Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 91 of 325
Found at i:30317288 original size:86 final size:85
Alignment explanation
Indices: 30317159--30317404 Score: 296
Period size: 86 Copynumber: 2.8 Consensus size: 85
30317149 AATTTTCAAA
* * * * * *
30317159 CCTTAAACCCCTAAGCAGTAGGGTAATAGGCTGAATTTTCAGATCTTAACCCCCTAAGCAATAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGAC-CAAATTGCAGATCTTAACCCCCTAAGCAGTAGG
30317224 GAAACAGATCGAAGACAAAGGG
65 G-AACAGATCGAAGACAAAGGG
* * * *
30317246 CCTTAAA-CCCTCAAGTAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGTAGTAGT
1 CCTTAAACCCCT-AAGCAGTAGGGTAACAGACCAAATTGCAGATCTTAACCCCCTAAGCAGTAG-
* *
30317310 GGAGCAGATCGAAGACGAAGGG
64 GGAACAGATCGAAGACAAAGGG
* * *
30317332 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCTAGATCTTAACCCCCTAAGCAGTAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGC-AGATCTTAACCCCCTAAGCAGTAGG
30317397 GTAACAGA
65 G-AACAGA
30317405 CCAAATTACA
Statistics
Matches: 134, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
86 79 0.59
87 55 0.41
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (85 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTAACCCCCTAAGCAGTAGGG
AACAGATCGAAGACAAAGGG
Found at i:30317388 original size:43 final size:41
Alignment explanation
Indices: 30317069--30317620 Score: 216
Period size: 43 Copynumber: 12.8 Consensus size: 41
30317059 TGAAGATTTA
* * * *
30317069 CAGATC-TAACCCCCTAAGCAGTATGGAAACAGATCGAAAGT
1 CAGATCTTAACCCCCTAAGCAGTAGGGTAACAGA-CCAAATT
* ** * * *
30317110 GATGGGCTTCAACCCCCTAAGCAATAGGGTAGCA-AGTCAAATTTT
1 CA-GATCTT-AACCCCCTAAGCAGTAGGGTAACAGA-CCAAA--TT
* * * * * * *
30317155 CAAACCTTAAACCCCTAAGCAGTAGGGTAATAGGCTGAATTTT
1 CAGATCTTAACCCCCTAAGCAGTAGGGTAACAGAC-CAA-ATT
* * * **
30317198 CAGATCTTAACCCCCTAAGCAATAGGGAAACAGATCGAAGACA
1 CAGATCTTAACCCCCTAAGCAGTAGGGTAACAGA-CCAA-ATT
* ** * *
30317241 AAGGGCCTTAA-ACCCTCAAGTAGTAGGGTAACAGACCAAATT
1 CA-GATCTTAACCCCCT-AAGCAGTAGGGTAACAGACCAAATT
* * * * * **
30317283 GCAGATCTTATCTCCCTAAGTAGTAGTGG-AGCAGATCGAAGACG
1 -CAGATCTTAACCCCCTAAGCAGTAG-GGTAACAGA-CCAA-ATT
* ** * * *
30317327 AAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTT
1 CA-GATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAA-TT
30317370 CTAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATT
1 C-AGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATT
* * ** * **
30317412 ACAGATCTTATCTCCCTAAGCAGTAGTGG-AGTAGATCGAAGACG
1 -CAGATCTTAACCCCCTAAGCAGTAG-GGTAACAGA-CCAA-ATT
* *
30317456 AAGGGTCTTGAACCCCCTAAGCAGTAGGGTAACAGACCAAATT
1 CA-GATCTT-AACCCCCTAAGCAGTAGGGTAACAGACCAAATT
* * * * **
30317499 ACAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACG
1 -CAGATCTTAACCCCCTAAGCAGTAG-GGTAACAGA-CCAA-ATT
* * * * * *
30317543 AAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTT
1 CA-GATCTTAACCCCCTAAGCAGTAGGGTAACAGAC-CAAATT
*
30317586 CCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
1 -CAGATCTTAACCCCCTAAGCAGTAGGGTAACAGA
30317621 TCGAAGACGA
Statistics
Matches: 366, Mismatches: 110, Indels: 68
0.67 0.20 0.12
Matches are distributed among these distances:
41 1 0.00
42 71 0.19
43 163 0.45
44 110 0.30
45 21 0.06
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (41 bp):
CAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATT
Found at i:30317388 original size:216 final size:216
Alignment explanation
Indices: 30317066--30317620 Score: 701
Period size: 216 Copynumber: 2.6 Consensus size: 216
30317056 GACTGAAGAT
* * * * * *
30317066 TTACAGATC-TAACCCCCTAAGCAGTA-TGGAAACAGATCGAA-AGTGATGGG-CTTCAACCCCC
1 TTACAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CGAAGGGCCTT-AAACCCC
* * * * * * * * *
30317127 TAAGCAATAGGGTAGCAAG-TCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGTAATAGGCT
63 TAAGCAGTAGGGTAACAGGCT-AAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGTAACAGAC-
* * *
30317191 GAATTTTCAGATCTTAACCCCCTAAGCAATAG-GGAAACAGATCGAAGACAAAGGGCCTTAAACC
126 CAAATTACAGATCTTAACCCCCTAAGCAATAGTGG-AACAGATCGAAGACAAAGGGCCTTAAACC
* *
30317255 CTC-AAGTAGTAGGGTAACAGACCAAA
190 CCCTAAGCAGTAGGGTAACAGACCAAA
* *
30317281 TTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAACCCCTAA
1 TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAACCCCTAA
*
30317346 GCAGTAGGGTAACAGGCTAAATTTCTAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAAT
66 GCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAAT
* * * ** * * *
30317411 TACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGAAGGGTCTTGAACCCCCTAA
131 TACAGATCTTAACCCCCTAAGCAATAGTGGAACAGATCGAAGACAAAGGGCCTTAAACCCCCTAA
30317476 GCAGTAGGGTAACAGACCAAA
196 GCAGTAGGGTAACAGACCAAA
*
30317497 TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
1 TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAACCCCTAA
* *
30317562 GCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
66 GCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGTAACAGA
30317621 TCGAAGACGA
Statistics
Matches: 296, Mismatches: 37, Indels: 13
0.86 0.11 0.04
Matches are distributed among these distances:
215 60 0.20
216 228 0.77
217 8 0.03
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (216 bp):
TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAACCCCTAA
GCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAAT
TACAGATCTTAACCCCCTAAGCAATAGTGGAACAGATCGAAGACAAAGGGCCTTAAACCCCCTAA
GCAGTAGGGTAACAGACCAAA
Found at i:30317404 original size:129 final size:129
Alignment explanation
Indices: 30317253--30317524 Score: 420
Period size: 129 Copynumber: 2.1 Consensus size: 129
30317243 GGGCCTTAAA
* * *
30317253 CCCTCAAGTAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 CCCT-AAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * *
30317318 TCGAAGACGAAGGGCCTT-AAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCTAGATCTTAAC
65 TCGAAGACGAAGGGCCTTGAAACCCCTAAGCAGTAGGGTAACAGACCAAATTAC-AGATCTTAAC
30317382 C
129 C
*
30317383 CCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGAT
1 CCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* * * *
30317448 CGAAGACGAAGGGTCTTGAACCCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCT
66 CGAAGACGAAGGGCCTTGAAACCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACC
30317512 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
30317525 TGGAGCAGAT
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
129 95 0.73
130 35 0.27
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (129 bp):
CCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
CGAAGACGAAGGGCCTTGAAACCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACC
Found at i:30317567 original size:44 final size:44
Alignment explanation
Indices: 30317202--30317659 Score: 233
Period size: 43 Copynumber: 10.6 Consensus size: 44
30317192 AATTTTCAGA
* * * *
30317202 TCTTAACCCCCTAAGCAATAGGGAAACAGATCGAAGACAAAGGG
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAGGG
* * * * * *
30317246 CCTTAAA-CCCTCAAGTAGTAGGGTAACAGA-CCAA-ATTGCA-GA
1 TCTTAAACCCCT-AAGCAGTAGGGTAACAGATCGAAGA-CGAAGGG
* * *
30317288 TCTT-ATCTCCCTAAGTAGTAGTGG-AGCAGATCGAAGACGAAGGG
1 TCTTAAAC-CCCTAAGCAGTAG-GGTAACAGATCGAAGACGAAGGG
* * * * *
30317332 CCTTAAACCCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTC-TA-GA
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGA---CGAAGGG
* * ** *
30317375 TCTTAACCCCCTAAGCAGTAGGGTAACAGA-CCAA-ATTACA-GA
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGACGA-AGGG
* **
30317417 TCTT-ATCTCCCTAAGCAGTAGTGG-AGTAGATCGAAGACGAAGGG
1 TCTTAAAC-CCCTAAGCAGTAG-GGTAACAGATCGAAGACGAAGGG
* * ** *
30317461 TCTTGAACCCCCTAAGCAGTAGGGTAACAGA-CCAA-ATTACA-GA
1 TCTT-AAACCCCTAAGCAGTAGGGTAACAGATCGAAGACGA-AGGG
* *
30317504 TCTT-ATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGG
1 TCTTAAAC-CCCTAAGCAGTAG-GGTAACAGATCGAAGACGAAGGG
* ** * *
30317548 TCTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAATTTC-CA-GA
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGATC-GAA-GACGAAGGG
* * *
30317591 TCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGG
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAGGG
*
30317635 CCTTAAACCCCTAAGCAGTAGGGTA
1 TCTTAAACCCCTAAGCAGTAGGGTA
30317660 CCAGGCTGAA
Statistics
Matches: 309, Mismatches: 68, Indels: 74
0.69 0.15 0.16
Matches are distributed among these distances:
41 5 0.02
42 63 0.20
43 109 0.35
44 107 0.35
45 23 0.07
46 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (44 bp):
TCTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAGGG
Found at i:30317669 original size:87 final size:86
Alignment explanation
Indices: 30317375--30317659 Score: 428
Period size: 87 Copynumber: 3.3 Consensus size: 86
30317365 AATTTCTAGA
*
30317375 TCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
*
30317440 GAGTAGATCGAAGACGAAGGG
66 GAGCAGATCGAAGACGAAGGG
*
30317461 TCTTGAACCCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGT
1 TCTT-AAACCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGT
30317526 GGAGCAGATCGAAGACGAAGGG
65 GGAGCAGATCGAAGACGAAGGG
* * * * * *
30317548 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCTAAGCAGTAG-
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGAC-CAAATTACAGATCTTATCTCCCTAAGCAGTAGT
* *
30317612 GGAAACAGATCGAAGACGATGGG
65 GG-AGCAGATCGAAGACGAAGGG
*
30317635 CCTTAAACCCCTAAGCAGTAGGGTA
1 TCTTAAACCCCTAAGCAGTAGGGTA
30317660 CCAGGCTGAA
Statistics
Matches: 185, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
86 31 0.17
87 154 0.83
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (86 bp):
TCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAGACGAAGGG
Found at i:30319498 original size:3 final size:3
Alignment explanation
Indices: 30319492--30319552 Score: 88
Period size: 3 Copynumber: 20.0 Consensus size: 3
30319482 TTGTTATCAC
*
30319492 TAT TAT T-T CTAT TAT TTT TAT TAT TACT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
30319538 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
30319553 CATCATAGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 1 0.02
3 48 0.91
4 4 0.08
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30319670 original size:16 final size:16
Alignment explanation
Indices: 30319646--30319676 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30319636 TATTTCACTA
30319646 TTATCATTTTTTATTG
1 TTATCATTTTTTATTG
*
30319662 TTATTATTTTTTATT
1 TTATCATTTTTTATT
30319677 ACTTACTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TTATCATTTTTTATTG
Found at i:30325108 original size:17 final size:19
Alignment explanation
