Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 92 of 240
Found at i:28971277 original size:59 final size:59
Alignment explanation
Indices: 28971081--28971278 Score: 162
Period size: 59 Copynumber: 3.3 Consensus size: 59
28971071 CTCAAATCAT
* *
28971081 AATATATGATACT-ATAAAAGATAATTTAACATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATATTAATAAAAGATAATTTAA-ATAATTAATATTAAATATATTTTAATTAA
* ** *
28971140 AATATATAAT-TTAAT-AAA-AT--TCTT-AATAATTAATATTCTTATATGAATTTACTCAAATC
1 AATATATGATATTAATAAAAGATAAT-TTAAATAATTAATATT-AAATAT--ATTT--T--AATT
*
28971199 AT
58 AA
* *
28971201 AATGTATGATACT-ATAAAAGATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATATTAATAAAAGATAATTT-AAATAATTAATATTAAATATATTTTAATTAA
28971260 AATATATGAT-TTAATAAAA
1 AATATATGATATTAATAAAA
28971279 TTTAAAATAA
Statistics
Matches: 106, Mismatches: 16, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
54 11 0.10
55 6 0.06
56 2 0.02
57 6 0.06
58 5 0.05
59 31 0.29
61 15 0.14
62 4 0.04
63 6 0.06
64 2 0.02
65 5 0.05
66 13 0.12
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (59 bp):
AATATATGATATTAATAAAAGATAATTTAAATAATTAATATTAAATATATTTTAATTAA
Found at i:28971291 original size:120 final size:120
Alignment explanation
Indices: 28970864--28971280 Score: 721
Period size: 120 Copynumber: 3.5 Consensus size: 120
28970854 ATTTAATCAT
28970864 ATTTAAACATAATTATTATTAAATATATTATAATT-AAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
28970928 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
28970984 AATTAACATAATTATTATTAAATATATTATATTTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
28971049 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
28971104 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
28971169 TTAATATTCTTATATGAATTTACTCAAATCATAATGTATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
28971224 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
28971281 TAAAATAATT
Statistics
Matches: 285, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
119 29 0.10
120 254 0.89
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:28977384 original size:48 final size:48
Alignment explanation
Indices: 28977329--28977423 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
28977319 TCATTATTTA
* *
28977329 CAGTGCATTATTTTCGAACATTTAGATAGGTTCAGTGTATTAGTTTTC
1 CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGCATTAGTTTTC
* *
28977377 CAGTGCATTATTTTCGAACATTGAGATAGGTTTAGTGCATTATTTTT
1 CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGCATTAGTTTT
28977424 AGTGCACTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (48 bp):
CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGCATTAGTTTTC
Found at i:28977491 original size:21 final size:21
Alignment explanation
Indices: 28977465--28977505 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
28977455 TCCATACTCA
28977465 TATTTATTAATATTTTTAACC
1 TATTTATTAATATTTTTAACC
*
28977486 TATTTATTAATTTTTTTAAC
1 TATTTATTAATATTTTTAAC
28977506 TGGAATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTATTAATATTTTTAACC
Found at i:28981543 original size:21 final size:21
Alignment explanation
Indices: 28981496--28981539 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
28981486 TGGCTGATTG
*
28981496 AGAA-AACAAAATATAGGAGA
1 AGAAGAACAAAAAATAGGAGA
*
28981516 AGAAGAACAAAAAATTGG-GA
1 AGAAGAACAAAAAATAGGAGA
28981536 AGAA
1 AGAA
28981540 AGAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.64, C:0.05, G:0.23, T:0.09
Consensus pattern (21 bp):
AGAAGAACAAAAAATAGGAGA
Found at i:28981550 original size:21 final size:22
Alignment explanation
Indices: 28981496--28981550 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 22
28981486 TGGCTGATTG
28981496 AGAAAACAAAATATAGGAGAAGA
1 AGAAAA-AAAATATAGGAGAAGA
28981519 AGAACAAAAAAT-T-GG-GAAGAA
1 AGAA-AAAAAATATAGGAGAAG-A
28981540 AGAAAAGAAAA
1 AGAAAA-AAAA
28981551 GGAAAAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 6 0.21
21 11 0.38
22 1 0.03
23 9 0.31
24 2 0.07
ACGTcount: A:0.67, C:0.04, G:0.22, T:0.07
Consensus pattern (22 bp):
AGAAAAAAAATATAGGAGAAGA
Found at i:28983970 original size:19 final size:19
Alignment explanation
Indices: 28983921--28983977 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
28983911 AAAATTATAA
* *
28983921 AAAAATTCAAAATAATTTTT
1 AAAAATTCTAAAT-ATTTAT
*
28983941 AAAAA-TATAAATATTTAT
1 AAAAATTCTAAATATTTAT
28983959 AAAAATTCTAAA-ATTTAT
1 AAAAATTCTAAATATTTAT
28983977 A
1 A
28983978 TTTTAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 17 0.53
19 10 0.31
20 5 0.16
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCTAAATATTTAT
Found at i:28989664 original size:24 final size:24
Alignment explanation
Indices: 28989637--28989688 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
28989627 TTTCTAGAAG
*
28989637 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATGAGCATAATAT
*
28989661 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATGAGCATAATAT
28989685 ATTT
1 ATTT
28989689 CACTTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATGAGCATAATAT
Found at i:28989699 original size:24 final size:24
Alignment explanation
Indices: 28989654--28989700 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
28989644 ATTTATGAGT
* *
28989654 ATAATATATTTAGTATTTATTAGC
1 ATAATATATTTACTATTCATTAGC
28989678 ATAATATATTTCACT-TTCATTAG
1 ATAATATATTT-ACTATTCATTAG
28989701 AATTAGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (24 bp):
ATAATATATTTACTATTCATTAGC
Found at i:28994997 original size:42 final size:43
Alignment explanation
Indices: 28994950--28995058 Score: 177
Period size: 42 Copynumber: 2.6 Consensus size: 43
28994940 TCCAGTTTGT
28994950 TTCCACGTTGCTTTCTTTTTTGTCTAGATT-AGTTGTGATTGC
1 TTCCACGTTGCTTTCTTTTTTGTCTAGATTCAGTTGTGATTGC
* *
28994992 TTCCACGTTGCTTCCTTTTTTGTCTAGATTCAGTTGTGGTTGC
1 TTCCACGTTGCTTTCTTTTTTGTCTAGATTCAGTTGTGATTGC
*
28995035 TTCCACATTGC-TTCTTTTTTGTCT
1 TTCCACGTTGCTTTCTTTTTTGTCT
28995059 TTTTCTTGGT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 41 0.66
43 21 0.34
ACGTcount: A:0.10, C:0.20, G:0.17, T:0.52
Consensus pattern (43 bp):
TTCCACGTTGCTTTCTTTTTTGTCTAGATTCAGTTGTGATTGC
Found at i:29001904 original size:96 final size:96
Alignment explanation
Indices: 29001771--29001966 Score: 311
Period size: 96 Copynumber: 2.0 Consensus size: 96
29001761 TTGAAATGGA
* * * *
29001771 AGAGAATGATGAAGTAAGCTATTGATAAAGCCTGTGTTCTGAACGCTTGTTTTCAGTTTTGGGTC
1 AGAGAATGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAACGCTTGTTTTCAGTTTTGGGTC
29001836 TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
66 TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
* * *
29001867 AGAGAGTGATGAAGAAAGCTTTTAATAAAACCTGTGTTCCGAAGGCTTGTTTTCAGTTTTGGGTC
1 AGAGAATGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAACGCTTGTTTTCAGTTTTGGGTC
* *
29001932 TAGGGTAAAGTTCTAATTTTTGGATTTTTTT
66 TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
29001963 AGAG
1 AGAG
29001967 TTTGGGCCTT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (96 bp):
AGAGAATGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAACGCTTGTTTTCAGTTTTGGGTC
TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
Found at i:29005601 original size:782 final size:782
Alignment explanation
Indices: 29004098--29005665 Score: 3109
Period size: 782 Copynumber: 2.0 Consensus size: 782
29004088 TTTTTTAACT
29004098 GAAATTTGTGTGTATTTATAATCTATTTCAGTGTATTATTTTCAGATTTATTAATATTTTTGAAA
1 GAAATTTGTGTGTATTTATAATCTATTTCAGTGTATTATTTTCAGATTTATTAATATTTTTGAAA
29004163 AGTATTTAATATATGTATATAAAAATATTTATAAATATCTAATAGATGATATTAAATAAATTACA
66 AGTATTTAATATATGTATATAAAAATATTTATAAATATCTAATAGATGATATTAAATAAATTACA
29004228 AGTATAAAATATTAATGCACAATTGATGTATAAATTACAAATATAAAATATTTGTATTTTTTAAT
131 AGTATAAAATATTAATGCACAATTGATGTATAAATTACAAATATAAAATATTTGTATTTTTTAAT
29004293 ATCATTCATGCACTAGTGTTATGGGCCGTGGATCAATGTTCGTGACCAATGCGCACGGAACGTCC
196 ATCATTCATGCACTAGTGTTATGGGCCGTGGATCAATGTTCGTGACCAATGCGCACGGAACGTCC
29004358 CATGGAAGTCAACAGATGAAATGGGCTCATTCGACCCACTGAAATTGACCTGATTCGTGGAATGG
261 CATGGAAGTCAACAGATGAAATGGGCTCATTCGACCCACTGAAATTGACCTGATTCGTGGAATGG
29004423 AAATAGAAGCCTATCTACTTAAATCCTGGTTGAACTAAAACGCTCTAGTAAATTGTATTTTACTA
326 AAATAGAAGCCTATCTACTTAAATCCTGGTTGAACTAAAACGCTCTAGTAAATTGTATTTTACTA
29004488 AGATAATTATTGTAAAATCCTAAAAGATAAACACGTATAGAATTTAAATATCTTAAGACTCTCTT
391 AGATAATTATTGTAAAATCCTAAAAGATAAACACGTATAGAATTTAAATATCTTAAGACTCTCTT
*
29004553 ATTGTAGATGAGAACTAATCTTAGCCGCTGATGTAAATCGATCTATACTGTTGATTCTGGGGAAG
456 ATTGTAGATGAGAACTAATCTTAGCCGCTGATGTAAATCGATCTATACTGTTAATTCTGGGGAAG
29004618 TTCAACTATAAATAGATGCCTCCTCTTCTTTTGTAATCACATTTCATAGTTGAATATGTCTGAAA
521 TTCAACTATAAATAGATGCCTCCTCTTCTTTTGTAATCACATTTCATAGTTGAATATGTCTGAAA
29004683 GCATTTACCCAAACATTTGGTGGGCAATAATTTCCTTTGACTTTTCTGTTATTTATTGCTCTTTC
586 GCATTTACCCAAACATTTGGTGGGCAATAATTTCCTTTGACTTTTCTGTTATTTATTGCTCTTTC
29004748 AGTTCGAGTTGCCTTCGTTATACTTCAGTGCCTTAGAGAAATTCTGCGAGAATTCTCACTTTTGC
651 AGTTCGAGTTGCCTTCGTTATACTTCAGTGCCTTAGAGAAATTCTGCGAGAATTCTCACTTTTGC
29004813 GAGAGTTATGCTGATTTAGACATATTTGAAGCGAAGAAATCGCCTAAGACTGCACGAATTGTGAG
716 GAGAGTTATGCTGATTTAGACATATTTGAAGCGAAGAAATCGCCTAAGACTGCACGAATTGTGAG
29004878 AC
781 AC
29004880 GAAATTTGTGTGTATTTATAATCTATTTCAGTGTATTATTTTCAGATTTATTAATATTTTTGAAA
1 GAAATTTGTGTGTATTTATAATCTATTTCAGTGTATTATTTTCAGATTTATTAATATTTTTGAAA
29004945 AGTATTTAATATATGTATATAAAAATATTTATAAATATCTAATAGATGATATTAAATAAATTACA
66 AGTATTTAATATATGTATATAAAAATATTTATAAATATCTAATAGATGATATTAAATAAATTACA
29005010 AGTATAAAATATTAATGCACAATTGATGTATAAATTACAAATATAAAATATTTGTATTTTTTAAT
131 AGTATAAAATATTAATGCACAATTGATGTATAAATTACAAATATAAAATATTTGTATTTTTTAAT
29005075 ATCATTCATGCACTAGTGTTATGGGCCGTGGATCAATGTTCGTGACCAATGCGCACGGAACGTCC
196 ATCATTCATGCACTAGTGTTATGGGCCGTGGATCAATGTTCGTGACCAATGCGCACGGAACGTCC
29005140 CATGGAAGTCAACAGATGAAATGGGCTCATTCGACCCACTGAAATTGACCTGATTCGTGGAATGG
261 CATGGAAGTCAACAGATGAAATGGGCTCATTCGACCCACTGAAATTGACCTGATTCGTGGAATGG
29005205 AAATAGAAGCCTATCTACTTAAATCCTGGTTGAACTAAAACGCTCTAGTAAATTGTATTTTACTA
326 AAATAGAAGCCTATCTACTTAAATCCTGGTTGAACTAAAACGCTCTAGTAAATTGTATTTTACTA
29005270 AGATAATTATTGTAAAATCCTAAAAGATAAACACGTATAGAATTTAAATATCTTAAGACTCTCTT
391 AGATAATTATTGTAAAATCCTAAAAGATAAACACGTATAGAATTTAAATATCTTAAGACTCTCTT
29005335 ATTGTAGATGAGAACTAATCTTAGCCGCTGATGTAAATCGATCTATACTGTTAATTCTGGGGAAG
456 ATTGTAGATGAGAACTAATCTTAGCCGCTGATGTAAATCGATCTATACTGTTAATTCTGGGGAAG
29005400 TTCAACTATAAATAGATGCCTCCTCTTCTTTTGTAATCACATTTCATAGTTGAATATGTCTGAAA
521 TTCAACTATAAATAGATGCCTCCTCTTCTTTTGTAATCACATTTCATAGTTGAATATGTCTGAAA
