Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 221 of 228
Found at i:65097025 original size:25 final size:25
Alignment explanation
Indices: 65096972--65097018 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
65096962 ATAATTGTAG
65096972 TGTATTTA-G-TATTATTTAT-ATGA
1 TGTATTTATGTTATTATTT-TCATGA
65096995 TGTATTTATGTTATTATTTTCATG
1 TGTATTTATGTTATTATTTTCATG
65097019 TGTTATTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 8 0.38
24 2 0.10
25 11 0.52
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.60
Consensus pattern (25 bp):
TGTATTTATGTTATTATTTTCATGA
Found at i:65097747 original size:16 final size:16
Alignment explanation
Indices: 65097722--65097760 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
65097712 ACGAATTTTC
65097722 TGTTTGGGCT-ATGGG
1 TGTTTGGGCTCATGGG
*
65097737 TTGTTTTGGCTCATGGG
1 -TGTTTGGGCTCATGGG
65097754 TGTTTGG
1 TGTTTGG
65097761 CATTTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.05, C:0.08, G:0.41, T:0.46
Consensus pattern (16 bp):
TGTTTGGGCTCATGGG
Found at i:65101333 original size:11 final size:11
Alignment explanation
Indices: 65101319--65101360 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
65101309 ATTTATTAGC
65101319 TATTATTATTT
1 TATTATTATTT
65101330 TATTATTATTT
1 TATTATTATTT
65101341 TGATT-TT-TTT
1 T-ATTATTATTT
*
65101351 TATAATTATT
1 TATTATTATT
65101361 AAGTATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 2 0.07
10 6 0.22
11 16 0.59
12 3 0.11
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (11 bp):
TATTATTATTT
Found at i:65102391 original size:15 final size:15
Alignment explanation
Indices: 65102371--65102409 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
65102361 GAATTATTTA
65102371 AAAATATTAAAAGA-T
1 AAAATATTAAAA-ATT
*
65102386 AAAATACTAAAAATT
1 AAAATATTAAAAATT
65102401 AAAATATTA
1 AAAATATTA
65102410 TTTTTACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (15 bp):
AAAATATTAAAAATT
Found at i:65104464 original size:26 final size:26
Alignment explanation
Indices: 65104428--65104481 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
65104418 TGTGGTGCAA
65104428 CCTACACTTTGGACTATCCCAAGCTT
1 CCTACACTTTGGACTATCCCAAGCTT
65104454 CCTACACTTTGGACTATCCCAAGCTT
1 CCTACACTTTGGACTATCCCAAGCTT
65104480 CC
1 CC
65104482 GTGCGTGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.37, G:0.11, T:0.30
Consensus pattern (26 bp):
CCTACACTTTGGACTATCCCAAGCTT
Found at i:65111551 original size:8 final size:8
Alignment explanation
Indices: 65111538--65111563 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
65111528 AATGATAAGG
65111538 TTGAAATC
1 TTGAAATC
65111546 TTGAAATC
1 TTGAAATC
65111554 TTGAAATC
1 TTGAAATC
65111562 TT
1 TT
65111564 AAGTATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (8 bp):
TTGAAATC
Found at i:65114050 original size:12 final size:12
Alignment explanation
Indices: 65114029--65114061 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
65114019 AGTAAGTAAA
65114029 TAAATAAAATAT
1 TAAATAAAATAT
*
65114041 TAAATGAAATAT
1 TAAATAAAATAT
65114053 TAAATAAAA
1 TAAATAAAA
65114062 CCTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:65115884 original size:143 final size:143
Alignment explanation
Indices: 65115716--65116048 Score: 488
Period size: 143 Copynumber: 2.3 Consensus size: 143
65115706 GATTTGCTAT
* * *
65115716 CTTCAATCTGTTCCGCTGCAACTTCAGGAAGATAAAATTCGCCATAACTTGTAGTTTTAATCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAACTTGTAGTTTTAATCTGT
*** * *
65115781 TCCACTACAATGTCAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCGCTGCAAG-TTCAGGGA
66 TCCACTACAACACCAGGGAAATAAGATTCGCTATCTTTAATCTACTCCGCTGC-AGCTTCAGGGA
65115845 GATAAGGCTAGTGG
130 GATAAGGCTAGTGG
* * * *
65115859 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTCACTATAACTTTTAGTTTTAATCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAACTTGTAGTTTTAATCTGT
* * *
65115924 TCCACTGCAACACCAGGGAAATAAGATTCGTTATCTTTAATCTACTCCGCTGCAGCTTTAGGGAG
66 TCCACTACAACACCAGGGAAATAAGATTCGCTATCTTTAATCTACTCCGCTGCAGCTTCAGGGAG
*
65115989 ATAAGGCTGGTGG
131 ATAAGGCTAGTGG
* *
65116002 CTTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAA
65116049 TGACTTCAAT
Statistics
Matches: 168, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
142 2 0.01
143 166 0.99
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (143 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAACTTGTAGTTTTAATCTGT
TCCACTACAACACCAGGGAAATAAGATTCGCTATCTTTAATCTACTCCGCTGCAGCTTCAGGGAG
ATAAGGCTAGTGG
Found at i:65115897 original size:188 final size:188
Alignment explanation
Indices: 65115528--65115879 Score: 503
Period size: 188 Copynumber: 1.9 Consensus size: 188
65115518 AGGCTGGTGG
* *
65115528 CTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAAATCTGCCATAACTTGTAGCTTTAATCTGT
* * * *
65115593 TCCACTACAACACTAGGGAAATAAAATTCGCTGTTTTCAATCTTCTTCGTTGCAACTTCAGGGAG
66 TCCACTACAACACTAGGGAAATAAAATTCGCTATTTTCAATCTGCTCCGCTGCAACTTCAGGGAG
* *
65115658 ATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAATGCCAAAAAAATAAGATTTGCTAT
131 ATAAGGCTAGTGGCTTCAATCTACTCCACTGCAATGCCAAAAAAATAAGATTTGCTAT
* * * *
65115716 CTTCAATCTGTTCCGCTGCAACTTCAGGAAGATAAAAT-TCGCCATAACTTGTAGTTTTAATCTG
1 CTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAAATCT-GCCATAACTTGTAGCTTTAATCTG
** * * *
65115780 TTCCACTACAA-TGTCAGGGAAATAAGATTCGCTATCTTT-AGTCTGCTCCGCTGCAAGTTCAGG
65 TTCCACTACAACACT-AGGGAAATAAAATTCGCTAT-TTTCAATCTGCTCCGCTGCAACTTCAGG
65115843 GAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAA
128 GAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAA
65115880 CTTCAGGAAG
Statistics
Matches: 144, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
187 2 0.01
188 139 0.97
189 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (188 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAAATCTGCCATAACTTGTAGCTTTAATCTGT
TCCACTACAACACTAGGGAAATAAAATTCGCTATTTTCAATCTGCTCCGCTGCAACTTCAGGGAG
ATAAGGCTAGTGGCTTCAATCTACTCCACTGCAATGCCAAAAAAATAAGATTTGCTAT
Found at i:65117052 original size:14 final size:15
Alignment explanation
Indices: 65117029--65117061 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
65117019 ATCGACGCTT
*
65117029 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
65117043 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
65117058 TTCC
1 TTCC
65117062 CAGTTTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:65117979 original size:30 final size:30
Alignment explanation
Indices: 65117943--65118002 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
65117933 GAAGTGAGTA
65117943 AAAAAATACATTTTATTGAAATAAAAATGT
1 AAAAAATACATTTTATTGAAATAAAAATGT
65117973 AAAAAATACATTTTATTGAAATAAAAATGT
1 AAAAAATACATTTTATTGAAATAAAAATGT
65118003 TGGACATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (30 bp):
AAAAAATACATTTTATTGAAATAAAAATGT
Found at i:65122090 original size:12 final size:12
Alignment explanation
Indices: 65122049--65122091 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
65122039 AAATGACAAT
*
65122049 ATAATAATAACA
1 ATAATAACAACA
*
65122061 ATAACAACAACA
1 ATAATAACAACA
* *
65122073 ACAATAACCACA
1 ATAATAACAACA
65122085 ATAATAA
1 ATAATAA
65122092 TAAGTCTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAATAACAACA
Found at i:65122093 original size:15 final size:15
Alignment explanation
Indices: 65122054--65122094 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
65122044 ACAATATAAT
65122054 AATAACAATAACAAC
1 AATAACAATAACAAC
* *
65122069 AACAACAATAACCAC
1 AATAACAATAACAAC
*
65122084 AATAATAATAA
1 AATAACAATAA
65122095 GTCTAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.66, C:0.20, G:0.00, T:0.15
Consensus pattern (15 bp):
AATAACAATAACAAC
Found at i:65124458 original size:11 final size:11
Alignment explanation
Indices: 65124442--65124472 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
65124432 GAAGATCATG
65124442 CAAAGTGAGTT
1 CAAAGTGAGTT
65124453 CAAAGTGAGTT
1 CAAAGTGAGTT
*
65124464 CAAAATGAG
1 CAAAGTGAG
65124473 CATGGTAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.23
Consensus pattern (11 bp):
CAAAGTGAGTT
