Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 321 of 356
Found at i:103903594 original size:18 final size:18
Alignment explanation
Indices: 103903567--103903608 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
103903557 CTTTTTTAGG
103903567 AATG-TTTTTG-TCTCAAA
1 AATGCTTTTTGTTC-CAAA
*
103903584 AGTGCTTTTTGTTCCAAA
1 AATGCTTTTTGTTCCAAA
103903602 AATGCTT
1 AATGCTT
103903609 CTTAGAAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 3 0.14
18 16 0.76
19 2 0.10
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.45
Consensus pattern (18 bp):
AATGCTTTTTGTTCCAAA
Found at i:103904018 original size:143 final size:138
Alignment explanation
Indices: 103903677--103904049 Score: 410
Period size: 139 Copynumber: 2.7 Consensus size: 138
103903667 TCCCATCTTT
* * * * * *
103903677 ACCAGGCATATATTCTGCCTCCTCCATATGTGGAATAAGCAACTCGACAACCCCATTTGATCATT
1 ACCAGGCATATATCCTGCTTCTTCCATATGTAGAATAAGCAACTCTACAACCCCATTTGATCATG
* * *
103903742 TTCAGTAAATCACTTCAGTTTCTTAAGCTTCTCTTCTCTTCAAGTCCCACTTTCAAGATCATGTA
66 TTCAGT-AATTACTTCAGTTTCTTCAGCTTCTCTCCTCTTCAAGTCCCACTTTCAAGATCATGTA
**
103903807 TCAATGTAA
130 TCAATCAAA
* * * *
103903816 ACCAGGCATTTACCCTGTTTCTTCCATATGTAGAACAAGCAACT-TAACAACCCCATTTGATCAT
1 ACCAGGCATATATCCTGCTTCTTCCATATGTAGAATAAGCAACTCT-ACAACCCCATTTGATCAT
* * * *
103903880 GTTCAGTACCTTACTTCAGTTTCTTCAGCTTTTCTCCT-TTGAAGTCCTA-TCTTCAAGATCATG
65 GTTCAGTA-ATTACTTCAGTTTCTTCAGCTTCTCTCCTCTTCAAGTCCCACT-TTCAAGATCATG
103903943 TATCAAACAATCAAA
128 TAT----CAATCAAA
* * * *
103903958 ACCAGGCATGTATCCTAGCTTCTTCCATATTTAGAATATGCAACTCTATAACCCCATTTGATCAT
1 ACCAGGCATATATCCT-GCTTCTTCCATATGTAGAATAAGCAACTCTACAACCCCATTTGATCAT
* *
103904023 GTTCAATAATTCACTTCAGTTTTTTCA
65 GTTCAGTAATT-ACTTCAGTTTCTTCA
103904050 AATCCCATCT
Statistics
Matches: 195, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
137 1 0.01
138 25 0.13
139 84 0.43
142 22 0.11
143 62 0.32
144 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (138 bp):
ACCAGGCATATATCCTGCTTCTTCCATATGTAGAATAAGCAACTCTACAACCCCATTTGATCATG
TTCAGTAATTACTTCAGTTTCTTCAGCTTCTCTCCTCTTCAAGTCCCACTTTCAAGATCATGTAT
CAATCAAA
Found at i:103907851 original size:42 final size:42
Alignment explanation
Indices: 103907802--103908091 Score: 330
Period size: 42 Copynumber: 6.7 Consensus size: 42
103907792 AGCCCCACAA
* **
103907802 TTAATCCCAACTCAATTAGGATTTATCTTTTTAACATTTCAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAATTTTTCAT
* *
103907844 TTAATCCCAACTCAATTAGGATTTATCTTTTTTAGCTTTTT-AT
1 TTAATCCCACCTCAATTAGGATTTATC-TTTTTA-ATTTTTCAT
* *
103907887 TTAATCCCAACTTAATTAGGATTTAAGCTTATCTTTTTAATTTTTCAT
1 TTAATCCCACCTCAATTAGGA--T----TTATCTTTTTAATTTTTCAT
* * * * *
103907935 TTAATCTCACCTCAATTAAGATTTATGTTTTTAGTTTTTTAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAATTTTTCAT
* *
103907977 TTAATCACACCTCAATTAGGATTTATCTTTTTATTTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAATTTTTCAT
* * *
103908019 TTAATCTCACCTCAATTAGGATTCATTTTTTTAATTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAATTTTTCAT
* *
103908061 TTAATCTCACCTCAATTAGGATTTATGTTTT
1 TTAATCCCACCTCAATTAGGATTTATCTTTT
103908092 CAGGAGGATT
Statistics
Matches: 216, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
42 148 0.69
43 28 0.13
44 3 0.01
45 1 0.00
46 1 0.00
47 5 0.02
48 25 0.12
49 5 0.02
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (42 bp):
TTAATCCCACCTCAATTAGGATTTATCTTTTTAATTTTTCAT
Found at i:103907979 original size:133 final size:126
Alignment explanation
Indices: 103907802--103908091 Score: 366
Period size: 133 Copynumber: 2.2 Consensus size: 126
103907792 AGCCCCACAA
* * * *
103907802 TTAATCCCAACTCAATTAGGATTTATCTTTTTAACATTTCATTTAATCCCAACTCAATTAGGATT
1 TTAATCTCACCTCAATTAGGATTTATGTTTTTAACATTTCATTTAATCACAACTCAATTAGGATT
*
103907867 TATCTTTTTTAGCTTTTT-ATTTAATCCCAACTTAATTAGGATTTAAGCTTATCTTTTTAATTTT
66 TATC-TTTTTA-CTTTTTCATTTAATCCCAACTCAATTAGGA-TT---C--ATCTTTTTAATTTT
103907931 TCAT
123 TCAT
* *** * *
103907935 TTAATCTCACCTCAATTAAGATTTATGTTTTTAGTTTTTTATTTAATCACACCTCAATTAGGATT
1 TTAATCTCACCTCAATTAGGATTTATGTTTTTAACATTTCATTTAATCACAACTCAATTAGGATT
* * * *
103908000 TATCTTTTTATTTTTTCATTTAATCTCACCTCAATTAGGATTCATTTTTTTAATTTTTCAT
66 TATCTTTTTACTTTTTCATTTAATCCCAACTCAATTAGGATTCATCTTTTTAATTTTTCAT
103908061 TTAATCTCACCTCAATTAGGATTTATGTTTT
1 TTAATCTCACCTCAATTAGGATTTATGTTTT
103908092 CAGGAGGATT
Statistics
Matches: 140, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
126 47 0.34
128 1 0.01
131 7 0.05
132 26 0.19
133 59 0.42
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (126 bp):
TTAATCTCACCTCAATTAGGATTTATGTTTTTAACATTTCATTTAATCACAACTCAATTAGGATT
TATCTTTTTACTTTTTCATTTAATCCCAACTCAATTAGGATTCATCTTTTTAATTTTTCAT
Found at i:103908036 original size:84 final size:84
Alignment explanation
Indices: 103907802--103908091 Score: 364
Period size: 84 Copynumber: 3.4 Consensus size: 84
103907792 AGCCCCACAA
** * *
103907802 TTAATCCCAACTCAATTAGGATTTATCTTTTTAACATTTCATTTAATCCCAACTCAATTAGGATT
1 TTAATCCCAACTCAATTAGGATTTATCTTTTTAATTTTTCATTTAATCTCACCTCAATTAGGATT
*
103907867 TATCTTTTTTAGCTTTTTAT
66 TAT-TTTTTTAGTTTTTTAT
*
103907887 TTAATCCCAACTTAATTAGGATTTAAGCTTATCTTTTTAATTTTTCATTTAATCTCACCTCAATT
1 TTAATCCCAACTCAATTAGGA--T----TTATCTTTTTAATTTTTCATTTAATCTCACCTCAATT
* *
103907952 AAGATTTATGTTTTTAGTTTTTTAT
60 AGGATTTATTTTTTTAGTTTTTTAT
* * *
103907977 TTAATCACACCTCAATTAGGATTTATCTTTTTATTTTTTCATTTAATCTCACCTCAATTAGGATT
1 TTAATCCCAACTCAATTAGGATTTATCTTTTTAATTTTTCATTTAATCTCACCTCAATTAGGATT
* * *
103908042 CATTTTTTTAATTTTTCAT
66 TATTTTTTTAGTTTTTTAT
* * *
103908061 TTAATCTCACCTCAATTAGGATTTATGTTTT
1 TTAATCCCAACTCAATTAGGATTTATCTTTT
103908092 CAGGAGGATT
Statistics
Matches: 180, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
84 85 0.47
85 20 0.11
87 1 0.01
88 1 0.01
90 32 0.18
91 41 0.23
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (84 bp):
TTAATCCCAACTCAATTAGGATTTATCTTTTTAATTTTTCATTTAATCTCACCTCAATTAGGATT
TATTTTTTTAGTTTTTTAT
Found at i:103913440 original size:14 final size:14
Alignment explanation
Indices: 103913421--103913456 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
103913411 TTGTTTCACT
103913421 AAAAATAATTT-TCG
1 AAAAATAATTTCT-G
103913435 AAAAATAATTTCTG
1 AAAAATAATTTCTG
103913449 AAAAATAA
1 AAAAATAA
103913457 CTTACCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (14 bp):
AAAAATAATTTCTG
Found at i:103913821 original size:38 final size:39
Alignment explanation
Indices: 103913745--103913822 Score: 99
Period size: 38 Copynumber: 2.0 Consensus size: 39
103913735 TAAAATTAAA
*
103913745 ATATTAAATAATTTATTAAAATGATAAATTATATTAATT
1 ATATTAAATAATTTATTAAAATGATAAATTATAATAATT
*
103913784 ATATT-AATAATTTATT-ATATGACTAAA-TATAAATAATT
1 ATATTAAATAATTTATTAAAATGA-TAAATTAT-AATAATT
103913822 A
1 A
103913823 AAAATGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 8 0.23
38 22 0.63
39 5 0.14
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (39 bp):
ATATTAAATAATTTATTAAAATGATAAATTATAATAATT
Found at i:103914173 original size:7 final size:7
Alignment explanation
Indices: 103914163--103914189 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
103914153 AAACAAAGAG
103914163 CAAATGC
1 CAAATGC
103914170 CAAATGC
1 CAAATGC
103914177 CAAATGC
1 CAAATGC
103914184 CAAATG
1 CAAATG
103914190 GAAAATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.15, T:0.15
Consensus pattern (7 bp):
CAAATGC
Found at i:103924231 original size:6 final size:6
Alignment explanation
Indices: 103924220--103924328 Score: 209
Period size: 6 Copynumber: 18.2 Consensus size: 6
103924210 TAAGCACTTG
103924220 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
*
103924268 CATATA CATATA CATATA CATATA CATATG CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
103924316 CATATA CATATA C
1 CATATA CATATA C
103924329 TAAAAAAGAT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 101 1.00
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:103925228 original size:27 final size:27
Alignment explanation
Indices: 103925198--103925265 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
103925188 GTGTAAGTCC
* *
103925198 CAGAGGTGGCACCGGTTGTGCCTCTGG
1 CAGAGGCGGCACCGGTCGTGCCTCTGG
*
103925225 CAGAGGCGGCACCGGTCGTGCCTCTAG
1 CAGAGGCGGCACCGGTCGTGCCTCTGG
* *
103925252 CATAGGCGACACCG
1 CAGAGGCGGCACCG
103925266 ATTTTGCTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.16, C:0.31, G:0.37, T:0.16
Consensus pattern (27 bp):
CAGAGGCGGCACCGGTCGTGCCTCTGG
Found at i:103925722 original size:150 final size:150
Alignment explanation
Indices: 103925550--103926399 Score: 1205
Period size: 152 Copynumber: 5.7 Consensus size: 150
103925540 AAAAATTTTC
* * *
103925550 GTATTTTTAAAATTTTCTAATTTTATTTTTTAATATATACTATTTTCATATTTTATTTTTTTATT
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTATATT
*
103925615 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAATAACC
