Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 286 of 311
Found at i:93345883 original size:13 final size:14
Alignment explanation
Indices: 93345867--93345895 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93345857 TTATAAATAT
93345867 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
93345880 TTATAATGGTTTAA
1 TTATAATGGTTTAA
93345894 TT
1 TT
93345896 TTTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:93353743 original size:46 final size:46
Alignment explanation
Indices: 93353637--93353808 Score: 229
Period size: 46 Copynumber: 3.7 Consensus size: 46
93353627 TTTGACATGA
* * * *
93353637 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
93353687 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* *
93353733 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
*
93353779 TGCCATGGTATCTTTCAACCATGATCTTAT
1 TGCCATGGTATCTTTCAACCATGGTCTTAT
93353809 GTCACGGACC
Statistics
Matches: 114, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
45 5 0.04
46 84 0.74
47 1 0.01
49 1 0.01
50 23 0.20
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:93354347 original size:48 final size:48
Alignment explanation
Indices: 93354268--93354361 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
93354258 AGGGAATTCT
* *
93354268 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
93354316 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
93354362 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:93356851 original size:48 final size:48
Alignment explanation
Indices: 93356772--93356865 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
93356762 AGGGAATTCT
* *
93356772 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
93356820 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
93356866 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:93357455 original size:46 final size:46
Alignment explanation
Indices: 93357278--93357459 Score: 231
Period size: 46 Copynumber: 4.0 Consensus size: 46
93357268 TTTGACGTGA
* * * * * *
93357278 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
93357324 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
93357370 TGTCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
93357416 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
93357460 AGAGCACACT
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.03
46 116 0.97
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:93361559 original size:24 final size:26
Alignment explanation
Indices: 93361509--93361561 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
93361499 CTAAAGGTGA
*
93361509 TTTTATCTTCTTTATTTTACTCTTTT
1 TTTTATCTTCTTTATTTTACTCCTTT
**
93361535 TTTTAT-TT-TTTATTTTGTTCCTTT
1 TTTTATCTTCTTTATTTTACTCCTTT
93361559 TTT
1 TTT
93361562 CGAATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 16 0.67
25 2 0.08
26 6 0.25
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.77
Consensus pattern (26 bp):
TTTTATCTTCTTTATTTTACTCCTTT
Found at i:93361607 original size:12 final size:12
Alignment explanation
Indices: 93361590--93361636 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 12
93361580 TATATACATC
93361590 ATAATAAAAAAT
1 ATAATAAAAAAT
93361602 ATAAT-AAAAAT
1 ATAATAAAAAAT
*
93361613 ATATATACAAAAT
1 ATA-ATAAAAAAT
93361626 A-AATATAAAAA
1 ATAATA-AAAAA
93361637 AAATTACCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 12 0.40
12 12 0.40
13 6 0.20
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAATAAAAAAT
Found at i:93361637 original size:13 final size:13
Alignment explanation
Indices: 93361593--93361637 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
93361583 ATACATCATA
93361593 ATAAAAAATATA-
1 ATAAAAAATATAT
93361605 AT-AAAAATATAT
1 ATAAAAAATATAT
* *
93361617 ATACAAAATAAAT
1 ATAAAAAATATAT
93361630 ATAAAAAA
1 ATAAAAAA
93361638 AATTACCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 9 0.32
12 4 0.14
13 15 0.54
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAAAAAATATAT
Found at i:93362504 original size:16 final size:15
Alignment explanation
Indices: 93362480--93362514 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
93362470 TAATTATTAT
93362480 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
93362496 TATTTTAATATTTTA
1 TATTCTAATATTTTA
93362511 TATT
1 TATT
93362515 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:93364097 original size:12 final size:12
Alignment explanation
Indices: 93364080--93364115 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
93364070 ATTCATTTGA
93364080 CATTCATGCATT
1 CATTCATGCATT
*
93364092 CATTCATGCATC
1 CATTCATGCATT
*
93364104 CATTCATTCATT
1 CATTCATGCATT
93364116 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:93364109 original size:16 final size:17
Alignment explanation
Indices: 93364088--93364119 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
93364078 GACATTCATG
93364088 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
93364104 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
93364120 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:93371548 original size:46 final size:44
Alignment explanation
Indices: 93371489--93371603 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
93371479 ACAGGACAGA
* *
93371489 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
93371535 ACAGGATTGAGCCATTTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
93371579 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
93371604 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:93371584 original size:44 final size:45
Alignment explanation
Indices: 93371496--93371622 Score: 139
Period size: 44 Copynumber: 2.8 Consensus size: 45
93371486 AGAACAGAAA
*
93371496 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
* * *
93371542 TGAGCCATTTAAGTCCATATT-ATATATGGCATTGGAGACAGGAA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
* ** * * *
93371586 TAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 TGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93371623 CAGGGTATTG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.52
45 1 0.01
46 31 0.46
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:93374661 original size:69 final size:70
Alignment explanation
Indices: 93374564--93374739 Score: 209
Period size: 69 Copynumber: 2.5 Consensus size: 70
93374554 CTTTTCAAGA
*
93374564 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTTAATTT-
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
93374626 TGTTTT
65 TGTTTT
** **
93374632 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGTACGCTGAGGTATTTTTTAATTT
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTA-TTTTTAATTT
93374697 ATGTTTT
64 ATGTTTT
**
93374704 -AAATTGACTCATATTGCGAGAGAGGTGAGTT-AGCCT
1 AAAATCAACTCATATTGCGAGA-A-GTGAGTTGAGCCT
93374740 TTTATTTCTA
Statistics
Matches: 94, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
69 45 0.48
70 21 0.22
71 15 0.16
72 13 0.14
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
GTTTT
Found at i:93374864 original size:139 final size:140
Alignment explanation
Indices: 93374710--93374969 Score: 338
Period size: 139 Copynumber: 1.9 Consensus size: 140
93374700 TTTTAAATTG
* ** *
93374710 ACTCATATTGCGAGAGAG-GTGAGTT-AGCCTTTT-ATTTCTACTTTTT-CCAAATCAGCTCATA
1 ACTCATATTGCGAGAG-GTG-GA-TTGAACCTTTTAATTTCTACTTTTTAAAAAATCAACTCATA
*
93374771 TTGCGAGAGGTGAG-TTGAGCCCCAGGTCACGCTGAGTGT-ATTTTCAATTTCTGT-TTTCAATT
63 TTGCGAGAGGTG-GTTTGAG-CCCAGGACACGCTGAG-GTAATTTT-AATTTCTGTCTTTCAATT
93374833 ATGTTGTTCAAGAATCA
124 ATGTTGTTCAAGAATCA
*
93374850 ACTCATA-TGCGAGAGGTGGATTGAACCTTTTAATTTCTACTTTTTAAAAAATTAACTCATATTG
1 ACTCATATTGCGAGAGGTGGATTGAACCTTTTAATTTCTACTTTTTAAAAAATCAACTCATATTG
*
93374914 CGAGAGGTGGTTTGAGCTCAGGACACGCTGAGGTAATTTTAATTTCTGTCTTTCAA
66 CGAGAGGTGGTTTGAGCCCAGGACACGCTGAGGTAATTTTAATTTCTGTCTTTCAA
93374970 AAAAAATTAA
Statistics
Matches: 106, Mismatches: 7, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
137 2 0.02
138 21 0.20
139 48 0.45
140 35 0.33
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (140 bp):
ACTCATATTGCGAGAGGTGGATTGAACCTTTTAATTTCTACTTTTTAAAAAATCAACTCATATTG
CGAGAGGTGGTTTGAGCCCAGGACACGCTGAGGTAATTTTAATTTCTGTCTTTCAATTATGTTGT
TCAAGAATCA
Found at i:93375004 original size:75 final size:74
Alignment explanation
Indices: 93374895--93375044 Score: 173
Period size: 75 Copynumber: 2.0 Consensus size: 74
93374885 TCTACTTTTT
*
93374895 AAAAAATTAACTCATATTGCGAGAGGTGGTTTGAG-CTCAGG-ACACG-CTGAGGTAATTTTAAT
1 AAAAAATTAACTCATATTGCGAGAGGCGGTTTGAGCCTCAGGCACACGTC-GAGGT-A-TTTAAT
93374957 TTCTGTCTTTCAA
63 TTC-GTCTTTCAA
* * *
93374970 AAAAAATTAACTCGTATTGCGTGCGGCGAG-TTGAGCCTCAGGTCACACGTCGAGGTATTTAATT
1 AAAAAATTAACTCATATTGCGAGAGGCG-GTTTGAGCCTCAGG-CACACGTCGAGGTATTTAATT
*
93375034 TCGTTTTTCAA
64 TCGTCTTTCAA
93375045 TTTCTGCCTT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
75 37 0.57
76 16 0.25
77 1 0.02
78 10 0.15
79 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (74 bp):
AAAAAATTAACTCATATTGCGAGAGGCGGTTTGAGCCTCAGGCACACGTCGAGGTATTTAATTTC
GTCTTTCAA
Found at i:93375220 original size:161 final size:160
Alignment explanation
Indices: 93374881--93375251 Score: 402
Period size: 161 Copynumber: 2.3 Consensus size: 160
93374871 TGAACCTTTT
* * *
93374881 AATTTCTACTTTTTAAAAAATTAACTCATATTGCGAGAGGTG-GTTTGAG-CTCAGGACACGCTG
1 AATTTATA-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGACACGCTG
* * * * *