Found at i:65127001 original size:17 final size:17
Alignment explanation
Indices: 65126979--65127011 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
65126969 TATTTTTTTA
65126979 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
65126996 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
65127012 TATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:65136173 original size:8 final size:8
Alignment explanation
Indices: 65136153--65136210 Score: 52
Period size: 8 Copynumber: 7.6 Consensus size: 8
65136143 CCAAACAAAT
*
65136153 TAAAATGA
1 TAAAATAA
65136161 T-AAATAA
1 TAAAATAA
65136168 TAAAATAA
1 TAAAATAA
*
65136176 TAATATAA
1 TAAAATAA
65136184 T--AAT-A
1 TAAAATAA
*
65136189 TAATATAA
1 TAAAATAA
65136197 TAAATATAA
1 TAAA-ATAA
65136206 TAAAA
1 TAAAA
65136211 ATAAAAATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
5 2 0.05
6 2 0.05
7 8 0.20
8 20 0.50
9 8 0.20
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (8 bp):
TAAAATAA
Found at i:65136177 original size:3 final size:3
Alignment explanation
Indices: 65136163--65136214 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
65136153 TAAAATGATA
65136163 AAT AAT AA- AAT AAT AAT -AT AAT AAT -AT AAT -AT AAT AA- ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
*
65136204 AAT AAA AAT AA
1 AAT AAT AAT AA
65136215 AAATTGGGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
2 9 0.22
3 31 0.76
4 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:65136183 original size:5 final size:5
Alignment explanation
Indices: 65136160--65136207 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
65136150 AATTAAAATG
*
65136160 ATAA- ATAAT AAAAT AATAAT AT-A- ATAAT ATAAT ATAAT A-AAT ATAAT
1 ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
65136207 A
1 A
65136208 AAAATAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
3 2 0.05
4 10 0.27
5 21 0.57
6 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (5 bp):
ATAAT
Found at i:65138803 original size:23 final size:23
Alignment explanation
Indices: 65138776--65138828 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
65138766 AGTATTATTG
*
65138776 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGATAGCTTCGGCTACAT
*
65138799 TTCAGTGATAGCTTCGGCTACAT
1 ATCAGTGATAGCTTCGGCTACAT
65138822 ATCAGTG
1 ATCAGTG
65138829 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGATAGCTTCGGCTACAT
Found at i:65141734 original size:45 final size:45
Alignment explanation
Indices: 65141683--65141770 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
65141673 TTTCGCATAC
* **
65141683 TGGCCCATTTTTTCTTTAAATTCATGCTTTTTCCCCTAAATTTAT
1 TGGCCCATTTTATCTTTAAATTCACACTTTTTCCCCTAAATTTAT
*
65141728 TGGCCCATTTTATCTTTAAATTCACACTTTTTCCCTTAAATTT
1 TGGCCCATTTTATCTTTAAATTCACACTTTTTCCCCTAAATTT
65141771 CCTTTTACCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.22, C:0.23, G:0.06, T:0.50
Consensus pattern (45 bp):
TGGCCCATTTTATCTTTAAATTCACACTTTTTCCCCTAAATTTAT
Found at i:65145250 original size:14 final size:14
Alignment explanation
Indices: 65145231--65145270 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
65145221 TTGATTGGCA
65145231 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
*
65145245 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
*
65145259 GGAAAATGTTTT
1 GTAAAATGTTTT
65145271 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:65145282 original size:34 final size:35
Alignment explanation
Indices: 65145239--65145305 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
65145229 CAGTAAAATG
* *
65145239 TTTTCTGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGACTTACTGGAAAATATTTTAC
65145273 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
65145306 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 15 0.50
35 15 0.50
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCTGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:65145292 original size:20 final size:20
Alignment explanation
Indices: 65145254--65145293 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
65145244 TGTAAAATGA
**
65145254 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
65145274 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
65145294 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:65146853 original size:13 final size:13
Alignment explanation
Indices: 65146835--65146860 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65146825 CCAGAAACTG
65146835 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
65146848 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
65146861 TACCCATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:65147388 original size:15 final size:17
Alignment explanation
Indices: 65147368--65147408 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
65147358 TTAAAAGAAT
65147368 ATTTTATTTA-T-ATAA
1 ATTTTATTTATTAATAA
*
65147383 ATTTTATATATTAATAA
1 ATTTTATTTATTAATAA
*
65147400 TTTTTATTT
1 ATTTTATTT
65147409 TCTAGATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 9 0.43
16 1 0.05
17 11 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTTATTTATTAATAA
Found at i:65148900 original size:10 final size:9
Alignment explanation
Indices: 65148861--65148920 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
65148851 TTTTTTTTTC
65148861 AAAAATCAA
1 AAAAATCAA
*
65148870 AGAAAATC-T
1 A-AAAATCAA
* *
65148879 AAAAGTCGA
1 AAAAATCAA
65148888 AAAAATCATA
1 AAAAATCA-A
65148898 AAAAATCAA
1 AAAAATCAA
**
65148907 AAATGTCAA
1 AAAAATCAA
65148916 AAAAA
1 AAAAA
65148921 AACTTAAAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
8 5 0.13
9 19 0.49
10 15 0.38
ACGTcount: A:0.68, C:0.10, G:0.07, T:0.15
Consensus pattern (9 bp):
AAAAATCAA
Found at i:65148902 original size:27 final size:28
Alignment explanation
Indices: 65148861--65148920 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
65148851 TTTTTTTTTC
* *
65148861 AAAAATCAAAGAAAATCTAAAA-GTCGA
1 AAAAATCAAAGAAAATCAAAAATGTCAA
65148888 AAAAATCATAA-AAAATCAAAAATGTCAA
1 AAAAATCA-AAGAAAATCAAAAATGTCAA
65148916 AAAAA
1 AAAAA
65148921 AACTTAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.68, C:0.10, G:0.07, T:0.15
Consensus pattern (28 bp):
AAAAATCAAAGAAAATCAAAAATGTCAA
Found at i:65148999 original size:21 final size:21
Alignment explanation
Indices: 65148962--65149007 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
65148952 TAATAATAAT
*
65148962 AATTTAAAAAATATATTTTAA
1 AATTTAAAAAATATATTTAAA
*
65148983 AATTT-AAAAGTATTATTTAAA
1 AATTTAAAAAATA-TATTTAAA
65149004 AATT
1 AATT
65149008 CAAAGAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AATTTAAAAAATATATTTAAA
Found at i:65149091 original size:13 final size:13
Alignment explanation
Indices: 65149058--65149088 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
65149048 AAAATAAAAA
65149058 TAAAAATTATCTT
1 TAAAAATTATCTT
65149071 TAAAAATTAT-TT
1 TAAAAATTATCTT
65149083 TAAAAA
1 TAAAAA
65149089 ATTCAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
TAAAAATTATCTT
Found at i:65159827 original size:18 final size:18
Alignment explanation
Indices: 65159799--65159869 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 18
65159789 TTAAGTAATT
65159799 ATTTATATAATTTTTTGTA
1 ATTT-TATAATTTTTTGTA
65159818 ATTTTATAATTTTTT-TCA
1 ATTTTATAATTTTTTGT-A
*
65159836 ATTTT-TAATAATTTTGTA
1 ATTTTATAAT-TTTTTGTA
*
65159854 ACTTCTTTTAATTTTT
1 A-TT-TTATAATTTTT
65159870 GTACTTTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
17 5 0.11
18 23 0.52
19 7 0.16
20 5 0.11
21 4 0.09
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTATAATTTTTTGTA
Found at i:65159847 original size:28 final size:28
Alignment explanation
Indices: 65159806--65159869 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
65159796 ATTATTTATA
** *
65159806 TAATTTTTTGTAATTTTATAA-TTTTTT
1 TAATTTTTAATAATTTTATAACTTCTTT
*
65159833 TCAATTTTTAATAATTTTGTAACTTCTTT
1 T-AATTTTTAATAATTTTATAACTTCTTT
65159862 TAATTTTT
1 TAATTTTT
65159870 GTACTTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.77
29 6 0.19
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.66