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
* *
103925680 CTGATTTTGACCATTTCTTT
131 CTGATTTTGGCCCTTTCTTT
* * *
103925700 GTATTTTCAAAATTTTTGAATTTTA--TTTT-CAA-A-A--A---T-ATA--TTATTTTTATATT
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTATATT
*
103925752 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAA-C
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
103925816 CTGATTTTGGCCCTTTCTTT
131 CTGATTTTGGCCCTTTCTTT
* * * *
103925836 GTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATACACTATTTTCGTATTTTATTTTTTATAT
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCATATTTTA-TTTTTATAT
*
103925901 TATTTTAGTACATAATGTTTTAAATATATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAA
65 TATTTTAGTACATAATGTTTCAAATATATTATTTTAGTG-TTTTTTATATTAATTTAGTAAATAA
103925966 CCCTGATTTTGGCCCTTTCTTT
129 CCCTGATTTTGGCCCTTTCTTT
* * *
103925988 GTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCTTATTTTATTTTTATATT
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTATATT
* *
103926053 ATTTTAGAACATAATGTTTCAAATATATTATTTTAATGTTTTTTATATTAATTTAGTAAATAACC
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
* *
103926118 TTGATTTTGGCCATTTCTTT
131 CTGATTTTGGCCCTTTCTTT
* **
103926138 GTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTTTTATTTTATTTTTTTATA
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCATATTTTA--TTTTTATA
* * * *
103926203 TTGTTTTAGTACGTAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAATAAATAA
64 TTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAA
* *
103926268 CCTTGATTTTGGCCCTTTGTTT
129 CCCTGATTTTGGCCCTTTCTTT
* * *
103926290 GTATTTTTAATATTTTC-AGATTTTATTTTTTAAAATATACTATTTTCGTA--GT-TTTTTATAT
1 GTATTTTTAAAATTTTCGA-ATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTATAT
*
103926351 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTATATA
65 TATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTT-TATA
103926400 AAAAACCTAA
Statistics
Matches: 638, Mismatches: 42, Indels: 42
0.88 0.06 0.06
Matches are distributed among these distances:
136 41 0.06
137 73 0.11
138 3 0.00
139 5 0.01
140 2 0.00
141 1 0.00
143 2 0.00
145 1 0.00
146 2 0.00
147 54 0.08
148 8 0.01
149 3 0.00
150 167 0.26
151 70 0.11
152 206 0.32
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (150 bp):
GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTATATT
ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
CTGATTTTGGCCCTTTCTTT
Found at i:103926284 original size:302 final size:299
Alignment explanation
Indices: 103925550--103926399 Score: 1237
Period size: 302 Copynumber: 2.9 Consensus size: 299
103925540 AAAAATTTTC
** * * * *
103925550 GTATTTTTAAAATTTTCTAATTTTATTTTTTAATATATACTATTTTCATATTTTATTTTTT-TAT
1 GTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATACACTATTTTCGTATTTTATTTTTTATAT
* *
103925614 TATTTTAGTACATAATGTTTCAAATATATTATTTTAGT-ATTTTTTATATTAATTTAGTAAATAA
66 TATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTTATATTAATTTAATAAATAA
* * * * *
103925678 CCCTGATTTTGACCATTTCTTTGTATTTTCAAAATTTT-TGAATTTTA-TTTT-CAAA-A-A-TA
131 CCCTGATTTTGGCCCTTTCTTTGTATTTTTAAAATTTTCAG-ATTTTATTTTTAAAAATATACTA
103925737 ------TATTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT
195 TTTTCGTATTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT
*
103925796 ATATTAATTTAGTAAATAACCTGATTTTGGCCCTTTCTTT
260 ATATTAATTTAGTAAATAACCTGATTTTGGCCATTTCTTT
103925836 GTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATACACTATTTTCGTATTTTATTTTTTATAT
1 GTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATACACTATTTTCGTATTTTATTTTTTATAT
* *
103925901 TATTTTAGTACATAATGTTTTAAATATATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAA
66 TATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTTATATTAATTTAATAAATAA
*
103925966 CCCTGATTTTGGCCCTTTCTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTAT
131 CCCTGATTTTGGCCCTTTCTTTGTATTTTTAAAATTTTCAGATTTTATTTTTAAAAATATACTAT
* * * *
103926031 TTTCTTATTTTATTTTTATATTATTTTAGAACATAATGTTTCAAATATATTATTTTAATGTTTTT
196 TTTCGTA--TTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTT
103926096 TATATTAATTTAGTAAATAACCTTGATTTTGGCCATTTCTTT
259 TATATTAATTTAGTAAATAACC-TGATTTTGGCCATTTCTTT
* * **
103926138 GTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTTTTATTTTATTTTTTTATA
1 GTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATACACTATTTTCGTATTTTA-TTTTTTATA
* * *
103926203 TTGTTTTAGTACGTAATGTTTCAAATGTATTATTTTAGTG-TTTTTTATATTAATTTAATAAATA
65 TTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTTATATTAATTTAATAAATA
* * * *
103926267 ACCTTGATTTTGGCCCTTTGTTTGTATTTTTAATATTTTCAGATTTTATTTTTTAAAATATACTA
130 ACCCTGATTTTGGCCCTTTCTTTGTATTTTTAAAATTTTCAGATTTTATTTTTAAAAATATACTA
*
103926332 TTTTCGTAGT-TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTA
195 TTTTCGTATTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTT-
103926396 TATA
259 TATA
103926400 AAAAACCTAA
Statistics
Matches: 509, Mismatches: 36, Indels: 24
0.89 0.06 0.04
Matches are distributed among these distances:
286 55 0.11
287 40 0.08
288 66 0.13
289 5 0.01
290 3 0.01
291 1 0.00
292 1 0.00
293 2 0.00
299 52 0.10
300 5 0.01
301 75 0.15
302 159 0.31
303 45 0.09
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (299 bp):
GTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATACACTATTTTCGTATTTTATTTTTTATAT
TATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTTATATTAATTTAATAAATAA
CCCTGATTTTGGCCCTTTCTTTGTATTTTTAAAATTTTCAGATTTTATTTTTAAAAATATACTAT
TTTCGTATTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
TATTAATTTAGTAAATAACCTGATTTTGGCCATTTCTTT
Found at i:103926595 original size:27 final size:27
Alignment explanation
Indices: 103926527--103926597 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
103926517 AGTATAGAAA
* * * *
103926527 AACCGGTGTCGCCTATGCCAGAGGTAC
1 AACCGGTGCCGCCTCTACCAGAGGCAC
103926554 AACCGGTGCCGCCTCTACCAGAGGCAC
1 AACCGGTGCCGCCTCTACCAGAGGCAC
*
103926581 AACCGGTGCCTCCTCTA
1 AACCGGTGCCGCCTCTA
103926598 GGACCCACAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.17
Consensus pattern (27 bp):
AACCGGTGCCGCCTCTACCAGAGGCAC
Found at i:103926638 original size:17 final size:17
Alignment explanation
Indices: 103926616--103926656 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
103926606 ACAACCCTCT
* *
103926616 TTTTTATTTTTTTTTTG
1 TTTTTACTTTTTTTTCG
103926633 TTTTTAACTTTTTTTTCG
1 TTTTT-ACTTTTTTTTCG
103926651 TTTTTA
1 TTTTTA
103926657 ACAAAAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTTTACTTTTTTTTCG
Found at i:103926644 original size:19 final size:18
Alignment explanation
Indices: 103926623--103926658 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
103926613 TCTTTTTTAT
*
103926623 TTTTTTTTTGTTTTTAAC
1 TTTTTTTTCGTTTTTAAC
103926641 TTTTTTTTCGTTTTTAAC
1 TTTTTTTTCGTTTTTAAC
103926659 AAAAAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.08, G:0.06, T:0.75
Consensus pattern (18 bp):
TTTTTTTTCGTTTTTAAC
Found at i:103936198 original size:12 final size:12
Alignment explanation
Indices: 103936181--103936205 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103936171 AAGTATATCA
103936181 GCTTTAGTTTTT
1 GCTTTAGTTTTT
103936193 GCTTTAGTTTTT
1 GCTTTAGTTTTT
103936205 G
1 G
103936206 AGGTATAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (12 bp):
GCTTTAGTTTTT
Found at i:103937234 original size:22 final size:24
Alignment explanation
Indices: 103937173--103937241 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 24
103937163 CTCGACTTTC
103937173 ATTTTCATATGCTTATCAAATATA
1 ATTTTCATATGCTTATCAAATATA
* *
103937197 AGTATT-ATAT--TAATCAAAT-T-
1 A-TTTTCATATGCTTATCAAATATA
103937217 ATTTTCATATGCTTATCAAATATA
1 ATTTTCATATGCTTATCAAATATA
103937241 A
1 A
103937242 GTATGTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
19 3 0.09
20 5 0.14
21 1 0.03
22 16 0.46
23 1 0.03
24 6 0.17
25 3 0.09
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (24 bp):
ATTTTCATATGCTTATCAAATATA
Found at i:103937600 original size:21 final size:21
Alignment explanation
Indices: 103937576--103937615 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
103937566 CGTGTCAATA
103937576 TTTA-ATTATAAATATTTAATT
1 TTTATATT-TAAATATTTAATT
103937597 TTTATATTTAAATATTTAA
1 TTTATATTTAAATATTTAA
103937616 ATATAGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTATATTTAAATATTTAATT
Found at i:103937892 original size:13 final size:13
Alignment explanation
Indices: 103937874--103937911 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
103937864 ACACTCAAAT
103937874 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
103937887 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
103937900 TTCTCAAAAGCA
1 TTCTCAAAAGCA
103937912 ATGAAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:103942656 original size:16 final size:17
