Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 100 of 444
Found at i:24403433 original size:55 final size:54
Alignment explanation
Indices: 24403364--24403479 Score: 171
Period size: 55 Copynumber: 2.1 Consensus size: 54
24403354 TTATGTGATC
*
24403364 AAATGACCGAAATA-CCCTCATAAGGTAAAATGACCGAAATACCCCCTATAGGGTA
1 AAATGACCAAAATACCCCT-ATAAGGTAAAATGACCGAAATA-CCCCTATAGGGTA
* * *
24403419 GAATGACCAAAATACCCCTATAAGGTAGAATGACTGAAATACCCCTATAGGGTA
1 AAATGACCAAAATACCCCTATAAGGTAAAATGACCGAAATACCCCTATAGGGTA
24403473 AAATGAC
1 AAATGAC
24403480 TATTTTACCC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 19 0.35
55 32 0.58
56 4 0.07
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (54 bp):
AAATGACCAAAATACCCCTATAAGGTAAAATGACCGAAATACCCCTATAGGGTA
Found at i:24403480 original size:27 final size:27
Alignment explanation
Indices: 24403364--24403479 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
24403354 TTATGTGATC
24403364 AAATGACCGAAATA-CCCTCATAAGGTA
1 AAATGACCGAAATACCCCT-ATAAGGTA
*
24403391 AAATGACCGAAATACCCCCTATAGGGTA
1 AAATGACCGAAATA-CCCCTATAAGGTA
* *
24403419 GAATGACCAAAATACCCCTATAAGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
* * *
24403446 GAATGACTGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
24403473 AAATGAC
1 AAATGAC
24403480 TATTTTACCC
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
27 56 0.71
28 19 0.24
29 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCTATAAGGTA
Found at i:24403488 original size:27 final size:28
Alignment explanation
Indices: 24403364--24403509 Score: 117
Period size: 27 Copynumber: 5.4 Consensus size: 28
24403354 TTATGTGATC
* *
24403364 AAATGACCGA-AATA-CCCTCATAAGGTA
1 AAATGACTGATAATACCCCT-ATAGGGTA
*
24403391 AAATGACCGA-AATACCCCCTATAGGGTA
1 AAATGACTGATAATA-CCCCTATAGGGTA
* * * *
24403419 GAATGAC-CAAAATACCCCTATAAGGTA
1 AAATGACTGATAATACCCCTATAGGGTA
*
24403446 GAATGACTGA-AATACCCCTATAGGGTA
1 AAATGACTGATAATACCCCTATAGGGTA
** **
24403473 AAATGACT-ATTTTACCCCTCGAGGGTA
1 AAATGACTGATAATACCCCTATAGGGTA
24403500 AAA-GACTGAT
1 AAATGACTGAT
24403510 TTGTGCTATG
Statistics
Matches: 102, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
26 5 0.05
27 75 0.74
28 18 0.18
29 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (28 bp):
AAATGACTGATAATACCCCTATAGGGTA
Found at i:24403676 original size:26 final size:26
Alignment explanation
Indices: 24403647--24403696 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
24403637 TTTATACTGA
*
24403647 TTATTGGCAGCTTTGCTGTGATACCG
1 TTATTGGCAGCTTTGCTGCGATACCG
*
24403673 TTATTGGCAGCTTTGTTGCGATAC
1 TTATTGGCAGCTTTGCTGCGATAC
24403697 TAATATTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.18, G:0.26, T:0.40
Consensus pattern (26 bp):
TTATTGGCAGCTTTGCTGCGATACCG
Found at i:24403703 original size:26 final size:26
Alignment explanation
Indices: 24403648--24403705 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
24403638 TTATACTGAT
* **
24403648 TATTGGCAGCTTTGCTGTGATACCGT
1 TATTGGCAGCTTTGCTGCGATACCAA
* *
24403674 TATTGGCAGCTTTGTTGCGATACTAA
1 TATTGGCAGCTTTGCTGCGATACCAA
24403700 TATTGG
1 TATTGG
24403706 TGTGTCTGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.40
Consensus pattern (26 bp):
TATTGGCAGCTTTGCTGCGATACCAA
Found at i:24405075 original size:20 final size:20
Alignment explanation
Indices: 24405050--24405100 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
24405040 AAGGGACGAG
24405050 AAACGGGCCAAAAATAGAGA
1 AAACGGGCCAAAAATAGAGA
24405070 AAACGGGCCAAAAATAGAGA
1 AAACGGGCCAAAAATAGAGA
*
24405090 AAATGGGCCAA
1 AAACGGGCCAA
24405101 TGTACGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (20 bp):
AAACGGGCCAAAAATAGAGA
Found at i:24405455 original size:16 final size:16
Alignment explanation
Indices: 24405434--24405464 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24405424 CAAGAGTTTT
*
24405434 TTTGGTTTTCTTTATG
1 TTTGGTATTCTTTATG
24405450 TTTGGTATTCTTTAT
1 TTTGGTATTCTTTAT
24405465 TCTTTTGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.16, T:0.68
Consensus pattern (16 bp):
TTTGGTATTCTTTATG
Found at i:24423354 original size:42 final size:43
Alignment explanation
Indices: 24423308--24423389 Score: 96
Period size: 42 Copynumber: 1.9 Consensus size: 43
24423298 ATCAAACATC
*
24423308 GATG-CAACTACCCCAGACAGGGTCTCACACG-GAAACAGATAA
1 GATGCCAA-TACCCCAGACAGGGTCTCACACGTAAAACAGATAA
** * *
24423350 GATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAGA
1 GATGCCAATACCCCAGACAGGGTCTCACACGTAAAACAGA
24423390 AGTCGATGCC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
42 23 0.70
43 10 0.30
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.16
Consensus pattern (43 bp):
GATGCCAATACCCCAGACAGGGTCTCACACGTAAAACAGATAA
Found at i:24424698 original size:30 final size:30
Alignment explanation
Indices: 24424664--24424721 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
24424654 AAGACTAATT
*
24424664 CCACACGATCTGAG-CACACGCCCATGTGAG
1 CCACACGAGCTG-GCCACACGCCCATGTGAG
*
24424694 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACGAGCTGGCCACACGCCCATGTG
24424722 GCAGCTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.22, C:0.40, G:0.26, T:0.12
Consensus pattern (30 bp):
CCACACGAGCTGGCCACACGCCCATGTGAG
Found at i:24428849 original size:28 final size:29
Alignment explanation
Indices: 24428788--24428866 Score: 69
Period size: 28 Copynumber: 2.8 Consensus size: 29
24428778 CTGTCGTCCC
*
24428788 TTTCTCTTTCCTTTCTTCCCTTTCTCTCTT
1 TTTCTCTTTCCTTTC-TCCCTTTCTCTCTA
24428818 TTTCTTCTTTCCTTTC-CCC-TTCATC-CTA
1 TTTC-TCTTTCCTTTCTCCCTTTC-TCTCTA
*
24428846 TTTC-C-TTCCCTTCTCCTCTTT
1 TTTCTCTTTCCTTTCTCC-CTTT
24428867 GAACCAACCA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
25 7 0.17
26 3 0.07
27 1 0.02
28 11 0.26
29 5 0.12
30 4 0.10
31 11 0.26
ACGTcount: A:0.03, C:0.39, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTCTCTTTCCTTTCTCCCTTTCTCTCTA
Found at i:24429135 original size:6 final size:6
Alignment explanation
Indices: 24429126--24429160 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
24429116 TTTGACATAC
* *
24429126 TTTTTA TTTTTA TTTTTC TTTTTA TTATTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
24429161 TTCTTTTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:24429156 original size:24 final size:26
Alignment explanation
Indices: 24429132--24429181 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
24429122 ATACTTTTTA
24429132 TTTTTATTTTTCTTTTT-ATTATTATT
1 TTTTTATTTTTCTTTTTAATTATTA-T
*
24429158 TTTTTCTTTTTCTTTTTAATTATT
1 TTTTTATTTTTCTTTTTAATTATT
24429182 TCTTTAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTTATTTTTCTTTTTAATTATTAT
Found at i:24429173 original size:12 final size:12
Alignment explanation
Indices: 24429126--24429213 Score: 61
Period size: 14 Copynumber: 6.8 Consensus size: 12
24429116 TTTGACATAC
*
24429126 TTTTTATTTTTA
1 TTTTTCTTTTTA
24429138 TTTTTCTTTTTA
1 TTTTTCTTTTTA
* *
24429150 TTATTATTTTTTTC
1 TT-TT-TCTTTTTA
24429164 TTTTTCTTTTTAA
1 TTTTTCTTTTT-A
24429177 TTATTTCTTTAGTTA
1 TT-TTTCTTT--TTA
24429192 -TTTTCTTTCTTTA
1 TTTTTC-TT-TTTA
*
24429205 TTTGTCTTT
1 TTTTTCTTT
24429214 GCTAACTCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
12 20 0.33
13 15 0.25
14 22 0.36
15 2 0.03
16 2 0.03
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTTTA
Found at i:24429183 original size:20 final size:19
Alignment explanation
Indices: 24429125--24429186 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
24429115 TTTTGACATA
24429125 CTTTTTATTTTT-ATTTTT
1 CTTTTTATTTTTAATTTTT
* *
24429143 CTTTTTATTATTATTTTTTT
1 CTTTTTATTTTTA-ATTTTT
*
24429163 CTTTTTCTTTTTAATTATTT
1 CTTTTTATTTTTAATT-TTT
24429183 CTTT
1 CTTT
24429187 AGTTATTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 11 0.31
19 2 0.06
20 23 0.64
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (19 bp):
CTTTTTATTTTTAATTTTT
Found at i:24434768 original size:40 final size:40
Alignment explanation
Indices: 24434713--24434922 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
24434703 AACATTGGAA
24434713 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
24434753 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
24434793 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
24434833 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
24434872 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
24434913 CTATATCCGG
1 ATATATCCGG
24434923 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:24441095 original size:40 final size:40
Alignment explanation
Indices: 24441036--24441166 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
24441026 CGGGACTTTA
* * *
24441036 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
24441076 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
24441116 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
24441156 CCCGGATATAA
1 CCCGGATATAA