Indices: 30325078--30325114 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
30325068 TCAAGAAAAT
*
30325078 GGGCTGTGT-GGGCCACAC
1 GGGCTGTGTCGGCCCACAC
30325096 GGGC-GTGTCGGCCCACAC
1 GGGCTGTGTCGGCCCACAC
30325114 G
1 G
30325115 ACTGAATCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.11, C:0.32, G:0.43, T:0.14
Consensus pattern (19 bp):
GGGCTGTGTCGGCCCACAC
Found at i:30325231 original size:31 final size:31
Alignment explanation
Indices: 30325194--30325275 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
30325184 CCGTGTGACC
* *
30325194 CACACGAGCGTGTGGGCCCACACGGATAGGG
1 CACACGAGCGTGTGAGCCCACACAGATAGGG
30325225 CACACGAGCGTGTGAGCCCACACAGATAGGG
1 CACACGAGCGTGTGAGCCCACACAGATAGGG
*
30325256 CACACGGGCGTGTGAGCCCA
1 CACACGAGCGTGTGAGCCCA
30325276 ATTTTGCTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.24, C:0.30, G:0.35, T:0.10
Consensus pattern (31 bp):
CACACGAGCGTGTGAGCCCACACAGATAGGG
Found at i:30327629 original size:17 final size:18
Alignment explanation
Indices: 30327598--30327631 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30327588 GTATATATTA
30327598 AATTTATAATATTTTTAT
1 AATTTATAATATTTTTAT
*
30327616 AATTT-TAATTTTTTTA
1 AATTTATAATATTTTTA
30327632 AAACATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
AATTTATAATATTTTTAT
Found at i:30327758 original size:15 final size:15
Alignment explanation
Indices: 30327738--30327769 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30327728 ACATTAATTT
*
30327738 TATTTAATTTTAAAA
1 TATTTAATATTAAAA
30327753 TATTTAATATTAAAA
1 TATTTAATATTAAAA
30327768 TA
1 TA
30327770 ATACATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTAATATTAAAA
Found at i:30328396 original size:25 final size:25
Alignment explanation
Indices: 30328368--30328427 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
30328358 TCATTTTATG
* * *
30328368 TTTATATATTGCATATATAAATAAT
1 TTTATATATTGAATATAAAAATAAA
* *
30328393 TTTATTTATTTAATATAAAAATAAA
1 TTTATATATTGAATATAAAAATAAA
*
30328418 TTGATATATT
1 TTTATATATT
30328428 TATTTATTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (25 bp):
TTTATATATTGAATATAAAAATAAA
Found at i:30330296 original size:91 final size:90
Alignment explanation
Indices: 30330116--30330303 Score: 254
Period size: 91 Copynumber: 2.1 Consensus size: 90
30330106 ACCACAAGTG
* * *
30330116 TTGCAGGTTAATACACTGTCAGTAGTTGTGAATGCACAACGGGTTTGCATATAAAAGCTGTCAGT
1 TTGCAGGTTAATACACTGTCAGTAGTTGCGAATGCACAACGAGTTTGCATATAAAAGCTGCCAG-
30330181 AAAAGTTGTAGGTAAACCACCAATGT
65 AAAAGTTGTAGGTAAACCACCAATGT
* * *
30330207 TTGCATGTTAATACGCTGTTAGTAGGTTGCGAATGCACAACGAGTTTGCATATAAAAGCTGCCA-
1 TTGCAGGTTAATACACTGTCAGTA-GTTGCGAATGCACAACGAGTTTGCATATAAAAGCTGCCAG
* *
30330271 ATAAGTTTGT-GAGTAAACCATCAATGT
65 AAAAG-TTGTAG-GTAAACCACCAATGT
30330298 TTGCAG
1 TTGCAG
30330304 ATAAACTGTC
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
90 5 0.06
91 44 0.52
92 36 0.42
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (90 bp):
TTGCAGGTTAATACACTGTCAGTAGTTGCGAATGCACAACGAGTTTGCATATAAAAGCTGCCAGA
AAAGTTGTAGGTAAACCACCAATGT
Found at i:30331942 original size:22 final size:22
Alignment explanation
Indices: 30331916--30331962 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
30331906 TATATCTATT
**
30331916 GTATCTATATTTATTATGGTAC
1 GTATCTATATTTACGATGGTAC
30331938 GTATCTATATTTACGATGGTAC
1 GTATCTATATTTACGATGGTAC
30331960 GTA
1 GTA
30331963 CAGTCTACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (22 bp):
GTATCTATATTTACGATGGTAC
Found at i:30332286 original size:46 final size:46
Alignment explanation
Indices: 30332208--30332295 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
30332198 ATTTACATTG
*
30332208 TTGAATGGTTTATCCACACCGTTAGAGCAGCTTTTATCTGCACCGT
1 TTGAATGGTTTATCCACACCGTTACAGCAGCTTTTATCTGCACCGT
* * * *
30332254 TTGAGTGGTTTATCCACACTG-TATCAGTAGCTTTTATTTGCA
1 TTGAATGGTTTATCCACACCGTTA-CAGCAGCTTTTATCTGCA
30332296 ATAATGAGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 2 0.06
46 34 0.94
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (46 bp):
TTGAATGGTTTATCCACACCGTTACAGCAGCTTTTATCTGCACCGT
Found at i:30332331 original size:45 final size:45
Alignment explanation
Indices: 30332255--30332341 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 45
30332245 CTGCACCGTT
* * *
30332255 TGAGTGGTTTATCCACACTGTATCAGTAGCTTTTATT-TGCAATAA
1 TGAGTGGTTTAACCACACCGTATCAGCAGC-TTTATTCTGCAATAA
30332300 TGAGTGGTTTAACCACACCGTA-CTAGCAGCTTTATTCTGCAA
1 TGAGTGGTTTAACCACACCGTATC-AGCAGCTTTATTCTGCAA
30332342 ATATGTTGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 7 0.19
45 30 0.81
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (45 bp):
TGAGTGGTTTAACCACACCGTATCAGCAGCTTTATTCTGCAATAA
Found at i:30338232 original size:12 final size:12
Alignment explanation
Indices: 30338215--30338242 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
30338205 CAGCAAAACA
30338215 GTTTTTAGCGGC
1 GTTTTTAGCGGC
30338227 GTTTTTAGCGGC
1 GTTTTTAGCGGC
30338239 GTTT
1 GTTT
30338243 GAATAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:30338470 original size:114 final size:113
Alignment explanation
Indices: 30338271--30338480 Score: 271
Period size: 114 Copynumber: 1.8 Consensus size: 113
30338261 AAGGTTGAGC
* * * *
30338271 ATTAGCGGCGCTTCCCTAAAACGTCGCAATAGATCGAGCATTAGCGATGTTTTAAAGAAAGCGCC
1 ATTAGCGGCGCTTCCCAAAAACGCCGCAAAAGATCGAGCATTAACGATGTTTTAAAGAAAGCGCC
* *
30338336 GCTAAAAGATTCAGCAGAACGGCGTCGTTTACATTGAGTTTCCACAGA
66 GCTAAAAGATTAAGCAGAACGACGTCGTTTACATTGAGTTTCCACAGA
** *
30338384 ATTAGCGGCGCTTAGGCAAAAACGCCGCAAAAGATCGAGCATTAAC-AGTGTTTT-TAGAAAAGC
1 ATTAGCGGCGCTT-CCCAAAAACGCCGCAAAAGATCGAGCATTAACGA-TGTTTTAAAG-AAAGC
* **
30338447 GCCGCTAAAATATTAAGGTGAACGACGTCGTTTA
63 GCCGCTAAAAGATTAAGCAGAACGACGTCGTTTA
30338481 GATTAAGCTT
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
113 16 0.20
114 66 0.80
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (113 bp):
ATTAGCGGCGCTTCCCAAAAACGCCGCAAAAGATCGAGCATTAACGATGTTTTAAAGAAAGCGCC
GCTAAAAGATTAAGCAGAACGACGTCGTTTACATTGAGTTTCCACAGA
Found at i:30338520 original size:114 final size:113
Alignment explanation
Indices: 30338271--30338523 Score: 269
Period size: 114 Copynumber: 2.2 Consensus size: 113
30338261 AAGGTTGAGC
*** * * *
30338271 ATTAGCGGCGCTTCCCTAAAACGTCGCAATAGATCGAGCATTAGCGATGTTTTAAAGAAAGCGCC
1 ATTAGCGGCGCTTCAGGAAAACGCCGCAAAAGATCGAGCATTAACGATGTTTTAAAGAAAGCGCC
* * * * *
30338336 GCTAAAAGATTCAGCAGAACGGCGTCGTTTACATTGAGTTTCCACAGA
66 GCTAAAAGATTAAGCAGAACGACGTCGTTTACATTAAGCTTACACAGA
*
30338384 ATTAGCGGCGCTT-AGGCAAAAACGCCGCAAAAGATCGAGCATTAAC-AGTGTTTT-TAGAAAAG
1 ATTAGCGGCGCTTCAGG--AAAACGCCGCAAAAGATCGAGCATTAACGA-TGTTTTAAAG-AAAG
* ** * ***
30338446 CGCCGCTAAAATATTAAGGTGAACGACGTCGTTTAGATTAAGCTTACGTGGA
62 CGCCGCTAAAAGATTAAGCAGAACGACGTCGTTTACATTAAGCTTACACAGA
30338498 ATTAGCGGCGCTTTCAGGAAAACGCC
1 ATTAGCGGCGC-TTCAGGAAAACGCC
30338524 ACTATATGTC
Statistics
Matches: 115, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
113 16 0.14
114 94 0.82
115 2 0.02
116 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (113 bp):
ATTAGCGGCGCTTCAGGAAAACGCCGCAAAAGATCGAGCATTAACGATGTTTTAAAGAAAGCGCC
GCTAAAAGATTAAGCAGAACGACGTCGTTTACATTAAGCTTACACAGA
Found at i:30339231 original size:28 final size:29
Alignment explanation
Indices: 30339190--30339264 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
30339180 ACTATTTAAA
30339190 GGTTTATGGATTATGGGTTT-AGGGATTAT
1 GGTTTATGGATTATGGGTTTAAGGG-TTAT
* *
30339219 -GTTTATGGCTTAT-GGTTTAAGGGTTGT
1 GGTTTATGGATTATGGGTTTAAGGGTTAT
* *
30339246 GGTTTAAGGGTTATGGGTT
1 GGTTTATGGATTATGGGTT
30339265 AGTGGTTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 8 0.21
28 27 0.69
29 4 0.10
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.45
Consensus pattern (29 bp):
GGTTTATGGATTATGGGTTTAAGGGTTAT
Found at i:30339265 original size:7 final size:7
Alignment explanation
Indices: 30339193--30339331 Score: 70
Period size: 7 Copynumber: 19.6 Consensus size: 7
30339183 ATTTAAAGGT
*
30339193 TTATGGA
1 TTATGGG
30339200 TTATGGG
1 TTATGGG
30339207 TT-TAGGG
1 TTAT-GGG
*
30339214 ATTAT-GT
1 -TTATGGG
*
30339221 TTATGGC
1 TTATGGG
*
30339228 TTATGGT
1 TTATGGG
*
30339235 TTAAGGG
1 TTATGGG
* *
30339242 TTGTGGT
1 TTATGGG
*
30339249 TTAAGGG
1 TTATGGG
30339256 TTATGGG
1 TTATGGG
30339263 TTA-GTGG
1 TTATG-GG
30339270 TTA-GTGG
1 TTATG-GG
*
30339277 TTAGGGG
1 TTATGGG
30339284 TTTATGGG
1 -TTATGGG
30339292 TTATGGG
1 TTATGGG
*
30339299 TTAATGGT
1 TT-ATGGG
*
30339307 TTAGGGG
1 TTATGGG
* *
30339314 TTAAGGC
1 TTATGGG
*
30339321 TTAGGGG
1 TTATGGG
30339328 TTAT
1 TTAT
30339332 TATTTTGTGG
Statistics
Matches: 102, Mismatches: 22, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
6 6 0.06
7 80 0.78
8 15 0.15
9 1 0.01
ACGTcount: A:0.18, C:0.01, G:0.38, T:0.42
Consensus pattern (7 bp):
TTATGGG
Found at i:30339271 original size:14 final size:14
Alignment explanation
Indices: 30339200--30339331 Score: 88
Period size: 14 Copynumber: 9.3 Consensus size: 14
30339190 GGTTTATGGA
*
30339200 TTATGGGTTTAGGGA
1 TTATGGG-TTAGGGG
* * *
30339215 TTAT-GTTTATGGC
1 TTATGGGTTAGGGG
* *
30339228 TTATGGTTTAAGGG
1 TTATGGGTTAGGGG
* * *
30339242 TTGTGGTTTAAGGG
1 TTATGGGTTAGGGG
*
30339256 TTATGGGTTAGTGG
1 TTATGGGTTAGGGG
30339270 TTA-GTGGTTAGGGG
1 TTATG-GGTTAGGGG
*
30339284 TTTATGGGTTATGGG
1 -TTATGGGTTAGGGG
*
30339299 TTAATGGTTTAGGGG
1 TT-ATGGGTTAGGGG
* *
30339314 TTAAGGCTTAGGGG
1 TTATGGGTTAGGGG
30339328 TTAT
1 TTAT
30339332 TATTTTGTGG
Statistics
Matches: 95, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
13 10 0.11
14 57 0.60
15 27 0.28
16 1 0.01
ACGTcount: A:0.17, C:0.02, G:0.39, T:0.42
Consensus pattern (14 bp):
TTATGGGTTAGGGG
Found at i:30339557 original size:21 final size:21
Alignment explanation
Indices: 30339523--30339575 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
30339513 TTGTTTTGCG
*
30339523 GTTTATGG-TTAGGGGATATA
1 GTTTAGGGTTTAGGGGATATA
30339543 GTTTAGGGTTTAGGGGATATA
1 GTTTAGGGTTTAGGGGATATA
*
30339564 GTTTAGAGTTTA
1 GTTTAGGGTTTA
30339576 AGGTTATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGGATATA
Found at i:30339573 original size:28 final size:28
Alignment explanation
Indices: 30339542--30339609 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
30339532 TAGGGGATAT
*
30339542 AGTTTAGGGTT-TAGGGGATATAGTTTAG
1 AGTTTAAGGTTATA-GGGATATAGTTTAG
30339570 AGTTTAAGGTTATAGGGATATAGTTTA-
1 AGTTTAAGGTTATAGGGATATAGTTTAG
30339597 ATGGTTTAAGGTT
1 A--GTTTAAGGTT
30339610 TAGAGTTTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 1 0.03
