CCCGGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
ATTAATAATTAAAAATTAAA
Found at i:391337 original size:54 final size:54
Alignment explanation
Indices: 391260--391397 Score: 170
Period size: 54 Copynumber: 2.6 Consensus size: 54
391250 ACACTGGTTC
* * * * * *
391260 GTAAAACATGTGACAATATATTCATCCTTTCTCGTGGCTTTTGCCCGGAT-TTT
1 GTAAAGCATTTGACAACACATTCATCCTTTCTCGTGGCTTCTGCCCAGATGTTT
* * * *
391313 CGTAAAGCTTTTGATAACACATTCATCCTTTCTTGTGGCTTCTGGCCAGATGTTT
1 -GTAAAGCATTTGACAACACATTCATCCTTTCTCGTGGCTTCTGCCCAGATGTTT
391368 GTAAAGCATTTGACAACACATTCATCCTTT
1 GTAAAGCATTTGACAACACATTCATCCTTT
391398 TCTATGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 68 0.96
55 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (54 bp):
GTAAAGCATTTGACAACACATTCATCCTTTCTCGTGGCTTCTGCCCAGATGTTT
Found at i:392435 original size:75 final size:75
Alignment explanation
Indices: 392324--392520 Score: 213
Period size: 75 Copynumber: 2.6 Consensus size: 75
392314 TTCAAAATGT
* * * * *
392324 TATTCCAATTTCTGATTGAAAAGGGCTTTCAACATGCCCCAACATTTGCTAAT-AC-AG-ACGTT
1 TATTCTAATTTATGATTGAAATGGGCTTTCAGCATGCCCCAACATTTG-T--TGACGAGAACATT
392386 CAAAATGCGCCAA
63 CAAAATGCGCCAA
* * * * *
392399 TATTCTAATTTTTGTTTGAAATGTGCTTTCAGCATGCCCCAGCATTTGTTGACGTGAACATTCAA
1 TATTCTAATTTATGATTGAAATGGGCTTTCAGCATGCCCCAACATTTGTTGACGAGAACATTCAA
*
392464 AATGCGTCAA
66 AATGCGCCAA
* *
392474 TATTCCTGA-TTATGATTGAAATGGGCTTTCAGCATACCCCAACATTT
1 TATT-CTAATTTATGATTGAAATGGGCTTTCAGCATGCCCCAACATTT
392521 TCTTCTTGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
72 1 0.01
73 2 0.02
74 2 0.02
75 94 0.92
76 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (75 bp):
TATTCTAATTTATGATTGAAATGGGCTTTCAGCATGCCCCAACATTTGTTGACGAGAACATTCAA
AATGCGCCAA
Found at i:400087 original size:23 final size:27
Alignment explanation
Indices: 400058--400110 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
400048 ATCTAAAAAT
400058 AAAATAA-AAACA-T-TAA-TAATAAA
1 AAAATAATAAACATTATAAGTAATAAA
*
400081 AAAATAATAAATATTATAAGTAATAAA
1 AAAATAATAAACATTATAAGTAATAAA
400108 AAA
1 AAA
400111 TTTGAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 7 0.28
24 4 0.16
25 1 0.04
26 3 0.12
27 10 0.40
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAATAATAAACATTATAAGTAATAAA
Found at i:400108 original size:24 final size:23
Alignment explanation
Indices: 400055--400108 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
400045 AATATCTAAA
400055 AATAAAATAAAAACATTAATAAT
1 AATAAAATAAAAACATTAATAAT
* *
400078 AAAAAAATAATAAATATT-ATAAGT
1 AATAAAATAA-AAACATTAATAA-T
400102 AATAAAA
1 AATAAAA
400109 AATTTGAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (23 bp):
AATAAAATAAAAACATTAATAAT
Found at i:400393 original size:27 final size:27
Alignment explanation
Indices: 400357--400430 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
400347 TCGAATACCT
400357 AAAAATCATCTTTTAAAAGAGTTTTTA
1 AAAAATCATCTTTTAAAAGAGTTTTTA
400384 AAAAATCATCTTTTAAAAGAGTTTTTA
1 AAAAATCATCTTTTAAAAGAGTTTTTA
* **
400411 AGAAATCATCAGTTAAAAGA
1 AAAAATCATCTTTTAAAAGA
400431 TAAACTGGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.35
Consensus pattern (27 bp):
AAAAATCATCTTTTAAAAGAGTTTTTA
Found at i:401087 original size:21 final size:22
Alignment explanation