93374944 AGGTAATTTTAATTTCTGTCTTTCAAAAAAAATTAACTCGTATTGCGTGCGGCGAGTTGAGCCTC
64 AGCTAATTTTAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC
* *
93375009 AGGTCACACGTCGAGGTATTTAATTTCGTTTTTC
129 AGATCACACGTCGAGGTATTT-ATTTC-TTCTTC
* *** * * *
93375043 AATTTCTGCCTTCAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCT
1 AATTTATATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCT
*
93375107 GAGCT-ATTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
63 GAGCTAATTTT-AATTTCTGTCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGC
*
93375171 TTCAGATCACAC-T-GAGGTATTT-TTT-TTACTTC
126 CTCAGATCACACGTCGAGGTATTTATTTCTT-CTTC
93375203 AATTTTATATTTTC-AAAAATCAACTCA-ATTGCGAGAGGTGAGTTGAGCC
1 AA-TTTATATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
93375252 CTTGAGTCAC
Statistics
Matches: 178, Mismatches: 22, Indels: 21
0.81 0.10 0.10
Matches are distributed among these distances:
159 24 0.13
160 17 0.10
161 45 0.25
162 10 0.06
163 14 0.08
164 25 0.14
165 43 0.24
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (160 bp):
AATTTATATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
CTAATTTTAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG
ATCACACGTCGAGGTATTTATTTCTTCTTC
Found at i:93375613 original size:91 final size:90
Alignment explanation
Indices: 93375504--93375764 Score: 262
Period size: 91 Copynumber: 2.9 Consensus size: 90
93375494 GCCTTGACTC
* *
93375504 ACACGCTAAGGTATTTTCAAATTC-TGTTTTTTAAAATTT-TGTTTTTCCAAAAAAATCAACTCA
1 ACACGCTGAGGTATTTTCAAATTCTTGTTTTTTAAAATTTATGTTTGT-C--AAAAATCAACTCA
93375567 TATTGCGAGAGGTAAGTTCAGCCTCAGG
63 TATTGCGAGAGGTAAGTTCAGCCTCAGG
* * **
93375595 ACACGCTGAGGTATTTTCAATTTCTTTTTTTTTTTCAATTTATGTTTGTCAAAAATCAACTCATA
1 ACACGCTGAGGTATTTTCAAATTC-TTGTTTTTTAAAATTTATGTTTGTCAAAAATCAACTCATA
* * *
93375660 TTGCGAGAGGTGAGTTGAGTCTCAGG
65 TTGCGAGAGGTAAGTTCAGCCTCAGG
* * ** *** *
93375686 TCACGCCGAGGTATTTTC-AATTGATGTTTTTTTCTTATTTATGCTTTG-GAAAAATCAACTCAT
1 ACACGCTGAGGTATTTTCAAATTCTTG-TTTTTTAAAATTTATG-TTTGTCAAAAATCAACTCAT
* *
93375749 ATT-AGAGAGGTGAGTT
64 ATTGCGAGAGGTAAGTT
93375765 GAGCTTCGGG
Statistics
Matches: 145, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
89 13 0.09
90 33 0.23
91 80 0.55
93 13 0.09
94 6 0.04
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.40
Consensus pattern (90 bp):
ACACGCTGAGGTATTTTCAAATTCTTGTTTTTTAAAATTTATGTTTGTCAAAAATCAACTCATAT
TGCGAGAGGTAAGTTCAGCCTCAGG
Found at i:93375795 original size:91 final size:89
Alignment explanation
Indices: 93375554--93375796 Score: 240
Period size: 91 Copynumber: 2.7 Consensus size: 89
93375544 GTTTTTCCAA
* * * * * * * *
93375554 AAAAATCAACTCATATTGCGAGAGGTAAGTTCAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGTCTCAGGTCACACCGAAGTATTTTCAA-TT-
** *
93375619 TTTTTTTTTTTCAATTTATGTTTGTC
64 GATGTTTTTTTCAATTTATGTTTGTC
* * *
93375645 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGTCACGCCGAGGTATTTTCAATTGA
1 AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGTCTCAGGTCACACCGAAGTATTTTCAATTGA
* *
93375710 TGTTTTTTTCTTATTTATGCTTTG-G
66 TGTTTTTTTC-AATTTATG-TTTGTC
* *
93375735 AAAAATCAACTCATATT-AGAGAGGTGAGTTGAG-CTTCGGGTCACATATCGAAGTATTTTCAA
1 AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGTC-TCAGGTCAC--ACCGAAGTATTTTCAA
93375797 AATCTGTTTT
Statistics
Matches: 132, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
88 1 0.01
89 32 0.24
90 26 0.20
91 73 0.55
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (89 bp):
AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGTCTCAGGTCACACCGAAGTATTTTCAATTGA
TGTTTTTTTCAATTTATGTTTGTC
Found at i:93376920 original size:15 final size:15
Alignment explanation
Indices: 93376896--93376935 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
93376886 ATAATAAAAA
*
93376896 ATATAAAAAATATAT
1 ATATAAAAAATAAAT
*
93376911 ATATACAAAATAAAT
1 ATATAAAAAATAAAT
93376926 ATA-AAAAAAT
1 ATATAAAAAAT
93376936 TACCTTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATAAAAAATAAAT
Found at i:93377372 original size:5 final size:5
Alignment explanation
Indices: 93377353--93377387 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
93377343 GTGTATATTG
*
93377353 TATAT TGTA- TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
93377388 CTTAATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 3 0.11
5 24 0.89
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:93377608 original size:20 final size:20
Alignment explanation
Indices: 93377573--93377628 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
93377563 TTCACCATAA
* *
93377573 GTGTATAT-ATA-CATTTTT
1 GTGTATATAATATTATTTTC
93377591 GTGTATATAATATTATTTTC
1 GTGTATATAATATTATTTTC
* *
93377611 GTATATTTAATTATTATT
1 GTGTATATAA-TATTATT
93377629 CTAAAAAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 8 0.26
19 3 0.10
20 13 0.42
21 7 0.23
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (20 bp):
GTGTATATAATATTATTTTC
Found at i:93379831 original size:20 final size:20
Alignment explanation
Indices: 93379806--93379844 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
93379796 TATACTACTA
93379806 TAAATA-AACATTAAAAATGT
1 TAAATATAA-ATTAAAAATGT
93379826 TAAATATTAAATTAAAAAT
1 TAAATA-TAAATTAAAAAT
93379845 AATCTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 9 0.53
22 2 0.12
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAATATAAATTAAAAATGT
Found at i:93385630 original size:23 final size:25
Alignment explanation
Indices: 93385604--93385650 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
93385594 TATCATTCAT
*
93385604 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
93385627 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
93385651 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:93385971 original size:46 final size:46
Alignment explanation
Indices: 93385911--93386032 Score: 174
Period size: 46 Copynumber: 2.7 Consensus size: 46
93385901 TTTGACGTGA
* * * *
93385911 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGT
*
93385957 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
*
93386003 TGTCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
93386033 ACATCTCATA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 5 0.07
46 63 0.93
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
Found at i:93393465 original size:3 final size:3
Alignment explanation
Indices: 93393457--93393483 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
93393447 ACCAACCTAC
93393457 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
93393484 AGAAATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:93399405 original size:34 final size:34
Alignment explanation
Indices: 93399367--93399434 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
93399357 GGTTGGTGTT
93399367 CAATTTAAGTTTTTTCCCTATTTAAAATCAACCA
1 CAATTTAAGTTTTTTCCCTATTTAAAATCAACCA
93399401 CAATTTAAGTTTTTTCCCTATTTAAAATCAACCA
1 CAATTTAAGTTTTTTCCCTATTTAAAATCAACCA
93399435 TTTTTACAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (34 bp):
CAATTTAAGTTTTTTCCCTATTTAAAATCAACCA
Found at i:93419122 original size:213 final size:211
Alignment explanation
Indices: 93418703--93419128 Score: 556
Period size: 213 Copynumber: 2.0 Consensus size: 211
93418693 TATAAGAAAA
* * * * *
93418703 GTAAATAGTTTTATACGAATGGTTTAGAATTTTGACATGTCAAATATCTTGAAATTTTATCATTC
1 GTAAATAATCTTATACGAAAGGTTTAGAATTTGGACACGTCAAATATCTTGAAATTTTATCATTC
* * *
93418768 ATCATATACTACATAAATTCTTCCTTTTAAAATAGTTGTATCAATTTTATGTAAATTATAAAGAA
66 ATCATATACTACATAAATTCTTCCTTTTAAAATAGTCGTATCAATTTTATATAAATTATAAAAAA
* * *
93418833 TTATAATATTAAATAATCAGTTATGGTGAGTACGAAAGAATTGTGAAATTAAAAATTGATATTGA
131 TTATAATATTAAATAATCAGTTATCGTGAGTACGAAAGAAGTATGAAATTAAAAATTGATATTGA
*
93418898 AGCCCACATTTTTAAT
196 AGCCAACATTTTTAAT
* * *
93418914 GTAAATAATCTTATATGAAAGGTTTAGAATTTGGACACGTCAGCAT-T-TTGAAATTTTATTATT
1 GTAAATAATCTTATACGAAAGGTTTAGAATTTGGACACGTCA-AATATCTTGAAATTTTATCATT
** * *
93418977 TGTCATATACTACA-CAATTCTTTCTTTTAAAATAGTCGTATCAATTCCATTATATAAAAATTAT
65 CATCATATACTACATAAATTCTTCCTTTTAAAATAGTCGTATCAATT---TTATAT--AAATTAT
* * *
93419041 AAAAAATTATAATATTAAGTAATCAGTTA-CGTGAGTATGAAAGAAGTAT-AATATTGAAAATTG
125 AAAAAATTATAATATTAAATAATCAGTTATCGTGAGTACGAAAGAAGTATGAA-ATTAAAAATTG
93419104 ATATTGAAGCCAACATTTTTAAT
189 ATATTGAAGCCAACATTTTTAAT
93419127 GT
1 GT
93419129 GCAAGTGGTT
Statistics
Matches: 186, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
209 29 0.16
210 27 0.15
211 37 0.20
212 9 0.05
213 50 0.27
214 34 0.18
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (211 bp):
GTAAATAATCTTATACGAAAGGTTTAGAATTTGGACACGTCAAATATCTTGAAATTTTATCATTC
ATCATATACTACATAAATTCTTCCTTTTAAAATAGTCGTATCAATTTTATATAAATTATAAAAAA
TTATAATATTAAATAATCAGTTATCGTGAGTACGAAAGAAGTATGAAATTAAAAATTGATATTGA
AGCCAACATTTTTAAT
Found at i:93435222 original size:47 final size:47
Alignment explanation
Indices: 93435153--93435257 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
93435143 TTCGGAGAAA
*
93435153 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
* *
93435200 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
93435247 TGTGATATGTG
1 TGTGATATGTG
93435258 ATCCATGTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
Found at i:93435681 original size:24 final size:22
Alignment explanation
Indices: 93435638--93435681 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
93435628 ATAAATTGTG
* *
93435638 AAAATTGAGTTAAGGGCTGAAT
1 AAAATTGAGTTAAAGCCTGAAT
93435660 AAAATATGAGATTAAAGCCTGA
1 AAAAT-TGAG-TTAAAGCCTGA