28 23 0.64
29 12 0.33
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (28 bp):
AGTTTAAGGTTATAGGGATATAGTTTAG
Found at i:30341384 original size:22 final size:22
Alignment explanation
Indices: 30341356--30341405 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
30341346 TTTGGCAGCG
30341356 CTCTGCATCGCCT-TCAGTAGCC
1 CTCTGCATCG-CTGTCAGTAGCC
**
30341378 CTCTGCATCGCTGTTGGTAGCC
1 CTCTGCATCGCTGTCAGTAGCC
30341400 CTCTGC
1 CTCTGC
30341406 TACATCTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.10, C:0.38, G:0.22, T:0.30
Consensus pattern (22 bp):
CTCTGCATCGCTGTCAGTAGCC
Found at i:30342854 original size:105 final size:105
Alignment explanation
Indices: 30342667--30343319 Score: 1081
Period size: 105 Copynumber: 6.2 Consensus size: 105
30342657 ATTTTAAATA
* * * *
30342667 TTTTATTTAATTTTTAAATTATCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTTAATATGT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* * *
30342732 TATTTTATTTTATTTTAATCAAGAAAAATATTTTGTCTAC
66 TATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
30342772 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
30342837 TATTTGATTTTAATTTAATCACGGAAAATATTTTGTCTAC
66 TATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
* *
30342877 TTTTATTTTATTTTAAAATTACATAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
30342942 TATTTGATTTTAATTTAATCACGGAAAATATTTTGTCTAC
66 TATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
* * *
30342982 TTCTATTTTATTTTAAAATTACATAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
30343047 TATTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
66 TATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
30343087 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
30343152 TATTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
66 TATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
*
30343192 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTCGAATATG
1 TTTTATTTTA-TTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT-TAA-A--
* *
30343257 TTATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
61 -TATTTTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
30343303 TTTTATTTTATTTTTAA
1 TTTTATTTTATTTTTAA
30343320 TCTAATAACC
Statistics
Matches: 522, Mismatches: 20, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
105 414 0.79
106 46 0.09
107 2 0.00
108 1 0.00
110 7 0.01
111 52 0.10
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (105 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
Found at i:30349022 original size:21 final size:21
Alignment explanation
Indices: 30348989--30349050 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
30348979 TTAGAGTGGA
* *
30348989 GGCAGCAGAGAGGGAGGTAGC
1 GGCAGCAGCGAGGGAGGCAGC
*
30349010 GGTAGCAGCGAGGGAGGCAGC
1 GGCAGCAGCGAGGGAGGCAGC
* *
30349031 GGCAGTAACGAGGGAGGCAG
1 GGCAGCAGCGAGGGAGGCAG
30349051 AGCAGAGCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.52, T:0.05
Consensus pattern (21 bp):
GGCAGCAGCGAGGGAGGCAGC
Found at i:30354603 original size:49 final size:49
Alignment explanation
Indices: 30354547--30354771 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
30354537 CTAGTACGCA
30354547 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * ** * *
30354596 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* * * * * *
30354646 TAGTAGCCTGCACTTAGTACTACACAAGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
*
30354697 TAGTAGCCTCCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
30354746 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
30354772 CGTGACCTCA
Statistics
Matches: 149, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
49 66 0.44
50 46 0.31
51 37 0.25
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:30355045 original size:27 final size:27
Alignment explanation
Indices: 30355005--30355058 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
30354995 AAGTACAACC
*
30355005 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
**
30355032 CATGTAATAATAATTTGCCATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
30355059 TCACATAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAATAATAATTTAACATTCAATT
Found at i:30357258 original size:20 final size:20
Alignment explanation
Indices: 30357229--30357273 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30357219 AGCACATGTA
* *
30357229 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
30357249 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
30357269 TTCAT
1 TTCAT
30357274 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:30357375 original size:20 final size:19
Alignment explanation
Indices: 30357338--30357376 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
30357328 TATCAACAAT
*
30357338 ATTTTAATTTCTACCATAA
1 ATTTTAATTTCCACCATAA
*
30357357 ATTTATAATTTCCAGCATAA
1 ATTT-TAATTTCCACCATAA
30357377 TACACCCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (19 bp):
ATTTTAATTTCCACCATAA
Found at i:30367360 original size:20 final size:20
Alignment explanation
Indices: 30367331--30367375 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30367321 AGCACATGTA
* *
30367331 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
30367351 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
30367371 TTCAT
1 TTCAT
30367376 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:30370167 original size:6 final size:6
Alignment explanation
Indices: 30370149--30370254 Score: 101
Period size: 6 Copynumber: 17.3 Consensus size: 6
30370139 AAGAAACATT
* * *
30370149 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
30370198 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
30370247 ATCAGA AT
1 ATCAGA AT
30370255 GTGAATGCAA
Statistics
Matches: 82, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
5 4 0.05
6 70 0.85
7 6 0.07
8 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:30370200 original size:31 final size:31
Alignment explanation
Indices: 30370163--30370251 Score: 133
Period size: 31 Copynumber: 2.9 Consensus size: 31
30370153 GAACTAGAAT
* * *
30370163 CAGAATCAGAATCAAAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
30370194 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
30370225 CAGAATCAAAATCAGAATCAGAATCAG
1 CAGAATCAGAATCAGAATCAGAATCAG
30370252 AATGTGAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:30370704 original size:27 final size:27
Alignment explanation
Indices: 30370681--30371308 Score: 652
Period size: 27 Copynumber: 23.3 Consensus size: 27
30370671 CGAGGGTTTC
30370681 TCGATAATTCTACCCTACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
* *
30370708 T-TAGT-ATTCCTACCCTACAAGGGTATT
1 TCGA-TAATT-CTACCCTACAGGGGTATT
* *
30370735 TTGGTAATTCTACCCTACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
*
30370762 TCGATAATTCTACCCCACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
30370789 TCGATAATTCTACCCTACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
* *
30370816 TCGGTAATTCTACCCTACAAGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
*
30370843 TCGATAATTCTACCCTACAAGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
*
30370870 TTGATAATTCTACCCTACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
* * *
30370897 TCGGTAATTCTACCTTATAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
* *
30370924 TCGGTAATTCTATCCTACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
* *
30370951 TC-AGTAATTCTACCATATAGGGGTATT
1 TCGA-TAATTCTACCCTACAGGGGTATT
* *
30370978 TC-AGTAATTCTACCTTATAGGGGTATT
1 TCGA-TAATTCTACCCTACAGGGGTATT
* *
30371005 TCAATAATTTTACCCTACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
*
30371032 TC-AGTAATTCTACCTTACAGGGGTATT
1 TCGA-TAATTCTACCCTACAGGGGTATT
* *
30371059 TC-AGTAATTCTACACTACAGGGGCA-T
1 TCGA-TAATTCTACCCTACAGGGGTATT
* * **
30371085 TC-AGTAATTCTACCTTGCAATGGTATT
1 TCGA-TAATTCTACCCTACAGGGGTATT
* *
30371112 T-TAGTAATTCTACCCTACAAGGGTATT
1 TCGA-TAATTCTACCCTACAGGGGTATT
* * * *
30371139 TTGGTAATTTTACCTTACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
* * * *
30371166 T-TAGTAATTGTACCTTATAGGGGTATT
1 TCGA-TAATTCTACCCTACAGGGGTATT
* *
30371193 TCGATAATTCTACCTTACAGGAGT-TT
1 TCGATAATTCTACCCTACAGGGGTATT
**
30371219 TC-AGTAATTCTACTTTACAGGGGTATT
1 TCGA-TAATTCTACCCTACAGGGGTATT
* * *
30371246 TCGGTAATTTTACCTTACAGGGGTATT
1 TCGATAATTCTACCCTACAGGGGTATT
*
30371273 TC-AGTAATTCTACCTTACAGGGGTATT
1 TCGA-TAATTCTACCCTACAGGGGTATT
*
30371300 TCGGTAATT
1 TCGATAATT
30371309 TTACAAATCA
Statistics
Matches: 520, Mismatches: 64, Indels: 34
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.00
26 47 0.09
27 467 0.90
28 5 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
TCGATAATTCTACCCTACAGGGGTATT
Found at i:30370782 original size:81 final size:81
Alignment explanation
Indices: 30370656--30371308 Score: 732
Period size: 81 Copynumber: 8.1 Consensus size: 81
30370646 GGGGTAAAAT
* *
30370656 GGTAATTTTACCCCAC-GAGGGT-TTCTCGATAATTCTACCCTACAGGGGTATTTTAGT-ATTCC
1 GGTAATTCTACCCTACAG-GGGTATT-TCGATAATTCTACCCTACAGGGGTATTTTAGTAATT-C
* *
30370718 TACCCTACAAGGGTATTTT
63 TACCCTACAGGGGTATTTC
* *
30370737 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCCACAGGGGTA-TTTCGATAATTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAG-TAATTCTA
30370801 CCCTACAGGGGTATTTC
65 CCCTACAGGGGTATTTC
* *
30370818 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTT-GATAATTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAG-TAATTCTA
30370882 CCCTACAGGGGTATTTC
65 CCCTACAGGGGTATTTC
* * * * *
30370899 GGTAATTCTACCTTATAGGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
* *
30370964 CATATAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * * * *
30370980 AGTAATTCTACCTTATAGGGGTATTTCAATAATTTTACCCTACAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
*
30371045 CTTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * * * **
30371061 AGTAATTCTACACTACAGGGGCA-TTC-AGTAATTCTACCTTGCAATGGTATTTTAGTAATTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTTAGTAATTCTA
* *
30371124 CCCTACAAGGGTATTTT
65 CCCTACAGGGGTATTTC
* * * * * * *
30371141 GGTAATTTTACCTTACAGGGGTATTT-TAGTAATTGTACCTTATAGGGGTA-TTTCGATAATTCT
1 GGTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTTAG-TAATTCT
* *
30371204 ACCTTACAGGAGT-TTTC
64 ACCCTACAGGGGTATTTC
* ** * * * *
30371221 AGTAATTCTACTTTACAGGGGTATTTCGGTAATTTTACCTTACAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
*
30371286 CTTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
30371302 GGTAATT
1 GGTAATT