Indices: 401046--401090 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
401036 TAATAATAAT
401046 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
401068 AACATATAA-AATTAAA-ATATA
1 AACA-ATAATAATTAAATATATA
401089 AA
1 AA
401091 TAAACAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:411270 original size:175 final size:177
Alignment explanation
Indices: 410975--411329 Score: 678
Period size: 175 Copynumber: 2.0 Consensus size: 177
410965 CGCCAGAACT
410975 GCTAAATGGTAGCAACACCAAGGTTTCTGAAAAGGTCAGTAAAGTCATATTCAATTATATATGTC
1 GCTAAATGGTAGCAACACCAAGGTTTCTGAAAAGGTCA--AAAGTCATATTCAATTATATATGTC
411040 TTGCCACTGGGAATGGAAAAATGAGTACACGTTAAAGCCAAATTTATGAATATTTAATTTGACAG
64 TTGCCACTGGGAATGGAAAAATGAGTACACGTTAAAGCCAAATTTATGAATATTTAATTTGACAG
411105 GATGATGTATTCTCATATGGAATTTCAATGTGGGAAATCTTGACCGAAA
129 GATGATGTATTCTCATATGGAATTTCAATGTGGGAAATCTTGACCGAAA
411154 GCTAAATGGTAGCAACACCAAGGTTTCTG-AAAGGTC-AAAGTCATATTCAATTATATATGTCTT
1 GCTAAATGGTAGCAACACCAAGGTTTCTGAAAAGGTCAAAAGTCATATTCAATTATATATGTCTT
411217 GCCACTGGGAATGGAAAAATGAGTACACGTTAAAGCCAAATTTATGAATATTTAATTTGACAGGA
66 GCCACTGGGAATGGAAAAATGAGTACACGTTAAAGCCAAATTTATGAATATTTAATTTGACAGGA
411282 TGATGTATTCTCATATGGAATTTCAATGTGGGAAATCTTGACCGAAA
131 TGATGTATTCTCATATGGAATTTCAATGTGGGAAATCTTGACCGAAA
411329 G
1 G
411330 GAGCCATATG
Statistics
Matches: 176, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
175 140 0.80
178 7 0.04
179 29 0.16
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (177 bp):
GCTAAATGGTAGCAACACCAAGGTTTCTGAAAAGGTCAAAAGTCATATTCAATTATATATGTCTT
GCCACTGGGAATGGAAAAATGAGTACACGTTAAAGCCAAATTTATGAATATTTAATTTGACAGGA
TGATGTATTCTCATATGGAATTTCAATGTGGGAAATCTTGACCGAAA
Found at i:414007 original size:13 final size:13
Alignment explanation
Indices: 413991--414052 Score: 88
Period size: 13 Copynumber: 4.8 Consensus size: 13
413981 GCTCAATGAA
*
413991 CGTCGTAAATGCG
1 CGTCATAAATGCG
*
414004 CGTCATAAATGTG
1 CGTCATAAATGCG
*
414017 CGTCATAAATGTG
1 CGTCATAAATGCG
*
414030 TGTCATAAATGCG
1 CGTCATAAATGCG
414043 CGTCATAAAT
1 CGTCATAAAT
414053 TTATGACGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:414990 original size:17 final size:18
Alignment explanation
Indices: 414951--415009 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
414941 TTTGTTTTTA
* *
414951 TTTTTCGAATATGTTTCTAT
1 TTTTTCGAA-A-GCTTCTTT
414971 TTTTTC-AAAGCTTCTTT
1 TTTTTCGAAAGCTTCTTT
*
414988 TTTTTCGAATGCTCTCTTT
1 TTTTTCGAAAGCT-TCTTT
415007 TTT
1 TTT
415010 CTCTGTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 12 0.35
18 6 0.18
19 10 0.29
20 6 0.18
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.61
Consensus pattern (18 bp):
TTTTTCGAAAGCTTCTTT
Found at i:415635 original size:3 final size:3
Alignment explanation
Indices: 415603--415654 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
415593 TGCAAAAATG
* * * *
415603 TAA TAA TAT TAA TAG TAA TAA -AA GTAA TAA TAA TAG TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
415648 TAA TAA T
1 TAA TAA T
415655 TTAAAATTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:415636 original size:21 final size:21
Alignment explanation
Indices: 415606--415654 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
415596 AAAAATGTAA
*
415606 TAATATTAATAGTAATAAAAG