Consensus pattern (28 bp):
TAATTTTTAATAATTTTATAACTTCTTT
Found at i:65164277 original size:21 final size:21
Alignment explanation
Indices: 65164247--65164305 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
65164237 AATAAAATTT
*
65164247 AAATATTAAATAATTTATTAA
1 AAATAATAAATAATTTATTAA
*
65164268 AAATAATAAAT--TATATTAA
1 AAATAATAAATAATTTATTAA
**
65164287 TTAT-ATAAATAATTTATTA
1 AAATAATAAATAATTTATTA
65164306 TATAACTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 6 0.19
19 9 0.29
20 6 0.19
21 10 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATAAATAATTTATTAA
Found at i:65164305 original size:25 final size:26
Alignment explanation
Indices: 65164268--65164328 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
65164258 AATTTATTAA
* *
65164268 AAATAATAAATTATATTAA-T-TATAT
1 AAATAATTAATTATA-TAACTAAATAT
*
65164293 AAATAATTTATTATATAACTAAATAT
1 AAATAATTAATTATATAACTAAATAT
65164319 AAATAATTAA
1 AAATAATTAA
65164329 ATACGTATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 3 0.10
25 14 0.47
26 13 0.43
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (26 bp):
AAATAATTAATTATATAACTAAATAT
Found at i:65168169 original size:16 final size:16
Alignment explanation
Indices: 65168137--65168166 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
65168127 AAAATACTAA
65168137 AAATAATTTAATAAAT
1 AAATAATTTAATAAAT
65168153 AAAT-ATTTAATAAA
1 AAATAATTTAATAAA
65168167 ATACTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATAATTTAATAAAT
Found at i:65168820 original size:15 final size:14
Alignment explanation
Indices: 65168797--65168830 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
65168787 GAGCTTATGC
*
65168797 AAAAAAATTTATTA
1 AAAAAAATTTAATA
65168811 AAAAATAATTTAATA
1 AAAAA-AATTTAATA
65168826 AAAAA
1 AAAAA
65168831 CGAGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAAATTTAATA
Found at i:65175324 original size:30 final size:30
Alignment explanation
Indices: 65175290--65175351 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
65175280 TTAAATTATA
*
65175290 AACCTTCTAAAAATAGAAAATTTATAATTT
1 AACCTTCTAAAAATAGAAAATTTATAAGTT
* * * *
65175320 AACCTTTTAAAACTAGTAAATTTTTAAGTT
1 AACCTTCTAAAAATAGAAAATTTATAAGTT
65175350 AA
1 AA
65175352 TACAATAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.39
Consensus pattern (30 bp):
AACCTTCTAAAAATAGAAAATTTATAAGTT
Found at i:65180968 original size:24 final size:24
Alignment explanation
Indices: 65180915--65180968 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
65180905 GCAGTTGGTG
*
65180915 GCAGGCGATAGGAGCAGCGGCAGC
1 GCAGGCGATAGGAGCAGCGGCAAC
* * *
65180939 GCAGGCGCTAGGAGCGGCGGTAAC
1 GCAGGCGATAGGAGCAGCGGCAAC
*
65180963 GTAGGC
1 GCAGGC
65180969 TAGGGTGCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.46, T:0.07
Consensus pattern (24 bp):
GCAGGCGATAGGAGCAGCGGCAAC
Found at i:65181063 original size:23 final size:23
Alignment explanation
Indices: 65181031--65181084 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
65181021 GTTGGGGTCA
*
65181031 TTGGGCCTTTAAGG-TTTTTAATT
1 TTGGGCCTTT-AGGATTTGTAATT
* *
65181054 TTGGGTCTTTTGGATTTGTAATT
1 TTGGGCCTTTAGGATTTGTAATT
65181077 TTGGGCCT
1 TTGGGCCT
65181085 GCAATTTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.13, C:0.09, G:0.26, T:0.52
Consensus pattern (23 bp):
TTGGGCCTTTAGGATTTGTAATT
Found at i:65184730 original size:29 final size:29
Alignment explanation
Indices: 65184696--65184754 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
65184686 ATTTATTTTG
*
65184696 TTTTGTTATTTAAATAATTGTTGATATCC
1 TTTTGTTATTTAAATAATTATTGATATCC
* *
65184725 TTTTGTTATTTGAATAATTATTGTTATCC
1 TTTTGTTATTTAAATAATTATTGATATCC
65184754 T
1 T
65184755 ATTCAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.58
Consensus pattern (29 bp):
TTTTGTTATTTAAATAATTATTGATATCC
Found at i:65187639 original size:29 final size:30
Alignment explanation
Indices: 65187606--65187676 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
65187596 CAGGTACTAG
* *
65187606 ATTAAATTAGTCTATT-TATTATT-AAATGA
1 ATTAAATTAGTCT-TTATACTATTAAAAAGA
* *
65187635 ATTAATTTAATCTTTATACTATTAAAAAGA
1 ATTAAATTAGTCTTTATACTATTAAAAAGA
*
65187665 ATTAAATAAGTC
1 ATTAAATTAGTC
65187677 CAAATTATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
28 2 0.06
29 17 0.52
30 14 0.42
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (30 bp):
ATTAAATTAGTCTTTATACTATTAAAAAGA
Found at i:65188222 original size:11 final size:11
Alignment explanation
Indices: 65188206--65188231 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65188196 AAGTATAAAT
65188206 ATTTATTTTTA
1 ATTTATTTTTA
65188217 ATTTATTTTTA
1 ATTTATTTTTA
65188228 ATTT
1 ATTT
65188232 GTTGGGAAAT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTATTTTTA
Found at i:65195531 original size:24 final size:24
Alignment explanation
Indices: 65195499--65195547 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
65195489 AGAACATCCT
* *
65195499 AAAAGTTAAGTGATAAAATGAAAA
1 AAAAATTAAGTAATAAAATGAAAA
* *
65195523 AAAAATTAAGTAATCAAATTAAAA
1 AAAAATTAAGTAATAAAATGAAAA
65195547 A
1 A
65195548 CGTCCTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.22
Consensus pattern (24 bp):
AAAAATTAAGTAATAAAATGAAAA
Found at i:65195673 original size:34 final size:36
Alignment explanation
Indices: 65195611--65195677 Score: 111
Period size: 34 Copynumber: 1.9 Consensus size: 36
65195601 CATTAGTTTA
65195611 TCTAAATTGATAACACTACTAATTATTTTCGTTTTT
1 TCTAAATTGATAACACTACTAATTATTTTCGTTTTT
*
65195647 TCTAAATTGAT-A-ACTATTAATTATTTTCGTT
1 TCTAAATTGATAACACTACTAATTATTTTCGTT
65195678 AAACTGATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 18 0.60
35 1 0.03
36 11 0.37
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (36 bp):
TCTAAATTGATAACACTACTAATTATTTTCGTTTTT
Found at i:65201796 original size:14 final size:14
Alignment explanation
Indices: 65201779--65201808 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
65201769 ATTAACTTTA
65201779 ATATATATTTATAT
1 ATATATATTTATAT
*
65201793 ATATATATTTGTAT
1 ATATATATTTATAT
65201807 AT
1 AT
65201809 CATTAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
ATATATATTTATAT
Found at i:65201988 original size:17 final size:19
Alignment explanation
Indices: 65201968--65202012 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
65201958 TTTTCTTTCA
65201968 AAAATATTTA-TTT-AAAT
1 AAAATATTTATTTTAAAAT
*
65201985 AAAATAATTATTTTAAAAT
1 AAAATATTTATTTTAAAAT
*
65202004 AATATATTT
1 AAAATATTT
65202013 TAAGATACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 3 0.13
19 11 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATATTTATTTTAAAAT
Found at i:65202003 original size:14 final size:15
Alignment explanation
Indices: 65201984--65202015 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
65201974 TTTATTTAAA
65201984 TAAAATAAT-TATTT
1 TAAAATAATATATTT
65201998 TAAAATAATATATTT
1 TAAAATAATATATTT
65202013 TAA
1 TAA
65202016 GATACTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAAATAATATATTT
Found at i:65203302 original size:8 final size:8
Alignment explanation
Indices: 65203289--65203313 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
65203279 GTTAAGAGGT
65203289 GGTGGTGG
1 GGTGGTGG
65203297 GGTGGTGG
1 GGTGGTGG
65203305 GGTGGTGG
1 GGTGGTGG
65203313 G
1 G
65203314 AAGACGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.76, T:0.24
Consensus pattern (8 bp):
GGTGGTGG
Found at i:65203446 original size:30 final size:30
Alignment explanation
Indices: 65203410--65203468 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
65203400 GTCTAATTCT
* **
65203410 AGATTTAGTCCCTCTGTTATGTTAAATTTC
1 AGATTTAGTCCCTATACTATGTTAAATTTC
*
65203440 AGATTTAGTCCTTATACTATGTTAAATTT
1 AGATTTAGTCCCTATACTATGTTAAATTT
65203469 TATATTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (30 bp):
AGATTTAGTCCCTATACTATGTTAAATTTC
Found at i:65203763 original size:9 final size:8
Alignment explanation
Indices: 65203726--65203794 Score: 54
Period size: 8 Copynumber: 8.5 Consensus size: 8
65203716 TACTAATAAT
*
65203726 ATTATAAA
1 ATTAAAAA
65203734 A-TAAAAA
1 ATTAAAAA
65203741 ATT-AAAA