29005465 GCATTTACCCAAACATTTGGTGGGCAATAATTTCCTTTGACTTTTCTGTTATTTATTGCTCTTTC
586 GCATTTACCCAAACATTTGGTGGGCAATAATTTCCTTTGACTTTTCTGTTATTTATTGCTCTTTC
*
29005530 GGTTCGAGTTGCCTTCGTTATACTTCAGTGCCTTAGAGAAATTCTGCGAGAATTCTCACTTTTGC
651 AGTTCGAGTTGCCTTCGTTATACTTCAGTGCCTTAGAGAAATTCTGCGAGAATTCTCACTTTTGC
*
29005595 GAGAGTTATGCTGATTTAGGCATATTTGAAGCGAAGAAATCGCCTAAGACTGCACGAATTGTGAG
716 GAGAGTTATGCTGATTTAGACATATTTGAAGCGAAGAAATCGCCTAAGACTGCACGAATTGTGAG
29005660 AC
781 AC
29005662 GAAA
1 GAAA
29005666 GTTCTAATCT
Statistics
Matches: 783, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
782 783 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (782 bp):
GAAATTTGTGTGTATTTATAATCTATTTCAGTGTATTATTTTCAGATTTATTAATATTTTTGAAA
AGTATTTAATATATGTATATAAAAATATTTATAAATATCTAATAGATGATATTAAATAAATTACA
AGTATAAAATATTAATGCACAATTGATGTATAAATTACAAATATAAAATATTTGTATTTTTTAAT
ATCATTCATGCACTAGTGTTATGGGCCGTGGATCAATGTTCGTGACCAATGCGCACGGAACGTCC
CATGGAAGTCAACAGATGAAATGGGCTCATTCGACCCACTGAAATTGACCTGATTCGTGGAATGG
AAATAGAAGCCTATCTACTTAAATCCTGGTTGAACTAAAACGCTCTAGTAAATTGTATTTTACTA
AGATAATTATTGTAAAATCCTAAAAGATAAACACGTATAGAATTTAAATATCTTAAGACTCTCTT
ATTGTAGATGAGAACTAATCTTAGCCGCTGATGTAAATCGATCTATACTGTTAATTCTGGGGAAG
TTCAACTATAAATAGATGCCTCCTCTTCTTTTGTAATCACATTTCATAGTTGAATATGTCTGAAA
GCATTTACCCAAACATTTGGTGGGCAATAATTTCCTTTGACTTTTCTGTTATTTATTGCTCTTTC
AGTTCGAGTTGCCTTCGTTATACTTCAGTGCCTTAGAGAAATTCTGCGAGAATTCTCACTTTTGC
GAGAGTTATGCTGATTTAGACATATTTGAAGCGAAGAAATCGCCTAAGACTGCACGAATTGTGAG
AC
Found at i:29010183 original size:14 final size:15
Alignment explanation
Indices: 29010158--29010186 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
29010148 TTGCAAGCAC
29010158 TAATACTTTTTATTG
1 TAATACTTTTTATTG
29010173 TAATA-TTTTTATTG
1 TAATACTTTTTATTG
29010187 GGTAAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (15 bp):
TAATACTTTTTATTG
Found at i:29010421 original size:23 final size:23
Alignment explanation
Indices: 29010377--29010421 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
29010367 TAATAATGAG
* *
29010377 TTATAATAAATTATATTTATATT
1 TTATAATAAATTAAATTGATATT
* *
29010400 TTATTATAATTTAAATTGATAT
1 TTATAATAAATTAAATTGATAT
29010422 ATTTCATATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTATAATAAATTAAATTGATATT
Found at i:29017894 original size:138 final size:137
Alignment explanation
Indices: 29017554--29017935 Score: 594
Period size: 133 Copynumber: 2.8 Consensus size: 137
29017544 ATAATAAATT
*
29017554 AATAAATTAATATAACATATCAATTATATTAATAAACACAATTCCCTAAACATTAAATAAACTCA
1 AATAAATTAATATAACATATCAATTATATTAATAAACACAATTCCCAAAACATTAAATAAACTCA
* * *
29017619 AATAACCAATTATAAAAAATATGCTCATACCTTAAATACAAAAAATCGATATAACTTAAATACGA
66 AATAACCAATTATAAAAAATATGCTTATACCTTAAATACAAAAAATCAATATAACTTAAATACAA
29017684 AATAATA
131 AATAATA
* *
29017691 AAT--A--AATATAACATGTCAATTATATTAATAAATACAATTCCCAAAACATTAAATAAACTCA
1 AATAAATTAATATAACATATCAATTATATTAATAAACACAATTCCCAAAACATTAAATAAACTCA
* * *
29017752 AATAACCAATTATAAAAAAATATGCTTATATCTTAAAAACGAAAAATCAATATAACTTAAATACA
66 AATAACCAATTAT-AAAAAATATGCTTATACCTTAAATACAAAAAATCAATATAACTTAAATACA
29017817 AAATAATA
130 AAATAATA
* * *
29017825 AATAAATTAATATAACATATGAATTATATTAATAAACACAACTCCCCAAACATTAAATAAACTCA
1 AATAAATTAATATAACATATCAATTATATTAATAAACACAATTCCCAAAACATTAAATAAACTCA
*
29017890 AATAACCAATAATAAAAAATATG-TTCATACCTTAAATACAAAAAAT
66 AATAACCAATTATAAAAAATATGCTT-ATACCTTAAATACAAAAAAT
29017936 ATTGTGGAAT
Statistics
Matches: 221, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
133 67 0.30
134 56 0.25
135 1 0.00
136 3 0.01
137 30 0.14
138 64 0.29
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (137 bp):
AATAAATTAATATAACATATCAATTATATTAATAAACACAATTCCCAAAACATTAAATAAACTCA
AATAACCAATTATAAAAAATATGCTTATACCTTAAATACAAAAAATCAATATAACTTAAATACAA
AATAATA
Found at i:29018083 original size:115 final size:114
Alignment explanation
Indices: 29017957--29018213 Score: 293
Period size: 114 Copynumber: 2.2 Consensus size: 114
29017947 TAACATTCTT
* * * *
29017957 CAAAAACATTAATAAAAAAAATTAATCAAAC-CAAAATACTAACTTAAAGCTAATAAAACACAAC
1 CAAAAACATTAATAAAACAAATTAATCAAACTCAAAATACAAACCTAAAACTAA-AAAA-AC-AC
* * *
29018021 AACAAAAAAACAACATTTCAAGTAAATACG-AAAAACTAATATAAGATACCA
63 AACAAAAAAACAACATTCCAAGTAAATACGAAAAAAATAATATAAGATACAA
* ***
29018072 CAAAAACATTAATAAAACAAATTAATCATACTTTCAATACAAACCTAAAACTAAAAAAACACAAC
1 CAAAAACATTAATAAAACAAATTAATCAAACTCAAAATACAAACCTAAAACTAAAAAAACACAAC
* * * *** *
29018137 AAAAAAATATCCTTCCCCTTAAATACGAAAAAAATGATATAAGATACAA
66 AAAAAAACAACATTCCAAGTAAATACGAAAAAAATAATATAAGATACAA
* *
29018186 CAATAACATTAATAAAACAAACTAATCA
1 CAAAAACATTAATAAAACAAATTAATCA
29018214 TACATTTAAT
Statistics
Matches: 120, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
113 25 0.21
114 46 0.38
115 33 0.28
116 16 0.13
ACGTcount: A:0.60, C:0.18, G:0.03, T:0.20
Consensus pattern (114 bp):
CAAAAACATTAATAAAACAAATTAATCAAACTCAAAATACAAACCTAAAACTAAAAAAACACAAC
AAAAAAACAACATTCCAAGTAAATACGAAAAAAATAATATAAGATACAA
Found at i:29018272 original size:34 final size:35
Alignment explanation
Indices: 29018229--29018294 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
29018219 TTAATACAAA
29018229 TTTAAATATAATAAAAC-A-TATAAAAAATCATTCT
1 TTTAAATATAA-AAAACTATTATAAAAAATCATTCT
*
29018263 TTTAAATATAAAAAACTATTATAAAATATCAT
1 TTTAAATATAAAAAACTATTATAAAAAATCAT
29018295 ACAAACAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (35 bp):
TTTAAATATAAAAAACTATTATAAAAAATCATTCT
Found at i:29029303 original size:13 final size:13
Alignment explanation
Indices: 29029287--29029311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29029277 TTTGATACTT
29029287 GATTTTGATTTGA
1 GATTTTGATTTGA
29029300 GATTTTGATTTG
1 GATTTTGATTTG
29029312 TTTTTTTCTT
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:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (13 bp):
GATTTTGATTTGA
Found at i:29031052 original size:23 final size:23
Alignment explanation
Indices: 29031026--29031079 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
29031016 GTTAATTATT
29031026 CGTACCTCCACTCACTAATCCCC
1 CGTACCTCCACTCACTAATCCCC
29031049 CGTACCTCCACTCACTAATCCCC
1 CGTACCTCCACTCACTAATCCCC
*
29031072 CATACCTC
1 CGTACCTC
29031080 ATGGATCTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.52, G:0.04, T:0.22
Consensus pattern (23 bp):
CGTACCTCCACTCACTAATCCCC
Found at i:29052600 original size:23 final size:23
Alignment explanation
Indices: 29052567--29052610 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
29052557 CCGTTACACA
29052567 GCTCTTAGTGAGCTTCCCGATAG
1 GCTCTTAGTGAGCTTCCCGATAG
*
29052590 GCTCTTTGTGAGCTTCCCGAT
1 GCTCTTAGTGAGCTTCCCGAT
29052611 TAAATGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.14, C:0.27, G:0.25, T:0.34
Consensus pattern (23 bp):
GCTCTTAGTGAGCTTCCCGATAG
Found at i:29057896 original size:29 final size:28
Alignment explanation
Indices: 29057841--29057896 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
29057831 TCGATACTGG
**
29057841 ATCGATACTTAGTAAAATTTTTGAAAAA
1 ATCGATACTTAGTAAAAAATTTGAAAAA
29057869 ATCGATACTTAGTAAAAAAATTTGAAAA
1 ATCGATACTTAGT-AAAAAATTTGAAAA
29057897 CAGAATGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (28 bp):
ATCGATACTTAGTAAAAAATTTGAAAAA
Found at i:29058469 original size:23 final size:25
Alignment explanation
Indices: 29058423--29058481 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 25
29058413 CTAAAGTGGT
* *
29058423 AACAAAAAAAAACTTTAGGTACCTA
1 AACAAAAAAAAACATTAGGCACCTA
*
29058448 GACAAAAAAAAA-ATTA-GCACCTA
1 AACAAAAAAAAACATTAGGCACCTA
29058471 AACAAAAAAAA
1 AACAAAAAAAA
29058482 GTTGCATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 16 0.53
24 3 0.10
25 11 0.37
ACGTcount: A:0.64, C:0.15, G:0.07, T:0.14
Consensus pattern (25 bp):
AACAAAAAAAAACATTAGGCACCTA
Found at i:29062550 original size:50 final size:50
Alignment explanation
Indices: 29062439--29062685 Score: 212
Period size: 50 Copynumber: 4.8 Consensus size: 50
29062429 ATTTGGGTAA
* *
29062439 AGAGATCCCATGTAAGACCATGTCTGGGACATGCCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
* *
29062495 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
29062545 AGAGGTCTCC-CGTAAGACCATGTCTGGAACATAGCATGGGCACCGATATG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
29062595 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * * * *
29062644 AAACATCACATGTAAGACCATATCTGGGATATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
29062686 TGTTATTATC
Statistics
Matches: 163, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 43 0.26
50 74 0.45
51 2 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:29065063 original size:42 final size:43
Alignment explanation
Indices: 29065004--29065113 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 43
29064994 ATTTACGTGC
* * *
29065004 AAGACCATGTCTGGGACATTGGCGTCG-TATATAATTACATGT
1 AAGACCATGTCTGGGACAGTGGCATCGTTATATAATTACATAT
* * * *
29065046 AAGACCCTGTGTGGGACAGTGGCATCGTTATTTGATTACATAT
1 AAGACCATGTCTGGGACAGTGGCATCGTTATATAATTACATAT
*
29065089 AAGACCACGTCTGGGA-AGTTGGCAT
1 AAGACCATGTCTGGGACAG-TGGCAT
29065114 TGTACGAGCT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
42 25 0.45
43 31 0.55
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
AAGACCATGTCTGGGACAGTGGCATCGTTATATAATTACATAT
Found at i:29065642 original size:23 final size:23
Alignment explanation
Indices: 29065612--29065659 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
29065602 TGGTTTAATC
*
29065612 TTGGTTTTAATACTTATGTGTAT
1 TTGGTTTTAATACTTATGTATAT
29065635 TTGGTTTTAATACTTATGTATAT
1 TTGGTTTTAATACTTATGTATAT
29065658 TT
1 TT
29065660 CACGGTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.04, G:0.15, T:0.58
Consensus pattern (23 bp):
TTGGTTTTAATACTTATGTATAT
Found at i:29071549 original size:11 final size:11
Alignment explanation
Indices: 29071532--29071570 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
29071522 TTTTTGGAGT
29071532 TTACAATATAA
1 TTACAATATAA
* *
29071543 ATACAATACAA
1 TTACAATATAA
*
29071554 TTATAATATAA
1 TTACAATATAA
29071565 TTACAA
1 TTACAA
29071571 ATACATGCCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (11 bp):
TTACAATATAA
Found at i:29078717 original size:9 final size:9
Alignment explanation
Indices: 29078695--29078750 Score: 52
Period size: 8 Copynumber: 6.8 Consensus size: 9
29078685 TGTCACATCA
29078695 ATAAATAATT
1 ATAAA-AATT
29078705 -TAAAAATT
1 ATAAAAATT
29078713 ATAAAAA-T
1 ATAAAAATT
*
29078721 A-AAAAA-A
1 ATAAAAATT
29078728 AT-AAAATT
1 ATAAAAATT
29078736 AT-AAAATT
1 ATAAAAATT
29078744 ATAAAAA