24441167 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:24441199 original size:39 final size:40
Alignment explanation
Indices: 24441053--24441203 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
24441043 ATCACGATTT
* * * *
24441053 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
24441093 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
24441133 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
24441172 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
24441204 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:24451867 original size:29 final size:29
Alignment explanation
Indices: 24451839--24451940 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
24451829 CCTCCGAGCT
** * * *
24451839 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
24451868 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
24451897 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
24451926 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
24451941 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:24456751 original size:40 final size:40
Alignment explanation
Indices: 24456689--24456912 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
24456679 AACCCAAGTA
* * * *
24456689 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
24456728 CCTTCGGGACTTAGCCCGGATATAGTAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACT-AGCACAAATG
*
24456768 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
* * * *
24456809 CCTTTGGGTCTTAGCCCGGATATCGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
24456849 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
*
24456890 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
24456913 CATCCGAATA
Statistics
Matches: 160, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 13 0.08
40 89 0.56
41 58 0.36
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:24456913 original size:81 final size:80
Alignment explanation
Indices: 24456689--24456913 Score: 303
Period size: 81 Copynumber: 2.8 Consensus size: 80
24456679 AACCCAAGTA
* * * * *
24456689 CCTTCGGGATTTAA-CCGGATATAG-CAAATCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATC
24456752 GTAACTCACACAAATG
65 GTAACTCACACAAATG
* * *
24456768 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTTGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAACCCGGATATAGTCACTAGCAC-AAATGCCTTCGGGTCTTAGCCCGGATATC
* *
24456833 GTCACT-AGCGCAAATG
65 GTAACTCA-CACAAATG
24456849 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAA-TGCCTTCGGGTCTTAGCCCGGATATC
24456914 ATCCGAATAA
Statistics
Matches: 128, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
79 11 0.09
80 20 0.16
81 97 0.76
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCG
TAACTCACACAAATG
Found at i:24463180 original size:43 final size:42
Alignment explanation
Indices: 24463108--24463229 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
24463098 CATAGACAAG
* *
24463108 TACAATGTCGATGTCCCAGAC-GTGGTCTTACATGTAATTCAA
1 TACAATGACGATGTCCCAGACAG-GGTCTTACATGTAATTAAA
* ** ** *
24463150 TAACGATTCCTCTGTCCCAGACAGGGTCTTACATGAAATTAAA
1 T-ACAATGACGATGTCCCAGACAGGGTCTTACATGTAATTAAA
* *
24463193 TACAATGACGATGTCCCAGACATGGTCTTACACGTAA
1 TACAATGACGATGTCCCAGACAGGGTCTTACATGTAA
24463230 ATCTCAAATC
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
42 29 0.46
43 33 0.52
44 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (42 bp):
TACAATGACGATGTCCCAGACAGGGTCTTACATGTAATTAAA
Found at i:24464480 original size:24 final size:23
Alignment explanation
Indices: 24464453--24464500 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
24464443 GACAAAAGCC
24464453 GAAATG-CCAAAATGCCAAAAAGTT
1 GAAATGTCCAAAA-GCC-AAAAGTT
*
24464477 GAAATGTCGAAAAGCCAAAAGTT
1 GAAATGTCCAAAAGCCAAAAGTT
24464500 G
1 G
24464501 GGCTACGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
24 9 0.41
25 5 0.23
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.17
Consensus pattern (23 bp):
GAAATGTCCAAAAGCCAAAAGTT
Found at i:24464744 original size:29 final size:29
Alignment explanation
Indices: 24464711--24464817 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 29
24464701 ATAATATGAT
**
24464711 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
* * * *
24464740 TTGGGCCTAGTGGGCCGTAAGAATAAAAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
*
24464769 TTGGG-CTAGATGGGCCATTTGAATAAG-A
1 TTGGGCCTA-ATGGGCCATATGAATAAGAA
* *
24464797 TTAGGCCTAGTGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