93435682 TGAGTCTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 4 0.22
24 9 0.50
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (22 bp):
AAAATTGAGTTAAAGCCTGAAT
Found at i:93437624 original size:12 final size:13
Alignment explanation
Indices: 93437607--93437635 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
93437597 TAAAATTTTT
93437607 ATAATTT-TTTAA
1 ATAATTTATTTAA
93437619 ATAATTTATTTAA
1 ATAATTTATTTAA
93437632 ATAA
1 ATAA
93437636 AAGCGGATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAATTTATTTAA
Found at i:93438315 original size:4 final size:4
Alignment explanation
Indices: 93438294--93438355 Score: 51
Period size: 4 Copynumber: 16.0 Consensus size: 4
93438284 AGAGAAGGCC
* * *
93438294 AAGA AGGA AAGG AAGA AAGA AAAA AAG- AAG- AAGA AAGA GAA-A AA-A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA -AAGA AAGA
93438339 AAGA GAAGA AAGA AAGA
1 AAGA -AAGA AAGA AAGA
93438356 GATAAGTCTC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
3 11 0.23
4 31 0.65
5 6 0.12
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:93438326 original size:18 final size:19
Alignment explanation
Indices: 93438301--93438353 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 19
93438291 GCCAAGAAGG
93438301 AAAG-GAAGAAAGAAAAAA
1 AAAGAGAAGAAAGAAAAAA
*
93438319 AGA-AGAAGAAAGAGAAAAA
1 AAAGAGAAGAAAGA-AAAAA
93438338 AAAGAGAAGAAAGAAA
1 AAAGAGAAGAAAGAAA
93438354 GAGATAAGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (19 bp):
AAAGAGAAGAAAGAAAAAA
Found at i:93440923 original size:39 final size:39
Alignment explanation
Indices: 93440877--93441000 Score: 221
Period size: 39 Copynumber: 3.2 Consensus size: 39
93440867 GCTCTGATGA
93440877 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
93440916 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
93440955 GCTTCAGTTGGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
93440994 GCTTCAG
1 GCTTCAG
93441001 CTACATTTCG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:93441013 original size:39 final size:38
Alignment explanation
Indices: 93440877--93441016 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 38
93440867 GCTCTGATGA
93440877 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTA-CCTTCGGGCTTCCGTTTAGCACTTATGT
*
93440916 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTA-CCTTCGGGCTTCCGTTTAGCACTTATGT
* *
93440955 GCTTCAGTTGGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTT-ACCTTCGGGCTTCCGTTTAGCACTTATGT
* *
93440994 GCTTCAGCTACATTTCGGGCTTC
1 GCTTCAGTTAC-CTTCGGGCTTC
93441017 AGATCATGAT
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 90 0.99
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (38 bp):
GCTTCAGTTACCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:93441301 original size:15 final size:15
Alignment explanation
Indices: 93441281--93441311 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
93441271 GATTGACAGG
93441281 AAGAAACAGTGAATT
1 AAGAAACAGTGAATT
93441296 AAGAAACAGTGAATT
1 AAGAAACAGTGAATT
93441311 A
1 A
93441312 CATGCTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (15 bp):
AAGAAACAGTGAATT
Found at i:93444724 original size:90 final size:89
Alignment explanation
Indices: 93444563--93444737 Score: 219
Period size: 90 Copynumber: 1.9 Consensus size: 89
93444553 CCACATAAAA
* * *
93444563 TGCCAAAGCCATGTCCCCGACATGGTCTTACATGGGTACACATACCGATGCCATATCCCAGATAT
1 TGCCAAAGCCATGTCCCAGACATAGTCTTACATGGGTACACATA-CGATGCCATATCCCAGACAT
* *
93444628 GGTCTTATACGAAATCTCATGCTGG
65 GATCTTACACGAAATCTCATGCTGG
* * * *
93444653 TGCCAATGCCATGTCCCAGACATAGTCTTATACA-GGGTCTCACATA-GATGTCATGTCCCAGAC
1 TGCCAAAGCCATGTCCCAGACATAGTC-T-TACATGGGT-ACACATACGATGCCATATCCCAGAC
93444716 ATGATCTTACACGAAATCTCAT
63 ATGATCTTACACGAAATCTCAT
93444738 ATCAACGCCA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
90 58 0.79
91 5 0.07
92 10 0.14
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (89 bp):
TGCCAAAGCCATGTCCCAGACATAGTCTTACATGGGTACACATACGATGCCATATCCCAGACATG
ATCTTACACGAAATCTCATGCTGG
Found at i:93444811 original size:48 final size:48
Alignment explanation
Indices: 93444758--93444915 Score: 178
Period size: 48 Copynumber: 3.3 Consensus size: 48
93444748 TATCCTAAAT
* * * *
93444758 ATGGTCTTACA-TGAAATCACATACCAATGCCGATGTCAGATCCCAGAT
1 ATGGTCTTACACTG-AATCACGTATCAATGCCGATGCCAGATCCCAGAC
* * *
93444806 ATGGTCTTACACTGGCA-CACGTATCAATGTCGATACCATG-TCCCAGAC
1 ATGGTCTTACACT-GAATCACGTATCAATGCCGATGCCA-GATCCCAGAC
** *
93444854 ATGGTCTTACACTGGCTCACGTATCAATGCCGATGCCATATCCCAGAC
1 ATGGTCTTACACTGAATCACGTATCAATGCCGATGCCAGATCCCAGAC
93444902 ATGGTCTTACACTG
1 ATGGTCTTACACTG
93444916 GCTCACATTA
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
47 1 0.01
48 88 0.95
49 3 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (48 bp):
ATGGTCTTACACTGAATCACGTATCAATGCCGATGCCAGATCCCAGAC
Found at i:93444916 original size:48 final size:48
Alignment explanation
Indices: 93444782--93444921 Score: 217
Period size: 48 Copynumber: 2.9 Consensus size: 48
93444772 AATCACATAC
* * * *
93444782 CAATGCCGATGTCAGATCCCAGATATGGTCTTACACTGGCACACGTAT
1 CAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACGTAT
* * *
93444830 CAATGTCGATACCATGTCCCAGACATGGTCTTACACTGGCTCACGTAT
1 CAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACGTAT
93444878 CAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCAC
1 CAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCAC
93444922 ATTATCTGTA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (48 bp):
CAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACGTAT
Found at i:93450920 original size:38 final size:38
Alignment explanation
Indices: 93450809--93450965 Score: 147
Period size: 38 Copynumber: 4.0 Consensus size: 38
93450799 ATTTGATGTG
* * *
93450809 TATCCGGGCTTAAAGACCCGCAGGCTTTA-TGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGC-TTAGTACTGGTATTA
* *
93450849 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTACTGGTATTA
93450887 TATCCGGGTTAAATCCCGCAGGAC-TAGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGG-CTTAGTACTGGTATTA
* * * * * *
93450925 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGTGTTA
1 TATCCG-GGTTAAA-TCCCGCAGGCTTAGTACTGGTATTA
93450965 T
1 T
93450966 GTTTGGGTTT
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
37 2 0.02
38 58 0.57
39 13 0.13
40 28 0.28
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTAGTACTGGTATTA
Found at i:93455177 original size:33 final size:33
Alignment explanation
Indices: 93455130--93455200 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
93455120 GGACAGTTAG
* * * * *
93455130 GGGAGCTTGTGATATCGGCTCGCGAGAGTTGAA
1 GGGAGCTCGGGATATCAGCTCGCAAGAGTCGAA
* *
93455163 GGGAGCTCGGGATATTAGCTTGCAAGAGTCGAA
1 GGGAGCTCGGGATATCAGCTCGCAAGAGTCGAA
93455196 GGGAG
1 GGGAG
93455201 TTCGCGGTCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.21
Consensus pattern (33 bp):
GGGAGCTCGGGATATCAGCTCGCAAGAGTCGAA
Found at i:93457872 original size:29 final size:30
Alignment explanation
Indices: 93457839--93457904 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
93457829 TTATATTCTG
* * *
93457839 ATCAAATTAGTTCTTCTACTATT-AAATAA
1 ATCAAATTAGTTCCTATACTATTAAAAAAA
*
93457868 ATCAAATTAGTTCCTATATTATTAAAAAAA
1 ATCAAATTAGTTCCTATACTATTAAAAAAA
93457898 ATCAAAT
1 ATCAAAT
93457905 AAAACCAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (30 bp):
ATCAAATTAGTTCCTATACTATTAAAAAAA
Found at i:93463684 original size:16 final size:18
Alignment explanation
Indices: 93463652--93463684 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93463642 GTTAATGAAA
93463652 TAAATTTAGTCTTAATTG
1 TAAATTTAGTCTTAATTG
93463670 TAAATTT-GT-TTAATT
1 TAAATTTAGTCTTAATT
93463685 TATGAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (18 bp):
TAAATTTAGTCTTAATTG
Found at i:93469329 original size:52 final size:48
Alignment explanation
Indices: 93469249--93469455 Score: 168
Period size: 47 Copynumber: 4.2 Consensus size: 48
93469239 CCATGACAGC
* * * * *
93469249 ATGTGAAATGTGATTTCTGTATAAGACCATAGCTGGGCTATGGCTTCGG
1 ATGTGATATGTG-CTTCTGTATAAGACCATAACTGGGATATGGCATCGG
* * *
93469298 ACAAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 ----ATGTGATATGTGCTTCTGTATAAGACCATAACTGGGATATGGCATCGG
* *
93469350 -TGTGATATGTGCTACTGTATAAGACCATAACTGGGATATGGCATCAG
1 ATGTGATATGTGCTTCTGTATAAGACCATAACTGGGATATGGCATCGG
* * * * ** * * *
93469397 -TGTGATACGTG-ATCCGTGTAAGACCATGGCTAGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCTGTATAAGACCATAACTGGGATATGGCATCGG
93469443 TATGTGATATGTG
1 -ATGTGATATGTG
93469456 ACTATGTGCA
Statistics
Matches: 128, Mismatches: 24, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
46 25 0.20
47 52 0.41
48 10 0.08
52 30 0.23
53 11 0.09
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (48 bp):
ATGTGATATGTGCTTCTGTATAAGACCATAACTGGGATATGGCATCGG
Found at i:93487937 original size:76 final size:76
Alignment explanation
Indices: 93487839--93488127 Score: 422
Period size: 76 Copynumber: 3.8 Consensus size: 76
93487829 GATGTTTTTA
* * *
93487839 TTTCAAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAA
1 TTTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAA
93487904 TTTTTTGTATG
66 TTTTTTGTATG
*
93487915 TTTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAA
1 TTTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAA
93487980 TTTTTTGTATG
66 TTTTTTGTATG
* *
93487991 TTTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTATTTTCAA
1 TTTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAA
* *
93488056 -TTTCTG--TC
66 TTTTTTGTATG
* * *
93488064 CTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTATT
1 TTTC----AAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
93488128 TTTAATTGAT
Statistics
Matches: 198, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
73 4 0.02
75 5 0.03
76 136 0.69
77 53 0.27
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (76 bp):
TTTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAA
TTTTTTGTATG
Found at i:93488275 original size:87 final size:89
Alignment explanation
Indices: 93488072--93488399 Score: 341
Period size: 88 Copynumber: 3.7 Consensus size: 89
93488062 TCCTTCAAAA
* * * *
93488072 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGGACGCGCTGAGGTATTTTTAATTG
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTCAGGACACGCTGAGGTATTTTCAATTA
93488136 ATGTTTTTTCAATTTACGCTTTTC
66 ATGTTTTTTCAATTTACGCTTTTC
**
93488160 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGGGA-ACGCTGAGGTATTTTCAATTA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTCAGGACACGCTGAGGTATTTTCAATTA
*
93488224 ATGTTTTTT-AATTTATGCTTTTC
66 ATGTTTTTTCAATTTACGCTTTTC
* * * * **
93488247 AAAAATCAACTCATATTACGAAATGTGAGTTGAGCC-TCGAGTCACATGCCAAGGTATTTTCAA-
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTC-AG-GACACGCTGAGGTATTTTCAAT
* * *
93488310 -AATCTGTTTTGCAAATT-CTG-TTTTC
64 TAATGT-TTTTTCAATTTAC-GCTTTTC
* * * * * *
93488335 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCC-TCAGAACATGCTGAGATAATTTCAAT
1 --AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTCAGGACACGCTGAGGTATTTTCAAT
93488399 T
64 T
93488400 TCTGCTTGTC
Statistics
Matches: 201, Mismatches: 28, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
86 1 0.00
87 52 0.26
88 88 0.44
89 26 0.13
90 34 0.17
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (89 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTCAGGACACGCTGAGGTATTTTCAATTA
ATGTTTTTTCAATTTACGCTTTTC
Found at i:93488329 original size:14 final size:13
Alignment explanation
Indices: 93488303--93488338 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
93488293 TGCCAAGGTA
93488303 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
93488316 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
93488330 TTTTCAAAA
1 TTTTCAAAA
93488339 AAATCAGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:93488470 original size:72 final size:74
Alignment explanation
Indices: 93488337--93488551 Score: 247
Period size: 76 Copynumber: 2.9 Consensus size: 74
93488327 CTGTTTTCAA
* * * *
93488337 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACATGCTGAGATAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGATAT-ATTTCAATTTC
*
93488402 TGCT-TG-TC
65 TGATATGTTC
* * * * *
93488410 -AAAATCAACTCATATTGCGAGAGGTGAGTTGACCCACGGGACACGCCGATATATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGATATATT-TCAATTTC
*
93488474 TTATATGTTTC
65 TGATATG-TTC
* * *
93488485 AAAAATCAACTCTTATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGATGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGATATA-TTTCAATTTC
93488550 TG
65 TG
93488552 TTTTTCAATT
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
71 3 0.03
72 53 0.46
73 2 0.02
75 2 0.02
76 54 0.47
77 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGATATATTTCAATTTCT
GATATGTTC
Found at i:93488558 original size:14 final size:14
Alignment explanation
Indices: 93488539--93488566 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
93488529 CGCTGATGTA
93488539 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
93488553 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
93488567 CCTTCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:93488636 original size:89 final size:88
Alignment explanation
Indices: 93488485--93488698 Score: 329
Period size: 89 Copynumber: 2.4 Consensus size: 88
93488475 TATATGTTTC
* * * * **
93488485 AAAAATCAACTCTTATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGATGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAATTTTCAATTGA
* *
93488550 TGTTTTTCAATTTCTGTCCTTCAA
66 TGTTTTGCAAATTCTGT-CTTCAA
93488574 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAATTTTCAATTGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAATTTTCAATTGA
*
93488639 TGTTTTGCAAATTCTGTTTTCAA
66 TGTTTTGCAAATTCTGTCTTCAA
*
93488662 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
93488699 TGACTCGCGT
Statistics
Matches: 115, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 41 0.36
89 74 0.64
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAATTTTCAATTGA
TGTTTTGCAAATTCTGTCTTCAA
Found at i:93489785 original size:11 final size:11
Alignment explanation
Indices: 93489769--93489794 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
93489759 ATACTAAAAT
93489769 ATATAAAACAA
1 ATATAAAACAA
93489780 ATATAAAACAA
1 ATATAAAACAA
93489791 ATAT
1 ATAT
93489795 TTAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (11 bp):
ATATAAAACAA
Found at i:93490856 original size:24 final size:26
Alignment explanation
Indices: 93490811--93490858 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
93490801 TTAATACATG
93490811 TTTTATATATGTATATATTATGTATA
1 TTTTATATATGTATATATTATGTATA
93490837 TTTTA-ATAT-TATAT-TATATGTA
1 TTTTATATATGTATATAT-TATGTA
93490859 CGTATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 11 0.52
25 4 0.19
26 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTTATATATGTATATATTATGTATA
Found at i:93499046 original size:17 final size:17
Alignment explanation
Indices: 93499024--93499059 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
93499014 TAGAAAAACC
93499024 ATATTTTATAAT-TTTTT
1 ATATTTTA-AATATTTTT
93499041 ATATTTTAAATATTTTT
1 ATATTTTAAATATTTTT
93499058 AT
1 AT
93499060 GTGCTCCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTTTAAATATTTTT
Found at i:93501294 original size:21 final size:21
Alignment explanation
Indices: 93501268--93501312 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
93501258 GTACCACTAG
93501268 ATACTAGTCAAATTATCCCTT
1 ATACTAGTCAAATTATCCCTT
93501289 ATACTAGTCAAATTATCCCTT
1 ATACTAGTCAAATTATCCCTT
93501310 ATA
1 ATA
93501313 TCAAGTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (21 bp):
ATACTAGTCAAATTATCCCTT
Found at i:93506650 original size:44 final size:44
Alignment explanation
Indices: 93506567--93506650 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
93506557 CAACAGGCTA
* * *
93506567 CAAATCTTATCTCCCTAAAATTGTAGTACAGCAGATTAAAGCCG
1 CAAACCTTATCTCCCTAAAATTATAGTACAACAGATTAAAGCCG
* * * *
93506611 CAAACCTTATCTCCCTGAAGTTATAGTAGAACAGGTTAAA
1 CAAACCTTATCTCCCTAAAATTATAGTACAACAGATTAAA
93506651 AATAAACAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (44 bp):
CAAACCTTATCTCCCTAAAATTATAGTACAACAGATTAAAGCCG
Found at i:93506824 original size:44 final size:42
Alignment explanation
Indices: 93506708--93506824 Score: 99
Period size: 43 Copynumber: 2.7 Consensus size: 42
93506698 ATAGGCCACA
** * *
93506708 AATCTTATCTCCCTAAAATTACTGTGGAGAAAATTAAAGCTGC
1 AATCTTATCTCCCTAAAA-TAGAGTGGAGTAAATTAAAGCTAC
* * * * * * *
93506751 AAACCTATCTCCCTAAAGTTGTAGCGGAGTAAATTCAAGTTAC
1 AATCTTATCTCCCTAAAATAG-AGTGGAGTAAATTAAAGCTAC
93506794 AAGTCTTATCTCCCTAAAATAAGAGTGGAGT
1 AA-TCTTATCTCCCTAAAAT-AGAGTGGAGT
93506825 GAATCGAAGC
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
42 1 0.02
43 32 0.58
44 21 0.38
45 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (42 bp):
AATCTTATCTCCCTAAAATAGAGTGGAGTAAATTAAAGCTAC
Found at i:93508040 original size:3 final size:3
Alignment explanation
Indices: 93508032--93508062 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
93508022 TTTAACTTTA
93508032 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
93508063 AACTGTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:93512239 original size:32 final size:34
Alignment explanation
Indices: 93512179--93512243 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
93512169 TTTCATCTGT
93512179 TAGGATTAGGGTTTTTTAGGGTTAAGGGTTAGGG
1 TAGGATTAGGGTTTTTTAGGGTTAAGGGTTAGGG
* *
93512213 TAGG-TTAGGG-TTTTTATGGTTTAGGGTTAGG
1 TAGGATTAGGGTTTTTTAGGGTTAAGGGTTAGG
93512244 TTTTTTTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 19 0.66
33 6 0.21
34 4 0.14
ACGTcount: A:0.18, C:0.00, G:0.40, T:0.42
Consensus pattern (34 bp):
TAGGATTAGGGTTTTTTAGGGTTAAGGGTTAGGG
Found at i:93512243 original size:22 final size:23
Alignment explanation
Indices: 93512215--93512263 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
93512205 GGTTAGGGTA
*
93512215 GGTTAGG-GTTTTTATGGTTTAG
1 GGTTAGGTGTTTTTAGGGTTTAG
* *
93512237 GGTTAGGTTTTTTTAGGGTTTAT
1 GGTTAGGTGTTTTTAGGGTTTAG
93512260 GGTT
1 GGTT
93512264 TTTGTAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (23 bp):
GGTTAGGTGTTTTTAGGGTTTAG
Found at i:93512251 original size:16 final size:18
Alignment explanation
Indices: 93512232--93512277 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
93512222 GTTTTTATGG
93512232 TTTAGGG-TTA-GGTTTT
1 TTTAGGGTTTATGGTTTT
93512248 TTTAGGGTTTATGGTTTT
1 TTTAGGGTTTATGGTTTT
*
93512266 TGTAAGGGTTTA
1 T-TTAGGGTTTA
93512278 ATTAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 7 0.27
17 3 0.12
18 7 0.27
19 9 0.35
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.54
Consensus pattern (18 bp):
TTTAGGGTTTATGGTTTT
Found at i:93512306 original size:26 final size:26
Alignment explanation