Alignment explanation
Indices: 103942635--103942680 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
103942625 CGTAAATAGT
103942635 TAAAATAATTTAAAT-A
1 TAAAATAATTTAAATCA
* *
103942651 TAAAATAATTAAAATCT
1 TAAAATAATTTAAATCA
*
103942668 TAAAATGATTTAA
1 TAAAATAATTTAA
103942681 TTATGAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
TAAAATAATTTAAATCA
Found at i:103942713 original size:40 final size:40
Alignment explanation
Indices: 103942669--103942755 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
103942659 TTAAAATCTT
* *
103942669 AAAATGATTTAATTATGAATTGATATGAACATATAACAAA
1 AAAATCATTTAATTATAAATTGATATGAACATATAACAAA
* * *
103942709 AAAATCCTTTAATTATAAATTGATTTGAACATGTAACCAAA
1 AAAATCATTTAATTATAAATTGATATGAACATATAA-CAAA
*
103942750 ATAATC
1 AAAATC
103942756 CAAATTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 31 0.77
41 9 0.22
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.33
Consensus pattern (40 bp):
AAAATCATTTAATTATAAATTGATATGAACATATAACAAA
Found at i:103946744 original size:16 final size:16
Alignment explanation
Indices: 103946723--103946755 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
103946713 TAACTATAGT
103946723 ATTATCCAAGTGCATA
1 ATTATCCAAGTGCATA
103946739 ATTATCCAAGTGCATA
1 ATTATCCAAGTGCATA
103946755 A
1 A
103946756 CTAGTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (16 bp):
ATTATCCAAGTGCATA
Found at i:103947752 original size:19 final size:19
Alignment explanation
Indices: 103947728--103947766 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
103947718 CTTAAAACAT
103947728 AATAA-TTTCAATATCCAAC
1 AATAATTTTCAATAT-CAAC
103947747 AATAATTTTCAATATCAAC
1 AATAATTTTCAATATCAAC
103947766 A
1 A
103947767 TCCAACCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAATTTTCAATATCAAC
Found at i:103951489 original size:35 final size:35
Alignment explanation
Indices: 103951450--103951516 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
103951440 GTATGTTTTG
103951450 AAATGACCAAAATTGGTAT-G-TGTTAATGTATCTTT
1 AAATGACCAAAA-TGGTATGGTTGTT-ATGTATCTTT
*
103951485 AAATGGCCAAAATGGTATGGTTGTTATGTATC
1 AAATGACCAAAATGGTATGGTTGTTATGTATC
103951517 AATTATGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 6 0.21
35 19 0.66
36 4 0.14
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (35 bp):
AAATGACCAAAATGGTATGGTTGTTATGTATCTTT
Found at i:103953343 original size:46 final size:46
Alignment explanation
Indices: 103953290--103953377 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
103953280 ATATACACAC
* *
103953290 CTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCCAT
1 CTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATCCAT
* *
103953336 CTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
103953378 ATACACTTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATCCAT
Found at i:103953442 original size:47 final size:47
Alignment explanation
Indices: 103953351--103953448 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 47
103953341 ACACATTTCG
* * *
103953351 CATTAGCCATTCGGCTTTACCACATATATACACTTCCACGTTCATCA
1 CATTAGCCATTCGGCCTTACCACAAATATACACTTCCACATTCATCA
* * * *
103953398 CATTGGCCATTCGGCCTTATCACAAATATGCA-TGTTCACATTCATCA
1 CATTAGCCATTCGGCCTTACCACAAATATACACT-TCCACATTCATCA
103953445 CATT
1 CATT
103953449 TGCCTTGGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 1 0.02
47 42 0.98
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CATTAGCCATTCGGCCTTACCACAAATATACACTTCCACATTCATCA
Found at i:103959681 original size:10 final size:10
Alignment explanation
Indices: 103959664--103959703 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
103959654 TAATTTTAAG
103959664 ATTTATCTTT
1 ATTTATCTTT
*
103959674 AATTATCTTT
1 ATTTATCTTT
103959684 ATTTAT-TTGT
1 ATTTATCTT-T
103959694 ATTTATCTTT
1 ATTTATCTTT
103959704 TGGAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:103961582 original size:21 final size:21
Alignment explanation
Indices: 103961535--103961583 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
103961525 AAAAAAATGA
103961535 TTAGTAATTGATCTAAATTAT
1 TTAGTAATTGATCTAAATTAT
103961556 TT-GTAATT-ATTCTAAAATT-T
1 TTAGTAATTGA-TCT-AAATTAT
103961576 TTAGTAAT
1 TTAGTAAT
103961584 GTTTCGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.04
20 12 0.48
21 12 0.48
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (21 bp):
TTAGTAATTGATCTAAATTAT
Found at i:103973206 original size:25 final size:25
Alignment explanation
Indices: 103973178--103973247 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
103973168 CAGGCCCATT
103973178 TTCACAGCTTGTGTGAGCATTCTGA
1 TTCACAGCTTGTGTGAGCATTCTGA
* *
103973203 TTCATAGTTTGTGTGAGCATTCTGA
1 TTCACAGCTTGTGTGAGCATTCTGA
*
103973228 TTCACAGCTCGTGTGAGCAT
1 TTCACAGCTTGTGTGAGCAT
103973248 ACATGTACAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (25 bp):
TTCACAGCTTGTGTGAGCATTCTGA
Found at i:103991649 original size:30 final size:30
Alignment explanation
Indices: 103991615--103991695 Score: 110
Period size: 31 Copynumber: 2.7 Consensus size: 30
103991605 TTAATAGTCA
*
103991615 AGTGACTTAAATAATTTTTTTGAATAGTTT
1 AGTGACTCAAATAATTTTTTTGAATAGTTT
**
103991645 AGTGACTCAAATGAAAATTTTTGAATAGTTT
1 AGTGACTCAAAT-AATTTTTTTGAATAGTTT
*
103991676 AGTGAC-CAAATTATTTTTTT
1 AGTGACTCAAATAATTTTTTT
103991696 TCTTTAAATG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 6 0.14
30 16 0.36
31 22 0.50
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.46
Consensus pattern (30 bp):
AGTGACTCAAATAATTTTTTTGAATAGTTT
Found at i:103991696 original size:30 final size:31
Alignment explanation
Indices: 103991615--103991696 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
103991605 TTAATAGTCA
*
103991615 AGTGACTTAAAT-AATTTTTTTGAATAGTTT
1 AGTGACTCAAATGAATTTTTTTGAATAGTTT
**
103991645 AGTGACTCAAATGAAAATTTTTGAATAGTTT
1 AGTGACTCAAATGAATTTTTTTGAATAGTTT
* *
103991676 AGTGAC-CAAATTATTTTTTTT
1 AGTGACTCAAATGAATTTTTTT
103991697 CTTTAAATGA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 22 0.50
31 22 0.50
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.46
Consensus pattern (31 bp):
AGTGACTCAAATGAATTTTTTTGAATAGTTT
Found at i:104001049 original size:23 final size:23
Alignment explanation
Indices: 104001023--104001068 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
104001013 ACCAAAGTTA
104001023 GTCATTCTTTTTATGTTCTCGAG
1 GTCATTCTTTTTATGTTCTCGAG
104001046 GTCATTCTTTTTATGTTCTCGAG
1 GTCATTCTTTTTATGTTCTCGAG
104001069 ATTGACATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.17, G:0.17, T:0.52
Consensus pattern (23 bp):
GTCATTCTTTTTATGTTCTCGAG
Found at i:104005541 original size:4 final size:4
Alignment explanation
Indices: 104005534--104005585 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
104005524 GCTATATATA
104005534 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104005582 TATG
1 TATG
104005586 CATATTGACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:104010096 original size:40 final size:41
Alignment explanation
Indices: 104010019--104010100 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 41
104010009 TTAGCCCGTC
* *
104010019 AGCCAAATATACACATATATATATTTAATGAATGCTCAATTT
1 AGCCAAATATACACA-ATACACATTTAATGAATGCTCAATTT
104010061 AGCCAAATATACAC-ATACACATTTAATGAATGCTCAATTT
1 AGCCAAATATACACAATACACATTTAATGAATGCTCAATTT
104010101 GCAAGCATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 24 0.63
42 14 0.37
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (41 bp):
AGCCAAATATACACAATACACATTTAATGAATGCTCAATTT
Found at i:104015236 original size:15 final size:15
Alignment explanation
Indices: 104015216--104015253 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
104015206 TAAGACTTCA
104015216 AATTTAAACCAA-AAT
1 AATTTAAA-CAATAAT
104015231 AATTTAAA-AATAAT
1 AATTTAAACAATAAT
104015245 AATTTAAAC
1 AATTTAAAC
104015254 TGTCACATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (15 bp):
AATTTAAACAATAAT
Found at i:104022896 original size:13 final size:13
Alignment explanation
Indices: 104022880--104022909 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
104022870 ATTGTCATGT
104022880 AATTGTTTTTCTG
1 AATTGTTTTTCTG
104022893 AATTGTTTTTCTG
1 AATTGTTTTTCTG
104022906 AATT
1 AATT
104022910 TAGCTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:104023877 original size:82 final size:81
Alignment explanation
Indices: 104023786--104024035 Score: 187
Period size: 78 Copynumber: 3.1 Consensus size: 81
104023776 CATATAAGAA
104023786 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATG
1 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTATG
104023851 TTTAAATATGATTAAAT
65 TTTAAATATGATTAAAT
* * * * * * * * **
104023868 TATTTATTATT---CATATTAATAATCTTATCAAAATTTAA-ATAACA-ATAACAATAATAATT-
1 TATTAATTATTAAGAATTTTATTAA-ATTAT-ATATTTTAATATAATATAT-TTAATAATAATTA