24464818 CATGTTTATA
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 18 0.29
29 44 0.71
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATAAGAA
Found at i:24470132 original size:14 final size:15
Alignment explanation
Indices: 24470108--24470137 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
24470098 AGATATTAAA
24470108 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
24470123 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
24470137 A
1 A
24470138 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:24479454 original size:15 final size:16
Alignment explanation
Indices: 24479434--24479463 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24479424 TTTGACAATG
24479434 TAAAAT-AAATAAAAA
1 TAAAATAAAATAAAAA
24479449 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
24479464 GTTCCAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:24489231 original size:27 final size:26
Alignment explanation
Indices: 24489185--24489267 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
24489175 TGGAGGAAGA
* *
24489185 GTTCTGGTAGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
24489212 GTTCTGGTGGCTCTGGCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
24489238 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
24489265 GTT
1 GTT
24489268 TTGGCAGCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:24490464 original size:18 final size:18
Alignment explanation
Indices: 24490443--24490477 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24490433 GAAAAAATAG
24490443 AAAAATACAAAAA-ATTTA
1 AAAAATA-AAAAATATTTA
24490461 AAAAATAAAAAATATTT
1 AAAAATAAAAAATATTT
24490478 TTTGGGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATAAAAAATATTTA
Found at i:24491740 original size:24 final size:25
Alignment explanation
Indices: 24491712--24491762 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
24491702 GTGTTTCAGT
24491712 TGGACTAGCTCTTATGAGCA-TTGG
1 TGGACTAGCTCTTATGAGCATTTGG
*
24491736 TGGACTAGCTCTTGTGAGCATTTGG
1 TGGACTAGCTCTTATGAGCATTTGG
24491761 TG
1 TG
24491763 TGTTTTGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.35
Consensus pattern (25 bp):
TGGACTAGCTCTTATGAGCATTTGG
Found at i:24501842 original size:27 final size:27
Alignment explanation
Indices: 24501812--24501869 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
24501802 TACTAAAATA
*
24501812 CCCTAAGTATG-AAAATTACCATTATAC
1 CCCTAA-TATGCAAAATAACCATTATAC
*
24501839 CCCT-ATGTGCAAAATAACCATTATAC
1 CCCTAATATGCAAAATAACCATTATAC
24501865 CCCTA
1 CCCTA
24501870 GGGTTGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 3 0.11
26 20 0.74
27 4 0.15
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.28
Consensus pattern (27 bp):
CCCTAATATGCAAAATAACCATTATAC
Found at i:24502017 original size:28 final size:28
Alignment explanation
Indices: 24501985--24502061 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
24501975 TCTAGTAGCT
*
24501985 CTGCCACAAATATCTGTTTCTGGTGGCC
1 CTGCCACAAATATCTGTTTCTGGTGACC
* * *
24502013 CTGCCACAATTATCTGTATCTGGTGACT
1 CTGCCACAAATATCTGTTTCTGGTGACC
*
24502041 CTGTCAC-AATATCTG-TTCTGG
1 CTGCCACAAATATCTGTTTCTGG
24502062 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 5 0.12
27 7 0.17
28 30 0.71
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (28 bp):
CTGCCACAAATATCTGTTTCTGGTGACC
Found at i:24510465 original size:30 final size:31
Alignment explanation
Indices: 24510431--24510492 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
24510421 TATTCATTTG
*
24510431 CCAATCGATATTTAATTACCAAAAT-TTTTT
1 CCAATCGATATTCAATTACCAAAATGTTTTT
24510461 CCAATCGATATTCAATTACCAAAATGTTTTT
1 CCAATCGATATTCAATTACCAAAATGTTTTT
24510492 C
1 C
24510493 TTCGCGTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (31 bp):
CCAATCGATATTCAATTACCAAAATGTTTTT
Found at i:24511000 original size:23 final size:24
Alignment explanation
Indices: 24510956--24511000 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
24510946 AAAATCCTAC
*
24510956 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
24510980 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
24511001 GTAGGGATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:24513318 original size:46 final size:46
Alignment explanation
Indices: 24513266--24513356 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
24513256 TATATATACA
* * *
24513266 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