Indices: 93512275--93512342 Score: 136
Period size: 26 Copynumber: 2.6 Consensus size: 26
93512265 TTGTAAGGGT
93512275 TTAATTAATTAAATTAGGGTGTAAGA
1 TTAATTAATTAAATTAGGGTGTAAGA
93512301 TTAATTAATTAAATTAGGGTGTAAGA
1 TTAATTAATTAAATTAGGGTGTAAGA
93512327 TTAATTAATTAAATTA
1 TTAATTAATTAAATTA
93512343 AATATTAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (26 bp):
TTAATTAATTAAATTAGGGTGTAAGA
Found at i:93512365 original size:16 final size:17
Alignment explanation
Indices: 93512326--93512366 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
93512316 AGGGTGTAAG
93512326 ATTAATTAATTAAATTAA
1 ATTAATTAATTAAA-TAA
93512344 A-T-ATTAATTAAA-AA
1 ATTAATTAATTAAATAA
93512358 ATTAATTAA
1 ATTAATTAA
93512367 ATTCGAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.14
15 1 0.05
16 15 0.71
17 1 0.05
18 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAATTAATTAAATAA
Found at i:93512617 original size:125 final size:123
Alignment explanation
Indices: 93512461--93512850 Score: 385
Period size: 125 Copynumber: 3.1 Consensus size: 123
93512451 TAAAATAATT
* * * * *
93512461 TTTTTTCTTCAGTAGTATCTG-GAAAAAAATTTTAAGAAGAAGTTTCTAAAGAAATAGTATCCAA
1 TTTTTT-TACAGT-GTATCTGAGAAAATAATTTTAAGAAGACGTTTCTAAA-AAATAGTGTCAAA
93512525 AACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAATGCTCCCACGTGGACGCT-
63 AACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAA-GCTCCCACGTGGACGCTC
* *
93512586 TTTTTTTACAGTGGTATCTGAGAAAATAATTTTGAGAAGACGTTTCTGAAAAAATAGTGTAAAAA
1 TTTTTTTACAGT-GTATCTGAGAAAATAATTTTAAGAAGACGTTTCT-AAAAAATAGTGTCAAAA
* * * *
93512651 ACGCTTTAAGCAGGATGGACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGA-GCTC
64 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTG-AAAAAGCTCCCACGTGGACGCTC
** * * * * * * *
93512711 TTTTGATACAGTATATCTGAAAAAAATAATTGTGAA-ATGACCTTTTTGAACAAATAGTGTCAAA
1 TTTTTTTACAGTGTATCTG-AGAAAATAATT-TTAAGAAGACGTTTCT-AAAAAATAGTGTCAAA
* * * * *
93512775 AATGCTTCATGC-AGTATGTACTTTCAGCAAAATTACTGAGAAAAGCTCCCAAGTGGACACGCTC
63 AACGCTTCAAGCAAG-ATGCACTGTCAGCAAAATTACTGA-AAAAGCTCCCACGTGG--ACGCTC
*
93512839 TTTTTCTACAGT
1 TTTTTTTACAGT
93512851 AGTTCCTATT
Statistics
Matches: 221, Mismatches: 33, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
124 23 0.10
125 173 0.78
126 10 0.05
127 1 0.00
128 14 0.06
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (123 bp):
TTTTTTTACAGTGTATCTGAGAAAATAATTTTAAGAAGACGTTTCTAAAAAATAGTGTCAAAAAC
GCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAGCTCCCACGTGGACGCTC
Found at i:93515972 original size:29 final size:29
Alignment explanation
Indices: 93515940--93516028 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 29
93515930 AAAACAACTT
93515940 TTATTTTATTACAAATATAAAAGAGTAAA
1 TTATTTTATTACAAATATAAAAGAGTAAA
* * *
93515969 TTA--TAATTA-AAATACTAAAA-A-CAACTT
1 TTATTTTATTACAAATA-TAAAAGAGTAA--A
93515996 TTATTTTATTACAAATATAAAAGAGTAAA
1 TTATTTTATTACAAATATAAAAGAGTAAA
93516025 TTAT
1 TTAT
93516029 AATTAAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
25 2 0.04
26 6 0.13
27 13 0.28
29 17 0.37
30 6 0.13
31 2 0.04
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (29 bp):
TTATTTTATTACAAATATAAAAGAGTAAA
Found at i:93515987 original size:27 final size:27
Alignment explanation
Indices: 93515947--93516044 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
93515937 CTTTTATTTT
93515947 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
* * *
93515974 ATTA-AAATACTAAAA-A-CAACTTTTATTTT
1 ATTACAAATA-TAAAAGAGTAA--ATTA--TA
93516003 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
93516030 ATTA-AAATATTAAAA
1 ATTACAAATA-TAAAA
93516045 ACAAATTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
25 2 0.04
26 11 0.20
27 22 0.39
29 13 0.23
30 6 0.11
31 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (27 bp):
ATTACAAATATAAAAGAGTAAATTATA
Found at i:93515990 original size:56 final size:56
Alignment explanation
Indices: 93515930--93516062 Score: 248
Period size: 56 Copynumber: 2.4 Consensus size: 56
93515920 TTCCTTATTC
93515930 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
*
93515986 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATATTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
*
93516042 AAAACAAATTTTATTTTATTA
1 AAAACAACTTTTATTTTATTA
93516063 AATGAAAGAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (56 bp):
AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
Found at i:93516055 original size:27 final size:26
Alignment explanation
Indices: 93515969--93516055 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
93515959 AAAGAGTAAA
*
93515969 TTATAATTAAAATACTAAAAACAACTT
1 TTATAATTAAAATA-TAAAAACAAATT
* *
93515996 TTATTTTATTACAAATATAAAAGAGTAAA--
1 TTA--TAATTA-AAATATAAAA-A-CAAATT
93516025 TTATAATTAAAATATTAAAAACAAATT
1 TTATAATTAAAATA-TAAAAACAAATT
93516052 TTAT
1 TTAT
93516056 TTTATTAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
25 3 0.06
26 6 0.13
27 17 0.36
29 13 0.28
30 6 0.13
31 2 0.04
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (26 bp):
TTATAATTAAAATATAAAAACAAATT
Found at i:93517150 original size:7 final size:7
Alignment explanation
Indices: 93517138--93517170 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
93517128 TATACATAAC
93517138 ACTAAAT
1 ACTAAAT
93517145 ACTAAAT
1 ACTAAAT
93517152 ACTAAAT
1 ACTAAAT
*
93517159 ATTAAAT
1 ACTAAAT
93517166 ACTAA
1 ACTAA
93517171 TACGAAACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (7 bp):
ACTAAAT
Found at i:93517153 original size:21 final size:21
Alignment explanation
Indices: 93517135--93517178 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
93517125 TTGTATACAT
93517135 AACACTAAATACTAAATACTA
1 AACACTAAATACTAAATACTA
* * *
93517156 AATATTAAATACT-AATACGA
1 AACACTAAATACTAAATACTA
93517176 AAC
1 AAC
93517179 GAGTATTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (21 bp):
AACACTAAATACTAAATACTA
Found at i:93518152 original size:27 final size:27
Alignment explanation
Indices: 93518122--93518201 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 27
93518112 ATTAAAATTA
93518122 AAATTGGATAAATGAAAAAAAAATATT
1 AAATTGGATAAATGAAAAAAAAATATT
* ** *
93518149 AAATT-G-T-ATTGAAAAATTAAT-TA
1 AAATTGGATAAATGAAAAAAAAATATT
* *
93518172 AAATTGCATAAAT-TAAAAAAAATATT
1 AAATTGGATAAATGAAAAAAAAATATT
93518198 AAAT
1 AAAT
93518202 ACTATTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 9
0.67 0.17 0.16
Matches are distributed among these distances:
23 6 0.15
24 11 0.28
25 9 0.23
26 8 0.21
27 5 0.13
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTGGATAAATGAAAAAAAAATATT
Found at i:93518209 original size:49 final size:50
Alignment explanation
Indices: 93518117--93518217 Score: 150
Period size: 49 Copynumber: 2.0 Consensus size: 50
93518107 ATAAAATTAA
* **
93518117 AATTAAAATTGGATAAATGAAAAAAAAATATTAAATTGTATTGAAAAATT
1 AATTAAAATTGCATAAATGAAAAAAAAATATTAAATACTATTGAAAAATT
* *
93518167 AATTAAAATTGCATAAAT-TAAAAAAAATATTAAATACTATTGAAATATT
1 AATTAAAATTGCATAAATGAAAAAAAAATATTAAATACTATTGAAAAATT
93518216 AA
1 AA
93518218 AATTATCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 29 0.63
50 17 0.37
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (50 bp):
AATTAAAATTGCATAAATGAAAAAAAAATATTAAATACTATTGAAAAATT
Found at i:93520790 original size:45 final size:45
Alignment explanation
Indices: 93520731--93520859 Score: 168
Period size: 45 Copynumber: 2.9 Consensus size: 45
93520721 CAAGCACTTA
* *
93520731 TGTGCCGACTACTGTTACTGTTACTGTTACCGATTCGGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGATTCGGCACTTTG
* * **
93520776 TGTGTCGAATACTGTTACTGTTACCGTTATCGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGATTCGGCACTTTG
* * * *
93520821 TGTGTTGAATACTGCTACTGTTACTGTTACTGTTTCGGC
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGATTCGGC
93520860 TTCAGCCGAT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (45 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACCGATTCGGCACTTTG
Found at i:93520995 original size:18 final size:18
Alignment explanation
Indices: 93520974--93521124 Score: 105
Period size: 18 Copynumber: 8.4 Consensus size: 18
93520964 CTGATTATTT
93520974 CTGAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
* * *
93520992 CTGAATAACTGATTGTCA
1 CTGAATAATTGACTGTTA
* *
93521010 CTGAAT-ATCTGATTGTCA
1 CTGAATAAT-TGACTGTTA
*
93521028 CTGAAT-ATCTGA-TTTTA
1 CTGAATAAT-TGACTGTTA
*
93521045 CTAAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
* * * *
93521063 CTAAATAACTTAATTGCTA
1 CTGAATAA-TTGACTGTTA
*
93521082 CTGAAT-ATCTGA-TTTTA
1 CTGAATAAT-TGACTGTTA
*
93521099 CTAAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
*
93521117 CTGGATAA
1 CTGAATAA
93521125 CCGATCAATT
Statistics
Matches: 107, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
17 24 0.22
18 71 0.66
19 12 0.11
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (18 bp):
CTGAATAATTGACTGTTA
Found at i:93521014 original size:36 final size:35
Alignment explanation
Indices: 93520959--93521072 Score: 131
Period size: 36 Copynumber: 3.2 Consensus size: 35
93520949 AAAGGTATAA
*
93520959 AATAACTGATTATTTCTGAATAATTGACTGTTACTG
1 AATAACTGATT-TTACTGAATAATTGACTGTTACTG
* * *
93520995 AATAACTGATTGTCACTGAAT-ATCTGATTGTCACTG
1 AATAACTGATT-TTACTGAATAAT-TGACTGTTACTG
* * *
93521031 AATATCTGATTTTACTAAATAATTGACTGTTACTA
1 AATAACTGATTTTACTGAATAATTGACTGTTACTG
93521066 AATAACT
1 AATAACT
93521073 TAATTGCTAC
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
35 24 0.38