1 ATAAAAA
29078751 AATAAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 10 0.25
8 16 0.40
9 14 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
ATAAAAATT
Found at i:29078737 original size:23 final size:24
Alignment explanation
Indices: 29078707--29078757 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
29078697 AAATAATTTA
29078707 AAAATTATAAAAATA-AAAAAAAT
1 AAAATTATAAAAATATAAAAAAAT
*
29078730 AAAATTATAAAATTATAAAAAAAT
1 AAAATTATAAAAATATAAAAAAAT
29078754 AAAA
1 AAAA
29078758 AAAGAGCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAATTATAAAAATATAAAAAAAT
Found at i:29082755 original size:60 final size:61
Alignment explanation
Indices: 29082689--29082842 Score: 215
Period size: 61 Copynumber: 2.5 Consensus size: 61
29082679 TATATTAATT
* **
29082689 TAATATTTTAT-TATAAATTATATTAGAATATTTTATT-TCATATTTTTTGAAATTTGA-AAA
1 TAATATTTTATAT-TAAATTATATTAAAATATTTTATTATCATATTTCCTGAAATTT-ATAAA
* *
29082749 TAATATTTTATATTAAATTATATTAAAATGTTTTATTATTATATTTCCTGAAATTTATAAA
1 TAATATTTTATATTAAATTATATTAAAATATTTTATTATCATATTTCCTGAAATTTATAAA
*
29082810 TAATAATTTATATTAAATTATATTAAAATATTT
1 TAATATTTTATATTAAATTATATTAAAATATTT
29082843 AAAACATTAA
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
60 34 0.40
61 50 0.60
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (61 bp):
TAATATTTTATATTAAATTATATTAAAATATTTTATTATCATATTTCCTGAAATTTATAAA
Found at i:29083175 original size:3 final size:3
Alignment explanation
Indices: 29083167--29083193 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
29083157 ATTCATCCAA
29083167 CAC CAC CAC CAC CAC CAC CAC CAC CAC
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC
29083194 ATCTTTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:29085314 original size:28 final size:28
Alignment explanation
Indices: 29085251--29085329 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
29085241 CATTCAGTAC
**
29085251 TTGCCACAAAGGCTT-TCCTATCCAGAGTT
1 TTGCCACAAAGG-TTGTCCT-TTTAGAGTT
29085280 TTGCCACAAAGGTTGTCCTTTTAGAGTT
1 TTGCCACAAAGGTTGTCCTTTTAGAGTT
* * *
29085308 TTTCCACGAAGGTTTTCCTTTT
1 TTGCCACAAAGGTTGTCCTTTT
29085330 CATCCAGTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
28 28 0.64
29 16 0.36
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (28 bp):
TTGCCACAAAGGTTGTCCTTTTAGAGTT
Found at i:29085526 original size:60 final size:60
Alignment explanation
Indices: 29085402--29085530 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 60
29085392 GGTTTATCAT
* * * * * * *
29085402 AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCATTATTTACATCCAATACTCACTAG
1 AAAGGCTTTCCTATCCAGAGTTGTGCCACAAAGGCATCATTTACATCCAATACTCACCAC
* * * **
29085462 AAAGGCTTTCCTATCCAGAGTTGTGCCACAAATGCATCATTTACATCTAGTACTTGCCAC
1 AAAGGCTTTCCTATCCAGAGTTGTGCCACAAAGGCATCATTTACATCCAATACTCACCAC
29085522 AAAGGCTTT
1 AAAGGCTTT
29085531 TGCTTTCCCA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (60 bp):
AAAGGCTTTCCTATCCAGAGTTGTGCCACAAAGGCATCATTTACATCCAATACTCACCAC
Found at i:29085733 original size:53 final size:53
Alignment explanation
Indices: 29085651--29085753 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
29085641 TGAATTTTTC
* * * * *
29085651 TCATGTGATGCCATAATCCACCAATTACGATTTTACACGATATAGTCTTCTTT
1 TCATATGATACCATAACCCACCAACTACGATCTTACACGATATAGTCTTCTTT
* *
29085704 TCATATGATACCATAACCCACCAGCTACGATCTTACACGATATGGTCTTC
1 TCATATGATACCATAACCCACCAACTACGATCTTACACGATATAGTCTTC
29085754 AACGCTATGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (53 bp):
TCATATGATACCATAACCCACCAACTACGATCTTACACGATATAGTCTTCTTT
Found at i:29092247 original size:12 final size:12
Alignment explanation
Indices: 29092183--29092249 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 12
29092173 AAGTATAATC
29092183 AAAT-ATAATAA
1 AAATAATAATAA
* * *
29092194 TAATAACAATAT
1 AAATAATAATAA
* *
29092206 AAATAGTGATGAA
1 AAATAATAAT-AA
*
29092219 AAATAATAATAG
1 AAATAATAATAA
*
29092231 CAATAATAATAA
1 AAATAATAATAA
29092243 AAATAAT
1 AAATAAT
29092250 TAAATGATTA
Statistics
Matches: 40, Mismatches: 14, Indels: 3
0.70 0.25 0.05
Matches are distributed among these distances:
11 3 0.08
12 28 0.70
13 9 0.22
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:29092884 original size:23 final size:24
Alignment explanation
Indices: 29092840--29092895 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
29092830 CATATTTTTT
* *
29092840 AAAAAAGAATCGAAAAGGAAAA-G
1 AAAAAAGAATCCAAAAGAAAAAGG
**
29092863 AAAAAAGAATCCAATCGAAAAAGG
1 AAAAAAGAATCCAAAAGAAAAAGG
29092887 AAAAAAGAA
1 AAAAAAGAA
29092896 AACCTTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 18 0.64
24 10 0.36
ACGTcount: A:0.70, C:0.07, G:0.18, T:0.05
Consensus pattern (24 bp):
AAAAAAGAATCCAAAAGAAAAAGG
Found at i:29093751 original size:15 final size:16
Alignment explanation
Indices: 29093733--29093765 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
29093723 TGGTAAGCAA
29093733 TGAAATG-AATTAAGT
1 TGAAATGTAATTAAGT
29093748 TGAAATGTTAATTAAGT
1 TGAAATG-TAATTAAGT
29093765 T
1 T
29093766 AAGGGTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (16 bp):
TGAAATGTAATTAAGT
Found at i:29094176 original size:40 final size:40
Alignment explanation
Indices: 29094121--29094224 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
29094111 GATAAATATG
* *
29094121 TATATGAAAAATGATATAGGTAGTCGTTATATGAATCAGT
1 TATATGAAAAATGATATAGGAAATCGTTATATGAATCAGT
* *
29094161 TATATGAAAAATGATATATGAAATGGTTATATGAATCAGT
1 TATATGAAAAATGATATAGGAAATCGTTATATGAATCAGT
* * *
29094201 TTTATG-GAAATAGATATATGAAAT
1 TATATGAAAAAT-GATATAGGAAAT
29094225 AAAACATTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 4 0.07
40 53 0.93
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.36
Consensus pattern (40 bp):
TATATGAAAAATGATATAGGAAATCGTTATATGAATCAGT
Found at i:29094223 original size:13 final size:13
Alignment explanation
Indices: 29094146--29094225 Score: 65
Period size: 13 Copynumber: 6.0 Consensus size: 13
29094136 ATAGGTAGTC
29094146 GTTATATG-AATCA
1 GTTATATGAAAT-A
*
29094159 GTTATATGAAAAA
1 GTTATATGAAATA
* *
29094172 TGATATATGAAATG
1 -GTTATATGAAATA
29094186 GTTATATG-AATCA
1 GTTATATGAAAT-A
*
29094199 GTTTTATGGAAATA
1 GTTATAT-GAAATA
*
29094213 GATATATGAAATA
1 GTTATATGAAATA
29094226 AAACATTAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
12 3 0.06
13 28 0.53
14 19 0.36
15 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (13 bp):
GTTATATGAAATA
Found at i:29094400 original size:40 final size:40
Alignment explanation
Indices: 29094320--29094401 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
29094310 TTGTAATGTT
* *
29094320 TATGAAAAATAATATAGGTAATGGTTAAATAAATCGGTTA
1 TATGAAAAATAATATAGGAAATGGTTAAATAAATCAGTTA
* * * *
29094360 TATGAAAAATAATATATGAAATTGTTATATGAATCAGTTA
1 TATGAAAAATAATATAGGAAATGGTTAAATAAATCAGTTA
29094400 TA
1 TA
29094402 CGGAAAGAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (40 bp):
TATGAAAAATAATATAGGAAATGGTTAAATAAATCAGTTA
Found at i:29094560 original size:50 final size:50
Alignment explanation
Indices: 29094506--29095089 Score: 353
Period size: 50 Copynumber: 11.7 Consensus size: 50
29094496 TATAGCGCCT
* * * *
29094506 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCATTGTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
* * * ** * * * *
29094556 GGGAAGCAAGATTCACCGTTGTGGCATTAAAATAGTTTCACTGCACTG-CTT
1 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCT-TTTTAACTGCAATGTC-A
* * * * *
29094607 GAGAAGTAAGATTCGCTGTGGTAGCTTTAATCCTTTTAACTGCAATGTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
* * * * ** ** *
29094657 GGGAAGCAAGATTCGCCATTGTGGCGTTAATCTGTTCCACTGCACCG-CTT
1 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTC-A
* * * *
29094707 GAGAAGTAAGATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCAATGTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
* * *** * ** *
29094757 GGGAAGCAAGATTCGCCGTTGTAGCGTTAATCTGTCCCACTGTACCGCCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
* ** * * * *
29094807 GGGAAGTAAGATTCGTTGTGGTAGCTTTAATCTTTTTATCTGTAATGTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
* * * * * ** * ****
29094857 GGGAAGCAATATTCACCGATGTGGCTTTAATCTGTTCCATTGCACCACCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
** * * * *
29094907 GGGAAATAAGATTTGCTGTGGTAGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
* * * * * * ** * ** *
29094957 GGGAAGCAAGAATCACCGATGTGGTTTTAATCTGTTCCACCGCACCGCCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
* ** * * *
29095007 AGGAAATAAGATTCGCTGTGGTAGCTTTAATATTTTTAACTGCAATGTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
* * *
29095057 GGGAAGCAAGATTCACCGATGTGGCTTTAATCT
1 GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCT
29095090 ATTCCACTGC
Statistics
Matches: 368, Mismatches: 161, Indels: 10
0.68 0.30 0.02
Matches are distributed among these distances:
49 1 0.00
50 331 0.90
51 36 0.10
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (50 bp):
GGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
Found at i:29094738 original size:100 final size:100
Alignment explanation
Indices: 29094450--29095119 Score: 799
Period size: 100 Copynumber: 6.7 Consensus size: 100
29094440 CTTGACTGTG
* * ** ** * *
29094450 ATGTCGGGGAAGTAAGATTCACCGTTGTGGCTTCCATCTGTTCCACTATAGCGCCTGGGAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCCACTGCACCGCCTGAGAAGTAA
*
29094515 GATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
66 GATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCA
* * * ** * * *
29094550 TTGTCGGGGAAGCAAGATTCACCGTTGTGGCATTAAAATAGTTTCACTGCACTGCTTGAGAAGTA
1 ATGTCGGGGAAGCAAGATTCACCATTGTGGCTTTAATCT-GTTCCACTGCACCGCCTGAGAAGTA
*
29094615 AGATTCGCTGTGGTAGCTTTAATCCTTTTAACTGCA
65 AGATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCA
* * * *
29094651 ATGTCAGGGAAGCAAGATTCGCCATTGTGGCGTTAATCTGTTCCACTGCACCGCTTGAGAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCCACTGCACCGCCTGAGAAGTAA
29094716 GATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCA
66 GATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCA
* * * * * * * * *
29094751 ATGTCAGGGAAGCAAGATTCGCCGTTGTAGCGTTAATCTGTCCCACTGTACCGCCAGGGAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCCACTGCACCGCCTGAGAAGTAA
* * *
29094816 GATTCGTTGTGGTAGCTTTAATCTTTTTATCTGTA
66 GATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCA
* * * * * *
29094851 ATGTCGGGGAAGCAATATTCACCGA-TGTGGCTTTAATCTGTTCCATTGCACCACCAGGGAAATA
1 ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTTAATCTGTTCCACTGCACCGCCTGAGAAGTA