**** * *
104023927 TACCAAAACA-AATT---T
63 TGTTTAAATATGATTAAAT
* * *
104023942 CTAGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTAT
1 -TATTAATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTAT
*
104024007 GTTTAAATATGATTAAAA
64 GTTTAAATATGATTAAAT
*
104024025 TATTTATTATT
1 TATTAATTATT
104024036 GATAATAATA
Statistics
Matches: 115, Mismatches: 38, Indels: 30
0.63 0.21 0.16
Matches are distributed among these distances:
74 1 0.01
75 9 0.08
76 7 0.06
77 7 0.06
78 29 0.25
79 29 0.25
80 7 0.06
81 7 0.06
82 19 0.17
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (81 bp):
TATTAATTATTAAGAATTTTATTAAATTATATATTTTAATATAATATATTTAATAATAATTATGT
TTAAATATGATTAAAT
Found at i:104023955 original size:157 final size:157
Alignment explanation
Indices: 104023789--104024098 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
104023779 ATAAGAATAT
*
104023789 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
104023854 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
104023919 TAATAATTTACCAAAACAAATTTCTAG
131 TAATAATTTACCAAAACAAATTTCTAG
* *
104023946 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
104024011 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
104024076 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
104024099 ATGCTAAGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTAG
Found at i:104024249 original size:16 final size:16
Alignment explanation
Indices: 104024228--104024295 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
104024218 GATTTGCTAT
104024228 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
104024244 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
*
104024260 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
104024276 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
104024292 TACA
1 TACA
104024296 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:104027135 original size:19 final size:19
Alignment explanation
Indices: 104027111--104027151 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
104027101 AAATTTTAAT
104027111 ATTATAT-A-ATTACTTTA
1 ATTATATAAGATTACTTTA
*
104027128 ATTATATAAGATTACTTTT
1 ATTATATAAGATTACTTTA
104027147 ATTAT
1 ATTAT
104027152 TATTTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 1 0.05
19 13 0.62
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTATATAAGATTACTTTA
Found at i:104027598 original size:20 final size:20
Alignment explanation
Indices: 104027570--104027619 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
104027560 AAATATAACT
*
104027570 TTTAA-TATTATGT-AATTAC
1 TTTAATTATTATATGAATT-C
104027589 TTTAATTATTATATGAATTC
1 TTTAATTATTATATGAATTC
*
104027609 TTTTATTATTA
1 TTTAATTATTA
104027620 AGATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 18 0.67
21 4 0.15
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTAATTATTATATGAATTC
Found at i:104028213 original size:3 final size:3
Alignment explanation
Indices: 104028207--104028235 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
104028197 ATTATTATTA
104028207 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
104028236 TTGAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:104035202 original size:29 final size:30
Alignment explanation
Indices: 104035169--104035229 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
104035159 TAAATTAGTG
* *
104035169 ATGAT-AAAATTATATTTTGATCCT-TAAAA
1 ATGATAAAAATT-TAATTTAATCCTCTAAAA
104035198 ATGATAAAAATTTAATTTAATCCTCTAAAA
1 ATGATAAAAATTTAATTTAATCCTCTAAAA
104035228 AT
1 AT
104035230 TATAGAGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (30 bp):
ATGATAAAAATTTAATTTAATCCTCTAAAA
Found at i:104039951 original size:54 final size:54
Alignment explanation
Indices: 104039860--104039966 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
104039850 TTGTATGACC
* * * *
104039860 CAAGTCAGTGAGTTATACGGGCTGAGACACAGGCTGGGACACGGTCGTGTGTCT
1 CAAGTCAGTGAGTTACACGGGCAGAGACACAGGCTGGGACACGGCCATGTGTCT
* *
104039914 CAAGTCAGTGAGTTACACGGGCA-AGGATAC-GGACTGGGTCACGGCCATGTGTC
1 CAAGTCAGTGAGTTACACGGGCAGA-GACACAGG-CTGGGACACGGCCATGTGTC
104039967 CCCTATTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 3 0.07
54 42 0.93
ACGTcount: A:0.23, C:0.21, G:0.35, T:0.21
Consensus pattern (54 bp):
CAAGTCAGTGAGTTACACGGGCAGAGACACAGGCTGGGACACGGCCATGTGTCT
Found at i:104040185 original size:15 final size:15
Alignment explanation
Indices: 104040165--104040200 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
104040155 ATCGAAAGTA
104040165 GAAGTAGTAGTAGTC
1 GAAGTAGTAGTAGTC
104040180 GAAGTAGTAGTAGTC
1 GAAGTAGTAGTAGTC
104040195 GAAGTA
1 GAAGTA
104040201 TGGTTCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (15 bp):
GAAGTAGTAGTAGTC
Found at i:104041083 original size:18 final size:19
Alignment explanation
Indices: 104041062--104041098 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
104041052 TTTTTTAAAA
104041062 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
104041080 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
104041099 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:104041138 original size:20 final size:20
Alignment explanation
Indices: 104041053--104041138 Score: 86
Period size: 20 Copynumber: 4.2 Consensus size: 20
104041043 TTTAGAATTT
*
104041053 TTTTTAAAATATAAATTTTAGAA
1 TTTTTAAAA-AT-TATTTT-GAA
*
104041076 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
104041095 -TTTTAAAAATTATTTTCAA
1 TTTTTAAAAATTATTTTGAA
* *
104041114 ATTTTAAAAATTACTTTGAA
1 TTTTTAAAAATTATTTTGAA
104041134 TTTTT
1 TTTTT
104041139 TTTTGTAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.15
19 11 0.20
20 26 0.48
22 1 0.02
23 8 0.15
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:104048977 original size:6 final size:6
Alignment explanation
Indices: 104048966--104049021 Score: 85
Period size: 6 Copynumber: 9.3 Consensus size: 6
104048956 GAAACCAGAA
* *
104048966 CCGGAG CTGGAG CCGGAG CCGGAG CCGGAG CCGGAG CCGGAT CCGGAG
1 CCGGAG CCGGAG CCGGAG CCGGAG CCGGAG CCGGAG CCGGAG CCGGAG
*
104049014 CTGGAG CC
1 CCGGAG CC
104049022 ACTGCTTCAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.16, C:0.32, G:0.46, T:0.05
Consensus pattern (6 bp):
CCGGAG
Found at i:104050165 original size:11 final size:10
Alignment explanation
Indices: 104050118--104050165 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
104050108 AAAAAATTAG
*
104050118 GGAAAAAAGA
1 GGAAAGAAGA
104050128 GGGAAAGAAGA
1 -GGAAAGAAGA
*
104050139 GGAAAGATGA
1 GGAAAGAAGA
104050149 -GAAAGAAGAA
1 GGAAAGAAG-A
104050159 GGAAAGA
1 GGAAAGA
104050166 TATGCAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 7 0.22
10 10 0.31
11 15 0.47
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (10 bp):
GGAAAGAAGA
Found at i:104050619 original size:18 final size:17
Alignment explanation
Indices: 104050592--104050626 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
104050582 ACAACTTTAT
104050592 TTAATAATTAATTAAAA
1 TTAATAATTAATTAAAA
104050609 TTAATTAATTAATTAAAA
1 TTAA-TAATTAATTAAAA
104050627 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATAATTAATTAAAA
Found at i:104056802 original size:21 final size:18
Alignment explanation
Indices: 104056760--104056805 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 18
104056750 TAAGATTTTG
*
104056760 AGTTTGAGTTCAAGTTAA
1 AGTTTGAGTTAAAGTTAA
104056778 AGTTTGAGGTTAAAGGTTAAA
1 AGTTTGA-GTTAAA-GTT-AA
104056799 AGTTTGA
1 AGTTTGA
104056806 AGTTTAGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 7 0.29
19 5 0.21
20 3 0.12
21 9 0.38
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (18 bp):
AGTTTGAGTTAAAGTTAA
Found at i:104057554 original size:18 final size:17
Alignment explanation
Indices: 104057531--104057569 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
104057521 AAACCTTGTT
104057531 TTTTAAAGCTTATATATA
1 TTTTAAAGCTTATAT-TA
**
104057549 TTTTAAATTTTATATTA
1 TTTTAAAGCTTATATTA
104057566 TTTT
1 TTTT
104057570 GACTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTAAAGCTTATATTA
Found at i:104058499 original size:34 final size:34
Alignment explanation
Indices: 104058439--104058518 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
104058429 TGGCTCTTCG
* *
104058439 AAATATAAGATTATATTTCGTAATAAGATTACCT
1 AAATATAAGATTATATGTCGAAATAAGATTACCT
* *
104058473 AAATATAAGATTATA-GTGGAATATAAGATTATCT
1 AAATATAAGATTATATGTCGAA-ATAAGATTACCT
* *
104058507 CAATGTAAGATT
1 AAATATAAGATT
104058519 CATGTGTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 3 0.08
34 36 0.92
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (34 bp):
AAATATAAGATTATATGTCGAAATAAGATTACCT
Found at i:104070077 original size:63 final size:61
Alignment explanation
Indices: 104069920--104070112 Score: 197
Period size: 63 Copynumber: 3.1 Consensus size: 61
104069910 ACGGTGCTTC
* * *