1 TAATAATAATAGTAATAAAAG
* *
415627 TAATAATAATAGTAATAATAT
1 TAATAATAATAGTAATAAAAG
415648 TAATAAT
1 TAATAAT
415655 TTAAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (21 bp):
TAATAATAATAGTAATAAAAG
Found at i:416892 original size:33 final size:33
Alignment explanation
Indices: 416850--416915 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
416840 ATTACATATG
416850 GGAAGGGTAAGAACTCCCAAAGCACCCAAAATT
1 GGAAGGGTAAGAACTCCCAAAGCACCCAAAATT
**
416883 GGAAGGGTAAGAACTCCCAAAGCGTCCAAAATT
1 GGAAGGGTAAGAACTCCCAAAGCACCCAAAATT
416916 AGTACCTCTC
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:0.41, C:0.23, G:0.23, T:0.14
Consensus pattern (33 bp):
GGAAGGGTAAGAACTCCCAAAGCACCCAAAATT
Found at i:418814 original size:29 final size:29
Alignment explanation
Indices: 418782--418838 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
418772 TATACTTTTT
*
418782 TTTTAAAAAACGTTTTCAAAATTATATAG
1 TTTTAAAAAACGTTTTCAAAACTATATAG
* * *
418811 TTTTCAAAAATGTTTTTAAAACTATATA
1 TTTTAAAAAACGTTTTCAAAACTATATA
418839 TTATAAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (29 bp):
TTTTAAAAAACGTTTTCAAAACTATATAG
Found at i:418842 original size:36 final size:36
Alignment explanation
Indices: 418802--419056 Score: 99
Period size: 36 Copynumber: 7.2 Consensus size: 36
418792 CGTTTTCAAA
418802 ATTATATAGTTTTCAAAAATGTTTTTAAAACTATAT
1 ATTATATAGTTTTCAAAAATGTTTTTAAAACTATAT
* * *
418838 ATTATA-AGTTTT--TAAATG-ATTCAAAACTATAT
1 ATTATATAGTTTTCAAAAATGTTTTTAAAACTATAT
* *
418870 AATATATATGTTTTC-AAACTGTTTCTTTTTAAAA-T-TA-
1 ATTATATA-GTTTTCAAAAATG----TTTTTAAAACTATAT
* * **
418907 A-T-T-TA-TTTTAAAAATATTTTTTTAAAACCGTAT
1 ATTATATAGTTTTCAAAA-ATGTTTTTAAAACTATAT
* * * * * *
418940 AATATAT-TTTTTTAAAAACGATTTAAAAACTATAT
1 ATTATATAGTTTTCAAAAATGTTTTTAAAACTATAT
* * ** *
418975 ATTATAT-TTATTTCCAAAGCGTTTTAAAAACTATAT
1 ATTATATAGT-TTTCAAAAATGTTTTTAAAACTATAT
* * * *
419011 AATATA-ATTGTTTCAAATATGTTTTCAAAACTATTAT
1 ATTATATAGT-TTTCAAAAATGTTTTTAAAACTA-TAT
419048 ATATATATA
1 AT-TATATA
419057 TATATATATA
Statistics
Matches: 165, Mismatches: 32, Indels: 41
0.69 0.13 0.17
Matches are distributed among these distances:
30 9 0.05
32 23 0.14
33 10 0.06
34 9 0.05
35 32 0.19
36 63 0.38
37 5 0.03
38 6 0.04
39 2 0.01
40 6 0.04
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (36 bp):
ATTATATAGTTTTCAAAAATGTTTTTAAAACTATAT
Found at i:418915 original size:16 final size:14
Alignment explanation
Indices: 418895--418933 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
418885 AAACTGTTTC
*
418895 TTTTTAAAATTAATT
1 TTTTTAAAAAT-ATT
418910 TATTTTAAAAATATT
1 T-TTTTAAAAATATT
418925 TTTTTAAAA
1 TTTTTAAAA
418934 CCGTATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 5 0.23
16 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTTAAAAATATT
Found at i:419859 original size:163 final size:164
Alignment explanation
Indices: 419659--420604 Score: 1378
Period size: 163 Copynumber: 5.8 Consensus size: 164
419649 ACCCCGCAGT
*
419659 TGAGTGTAATCGAACTCGGGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCATAT
1 TGAGTGTAATCGAACTCGGG-GTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
* ** *
419724 GATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TCACAGATAACCCTTCTAG