*
29094915 AGATTTGCTGTGGTAGCTTTAATCTTTTTAACTGCA
65 AGATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCA
* * * * *
29094951 ATGTCGGGGAAGCAAGAATCACCGA-TGTGGTTTTAATCTGTTCCACCGCACCGCC-AAGGAAAT
1 ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTTAATCTGTTCCACTGCACCGCCTGA-GAAGT
*
29095014 AAGATTCGCTGTGGTAGCTTTAATATTTTTAACTGCA
64 AAGATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCA
* * * * *
29095051 ATGTCAGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTATTCCACTGCACCGCCAGGGAAATA
1 ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTTAATCTGTTCCACTGCACCGCCTGAGAAGTA
29095115 AGATT
65 AGATT
29095120 TGCTATTCTC
Statistics
Matches: 498, Mismatches: 68, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
100 414 0.83
101 84 0.17
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (100 bp):
ATGTCGGGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCCACTGCACCGCCTGAGAAGTAA
GATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCA
Found at i:29096597 original size:6 final size:6
Alignment explanation
Indices: 29096595--29096656 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
29096585 ACTTTTTCAT
* * * *
29096595 TTTTCA TTTTGA CTTTAA TTTTGA TTTTGA TTTT-- TTCTT-T TTTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TT-TTGA TTTTGA
29096641 TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTT
29096657 TTTTAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
4 2 0.04
5 4 0.09
6 41 0.87
ACGTcount: A:0.15, C:0.05, G:0.10, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:29097361 original size:7 final size:7
Alignment explanation
Indices: 29097342--29097381 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
29097332 TTGTCCTCTC
29097342 CATTTTT
1 CATTTTT
29097349 -ACTTTTT
1 CA-TTTTT
29097356 CATTTTT
1 CATTTTT
29097363 CATTTTT
1 CATTTTT
29097370 CATTTTT
1 CATTTTT
29097377 CATTT
1 CATTT
29097382 CCATTTTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 1 0.03
7 29 0.94
8 1 0.03
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:29097361 original size:14 final size:14
Alignment explanation
Indices: 29097342--29097414 Score: 57
Period size: 14 Copynumber: 5.5 Consensus size: 14
29097332 TTGTCCTCTC
29097342 CATTTTTACTTTTT
1 CATTTTTACTTTTT
29097356 CATTTTT-CATTTTT
1 CATTTTTAC-TTTTT
* *
29097370 CATTTTT-CATTTC
1 CATTTTTACTTTTT
*
29097383 CATTTTGAC--TTT
1 CATTTTTACTTTTT
* *
29097395 GATTTTTATTTTTT
1 CATTTTTACTTTTT
29097409 C-TTTTT
1 CATTTTT
29097415 TTGATTTTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
12 8 0.17
13 15 0.32
14 24 0.51
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.70
Consensus pattern (14 bp):
CATTTTTACTTTTT
Found at i:29097435 original size:22 final size:22
Alignment explanation
Indices: 29097392--29097437 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
29097382 CCATTTTGAC
* *
29097392 TTTGATTTTTATTTTTTCTTTT
1 TTTGATTTTGATTTTATCTTTT
29097414 TTTGATTTTGATTTTGAT-TTTT
1 TTTGATTTTGATTTT-ATCTTTT
29097436 TT
1 TT
29097438 AAAAAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.78
Consensus pattern (22 bp):
TTTGATTTTGATTTTATCTTTT
Found at i:29102539 original size:25 final size:24
Alignment explanation
Indices: 29102487--29102552 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 24
29102477 AAATATAATC
* *
29102487 AAAT-ATAATAATAATAACAATAT
1 AAATAATAATAAAAATAACAATAG
* *
29102510 AAATAGTGATGAAAAATAACAATAG
1 AAATAATAAT-AAAAATAACAATAG
*
29102535 CAATAATAATAAAAATAA
1 AAATAATAATAAAAATAA
29102553 TTAAATGATT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
23 4 0.12
24 11 0.32
25 19 0.56
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.24
Consensus pattern (24 bp):
AAATAATAATAAAAATAACAATAG
Found at i:29104451 original size:40 final size:40
Alignment explanation
Indices: 29104407--29104488 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
29104397 TTATAATGTT
* *
29104407 TATGAAAAATAATATAGGTAATGGTTATATAAATCGGTTA
1 TATGAAAAATAATATAGGAAATGGTTATATAAATCAGTTA
* * *
29104447 TATGAAAAATAATATATGAAATTGTTATATGAATCAGTTA
1 TATGAAAAATAATATAGGAAATGGTTATATAAATCAGTTA
29104487 TA
1 TA
29104489 CGGAAAGAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (40 bp):
TATGAAAAATAATATAGGAAATGGTTATATAAATCAGTTA
Found at i:29104502 original size:27 final size:27
Alignment explanation
Indices: 29104472--29104538 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
29104462 ATGAAATTGT
29104472 TATATGAATCAG-TTATACGGAAAGAGA
1 TATATGAAT-AGATTATACGGAAAGAGA
* * *
29104499 TATATGAATTGATTATATGGAAATAGA
1 TATATGAATAGATTATACGGAAAGAGA
29104526 TATATGAAATAGA
1 TATATG-AATAGA
29104539 ACATCAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.03
27 28 0.82
28 5 0.15
ACGTcount: A:0.46, C:0.03, G:0.19, T:0.31
Consensus pattern (27 bp):
TATATGAATAGATTATACGGAAAGAGA
Found at i:29104534 original size:13 final size:13
Alignment explanation
Indices: 29104453--29104538 Score: 61
Period size: 13 Copynumber: 6.5 Consensus size: 13
29104443 GTTATATGAA
29104453 AAATA-ATATATG
1 AAATAGATATATG
* *
29104465 AAATTGTTATATG
1 AAATAGATATATG
* *
29104478 -AATCAGTTATACGG
1 AAAT-AGATATA-TG
*
29104492 AAAGAGATATATG
1 AAATAGATATATG
*
29104505 -AATTGATTATATGG
1 AAATAGA-TATAT-G
29104519 AAATAGATATATG
1 AAATAGATATATG
29104532 AAATAGA
1 AAATAGA
29104539 ACATCAGATA
Statistics
Matches: 57, Mismatches: 10, Indels: 13
0.71 0.12 0.16
Matches are distributed among these distances:
12 11 0.19
13 26 0.46
14 13 0.23
15 7 0.12
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (13 bp):
AAATAGATATATG
Found at i:29121199 original size:51 final size:51
Alignment explanation
Indices: 29121123--29121226 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
29121113 CTGAATATTG
*
29121123 TAGAGTTATACTCACAGTTTAAAAAAAATTACATCTTTAGGTGCATCCAAC
1 TAGAGTTATACTCACAGTTTAAAAAAAATTACAACTTTAGGTGCATCCAAC
29121174 TAGAGTTATACTCACAGTTTAAAAAAAATTACAACTTTAGGTGCATCCAAC
1 TAGAGTTATACTCACAGTTTAAAAAAAATTACAACTTTAGGTGCATCCAAC
29121225 TA
1 TA
29121227 TAACGAGTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (51 bp):
TAGAGTTATACTCACAGTTTAAAAAAAATTACAACTTTAGGTGCATCCAAC
Found at i:29125817 original size:26 final size:26
Alignment explanation
Indices: 29125743--29125822 Score: 83
Period size: 26 Copynumber: 3.0 Consensus size: 26
29125733 TTGTCAAAAA
* *
29125743 TATAACAA-ATATATATGTATATATAAAT
1 TATAA-AATATATATAAGTATATGT--AT
*
29125771 TATAAAATATATGTACA-TATATGTAT
1 TATAAAATATATATA-AGTATATGTAT
29125797 TATAAAATATATATAAGTATATGTAT
1 TATAAAATATATATAAGTATATGTAT
29125823 ATTTTAAGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 1 0.02
26 25 0.56
27 2 0.04
28 17 0.38
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (26 bp):
TATAAAATATATATAAGTATATGTAT
Found at i:29125825 original size:28 final size:28
Alignment explanation
Indices: 29125743--29125840 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
29125733 TTGTCAAAAA
* * *
29125743 TATAACAA-ATATATATGTATATATAAAT
1 TATAA-AATATATATAAGTATATGTATAT
*
29125771 TATAAAATATATGTACA-TATATG--TAT
1 TATAAAATATATATA-AGTATATGTATAT
29125797 TATAAAATATATATAAGTATATGTATAT
1 TATAAAATATATATAAGTATATGTATAT
* *
29125825 TTTAAGATAATATATA
1 TATAAAAT-ATATATA
29125841 CAAAAAAGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
25 1 0.02
26 22 0.39
27 2 0.04
28 25 0.44
29 7 0.12
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (28 bp):
TATAAAATATATATAAGTATATGTATAT
Found at i:29125923 original size:58 final size:56
Alignment explanation
Indices: 29125846--29125954 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
29125836 ATATACAAAA
* * *
29125846 AAGAATATATGTATGTATATATATATAGGAGTTATAAAATGTAAAACACATATATTAT
1 AAGAATATATGTATATATATAT-TATA-AAGTTATAAAATATAAAACACATATATTAT
* *
29125904 AAGAAT-TCATGTATATATATATTTTAAAGTTATAGAATATAAAACACATAT
1 AAGAATAT-ATGTATATATATATTATAAAGTTATAAAATATAAAACACATAT
29125955 GTATGTATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
56 22 0.49
57 4 0.09
58 19 0.42
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (56 bp):
AAGAATATATGTATATATATATTATAAAGTTATAAAATATAAAACACATATATTAT
Found at i:29127699 original size:44 final size:44
Alignment explanation
Indices: 29127651--29127958 Score: 185
Period size: 44 Copynumber: 7.2 Consensus size: 44
29127641 GTTTTAATCC
* * *
29127651 GCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTTTGTTT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTTTGTCT
* * * *
29127695 GCTCCACTACTACTT-AGGGAGATAAGACTT-G-ATC---CGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTTTCTTTTG-TCT
* ** * * ** *
29127735 GCTCTACTGCAACTTCAAAGAGATAAGATTTGTGGT-TTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGT-TTCTTTTGTCT
*
29127779 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTTTGTCT
* ** * *
29127823 GCTCCACTACTGCTT-AGGGAGATAAGACTT-GATGC----GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTTTCTTTTG-TCT
* * * * * ** *
29127863 GCTCTACTGCAACTTAAGAGAGATAAGATTTGTGGT-TTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGT-TTCTTTTGTCT
* *
29127907 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTTT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTTTGTCT
29127951 GCTCCACT
1 GCTCCACT
29127959 ACTGCTTAGG
Statistics
Matches: 194, Mismatches: 50, Indels: 40
0.68 0.18 0.14
Matches are distributed among these distances:
39 2 0.01
40 32 0.16
41 23 0.12
42 2 0.01
43 29 0.15
44 106 0.55
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTTTGTCT
Found at i:29127843 original size:128 final size:128
Alignment explanation
Indices: 29127641--29128068 Score: 732
Period size: 128 Copynumber: 3.3 Consensus size: 128
29127631 ATGATTCATC
*
29127641 GTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTTTGTTTGCTCCACTACT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTTTGCTCCACTACT
* *
29127706 ACTTAGGGAGATAAGACTTGATCCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGTG
66 GCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGTG
*
29127769 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTACT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTTTGCTCCACTACT
29127834 GCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTT-AAGAGAGATAAGATTTGTG
66 GCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAA-AGAGATAAGATTTGTG
29127897 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTTTGCTCCACTACT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTTTGCTCCACTACT
* * * *
29127962 GCTTAGGGATATAATACTTGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATTTGTG
66 GCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGTG
* * * *
29128025 GTTTTAATCTGCTCCACTACAACTTTAGAGAGATAGGATTGGTT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTT
29128069 CTTCCGATCT
Statistics
Matches: 285, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
127 2 0.01
128 282 0.99
129 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (128 bp):
GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTTTGCTCCACTACT
GCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGTG
Found at i:29128055 original size:44 final size:44
Alignment explanation
Indices: 29127731--29128064 Score: 192
Period size: 44 Copynumber: 7.8 Consensus size: 44
29127721 ACTTGATCCG
* *
29127731 ATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTA
* * * * * *
29127775 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGT-TTCTTTT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGT-TTTA
* * ** * *
29127819 GTCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGATGCG-----
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG-TG-GTTTTA
* *
29127859 ATCTGCTCTACTGCAACTTAAGAGAGATAAGATTTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTA
* * * * * *
29127903 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGT-TTCTTTT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGT-TTTA
* * * ** * * * *
29127947 GTTTGCTCCACTACTGCTT-AGGGATATAATACTTGATGCG-----
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG-TG-GTTTTA
* *
29127987 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATTTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTA
* * *
29128031 ATCTGCTCCACTACAACTTTAGAGAGATAGGATT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
29128065 GGTTCTTCCG
Statistics
Matches: 210, Mismatches: 60, Indels: 40
0.68 0.19 0.13
Matches are distributed among these distances:
39 2 0.01
40 30 0.14
41 26 0.12
43 26 0.12
44 126 0.60
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTA
Found at i:29128145 original size:45 final size:45
Alignment explanation
Indices: 29128080--29128261 Score: 265
Period size: 45 Copynumber: 4.0 Consensus size: 45
29128070 TTCCGATCTG
* * * * * *
29128080 CTTCACTGCCAGTACAGGAAGGCAAAATTTACTATCTTCGACCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTCGACCTA
*
29128125 CTTCGCTGCCAATACCGGAAGACAAGATCTACAATCTTCGACCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTCGACCTA
* * *
29128170 CTTCGTTGCAAATACAGGAAGACAAGATCTACAATCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTCGACCTA
*
29128215 CTTCGCTGCCAATATAGGAAGACAAGATCTACAATCTTCGACCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTCGACCTA
29128260 CT
1 CT
29128262 CCACTGATGT
Statistics
Matches: 122, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 122 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (45 bp):
CTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTCGACCTA
Found at i:29129296 original size:16 final size:16
Alignment explanation
Indices: 29129275--29129308 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
29129265 TTTTTCGTTC
29129275 TTCTTTTCT-TTTCTTT
1 TTCTTTT-TGTTTCTTT
29129291 TTCTTTTTGTTTCTTT
1 TTCTTTTTGTTTCTTT
29129307 TT
1 TT
29129309 TCAAGTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (16 bp):
TTCTTTTTGTTTCTTT
Found at i:29129766 original size:17 final size:17
Alignment explanation
Indices: 29129744--29129776 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29129734 CCGGTAGAGG
29129744 TTTTTTTATGTTTTTTA
1 TTTTTTTATGTTTTTTA
*
29129761 TTTTTTTTTGTTTTTT
1 TTTTTTTATGTTTTTT
29129777 TTTGCCTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (17 bp):
TTTTTTTATGTTTTTTA
Found at i:29133864 original size:26 final size:26
Alignment explanation
Indices: 29133831--29133894 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
29133821 AAAAATATAA
** *
29133831 AAAATATATATGTATTTATAAATTAT
1 AAAATATATATACATATATAAATTAT
* **
29133857 AAAATATATGTACATATATGTATTAT
1 AAAATATATATACATATATAAATTAT
29133883 AAAATATATATA
1 AAAATATATATA
29133895 TATAAGTATA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (26 bp):
AAAATATATATACATATATAAATTAT
Found at i:29133897 original size:24 final size:25
Alignment explanation
Indices: 29133852--29133903 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
29133842 GTATTTATAA
*
29133852 ATTATAAAATATATGTACATATATGT
1 ATTATAAAATATA-GTACATATAAGT
*
29133878 ATTATAAAATATA-TATATATAAGT
1 ATTATAAAATATAGTACATATAAGT
29133902 AT
1 AT
29133904 ACGTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.46
26 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (25 bp):
ATTATAAAATATAGTACATATAAGT
Found at i:29141678 original size:11 final size:11
Alignment explanation
Indices: 29141662--29141686 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29141652 TACATTTCAT
29141662 AAATTATAATA
1 AAATTATAATA
29141673 AAATTATAATA
1 AAATTATAATA
29141684 AAA
1 AAA
29141687 GCGTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTATAATA
Found at i:29144844 original size:20 final size:20
Alignment explanation
Indices: 29144819--29144872 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
29144809 AAATCAAATG
29144819 AAAATGATTTTAACCAA-TT
1 AAAATGATTTTAACCAAGTT
* *
29144838 CAAAATGATTTCAATCAAGTT
1 -AAAATGATTTTAACCAAGTT
*
29144859 AAAATTATTTTAAC
1 AAAATGATTTTAAC
29144873 ACATCAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (20 bp):
AAAATGATTTTAACCAAGTT
Found at i:29144869 original size:40 final size:40
Alignment explanation
Indices: 29144810--29144904 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
29144800 ATAATTTTAA
* * *
29144810 AATCAAATGAAAATGATTTTAAC-CAATTCAAAATGA-TTTC
1 AATCAAGTTAAAATTATTTTAACAC-A-TCAAAATGATTTTC
*
29144850 AATCAAGTTAAAATTATTTTAACACATCAAAATTATTTTC
1 AATCAAGTTAAAATTATTTTAACACATCAAAATGATTTTC
* *
29144890 AAACAAGTTAGAATT
1 AATCAAGTTAAAATT
29144905 GCTCCAGGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.17
40 38 0.81
41 1 0.02
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (40 bp):
AATCAAGTTAAAATTATTTTAACACATCAAAATGATTTTC
Found at i:29144904 original size:21 final size:21
Alignment explanation
Indices: 29144846--29144904 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
29144836 TTCAAAATGA
*
29144846 TTTCAATCAAGTTAAAATTAT
1 TTTCAAACAAGTTAAAATTAT
*
29144867 TTT--AACACA-TCAAAATTAT
1 TTTCAAACA-AGTTAAAATTAT
*
29144886 TTTCAAACAAGTTAGAATT
1 TTTCAAACAAGTTAAAATT
29144905 GCTCCAGGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
19 15 0.50
20 2 0.07
21 13 0.43
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (21 bp):
TTTCAAACAAGTTAAAATTAT
Found at i:29151444 original size:16 final size:16
Alignment explanation
Indices: 29151423--29151474 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
29151413 TTTGGTTCGC
29151423 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
29151439 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
29151455 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
29151471 TGTA
1 TGTA
29151475 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:29151521 original size:45 final size:44
Alignment explanation
Indices: 29151455--29151549 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
29151445 GGATTAGAGG
* * *
29151455 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
29151500 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
29151544 TGTAAT
1 TGTAAT
29151550 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:29151732 original size:18 final size:17
Alignment explanation
Indices: 29151711--29151745 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29151701 TTATTATTTA
*
29151711 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
29151729 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
29151746 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:29151739 original size:28 final size:27
Alignment explanation
Indices: 29151669--29151741 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
29151659 TTTATTATCA
*
29151669 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
29151697 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
29151724 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
29151742 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:29151879 original size:18 final size:17
Alignment explanation
Indices: 29151858--29151892 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29151848 TTATTATTAA
*
29151858 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
29151876 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
29151893 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:29151904 original size:147 final size:149
Alignment explanation
Indices: 29151630--29151904 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
29151620 ATGATTATTG
*
29151630 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
29151695 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
29151760 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
29151779 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
29151842 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
29151905 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:29151938 original size:61 final size:61
Alignment explanation
Indices: 29151873--29152060 Score: 185
Period size: 61 Copynumber: 3.1 Consensus size: 61
29151863 TTTTAATTAA
29151873 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * ** * * *
29151934 AATATATGATACTGTAA-AATATAAATTAA-AA-TAATAATTATTAAAT--ATATTA-T--AATT
1 AATATAT-A-A-TTTAATAAAAT-TCTTAATAATTAAT-ATTCTTATATGAAT-TTACTCAAATC
*
29151991 AA
60 AT
*
29151993 AATATATAATTTAATAAAATTCTTAATAATTAATAGTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
29152054 AATATAT
1 AATATAT
29152061 GATACTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 8 0.08
57 14 0.15
58 8 0.08
59 14 0.15
61 21 0.22
62 8 0.08
63 15 0.16
64 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:29151980 original size:120 final size:120
Alignment explanation
Indices: 29151836--29152133 Score: 492
Period size: 120 Copynumber: 2.5 Consensus size: 120
29151826 ATTTAATCAT
*
29151836 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
29151901 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
65 ATTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
*
29151958 A-TTAAAATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
29152022 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
29152077 ATTTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