30371309 TTACAAATCA
Statistics
Matches: 495, Mismatches: 64, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.00
80 136 0.27
81 348 0.70
82 10 0.02
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:30371312 original size:54 final size:54
Alignment explanation
Indices: 30370685--30371308 Score: 765
Period size: 54 Copynumber: 11.6 Consensus size: 54
30370675 GGTTTCTCGA
** * * **
30370685 TAATTCTACCCTACAGGGGTATTTTAGT-ATTCCTACCCTACAAGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT-CTACCTTACAGGGGTATTTCAG
* **
30370739 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCCACAGGGGTATTTC-G
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAG
* *
30370792 ATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC-G
1 -TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAG
* * * * *
30370846 ATAATTCTACCCTACAAGGGTATTTTGATAATTCTACCCTACAGGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAG
* *
30370901 TAATTCTACCTTATAGGGGTATTTCGGTAATTCTATCC-TACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCTTACAGGGGTATTTCAG
* * * * *
30370955 TAATTCTACCATATAGGGGTATTTCAGTAATTCTACCTTATAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAG
* *
30371009 TAATTTTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAG
* * * * ** *
30371063 TAATTCTACACTACAGGGGCA-TTCAGTAATTCTACCTTGCAATGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAG
* * * *
30371116 TAATTCTACCCTACAAGGGTATTTTGGTAATTTTACCTTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAG
* * * * *
30371170 TAATTGTACCTTATAGGGGTATTTCGATAATTCTACCTTACAGGAGT-TTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAG
** *
30371223 TAATTCTACTTTACAGGGGTATTTCGGTAATTTTACCTTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAG
*
30371277 TAATTCTACCTTACAGGGGTATTTCGGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
30371309 TTACAAATCA
Statistics
Matches: 503, Mismatches: 60, Indels: 14
0.87 0.10 0.02
Matches are distributed among these distances:
53 95 0.19
54 402 0.80
55 6 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAG
Found at i:30371397 original size:27 final size:25
Alignment explanation
Indices: 30371330--30371389 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
30371320 GGATATTTGG
*
30371330 GTAATTTTATAAACTGGGGGTACTTTG
1 GTAA-TTT-TAAACTGGGGGTACTTTA
30371357 GTAATTTTACAACTGGGGGTA-TTTCA
1 GTAATTTTA-AACTGGGGGTACTTT-A
30371383 GTAATTT
1 GTAATTT
30371390 GGTAAACTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.17
26 21 0.70
27 4 0.13
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (25 bp):
GTAATTTTAAACTGGGGGTACTTTA
Found at i:30374403 original size:15 final size:16
Alignment explanation
Indices: 30374383--30374412 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30374373 TAATTTGTAA
30374383 AAATGGG-AAAATAAT
1 AAATGGGTAAAATAAT
30374398 AAATGGGTAAAATAA
1 AAATGGGTAAAATAA
30374413 AAAAAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (16 bp):
AAATGGGTAAAATAAT
Found at i:30382343 original size:17 final size:18
Alignment explanation
Indices: 30382309--30382344 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
30382299 TTTTAACTTT
*
30382309 TTTAATTAAATTATAATA
1 TTTAATTAAATTAGAATA
30382327 TTTAATT-AATTAGAATA
1 TTTAATTAAATTAGAATA
30382344 T
1 T
30382345 GTGATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTAATTAAATTAGAATA
Found at i:30382351 original size:17 final size:17
Alignment explanation
Indices: 30382311--30382353 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
30382301 TTAACTTTTT
* *
30382311 TAATTAAATTATAATATT
1 TAATT-AATTAGAATATG
30382329 TAATTAATTAGAATATG
1 TAATTAATTAGAATATG
*
30382346 TGATTAAT
1 TAATTAAT
30382354 AATGCTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (17 bp):
TAATTAATTAGAATATG
Found at i:30385238 original size:9 final size:9
Alignment explanation
Indices: 30385224--30385257 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
30385214 AATGATTATC
30385224 TAATAATAT
1 TAATAATAT
30385233 TAATAATAT
1 TAATAATAT
30385242 TAATAATAT
1 TAATAATAT
*
30385251 CAATAAT
1 TAATAAT
30385258 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (9 bp):
TAATAATAT
Found at i:30386577 original size:52 final size:50
Alignment explanation
Indices: 30386486--30386614 Score: 168
Period size: 52 Copynumber: 2.5 Consensus size: 50
30386476 GTGAGAACAA
* * **
30386486 ATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGG--TTAGGTCAC
* * * *
30386538 GTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCGC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTAGGTCAC
30386588 ATGTGTAGTACTAAGTGCAGGCTACTA
1 ATGTGTAGTACTAAGTGCAGGCTACTA
30386615 TGCATACCCG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
50 33 0.49
52 34 0.51
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (50 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTAGGTCAC
Found at i:30386604 original size:50 final size:51
Alignment explanation
Indices: 30386486--30386711 Score: 172
Period size: 51 Copynumber: 4.4 Consensus size: 51
30386476 GTGAGAACAA
* * **
30386486 ATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGG-TTTAGGTCAC
* * * *
30386538 GTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAAATGG-TTAGGTCGC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGTCAC
* ** *** * *
30386588 ATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGCTTT-GATCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAAT-GGTTTAGGTCAC
* * * *
30386639 ATGTGTGGTACTAAGTGCAGGCCACTATGTGTA-AAAGATAGCTTT-GGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAA-AT-GGTTTAGGTCAC
* * * *
30386690 AAGTGTGGTACTATGTGAAGGC
1 ATGTGTAGTACTAAGTGCAGGC
30386712 CACTTTGTGA
Statistics
Matches: 142, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
50 40 0.28
51 66 0.46
52 36 0.25
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (51 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGTCAC
Found at i:30386653 original size:51 final size:51
Alignment explanation
Indices: 30386587--30386765 Score: 166
Period size: 51 Copynumber: 3.5 Consensus size: 51
30386577 GGTTAGGTCG
* * ***
30386587 CATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGCTTTGATCA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGCATAAAAGATAGCTTTGATCA
** *
30386638 CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGCATAAAAGATAGCTTTGATCA
* * * * *
30386689 CAAGTGTGGTACTATGTGAAGGCCACTTTG--TGAAGAAGGTAGCTTTGA-CTA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGCAT-AA-AAGATAGCTTTGATC-A
* * *
30386740 CAAGGGTGGTACTATGTGCAGGCCAC
1 CATGTGTGGTACTAAGTGCAGGCCAC
30386766 CGGGCATCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 3 0.03
51 105 0.96
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (51 bp):
CATGTGTGGTACTAAGTGCAGGCCACTATGCATAAAAGATAGCTTTGATCA
Found at i:30389968 original size:32 final size:33
Alignment explanation
Indices: 30389889--30390001 Score: 167
Period size: 33 Copynumber: 3.5 Consensus size: 33
30389879 TACCTAAATG
* *
30389889 GTACAACTGGAAAAGGAAATGTACACTGTGTGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
30389922 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* *
30389955 GTAC-ACTTGAAAAGGAAATGTACGCCTTGTGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
30389987 GTACAA-TGTGAAAAG
1 GTACAACT-TGAAAAG
30390002 TGGTAGATTC
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
32 31 0.42
33 43 0.58
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (33 bp):
GTACAACTTGAAAAGGAAATGTACACTTTGTGT
Found at i:30390031 original size:31 final size:31
Alignment explanation
Indices: 30389994--30390141 Score: 197
Period size: 31 Copynumber: 4.8 Consensus size: 31
30389984 TGTGTACAAT
* * *
30389994 GTGAAAAGTGGTAGATTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTCCGGCTACCTGATCA
*
30390025 GTGAAAAGTGGTAGCTCCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTCCGGCTACCTGATCA
*
30390056 GTGAAAAGTGGTAGCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTCCGGCTACCTGATCA
* *
30390087 GTGAAAAGTGATAGCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTCCGGCTACCTGATCA
* * * *
30390118 GTGAATATTGGTATCTTCGGCTAC
1 GTGAAAAGTGGTAGCTCCGGCTAC
30390142 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTCCGGCTACCTGATCA
Found at i:30390294 original size:27 final size:27
Alignment explanation
Indices: 30390231--30390295 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
30390221 TAGTTGAACT
* *
30390231 ATGGCAAAGCGATAAAGTGTGCCAATC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
30390258 ATGGCAAAGTGATATAGTGTGCCAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
30390285 ATGGCAAAGTG
1 ATGGCAAAGTG
30390296 TTCAGTGATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:30390360 original size:56 final size:56
Alignment explanation
Indices: 30390284--30390408 Score: 216
Period size: 56 Copynumber: 2.2 Consensus size: 56
30390274 GTGTGCCAAA
*
30390284 CATGGCAAAGTGTTCAGTGATCAGTGATGAATTGATGGATAAGACCATAGTTGGA-C
1 CATGGCAAAGTGTTCAGTGATCAGTGATGAATTGACGGATAAGACCATAGTT-GATC
*
30390340 CATGGCAAAGTGTTCAGTGATCAGTGATGAATTGACGGATAAGACCATGGTTGATC
1 CATGGCAAAGTGTTCAGTGATCAGTGATGAATTGACGGATAAGACCATAGTTGATC
30390396 CATGGCAAAGTGT
1 CATGGCAAAGTGT
30390409 GAAACGTAGA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
55 2 0.03
56 64 0.97
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (56 bp):
CATGGCAAAGTGTTCAGTGATCAGTGATGAATTGACGGATAAGACCATAGTTGATC
Found at i:30394275 original size:53 final size:53
Alignment explanation
Indices: 30394194--30394309 Score: 173
Period size: 53 Copynumber: 2.2 Consensus size: 53
30394184 GACGAAAAAT
* *
30394194 ATGTGATAA-GTGCACCCGTTTAAGACCATAGCTGGGCTATGACATCGGTGCA
1 ATGTGATAATGTGCACCCGTATAAGACCATAGCTGGGCTATGACATCGGTACA
* *
30394246 ATGTGATAATGTG-ACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGCAC-CCGTATAAGACCATAGCTGGGCTATGACATCGGTACA
30394299 ATGTGATAATG
1 ATGTGATAATG
30394310 AAGCACTCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
52 11 0.19
53 47 0.81
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (53 bp):
ATGTGATAATGTGCACCCGTATAAGACCATAGCTGGGCTATGACATCGGTACA
Found at i:30401171 original size:53 final size:53
Alignment explanation
Indices: 30401105--30401205 Score: 175
Period size: 53 Copynumber: 1.9 Consensus size: 53
30401095 ATAAGTGCGC
* *
30401105 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
*
30401158 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATG
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATG
30401206 AAGCACTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
Found at i:30406100 original size:53 final size:53
Alignment explanation
Indices: 30406034--30406134 Score: 166
Period size: 53 Copynumber: 1.9 Consensus size: 53
30406024 ATAAGTGCGC
* * *
30406034 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCAGTACAATGTGATAATGTGACT
*
30406087 CCGTATAAGACCATAGCTGGGCTATGGCATCAGTATAATGTGATAATG
1 CCGTATAAGACCATAGCTGGGCTATGGCATCAGTACAATGTGATAATG
30406135 AAGCACTCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCAGTACAATGTGATAATGTGACT
Found at i:30409411 original size:30 final size:30
Alignment explanation
Indices: 30409365--30409424 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
30409355 TTCCCGAACC
*
30409365 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* * *
30409395 TAGGGGTAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
30409425 CATATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:30411399 original size:60 final size:61
Alignment explanation
Indices: 30411297--30411434 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 61
30411287 GAACATCAGC
* * * ** ** *
30411297 ATTTGGAACATCTTCGATATGAAGAGTTGACATGTCACATTGTGTCGAATTCGAAATAG-A
1 ATTTGGAACATATTCTATATGAAAAGTTGACACATCACATTGTACCGAAGTCGAAATAGTA
* * * * *
30411357 ATTTGGAACATTTTCTATCTGAAAAGTTGGCACATCATATTGTACCGGAGTCGAAATAGTA
1 ATTTGGAACATATTCTATATGAAAAGTTGACACATCACATTGTACCGAAGTCGAAATAGTA
30411418 A-TTGGAACATATTCTAT
1 ATTTGGAACATATTCTAT
30411435 TGGGGATTGA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 62 0.97
61 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (61 bp):
ATTTGGAACATATTCTATATGAAAAGTTGACACATCACATTGTACCGAAGTCGAAATAGTA
Found at i:30424185 original size:31 final size:31
Alignment explanation
Indices: 30424147--30424211 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
30424137 ATACAGTACA
30424147 TTCTATATGCTACTTATTGCTTTTTCGGGTT
1 TTCTATATGCTACTTATTGCTTTTTCGGGTT
30424178 TTCTATATGCTACTTATTGCTTTTTCGGGTT
1 TTCTATATGCTACTTATTGCTTTTTCGGGTT
30424209 TTC
1 TTC
30424212 CTTGTGCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.12, C:0.17, G:0.15, T:0.55
Consensus pattern (31 bp):
TTCTATATGCTACTTATTGCTTTTTCGGGTT
Found at i:30428050 original size:47 final size:46
Alignment explanation
Indices: 30427976--30428124 Score: 141
Period size: 47 Copynumber: 3.2 Consensus size: 46
30427966 GGGAGTTTAG
*
30427976 CGTGCTCTCTGAT-TATTAGCACATCAGTGCTCTCTGTTTAGCACAT
1 CGTGCTCTCTGATAT-TTAGCACGTCAGTGCTCTCTGTTTAGCACAT
30428022 CGGTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGAATATTAG--CA-
1 C-GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTG--T-TTAGCACAT
* * *
30428069 C--GCTCTCTGATCA-CTAGCACGTTAGTGCTCTCCGTTTAGCACATT
1 CGTGCTCTCTGAT-ATTTAGCACGTCAGTGCTCTCTGTTTAGCACA-T
*
30428114 TGTGCTCTCTG
1 CGTGCTCTCTG
30428125 TACAGTCCCG
Statistics
Matches: 86, Mismatches: 5, Indels: 23
0.75 0.04 0.20
Matches are distributed among these distances:
41 4 0.05
42 1 0.01
43 2 0.02
44 28 0.33
45 1 0.01
46 1 0.01
47 41 0.48
48 3 0.03
49 1 0.01
50 4 0.05
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (46 bp):
CGTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGTTTAGCACAT
Found at i:30428070 original size:25 final size:24
Alignment explanation
Indices: 30427977--30428069 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 24
30427967 GGAGTTTAGC
30427977 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGA-TATTAGCACATCA
*
30428002 GTGCTCTCTG-T-TTAGCACATCG
1 GTGCTCTCTGATATTAGCACATCA
*
30428024 GTGCTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTGATA-TTAGCACATCA
30428049 GTGCTCTCTGAATATTAGCAC
1 GTGCTCTCTG-ATATTAGCAC
30428070 GCTCTCTGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
22 20 0.33
23 2 0.03
25 36 0.59
26 3 0.05
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (24 bp):
GTGCTCTCTGATATTAGCACATCA
Found at i:30428086 original size:19 final size:19
Alignment explanation
Indices: 30428051--30428089 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30428041 GCACGTCAGT
*
30428051 GCTCTCTGAATATTAGCAC
1 GCTCTCTGAATACTAGCAC
30428070 GCTCTCTG-ATCACTAGCAC
1 GCTCTCTGAAT-ACTAGCAC
30428089 G
1 G
30428090 TTAGTGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (19 bp):
GCTCTCTGAATACTAGCAC
Found at i:30429027 original size:13 final size:13
Alignment explanation
Indices: 30429009--30429036 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30428999 CGATTTTCTC
30429009 TGGGTATTCTATA
1 TGGGTATTCTATA
30429022 TGGGTATTCTATA
1 TGGGTATTCTATA
30429035 TG
1 TG
30429037 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:30429358 original size:24 final size:26
Alignment explanation
Indices: 30429316--30429370 Score: 96
Period size: 24 Copynumber: 2.2 Consensus size: 26
30429306 ACGTACAAGT
30429316 GATATTCTTCTTTGGATTTTCTCTGG
1 GATATTCTTCTTTGGATTTTCTCTGG
30429342 GATATTC-T-TTTGGATTTTCTCTGG
1 GATATTCTTCTTTGGATTTTCTCTGG
30429366 GATAT
1 GATAT
30429371 CATCGATCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 21 0.72
25 1 0.03
26 7 0.24
ACGTcount: A:0.15, C:0.13, G:0.20, T:0.53
Consensus pattern (26 bp):
GATATTCTTCTTTGGATTTTCTCTGG
Found at i:30430966 original size:2 final size:2
Alignment explanation
Indices: 30430959--30431038 Score: 54
Period size: 2 Copynumber: 44.0 Consensus size: 2
30430949 TATTCAGTTA
*
30430959 AT AT AT AT AT AT AT AT AT AT AT GT A- AGT A- AT GAT -T AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT AT AT AT
*
30430999 -T A- AT AT -T TT AT AT -T AT AT -T AT AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30431035 AT AT
1 AT AT
30431039 GACAAAGAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
1 10 0.16
2 50 0.79
3 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (2 bp):
AT
Found at i:30431104 original size:40 final size:40
Alignment explanation
Indices: 30431047--30431141 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
30431037 ATGACAAAGA
30431047 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
30431088 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
30431128 AAGGAAGGAAGAAA
1 AAGAAAGAAAGAAA
30431142 GAAAGAAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 43 0.88
41 6 0.12
ACGTcount: A:0.63, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:30432392 original size:38 final size:39
Alignment explanation
Indices: 30432284--30432392 Score: 89
Period size: 38 Copynumber: 2.8 Consensus size: 39
30432274 GACCTTGAGT
* **
30432284 CGATGAGACACTGGGTGTC-ACTAATTTCTTCGGATAGATT
1 CGATGAGA-ACTGGGTGTCAACT-ATTACTTCGGATAGAGC
* ** * *
30432324 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCT-GGGC
1 CGATGA-GAACTGGGTGTCAACTATTACTTCGGATAGAGC
*
30432362 CGATGAGAACTGGGTGTCAACTATTGCTTCG
1 CGATGAGAACTGGGTGTCAACTATTACTTCG
30432393 AACTATCCGA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
37 13 0.24
38 14 0.26
39 9 0.17
40 14 0.26
41 4 0.07
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (39 bp):
CGATGAGAACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:30451746 original size:27 final size:27
Alignment explanation
Indices: 30451709--30451760 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
30451699 TTTTAAATAG
*
30451709 TTTTTATTATTTTTGA-AAATTTTAACT
1 TTTTTAATATTTTT-ATAAATTTTAACT
30451736 TTTTTAATATTTTTATAAATTTTAA
1 TTTTTAATATTTTTATAAATTTTAA
30451761 TAATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTTTAATATTTTTATAAATTTTAACT
Found at i:30451766 original size:36 final size:36
Alignment explanation
Indices: 30451693--30451767 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
30451683 ATTCTGAACA
* *
30451693 TTTAACTTTTAAATAGTTTTTATTATTTTTGAAAAT
1 TTTAACTTTTAAATAGTTTTTATAAATTTTGAAAAT
*
30451729 TTTAACTTTTTTAATA-TTTTTATAAATTTT-AATAAT
1 TTTAAC-TTTTAAATAGTTTTTATAAATTTTGAA-AAT
30451765 TTT
1 TTT
30451768 TTTTACAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 2 0.06
36 24 0.71
37 8 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (36 bp):
TTTAACTTTTAAATAGTTTTTATAAATTTTGAAAAT
Found at i:30457972 original size:40 final size:40
Alignment explanation
Indices: 30457910--30458004 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
30457900 CTTTTCTTTC
* *
30457910 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
30457951 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
30457991 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
30458005 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:30459709 original size:12 final size:12
Alignment explanation
Indices: 30459694--30459733 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
30459684 GATATCCCAG
30459694 AGAAAATCCAAA
1 AGAAAATCCAAA
* * *
30459706 AGAATATCCCAG
1 AGAAAATCCAAA
30459718 AGAAAATCCAAA
1 AGAAAATCCAAA
30459730 AGAA
1 AGAA
30459734 GAATATCACT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.60, C:0.17, G:0.12, T:0.10
Consensus pattern (12 bp):
AGAAAATCCAAA
Found at i:30459717 original size:24 final size:24
Alignment explanation
Indices: 30459685--30459733 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
30459675 GAGATCGATG
30459685 ATATCCCAGAGAAAATCCAAAAGA
1 ATATCCCAGAGAAAATCCAAAAGA
30459709 ATATCCCAGAGAAAATCCAAAAGA
1 ATATCCCAGAGAAAATCCAAAAGA
30459733 A
1 A
30459734 GAATATCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.20, G:0.12, T:0.12
Consensus pattern (24 bp):
ATATCCCAGAGAAAATCCAAAAGA
Found at i:30460044 original size:13 final size:13
Alignment explanation
Indices: 30460026--30460053 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30460016 GATAAAAGAG
30460026 CATATAGAATACC
1 CATATAGAATACC
30460039 CATATAGAATACC
1 CATATAGAATACC
30460052 CA
1 CA
30460054 GAAGAAATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:30461071 original size:22 final size:24
Alignment explanation
Indices: 30461007--30461099 Score: 118
Period size: 25 Copynumber: 3.8 Consensus size: 24
30460997 ATCAGAGAGC
* *
30461007 GTGCTAATATTCAGAGAGCACTGAC
1 GTGCTAA-AATCAGAGAGCACTGAT
*
30461032 GTGCTAAATATCAGAGAGCACCGAT
1 GTGCTAAA-ATCAGAGAGCACTGAT
30461057 GTGCT-AAA-CAGAGAGCACTGAT
1 GTGCTAAAATCAGAGAGCACTGAT
30461079 GTGCTAATAATCAGAGAGCAC
1 GTGCTAA-AATCAGAGAGCAC
30461100 GCTAAACTCC
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
22 18 0.30
23 2 0.03
24 5 0.08
25 35 0.58
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (24 bp):
GTGCTAAAATCAGAGAGCACTGAT
Found at i:30464446 original size:40 final size:40
Alignment explanation
Indices: 30464384--30464478 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