65 GATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCG
* * *
419788 CCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGC
129 ACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGC
* *
419824 -GAG-GTATTCGAACTTGGGGTCTTTGGCAGGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
1 TGAGTGTAATCGAACTCGGGGTCTTTGGCA-GATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
419887 GATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAA-CCTTCTCGA
65 GATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGA
* *
419950 CTTAAGTTATGCTGCAAATGATATG-CCT-GGAGC
130 CTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGC
** * * * * *
419983 TGAGTGTAATCGAACTCAAGGTCTTTTTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAA
1 TGAGTGTAATCGAACTCGGGGTC---TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAA
* * * * * *
420048 ATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAATCCTTCT
63 ATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCT
420113 CGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGC
127 CGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGC
* *
420151 TGAGTGTAATCGAACTCAGGGGTCTTTGGTAGATAGCCCTTATCGACTTAAGCTATGCTGCAAAT
1 TGAGTGTAATCGAACTC-GGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
* *
420216 GATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTGGTTGGCAGATAACCCTTAT-GA
65 GATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGA
420279 CTTAAGTTATGCTGCAAATGATGTGCCCTC-AGAGC
130 CTTAAGTTATGCTGCAAATGATGTGCCCTCGA-AGC
*
420314 TGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAAT
1 TGAGTGTAATCGAACTCG-GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
* *
420379 GATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATAACCCTTCTTGA
65 GATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGA
420444 CTTAAGTTATGCTGCAAATGATGTGCCCTC-AGAGC
130 CTTAAGTTATGCTGCAAATGATGTGCCCTCGA-AGC
*
420479 T--GTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTGCAAAT
1 TGAGTGTAATCGAACTCG-GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
*
420542 GATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTGGCAGATAACCCTTCT
65 GATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCT
420605 GGCCTTGAGC
Statistics
Matches: 710, Mismatches: 53, Indels: 37
0.89 0.07 0.05
Matches are distributed among these distances:
159 4 0.01
160 6 0.01
161 44 0.06
162 23 0.03
163 351 0.49
164 104 0.15
165 78 0.11
166 72 0.10
167 3 0.00
168 21 0.03
169 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (164 bp):
TGAGTGTAATCGAACTCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG
ATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAC
TTAAGTTATGCTGCAAATGATGTGCCCTCGAAGC
Found at i:420351 original size:492 final size:490
Alignment explanation
Indices: 419659--420604 Score: 1430
Period size: 492 Copynumber: 1.9 Consensus size: 490
419649 ACCCCGCAGT
* *
419659 TGAGTGTAATCGAACTCGGGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCATAT
1 TGAGTGTAATCGAACTCGGGAGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAAT
* * * *
419724 GATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGC
66 GATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGG--ACAGATAACCCTTATAGA
* * * *