1 ATTAAAAA
*
65203748 TTTAAAAA
1 ATTAAAAA
65203756 TATTAAAAAA
1 -ATT-AAAAA
*
65203766 ATTAATAA
1 ATTAAAAA
65203774 ATTAAATAA
1 ATTAAA-AA
65203783 A-TAAATAA
1 ATTAAA-AA
65203791 ATTA
1 ATTA
65203795 TAGTAACATA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
7 12 0.24
8 23 0.46
9 10 0.20
10 5 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
ATTAAAAA
Found at i:65203777 original size:17 final size:17
Alignment explanation
Indices: 65203731--65203794 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
65203721 ATAATATTAT
65203731 AAAATAAA-AAATT-AA
1 AAAATAAATAAATTAAA
**
65203746 AATTTAAA-AATATTAAA
1 AAAATAAATAA-ATTAAA
*
65203763 AAAATTAATAAATTAAA
1 AAAATAAATAAATTAAA
*
65203780 TAAATAAATAAATTA
1 AAAATAAATAAATTA
65203795 TAGTAACATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
15 8 0.21
16 3 0.08
17 26 0.67
18 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATAAATAAATTAAA
Found at i:65207284 original size:20 final size:19
Alignment explanation
Indices: 65207259--65207296 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
65207249 TAAGCTTTTT
65207259 TATTTTTAATATAATTAAAA
1 TATTTTT-ATATAATTAAAA
*
65207279 TATTTTTATATTATTAAA
1 TATTTTTATATAATTAAA
65207297 TTACTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTTTTATATAATTAAAA
Found at i:65215702 original size:19 final size:20
Alignment explanation
Indices: 65215673--65215710 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
65215663 CGAAAAATAA
*
65215673 ATATGTTAAATTAACAAATT
1 ATATGTTAAATTAAAAAATT
65215693 ATAT-TTAAATTAAAAAAT
1 ATATGTTAAATTAAAAAAT
65215711 ATAAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (20 bp):
ATATGTTAAATTAAAAAATT
Found at i:65220302 original size:12 final size:13
Alignment explanation
Indices: 65220273--65220304 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
65220263 TGTAGCTTAT
65220273 ATTGAATTAGTGG
1 ATTGAATTAGTGG
65220286 A-TGAATTAGT-G
1 ATTGAATTAGTGG
65220297 ATTGAATT
1 ATTGAATT
65220305 GATGGAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 15 0.83
13 1 0.06
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.41
Consensus pattern (13 bp):
ATTGAATTAGTGG
Found at i:65220747 original size:3 final size:3
Alignment explanation
Indices: 65220741--65220765 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
65220731 GTACTACAAG
65220741 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
65220766 ACTATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:65220833 original size:10 final size:11
Alignment explanation
Indices: 65220807--65220840 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
65220797 TAGATTTATT
65220807 TAAAAATAAAA
1 TAAAAATAAAA
*
65220818 TAAAAATAAAG
1 TAAAAATAAAA
65220829 T-AAAATAAAA
1 TAAAAATAAAA
65220839 TA
1 TA
65220841 TTATGGAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:65221155 original size:25 final size:25
Alignment explanation
Indices: 65221127--65221189 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
65221117 ACTTTAGCGC
**
65221127 GCTCTCTGAT-TATTAGCACGTTGGT
1 GCTCTCTGATAT-TTAGCACGTCAGT
65221152 GCTCTCTGATATTTAGCACGTCAGT
1 GCTCTCTGATATTTAGCACGTCAGT
65221177 GCTCTCTG-TATTT
1 GCTCTCTGATATTT
65221190 GTTCCGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
24 5 0.14
25 29 0.83
26 1 0.03
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (25 bp):
GCTCTCTGATATTTAGCACGTCAGT
Found at i:65222231 original size:27 final size:27
Alignment explanation
Indices: 65222201--65222254 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
65222191 TATGCAATTT
65222201 CAAAGTGATTGGCGGCACCAATGGTGC
1 CAAAGTGATTGGCGGCACCAATGGTGC
65222228 CAAAGTGATTGGCGGCACCAATGGTGC
1 CAAAGTGATTGGCGGCACCAATGGTGC
65222255 TAAATGACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.33, T:0.19
Consensus pattern (27 bp):
CAAAGTGATTGGCGGCACCAATGGTGC
Found at i:65222371 original size:18 final size:19
Alignment explanation
Indices: 65222334--65222400 Score: 82
Period size: 19 Copynumber: 3.6 Consensus size: 19
65222324 CAACTCATTT
* *
65222334 TTTTTATTTAATAATTCTA
1 TTTTAATTTAATAACTCTA
*
65222353 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
65222371 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
65222390 TTTTAATTTAA
1 TTTTAATTTAA
65222401 GAAAATTAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
18 15 0.38
19 25 0.62
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:65222654 original size:19 final size:19
Alignment explanation
Indices: 65222600--65222656 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
65222590 CTAACTAAGT
65222600 ATAACTCTATTTTAATTTA
1 ATAACTCTATTTTAATTTA
* * *
65222619 ATAA-ACTATTCTCATTTA
1 ATAACTCTATTTTAATTTA
65222637 ATAACTCTATTTTAATTTA
1 ATAACTCTATTTTAATTTA
65222656 A
1 A
65222657 ACGAGAATAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAACTCTATTTTAATTTA
Found at i:65222707 original size:20 final size:19
Alignment explanation
Indices: 65222668--65222708 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
65222658 CGAGAATAGT
* *
65222668 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
65222687 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
65222707 TT
1 TT
65222709 GAAGGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:65222938 original size:18 final size:18
Alignment explanation
Indices: 65222902--65222939 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
65222892 AGTATTACTT
65222902 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATTAA
65222920 AATAGATTTATTAAA-TAA
1 AATAG-TTTATTAAATTAA
65222938 AA
1 AA
65222940 AAATAAGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
AATAGTTTATTAAATTAA
Found at i:65222940 original size:19 final size:18
Alignment explanation
Indices: 65222902--65222940 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
65222892 AGTATTACTT
*
65222902 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATAAA
65222920 AATAGATTTATTAAATAAA
1 AATAG-TTTATTAAATAAA
65222939 AA
1 AA
65222941 AATAAGTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AATAGTTTATTAAATAAA
Found at i:65223092 original size:27 final size:27
Alignment explanation
Indices: 65223014--65223084 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
65223004 AATTTTAGTC
*
65223014 CTTTGGCACCATTAGTGGCACCAATCA
1 CTTTGGCACCATTGGTGGCACCAATCA
* *
65223041 CTTTGGCACAATTGGTGGCACCAATCT
1 CTTTGGCACCATTGGTGGCACCAATCA
*
65223068 CTTTGGCACCTTTGGTG
1 CTTTGGCACCATTGGTG
65223085 CCGCCAATGT
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:0.20, C:0.27, G:0.23, T:0.31
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGGCACCAATCA
Found at i:65223425 original size:30 final size:32
Alignment explanation
Indices: 65223391--65223451 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
65223381 CACTTTTTAA
65223391 ACAAT-TTTA-ATGATTTTCAATTTTTAAAAG
1 ACAATATTTATATGATTTTCAATTTTTAAAAG
** *
65223421 ACAATATTTATATTTTTTTGAATTTTTAAAA
1 ACAATATTTATATGATTTTCAATTTTTAAAA
65223452 ATTTAAAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 5 0.19
31 4 0.15
32 17 0.65
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (32 bp):
ACAATATTTATATGATTTTCAATTTTTAAAAG
Found at i:65227535 original size:6 final size:6
Alignment explanation
Indices: 65227524--65227555 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
65227514 CACTGGATGT
*
65227524 GCCAAA GCCAAA ACCAAA GCCAAA GCCAAA GC
1 GCCAAA GCCAAA GCCAAA GCCAAA GCCAAA GC
65227556 AGAAGATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.34, G:0.16, T:0.00
Consensus pattern (6 bp):
GCCAAA
Found at i:65236282 original size:33 final size:33
Alignment explanation
Indices: 65236240--65236306 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
65236230 GAGAAAAATT
65236240 AACTGGTTTTTAAAAGGATAAATTATAATTTTG
1 AACTGGTTTTTAAAAGGATAAATTATAATTTTG
65236273 AACTGGTTTTTAAAAGGATAAATTATAATTTTG
1 AACTGGTTTTTAAAAGGATAAATTATAATTTTG
65236306 A
1 A
65236307 TCTTGTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (33 bp):
AACTGGTTTTTAAAAGGATAAATTATAATTTTG
Found at i:65239832 original size:31 final size:32
Alignment explanation