30464374 CTTTTCTTTC
* *
30464384 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
30464425 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
30464465 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
30464479 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:30464495 original size:2 final size:2
Alignment explanation
Indices: 30464488--30464523 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
30464478 TTTCTTTGTC
30464488 AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30464524 AAATATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.10
2 28 0.90
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:30471334 original size:44 final size:45
Alignment explanation
Indices: 30471280--30471406 Score: 159
Period size: 45 Copynumber: 2.8 Consensus size: 45
30471270 GAATCCAAAA
* * *
30471280 ATCTCATCTCCCTGAAGTAGCAGTGGAACAGATTGAAG-TTGTAG
1 ATCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGATGGTAG
* * * *
30471324 ATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATGGTGG
1 ATCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGATGGTAG
*
30471369 ATCTTATCTTCCTGAAGTTA-CAGTGGAGCAGATTGAAG
1 ATCTTATCTCCCTGAAG-TAGCAGTGGAGCAGATTGAAG
30471407 CCACCAGCCT
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 33 0.47
45 36 0.51
46 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGATGGTAG
Found at i:30471630 original size:143 final size:143
Alignment explanation
Indices: 30471368--30471967 Score: 687
Period size: 143 Copynumber: 4.2 Consensus size: 143
30471358 GAAGATGGTG
* *
30471368 GATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTA-TCTCTCTAAAGTT
1 GATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATTTTCT-TGAAGTT
** * * *
30471432 GCAGTGGAGCAGACTGAAGAAAGCGAATCTTAGTTCCCT-GAAGTTGCAGTGGAACAGATTAAAG
65 GCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCA-TTGCAGTGGAACAGATTAAAG
*
30471496 TTACAAATTATGGCA
129 CTACAAATTATGGCA
* * * * * *
30471511 GATTTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGCCACCAACCTTATTTTCTTGAAGTTA
1 GATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATTTTCTTGAAGTTG
* * * * * *
30471576 CAGCAGAGCAAATTAAAGACAGTC-AATCTTATTTCCCTGGCATCGCAATGGAACAGATTGAAGC
66 CAGCAGAGCAGACTGAAGACAG-CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGC
30471640 TACAAATTATGGCA
130 TACAAATTATGGCA
* * * * * * *
30471654 AATCTTATCTTCCTGAAGTTGCAATAGAGCAGATTGAAGCCACTAGCCTTATCTTCCTGAAGTTG
1 GATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATTTTCTTGAAGTTG
* * *
30471719 CAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGTAGTGGAACAGATTAAAGCT
66 CAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCT
*
30471784 ACAAATTATGGCG
131 ACAAATTATGGCA
*
30471797 GATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCATCAGCCTT-TTCTTCTTGAAGTT
1 GATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATT-TTCTTGAAGTT
* * * * * ** * *
30471861 GCAGCGGAGTAGACTGAAGATAGCGGATCTTATTTTCCT-AAAGTTACAGTGGAACAGATTGAAG
65 GCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCA-TTGCAGTGGAACAGATTAAAG
*
30471925 CTACAAGTTA---CA
129 CTACAAATTATGGCA
* *
30471937 GATCTTATC-TCTCTAAAGTTACAGTAGAGCA
1 GATCTTATCTTC-CTGAAGTTACAGTGGAGCA
30471968 AGTCAAAGCC
Statistics
Matches: 387, Mismatches: 63, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
139 2 0.01
140 27 0.07
142 3 0.01
143 348 0.90
144 7 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (143 bp):
GATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATTTTCTTGAAGTTG
CAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCT
ACAAATTATGGCA
Found at i:30471893 original size:286 final size:286
Alignment explanation
Indices: 30471369--30471967 Score: 764
Period size: 286 Copynumber: 2.1 Consensus size: 286
30471359 AAGATGGTGG
* *
30471369 ATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCTCTAAAGTTGC
1 ATCTTATCTTCCTGAAGTTACAATAGAGCAGATTGAAGCCACCAGCCTTATCTCTCTAAAGTTGC
** *
30471434 AGTGGAGCAGACTGAAGAAAGCGAATCTTAGTTCCCTGAAGTTGCAGTGGAACAGATTAAAGTTA
66 AGCAGAGCAGACTGAAGAAAGCGAATCTTAGTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
* * *
30471499 CAAATTATGGCAGATTTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGCCACCAACCTTATT
131 CAAATTATGGCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAACCTTATT
* ** *
30471564 TTCTTGAAGTTACAGCAGAGCAAATTAAAGACAGTCAATCTTATTTCCCTGGCA-TCGCAATGGA
196 TTCTTGAAGTTACAGCAGAGCAAACTAAAGACAGTCAATCTTATTTCCCT-AAAGTCACAATGGA
30471628 ACAGATTGAAGCTACAAATTATGGCAA
260 ACAGATTGAAGCTACAAATTATGGCAA
* * *
30471655 ATCTTATCTTCCTGAAGTTGCAATAGAGCAGATTGAAGCCACTAGCCTTATCT-TCCTGAAGTTG
1 ATCTTATCTTCCTGAAGTTACAATAGAGCAGATTGAAGCCACCAGCCTTATCTCT-CTAAAGTTG
* * * *
30471719 CAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGTAGTGGAACAGATTAAAGCT
65 CAGCAGAGCAGACTGAAGAAAGCGAATCTTAGTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCT
* * * *
30471784 ACAAATTATGGCGGATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCATCAGCCTT-T
130 ACAAATTATGGCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAACCTTAT
* * * * * * * * * *
30471848 TCTTCTTGAAGTTGCAGCGGAGTAGACTGAAGATAG-CGGATCTTATTTTCCTAAAGTTACAGTG
195 T-TTCTTGAAGTTACAGCAGAGCAAACTAAAGACAGTC-AATCTTATTTCCCTAAAGTCACAATG
* *
30471912 GAACAGATTGAAGCTACAAGTTA---CAG
258 GAACAGATTGAAGCTACAAATTATGGCAA
* *
30471938 ATCTTATC-TCTCTAAAGTTACAGTAGAGCA
1 ATCTTATCTTC-CTGAAGTTACAATAGAGCA
30471968 AGTCAAAGCC
Statistics
Matches: 270, Mismatches: 38, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
282 2 0.01
283 26 0.10
285 5 0.02
286 237 0.88
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (286 bp):
ATCTTATCTTCCTGAAGTTACAATAGAGCAGATTGAAGCCACCAGCCTTATCTCTCTAAAGTTGC
AGCAGAGCAGACTGAAGAAAGCGAATCTTAGTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
CAAATTATGGCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAACCTTATT
TTCTTGAAGTTACAGCAGAGCAAACTAAAGACAGTCAATCTTATTTCCCTAAAGTCACAATGGAA
CAGATTGAAGCTACAAATTATGGCAA
Found at i:30471924 original size:45 final size:45
Alignment explanation
Indices: 30471794--30471924 Score: 122
Period size: 44 Copynumber: 2.9 Consensus size: 45
30471784 ACAAATTATG
* *
30471794 GCGGATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCA
1 GCGGATCTTATTTTCCTGAAGTTACAGTGGAGCAGATTGAAGACA
* * * * * * * * *
30471839 TCAG-CCTT-TTCTTCTTGAAGTTGCAGCGGAGTAGACTGAAGATA
1 GCGGATCTTATT-TTCCTGAAGTTACAGTGGAGCAGATTGAAGACA
* *
30471883 GCGGATCTTATTTTCCTAAAGTTACAGTGGAACAGATTGAAG
1 GCGGATCTTATTTTCCTGAAGTTACAGTGGAGCAGATTGAAG
30471925 CTACAAGTTA
Statistics
Matches: 62, Mismatches: 21, Indels: 6
0.70 0.24 0.07
Matches are distributed among these distances:
43 1 0.02
44 31 0.50
45 28 0.45
46 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (45 bp):
GCGGATCTTATTTTCCTGAAGTTACAGTGGAGCAGATTGAAGACA
Found at i:30472093 original size:95 final size:95
Alignment explanation
Indices: 30471854--30472104 Score: 220
Period size: 95 Copynumber: 2.6 Consensus size: 95
30471844 CTTTTCTTCT
*** * * *
30471854 TGAAGTTGCAGCGGAGTAGACTGAAGA-TAGCGGATCTTATTT-TCCTAAAGTTACAGTGGAACA
1 TGAAGTTGCAGCGGAGTAGACTGAA-ACTATAAG-TCTTATTTCT-CTGAAGTTGCAGTGGAGCA
* * * *
30471917 GATTGAAGCTACAAGTTACAGATCTTATCTCTC
63 GATTGAAGCTACAAGTTACAAATCTCATATCCC
* * ** * * * * ** ** *
30471950 TAAAGTTACAGTAGAGCA-AGTCAAAGCCATAAACCTTATCACTTTGAAGTTGCAGTGGAGCAGA
1 TGAAGTTGCAGCGGAGTAGACTGAAA-CTATAAGTCTTATTTCTCTGAAGTTGCAGTGGAGCAGA
30472014 TTGAAGCTACAAGTTACAAATCTCATATCCC
65 TTGAAGCTACAAGTTACAAATCTCATATCCC
* *
30472045 TGAAGTTGCAGCGGAGTAGATTGAAACTATAAGTCTTATTTCTCTGAAGTTGCGGTGGAG
1 TGAAGTTGCAGCGGAGTAGACTGAAACTATAAGTCTTATTTCTCTGAAGTTGCAGTGGAG
30472105 TGGATCAAAG
Statistics
Matches: 114, Mismatches: 37, Indels: 9
0.71 0.23 0.06
Matches are distributed among these distances:
94 1 0.01
95 93 0.82
96 20 0.18
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (95 bp):
TGAAGTTGCAGCGGAGTAGACTGAAACTATAAGTCTTATTTCTCTGAAGTTGCAGTGGAGCAGAT
TGAAGCTACAAGTTACAAATCTCATATCCC
Found at i:30472319 original size:14 final size:14
Alignment explanation
Indices: 30472300--30472333 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30472290 TAAGCAAACC
30472300 CAAACCAAACCCAA
1 CAAACCAAACCCAA
*
30472314 CAAACCAAGCCCAA
1 CAAACCAAACCCAA
30472328 CTAAAC
1 C-AAAC
30472334 TAAATCTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.53, C:0.41, G:0.03, T:0.03
Consensus pattern (14 bp):
CAAACCAAACCCAA
Found at i:30472715 original size:45 final size:45
Alignment explanation
Indices: 30472651--30472743 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
30472641 AGGAGATTGA
30472651 TTCGAATAATAAAGGTTATCATCTTTTTCATTTTTTTCTTTATAT
1 TTCGAATAATAAAGGTTATCATCTTTTTCATTTTTTTCTTTATAT
*
30472696 TTCGAATAATGAAGGTTATCATCTTTTTCATTTTTTTCTTTATAT
1 TTCGAATAATAAAGGTTATCATCTTTTTCATTTTTTTCTTTATAT
30472741 TTC
1 TTC
30472744 TTCTTCGAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.56
Consensus pattern (45 bp):
TTCGAATAATAAAGGTTATCATCTTTTTCATTTTTTTCTTTATAT
Found at i:30473444 original size:3 final size:3
Alignment explanation
Indices: 30473436--30473511 Score: 91
Period size: 3 Copynumber: 25.7 Consensus size: 3
30473426 TAATTTTAAC
* * * * *
30473436 ATT ATT ATT ATT ATT -TT ACT ATT ATA ATT TTT ATT ATT AAT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
30473483 ATC ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
30473512 AATACTATTA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:30475165 original size:13 final size:13
Alignment explanation
Indices: 30475147--30475171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30475137 ACAAACTTTT
30475147 TATTTTTAATATA
1 TATTTTTAATATA
30475160 TATTTTTAATAT
1 TATTTTTAATAT
30475172 TTTATCTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTTAATATA
Found at i:30478160 original size:27 final size:27
Alignment explanation
Indices: 30478109--30478162 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
30478099 GACGATAGTG
* *
30478109 ACGACGACAATGATGAGGCTGGCGGCA
1 ACGACGACAATGATGAGGATAGCGGCA
* *
30478136 ACGACGACAATGATTATGATAGCGGCA
1 ACGACGACAATGATGAGGATAGCGGCA
30478163 GTGACAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.31, T:0.15
Consensus pattern (27 bp):
ACGACGACAATGATGAGGATAGCGGCA
Found at i:30478277 original size:18 final size:18
Alignment explanation
Indices: 30478228--30478278 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
30478218 CAGAGACAAC
30478228 GACAACAATGACGATGGT
1 GACAACAATGACGATGGT
* * **
30478246 GGCAATAACAACGA-GGAT
1 GACAACAATGACGATGG-T
30478264 GACAACAATGACGAT