104069920 CTTCCTCCACGAGAAGCGGTCCGGTACTCGAATCCTTAGCTTTGGCTTCAGTATGCTCAGGTT
1 CTTCCTCCACGAGAAGC-GTTCGGTACTCAAATCC-TAGCTTTGGCTTCAGTATGATCAGGTT
* * * * * * *
104069983 CTTCCTCCGCAACAAGCATTCTGGTACTCAAATCCTCACCTTTGGCTTCAGTAGGATCAGGTA
1 CTTCCTCCACGAGAAGCGTTC-GGTACTCAAATCCT-AGCTTTGGCTTCAGTATGATCAGGTT
* * * * *
104070046 CTTCCTCCATGGGAAGCTGTTCGGTAGTCAAATCCATAGCTTTGGGTTCACTATGATCAGGTT
1 CTTCCTCCACGAGAAGC-GTTCGGTACTCAAATCC-TAGCTTTGGCTTCAGTATGATCAGGTT
104070109 CTTC
1 CTTC
104070113 TGTCTTGTAT
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
62 3 0.03
63 97 0.93
64 4 0.04
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (61 bp):
CTTCCTCCACGAGAAGCGTTCGGTACTCAAATCCTAGCTTTGGCTTCAGTATGATCAGGTT
Found at i:104076002 original size:10 final size:10
Alignment explanation
Indices: 104075963--104076010 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
104075953 AATTTAATTT
104075963 TTTTCTTTTA
1 TTTTCTTTTA
*
104075973 TTTTTATTTTTAA
1 -TTTT-CTTTT-A
*
104075986 CTTTCTTTTA
1 TTTTCTTTTA
104075996 TTTTCTTTTA
1 TTTTCTTTTA
104076006 TTTTC
1 TTTTC
104076011 CATTCTCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 15 0.48
11 8 0.26
12 7 0.23
13 1 0.03
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:104077074 original size:16 final size:16
Alignment explanation
Indices: 104077053--104077084 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
104077043 AATAGAGTTG
104077053 TCGATTGAGTCTTAAT
1 TCGATTGAGTCTTAAT
104077069 TCGATTGAGTCTTAAT
1 TCGATTGAGTCTTAAT
104077085 GGGCTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (16 bp):
TCGATTGAGTCTTAAT
Found at i:104095366 original size:31 final size:31
Alignment explanation
Indices: 104095324--104095384 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
104095314 ATGGTCATTG
104095324 AACTATCCAAAAGTTTTCATTGAAGTCACTA
1 AACTATCCAAAAGTTTTCATTGAAGTCACTA
* * *
104095355 AACTATTCAAAAGTTTTTATTTAAGTCACT
1 AACTATCCAAAAGTTTTCATTGAAGTCACT
104095385 GGGTTGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (31 bp):
AACTATCCAAAAGTTTTCATTGAAGTCACTA
Found at i:104100137 original size:18 final size:17
Alignment explanation
Indices: 104100114--104100153 Score: 71
Period size: 18 Copynumber: 2.3 Consensus size: 17
104100104 TTATGGCAAA
104100114 TTTTCTAGCAGGGATCG
1 TTTTCTAGCAGGGATCG
104100131 CTTTTCTAGCAGGGATCG
1 -TTTTCTAGCAGGGATCG
104100149 TTTTC
1 TTTTC
104100154 CACGAGGCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (17 bp):
TTTTCTAGCAGGGATCG
Found at i:104106955 original size:6 final size:6
Alignment explanation
Indices: 104106946--104106978 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
104106936 TCATGATGAT
*
104106946 TATCTC TATCTC TATCTT TATCTC TATCTC TAT
1 TATCTC TATCTC TATCTC TATCTC TATCTC TAT
104106979 ACCTATCGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.55
Consensus pattern (6 bp):
TATCTC
Found at i:104110637 original size:23 final size:23
Alignment explanation
Indices: 104110595--104110638 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
104110585 CTTGTATCAG
*
104110595 TTTAGTTTAAATTCATTTTATCT
1 TTTAGTTTAAATTCACTTTATCT
*
104110618 TTTAGTTTAAATTTACTTTAT
1 TTTAGTTTAAATTCACTTTAT
104110639 TTTATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTAGTTTAAATTCACTTTATCT
Found at i:104110642 original size:16 final size:15
Alignment explanation
Indices: 104110618--104110688 Score: 58
Period size: 16 Copynumber: 4.7 Consensus size: 15
104110608 CATTTTATCT
*
104110618 TTTAGTTTAAATTTA
1 TTTATTTTAAATTTA
*
104110633 CTTTATTTTATATTTA
1 -TTTATTTTAAATTTA
* *
104110649 -AT-TTTTAAATTTG
1 TTTATTTTAAATTTA
104110662 TGTTA-TTTAAATTTTA
1 T-TTATTTTAAA-TTTA
104110678 TTTATTTTAAA
1 TTTATTTTAAA
104110689 AACCTATAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
13 9 0.21
14 1 0.02
15 10 0.23
16 23 0.53
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (15 bp):
TTTATTTTAAATTTA
Found at i:104110838 original size:19 final size:19
Alignment explanation
Indices: 104110798--104110834 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
104110788 AATTAGCTAT
*
104110798 TAATTAATTTAATATAATA
1 TAATTAATTTAAAATAATA
104110817 TAATTAA-TTAAAATAATA
1 TAATTAATTTAAAATAATA
104110835 ATAAAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATTAATTTAAAATAATA
Found at i:104116138 original size:33 final size:33
Alignment explanation
Indices: 104116068--104116151 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
104116058 CTGGATGAGT
* *
104116068 GGAGTACGGCGGTGGATATGGGTCAGGAGTAGT
1 GGAGTACGGCGGTGGATATGGGTCAGGAGGAGC
* * *
104116101 GGAGTATGGTGGTGGATATGGG-CCGGAAGGAGC
1 GGAGTACGGCGGTGGATATGGGTCAGG-AGGAGC
* *
104116134 GGAGTACTGAGGTGGATA
1 GGAGTACGGCGGTGGATA
104116152 CGAGCAGGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 3 0.07
33 39 0.93
ACGTcount: A:0.23, C:0.08, G:0.49, T:0.20
Consensus pattern (33 bp):
GGAGTACGGCGGTGGATATGGGTCAGGAGGAGC
Found at i:104118054 original size:16 final size:16
Alignment explanation
Indices: 104118033--104118075 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
104118023 AAAATAAAAT
*
104118033 AAAATTATATTATATA
1 AAAATTACATTATATA
104118049 AAAATTACATTATATA
1 AAAATTACATTATATA
*
104118065 TAAATTACATT
1 AAAATTACATT
104118076 TAAAAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTACATTATATA
Found at i:104118183 original size:96 final size:102
Alignment explanation
Indices: 104118066--104118316 Score: 306
Period size: 96 Copynumber: 2.5 Consensus size: 102
104118056 CATTATATAT
* *
104118066 AAATTACATT--TAAAAAGTCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA-CG
1 AAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCA
* * *
104118128 TAAATTGCTAACAAAATAACTAT-AA-T-TTTTTTT-
66 AAAAGTACTAACAAAATAACTATAAATTATTTTTTTA
*
104118161 AAA-TACATTACTAAAAAATCACAAAACA-AATAACTAAACACTAACAATTTATATAACCTAATC
1 AAATTACATTACTAAAAAATCACAAAACACTA-AACTAAACACTAACAATTTATATAACCTAATC
*
104118224 AAAAAGTATTAACAAAATAACTATACAATTATTTTTTTAA
65 AAAAAGTACTAACAAAATAACTATA-AATTATTTTTTT-A
*
104118264 AAATTTACATTACTAAAAAAATCACAAAATC-CTATACTAAACACTAACAATTT
1 AAA-TTACATTACT-AAAAAATCACAAAA-CACTAAACTAAACACTAACAATTT
104118317 GTAACCTAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
94 6 0.05
95 4 0.03
96 46 0.35
97 20 0.15
99 2 0.02
100 1 0.01
101 7 0.05
103 3 0.02
105 9 0.07
106 32 0.24
107 2 0.02
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.30
Consensus pattern (102 bp):
AAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCA
AAAAGTACTAACAAAATAACTATAAATTATTTTTTTA
Found at i:104118303 original size:106 final size:96
Alignment explanation
Indices: 104118076--104118349 Score: 311
Period size: 106 Copynumber: 2.7 Consensus size: 96
104118066 AAATTACATT
* * * **
104118076 TAAAAAGTCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA-CGTAAATTGCTAAC
1 TAAAAAATCACAAAAC-CTATACTAAACACTAACAATTTATATAACCTAATCATAAATTATTAAC
104118140 AAAATAACTATAATTTTTTTTAAATACATTAC
65 AAAATAACTATAATTTTTTTTAAATACATTAC
** * *
104118172 TAAAAAATCACAAAACAAATAACTAAACACTAACAATTTATATAACCTAATCAAAAAGTATTAAC
1 TAAAAAATCACAAAACCTAT-ACTAAACACTAACAATTTATATAACCTAATCATAAATTATTAAC
104118237 AAAATAACTATACAATTATTTTTTTAAAAATTTACATTAC
65 AAAATAACTAT--AA-T-TTTTTTT--AAA--TACATTAC
*
104118277 TAAAAAAATCACAAAATCCTATACTAAACACTAACAA-TT-TGTAACCTAATCCCATAAATTATT
1 T-AAAAAATCACAAAA-CCTATACTAAACACTAACAATTTATATAACCTAAT--CATAAATTATT
104118340 AACAAAATAA
62 AACAAAATAA
104118350 ATAACTATAA
Statistics
Matches: 150, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
95 1 0.01
96 44 0.29
97 20 0.13
99 2 0.01
100 1 0.01
101 7 0.05
103 3 0.02
104 10 0.07
105 11 0.07
106 48 0.32
107 3 0.02
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (96 bp):
TAAAAAATCACAAAACCTATACTAAACACTAACAATTTATATAACCTAATCATAAATTATTAACA
AAATAACTATAATTTTTTTTAAATACATTAC
Found at i:104118431 original size:34 final size:34
Alignment explanation
Indices: 104118392--104118504 Score: 111
Period size: 34 Copynumber: 3.2 Consensus size: 34
104118382 TTATAATAAA
104118392 ATTACTAACAAAATATTTAACAAAATAATTTTAT
1 ATTACTAACAAAATATTTAACAAAATAATTTTAT
* *** * *
104118426 ATTACTAA-AAACTCACAAAACACAACAATTTATAAT
1 ATTACTAACAAAAT-ATTTAACAAAATAATTT-T-AT
*
104118462 AAATTACTAACAAAATATTTAACAAAATAATTTTAC
1 --ATTACTAACAAAATATTTAACAAAATAATTTTAT
104118498 ATTACTA
1 ATTACTA
104118505 TAAACTCACC
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
33 4 0.07
34 27 0.45
35 1 0.02
36 3 0.05
37 1 0.02
38 20 0.33
39 4 0.07
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (34 bp):
ATTACTAACAAAATATTTAACAAAATAATTTTAT
Found at i:104118445 original size:41 final size:41
Alignment explanation
Indices: 104118399--104118521 Score: 97
Period size: 41 Copynumber: 3.2 Consensus size: 41
104118389 AAAATTACTA
104118399 ACAAAATATTTAACAAAATAATTTTATATTACTAAAAACTC
1 ACAAAATATTTAACAAAATAATTTTATATTACTAAAAACTC
* * * *