Indices: 65239791--65239855 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
65239781 AGTGTGCTCG
* * *
65239791 CTGAACTTGTCC-AAAAGTACTTAATTGGTAC
1 CTGAAATTGTCCAAAAAGAACTCAATTGGTAC
*
65239822 CTGAAATTGTCCAAAAAGAACTCAGTTGGTAC
1 CTGAAATTGTCCAAAAAGAACTCAATTGGTAC
65239854 CT
1 CT
65239856 TAAGTTGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (32 bp):
CTGAAATTGTCCAAAAAGAACTCAATTGGTAC
Found at i:65243220 original size:21 final size:21
Alignment explanation
Indices: 65243194--65243234 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65243184 AGACGAGCAA
* *
65243194 TACTCCACAACAGGTGGAGTG
1 TACTCCAAAACAAGTGGAGTG
65243215 TACTCCAAAACAAGTGGAGT
1 TACTCCAAAACAAGTGGAGT
65243235 TAGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAAGTGGAGTG
Found at i:65251408 original size:104 final size:104
Alignment explanation
Indices: 65251286--65251497 Score: 372
Period size: 104 Copynumber: 2.0 Consensus size: 104
65251276 AATGGATATC
65251286 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
65251351 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
65251390 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
65251455 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
65251494 GCAC
1 GCAC
65251498 ACATCAACCC
Statistics
Matches: 103, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
104 102 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:65254058 original size:16 final size:17
Alignment explanation
Indices: 65254037--65254075 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
65254027 ATTCTATAGA
*
65254037 TATTTTACT-TTTATTT
1 TATTTTACTATGTATTT
65254053 TATTTTACTACTGTATTT
1 TATTTTACTA-TGTATTT
65254071 TATTT
1 TATTT
65254076 AAATAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (17 bp):
TATTTTACTATGTATTT
Found at i:65255890 original size:3 final size:3
Alignment explanation
Indices: 65255882--65255908 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
65255872 TCATTATTTA
65255882 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
65255909 TCCTGCAATA
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:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:65258292 original size:23 final size:22
Alignment explanation
Indices: 65258266--65258313 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 22
65258256 TTTATTTTTA
65258266 AATTATTTTCTAAAAAATAA-AAT
1 AATTA-TTT-TAAAAAATAATAAT
65258289 AATTATTTTAAAAAATAATAAT
1 AATTATTTTAAAAAATAATAAT
65258311 AAT
1 AAT
65258314 AAACAGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.42
22 9 0.38
23 5 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTATTTTAAAAAATAATAAT
Found at i:65260337 original size:21 final size:21
Alignment explanation
Indices: 65260313--65260360 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
65260303 AAAAACCTTT
*
65260313 TTTTTAAAATTTTTTTA-CTAA
1 TTTTTAAAA-TTTTATAGCTAA
*
65260334 TTTTTAGAATTTTATAGCTAA
1 TTTTTAAAATTTTATAGCTAA
65260355 TTTTTA
1 TTTTTA
65260361 TGTTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTTTAAAATTTTATAGCTAA
Found at i:65266558 original size:5 final size:5
Alignment explanation
Indices: 65266541--65266597 Score: 78
Period size: 5 Copynumber: 11.4 Consensus size: 5
65266531 TTATGTTTTA
* * * *
65266541 TATAT TATTT TATAT TATAT TATTT TATAT CATAT TGTAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
65266591 TATAT TA
1 TATAT TA
65266598 AATAAACTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:65266820 original size:22 final size:22
Alignment explanation
Indices: 65266782--65266828 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
65266772 ATAAAAAGAC
65266782 AAAGAAACAAGAGAAGA-ACAGA
1 AAAGAAACAAGAGAAGAGAC-GA
65266804 AAAGAAAC-AGAGAAAGAGACGA
1 AAAGAAACAAGAG-AAGAGACGA
65266826 AAA
1 AAA
65266829 CAGGGGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 17 0.74
23 2 0.09
ACGTcount: A:0.68, C:0.09, G:0.23, T:0.00
Consensus pattern (22 bp):
AAAGAAACAAGAGAAGAGACGA
Found at i:65267925 original size:21 final size:24
Alignment explanation
Indices: 65267863--65267931 Score: 110
Period size: 23 Copynumber: 3.0 Consensus size: 24
65267853 GGCTTTGCTG
65267863 ATCAGGCACTTTATGTGTCGTA-C
1 ATCAGGCACTTTATGTGTCGTATC
65267886 ATCAGGCACTTTATGTGTCGTATC
1 ATCAGGCACTTTATGTGTCGTATC
65267910 -TCAGGCAC-TT-TGTGTCGTATC
1 ATCAGGCACTTTATGTGTCGTATC
65267931 A
1 A
65267932 GGCACCACGT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.25
22 2 0.05
23 30 0.68
24 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (24 bp):
ATCAGGCACTTTATGTGTCGTATC
Found at i:65283492 original size:19 final size:19
Alignment explanation
Indices: 65283448--65283499 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
65283438 GCATCAAGGC
* *
65283448 ATTACATAAAAATTTTAAAA
1 ATTATATAAAAA-TCTAAAA
65283468 ATTATATATAAAATCTAAAA
1 ATTATATA-AAAATCTAAAA
65283488 A-TATATAAAAAT
1 ATTATATAAAAAT
65283500 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 5 0.17
19 6 0.21
20 14 0.48
21 4 0.14
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTATATAAAAATCTAAAA
Found at i:65283507 original size:21 final size:19
Alignment explanation
Indices: 65283462--65283509 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
65283452 CATAAAAATT
* *
65283462 TTAAAAATTATATATAAAA
1 TTAAAAATTATAAAAAAAA
65283481 TCTAAAAATATATAAAAATAAA
1 T-TAAAAAT-TATAAAAA-AAA
65283503 TTAAAAA
1 TTAAAAA
65283510 AATGCTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.04
20 7 0.29
21 12 0.50
22 4 0.17
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
TTAAAAATTATAAAAAAAA
Found at i:65284369 original size:3 final size:3
Alignment explanation
Indices: 65284325--65284354 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
65284315 GGTTATTATT
65284325 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
65284355 ACTGAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:65285358 original size:20 final size:20
Alignment explanation
Indices: 65285325--65285365 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
65285315 CTAATTCAAC
65285325 TCAAGAATTATCAAATTAAAT
1 TCAAGAATTATCAAA-TAAAT
*
65285346 TCAA-AATTTTCAAATAAAT
1 TCAAGAATTATCAAATAAAT
65285365 T
1 T
65285366 TTGAATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (20 bp):
TCAAGAATTATCAAATAAAT
Found at i:65291450 original size:15 final size:15
Alignment explanation
Indices: 65291430--65291459 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
65291420 GTCGCTCGAC
65291430 TGTAATGATAACCTG
1 TGTAATGATAACCTG
65291445 TGTAATGATAACCTG
1 TGTAATGATAACCTG
65291460 AGTGCCTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (15 bp):
TGTAATGATAACCTG
Found at i:65293614 original size:33 final size:33
Alignment explanation
Indices: 65293572--65293638 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
65293562 GCTCTTTTAG
*
65293572 AGTTCACATCTTTTTAAGTAATTTTGAATTACT
1 AGTTCACATCTTTTTAAGTAATTTTGAATCACT
* **
65293605 AGTTTACATCTTTTTGGGTAATTTTGAATCACT
1 AGTTCACATCTTTTTAAGTAATTTTGAATCACT
65293638 A
1 A
65293639 AGTCGTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (33 bp):
AGTTCACATCTTTTTAAGTAATTTTGAATCACT
Found at i:65294379 original size:96 final size:96
Alignment explanation
Indices: 65294191--65294379 Score: 342
Period size: 97 Copynumber: 2.0 Consensus size: 96
65294181 TCAATGGTTT
* *
65294191 ACATCATTTTTCACTTTCTCAGCTGCCTTTCTTCTCTTTTTTTTTTTTTGCCCACATCTCCGCTG
1 ACATCATTTTTCACTTTCTCAGCTGCCTTTCTTCTCTTCTTTTTTTTTTGCCCACATCTCAGCTG
65294256 CTTTAAACTGTGGTGCTTTGGTGGGGGGGGA
66 CTTTAAACTGTGGTGCTTTGGTGGGGGGGGA
65294287 ACATCATTTTTCACTTTCTCAGCTGCCTTTCTTCTTCTTCTTTTTTTTTTGCCCACATCTCAGCT
1 ACATCATTTTTCACTTTCTCAGCTGCCTTTCTTC-TCTTCTTTTTTTTTTGCCCACATCTCAGCT
*
65294352 GCTTTATACTGTGGTGCTTTGGTGGGGG
65 GCTTTAAACTGTGGTGCTTTGGTGGGGG
65294380 ACTGTACATG
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
96 34 0.38
97 55 0.62
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (96 bp):
ACATCATTTTTCACTTTCTCAGCTGCCTTTCTTCTCTTCTTTTTTTTTTGCCCACATCTCAGCTG
CTTTAAACTGTGGTGCTTTGGTGGGGGGGGA
Found at i:65304955 original size:22 final size:24