29152134 TAAAATAATT
Statistics
Matches: 166, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
119 3 0.02
120 154 0.93
121 8 0.05
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:29151997 original size:16 final size:16
Alignment explanation
Indices: 29151957--29152002 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
29151947 GTAAAATATA
29151957 AATTAAAATA-ATAAT
1 AATTAAAATATATAAT
* *
29151972 TATT-AAATATATTAT
1 AATTAAAATATATAAT
29151987 AATTAAAATATATAAT
1 AATTAAAATATATAAT
29152003 TTAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAAATATATAAT
Found at i:29152144 original size:54 final size:54
Alignment explanation
Indices: 29151951--29152144 Score: 144
Period size: 54 Copynumber: 3.4 Consensus size: 54
29151941 GATACTGTAA
* *
29151951 AATATAAA-TTAAAATAA-TAATTATTAAATATATTATAATTAAAATATATAATTT
1 AATA-AAATTTAAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTT
* * * *
29152005 AATAAAATTCT-TAATAATTAATAGTCT-TATATGAATTTACTCAAATCATAATATATGATACTA
1 AATAAAATT-TAAAATAATTAATA-T-TAAATAT--ATTT--T--AATTAAAATATATGAT--T-
29152068 T
54 T
* *
29152069 AAAAGAAAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
1 --AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
29152125 AATAAAATTTAAAATAATTA
1 AATAAAATTTAAAATAATTA
29152145 TAACTAATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
53 3 0.03
54 30 0.28
55 9 0.08
56 2 0.02
57 4 0.04
59 15 0.14
61 14 0.13
63 5 0.05
64 2 0.02
65 6 0.06
66 19 0.17
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
Found at i:29154009 original size:24 final size:24
Alignment explanation
Indices: 29153968--29154015 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
29153958 CTACGAATCT
* *
29153968 GCATAAACCAAATGAAAATTATAA
1 GCATAAACCAAATAAAAATAATAA
29153992 GCATAAA-CAAATTAAAAATAATAA
1 GCATAAACCAAA-TAAAAATAATAA
29154016 TCTCCACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.62, C:0.10, G:0.06, T:0.21
Consensus pattern (24 bp):
GCATAAACCAAATAAAAATAATAA
Found at i:29160433 original size:30 final size:31
Alignment explanation
Indices: 29160399--29160458 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
29160389 AAACCTTTTA
*
29160399 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
29160429 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
29160459 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:29161110 original size:5 final size:5
Alignment explanation
Indices: 29161100--29161125 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
29161090 GAACAAATAT
29161100 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
29161126 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:29162547 original size:14 final size:15
Alignment explanation
Indices: 29162511--29162552 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
29162501 GTTCAAGGTG
29162511 TAATTAATTTAAATTT
1 TAATTAA-TTAAATTT
29162527 TAATTAATTAAA-TT
1 TAATTAATTAAATTT
*
29162541 TATTTAATTAAA
1 TAATTAATTAAA
29162553 AACATATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 13 0.52
15 5 0.20
16 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTAATTAAATTT
Found at i:29162748 original size:31 final size:29
Alignment explanation
Indices: 29162684--29162752 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
29162674 ATAATAACGT
** *
29162684 AAGTGACTAAAACGTAATATTTCAAACAT
1 AAGTGACTAAAACGTAATATGGCAAACAA
*
29162713 AAGTGACTAAAATGTAATATGAGGCAAACAA
1 AAGTGACTAAAACGTAATAT--GGCAAACAA
29162744 AAGTGACTA
1 AAGTGACTA
29162753 TTTTATAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (29 bp):
AAGTGACTAAAACGTAATATGGCAAACAA
Found at i:29174006 original size:40 final size:40
Alignment explanation
Indices: 29173951--29174027 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
29173941 ATAATATTTA
29173951 TAGACTCGATTTATAAAAATGAGATCTCAGCTTTTTTGTT
1 TAGACTCGATTTATAAAAATGAGATCTCAGCTTTTTTGTT
* *
29173991 TAGACTCGATTTATAAAAATGAGGTGTCAGCTTTTTT
1 TAGACTCGATTTATAAAAATGAGATCTCAGCTTTTTT
29174028 TTTTTTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.42
Consensus pattern (40 bp):
TAGACTCGATTTATAAAAATGAGATCTCAGCTTTTTTGTT
Found at i:29177564 original size:24 final size:24
Alignment explanation
Indices: 29177532--29177580 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
29177522 GACAATGACA
29177532 TAGTTACAGCATGAAAGGGTAGTT
1 TAGTTACAGCATGAAAGGGTAGTT
29177556 TAGTTACAGCATGAAAGGGTAGTT
1 TAGTTACAGCATGAAAGGGTAGTT
29177580 T
1 T
29177581 GGTTCCTTAA
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:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (24 bp):
TAGTTACAGCATGAAAGGGTAGTT
Found at i:29180292 original size:12 final size:11
Alignment explanation
Indices: 29180260--29180286 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
29180250 TAAAGAGATG
29180260 AAAAAAGAAAA
1 AAAAAAGAAAA
29180271 AAAAAAGAAAA
1 AAAAAAGAAAA
29180282 AAAAA
1 AAAAA
29180287 GGGAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:29182431 original size:24 final size:22
Alignment explanation
Indices: 29182354--29182428 Score: 55
Period size: 23 Copynumber: 3.3 Consensus size: 22
29182344 CAAGTAAAAA
*
29182354 TAATTAACAAATACTATATAATT
1 TAATTAATAAATACTATATAA-T
* * *
29182377 TAATTGAAATTAGTA-TAAATAAT
1 TAATT--AATAAATACTATATAAT
*
29182400 TTA-TAATAAATACTATATAAT
1 TAATTAATAAATACTATATAAT
29182421 GTAATTAA
1 -TAATTAA
29182429 ATATTTAGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
20 6 0.16
21 7 0.18
22 3 0.08
23 11 0.29
24 6 0.16
25 5 0.13
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (22 bp):
TAATTAATAAATACTATATAAT
Found at i:29187344 original size:110 final size:110
Alignment explanation
Indices: 29187215--29187471 Score: 272
Period size: 113 Copynumber: 2.3 Consensus size: 110
29187205 CAAGGCACCT
* *
29187215 TTTTTTTTTACTTTGGGACACTGATGACCGGCACCAATGT-ATT-TAAAAAATTTTGGGTGCTGG
1 TTTTTTTTTACTTTGGGACACTGATGACCGGCACCAATGTCATTAAAAAAAATTTGGGGTGCTGG
* * * *
29187278 CCAGTAGATGGCTAACACCAAGTACAATTTTTA-GTTC-CTAATGCATA
66 CAAGTAGATGACCAACACCAAGTAC-ATTTTTAGGCTCTC-AATG--TA
* * * * *
29187325 TTTTTTTTTATTTTGGGACACTAAT-AGCCAGCACCAGTGTCATTAAAAAAAAATTTGGGGTGTT
1 TTTTTTTTTACTTTGGGACACTGATGA-CCGGCACCAATGTCATT-AAAAAAAATTTGGGGTGCT
** *
29187389 GGCAAGTAGATGACCGGCACCAAGTACATTTTTCGGCTCTCAATGTA
64 GGCAAGTAGATGACCAACACCAAGTACATTTTTAGGCTCTCAATGTA
* * *
29187436 TTTTTTTTTACTTTGGGATACTGATGGCCGACACCA
1 TTTTTTTTTACTTTGGGACACTGATGACCGGCACCA
29187472 CCTTTTTCGG
Statistics
Matches: 120, Mismatches: 20, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
109 1 0.01
110 34 0.28
111 34 0.28
112 6 0.05
113 44 0.37
114 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (110 bp):
TTTTTTTTTACTTTGGGACACTGATGACCGGCACCAATGTCATTAAAAAAAATTTGGGGTGCTGG
CAAGTAGATGACCAACACCAAGTACATTTTTAGGCTCTCAATGTA
Found at i:29187411 original size:113 final size:110
Alignment explanation
Indices: 29187180--29187421 Score: 258
Period size: 110 Copynumber: 2.2 Consensus size: 110
29187170 AAAAAAATTT
* * * *
29187180 AGCACCAGGTACAATTTTCAGTTTCCAAGGCACCTTTTTTTTTTACTTTGGGACACTGATGACCG
1 AGCACCAAGTACAATTTTTAGTTTCCAAGGCA-CTTTTTTTTTTACTTTGGGACACTAATGACCA
* * * * *
29187245 GCACCAATGTATTTAAAAAATTTTGGGTGCTGGCCAGTAGATGGCT
65 GCACCAATGTATTAAAAAAATTTGGGGTGCTGGCAAGTAGATGACC
* * *
29187291 AACACCAAGTACAATTTTTAG-TTCCTAATGCA-TATTTTTTTTTATTTTGGGACACTAAT-AGC
1 AGCACCAAGTACAATTTTTAGTTTCC-AAGGCACT-TTTTTTTTTACTTTGGGACACTAATGA-C
* *
29187353 CAGCACCAGTGTCATTAAAAAAAAATTTGGGGTGTTGGCAAGTAGATGACC
63 CAGCACCAATGT-ATT--AAAAAAATTTGGGGTGCTGGCAAGTAGATGACC
*
29187404 GGCACCAAGTAC-ATTTTT
1 AGCACCAAGTACAATTTTT
29187422 CGGCTCTCAA
Statistics
Matches: 109, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
109 2 0.02
110 38 0.35
111 26 0.24
112 6 0.06
113 37 0.34
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (110 bp):
AGCACCAAGTACAATTTTTAGTTTCCAAGGCACTTTTTTTTTTACTTTGGGACACTAATGACCAG
CACCAATGTATTAAAAAAATTTGGGGTGCTGGCAAGTAGATGACC
Found at i:29190717 original size:22 final size:22
Alignment explanation
Indices: 29190692--29190760 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
29190682 AATACCATAT
29190692 ACATGCATATTTAATTTAAAGC
1 ACATGCATATTTAATTTAAAGC
* * ** *
29190714 ACAT-TAAATTATAATACAATA-T
1 ACATGCATATT-TAATTTAA-AGC
29190736 ACATGCATATTTAATTTAAAGC
1 ACATGCATATTTAATTTAAAGC
29190758 ACA
1 ACA
29190761 ATAAATTATA
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
21 5 0.15
22 23 0.70
23 5 0.15
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (22 bp):
ACATGCATATTTAATTTAAAGC
Found at i:29190721 original size:44 final size:44
Alignment explanation
Indices: 29190659--29190916 Score: 399
Period size: 44 Copynumber: 5.9 Consensus size: 44
29190649 TTCTTATTCC
* * * *
29190659 TAATTTAAAACACGTTAAATTATAATACCATATACATGCATATT
1 TAATTTAAAGCACATTAAATTATAATACAATATACATACATATT
*
29190703 TAATTTAAAGCACATTAAATTATAATACAATATACATGCATATT
1 TAATTTAAAGCACATTAAATTATAATACAATATACATACATATT
* *
29190747 TAATTTAAAGCACAATAAATTATAATACAATATACATATATATT
1 TAATTTAAAGCACATTAAATTATAATACAATATACATACATATT
* *
29190791 TATTTTAAAGCACATTAAATTATAATACAATATACATAAATATT
1 TAATTTAAAGCACATTAAATTATAATACAATATACATACATATT
*
29190835 TAATTTAAAGCACGTTAAATTATAATACAATATACATACATATT
1 TAATTTAAAGCACATTAAATTATAATACAATATACATACATATT
* * *
29190879 TATTTTAAAACTCATTAAATTATAATACAATATACATA
1 TAATTTAAAGCACATTAAATTATAATACAATATACATA
29190917 ACATGTCGAA
Statistics
Matches: 198, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 198 1.00
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (44 bp):
TAATTTAAAGCACATTAAATTATAATACAATATACATACATATT
Found at i:29191721 original size:16 final size:16
Alignment explanation
Indices: 29191700--29191735 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
29191690 AATAGGCTAA
29191700 AAATAATAAACAAAAC
1 AAATAATAAACAAAAC
**
29191716 AAATAATAAGGAAAAC
1 AAATAATAAACAAAAC
29191732 AAAT
1 AAAT
29191736 TAAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (16 bp):
AAATAATAAACAAAAC
Found at i:29191813 original size:3 final size:3
Alignment explanation
Indices: 29191805--29191839 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
29191795 ACAATCTAAG
* *
29191805 AAT AAT AAT AAT GAT AAT GAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
29191840 ATCTAAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:29192063 original size:27 final size:27
Alignment explanation
Indices: 29192020--29192093 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
29192010 GGAAAGTGGC
* * * *
29192020 TGGCGGCACCAAAGGTGCCAATGTGAT