104118440 AC---A-A---AACACAACAA-TTTATA--A-TAAATTACTA
1 ACAAAATATTTAACAAAATAATTTTATATTACTAAA-AACTC
* *
104118471 ACAAAATATTTAACAAAATAATTTTACATTACTATAAACTC
1 ACAAAATATTTAACAAAATAATTTTATATTACTAAAAACTC
*
104118512 ACCAAATATT
1 ACAAAATATT
104118522 AAACTAAACA
Statistics
Matches: 59, Mismatches: 11, Indels: 24
0.63 0.12 0.26
Matches are distributed among these distances:
30 4 0.07
31 6 0.10
33 6 0.10
34 9 0.15
35 1 0.02
37 1 0.02
38 9 0.15
39 5 0.08
41 15 0.25
42 3 0.05
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.32
Consensus pattern (41 bp):
ACAAAATATTTAACAAAATAATTTTATATTACTAAAAACTC
Found at i:104118474 original size:72 final size:74
Alignment explanation
Indices: 104118365--104118513 Score: 257
Period size: 72 Copynumber: 2.0 Consensus size: 74
104118355 TATAACAAGA
*
104118365 CACAAAACACTAAAAATTTATAATAAAATTACTAACAAAATATTTAACAAAATAATTTTATATTA
1 CACAAAACACTAAAAATTTATAATAAAATTACTAACAAAATATTTAACAAAATAATTTTACATTA
104118430 CTAAAAACT
66 CTAAAAACT
*
104118439 CACAAAACAC-AACAATTTATAAT-AAATTACTAACAAAATATTTAACAAAATAATTTTACATTA
1 CACAAAACACTAAAAATTTATAATAAAATTACTAACAAAATATTTAACAAAATAATTTTACATTA
*
104118502 CTATAAACT
66 CTAAAAACT
104118511 CAC
1 CAC
104118514 CAAATATTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
72 50 0.69
73 12 0.17
74 10 0.14
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (74 bp):
CACAAAACACTAAAAATTTATAATAAAATTACTAACAAAATATTTAACAAAATAATTTTACATTA
CTAAAAACT
Found at i:104118590 original size:59 final size:60
Alignment explanation
Indices: 104118527--104118644 Score: 193
Period size: 59 Copynumber: 2.0 Consensus size: 60
104118517 ATATTAAACT
* *
104118527 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTT-AAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
* *
104118586 AAACACAAAAATTTATAATATAATCCTAAATTACTAACAAATTAGTTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
104118645 TAAAAAACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
59 45 0.83
60 9 0.17
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:104119176 original size:24 final size:24
Alignment explanation
Indices: 104119143--104119195 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
104119133 TATTTTTAAT
* *
104119143 AAAAATAAAATAATATTTT-ATTTA
1 AAAAACAAAA-AATATTTTAATGTA
104119167 AAAAACAAAAAATATTTTAATGTA
1 AAAAACAAAAAATATTTTAATGTA
104119191 AAAAA
1 AAAAA
104119196 GGTGTTGTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
AAAAACAAAAAATATTTTAATGTA
Found at i:104119516 original size:7 final size:7
Alignment explanation
Indices: 104119504--104119537 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
104119494 AGCTACTACA
104119504 ATCAACT
1 ATCAACT
104119511 ATCAACT
1 ATCAACT
104119518 ATCAACT
1 ATCAACT
104119525 ATCAACT
1 ATCAACT
104119532 ATCAAC
1 ATCAAC
104119538 CACTTTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (7 bp):
ATCAACT
Found at i:104121868 original size:23 final size:23
Alignment explanation
Indices: 104121840--104121885 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
104121830 TGTTCCATAG
104121840 TTGGACAAAGATTGAAAATAGTT
1 TTGGACAAAGATTGAAAATAGTT
104121863 TTGGACAAAGATTGAAAATAGTT
1 TTGGACAAAGATTGAAAATAGTT
104121886 GTTCTCCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.30
Consensus pattern (23 bp):
TTGGACAAAGATTGAAAATAGTT
Found at i:104126647 original size:5 final size:5
Alignment explanation
Indices: 104126637--104126669 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
104126627 AATATTAAGC
104126637 TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
104126670 GCTTCCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:104130810 original size:5 final size:5
Alignment explanation
Indices: 104130800--104130824 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
104130790 AAGGTATGGT
104130800 TTGTA TTGTA TTGTA TTGTA TTGTA
1 TTGTA TTGTA TTGTA TTGTA TTGTA
104130825 ATCTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TTGTA
Found at i:104131580 original size:24 final size:22
Alignment explanation
Indices: 104131541--104131585 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
104131531 ATGAAATTTT
* *
104131541 AAAAAAAATTACATTTCAATAC
1 AAAAAAAATTAAATTTAAATAC
104131563 AAAATAAAATTGAAATTTAAATA
1 AAAA-AAAATT-AAATTTAAATA
104131586 ATATTGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 6 0.32
24 9 0.47
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAAAAATTAAATTTAAATAC
Found at i:104136499 original size:23 final size:24
Alignment explanation
Indices: 104136455--104136500 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
104136445 ATTTATTTTA
104136455 ATATTTTTAGTATTTTTGATATATT
1 ATATTTTTA-TATTTTTGATATATT
*
104136480 ATATTTTT-TATTTTTTATATA
1 ATATTTTTATATTTTTGATATA
104136501 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
25 8 0.40
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (24 bp):
ATATTTTTATATTTTTGATATATT
Found at i:104144139 original size:18 final size:18
Alignment explanation
Indices: 104144116--104144152 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
104144106 CACCGTTGAG
104144116 GTGAATTAGAATAAGGGA
1 GTGAATTAGAATAAGGGA
104144134 GTGAATTAGAATAAGGGA
1 GTGAATTAGAATAAGGGA
104144152 G
1 G
104144153 CAGGCAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.22
Consensus pattern (18 bp):
GTGAATTAGAATAAGGGA
Found at i:104145238 original size:73 final size:73
Alignment explanation
Indices: 104145156--104145341 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
104145146 TATTATTATT
*
104145156 TGGATGTAATGAAGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
104145221 ATTTTAAG
66 ATTTTAAG
104145229 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
104145294 ATTTTAAG
66 ATTTTAAG
*
104145302 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
104145342 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 111 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:104148340 original size:21 final size:21
Alignment explanation
Indices: 104148302--104148341 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
104148292 CCTTAGCGCA
* * *
104148302 ATTGGGTCATTGCGAGATGAC
1 ATTGGCTCATTACAAGATGAC
104148323 ATTGGCTCATTACAAGATG
1 ATTGGCTCATTACAAGATG
104148342 CAGTTAGTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (21 bp):
ATTGGCTCATTACAAGATGAC
Found at i:104149900 original size:13 final size:13
Alignment explanation
Indices: 104149882--104149906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104149872 CAACCGTGCG
104149882 CGGTGGCCGGCGA
1 CGGTGGCCGGCGA
104149895 CGGTGGCCGGCG
1 CGGTGGCCGGCG
104149907 GCAGACGGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.32, G:0.56, T:0.08
Consensus pattern (13 bp):
CGGTGGCCGGCGA
Found at i:104150656 original size:3 final size:3
Alignment explanation
Indices: 104150637--104150722 Score: 50
Period size: 3 Copynumber: 28.7 Consensus size: 3
104150627 ACATTATTTA
* * * * * *
104150637 TAT TAT TTT TAT GAT TAT TAT T-G TATT TAT TTT TAC TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * *
104150682 TA- TATT TAT TAT TAG TAT TAG TGT TAT AAT TAT TAT TAT TA
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
104150723 CTCTTATATG
Statistics
Matches: 61, Mismatches: 18, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
2 3 0.05
3 54 0.89
4 4 0.07
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:104150688 original size:24 final size:23
Alignment explanation
Indices: 104150629--104150691 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 23
104150619 TCATGTGCAC
*
104150629 ATTATTTATATTATTTTTATGATT
1 ATTATTTAT-TTATTTTTATGACT
104150653 ATTATTGTATTTATTTTTACT-ACT
1 ATTATT-TATTTATTTTTA-TGACT
104150677 ATTATTATATTTATT
1 ATTATT-TATTTATT
104150692 ATTAGTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 31 0.89
25 4 0.11
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (23 bp):
ATTATTTATTTATTTTTATGACT
Found at i:104150729 original size:21 final size:21
Alignment explanation
Indices: 104150689--104150730 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
104150679 TATTATATTT
* *
104150689 ATTATTAGTATTAGTGTTATA
1 ATTATTAGTATTACTCTTATA
*
104150710 ATTATTATTATTACTCTTATA
1 ATTATTAGTATTACTCTTATA
104150731 TGTATATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTAGTATTACTCTTATA
Found at i:104150943 original size:25 final size:25
Alignment explanation
Indices: 104150891--104150961 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
104150881 ACATGTATGT
*
104150891 ATTA-TATATATTTTTTAATA-CTAT
1 ATTATTATATA-TTTTTAATATCTAC
104150915 ATTATGTATATATTTTTAATATC-AC
1 ATTAT-TATATATTTTTAATATCTAC
*
104150940 ATTATTCATATATTTTTTATAT
1 ATTATT-ATATATTTTTAATAT
104150962 TATCCCATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 5 0.12
25 29 0.71
26 7 0.17
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (25 bp):