1 GACAACAATGACGAT
30478279 AACAACTATG
Statistics
Matches: 23, Mismatches: 8, Indels: 3
0.68 0.24 0.09
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.14
Consensus pattern (18 bp):
GACAACAATGACGATGGT
Found at i:30487419 original size:12 final size:12
Alignment explanation
Indices: 30487402--30487436 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
30487392 TGGATTTGGA
30487402 CGACAGTGACAG
1 CGACAGTGACAG
30487414 CGACAGTGACAG
1 CGACAGTGACAG
*
30487426 CGACAATGACA
1 CGACAGTGACA
30487437 ATGACGACGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.37, C:0.26, G:0.29, T:0.09
Consensus pattern (12 bp):
CGACAGTGACAG
Found at i:30488784 original size:20 final size:20
Alignment explanation
Indices: 30488759--30488812 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
30488749 TCTCTCTCAA
30488759 CAAAAATTACAAATAATTTT
1 CAAAAATTACAAATAATTTT
30488779 CAAAAA-TACAAAGTAATTTT
1 CAAAAATTACAAA-TAATTTT
* *
30488799 -TAAAATTCCAAATA
1 CAAAAATTACAAATA
30488813 TTTATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (20 bp):
CAAAAATTACAAATAATTTT
Found at i:30488861 original size:20 final size:20
Alignment explanation
Indices: 30488828--30488867 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30488818 AAAAAAATTC
*
30488828 AAATTTTATATTTTTTAAAA
1 AAATTATATATTTTTTAAAA
*
30488848 AAATTATATTTTTTTTAAAA
1 AAATTATATATTTTTTAAAA
30488868 TTCTAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATTATATATTTTTTAAAA
Found at i:30490935 original size:40 final size:40
Alignment explanation
Indices: 30490880--30490975 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
30490870 GGCCAACCCA
* *
30490880 TGTGGCCCACACGGCCTAACACACGACCTACACATGCTTG
1 TGTGGCCCACACGGCCTAACACACAACATACACATGCTTG
* **
30490920 TGTGGCCCACTCGGCCTAACACACAACATACACATGCCCG
1 TGTGGCCCACACGGCCTAACACACAACATACACATGCTTG
* *
30490960 TGTGGTCCACATGGCC
1 TGTGGCCCACACGGCC
30490976 CAAATAGCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.24, C:0.38, G:0.21, T:0.18
Consensus pattern (40 bp):
TGTGGCCCACACGGCCTAACACACAACATACACATGCTTG
Found at i:30493603 original size:24 final size:25
Alignment explanation
Indices: 30493566--30493614 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
30493556 TTTTATTCTT
* *
30493566 AAAAATTTAGAAATAACAATTTTAA
1 AAAAATTTAGAAATAAAAAGTTTAA
30493591 AAAAATTTA-AAATAAAAAGTTTAA
1 AAAAATTTAGAAATAAAAAGTTTAA
30493615 TGGTTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (25 bp):
AAAAATTTAGAAATAAAAAGTTTAA
Found at i:30493796 original size:33 final size:34
Alignment explanation
Indices: 30493721--30493788 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
30493711 TTATAAGTAA
30493721 AATAG-TTTTTTTTAAAACCCACAAACAAGATTT
1 AATAGTTTTTTTTTAAAACCCACAAACAAGATTT
30493754 AATAGTTTTTTTTTAAAACCCACAAACAAGATTT
1 AATAGTTTTTTTTTAAAACCCACAAACAAGATTT
30493788 A
1 A
30493789 CTTTTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 5 0.15
34 29 0.85
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.37
Consensus pattern (34 bp):
AATAGTTTTTTTTTAAAACCCACAAACAAGATTT
Found at i:30504459 original size:17 final size:18
Alignment explanation
Indices: 30504431--30504466 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
30504421 AAATTTGAAA
30504431 TTTTTATGTTTTAAATTT
1 TTTTTATGTTTTAAATTT
*
30504449 TTTTTAT-TTTTGAATTT
1 TTTTTATGTTTTAAATTT
30504466 T
1 T
30504467 AAAGAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (18 bp):
TTTTTATGTTTTAAATTT
Found at i:30506481 original size:20 final size:21
Alignment explanation
Indices: 30506453--30506491 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30506443 GTGCATGGGT
*
30506453 GCAATTTC-AGCTTTACAACA
1 GCAAGTTCAAGCTTTACAACA
*
30506473 GCAAGTTCAATCTTTACAA
1 GCAAGTTCAAGCTTTACAA
30506492 GCTGAACTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (21 bp):
GCAAGTTCAAGCTTTACAACA
Found at i:30511731 original size:25 final size:25
Alignment explanation
Indices: 30511697--30511754 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
30511687 CTAAGAAAGT
* *
30511697 TTTATAGAGAG-CTCACCAAAAATCC
1 TTTACAGAGAGTCT-ACCAAAAAGCC
* *
30511722 TTTACAGAGAGTCTACCACAAAGGC
1 TTTACAGAGAGTCTACCAAAAAGCC
30511747 TTTACAGA
1 TTTACAGA
30511755 ATATTAGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (25 bp):
TTTACAGAGAGTCTACCAAAAAGCC
Found at i:30511766 original size:25 final size:25
Alignment explanation
Indices: 30511737--30511873 Score: 102
Period size: 25 Copynumber: 5.5 Consensus size: 25
30511727 AGAGAGTCTA
30511737 CCACAAAGGCTTTACAGAATATTAG
1 CCACAAAGGCTTTACAGAATATTAG
* * *
30511762 TCACAAAGGTTTTACAG-ATAGCTCA-
1 CCACAAAGGCTTTACAGAATA--TTAG
* * *
30511787 CCAAAAAGGCTTTACAAAATATTCG
1 CCACAAAGGCTTTACAGAATATTAG
* * * * **
30511812 CCATAAAGGCTTTATA-AAGAAGTCC
1 CCACAAAGGCTTTACAGAA-TATTAG
30511837 CCACAAAGGCTTTACAGAATATTCA-
1 CCACAAAGGCTTTACAGAATATT-AG
30511862 CCACAAAGGCTT
1 CCACAAAGGCTT
30511874 GGTTTGGTTT
Statistics
Matches: 86, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
24 6 0.07
25 73 0.85
26 7 0.08
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (25 bp):
CCACAAAGGCTTTACAGAATATTAG
Found at i:30511797 original size:50 final size:49
Alignment explanation
Indices: 30511722--30511873 Score: 173
Period size: 50 Copynumber: 3.0 Consensus size: 49
30511712 CCAAAAATCC
*
30511722 TTTACAGAGAGTCTACCACAAAGGCTTTACAGAATATTAGTCACAAAGG-T
1 TTTACAGA-AGTC-ACCACAAAGGCTTTACAGAATATTAGCCACAAAGGCT
* * * *
30511772 TTTACAGATAGCTCACCAAAAAGGCTTTACAAAATATTCGCCATAAAGGCT
1 TTTACAGA-AG-TCACCACAAAGGCTTTACAGAATATTAGCCACAAAGGCT
* *
30511823 TTATAAAGAAGTCCCCACAAAGGCTTTACAGAATATTCA-CCACAAAGGCT
1 TT-TACAGAAGTCACCACAAAGGCTTTACAGAATATT-AGCCACAAAGGCT
30511873 T
1 T
30511874 GGTTTGGTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
50 74 0.86
51 7 0.08
52 5 0.06
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (49 bp):
TTTACAGAAGTCACCACAAAGGCTTTACAGAATATTAGCCACAAAGGCT
Found at i:30514438 original size:16 final size:16
Alignment explanation
Indices: 30514427--30514462 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
30514417 ATTATTTAAT
30514427 TAATATAATATTATAA
1 TAATATAATATTATAA
*
30514443 TAATATAATATAATAA
1 TAATATAATATTATAA
30514459 TAAT
1 TAAT
30514463 TTCTTAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATAATATTATAA
Found at i:30514518 original size:23 final size:21
Alignment explanation
Indices: 30514485--30514527 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
30514475 AAGTAATTAT
30514485 ATATATTTTACA-AGTGTATAC
1 ATATATTTTACACA-TGTATAC
30514506 ATATACTTATTACACATGTATA
1 ATATA-TT-TTACACATGTATA
30514528 TTATCATCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
22 2 0.11
23 11 0.58
24 1 0.05
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (21 bp):
ATATATTTTACACATGTATAC
Found at i:30517069 original size:16 final size:17
Alignment explanation
Indices: 30517029--30517069 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
30517019 TATAATTTTT
30517029 TATATGTTAAATATAAAG
1 TATAT-TTAAATATAAAG
30517047 T-TAATTTAAA-ATAAAG
1 TAT-ATTTAAATATAAAG
30517063 TATATTT
1 TATATTT
30517070 TTATTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
16 11 0.52
17 7 0.33
18 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (17 bp):
TATATTTAAATATAAAG
Found at i:30517960 original size:2 final size:2
Alignment explanation
Indices: 30517953--30517995 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
30517943 TACAAGTAAA
30517953 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
30517994 AG
1 AG
30517996 CGTAGAGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30520338 original size:17 final size:17
Alignment explanation
Indices: 30520305--30520337 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30520295 CCATTAGTCA
30520305 AAATGAAATAATATTTT
1 AAATGAAATAATATTTT
*
30520322 AAATGCAATAAT-TTTT
1 AAATGAAATAATATTTT
30520338 TTTTTTTGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
AAATGAAATAATATTTT
Found at i:30527636 original size:19 final size:19
Alignment explanation
Indices: 30527589--30527645 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 19
30527579 GATATTTTAT
*
30527589 ATTTAAAATCATTAAAAAA
1 ATTTAAAATCATAAAAAAA
30527608 ATTAAATAAAATCATAAAAAAA
1 ATT---TAAAATCATAAAAAAA
*
30527630 ATTTAAAATTATAAAA
1 ATTTAAAATCATAAAA
30527646 TATTGAAGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 15 0.45
22 18 0.55
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
ATTTAAAATCATAAAAAAA
Found at i:30527785 original size:15 final size:15
Alignment explanation
Indices: 30527765--30527811 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
30527755 TATAAACTAA
30527765 AAAATATAAATTATG
1 AAAATATAAATTATG
30527780 AAAATATGAAATT-TG
1 AAAATAT-AAATTATG
*
30527795 TAAAA-AAAAATTATG
1 -AAAATATAAATTATG
30527810 AA
1 AA
30527812 TTTATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.25
15 12 0.43
16 9 0.32
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.30
Consensus pattern (15 bp):
AAAATATAAATTATG
Found at i:30528284 original size:21 final size:20
Alignment explanation
Indices: 30528260--30528298 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
30528250 TCAATTTTAA
30528260 ATAATTATTAATATTTTTTTT
1 ATAATTATTAA-ATTTTTTTT
*
30528281 ATAATTTTTAAATTTTTT
1 ATAATTATTAAATTTTTT
30528299 ATAGTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATAATTATTAAATTTTTTTT
Found at i:30528403 original size:10 final size:10
Alignment explanation
Indices: 30528390--30528426 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
30528380 ATTCAAGATG
30528390 TAATTTTTAT
1 TAATTTTTAT
30528400 TAATTTTT-T
1 TAATTTTTAT
30528409 TAATTATTTA-
1 TAATT-TTTAT
30528419 TAATTTTT
1 TAATTTTT
30528427 GAAAGTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TAATTTTTAT
Found at i:30528422 original size:19 final size:19
Alignment explanation
Indices: 30528390--30528426 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
30528380 ATTCAAGATG
30528390 TAATTTTTATTAATTTTTT
1 TAATTTTTATTAATTTTTT
30528409 TAATTATTTA-TAATTTTT
1 TAATT-TTTATTAATTTTT
30528427 GAAAGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TAATTTTTATTAATTTTTT
Found at i:30530559 original size:21 final size:21
Alignment explanation
Indices: 30530459--30530558 Score: 119
Period size: 21 Copynumber: 4.8 Consensus size: 21
30530449 AAAGCTCGAA
*
30530459 AGCTAAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCATAAG
* *
30530480 AGCTGAACAAAAACTCATAAG
1 AGCTGAACAGAAGCTCATAAG
* *
30530501 AGTTGAACAGAAACTCATAAG