24513312 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
24513357 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:24513401 original size:47 final size:47
Alignment explanation
Indices: 24513370--24513755 Score: 583
Period size: 47 Copynumber: 8.2 Consensus size: 47
24513360 CACTTCCACG
*
24513370 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
24513417 TTTATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
24513464 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
24513511 TTCATCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
24513558 TTCATCACATTGGCCATTCGGCCTTATCACATATGTACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
24513605 TTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * *
24513652 TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * * * **
24513699 TTCATCACATTTGCTATTCGGCCTTAGCTCATATATACACATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
24513746 TTCATCACAT
1 TTCATCACAT
24513756 AAAATCCTAA
Statistics
Matches: 313, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 313 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:24513707 original size:23 final size:23
Alignment explanation
Indices: 24513634--24513707 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
24513624 GGCCTTATCA
24513634 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
** * *
24513657 CACATTTGCCA--TTCGGCCTTAGCA-
1 CACAAATG-CATGTTC-ACATT--CAT
24513681 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
24513704 CACA
1 CACA
24513708 TTTGCTATTC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 15 0.42
24 11 0.31
25 5 0.14
ACGTcount: A:0.31, C:0.30, G:0.11, T:0.28
Consensus pattern (23 bp):
CACAAATGCATGTTCACATTCAT
Found at i:24533383 original size:57 final size:58
Alignment explanation
Indices: 24533322--24533430 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
24533312 TCTTGTTTCC
*
24533322 AACATATGCTCACA-A-GAGCTTA-ATCAGGATTACCCGTCCCAA-ATAAATCCTATCCAT
1 AACATATGCTCA-AGAGGA-CTTATATCAGGATTACCAGT-CCAAGATAAATCCTATCCAT
*
24533379 AACATATGCTCAAGAGGACTTATATCAGGATTACTAGTCCAAGATAAATCCT
1 AACATATGCTCAAGAGGACTTATATCAGGATTACCAGTCCAAGATAAATCCT
24533431 TTCTATAATG
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
56 1 0.02
57 21 0.46
58 24 0.52
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.26
Consensus pattern (58 bp):
AACATATGCTCAAGAGGACTTATATCAGGATTACCAGTCCAAGATAAATCCTATCCAT
Found at i:24533427 original size:58 final size:55
Alignment explanation
Indices: 24533290--24533430 Score: 144
Period size: 57 Copynumber: 2.5 Consensus size: 55
24533280 ATCACATAAA
* * *
24533290 AGGATTACTTGTCCAAGATAAATCTTGTTTCCAACATATGCTCACAAGAGCTTAATC
1 AGGATTACTAGTCCAAGATAAATC--CTATCCAACATATGCTCACAAGAGCTTAATC
**
24533347 AGGATTACCCGTCCCAA-ATAAATCCTATCCATAACATATGCT--CAAGAGGACTTATATC
1 AGGATTACTAGT-CCAAGATAAATCCTATCC--AACATATGCTCACAAGA-G-CTTA-ATC
24533405 AGGATTACTAGTCCAAGATAAATCCT
1 AGGATTACTAGTCCAAGATAAATCCT
24533431 TTCTATAATG
Statistics
Matches: 71, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
55 9 0.13
56 1 0.01
57 35 0.49
58 26 0.37
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (55 bp):
AGGATTACTAGTCCAAGATAAATCCTATCCAACATATGCTCACAAGAGCTTAATC
Found at i:24544193 original size:18 final size:18
Alignment explanation
Indices: 24544170--24544206 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24544160 ACAAGAAAGT
24544170 TCAAGTTAAAACTACTTC
1 TCAAGTTAAAACTACTTC
24544188 TCAAGTTAAAACTACTTC
1 TCAAGTTAAAACTACTTC
24544206 T
1 T
24544207 TGTTTAAGTT
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:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (18 bp):
TCAAGTTAAAACTACTTC
Found at i:24545013 original size:17 final size:19
Alignment explanation
Indices: 24544986--24545020 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
24544976 AAGAAGAGGA
24544986 AAAACATAAAC-ATAAAAG
1 AAAACATAAACAATAAAAG
24545004 AAAA-ATAAACAATAAAA
1 AAAACATAAACAATAAAA
24545021 ATTATTCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.77, C:0.09, G:0.03, T:0.11
Consensus pattern (19 bp):
AAAACATAAACAATAAAAG
Found at i:24547221 original size:27 final size:26
Alignment explanation
Indices: 24547185--24547273 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
24547175 GCCATCAGTG
*
24547185 ATGGT-AATATAATCGGCACATAGCC
1 ATGGTAAATATGATCGGCACATAGCC
** * *
24547210 ATGGGTAAATATGATCACCACAGAGTC
1 AT-GGTAAATATGATCGGCACATAGCC