ATTATTATATATTTTTAATATCTAC
Found at i:104150956 original size:50 final size:49
Alignment explanation
Indices: 104150896--104151035 Score: 140
Period size: 50 Copynumber: 2.8 Consensus size: 49
104150886 TATGTATTAT
* *
104150896 ATATATTTTTTAATACTATATTATGTATATATTTTTAATA-TCACATTATTC
1 ATATA-TTTTT-ATACTATATTATGTATATACTTTTAATACT-ACATTATGC
* *** * *
104150947 ATATATTTTTTATATTATCCCATGTAAATACTTTCAATACTACATTATGC
1 ATATA-TTTTTATACTATATTATGTATATACTTTTAATACTACATTATGC
* *
104150997 ATATATTTTTGT-CTATATTATATATATACTTTTAATACT
1 ATATATTTTTATACTATATTATGTATATACTTTTAATACT
104151036 CAATACTATT
Statistics
Matches: 72, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
48 20 0.28
49 6 0.08
50 34 0.47
51 12 0.17
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.52
Consensus pattern (49 bp):
ATATATTTTTATACTATATTATGTATATACTTTTAATACTACATTATGC
Found at i:104151577 original size:22 final size:22
Alignment explanation
Indices: 104151552--104151605 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
104151542 TTTAATATTG
** *
104151552 TATTTTTATTATTATGTATATA
1 TATTTTTATTACCACGTATATA
* *
104151574 TATTCTTAATACCACGTATATA
1 TATTTTTATTACCACGTATATA
*
104151596 TTTTTTTATT
1 TATTTTTATT
104151606 TCTATTATTA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (22 bp):
TATTTTTATTACCACGTATATA
Found at i:104151840 original size:15 final size:15
Alignment explanation
Indices: 104151820--104151850 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
104151810 TTATTATCGT
104151820 TTTATACTATTATTA
1 TTTATACTATTATTA
*
104151835 TTTATATTATTATTA
1 TTTATACTATTATTA
104151850 T
1 T
104151851 CGTTTTCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTATACTATTATTA
Found at i:104151907 original size:14 final size:14
Alignment explanation
Indices: 104151888--104151914 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
104151878 TTTGCCATGT
104151888 TTTATTTATTTATA
1 TTTATTTATTTATA
104151902 TTTATTTATTTAT
1 TTTATTTATTTAT
104151915 TTACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTATTTATA
Found at i:104153597 original size:20 final size:18
Alignment explanation
Indices: 104153565--104153619 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
104153555 CTCTCAATAA
*
104153565 AAATTATAAAAAAAAATC
1 AAATTTTAAAAAAAAATC
* *
104153583 AAAATATTTATAAAAAATTC
1 -AAAT-TTTAAAAAAAAATC
104153603 AAATTTTAAAAAAAAAT
1 AAATTTTAAAAAAAAAT
104153620 TTAAAAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 11 0.37
19 8 0.27
20 11 0.37
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATTTTAAAAAAAAATC
Found at i:104153610 original size:18 final size:19
Alignment explanation
Indices: 104153573--104153617 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
104153563 AAAAATTATA
104153573 AAAAAAAATCAAAATATTT
1 AAAAAAAATCAAAATATTT
*
104153592 ATAAAAAATTC-AAAT-TTT
1 A-AAAAAAATCAAAATATTT
104153610 AAAAAAAA
1 AAAAAAAA
104153618 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 6 0.26
18 4 0.17
19 5 0.22
20 8 0.35
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAAAAATCAAAATATTT
Found at i:104153617 original size:19 final size:20
Alignment explanation
Indices: 104153564--104153625 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
104153554 TCTCTCAATA
*
104153564 AAAATTATAAAAAAAAA-TC
1 AAAATTTTAAAAAAAAATTC
*
104153583 AAAATATTT-ATAAAAAATTC
1 AAAAT-TTTAAAAAAAAATTC
*
104153603 -AAATTTTAAAAAAAAATTT
1 AAAATTTTAAAAAAAAATTC
104153622 AAAA
1 AAAA
104153626 AAATTCTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.09
19 25 0.71
20 7 0.20
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATTTTAAAAAAAAATTC
Found at i:104154139 original size:32 final size:32
Alignment explanation
Indices: 104154103--104154167 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
104154093 TTGACAAAAG
** *
104154103 TTATACATTTTGGTACCTGAAGATAGCAATAT
1 TTATACATTTTGGTACCCAAAGATAACAATAT
104154135 TTATACATTTTGGTACCCAAAGATAACAATAT
1 TTATACATTTTGGTACCCAAAGATAACAATAT
104154167 T
1 T
104154168 AACTTTTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (32 bp):
TTATACATTTTGGTACCCAAAGATAACAATAT
Found at i:104155082 original size:9 final size:9
Alignment explanation
Indices: 104155050--104155102 Score: 65
Period size: 9 Copynumber: 6.0 Consensus size: 9
104155040 TCATTTTCTG
104155050 TTATT-TAT
1 TTATTATAT
104155058 TTATTATA-
1 TTATTATAT
*
104155066 ATATTTATAT
1 TTA-TTATAT
104155076 TTATTATAT
1 TTATTATAT
*
104155085 TTATTGTAT
1 TTATTATAT
104155094 TTATTATAT
1 TTATTATAT
104155103 GTCTTAGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
8 7 0.18
9 29 0.76
10 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (9 bp):
TTATTATAT
Found at i:104155200 original size:24 final size:26
Alignment explanation
Indices: 104155153--104155219 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 26
104155143 TATACTTATG
* *
104155153 TATTATATTATATATGTAATTTTT-T
1 TATTATATTATATATATAATTTTTAA
*
104155178 TA-TATATTATATATAT-GTGTTTTAA
1 TATTATATTATATATATAAT-TTTTAA
*
104155203 TATTATGTTATATATAT
1 TATTATATTATATATAT
104155220 TATATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.03
24 17 0.49
25 4 0.11
26 13 0.37
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (26 bp):
TATTATATTATATATATAATTTTTAA
Found at i:104155696 original size:12 final size:13
Alignment explanation
Indices: 104155681--104155709 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
104155671 TTATCGTGTA
104155681 TATTTTTATTTT-
1 TATTTTTATTTTC
104155693 TATTTTTATTTTC
1 TATTTTTATTTTC
104155706 TATT
1 TATT
104155710 AACCTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (13 bp):
TATTTTTATTTTC
Found at i:104155810 original size:23 final size:21
Alignment explanation
Indices: 104155761--104155816 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
104155751 TAAATATCAT
*
104155761 ATTTTCTATATATTATGTATAC
1 ATTTT-TATATATTACGTATAC
*
104155783 ATTTTTATATATTACGTATAT
1 ATTTTTATATATTACGTATAC
104155804 ATCTTTTA-ATATT
1 AT-TTTTATATATT
104155817 GTACTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (21 bp):
ATTTTTATATATTACGTATAC
Found at i:104156011 original size:16 final size:15
Alignment explanation
Indices: 104155991--104156026 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
104155981 AAATATTATG
104155991 TTATGTATGTATATA
1 TTATGTATGTATATA
*
104156006 TATATGTATTTATATA
1 T-TATGTATGTATATA
104156022 TTATG
1 TTATG
104156027 CACACTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (15 bp):
TTATGTATGTATATA
Found at i:104161517 original size:20 final size:20
Alignment explanation
Indices: 104161492--104161537 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
104161482 AAAGTTTCAG
*
104161492 TACCTTCATGAAAA-TATCGA
1 TACCTTCA-AAAAAGTATCGA
*
104161512 TACCTTTAAAAAAGTATCGA
1 TACCTTCAAAAAAGTATCGA
104161532 TACCTT
1 TACCTT
104161538 ACCTAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (20 bp):
TACCTTCAAAAAAGTATCGA
Found at i:104163286 original size:5 final size:5
Alignment explanation
Indices: 104163267--104163300 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
104163257 GATTTTTTAA
* *
104163267 AAAAA AAAAG AAAAG AAAAG AAACG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
104163301 ACTTACCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:104163972 original size:3 final size:3
Alignment explanation
Indices: 104163964--104164260 Score: 79
Period size: 3 Copynumber: 99.3 Consensus size: 3
104163954 TTCTAATACC
* * *
104163964 ATT ATT ATT ATT ATT ATT ATT -TT ACT ATT ATT ATT TTT CA-T ACAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT A-TT
** * * * ** *
104164009 ATAT ATT ATT ATT CGT GTT ATT ACT ATT ATT AAT GCT CTT ATT ATT
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * * *
104164055 GCT ATT ATT ATT CCTT -TT ACT ATT ACT ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
104164100 ACT ATCT TTT TTT ATGT -TC ATT TTT ATT AAT AAT ATT ATT A-T AAT
1 ATT AT-T ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * ** * *
104164145 CTT ATT -TT AGT ACT ATT ATC ATT TTT TTT AAA ATT ATT GTT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * * * * *
104164192 ATT CTT -TT ACC ATT -TA ATAC ATT ATT ACT ATT TTT GTT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
*
104164236 ATT ATT ACT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
104164261 CATTTTCTTT
Statistics
Matches: 207, Mismatches: 72, Indels: 30
0.67 0.23 0.10
Matches are distributed among these distances:
2 12 0.06
3 183 0.88
4 12 0.06
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:104163972 original size:26 final size:27
Alignment explanation
Indices: 104163943--104163999 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
104163933 CTTGTATTTA
*
104163943 TATTTATT-TTATTCTAATACCATTAT
1 TATTTATTATTATTATAATACCATTAT
** *
104163969 TA-TTATTATTATTATTTTACTATTAT
1 TATTTATTATTATTATAATACCATTAT