1 AGCTGAACAGAAGCTCATAAG
* * *
30530522 AGTTGAACAGAAGCTCGTAGG
1 AGCTGAACAGAAGCTCATAAG
*
30530543 AGCTAAACAGAAGCTC
1 AGCTGAACAGAAGCTC
30530559 GAAAAAACTA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 69 1.00
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCATAAG
Found at i:30530569 original size:21 final size:21
Alignment explanation
Indices: 30530527--30530575 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
30530517 ATAAGAGTTG
* ** *
30530527 AACAGAAGCTCGTAGGAGCTA
1 AACAGAAGCTCGAAAAAACTA
30530548 AACAGAAGCTCGAAAAAACTA
1 AACAGAAGCTCGAAAAAACTA
30530569 AACAGAA
1 AACAGAA
30530576 AGTAAAACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.51, C:0.18, G:0.20, T:0.10
Consensus pattern (21 bp):
AACAGAAGCTCGAAAAAACTA
Found at i:30534662 original size:3 final size:3
Alignment explanation
Indices: 30534654--30534876 Score: 63
Period size: 3 Copynumber: 72.3 Consensus size: 3
30534644 AACCTTCACA
* * * *
30534654 TAT TAT TAT TAT TGT TAT TAT TAT TAT TTT TAC TAT CTAA TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* * * *
30534699 TAT TA- TACT TAT TTT TACCT CTGT TA- TATT TAT TAT TAA TAT TAG
1 TAT TAT TA-T TAT TAT TA--T -TAT TAT TA-T TAT TAT TAT TAT TAT
* *
30534744 TAT ATAT T-T TAT TA- TACG TAT ATAT ATACT T-T TA- TAT ATAG TAT
1 TAT -TAT TAT TAT TAT TA-T TAT -TAT -TA-T TAT TAT TAT -TAT TAT
* * ** *
30534788 TAT TTT TAT ATAT CAT TA- TATT TAT TAT TAT GCT TAT TAT T-T TCAC
1 TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T-AT
* *
30534834 TAT TGT TACT TAT TAT T-T TAT T-T TAA TAT TAT TAT GTAT TAT T
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
30534877 TGGTATACAT
Statistics
Matches: 161, Mismatches: 32, Indels: 54
0.65 0.13 0.22
Matches are distributed among these distances:
2 22 0.14
3 103 0.64
4 33 0.20
5 2 0.01
6 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:30535393 original size:18 final size:18
Alignment explanation
Indices: 30535359--30535392 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30535349 TGCTGTAAAC
30535359 TTTTCGCGTTTCTAAAAT
1 TTTTCGCGTTTCTAAAAT
*
30535377 TTTTCGTGTTT-TAAAA
1 TTTTCGCGTTTCTAAAA
30535393 AAAAATTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (18 bp):
TTTTCGCGTTTCTAAAAT
Found at i:30535428 original size:18 final size:18
Alignment explanation
Indices: 30535407--30535461 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 18
30535397 ATTCGGATCC
30535407 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
30535425 C-AAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
* *
30535442 AAAAAATTCTCGT-TTTT
1 CAAAAATTTTCGTGTTTT
30535459 CAA
1 CAA
30535462 TCGGATTACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (18 bp):
CAAAAATTTTCGTGTTTT
Found at i:30547382 original size:75 final size:73
Alignment explanation
Indices: 30547172--30547518 Score: 477
Period size: 77 Copynumber: 4.7 Consensus size: 73
30547162 TTGATGTTTT
* *
30547172 ATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACGCTGAGG
30547236 TATTTTCA
66 TATTTTCA
* * *
30547244 ATTTCTGGTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAAGGGCACGCT
1 ATTTCTGGTTTT----CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACGCT
30547309 GAGGTATTTTCA
62 GAGGTATTTTCA
* * * *
30547321 ATTTCTGGTTTTCAAAAAAATCAACTTATATTGTGAGAGGTGAGTTGGGCCTCAGAACACGCTGA
1 ATTTCTGGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACGCTGA
*
30547386 GGTAATTTCA
64 GGTATTTTCA
30547396 ATTTCT-GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-AGGCACGCTGA
1 ATTTCTGGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-GCACGCTGA
30547459 GGTATTTTCA
64 GGTATTTTCA
* * *
30547469 A-TTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 ATTTCTGGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
30547519 GGGTTACATG
Statistics
Matches: 246, Mismatches: 19, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
72 49 0.20
73 62 0.25
74 4 0.02
75 61 0.25
77 70 0.28
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (73 bp):
ATTTCTGGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACGCTGAGG
TATTTTCA
Found at i:30547563 original size:14 final size:13
Alignment explanation
Indices: 30547537--30547572 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
30547527 TGCCGAGGTA
30547537 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
30547550 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
30547564 TTTTCAAAA
1 TTTTCAAAA
30547573 ATCAACTCAT
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:30547638 original size:88 final size:88
Alignment explanation
Indices: 30547476--30547709 Score: 213
Period size: 88 Copynumber: 2.7 Consensus size: 88
30547466 TCAATTATGC
* * ** * * *
30547476 TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTTACATGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTACAAGAAGCAAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
30547541 CAAAATCTGTTTTGCAAATTCTG
66 CAAAATCTGTTTTGCAAATTCTG
* * * *
30547564 TTTTCAAAAATCAACTCATATTGCAAGAAGCAAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTACAAGAAGCAAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
* ** *
30547629 TAATTTCTGTTTT--TAATGTCTAG
66 CAAAATCTGTTTTGCAAAT-TCT-G
* * * * *** *
30547652 TTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCACATGCCGAG
1 TTTTCAAA-AATCAACTCATATTACAAGAAGCAAGTTGAGCCTCGGCTCACATGCCGAG
30547710 GATAAAGATT
Statistics
Matches: 118, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
86 3 0.03
87 6 0.05
88 109 0.92
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (88 bp):
TTTTCAAAAATCAACTCATATTACAAGAAGCAAGTTGAGCCTCGGCTCACATGCCGAGCTATTTT
CAAAATCTGTTTTGCAAATTCTG
Found at i:30549584 original size:3 final size:3
Alignment explanation
Indices: 30549576--30549798 Score: 54
Period size: 3 Copynumber: 72.3 Consensus size: 3
30549566 AACCTTCACA
* * * *
30549576 TAT TAT TAT TAT TGT TAT TAT TAT TAT TTT TAC TAT CTAA TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* * * *
30549621 TAT TA- TACT TAT TTT TACCT CTGT TA- TATT TAT TAT TAA TAT TAG
1 TAT TAT TA-T TAT TAT TA--T -TAT TAT TA-T TAT TAT TAT TAT TAT
* * *
30549666 TAT ATAT T-T TAT T-G TACG TAT ATAT ATACT T-T TA- TAT ATAG TAT
1 TAT -TAT TAT TAT TAT TA-T TAT -TAT -TA-T TAT TAT TAT -TAT TAT
* * ** *
30549710 TAT TTT TATT TAT CAT TA- TATT TAT TAT TAT GCT TAT TAT T-T TCAC
1 TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T-AT
* *
30549756 TAT TGT TACT TAT TAT T-T TAT T-T TAG TAT TAT TAT GTAT TAT T
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
30549799 TGGTATACAT
Statistics
Matches: 160, Mismatches: 33, Indels: 54
0.65 0.13 0.22
Matches are distributed among these distances:
2 21 0.13
3 102 0.64
4 34 0.21
5 2 0.01
6 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:30550307 original size:18 final size:18
Alignment explanation
Indices: 30550273--30550306 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30550263 TGCTGTAAAC
30550273 TTTTCGCGTTTCTAAAAT
1 TTTTCGCGTTTCTAAAAT
*
30550291 TTTTCGTGTTT-TAAAA
1 TTTTCGCGTTTCTAAAA
30550307 AAAAAATTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (18 bp):
TTTTCGCGTTTCTAAAAT
Found at i:30550343 original size:18 final size:18
Alignment explanation
Indices: 30550322--30550376 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 18
30550312 ATTCGGATCC
30550322 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
30550340 C-AAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
* *
30550357 AAAAAATTCTCGT-TTTT
1 CAAAAATTTTCGTGTTTT
30550374 CAA
1 CAA
30550377 TCGGATTACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (18 bp):
CAAAAATTTTCGTGTTTT
Found at i:30552235 original size:15 final size:15
Alignment explanation
Indices: 30552211--30552240 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30552201 GTTTAGCATG
*
30552211 GGATAGTCTTGTTGT
1 GGATAATCTTGTTGT
30552226 GGATAATCTTGTTGT
1 GGATAATCTTGTTGT
30552241 TTAATGTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.30, T:0.47
Consensus pattern (15 bp):
GGATAATCTTGTTGT
Found at i:30567115 original size:125 final size:125
Alignment explanation
Indices: 30566940--30567299 Score: 447
Period size: 125 Copynumber: 2.8 Consensus size: 125
30566930 TATCTGGATA
* * *
30566940 AGAAGAAGTTTCTGAAGAAATAGTATCCAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTA
1 AGAAGAAGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTA
* * *
30567005 CTGAAAAATGCTTCCACGTGGACGCTTTTTTTCTACAGTGGTATCTGAGAAAATAAATT-TG
66 CTGAAAAA-GCTTCCACGTGGACGCTCTTTTTCTACAGTAGTATCTGAAAAAAT-AATTGTG
* * *
30567066 AGAAGATGTTTCTGAAAAAATAGTGT-AAAAACGCTTTAAGCAGGATGCACTGTCAGCAAAAATA
1 AGAAGAAGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTA
* **
30567130 CTGAAAAAAGCTCCCACGTGGACGCTCTTTTGATACAGTAGTATCTGAAAAAATAATTGTG
66 CTG-AAAAAGCTTCCACGTGGACGCTCTTTTTCTACAGTAGTATCTGAAAAAATAATTGTG
* ** * * * * *
30567191 AGATGACCTTTCTGAACAAATAGTGTCAAAAATGCTTCATGCAGTATGCACTTTCAGCAAAATTA
1 AGAAGAAGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTA
*
30567256 CTGAGAAAAGC-TCCTACGTGGACACGCTCTTTTTCTACTGTAGT
66 CTGA-AAAAGCTTCC-ACGTGG--ACGCTCTTTTTCTACAGTAGT
30567300 TCCTATTTGG
Statistics
Matches: 201, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
124 4 0.02
125 104 0.52
126 75 0.37
128 18 0.09
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (125 bp):
AGAAGAAGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTA
CTGAAAAAGCTTCCACGTGGACGCTCTTTTTCTACAGTAGTATCTGAAAAAATAATTGTG
Found at i:30568515 original size:42 final size:42
Alignment explanation
Indices: 30568468--30568553 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
30568458 ATTAAAATAC
30568468 TAAAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAAT
1 TAAAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAAT
30568510 TAAAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAAT
1 TAAAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAAT
30568552 TA
1 TA
30568554 TAATTAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (42 bp):
TAAAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAAT
Found at i:30569006 original size:18 final size:18
Alignment explanation
Indices: 30568985--30569020 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30568975 AAAAGGAAAC
*
30568985 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
30569003 ATATAAGGGCTAGGATAT
1 ATATAAGGGCTAGGATAT
30569021 GCACCTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.31
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Done.