* *
24547237 ATCGATAAATATGATAGGCACATAGCC
1 AT-GGTAAATATGATCGGCACATAGCC
24547264 ACTGGTAAAT
1 A-TGGTAAAT
24547274 GCGATTTGCA
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 42 0.88
28 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (26 bp):
ATGGTAAATATGATCGGCACATAGCC
Found at i:24551812 original size:24 final size:24
Alignment explanation
Indices: 24551784--24551850 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
24551774 CTCCTTAAAT
* *
24551784 CTCTCCATAAATCACTCCTTGATT
1 CTCTCCATAAATCACTCCATGATA
* * *
24551808 TTCTCC-TAATATCTCTTCATGATA
1 CTCTCCATAA-ATCACTCCATGATA
*
24551832 CACTCCATAAATCACTCCA
1 CTCTCCATAAATCACTCCA
24551851 ACCTCCCATT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
23 3 0.09
24 26 0.81
25 3 0.09
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (24 bp):
CTCTCCATAAATCACTCCATGATA
Found at i:24554222 original size:2 final size:2
Alignment explanation
Indices: 24554215--24554239 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24554205 AGCCATTTGC
24554215 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
24554240 CACAACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24556305 original size:43 final size:43
Alignment explanation
Indices: 24556191--24556360 Score: 123
Period size: 43 Copynumber: 4.0 Consensus size: 43
24556181 ATAAAGCTTG
* * * **
24556191 TACAATGCC-ATATCCTAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATATCCCAGACATGGTCTTACACGAAATCACAA
* * * * * * *
24556232 TATCGATGCCATTGTCCCAAACA-GAATCTTATACGAAATCA-TA
1 TA-CAATGCCAATATCCCAGACATG-GTCTTACACGAAATCACAA
* * *
24556275 TAACGATGCCAATATCCCAGACATGGTCTTACCCGTAATCACAA
1 T-ACAATGCCAATATCCCAGACATGGTCTTACACGAAATCACAA
* * *
24556319 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGAAATCACA
24556361 TCTCGATAAT
Statistics
Matches: 99, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 86 0.87
44 4 0.04
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATATCCCAGACATGGTCTTACACGAAATCACAA
Found at i:24561696 original size:27 final size:27
Alignment explanation
Indices: 24561663--24561718 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
24561653 TAAAATAAGA
24561663 CTTATGAAAATAATGCTACGGGAATAT
1 CTTATGAAAATAATGCTACGGGAATAT
24561690 CTTATGAAAATAATGCTACGGGAATAT
1 CTTATGAAAATAATGCTACGGGAATAT
24561717 CT
1 CT
24561719 AATGCATGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (27 bp):
CTTATGAAAATAATGCTACGGGAATAT
Found at i:24562392 original size:55 final size:55
Alignment explanation
Indices: 24562261--24562395 Score: 126
Period size: 55 Copynumber: 2.4 Consensus size: 55
24562251 ATAGTTCCAT
* * * * *
24562261 GCCCGTGTTCGTTTTGACAGTGTCGACCACGAGTGGATGGCATGGGCGTGTCGCAC
1 GCCCGTGTT-GTTTTGACAGTTTCGACCACGAGTGCAAGGCATGAGCATGTCGCAC
*** ** * * * *
24562317 GCCCGTGTTAAATTCTCAGTTTCGGCCACGATTTCAAGGCATGAGCATGTCTCAC
1 GCCCGTGTTGTTTTGACAGTTTCGACCACGAGTGCAAGGCATGAGCATGTCGCAC
*
24562372 GCCCGTGTTGTTTTGGCAGTTTCG
1 GCCCGTGTTGTTTTGACAGTTTCG
24562396 CCCATGGCCA
Statistics
Matches: 60, Mismatches: 19, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
55 51 0.85
56 9 0.15
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.30
Consensus pattern (55 bp):
GCCCGTGTTGTTTTGACAGTTTCGACCACGAGTGCAAGGCATGAGCATGTCGCAC
Found at i:24566007 original size:50 final size:49
Alignment explanation
Indices: 24565882--24566057 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 49
24565872 TGAGGTCGCA
*** * *
24565882 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTA-CC--AGACTGTAGGTCACG
** *
24565933 TGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGA-TGGTGAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACT-GT-AGGTCACG
* * * *
24565983 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCACG
24566032 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
24566058 TGCGTACCAG
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 30 0.28
50 41 0.39
51 30 0.28
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCACG
Found at i:24570232 original size:55 final size:55
Alignment explanation
Indices: 24570132--24570237 Score: 122
Period size: 55 Copynumber: 1.9 Consensus size: 55
24570122 TGACTTTTAA
* * * *
24570132 ACATGGCCATGGCACACGCCCTTGTGGACTACCTATGTTCAATACTGACTTTGGG
1 ACATGGCCATGGCACACGCCCATGTGGACTACCCATGTCCAATACTAACTTTGGG
* * * * * *
24570187 ACATGGCTATGGTAGACGCCCATGTGGCCTACCCGTGTCCTATACTAACTT
1 ACATGGCCATGGCACACGCCCATGTGGACTACCCATGTCCAATACTAACTT