104163995 TATTT
1 TATTT
104164000 TTCATACATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 5 0.20
26 18 0.72
27 2 0.08
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (27 bp):
TATTTATTATTATTATAATACCATTAT
Found at i:104163999 original size:14 final size:14
Alignment explanation
Indices: 104163964--104164000 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
104163954 TTCTAATACC
*
104163964 ATTATTATTATTATT
1 ATTATT-TTACTATT
104163979 ATTATTTTACTATT
1 ATTATTTTACTATT
104163993 ATTATTTT
1 ATTATTTT
104164001 TCATACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTATTTTACTATT
Found at i:104164484 original size:6 final size:6
Alignment explanation
Indices: 104164473--104164509 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
104164463 TTACCGTCAT
*
104164473 TATTAC TATTAC TATTAC TTTTA- T-TTAC TATTAC TAT
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TAT
104164510 ATTATTATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
4 3 0.11
5 2 0.07
6 23 0.82
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.57
Consensus pattern (6 bp):
TATTAC
Found at i:104164525 original size:30 final size:30
Alignment explanation
Indices: 104164491--104164548 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
104164481 TTACTATTAC
*
104164491 TTTTATTTACTATTACTA-TATTATTATCAT
1 TTTTATTT-CTATTACTATTATCATTATCAT
*
104164521 TTTTATTTTTATTACTATTATCATTATC
1 TTTTATTTCTATTACTATTATCATTATC
104164549 TTAGTATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTATTTCTATTACTATTATCATTATCAT
Found at i:104182137 original size:13 final size:15
Alignment explanation
Indices: 104182109--104182145 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
104182099 TGTTAAGAAT
104182109 AATATAAAAATATAA
1 AATATAAAAATATAA
104182124 AATA-AAAAAT-TAA
1 AATATAAAAATATAA
*
104182137 AATTTAAAA
1 AATATAAAA
104182146 GGAGATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 6 0.30
14 10 0.50
15 4 0.20
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATATAAAAATATAA
Found at i:104186720 original size:58 final size:58
Alignment explanation
Indices: 104186592--104186712 Score: 215
Period size: 58 Copynumber: 2.1 Consensus size: 58
104186582 AAGTGAAGAC
*
104186592 TTATTAAGAAATAAAAATCAATGCAATAAGGGTCCAAACTGACTCGTGAAATAATTTA
1 TTATTAAGAAATAAAAATCAATGCAATAAGGGTCCAAAATGACTCGTGAAATAATTTA
* *
104186650 TTATTAAGAAATAAAAATCAATGTAATACGGGTCCAAAATGACTCGTGAAATAATTTA
1 TTATTAAGAAATAAAAATCAATGCAATAAGGGTCCAAAATGACTCGTGAAATAATTTA
104186708 TTATT
1 TTATT
104186713 TTGAAATATT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (58 bp):
TTATTAAGAAATAAAAATCAATGCAATAAGGGTCCAAAATGACTCGTGAAATAATTTA
Found at i:104187529 original size:24 final size:25
Alignment explanation
Indices: 104187495--104187541 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
104187485 AAAAATCAAA
104187495 ATATTTAT-AAAAATTTCAAAAATT
1 ATATTTATAAAAAATTTCAAAAATT
* *
104187519 ATATTTTTAAAAAATTTTAAAAA
1 ATATTTATAAAAAATTTCAAAAA
104187542 ATTCTAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATTTATAAAAAATTTCAAAAATT
Found at i:104188039 original size:32 final size:32
Alignment explanation
Indices: 104187998--104188062 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
104187988 TTTGACAAAG
* *
104187998 TTATACATTTTGATATCTAAAGATAACAATAT
1 TTATACATTTTGACACCTAAAGATAACAATAT
* *
104188030 TTATACATTTTGGCACCTGAAGATAACAATAT
1 TTATACATTTTGACACCTAAAGATAACAATAT
104188062 T
1 T
104188063 AACTTTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.38
Consensus pattern (32 bp):
TTATACATTTTGACACCTAAAGATAACAATAT
Found at i:104193649 original size:16 final size:16
Alignment explanation
Indices: 104193625--104193656 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
104193615 ATCCGCAAGA
*
104193625 CTTATGTGCATGAATT
1 CTTACGTGCATGAATT
104193641 CTTACGTGCATGAATT
1 CTTACGTGCATGAATT
104193657 TCTCTTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (16 bp):
CTTACGTGCATGAATT
Found at i:104200012 original size:13 final size:13
Alignment explanation
Indices: 104199986--104200020 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
104199976 TGAATTTCTA
104199986 TATTATTA-TTAT
1 TATTATTACTTAT
*
104199998 TATTGTTACTTAT
1 TATTATTACTTAT
104200011 TATTATTACT
1 TATTATTACT
104200021 GTTATGTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (13 bp):
TATTATTACTTAT
Found at i:104200012 original size:19 final size:19
Alignment explanation
Indices: 104199988--104200024 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
104199978 AATTTCTATA
*
104199988 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
104200007 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
104200025 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:104200270 original size:3 final size:3
Alignment explanation
Indices: 104200256--104200307 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
104200246 GTATTTTTGC
* *
104200256 TAT TAT TGT TAT TAT TAT TAT TAT TATT TAT TA- TATT TAT ATAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT -TAT TAT
104200303 TAT TA
1 TAT TA
104200308 ATAGGTACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 32 0.78
4 7 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:104201889 original size:25 final size:27
Alignment explanation
Indices: 104201852--104201904 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
104201842 TCAAACATGC
104201852 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
104201878 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
104201904 A
1 A
104201905 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:104203421 original size:26 final size:26
Alignment explanation
Indices: 104203391--104203442 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
104203381 TGAAATGCCC
*
104203391 ATCATGGAGCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104203417 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104203443 GTCAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:104210749 original size:34 final size:34
Alignment explanation
Indices: 104210706--104210774 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
104210696 GAGGGAGAAG
104210706 AAGATATTGTAGCATCTATTTCTACCGATACACC
1 AAGATATTGTAGCATCTATTTCTACCGATACACC
*
104210740 AAGATATTGTAGCATCTATTTCTACCGATGCACC
1 AAGATATTGTAGCATCTATTTCTACCGATACACC
104210774 A
1 A
104210775 TACATTGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (34 bp):
AAGATATTGTAGCATCTATTTCTACCGATACACC
Found at i:104215125 original size:43 final size:44
Alignment explanation
Indices: 104215064--104215147 Score: 161
Period size: 43 Copynumber: 1.9 Consensus size: 44
104215054 TATGCCTAAA
104215064 AAAAATGGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATAAT
1 AAAAATGGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATAAT
104215108 AAAAA-GGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGAT
1 AAAAATGGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGAT
104215148 TAACACAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 35 0.88
44 5 0.12
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.17
Consensus pattern (44 bp):
AAAAATGGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATAAT
Found at i:104215180 original size:43 final size:43
Alignment explanation
Indices: 104215064--104215182 Score: 145
Period size: 43 Copynumber: 2.7 Consensus size: 43
104215054 TATGCCTAAA
* *
104215064 AAAAATGGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATAAT
1 AAAAA-GGATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAC
*
104215108 AAAAAGGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAAC
1 AAAAAGGATCAAGATGAAAACCCGAAAAGGGCGTCTTGA-TAAC
*
104215152 ACAAAA-GAT-TAGAATGAAAACCCG-AAAGGGC
1 A-AAAAGGATCAAG-ATGAAAACCCGAAAAGGGC
104215183 ATTCTAATGA
Statistics
Matches: 69, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
43 43 0.62
44 22 0.32
45 4 0.06
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.15
Consensus pattern (43 bp):
AAAAAGGATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAC
Found at i:104216041 original size:18 final size:18
Alignment explanation
Indices: 104216018--104216052 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
104216008 GCTGAGGTAA
104216018 TTTCAATTTCTGTTTTTT
1 TTTCAATTTCTGTTTTTT
104216036 TTTCAATTTCTGTTTTT
1 TTTCAATTTCTGTTTTT
104216053 CAAATTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTCAATTTCTGTTTTTT
Found at i:104216068 original size:14 final size:15
Alignment explanation
Indices: 104216034--104216066 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
104216024 TTTCTGTTTT
*
104216034 TTTTTC-AATTTCTG
1 TTTTTCAAATTTATG
104216048 TTTTTCAAATTTATG
1 TTTTTCAAATTTATG
104216063 TTTT
1 TTTT
104216067 CAGAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTTCAAATTTATG
Done.