Alignment explanation
Indices: 65304925--65304970 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
65304915 TAATTTTAAA
*
65304925 ATTTATATTTGTAT-A-GAAATAT
1 ATTTATATTTATATAATGAAATAT
*
65304947 ATTTCTATTTATATAATGAAATAT
1 ATTTATATTTATATAATGAAATAT
65304971 CGGTATTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 1 0.05
24 7 0.35
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (24 bp):
ATTTATATTTATATAATGAAATAT
Found at i:65305699 original size:18 final size:17
Alignment explanation
Indices: 65305657--65305708 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
65305647 CGATTATGTC
65305657 AAATTTAAGTATCAAGA
1 AAATTTAAGTATCAAGA
*
65305674 AATGTTTAAGTATCAA-A
1 AA-ATTTAAGTATCAAGA
65305691 TTAAATTTAA-TATCAAGA
1 --AAATTTAAGTATCAAGA
65305709 TAAGGGGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 9 0.31
18 18 0.62
19 2 0.07
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.35
Consensus pattern (17 bp):
AAATTTAAGTATCAAGA
Found at i:65312202 original size:16 final size:16
Alignment explanation
Indices: 65312181--65312214 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
65312171 GTTTTTATGT
* *
65312181 TATAAATTATATAATA
1 TATAAATAACATAATA
65312197 TATAAATAACATAATA
1 TATAAATAACATAATA
65312213 TA
1 TA
65312215 ATGTATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAAATAACATAATA
Found at i:65317841 original size:60 final size:60
Alignment explanation
Indices: 65317748--65317868 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
65317738 ATGTCGCGTG
*
65317748 AGTTAGTGGTTTGAACACAGTTAACATTAACATTTTAAAAGCTGGGTGCAGCATTGATCC
1 AGTTAGTGGTTTGAACACAGTTAACATTAACATTTTAAAAGCTGGGTGCAGCATTCATCC
65317808 AGTTAGTGGTTTGAACACAGTTAACATTAACATTTTAAAAGCTGGGTGCAGCATTCATCC
1 AGTTAGTGGTTTGAACACAGTTAACATTAACATTTTAAAAGCTGGGTGCAGCATTCATCC
65317868 A
1 A
65317869 CTCCACTTGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (60 bp):
AGTTAGTGGTTTGAACACAGTTAACATTAACATTTTAAAAGCTGGGTGCAGCATTCATCC
Found at i:65322043 original size:21 final size:22
Alignment explanation
Indices: 65322019--65322059 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
65322009 GTCATTTCAC
65322019 ATTTAAAT-AAATTTGACTTCG
1 ATTTAAATCAAATTTGACTTCG
* *
65322040 ATTTGAATCAATTTTGACTT
1 ATTTAAATCAAATTTGACTT
65322060 TTGACAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (22 bp):
ATTTAAATCAAATTTGACTTCG
Found at i:65324150 original size:18 final size:18
Alignment explanation
Indices: 65324107--65324166 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
65324097 GTATAAAATA
65324107 TATATAAAAAA-ATACATT
1 TATATAAAAAATATA-ATT
*
65324125 GCTAATATAAAAAATATATTT
1 --T-ATATAAAAAATATAATT
* *
65324146 TATATAATATATATAATT
1 TATATAAAAAATATAATT
65324164 TAT
1 TAT
65324167 TTTGATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 17 0.50
19 1 0.03
20 1 0.03
21 12 0.35
22 3 0.09
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (18 bp):
TATATAAAAAATATAATT
Found at i:65324829 original size:18 final size:19
Alignment explanation
Indices: 65324806--65324841 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65324796 TCAACAACAA
*
65324806 GAAC-AATATTTTTAAATT
1 GAACAAATAATTTTAAATT
65324824 GAACAAATAATTTTAAAT
1 GAACAAATAATTTTAAAT
65324842 ACATGGACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (19 bp):
GAACAAATAATTTTAAATT
Found at i:65327076 original size:73 final size:73
Alignment explanation
Indices: 65326988--65327128 Score: 180
Period size: 73 Copynumber: 1.9 Consensus size: 73
65326978 TGGCAACCTG
* *
65326988 AAAAGAAGAAAATCCACATACCGAC-AACAAAGTTTGGCAACGTGGATG-TCATCATCAAATCC-
1 AAAAGAAGAAAATCCACATACAGACAAAC-AAGTTTGGCAACGTGGAAGCT-ATCATCAAA-CCA
65327050 ATGATGGAGAC
63 ATGATGGAGAC
* * * *
65327061 AAAAGAAGACAATCCATATGCAGACAAACAAGTTTTGCAACGTGGAAGCTATCATCAAACCAATG
1 AAAAGAAGAAAATCCACATACAGACAAACAAGTTTGGCAACGTGGAAGCTATCATCAAACCAATG
65327126 ATG
66 ATG
65327129 ATGTAAGCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
72 2 0.03
73 53 0.90
74 4 0.07
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (73 bp):
AAAAGAAGAAAATCCACATACAGACAAACAAGTTTGGCAACGTGGAAGCTATCATCAAACCAATG
ATGGAGAC
Found at i:65328136 original size:9 final size:9
Alignment explanation
Indices: 65328114--65328149 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
65328104 ATCATCTATG
65328114 ATAAAAAAC
1 ATAAAAAAC
65328123 TATAAAAAAC
1 -ATAAAAAAC
65328133 ATAAAAAAC
1 ATAAAAAAC
*
65328142 GTAAAAAA
1 ATAAAAAA
65328150 GAAGATAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.75, C:0.08, G:0.03, T:0.14
Consensus pattern (9 bp):
ATAAAAAAC
Found at i:65328471 original size:27 final size:27
Alignment explanation
Indices: 65328390--65328475 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 27
65328380 GAAACAATCT
*
65328390 GATGAAGAAAAAACTTCAACAGATCAG
1 GATGAAGAAAAAACTTAAACAGATCAG
* * *** *
65328417 GA--AATAAAAAA-TAGAAATTTATC-T
1 GATGAAGAAAAAACT-TAAACAGATCAG
65328441 GATGAAGAAAAAACTTAAACAGATCAG
1 GATGAAGAAAAAACTTAAACAGATCAG
65328468 GATGAAGA
1 GATGAAGA
65328476 TATAAAAGTC
Statistics
Matches: 41, Mismatches: 13, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 3 0.07
25 13 0.32
26 14 0.34
27 11 0.27
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (27 bp):
GATGAAGAAAAAACTTAAACAGATCAG
Found at i:65334142 original size:19 final size:18
Alignment explanation
Indices: 65334115--65334170 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
65334105 GTTATTATTA
65334115 TTAATTATTAATTTTTATAT
1 TTAA-TATTAA-TTTTATAT
65334135 TTAATATTAATTTTATTAT
1 TTAATATTAATTTTA-TAT
65334154 TT-ATATTTAAATTTTAT
1 TTAATA-TT-AATTTTAT
65334171 GATTATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
18 8 0.24
19 14 0.42
20 11 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTAATATTAATTTTATAT
Found at i:65334181 original size:20 final size:20
Alignment explanation
Indices: 65334122--65334174 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
65334112 TTATTAATTA
*
65334122 TTAATTTTTAT-ATTTA-AT
1 TTAAATTTTATGATTTATAT
*
65334140 ATT-AATTTTATTATTTATAT
1 -TTAAATTTTATGATTTATAT
65334160 TTAAATTTTATGATT
1 TTAAATTTTATGATT
65334175 ATTATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 7 0.24
19 9 0.31
20 13 0.45
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTAAATTTTATGATTTATAT
Found at i:65339921 original size:3 final size:3
Alignment explanation
Indices: 65339913--65339937 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
65339903 TCTGCAGTTT
65339913 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
65339938 GACATTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:65339987 original size:4 final size:4
Alignment explanation
Indices: 65339978--65340013 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
65339968 CATAAATCTT
65339978 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
65340014 ACATCCATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:65341925 original size:19 final size:19
Alignment explanation
Indices: 65341901--65341939 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
65341891 AGCCGACGGC
65341901 CTTGCCAGCCTCCTGAATT
1 CTTGCCAGCCTCCTGAATT
65341920 CTTGCCAGCCTCCTGAATT
1 CTTGCCAGCCTCCTGAATT
65341939 C
1 C
65341940 GCCACTGCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (19 bp):
CTTGCCAGCCTCCTGAATT
Found at i:65345252 original size:61 final size:61
Alignment explanation
Indices: 65345177--65345302 Score: 252
Period size: 61 Copynumber: 2.1 Consensus size: 61
65345167 ACAATCTTGT
65345177 TCTATACCTTGTAAACCAGATCCTTGAAACTTATATTCAACTAGCAGTAAACTGACATTCA
1 TCTATACCTTGTAAACCAGATCCTTGAAACTTATATTCAACTAGCAGTAAACTGACATTCA
65345238 TCTATACCTTGTAAACCAGATCCTTGAAACTTATATTCAACTAGCAGTAAACTGACATTCA
1 TCTATACCTTGTAAACCAGATCCTTGAAACTTATATTCAACTAGCAGTAAACTGACATTCA
65345299 TCTA
1 TCTA
65345303 ATCCAAAAAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.32
Consensus pattern (61 bp):
TCTATACCTTGTAAACCAGATCCTTGAAACTTATATTCAACTAGCAGTAAACTGACATTCA
Found at i:65348367 original size:18 final size:17
Alignment explanation
Indices: 65348323--65348367 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