24570238 ATAAATTAGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 41 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (55 bp):
ACATGGCCATGGCACACGCCCATGTGGACTACCCATGTCCAATACTAACTTTGGG
Found at i:24584014 original size:26 final size:26
Alignment explanation
Indices: 24583928--24584016 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
24583918 AAAATCTACC
* * *
24583928 AGGAGTATCTTTTGTGGAAGTTCTTG
1 AGGACTATCTTTTGTGAAAGTTCATG
* * **
24583954 AGGACTATCTAATATGTGGAAAGTCCACC
1 AGGACTATCT--TTTGT-GAAAGTTCATG
24583983 AGGACTATCTTTTGTGAAAGTTCATG
1 AGGACTATCTTTTGTGAAAGTTCATG
*
24584009 ACGACTAT
1 AGGACTAT
24584017 GTAATATAAG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
26 24 0.50
27 4 0.08
28 4 0.08
29 16 0.33
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (26 bp):
AGGACTATCTTTTGTGAAAGTTCATG
Found at i:24584022 original size:55 final size:55
Alignment explanation
Indices: 24583834--24584032 Score: 213
Period size: 55 Copynumber: 3.6 Consensus size: 55
24583824 TGTATATGTA
* *
24583834 GAAG-TCAGTGAGGACTATCTAATATATGGAAAGTCCACCAAGACTATCTTTTCTG
1 GAAGTTCA-TGAGGACTATCTAATATATGGAAAGTCCACCAGGACTATCTTTTGTG
* * * * * * * * *
24583889 GAAGTCCGTAAGGACTGT-TGAAAATATGAAAAATCTACCAGGAGTATCTTTTGTG
1 GAAGTTCATGAGGACTATCT-AATATATGGAAAGTCCACCAGGACTATCTTTTGTG
* *
24583944 GAAGTTCTTGAGGACTATCTAATATGTGGAAAGTCCACCAGGACTATCTTTTGTG
1 GAAGTTCATGAGGACTATCTAATATATGGAAAGTCCACCAGGACTATCTTTTGTG
* * * *
24583999 AAAGTTCATGACGACTATGTAATATAAGGAAAGT
1 GAAGTTCATGAGGACTATCTAATATATGGAAAGT
24584033 TTTCCAGAAC
Statistics
Matches: 114, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
54 1 0.01
55 111 0.97
56 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (55 bp):
GAAGTTCATGAGGACTATCTAATATATGGAAAGTCCACCAGGACTATCTTTTGTG
Found at i:24584047 original size:110 final size:110
Alignment explanation
Indices: 24583842--24584048 Score: 245
Period size: 110 Copynumber: 1.9 Consensus size: 110
24583832 TAGAAGTCAG
* * * *
24583842 TGAGGACTATCTAATATATGGAAAGTCCACCAAGACTATCTTTTCTGGAAGTCCGTAAGGACTGT
1 TGAGGACTATCTAATATATGGAAAGTCCACCAAGACTATCTTTTCTGAAAGTCCATAACGACTAT
* * *
24583907 TGAAAATATGAAAAATCTACCAGGAGTATCTTTTGTGGAAGTTCT
66 TGAAAATAAGAAAAATCTACCAGAACTATCTTTTGTGGAAGTTCT
* * * * *
24583952 TGAGGACTATCTAATATGTGGAAAGTCCACCAGGACTATCTTTTGTGAAAGTTCATGACGACTA-
1 TGAGGACTATCTAATATATGGAAAGTCCACCAAGACTATCTTTTCTGAAAGTCCATAACGACTAT
* * * * *
24584016 TGTAATATAAGGAAAGTTTTCCAGAACTATCTT
66 TG-AAAATAAGAAAAATCTACCAGAACTATCTT
24584049 GTAAATATGA
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
109 2 0.03
110 77 0.97
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (110 bp):
TGAGGACTATCTAATATATGGAAAGTCCACCAAGACTATCTTTTCTGAAAGTCCATAACGACTAT
TGAAAATAAGAAAAATCTACCAGAACTATCTTTTGTGGAAGTTCT
Found at i:24586740 original size:20 final size:20
Alignment explanation
Indices: 24586715--24586752 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24586705 GTAACATATA
24586715 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
24586735 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
24586753 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:24590101 original size:51 final size:51
Alignment explanation
Indices: 24589961--24590243 Score: 171
Period size: 51 Copynumber: 5.5 Consensus size: 51
24589951 ACGGATACCG
* * * * *
24589961 GTGGCCTGCACAGAGTACCACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTGCACATAGTACCACACATGTGA-TCAAAGCTATCTT-TTACACATA
* * *
24590012 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGGCCTGCACATAGTACCACACATGTGATCAAAGCTATCTTTTACACATA
* * *** **
24590063 GTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACGTATA
1 GTGGCCTGCACATAGTACCACACATGTGATCAAAGCTATCTTTTACACATA
* * * * * * * * *
24590114 GTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAATCTGGTT-CACGTA
1 GTGGCCTGCACATAGTACCACACATGTGATCAAAGCTATCT-TTTACACATA
* * * * * * * * *
24590164 ATAGCCTGCACTTAGTACTACACACGTGACCTAAAACCAT-TTTAAACACATA
1 GTGGCCTGCACATAGTACCACACATGTGATC-AAAGCTATCTTT-TACACATA
* *
24590216 GTAGCCTGCACATAGTACTACACATGTG
1 GTGGCCTGCACATAGTACCACACATGTG
24590244 TTCTCACAAT
Statistics
Matches: 187, Mismatches: 38, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
50 38 0.20
51 115 0.61
52 34 0.18
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACATGTGATCAAAGCTATCTTTTACACATA
Found at i:24595101 original size:31 final size:31
Alignment explanation