419789 CTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCGAGGTATTCGAACTTGGGGTCTTTGGCAGG
129 CTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCGAGGTAATCGAACTCGGGGTCTTTGGCAGG
*
419854 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
194 ATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
*
419919 GAAGGTCTTT-GTTGGCAGATAA-CCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCT-GG
259 GAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCCTCAG
* *
419980 AGCTGAGTGTAATCGAACTC-AAGGTCTTTTTTGGCAGACAACCCTTCT-AGACTTAAGTTGTGC
324 AGCT--GTGTAATCGAACTCGAAGGTC---TTTGGCAGACAACCCTTCTCA-ACTTAAGCTATGC
* *
420043 TGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGGTTGGCAGATAAT
383 TGCAAATGATGTG-CCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTTGGTTGGCAGATAAC
420107 CCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGC
447 CCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGC
*
420151 TGAGTGTAATCGAACTCAGGG-GTCTTTGGTAGATAGCCCTTATCGACTTAAGCTATGCTGCAAA
1 TGAGTGTAATCGAACTC-GGGAGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAA
420215 TGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGGTTGG-CAGATAACCCTTAT-G
65 TGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTT--TTGGACAGATAACCCTTATAG
420278 ACTTAAGTTATGCTGCAAATGATGTGCCCTC-AGAGCTGAGTGTAATCGAACTCGAGGGTCTTTG
128 ACTTAAGTTATGCTGCAAATGATGTGCCCTCGA-AGC-GAG-GTAATCGAACTCG-GGGTCTTTG
420342 GCA-GATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
189 GCAGGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
* * *
420406 AACTCGAAGGTCTTTGGTTGGCATATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCC
254 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCC
* * *
420471 CTCAGAGCTGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCT
319 CTCAGAGCTGTGTAATCGAACTCGAAGGTCTTTGGCAGACAACCCTTCTCAACTTAAGCTATGCT
* * *
420536 GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTGGCAGATAACCC
384 GCAAATGATGTGCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTTGGTTGGCAGATAACCC
420601 TTCT
449 TTCT
420605 GGCCTTGAGC
Statistics
Matches: 414, Mismatches: 26, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
489 1 0.00
490 32 0.08
491 45 0.11
492 246 0.59
493 27 0.07
494 50 0.12
495 8 0.02
496 5 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (490 bp):
TGAGTGTAATCGAACTCGGGAGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAAT
GATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGACAGATAACCCTTATAGACT
TAAGTTATGCTGCAAATGATGTGCCCTCGAAGCGAGGTAATCGAACTCGGGGTCTTTGGCAGGAT
AGCCCTTATCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGA
AGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCCTCAGAG
CTGTGTAATCGAACTCGAAGGTCTTTGGCAGACAACCCTTCTCAACTTAAGCTATGCTGCAAATG
ATGTGCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTTGGTTGGCAGATAACCCTTCTCGA
CTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGC
Found at i:423907 original size:18 final size:19
Alignment explanation
Indices: 423884--423928 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
423874 AGTTAATGTG
423884 AATGCAAAG-AAATAACAA
1 AATGCAAAGAAAATAACAA
*
423902 AATGCAAAGAAAATAACGA
1 AATGCAAAGAAAATAACAA
423921 AATGCAAA
1 AATGCAAA
423929 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Done.