65348313 TAATTGAGAA
65348323 AAAATAATTATT-ATTTT
1 AAAATAA-TATTAATTTT
65348340 -AAAT-ATATTAATTTAT
1 AAAATAATATTAATTT-T
65348356 AAAATAATATTA
1 AAAATAATATTA
65348368 GATAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 4 0.17
15 5 0.21
16 5 0.21
17 4 0.17
18 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATAATATTAATTTT
Found at i:65348478 original size:93 final size:93
Alignment explanation
Indices: 65348371--65348570 Score: 341
Period size: 93 Copynumber: 2.2 Consensus size: 93
65348361 AATATTAGAT
*
65348371 AATAT-TTAATTTATAAAATAATATATTAATTATTAATGATCGAAGCACTTAATTTTTTTTATAT
1 AATATATTAATTTATAAAATAATATATTAATTATTAATGATCGAAGCACTTAA-TTTTTTAATAT
*
65348435 TTAATTGAG-AAAAATAATTATTTTTTTA
65 TTAATTGAGAAAAAATAATTATTATTTTA
* *
65348463 AATATATTAGTTTATAAAATAATATGTTAATTATTAATGATCGAAGCACTTAATTTTTTAATATT
1 AATATATTAATTTATAAAATAATATATTAATTATTAATGATCGAAGCACTTAATTTTTTAATATT
65348528 TAATTGAGAAAAAATAATTATTATTTTA
66 TAATTGAGAAAAAATAATTATTATTTTA
65348556 AATATATTAATTTAT
1 AATATATTAATTTAT
65348571 TTTTTATAGT
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
92 24 0.24
93 77 0.76
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (93 bp):
AATATATTAATTTATAAAATAATATATTAATTATTAATGATCGAAGCACTTAATTTTTTAATATT
TAATTGAGAAAAAATAATTATTATTTTA
Found at i:65348614 original size:121 final size:122
Alignment explanation
Indices: 65348463--65348951 Score: 739
Period size: 122 Copynumber: 4.0 Consensus size: 122
65348453 TATTTTTTTA
* * * *
65348463 AATATATTAGTTTATAAAATAATATGTTAATTATTAATGATCGAAGCACTTAATTTTTTAATATT
1 AATAT-TTAATTTATAAAATAATATATTAATTATTAATGATCGAAGCACTTAATCTTTTAAAATT
* *** * *
65348528 TAATTGAGAAAAAATAATTATTATTTTAAATATATTAATTTAT-TTTTTATAGTAGAT
65 TAATTGAGAAAAAATAAATATTATTTTAAATATATTAATTTATAAAATAATATTAGAT
* * * * *
65348585 AAGATTCAATTTATAAAATAATATATTAATTATTAATGATCGAAGAACTTAATTTTTTAATATTT
1 AATATTTAATTTATAAAATAATATATTAATTATTAATGATCGAAGCACTTAATCTTTTAAAATTT
*
65348650 AATTGAGAAAAAATAAATATGATTTTAAATATATTAATTTATAAAATAATATTAGAT
66 AATTGAGAAAAAATAAATATTATTTTAAATATATTAATTTATAAAATAATATTAGAT
* *
65348707 AATATTTAATTTATAAAATAATATATTAATTATTAATGATCGAATCGCTTAATCTTTTAAAATTT
1 AATATTTAATTTATAAAATAATATATTAATTATTAATGATCGAAGCACTTAATCTTTTAAAATTT
*
65348772 AATTGAGAAAAAATAAATATTATTTTAAATATATTAATTTATAAAATAACATTAGAT
66 AATTGAGAAAAAATAAATATTATTTTAAATATATTAATTTATAAAATAATATTAGAT
* *
65348829 AATATTTAATTTATAAAATAATACATTAATTATTAATGATCGAAGCGCTTAATCTTTTAAAATTT
1 AATATTTAATTTATAAAATAATATATTAATTATTAATGATCGAAGCACTTAATCTTTTAAAATTT
* * *
65348894 AATTGAG-AAAAATAATTATTATTTTAAACATTTTAATTTATAAAATAATATTAGAT
66 AATTGAGAAAAAATAAATATTATTTTAAATATATTAATTTATAAAATAATATTAGAT
65348950 AA
1 AA
65348952 GAAATTGGGG
Statistics
Matches: 339, Mismatches: 27, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
121 143 0.42
122 196 0.58
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (122 bp):
AATATTTAATTTATAAAATAATATATTAATTATTAATGATCGAAGCACTTAATCTTTTAAAATTT
AATTGAGAAAAAATAAATATTATTTTAAATATATTAATTTATAAAATAATATTAGAT
Found at i:65348693 original size:214 final size:215
Alignment explanation
Indices: 65348274--65348701 Score: 707
Period size: 214 Copynumber: 2.0 Consensus size: 215
65348264 GTGTTTTTAA
65348274 TTAATTATTAATGATCGAAGCACTTAATTTTTTAACATTTAATTGAGAAAAAATAATTATTATTT
1 TTAATTATTAATGATCGAAGCACTTAATTTTTTAACATTTAATTGAGAAAAAATAATTATTATTT
* * *
65348339 TAAATATATTAATTTATAAAATAATATTAGATAATATTTAATTTATAAAATAATATATTAATTAT
66 TAAATATATTAATTTATAAAATAATAGTAGATAAGATTCAATTTATAAAATAATATATTAATTAT
* * * **
65348404 TAATGATCGAAGCACTTAATTTTTTTTATATTTAATTGAGAAAAATAATTATTTTTTTAAATATA
131 TAATGATCGAAGAACTTAATTTTTTTAATATTTAATTGAGAAAAATAAATATGATTTTAAATATA
*
65348469 TTAGTTTATAAAATAATATG
196 TTAATTTATAAAATAATATG
*
65348489 TTAATTATTAATGATCGAAGCACTTAATTTTTTAATATTTAATTGAGAAAAAATAATTATTATTT
1 TTAATTATTAATGATCGAAGCACTTAATTTTTTAACATTTAATTGAGAAAAAATAATTATTATTT
*** *
65348554 TAAATATATTAATTTAT-TTTTTATAGTAGATAAGATTCAATTTATAAAATAATATATTAATTAT
66 TAAATATATTAATTTATAAAATAATAGTAGATAAGATTCAATTTATAAAATAATATATTAATTAT
65348618 TAATGATCGAAGAACTTAA-TTTTTTAATATTTAATTGAGAAAAAATAAATATGATTTTAAATAT
131 TAATGATCGAAGAACTTAATTTTTTTAATATTTAATTGAG-AAAAATAAATATGATTTTAAATAT
65348682 ATTAATTTATAAAATAATAT
195 ATTAATTTATAAAATAATAT
65348702 TAGATAATAT
Statistics
Matches: 198, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
213 19 0.10
214 98 0.49
215 81 0.41
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (215 bp):
TTAATTATTAATGATCGAAGCACTTAATTTTTTAACATTTAATTGAGAAAAAATAATTATTATTT
TAAATATATTAATTTATAAAATAATAGTAGATAAGATTCAATTTATAAAATAATATATTAATTAT
TAATGATCGAAGAACTTAATTTTTTTAATATTTAATTGAGAAAAATAAATATGATTTTAAATATA
TTAATTTATAAAATAATATG
Found at i:65348697 original size:29 final size:29
Alignment explanation
Indices: 65348674--65348730 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
65348664 AAATATGATT
65348674 TTAAAT-ATA-TTAATTTATAAAATAATA
1 TTAAATAATATTTAATTTATAAAATAATA
*
65348701 TTAGATAATATTTAATTTATAAAATAATA
1 TTAAATAATATTTAATTTATAAAATAATA
65348730 T
1 T
65348731 ATTAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 5 0.19
28 3 0.11
29 19 0.70
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
TTAAATAATATTTAATTTATAAAATAATA
Found at i:65348772 original size:58 final size:58
Alignment explanation
Indices: 65348710--65348914 Score: 152
Period size: 58 Copynumber: 3.4 Consensus size: 58
65348700 ATTAGATAAT
* *
65348710 ATTTAATTTATAAAATAATATATTAATTATTAATGATCGAATCGCTTAATCTTTTAAA
1 ATTTAATTGAAAAAATAATATATTAATTATTAATGATCGAATCGCTTAATCTTTTAAA
* ** **
65348768 ATTTAATTGAGAAAAAATAAATATTATTTTAAATATATTAATTTATAAAATAACATTAGA-----
1 ATTTAATT--GAAAAAAT-AATA-TA--TT-AAT-TATTAA-TGATCGAATCGC-TTA-ATCTTT
*
65348828 TAAT
55 TAAA
* * * *
65348832 ATTTAATTTATAAAATAATACATTAATTATTAATGATCGAAGCGCTTAATCTTTTAAA
1 ATTTAATTGAAAAAATAATATATTAATTATTAATGATCGAATCGCTTAATCTTTTAAA
65348890 ATTTAATTGAGAAAAATAAT-TATTA
1 ATTTAATTGA-AAAAATAATATATTA
65348915 TTTTAAACAT
Statistics
Matches: 109, Mismatches: 21, Indels: 34
0.66 0.13 0.21
Matches are distributed among these distances:
53 1 0.01
54 3 0.03
55 6 0.06
56 6 0.06
57 3 0.03
58 26 0.24
59 8 0.07
60 7 0.06
61 8 0.07
62 8 0.07
64 13 0.12
65 3 0.03
66 6 0.06
67 7 0.06
68 3 0.03
69 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (58 bp):
ATTTAATTGAAAAAATAATATATTAATTATTAATGATCGAATCGCTTAATCTTTTAAA
Found at i:65348777 original size:243 final size:244
Alignment explanation
Indices: 65348463--65348951 Score: 739
Period size: 243 Copynumber: 2.0 Consensus size: 244
65348453 TATTTTTTTA
* * * *
65348463 AATATATTAGTTTATAAAATAATATGTTAATTATTAATGATCGAAGCACTTAATTTTTTAATATT
1 AATATATTAATTTATAAAATAATATATTAATTATTAATGATCGAAGCACTTAATCTTTTAAAATT
* *** * *
65348528 TAATTGAGAAAAAATAATTATTATTTTAAATATATTAATTTAT-TTTTTATAGTAGATAAGATTC
66 TAATTGAGAAAAAATAAATATTATTTTAAATATATTAATTTATAAAATAACAGTAGATAAGATTC
* * *
65348592 AATTTATAAAATAATATATTAATTATTAATGATCGAAGAACTTAATTTTTTAATATTTAATTGAG
131 AATTTATAAAATAATACATTAATTATTAATGATCGAAGAACTTAATCTTTTAAAATTTAATTGAG
*
65348657 AAAAAATAAATATGATTTTAAATATATTAATTTATAAAATAATATTAGAT
196 -AAAAATAAATATGATTTTAAACATATTAATTTATAAAATAATATTAGAT
* *
65348707 AATAT-TTAATTTATAAAATAATATATTAATTATTAATGATCGAATCGCTTAATCTTTTAAAATT
1 AATATATTAATTTATAAAATAATATATTAATTATTAATGATCGAAGCACTTAATCTTTTAAAATT
* * *
65348771 TAATTGAGAAAAAATAAATATTATTTTAAATATATTAATTTATAAAATAACATTAGATAATATTT
66 TAATTGAGAAAAAATAAATATTATTTTAAATATATTAATTTATAAAATAACAGTAGATAAGATTC
**
65348836 AATTTATAAAATAATACATTAATTATTAATGATCGAAGCGCTTAATCTTTTAAAATTTAATTGAG
131 AATTTATAAAATAATACATTAATTATTAATGATCGAAGAACTTAATCTTTTAAAATTTAATTGAG
* * *
65348901 AAAAATAATTATTATTTTAAACATTTTAATTTATAAAATAATATTAGAT
196 AAAAATAAATATGATTTTAAACATATTAATTTATAAAATAATATTAGAT
65348950 AA
1 AA
65348952 GAAATTGGGG
Statistics
Matches: 220, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
243 142 0.65
244 78 0.35
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (244 bp):
AATATATTAATTTATAAAATAATATATTAATTATTAATGATCGAAGCACTTAATCTTTTAAAATT
TAATTGAGAAAAAATAAATATTATTTTAAATATATTAATTTATAAAATAACAGTAGATAAGATTC
AATTTATAAAATAATACATTAATTATTAATGATCGAAGAACTTAATCTTTTAAAATTTAATTGAG