36 40 0.62
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (35 bp):
AATAACTGATTTTACTGAATAATTGACTGTTACTG
Found at i:93521213 original size:18 final size:18
Alignment explanation
Indices: 93520959--93521213 Score: 100
Period size: 18 Copynumber: 13.8 Consensus size: 18
93520949 AAAGGTATAA
* * *
93520959 AATAACTGATTATTTCTG
1 AATAAATGATTGTTACTG
* *
93520977 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
93520995 AATAACTGATTGTCACTG
1 AATAAATGATTGTTACTG
** *
93521013 AATATCTGATTGTCACTG
1 AATAAATGATTGTTACTG
** *
93521031 AATATCTGATT-TTACTA
1 AATAAATGATTGTTACTG
* * *
93521048 AATAATTGACTGTTACTA
1 AATAAATGATTGTTACTG
* * *
93521066 AATAACTTAATTGCTACTG
1 AATAA-ATGATTGTTACTG
** *
93521085 AATATCTGATT-TTACTA
1 AATAAATGATTGTTACTG
* *
93521102 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
93521120 GATAACCGATCAATTGATCAATACTG
1 AATAA---AT-GATTG-T---TACTG
* * * *
93521146 AATAACTGGTTATTATTG
1 AATAAATGATTGTTACTG
* *
93521164 AATAATTGATTGTTACCG
1 AATAAATGATTGTTACTG
* *
93521182 AATAACTGACTGTTACTG
1 AATAAATGATTGTTACTG
*
93521200 AATAAATAATTGTT
1 AATAAATGATTGTT
93521214 TTGATTGTTA
Statistics
Matches: 179, Mismatches: 47, Indels: 22
0.72 0.19 0.09
Matches are distributed among these distances:
17 24 0.13
18 124 0.69
19 13 0.07
21 2 0.01
22 5 0.03
23 2 0.01
26 9 0.05
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (18 bp):
AATAAATGATTGTTACTG
Found at i:93523666 original size:16 final size:15
Alignment explanation
Indices: 93523627--93523660 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
93523617 AAATACATAA
93523627 AAAATATAAAACATGAC
1 AAAATA-AAAA-ATGAC
93523644 AAAATAAAAAATGAC
1 AAAATAAAAAATGAC
93523659 AA
1 AA
93523661 TGATAATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 4 0.24
17 6 0.35
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAATAAAAAATGAC
Found at i:93523683 original size:3 final size:3
Alignment explanation
Indices: 93523675--93524027 Score: 199
Period size: 3 Copynumber: 117.3 Consensus size: 3
93523665 AATGAGAACG
* * * * *
93523675 ATA ATA ATA ATA ATA TTA ATA ATA ATA TTA ATA ATA GTA AAA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
93523723 ATA CTA ATG ATA ATA ATA ATA GTA ATA ATA AGA ATA TTA ATA TTA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
93523771 ATA ATA ATA ATG ATA ATA GTA ATA GAAA ATA CA-A ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA -ATA ATA ATA ATA ATA
* * * *
93523816 ATA GTAA ATA A-A AGTA A-A AGTA ATA GTA ATA ATA ATG GTA ATA ATA
1 ATA AT-A ATA ATA A-TA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * *** * *
93523862 A-A AGGA ATA ATA ATA GCA ATA ATA AGA GCG TTA ATA ATA GTA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
93523907 ATA CA-A ATA ATA ATA TATA TATGA AAA ATA ATA ATA GTA A-A ATA ATA
1 ATA -ATA ATA ATA ATA -ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* *
93523954 ATA ATA ATA ATA ATA ATA GA-A GTA GTA ATA ATA AT- ATAA ATA CA-A
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA AT-A ATA -ATA
* *
93523999 GT- ATA ATA ATA ATA GTA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
93524028 AACAACAAAA
Statistics
Matches: 266, Mismatches: 60, Indels: 48
0.71 0.16 0.13
Matches are distributed among these distances:
2 17 0.06
3 225 0.85
4 23 0.09
5 1 0.00
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:93524028 original size:35 final size:35
Alignment explanation
Indices: 93523933--93524032 Score: 97
Period size: 35 Copynumber: 2.9 Consensus size: 35
93523923 ATATATGAAA
93523933 AATAATAATAGTAA-AATAATAAT-AAT--AATAAT
1 AATAATAATAGTAATAAT-ATAATAAATACAATAAT
93523965 AATAATAGAAGTAGTAATAATA-ATATAAATACAAGT-AT
1 AATAAT--AA-TAGTAATAATATA-ATAAATACAA-TAAT
93524003 AATAATAATAGTAATAATATAATAAA-ACAA
1 AATAATAATAGTAATAATATAATAAATACAA
93524033 CAAAAGTAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 18
0.76 0.00 0.24
Matches are distributed among these distances:
32 6 0.10
34 7 0.12
35 25 0.43
36 9 0.16
38 10 0.17
39 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (35 bp):
AATAATAATAGTAATAATATAATAAATACAATAAT
Found at i:93527391 original size:42 final size:42
Alignment explanation
Indices: 93527345--93527495 Score: 180
Period size: 42 Copynumber: 3.6 Consensus size: 42
93527335 CATGGTCCAA
*
93527345 CTATGGTCATT-CACATATTCACATATCGATGCCATAGCCTAG
1 CTATGGTC-TTACACATAATCACATATCGATGCCATAGCCTAG
* *
93527387 CTATGGTCTTATACGTAATCACATATCGATGCCATAG-CTCAG
1 CTATGGTCTTACACATAATCACATATCGATGCCATAGCCT-AG
* ** * * *
93527429 CTATAGTCTTACATGTAATCACATATCGATGTCATAGCCCAA
1 CTATGGTCTTACACATAATCACATATCGATGCCATAGCCTAG
*
93527471 CTATGGTCTTACACGTAATCACATA
1 CTATGGTCTTACACATAATCACATA
93527496 CTGACATGGT
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 4 0.04
42 90 0.95
43 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (42 bp):
CTATGGTCTTACACATAATCACATATCGATGCCATAGCCTAG
Found at i:93532865 original size:18 final size:19
Alignment explanation
Indices: 93532810--93532867 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
93532800 ATGTTATAAA
*
93532810 ATAAAGAA-AGATAGAGAAA
1 ATAAAGAACA-ATAGAGAAT
*
93532829 ATAAAGAACAA-AGAAAAT
1 ATAAAGAACAATAGAGAAT
*
93532847 ATAAA-AGCAATAGAGAAT
1 ATAAAGAACAATAGAGAAT
93532865 ATA
1 ATA
93532868 CTTTATTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 4 0.12
18 19 0.58
19 9 0.27
20 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.16, T:0.14
Consensus pattern (19 bp):
ATAAAGAACAATAGAGAAT
Found at i:93534283 original size:48 final size:48
Alignment explanation
Indices: 93534204--93534297 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
93534194 AGGGAATTCT
* * *
93534204 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCATTTTTACG
93534252 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCATTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCATTTTTA
93534298 AGCCAAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 2 0.05
48 39 0.95
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCATTTTTACG
Found at i:93536320 original size:23 final size:22
Alignment explanation
Indices: 93536276--93536326 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
93536266 ATTGTATATG
*
93536276 TATATTTATATATTTTGTTTTA
1 TATAATTATATATTTTGTTTTA
*
93536298 TTTAATTATATATTTT-TAATTTA
1 TATAATTATATATTTTGT--TTTA
93536321 TATAAT
1 TATAAT
93536327 GTAAATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 14 0.58
23 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATAATTATATATTTTGTTTTA
Found at i:93537460 original size:16 final size:16
Alignment explanation
Indices: 93537422--93537474 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
93537412 ATAGTTTTTA
*
93537422 ATTAAAATTAAAAAAT
1 ATTAAAATTAAAAATT
* *
93537438 ACATAAAATTCAAAATT
1 A-TTAAAATTAAAAATT
*
93537455 ATTAAAATTTAAAATAT
1 ATTAAAATTAAAAAT-T
93537472 ATT
1 ATT
93537475 TATAAATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTAAAATTAAAAATT
Found at i:93538759 original size:15 final size:17
Alignment explanation
Indices: 93538740--93538780 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
93538730 TTAATTTTTA
93538740 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
93538756 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
93538772 AAAATTATA
1 AAAATTATA
93538781 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:93538798 original size:23 final size:23
Alignment explanation
Indices: 93538772--93538831 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
93538762 TTAAAATAAT
*
93538772 AAAATTATATTTTTATTATTA-TA
1 AAAATTATATTTTAATTA-TACTA
*
93538795 AAAATATATAATTTAATTATACTA
1 AAAAT-TATATTTTAATTATACTA
*
93538819 AAAAATA-ATTTTA
1 AAAATTATATTTTA
93538832 CCTTTGCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 5 0.16
23 9 0.29
24 17 0.55
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAATTATATTTTAATTATACTA
Found at i:93538802 original size:22 final size:22
Alignment explanation
Indices: 93538740--93538803 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
93538730 TTAATTTTTA
93538740 AAAATTATAAAAATATAAATTATT
1 AAAATTATAAAAATAT--ATTATT
* * *
93538764 AAAATAATAAAATTATATTTTT
1 AAAATTATAAAAATATATTATT
**
93538786 ATTATTATAAAAATATAT
1 AAAATTATAAAAATATAT
93538804 AATTTAATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
22 19 0.58
24 14 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATTATAAAAATATATTATT
Found at i:93538813 original size:24 final size:23
Alignment explanation
Indices: 93538743--93538822 Score: 60
Period size: 24 Copynumber: 3.4 Consensus size: 23
93538733 ATTTTTAAAA
93538743 ATTATAAAAATATA-AA-TTATT
1 ATTATAAAAATATATAATTTATT
** *
93538764 AAAATAATAAA-ATTATATTTTTATT
1 ATTATAA-AAATA-TATA-ATTTATT
93538789 ATTATAAAAATATATAATTTAATT
1 ATTATAAAAATATATAATTT-ATT
93538813 A-TACTAAAAA
1 ATTA-TAAAAA
93538823 ATAATTTTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
21 6 0.13
22 5 0.11
23 6 0.13
24 17 0.38
25 11 0.24
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTATAAAAATATATAATTTATT
Found at i:93539892 original size:21 final size:21
Alignment explanation
Indices: 93539841--93539892 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
93539831 TGGAAAAAAT
*
93539841 ATATATAACA-TATTTTTATA
1 ATATATAATATTATTTTTATA
*
93539861 A-ATAATCATATTATTTTTATA
1 ATAT-ATAATATTATTTTTATA
93539882 ATATATAATAT
1 ATATATAATAT
93539893 GCACGCGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 2 0.08
20 5 0.19
21 17 0.65