1 TGGCGGCACCGATGGTGCCAAAGAGAT
29192047 TGGCGGCACCGATGGTGCCAAAGAGAT
1 TGGCGGCACCGATGGTGCCAAAGAGAT
* *
29192074 TGGTGGCACAGATGGTGCCA
1 TGGCGGCACCGATGGTGCCA
29192094 TACTAAGTGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.24, C:0.22, G:0.36, T:0.18
Consensus pattern (27 bp):
TGGCGGCACCGATGGTGCCAAAGAGAT
Found at i:29192378 original size:22 final size:22
Alignment explanation
Indices: 29192350--29192391 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
29192340 GGGTTTTTTT
29192350 ACCAAAATATTACAAAAAAAAA
1 ACCAAAATATTACAAAAAAAAA
*
29192372 ACCAAAATATTATAAAAAAA
1 ACCAAAATATTACAAAAAAA
29192392 GTTTATTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (22 bp):
ACCAAAATATTACAAAAAAAAA
Found at i:29192527 original size:27 final size:26
Alignment explanation
Indices: 29192467--29192579 Score: 75
Period size: 28 Copynumber: 4.0 Consensus size: 26
29192457 ATATTTTGGT
29192467 ATTTTTTTGTAATATTTTAGTAAAAA
1 ATTTTTTTGTAATATTTTAGTAAAAA
* *
29192493 ACCCTTTTTTGTATTATTTT-GTTAAATAA
1 A--TTTTTTTGTAATATTTTAG-TAAA-AA
* * **
29192522 ATTTTTTTTATAATATTTTGGTATATTATT
1 A-TTTTTTTGTAATATTTTAGTA-A--AAA
*
29192552 ATTATTTTTGTAATATTTTGGTAAAAA
1 ATT-TTTTTGTAATATTTTAGTAAAAA
29192579 A
1 A
29192580 CCCGTTTAGT
Statistics
Matches: 67, Mismatches: 11, Indels: 17
0.71 0.12 0.18
Matches are distributed among these distances:
26 1 0.01
27 3 0.04
28 35 0.52
29 8 0.12
30 19 0.28
31 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.57
Consensus pattern (26 bp):
ATTTTTTTGTAATATTTTAGTAAAAA
Found at i:29193464 original size:18 final size:18
Alignment explanation
Indices: 29193441--29193483 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
29193431 TTGATATGGT
*
29193441 TGGTGGTAAAGAAGAAGG
1 TGGTGGCAAAGAAGAAGG
*
29193459 TGGTGGCGAAGAAGAAGG
1 TGGTGGCAAAGAAGAAGG
29193477 TGGTGGC
1 TGGTGGC
29193484 GATCATTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.49, T:0.16
Consensus pattern (18 bp):
TGGTGGCAAAGAAGAAGG
Found at i:29193484 original size:18 final size:18
Alignment explanation
Indices: 29193449--29193485 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
29193439 GTTGGTGGTA
29193449 AAGAAGAAGGTGGTGGCG
1 AAGAAGAAGGTGGTGGCG
29193467 AAGAAGAAGGTGGTGGCG
1 AAGAAGAAGGTGGTGGCG
29193485 A
1 A
29193486 TCATTGGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.49, T:0.11
Consensus pattern (18 bp):
AAGAAGAAGGTGGTGGCG
Found at i:29195843 original size:14 final size:14
Alignment explanation
Indices: 29195824--29195866 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
29195814 TAACTAAAAC
29195824 TAGAATAATTAAAT
1 TAGAATAATTAAAT
29195838 TAGAATAATTAAAT
1 TAGAATAATTAAAT
*
29195852 TGGAATAATTAAAT
1 TAGAATAATTAAAT
29195866 T
1 T
29195867 TATACAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:29196296 original size:12 final size:12
Alignment explanation
Indices: 29196260--29196312 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
29196250 TTGTTCCGAA
29196260 TCTGGCTGGGGC
1 TCTGGCTGGGGC
* *
29196272 ACTGGCTGTGGC
1 TCTGGCTGGGGC
*
29196284 TCTGGTTGGGGC
1 TCTGGCTGGGGC
*
29196296 TCCT-GCTCGGGC
1 T-CTGGCTGGGGC
29196308 TCTGG
1 TCTGG
29196313 TGGTTCCGGA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
11 2 0.06
12 28 0.88
13 2 0.06
ACGTcount: A:0.02, C:0.26, G:0.43, T:0.28
Consensus pattern (12 bp):
TCTGGCTGGGGC
Found at i:29199264 original size:4 final size:4
Alignment explanation
Indices: 29199257--29199413 Score: 101
Period size: 4 Copynumber: 36.8 Consensus size: 4
29199247 CCTCTTCTTC
*
29199257 TTCT TTCT TT-T TTTT TCTCT TCTCAT TTCCTT TTCT TTCCT CTT-T TTCT
1 TTCT TTCT TTCT TTCT T-TCT T-TC-T TT-C-T TTCT TT-CT -TTCT TTCT
*
29199306 TTC- TT-T TTCT TCTCCT TTCCT TTCT TTCA TTC- TT-T TTCT TTCT TTCT
1 TTCT TTCT TTCT T-T-CT TT-CT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
*
29199353 TTCCT CTCCT TTCATT TTCT TTCTT TTCCT TTCT TTCT TTCT TTCT TTCT
1 TT-CT -TTCT TTC--T TTCT TTC-T TT-CT TTCT TTCT TTCT TTCT TTCT
29199403 TTCT TTCT TTC
1 TTCT TTCT TTC
29199414 CCTCTCCTTC
Statistics
Matches: 129, Mismatches: 5, Indels: 38
0.75 0.03 0.22
Matches are distributed among these distances:
3 13 0.10
4 72 0.56
5 27 0.21
6 17 0.13
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (4 bp):
TTCT
Found at i:29199285 original size:22 final size:21
Alignment explanation
Indices: 29199252--29199332 Score: 67
Period size: 23 Copynumber: 3.7 Consensus size: 21
29199242 CCTTCCCTCT
*
29199252 TCTTCTTCTTTCTTTTTTTTTC
1 TCTTC-TCTTTCTTTTTTTTCC
*
29199274 TCTTCTCATTTCCTTTTCTTTCC
1 TCTTCTC-TTT-CTTTTTTTTCC
*
29199297 TCTTTTTCTTTCTTTTTCTTCTCC
1 TC-TTCTCTTTCTTTTT-TT-TCC
29199321 T-TTC-CTTTCTTT
1 TCTTCTCTTTCTTT
29199333 CATTCTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
21 10 0.20
22 15 0.31
23 16 0.33
24 8 0.16
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.70
Consensus pattern (21 bp):
TCTTCTCTTTCTTTTTTTTCC
Found at i:29199317 original size:39 final size:40
Alignment explanation
Indices: 29199226--29199392 Score: 141
Period size: 39 Copynumber: 4.2 Consensus size: 40
29199216 TTACCTTTTT
** *
29199226 TTTCTTTTT-TT-TCC-TTCCTTCCCTCTTCTTCTTCTTTC
1 TTTCTTTTTCTTCTCCTTTCCTTTTCT-TTCCTCTTCTTTC
* *
29199264 TTTTTTTTTCTCTTCTCATTTCCTTTTCTTTCCTCTT-TTTC
1 -TTTCTTTT-TCTTCTCCTTTCCTTTTCTTTCCTCTTCTTTC
*
29199305 TTTCTTTTTCTTCTCCTTTCC-TTTCTTTCATTCTT-TTTC
1 TTTCTTTTTCTTCTCCTTTCCTTTTCTTTC-CTCTTCTTTC
* * *
29199344 TTTCTTTCTTTCCTCTCCTTTCATTTTCTTT-CTTTTCCTTTC
1 TTTC-TT-TTTCTTCTCCTTTCCTTTTCTTTCCTCTT-CTTTC
29199386 TTTCTTT
1 TTTCTTT
29199393 CTTTCTTTCT
Statistics
Matches: 106, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
38 8 0.08
39 31 0.29
40 14 0.13
41 21 0.20
42 24 0.23
43 8 0.08
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (40 bp):
TTTCTTTTTCTTCTCCTTTCCTTTTCTTTCCTCTTCTTTC
Found at i:29199386 original size:38 final size:35
Alignment explanation
Indices: 29199220--29199412 Score: 144
Period size: 38 Copynumber: 5.2 Consensus size: 35
29199210 TAAAAATTAC
* *
29199220 CTTT-TTTTTCTTTTTTTTCCTTCCTTCCCTCTTCTTCTT
1 CTTTCTTTTTC-TTTCTTTCTTTCCTT-CCT-TTC-T-TT
* *
29199259 CTTTCTTTTT-TTT-TCTCTTCTCATTTCCTTTTCTTT
1 CTTTCTTTTTCTTTCTTTCTT-TC-CTTCC-TTTCTTT
*
29199295 C-CTCTTTTTCTTTCTTTTTCTTCTCCTTTCCTTTCTTT
1 CTTTCTTTTTCTTTC--TTTCTT-TCC-TTCCTTTCTTT
*
29199333 CATTCTTTTTCTTTCTTTCTTTCCTCTCCTTTCATTTT
1 CTTTCTTTTTCTTTCTTTCTTTCCT-TCCTTTC--TTT
* *
29199371 CTTTCTTTTCCTTTCTTTCTTT-CTTTCTTTCTTT
1 CTTTCTTTTTCTTTCTTTCTTTCCTTCCTTTCTTT
29199405 CTTTCTTT
1 CTTTCTTT
29199413 CCCTCTCCTT
Statistics
Matches: 131, Mismatches: 10, Indels: 31
0.76 0.06 0.18
Matches are distributed among these distances:
34 11 0.08
35 8 0.06
36 22 0.17
37 13 0.10
38 41 0.31
39 31 0.24
40 5 0.04
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (35 bp):
CTTTCTTTTTCTTTCTTTCTTTCCTTCCTTTCTTT
Found at i:29199386 original size:42 final size:39
Alignment explanation
Indices: 29199251--29199413 Score: 149
Period size: 41 Copynumber: 4.1 Consensus size: 39
29199241 TCCTTCCCTC
*
29199251 TTCTTCTTCTTTCTTT-TTTTTTCTCTTCTCATTTCCTTTTCT
1 TTCTTCTT-TTTCTTTCTTTTTTC-C-TCTCCTTT-CTTTTCT
* * *
29199293 TTCCTCTTTTTCTTTC-TTTTTCTTCTCCTTTCCTTTCT
1 TTCTTCTTTTTCTTTCTTTTTTCCTCTCCTTTCTTTTCT
29199331 TTCATTCTTTTTCTTTCTTTCTTTCCTCTCCTTTCATTTTCT
1 TTC-TTCTTTTTCTTTCTTT-TTTCCTCTCCTTTC-TTTTCT
*
29199373 TTCTT-TTCCTTTCTTTCTTTCTTT-CT-TTCTTTC-TTTCT
1 TTCTTCTT--TTTCTTTCTTT-TTTCCTCTCCTTTCTTTTCT
29199411 TTC
1 TTC
29199414 CCTCTCCTTC
Statistics
Matches: 106, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
38 17 0.16
39 19 0.18
40 10 0.09
41 30 0.28
42 30 0.28
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (39 bp):
TTCTTCTTTTTCTTTCTTTTTTCCTCTCCTTTCTTTTCT
Found at i:29201367 original size:39 final size:40
Alignment explanation
Indices: 29201273--29201367 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 40
29201263 GTTTGGAACA
* * *
29201273 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTAGCC
1 AAAGCGCCACAAAAAATAGAGAATTAGCGGCGATTTAGAC
* * * * * *
29201313 AAAGCGCCGCTAAAAATAG-GAATTAGTGGCGTTTTATAT
1 AAAGCGCCACAAAAAATAGAGAATTAGCGGCGATTTAGAC
29201352 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
29201368 CCTAAGACCA
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
39 28 0.64
40 16 0.36
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (40 bp):
AAAGCGCCACAAAAAATAGAGAATTAGCGGCGATTTAGAC
Found at i:29201466 original size:41 final size:41
Alignment explanation
Indices: 29201405--29201667 Score: 287
Period size: 41 Copynumber: 6.4 Consensus size: 41
29201395 ATTTTTTAAA
* *
29201405 CCTTTAGCGGCGTTTGTATCTAAGCGCCGCTAATTCTCTGG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
** *
29201446 CCTTTAGCGGCGTTTTTATCTAAGCGCCTATAATGCTCGGG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
* * *
29201487 TCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
* * *
29201528 CCTTTGGCGGCATTTTTATATAAGCGCCGCTAATGCTC-GG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
* * * * * * *
29201568 ATCTTTAGCGGCGTTTTTAACTGAGCGCCACAAATTCTCTTG
1 -CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
* * * **
29201610 TCTTTAGCGGCGTTTGTAGCTAAGCGCCGCTAATGCAT-TTA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC-TCTGG
29201651 CCTTTAGCGGCGTTTTT
1 CCTTTAGCGGCGTTTTT
29201668 GCCGAAACGC
Statistics
Matches: 183, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
40 2 0.01
41 179 0.98
42 2 0.01
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
Found at i:29201544 original size:82 final size:82
Alignment explanation
Indices: 29201406--29201667 Score: 337
Period size: 82 Copynumber: 3.2 Consensus size: 82
29201396 TTTTTTAAAC
* *
29201406 CTTTAGCGGCGTTTGTATCTAAGCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGC
* *
29201471 GCCTATAATGCTCGGGT
66 GCCGATAATGCTCGGAT
* * *
29201488 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGGCCTTTGGCGGCATTTTTATATAAGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGC
*
29201553 GCCGCTAATGCTCGGAT
66 GCCGATAATGCTCGGAT
* * * * * * *
29201570 CTTTAGCGGCGTTTTTAACTGAGCGCCACAAATTCTCTTGTCTTTAGCGGCGTTTGTAGCTAAGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGC
* ** *
29201635 GCCGCTAATGCAT-TTAC
66 GCCGATAATGC-TCGGAT
29201652 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
29201668 GCCGAAACGC
Statistics
Matches: 158, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
82 157 0.99
83 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGC
GCCGATAATGCTCGGAT
Found at i:29201655 original size:123 final size:123