AAAAATAAATATGATTTTAAACATATTAATTTATAAAATAATATTAGAT
Found at i:65350421 original size:23 final size:21
Alignment explanation
Indices: 65350354--65350414 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
65350344 CCTGATCAGT
* *
65350354 ATACGATACATAA-GTGCCTG
1 ATACGACACACAAGGTGCCTG
* *
65350374 AAACGACACACGAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
65350395 ATACGACACACAAGGTGCCT
1 ATACGACACACAAGGTGCCT
65350415 AAGATACAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.16
Consensus pattern (21 bp):
ATACGACACACAAGGTGCCTG
Found at i:65350463 original size:23 final size:23
Alignment explanation
Indices: 65350419--65350463 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
65350409 GTGCCTAAGA
* **
65350419 TACAATACATAAAGTGTTTGATG
1 TACAACACATAAAGTGCCTGATG
65350442 TACAACACATAAAGTGCCTGAT
1 TACAACACATAAAGTGCCTGAT
65350464 CGGCTAAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (23 bp):
TACAACACATAAAGTGCCTGATG
Found at i:65351563 original size:3 final size:3
Alignment explanation
Indices: 65351555--65351588 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
65351545 ATGTATTAGT
65351555 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
65351589 TATTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:65351923 original size:18 final size:19
Alignment explanation
Indices: 65351879--65351916 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
65351869 CTATTTGATT
65351879 TAATTTATAATATAATATCA
1 TAATTT-TAATATAATATCA
65351899 TAATTTTAAT-TAATATCA
1 TAATTTTAATATAATATCA
65351917 AGATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 4 0.22
20 6 0.33
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATTTTAATATAATATCA
Found at i:65351924 original size:19 final size:20
Alignment explanation
Indices: 65351879--65351925 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
65351869 CTATTTGATT
*
65351879 TAATTTATAATATAATATCA
1 TAATTTTTAATATAATATCA
65351899 TAA-TTTTAAT-TAATATCA
1 TAATTTTTAATATAATATCA
65351917 -AGATTTTTA
1 TA-ATTTTTA
65351926 TGAAGTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 9 0.38
19 11 0.46
20 3 0.12
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
TAATTTTTAATATAATATCA
Found at i:65352430 original size:22 final size:22
Alignment explanation
Indices: 65352402--65352448 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
65352392 ATAAAATTAT
65352402 TAAATA-TTAAAATAA-AATAAAA
1 TAAATATTTAAAA-AATAA-AAAA
65352424 TAAATATTTAAAAAATAAAAAA
1 TAAATATTTAAAAAATAAAAAA
65352446 TAA
1 TAA
65352449 TATGGGCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAATATTTAAAAAATAAAAAA
Found at i:65353392 original size:30 final size:30
Alignment explanation
Indices: 65353336--65353395 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
65353326 ACTTTCAATT
65353336 AGTTCAATGATCATTTTCTAACTTTTTAAA
1 AGTTCAATGATCATTTTCTAACTTTTTAAA
* *
65353366 AGTTCAATGATCATTTTGTAATTTTTTAAA
1 AGTTCAATGATCATTTTCTAACTTTTTAAA
65353396 GTTAAGTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (30 bp):
AGTTCAATGATCATTTTCTAACTTTTTAAA
Found at i:65388918 original size:51 final size:51
Alignment explanation
Indices: 65388837--65389014 Score: 304
Period size: 51 Copynumber: 3.5 Consensus size: 51
65388827 TTCTGATCAG
* *
65388837 TGATAAGTGACAAGTGGAAAGTGATAAGTGATTGCTTCAGCTACACTTATC
1 TGATCAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCAGCTACACTTATC
*
65388888 TGATCAGTGACAAATGGAAAGTGATAAGTGATAGCTTCAGCTACACTTATC
1 TGATCAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCAGCTACACTTATC
*
65388939 TGATCAGTGACAAGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATC
1 TGATCAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCAGCTACACTTATC
65388990 TGATCAGTGACAAGT-GATAAGTGAT
1 TGATCAGTGACAAGTGGA-AAGTGAT
65389015 CATACGCAAG
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
50 1 0.01
51 119 0.99
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
TGATCAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCAGCTACACTTATC
Found at i:65393323 original size:12 final size:12
Alignment explanation
Indices: 65393295--65393327 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
65393285 CCCCCCAAAA
65393295 TTTTCC-TCCTG
1 TTTTCCTTCCTG
65393306 -TTTCCTTCCTG
1 TTTTCCTTCCTG
65393317 TTTTCCTTCCT
1 TTTTCCTTCCT
65393328 CCCAAACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.25
11 5 0.25
12 10 0.50
ACGTcount: A:0.00, C:0.36, G:0.06, T:0.58
Consensus pattern (12 bp):
TTTTCCTTCCTG
Found at i:65394940 original size:10 final size:10
Alignment explanation
Indices: 65394927--65395074 Score: 64
Period size: 10 Copynumber: 15.3 Consensus size: 10
65394917 TTTTGATGCA
65394927 TTTTATAAAT
1 TTTTATAAAT
*
65394937 TTTTAT-GAT
1 TTTTATAAAT
*
65394946 TTTTATAAAA
1 TTTTATAAAT
**
65394956 TTTTACCAAT
1 TTTTATAAAT
*
65394966 TTTTATATAT
1 TTTTATAAAT
65394976 TTTT-TACAAT
1 TTTTATA-AAT
* *
65394986 ATATAT-AA-
1 TTTTATAAAT
*
65394994 TTTTCT-AAT
1 TTTTATAAAT
65395003 TTTTAGT-AAT
1 TTTTA-TAAAT
65395013 TTTTA-AATAT
1 TTTTATAA-AT
*
65395023 TTTAAATATAAT
1 TTT-TATA-AAT
* *
65395035 TTAT-TAAAG
1 TTTTATAAAT
*
65395044 TTTAAT-AAT
1 TTTTATAAAT
65395053 TTTTAT-AAT
1 TTTTATAAAT
*
65395062 TTTTATAACT
1 TTTTATAAAT
65395072 TTT
1 TTT
65395075 ATTGATTTTT
Statistics
Matches: 101, Mismatches: 25, Indels: 24
0.67 0.17 0.16
Matches are distributed among these distances:
8 5 0.05
9 37 0.37
10 51 0.50
11 2 0.02
12 5 0.05
13 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.58
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:65394949 original size:19 final size:20
Alignment explanation
Indices: 65394927--65394979 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
65394917 TTTTGATGCA
**
65394927 TTTTATAAATTTTTA-TGAT
1 TTTTATAAATTTTTACCAAT
*
65394946 TTTTATAAAATTTTACCAAT
1 TTTTATAAATTTTTACCAAT
*
65394966 TTTTATATATTTTT
1 TTTTATAAATTTTT
65394980 TACAATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATAAATTTTTACCAAT
Found at i:65395062 original size:9 final size:9
Alignment explanation
Indices: 65394927--65395095 Score: 90
Period size: 9 Copynumber: 17.4 Consensus size: 9
65394917 TTTTGATGCA
65394927 TTTTATAAAT
1 TTTTAT-AAT
*
65394937 TTTTATGAT
1 TTTTATAAT
*
65394946 TTTTATAAAA
1 TTTTAT-AAT
*
65394956 TTTTACCAAT
1 TTTTA-TAAT
65394966 TTTTATATATT
1 TTTTATA-A-T
*
65394977 TTTTACAAT
1 TTTTATAAT
* *
65394986 ATATATAA-
1 TTTTATAAT
*
65394994 TTTTCTAAT
1 TTTTATAAT
65395003 TTTTAGTAAT
1 TTTTA-TAAT
*
65395013 TTTTAAATAT
1 TTTTATA-AT
65395023 TTTAAATATAAT
1 TTT---TATAAT
*
65395035 TTATTA-AAG
1 TT-TTATAAT
*
65395044 TTTAATAAT
1 TTTTATAAT
65395053 TTTTATAAT
1 TTTTATAAT
*
65395062 TTTTATAAC
1 TTTTATAAT
*
65395071 TTTTATTGATT
1 TTTTA-T-AAT
65395082 TTTTATAACT
1 TTTTATAA-T
65395092 TTTT
1 TTTT
65395096 GCCATATGTC
Statistics
Matches: 120, Mismatches: 24, Indels: 30
0.69 0.14 0.17
Matches are distributed among these distances:
8 7 0.06
9 48 0.40
10 44 0.37
11 13 0.11
12 4 0.03
13 4 0.03
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (9 bp):
TTTTATAAT
Found at i:65406774 original size:21 final size:21
Alignment explanation
Indices: 65406750--65406790 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65406740 AGACGAGTAA
* *
65406750 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
65406771 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
65406791 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:65412948 original size:20 final size:20
Alignment explanation
Indices: 65412923--65413003 Score: 56
Period size: 20 Copynumber: 3.7 Consensus size: 20
65412913 TTCTTATGAC
65412923 TTTATAAAATTTTATAATTTT
1 TTTATAAAATTTTATAA-TTT
65412944 TTATATTTCAATATATTTTATAATTT
1 TT-TA--T-AA-A-ATTTTATAATTT
*
65412970 TTT-TAAAATTTTTAAAATTT
1 TTTATAAAA-TTTTATAATTT
* *
65412990 TTAATAAATTTTTA
1 TTTATAAAATTTTA
65413004 ATATTTGATT
Statistics
Matches: 49, Mismatches: 3, Indels: 17
0.71 0.04 0.25
Matches are distributed among these distances:
19 1 0.02
20 18 0.37
21 8 0.16
22 3 0.06
24 1 0.02
25 3 0.06
26 6 0.12
27 9 0.18
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATAAAATTTTATAATTT
Done.