22 2 0.08
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATATAATATTATTTTTATA
Found at i:93543566 original size:40 final size:40
Alignment explanation
Indices: 93543511--93543590 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
93543501 ATATGTTAAA
*
93543511 CTATGACACTACAGACAGTAGTAGTAGTTCTAATAATTCT
1 CTATGACACTACAGACAGTAGTAGCAGTTCTAATAATTCT
93543551 CTATGACACTACAGACAGTAGTAGCAGTTCTAATAATTCT
1 CTATGACACTACAGACAGTAGTAGCAGTTCTAATAATTCT
93543591 GATAAAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (40 bp):
CTATGACACTACAGACAGTAGTAGCAGTTCTAATAATTCT
Found at i:93543607 original size:21 final size:20
Alignment explanation
Indices: 93543578--93543616 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
93543568 GTAGTAGCAG
93543578 TTCTAATAATTCTGATAAAAA
1 TTCTAATAATTCT-ATAAAAA
*
93543599 TTCTGATAATTCTATAAA
1 TTCTAATAATTCTATAAA
93543617 TTTAGAAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (20 bp):
TTCTAATAATTCTATAAAAA
Found at i:93544240 original size:22 final size:23
Alignment explanation
Indices: 93544215--93544260 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
93544205 CAACCAAATC
93544215 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
93544237 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
93544260 A
1 A
93544261 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:93544266 original size:23 final size:23
Alignment explanation
Indices: 93544222--93544266 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
93544212 ATCAATTCAA
*
93544222 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
93544245 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
93544267 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:93545852 original size:17 final size:17
Alignment explanation
Indices: 93545830--93545863 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
93545820 TTCATTCTGA
*
93545830 CATTATCTCACAAAATT
1 CATTATATCACAAAATT
*
93545847 CATTATATCTCAAAATT
1 CATTATATCACAAAATT
93545864 TACAAATCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (17 bp):
CATTATATCACAAAATT
Found at i:93548713 original size:16 final size:16
Alignment explanation
Indices: 93548692--93548745 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
93548682 TTACTAGTAA
93548692 AGTCATGTCATACAAT
1 AGTCATGTCATACAAT
* *
93548708 AGTCATGT-ATCCAAC
1 AGTCATGTCATACAAT
93548723 A-TCATGTCATACAAT
1 AGTCATGTCATACAAT
93548738 AGTCATGT
1 AGTCATGT
93548746 ATCCAACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 6 0.19
15 12 0.38
16 14 0.44
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (16 bp):
AGTCATGTCATACAAT
Found at i:93548730 original size:30 final size:30
Alignment explanation
Indices: 93548694--93548754 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
93548684 ACTAGTAAAG
93548694 TCATGTCATACAATAGTCATGTATCCAACA
1 TCATGTCATACAATAGTCATGTATCCAACA
93548724 TCATGTCATACAATAGTCATGTATCCAACA
1 TCATGTCATACAATAGTCATGTATCCAACA
93548754 T
1 T
93548755 ACCTGCTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (30 bp):
TCATGTCATACAATAGTCATGTATCCAACA
Found at i:93549356 original size:16 final size:16
Alignment explanation
Indices: 93549268--93549356 Score: 67
Period size: 16 Copynumber: 5.4 Consensus size: 16
93549258 AAAAAAAACA
93549268 TAAAACATTAAGACAT
1 TAAAACATTAAGACAT
* *
93549284 TAGAACGTTAAGAC-T
1 TAAAACATTAAGACAT
*
93549299 TAAAACAAATAAGACA-
1 TAAAAC-ATTAAGACAT
93549315 TAAAAGCATTAA-ACAT
1 TAAAA-CATTAAGACAT
* *
93549331 AAACAAAACATAAAGACAT
1 ---TAAAACATTAAGACAT
93549350 TAAAACA
1 TAAAACA
93549357 CTCATGAATG
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
15 9 0.16
16 33 0.59
17 1 0.02
18 5 0.09
19 8 0.14
ACGTcount: A:0.60, C:0.13, G:0.08, T:0.19
Consensus pattern (16 bp):
TAAAACATTAAGACAT
Found at i:93568930 original size:45 final size:45
Alignment explanation
Indices: 93568727--93569000 Score: 293
Period size: 45 Copynumber: 6.2 Consensus size: 45
93568717 TAAGACCGGT
* * **
93568727 TTGAAAGATA-TATGGCAACTGATATGAAATGTGTAAGACCATGG
1 TTGAAAGATACCATGGCAACTGACATGAAATGAATAAGACCATGG
* *
93568771 TTGAAAGATACCATAGCAGACAT-AC-GGAAATG-A-AAGACCTAT-G
1 TTGAAAGATACCATGGCA-AC-TGACATGAAATGAATAAGACC-ATGG
*
93568814 TTG-AAGATACCATGGCAACTGACATGAAATGAA-AAAACCATGG
1 TTGAAAGATACCATGGCAACTGACATGAAATGAATAAGACCATGG
93568857 TTGAAAGAT-CCATGGCAACGTGACATGAAA-GAATAAGACCATGG
1 TTGAAAGATACCATGGCAAC-TGACATGAAATGAATAAGACCATGG
*
93568901 TTGAAAGATACCATGGCAACGTGACATGAAAAGAAT-AGACCATGG
1 TTGAAAGATACCATGGCAAC-TGACATGAAATGAATAAGACCATGG
* * *
93568946 TTGAAAGATACCATGACAACATGACA-GAAAATGAGTAAGACCGATAG
1 TTGAAAGATACCATGGCAAC-TGACATG-AAATGAATAAGACC-ATGG
93568993 TTGAAAGA
1 TTGAAAGA
93569001 CACTATGCAT
Statistics
Matches: 200, Mismatches: 14, Indels: 29
0.82 0.06 0.12
Matches are distributed among these distances:
40 1 0.00
41 4 0.02
42 21 0.10
43 33 0.17
44 46 0.23
45 71 0.35
46 12 0.06
47 12 0.06
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (45 bp):
TTGAAAGATACCATGGCAACTGACATGAAATGAATAAGACCATGG
Found at i:93600303 original size:11 final size:11
Alignment explanation
Indices: 93600287--93600338 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
93600277 GGATAAATAT
93600287 TATTTTATTAA
1 TATTTTATTAA
*
93600298 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
93600311 TATTTTACTAA
1 TATTTTATTAA
*
93600322 TATTATTATAAA
1 TATT-TTATTAA
93600334 TATTT
1 TATTT
93600339 AGTATAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
11 12 0.36
12 14 0.42
13 7 0.21
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:93604105 original size:46 final size:46
Alignment explanation
Indices: 93604054--93604283 Score: 334
Period size: 46 Copynumber: 5.0 Consensus size: 46
93604044 TTTCTGTCAT
** * * *
93604054 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTTAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
** *** *
93604100 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
*
93604146 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAAATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
93604192 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
**
93604238 GTTGCCATAATATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
93604284 AGAGCACACT
Statistics
Matches: 171, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 171 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:93606379 original size:16 final size:16
Alignment explanation
Indices: 93606360--93606398 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
93606350 AATTTTTCCC
*
93606360 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
93606376 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
93606392 TCTTTCC
1 TTTTTCC
93606399 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:93608378 original size:49 final size:50
Alignment explanation
Indices: 93608310--93608407 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 50
93608300 ATCTATTTAT
** * * *
93608310 AGGTTAAAAAAACTTTATTCTACTCAATGTCAAATAGATA-AAGTATAGTA
1 AGGTTAAAAAAACCATATTCTAATCAATGTAAAATA-AAAGAAGTATAGTA
*
93608360 AGGTT-AAAAAACCATATTCTAATTAATGTAAAATAAAAGAAGTATAGT
1 AGGTTAAAAAAACCATATTCTAATCAATGTAAAATAAAAGAAGTATAGT
93608408 TCTATATGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
48 2 0.05
49 34 0.83
50 5 0.12
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (50 bp):
AGGTTAAAAAAACCATATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
Found at i:93608450 original size:18 final size:18
Alignment explanation
Indices: 93608427--93608507 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
93608417 ATTTTACTTT
93608427 TATTTTATTTTATCACTG
1 TATTTTATTTTATCACTG
* * *
93608445 TATTTTATTTAAT-AGTTC
1 TATTTTATTTTATCA-CTG
** * *
93608463 TATATAGATTTTA-C-TTT
1 TAT-TTTATTTTATCACTG
93608480 TATTTTATTTTATCACTG
1 TATTTTATTTTATCACTG
93608498 TATTTTATTT
1 TATTTTATTT
93608508 AACAAAGATT
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
16 7 0.15
17 7 0.15
18 27 0.57
19 6 0.13
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.63
Consensus pattern (18 bp):
TATTTTATTTTATCACTG
Found at i:93608483 original size:53 final size:53
Alignment explanation
Indices: 93608403--93608509 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
93608393 TAAAAGAAGT
*
93608403 ATAGTTCTATATGGATTTTACTTTTATTTTATTTTATCACTGTATTTTATTTA
1 ATAGTTCTATATAGATTTTACTTTTATTTTATTTTATCACTGTATTTTATTTA
93608456 ATAGTTCTATATAGATTTTACTTTTATTTTATTTTATCACTGTATTTTATTTA
1 ATAGTTCTATATAGATTTTACTTTTATTTTATTTTATCACTGTATTTTATTTA
93608509 A
1 A
93608510 CAAAGATTCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (53 bp):
ATAGTTCTATATAGATTTTACTTTTATTTTATTTTATCACTGTATTTTATTTA
Found at i:93610124 original size:18 final size:18
Alignment explanation
Indices: 93610057--93610208 Score: 135
Period size: 18 Copynumber: 8.4 Consensus size: 18
93610047 TATCAATATC
93610057 ATTCAGTAAC-GATCAATT
1 ATTCAGTAACAG-TCAATT
* * **
93610075 GTTCAGAAACAGTCGGTT
1 ATTCAGTAACAGTCAATT
* * * *
93610093 ATTTAGTTATAGTCATTT
1 ATTCAGTAACAGTCAATT
93610111 ATTCAGTAACAGTCAATT
1 ATTCAGTAACAGTCAATT
* ** *
93610129 ATTCAGTAATAACCAGTT
1 ATTCAGTAACAGTCAATT
*
93610147 ATTCAGTAACAGTCATTT
1 ATTCAGTAACAGTCAATT
*
93610165 ATTCAGTAACAGTTAATT
1 ATTCAGTAACAGTCAATT
** *
93610183 ATTCAGTAGTAGTCAGTT
1 ATTCAGTAACAGTCAATT
93610201 ATTCAGTA
1 ATTCAGTA
93610209 CATTTATTTA
Statistics
Matches: 104, Mismatches: 29, Indels: 2
0.77 0.21 0.01
Matches are distributed among these distances:
18 103 0.99