Alignment explanation
Indices: 29201404--29201667 Score: 318
Period size: 123 Copynumber: 2.1 Consensus size: 123
29201394 GATTTTTTAA
* * * *
29201404 ACCTTTAGCGGCGTTTGTATCTAAGCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAA
1 ACCTTTAGCGGCGTTTTTATATAAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTAACTAA
* * * * *
29201469 GCGCCTATAATGCTCGGGTCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTG
66 GCGCCTAAAATGCTCGGGTCTTTAGCGGCGTTTGTAGCTAAGCGCCGCTAATGCTCTG
* * * * *
29201527 GCCTTTGGCGGCATTTTTATATAAGCGCCGCTAATGCTC-GGATCTTTAGCGGCGTTTTTAACTG
1 ACCTTTAGCGGCGTTTTTATATAAGCGCCGCTAATGCTCTGG-CCTTTAGCGGCGTTTTTAACTA
* ** *
29201591 AGCGCC-ACAAATTCTCTTGTCTTTAGCGGCGTTTGTAGCTAAGCGCCGCTAATGCAT-TT
65 AGCGCCTA-AAATGCTCGGGTCTTTAGCGGCGTTTGTAGCTAAGCGCCGCTAATGC-TCTG
29201650 ACCTTTAGCGGCGTTTTT
1 ACCTTTAGCGGCGTTTTT
29201668 GCCGAAACGC
Statistics
Matches: 117, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
122 3 0.03
123 113 0.97
124 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (123 bp):
ACCTTTAGCGGCGTTTTTATATAAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTAACTAA
GCGCCTAAAATGCTCGGGTCTTTAGCGGCGTTTGTAGCTAAGCGCCGCTAATGCTCTG
Found at i:29202203 original size:15 final size:15
Alignment explanation
Indices: 29202182--29202216 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
29202172 TTTAAGGTTA
29202182 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
*
29202197 GTTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
29202212 ATTTA
1 ATTTA
29202217 AGGTTTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:29203475 original size:7 final size:7
Alignment explanation
Indices: 29203465--29203543 Score: 50
Period size: 7 Copynumber: 10.4 Consensus size: 7
29203455 AATTTAATGT
29203465 TTAGGGG
1 TTAGGGG
29203472 TTAGGGGG
1 TTA-GGGG
29203480 ATGTAGGGG
1 -T-TAGGGG
*
29203489 TTAAGGG
1 TTAGGGG
* **
29203496 TTATGCT
1 TTAGGGG
29203503 TTAGGGG
1 TTAGGGG
29203510 TTAGGGG
1 TTAGGGG
*
29203517 ATTTAAGGG
1 --TTAGGGG
*
29203526 TAAGGGG
1 TTAGGGG
29203533 TTAAGGGG
1 TT-AGGGG
29203541 TTA
1 TTA
29203544 TGGATTTGGG
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
7 30 0.55
8 12 0.22
9 11 0.20
10 2 0.04
ACGTcount: A:0.22, C:0.01, G:0.47, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:29206265 original size:17 final size:18
Alignment explanation
Indices: 29206214--29206306 Score: 55
Period size: 21 Copynumber: 4.8 Consensus size: 18
29206204 ATTGCTTACA
29206214 TTACTTACTAAAATATAT
1 TTACTTACTAAAATATAT
* *
29206232 TACATAATTACTTAAATAT-T
1 T---TACTTACTAAAATATAT
*
29206252 TTACTTACTAAAATTTATAAC
1 TTACTTACTAAAA--TAT-AT
*
29206273 TTACATTACTTAAATATA-
1 TTAC-TTACTAAAATATAT
29206291 TTACATTACTTAAAAT
1 TTAC-TTAC-TAAAAT
29206307 TTATATATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
17 10 0.17
18 10 0.17
19 9 0.15
20 5 0.08
21 17 0.29
22 8 0.14
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (18 bp):
TTACTTACTAAAATATAT
Found at i:29206333 original size:45 final size:39
Alignment explanation
Indices: 29206213--29206333 Score: 129
Period size: 38 Copynumber: 3.0 Consensus size: 39
29206203 CATTGCTTAC
* *
29206213 ATTACTTACTAAAATATATTACA-TA-ATTACTTAAATAT
1 ATTACTTACTAAAATTTA-TAAATTACATTACTTAAATAT
* *
29206251 TTTACTTACTAAAATTTATAACTTACATTACTTAAATAT
1 ATTACTTACTAAAATTTATAAATTACATTACTTAAATAT
29206290 ATTACATTACTTAAAATTTATATATATATTACATTACTTAAATA
1 ATTAC-TTAC-TAAAA-TT-TATA-A-ATTACATTACTTAAATA
29206334 AAAATTAGCT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
37 2 0.03
38 18 0.26
39 17 0.25
40 4 0.06
41 5 0.07
42 2 0.03
43 4 0.06
44 1 0.01
45 16 0.23
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (39 bp):
ATTACTTACTAAAATTTATAAATTACATTACTTAAATAT
Found at i:29206905 original size:34 final size:34
Alignment explanation
Indices: 29206862--29206926 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
29206852 CATAACTTAA
29206862 TTAATTAATTAATATTATACATAAATTACATCAC
1 TTAATTAATTAATATTATACATAAATTACATCAC
*
29206896 TTAATTAATTAATATTATACATAACTTACAT
1 TTAATTAATTAATATTATACATAAATTACAT
29206927 TAATATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (34 bp):
TTAATTAATTAATATTATACATAAATTACATCAC
Found at i:29206931 original size:22 final size:22
Alignment explanation
Indices: 29206898--29206948 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
29206888 TACATCACTT
29206898 AATTA-ATTAATATTATACATA
1 AATTACATTAATATTATACATA
*
29206919 ACTTACATTAATATTATACATA
1 AATTACATTAATATTATACATA
29206941 AATTACAT
1 AATTACAT
29206949 AACTTAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTACATTAATATTATACATA
Found at i:29206937 original size:56 final size:56
Alignment explanation
Indices: 29206869--29206982 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
29206859 TAATTAATTA
*
29206869 ATTAATATTATACATAAATTACATCACTTAATTAATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTAC
29206925 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTAC
29206981 AT
1 AT
29206983 AACTTACAAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.41
Consensus pattern (56 bp):
ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTAC
Found at i:29206949 original size:9 final size:9
Alignment explanation
Indices: 29206935--29207186 Score: 102
Period size: 9 Copynumber: 30.2 Consensus size: 9
29206925 ATTAATATTA
*
29206935 TACATAAAT
1 TACATAACT
29206944 TACATAACT
1 TACATAACT
29206953 TA-ATTAA-T
1 TACA-TAACT
*
29206961 TA-AT-ATT
1 TACATAACT
29206968 ATACATAACT
1 -TACATAACT
29206978 TACATAACT
1 TACATAACT
29206987 TAC--AACT
1 TACATAACT
29206994 TACATAACT
1 TACATAACT
***
29207003 TACATTTTTT
1 TACA-TAACT
*
29207013 TA-ATTA-T
1 TACATAACT
*
29207020 T-CATAAAT
1 TACATAACT
29207028 TACATAACT
1 TACATAACT
* *
29207037 TACTTAATT
1 TACATAACT
*
29207046 TTCATAA--
1 TACATAACT
*
29207053 TAAATAACT
1 TACATAACT
*
29207062 TACACAACT
1 TACATAACT
29207071 TACATAA--
1 TACATAACT
*
29207078 TACTTAACT
1 TACATAACT
* *
29207087 TATATGACT
1 TACATAACT
29207096 TACATAACT
1 TACATAACT
29207105 T--AT-A--
1 TACATAACT
*
29207109 TAGCATAATT
1 TA-CATAACT
*
29207119 TTCATAA--
1 TACATAACT
*
29207126 TACACAACT
1 TACATAACT
*
29207135 TACATAATT
1 TACATAACT
*
29207144 TTCATAA--
1 TACATAACT
*
29207151 TAAATAACT
1 TACATAACT
29207160 TACATAA--
1 TACATAACT
29207167 TACATAACT
1 TACATAACT
*
29207176 TACATAGCT
1 TACATAACT
29207185 TA
1 TA
29207187 ATTATACTTA
Statistics
Matches: 183, Mismatches: 33, Indels: 54
0.68 0.12 0.20
Matches are distributed among these distances:
4 1 0.01
6 2 0.01
7 46 0.25
8 12 0.07
9 115 0.63
10 7 0.04
ACGTcount: A:0.44, C:0.16, G:0.01, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:29206995 original size:16 final size:16
Alignment explanation
Indices: 29206974--29207006 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
29206964 TATTATACAT
29206974 AACTTACATAACTTAC
1 AACTTACATAACTTAC
29206990 AACTTACATAACTTAC
1 AACTTACATAACTTAC
29207006 A
1 A
29207007 TTTTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:29207062 original size:25 final size:25
Alignment explanation
Indices: 29207028--29207167 Score: 117
Period size: 25 Copynumber: 5.7 Consensus size: 25
29207018 ATTCATAAAT
*
29207028 TACATAACTTACTTAATTTTCATAA
1 TACATAACTTACATAATTTTCATAA
* * * *
29207053 TAAATAACTTACACAACTTACATAA
1 TACATAACTTACATAATTTTCATAA
* * * * *
29207078 TACTTAACTTATATGACTTACAT-A
1 TACATAACTTACATAATTTTCATAA
*
29207102 -AC-TTA-TATAGCATAATTTTCATAA
1 TACATAACT-TA-CATAATTTTCATAA
*
29207126 TACACAACTTACATAATTTTCATAA
1 TACATAACTTACATAATTTTCATAA
*
29207151 TAAATAACTTACATAAT
1 TACATAACTTACATAAT
29207168 ACATAACTTA
Statistics
Matches: 90, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
21 1 0.01
22 4 0.04
23 10 0.11
24 2 0.02
25 69 0.77
26 3 0.03
27 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.01, T:0.38
Consensus pattern (25 bp):
TACATAACTTACATAATTTTCATAA
Found at i:29207065 original size:34 final size:34
Alignment explanation
Indices: 29206990--29207078 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
29206980 CATAACTTAC
* * **
29206990 AACTTACATAACTTACATT-TTTTTAATTATTCAT
1 AACTTACATAACTTAC-TTAATTTTAATAATAAAT
* *
29207024 AAATTACATAACTTACTTAATTTTCATAATAAAT
1 AACTTACATAACTTACTTAATTTTAATAATAAAT
* *
29207058 AACTTACACAACTTACATAAT
1 AACTTACATAACTTACTTAAT
29207079 ACTTAACTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 2 0.04
34 43 0.96
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.42
Consensus pattern (34 bp):
AACTTACATAACTTACTTAATTTTAATAATAAAT
Found at i:29207086 original size:84 final size:84
Alignment explanation
Indices: 29206931--29207088 Score: 212
Period size: 84 Copynumber: 1.9 Consensus size: 84
29206921 TTACATTAAT
* * * *
29206931 ATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATAACTTACAACTTA
1 ATTATACATAAATTACATAACTTAATTAATTAATATAATAAATAACTTACACAACTTACAACATA
29206996 CATAACTTACATTTTTTTA
66 CATAACTTACATTTTTTTA
* * *
29207015 ATTATTCATAAATTACATAACTTACTTAATT-TTCATAATAAATAACTTACACAACTTACATA-A
1 ATTATACATAAATTACATAACTTAATTAATTAAT-ATAATAAATAACTTACACAACTTACA-ACA
*
29207078 TACTTAACTTA
64 TACATAACTTA
29207089 TATGACTTAC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 1 0.02
84 62 0.97
85 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (84 bp):
ATTATACATAAATTACATAACTTAATTAATTAATATAATAAATAACTTACACAACTTACAACATA
CATAACTTACATTTTTTTA
Found at i:29207157 original size:16 final size:16
Alignment explanation
Indices: 29207146--29207181 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
29207136 ACATAATTTT
29207146 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
29207162 CATAATACATAACTTA
1 CATAATAAATAACTTA
29207178 CATA
1 CATA
29207182 GCTTAATTAT
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:0.53, C:0.17, G:0.00, T:0.31
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:29212674 original size:21 final size:21
Alignment explanation
Indices: 29212648--29212739 Score: 76
Period size: 21 Copynumber: 4.2 Consensus size: 21
29212638 AACTTAAAGT
* *
29212648 AGAGGCGGCAGCGAGGGAAGC
1 AGAGGCCGCAGCGAGAGAAGC
** *
29212669 AGAGGCTACAGCGAGAGAAAC
1 AGAGGCCGCAGCGAGAGAAGC
*
29212690 AGAGGCCGCAGAGAGAGAAGC
1 AGAGGCCGCAGCGAGAGAAGC
** *
29212711 AGCGAGAGAAGCAGCGATAGAAGC
1 A--GAG-GCCGCAGCGAGAGAAGC
29212735 AGAGG
1 AGAGG
29212740 TTCAAAAGAA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
21 36 0.64
22 3 0.05
23 3 0.05
24 14 0.25
ACGTcount: A:0.38, C:0.17, G:0.42, T:0.02
Consensus pattern (21 bp):
AGAGGCCGCAGCGAGAGAAGC
Done.