19 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (18 bp):
ATTCAGTAACAGTCAATT
Found at i:93610134 original size:54 final size:54
Alignment explanation
Indices: 93610057--93610188 Score: 158
Period size: 54 Copynumber: 2.4 Consensus size: 54
93610047 TATCAATATC
* ** * * * *
93610057 ATTCAGTAAC-GATCAATTGTTCAGAAACAGTCGGTTATTTAGTTATAGTCATTT
1 ATTCAGTAACAG-TCAATTATTCAGAAACAACCAGTTATTCAGTAACAGTCATTT
* *
93610111 ATTCAGTAACAGTCAATTATTCAGTAATAACCAGTTATTCAGTAACAGTCATTT
1 ATTCAGTAACAGTCAATTATTCAGAAACAACCAGTTATTCAGTAACAGTCATTT
*
93610165 ATTCAGTAACAGTTAATTATTCAG
1 ATTCAGTAACAGTCAATTATTCAG
93610189 TAGTAGTCAG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
54 66 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (54 bp):
ATTCAGTAACAGTCAATTATTCAGAAACAACCAGTTATTCAGTAACAGTCATTT
Found at i:93610189 original size:54 final size:54
Alignment explanation
Indices: 93610103--93610208 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
93610093 ATTTAGTTAT
93610103 AGTCATTTATTCAGTAACAGTCAATTATTCAGTAATAACCAGTTATTCAGTAAC
1 AGTCATTTATTCAGTAACAGTCAATTATTCAGTAATAACCAGTTATTCAGTAAC
* * **
93610157 AGTCATTTATTCAGTAACAGTTAATTATTCAGTAGTAGTCAGTTATTCAGTA
1 AGTCATTTATTCAGTAACAGTCAATTATTCAGTAATAACCAGTTATTCAGTA
93610209 CATTTATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (54 bp):
AGTCATTTATTCAGTAACAGTCAATTATTCAGTAATAACCAGTTATTCAGTAAC
Found at i:93611671 original size:4 final size:4
Alignment explanation
Indices: 93611662--93611695 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
93611652 CACATTTGTC
93611662 TTTA TTTA TTTA TTTTA TTTA TTTA CTTTA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA
93611696 ATTAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:93611680 original size:9 final size:8
Alignment explanation
Indices: 93611662--93611695 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
93611652 CACATTTGTC
93611662 TTTATTTA
1 TTTATTTA
93611670 TTTATTTTA
1 TTTA-TTTA
93611679 TTTATTTA
1 TTTATTTA
93611687 CTTTATTTA
1 -TTTATTTA
93611696 ATTAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTATTTA
Found at i:93611680 original size:13 final size:13
Alignment explanation
Indices: 93611661--93611695 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
93611651 ACACATTTGT
93611661 CTTTATTTATTTA
1 CTTTATTTATTTA
*
93611674 TTTTATTTATTTA
1 CTTTATTTATTTA
93611687 CTTTATTTA
1 CTTTATTTA
93611696 ATTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
CTTTATTTATTTA
Found at i:93612210 original size:79 final size:78
Alignment explanation
Indices: 93612072--93612297 Score: 319
Period size: 79 Copynumber: 2.9 Consensus size: 78
93612062 TGGGTCGTTA
* * * *
93612072 CATATCTCATGTAACTGTAGCGAATCAGGAATACCTTTTCAGGTCAAATCCTA-CTCACCTTAAG
1 CATATATCATGTAACCGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATC-CACCTTAAG
*
93612136 TTATCATAAGGAAT
65 TTACCATAAGGAAT
* * *
93612150 CATGTATCATGTAACCGTAGTGAATCAGGATTACTCATTTCAGGTCAAATCCTATCCACCTTAGG
1 CATATATCATGTAACCGTAGTGAATCAGGATTAC-CTTTTCAGGTCAAATCCTATCCACCTTAAG
*
93612215 TTACCATAATGAAT
65 TTACCATAAGGAAT
* *
93612229 CATATATCATGTAATCGTAGTGAATCAGGATTACCCTTTTTAGGTCAAATCCTATCCACCTTAAG
1 CATATATCATGTAACCGTAGTGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAG
93612294 TTAC
65 TTAC
93612298 TATAGTGAAT
Statistics
Matches: 131, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
78 29 0.22
79 100 0.76
80 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (78 bp):
CATATATCATGTAACCGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGT
TACCATAAGGAAT
Found at i:93612343 original size:40 final size:40
Alignment explanation
Indices: 93612274--93612411 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
93612264 CTTTTTAGGT
*
93612274 CAAATCCTATCCACCTTAAGTTACTATAGTGAATCAAGAA
1 CAAATCCTATCCACTTTAAGTTACTATAGTGAATCAAGAA
* * * *
93612314 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAAGAA
1 CAAATCCTATCCACTTTAAGTTACTATAGTGAATCAAGAA
* * * *
93612354 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACTATAGTGAATCAAGAA
*
93612394 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
93612412 TATTCTCGAG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAGTTACTATAGTGAATCAAGAA
Found at i:93612617 original size:15 final size:15
Alignment explanation
Indices: 93612597--93612627 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
93612587 CATACATTTC
93612597 ATATATTCAATTCAA
1 ATATATTCAATTCAA
93612612 ATATATTCAATTCAA
1 ATATATTCAATTCAA
93612627 A
1 A
93612628 CATCATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATATTCAATTCAA
Found at i:93614102 original size:10 final size:11
Alignment explanation
Indices: 93614072--93614105 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
93614062 TTATATATTA
*
93614072 AATAAAATAGT
1 AATAAAATAAT
93614083 AATAAAATAAT
1 AATAAAATAAT
93614094 AAT-AAATAAT
1 AATAAAATAAT
93614104 AA
1 AA
93614106 AATATCTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:93616140 original size:19 final size:18
Alignment explanation
Indices: 93616113--93616160 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
93616103 GATGATGAAA
93616113 TAAAAAAAATAATGATATG-
1 TAAAAAAAATAA--ATATGC
*
93616132 TAAATAAAATAAATATGC
1 TAAAAAAAATAAATATGC
93616150 TAAAAAAAATA
1 TAAAAAAAATA
93616161 TATTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 5 0.19
18 10 0.38
19 11 0.42
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (18 bp):
TAAAAAAAATAAATATGC
Found at i:93616157 original size:17 final size:17
Alignment explanation
Indices: 93616115--93616157 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 17
93616105 TGATGAAATA
93616115 AAAAAAATAATGATATGT
1 AAAAAAATAA-GATATGT
93616133 AAATAAAATAA-ATATGCT
1 AAA-AAAATAAGATATG-T
93616151 AAAAAAA
1 AAAAAAA
93616158 ATATATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 9 0.39
18 7 0.30
19 7 0.30
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.23
Consensus pattern (17 bp):
AAAAAAATAAGATATGT
Found at i:93616285 original size:33 final size:38
Alignment explanation
Indices: 93616245--93616326 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 38
93616235 GTAAAAACAC
93616245 AATAGTAATAATAATGA-AA-A-GGTATTA-TAAT-AT
1 AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
*
93616278 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGATAATAG-GGTATTAGTAATAAT
*
93616317 AATAATAATA
1 AATAGTAATA
93616327 GAAAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 1 0.02
37 7 0.17
38 4 0.10
39 11 0.27
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.34
Consensus pattern (38 bp):
AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
Found at i:93616335 original size:19 final size:18
Alignment explanation
Indices: 93616311--93616352 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
93616301 TGGTATTAGT
*
93616311 AATAATAATAATAATAGAA
1 AATAATAACAATAATA-AA
*
93616330 AATAATAACAATATTAAA
1 AATAATAACAATAATAAA
93616348 AATAA
1 AATAA
93616353 CACTCTCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AATAATAACAATAATAAA
Found at i:93616762 original size:35 final size:35
Alignment explanation
Indices: 93616717--93616855 Score: 197
Period size: 35 Copynumber: 4.0 Consensus size: 35
93616707 TTTGTAGGCA
* * ** *
93616717 AGTGGAGTGGTTGGAATAATTTAGTGGGGTGGTTT
1 AGTGGGGTGGTTGGAGTGGTTTAGTGAGGTGGTTT
*
93616752 AGTGGGGTGGTTGGAGTGGTTTAGTGAGGTGATTT
1 AGTGGGGTGGTTGGAGTGGTTTAGTGAGGTGGTTT
* *
93616787 AGTGGGGTGATTGGAGTGGTTTAGTGGGGTGGTTT
1 AGTGGGGTGGTTGGAGTGGTTTAGTGAGGTGGTTT
*
93616822 AGTAGGGTGGTTGGAGTGGTTTAGTGAGGTGGTT
1 AGTGGGGTGGTTGGAGTGGTTTAGTGAGGTGGTT
93616856 GGAGTGAAGA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 92 1.00
ACGTcount: A:0.15, C:0.00, G:0.48, T:0.37
Consensus pattern (35 bp):
AGTGGGGTGGTTGGAGTGGTTTAGTGAGGTGGTTT
Found at i:93616770 original size:22 final size:22
Alignment explanation
Indices: 93616745--93616861 Score: 92
Period size: 22 Copynumber: 5.1 Consensus size: 22
93616735 ATTTAGTGGG
93616745 GTGGTTTAGTGGGGTGGTTGGA
1 GTGGTTTAGTGGGGTGGTTGGA
* * *
93616767 GTGGTTTAGTGAGGTGATT-TA
1 GTGGTTTAGTGGGGTGGTTGGA
* * * * *
93616788 GTGGGGTGATTGGAGTGGTTTAGTGGG
1 GT-GGTTTAGTGGGGTGG--T--TGGA
*
93616815 GTGGTTTAGTAGGGTGGTTGGA
1 GTGGTTTAGTGGGGTGGTTGGA
*
93616837 GTGGTTTAGTGAGGTGGTTGGA
1 GTGGTTTAGTGGGGTGGTTGGA
93616859 GTG
1 GTG
93616862 AAGATATTTG
Statistics
Matches: 70, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
21 3 0.04
22 52 0.74
24 2 0.03
26 11 0.16
27 2 0.03
ACGTcount: A:0.13, C:0.00, G:0.50, T:0.37
Consensus pattern (22 bp):
GTGGTTTAGTGGGGTGGTTGGA
Found at i:93616855 original size:13 final size:13
Alignment explanation
Indices: 93616736--93616855 Score: 86
Period size: 13 Copynumber: 10.2 Consensus size: 13
93616726 GTTGGAATAA
*
93616736 TTTAGTGGGGTGG
1 TTTAGTGAGGTGG
*
93616749 TTTAGTGGGGTGG
1 TTTAGTGAGGTGG
93616762 -TT-G-GA-GTGG
1 TTTAGTGAGGTGG
*
93616771 TTTAGTGAGGTGA
1 TTTAGTGAGGTGG
*
93616784 TTTAGTGGGGT-G
1 TTTAGTGAGGTGG
*
93616796 ATT-G-GA-GTGG
1 TTTAGTGAGGTGG
*
93616806 TTTAGTGGGGTGG
1 TTTAGTGAGGTGG
93616819 TTTAGT-AGGGTGG
1 TTTAGTGA-GGTGG
93616832 -TT-G-GA-GTGG
1 TTTAGTGAGGTGG
93616841 TTTAGTGAGGTGG
1 TTTAGTGAGGTGG
93616854 TT
1 TT
93616856 GGAGTGAAGA
Statistics
Matches: 84, Mismatches: 9, Indels: 28
0.69 0.07 0.23
Matches are distributed among these distances:
9 10 0.12
10 9 0.11
11 7 0.08
12 11 0.13
13 47 0.56
ACGTcount: A:0.12, C:0.00, G:0.49, T:0.38
Consensus pattern (13 bp):
TTTAGTGAGGTGG
Done.