Indices: 24595063--24595128 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
24595053 TTTGGAGAGT
* *
24595063 CACATGCCCGTATGGGTACGCCGTGTGGTTA
1 CACATGCCCGTATGGGTACGCCGTGTAGTCA
* *
24595094 CACATGCCCGTGTGGGTAGGCCGTGTAGTCA
1 CACATGCCCGTATGGGTACGCCGTGTAGTCA
24595125 CACA
1 CACA
24595129 CGCCTGAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (31 bp):
CACATGCCCGTATGGGTACGCCGTGTAGTCA
Found at i:24601056 original size:45 final size:45
Alignment explanation
Indices: 24600957--24601083 Score: 120
Period size: 45 Copynumber: 2.9 Consensus size: 45
24600947 TTTTCTCAAA
* **
24600957 TCACCGGCATT-TCGCCTATTAGGCTCG-AGGCCC-AATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
* *
24600999 TCACCAGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * *
24601043 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
24601084 ATCAAGTCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
42 9 0.13
43 13 0.19
44 7 0.10
45 39 0.57
46 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:24601323 original size:43 final size:43
Alignment explanation
Indices: 24601260--24601429 Score: 245
Period size: 43 Copynumber: 4.0 Consensus size: 43
24601250 TTTGATAACT
* *
24601260 TAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGC
1 TAGGCACGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
*
24601303 TAGGCATGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
1 TAGGCACGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
*
24601346 TAGGCATGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
1 TAGGCACGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
* * * * *
24601389 TAGGCACAAAGGCCCGAATATA-AT-ACCAGCACTAGGCCTGC
1 TAGGCACGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
24601430 GGGATTTATC
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 15 0.13
42 2 0.02
43 101 0.86
ACGTcount: A:0.32, C:0.32, G:0.22, T:0.13
Consensus pattern (43 bp):
TAGGCACGAAGGCCCAAATACACATCACCGGCACTAAGCCTGC
Found at i:24601457 original size:38 final size:38
Alignment explanation
Indices: 24601401--24601484 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
24601391 GGCACAAAGG
* * *
24601401 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
24601439 CCCGGATATAATATCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
24601477 CCCGAATA
1 CCCGAATA
24601485 CACATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:24603599 original size:30 final size:30
Alignment explanation
Indices: 24603565--24603622 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
24603555 TAGAAAGAAT
*
24603565 AAAATAATGA-AAAAAAAAATGAAAAAAAGG
1 AAAAT-ATGATAAAAAAAAAGGAAAAAAAGG
* *
24603595 AAAATATGATGAAAACAAAGGAAAAAAA
1 AAAATATGATAAAAAAAAAGGAAAAAAA
24603623 AAGTGTCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.10
Consensus pattern (30 bp):
AAAATATGATAAAAAAAAAGGAAAAAAAGG
Found at i:24603860 original size:7 final size:7
Alignment explanation
Indices: 24603848--24603872 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24603838 GTTGTCTTCT
24603848 TGTTTGA
1 TGTTTGA
24603855 TGTTTGA
1 TGTTTGA
24603862 TGTTTGA
1 TGTTTGA
24603869 TGTT
1 TGTT
24603873 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:24604800 original size:27 final size:28
Alignment explanation
Indices: 24604744--24604813 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
24604734 AAATTTGTAC
24604744 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
24604772 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
24604799 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
24604814 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:24611726 original size:7 final size:7
Alignment explanation
Indices: 24611714--24611738 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24611704 GTTGTCTTCT
24611714 TGTTTGA
1 TGTTTGA
24611721 TGTTTGA
1 TGTTTGA
24611728 TGTTTGA
1 TGTTTGA
24611735 TGTT
1 TGTT
24611739 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:24612668 original size:27 final size:28
Alignment explanation
Indices: 24612612--24612681 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
24612602 AAATTTGTAC
24612612 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
24612640 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
24612667 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
24612682 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:24620520 original size:30 final size:30
Alignment explanation
Indices: 24620484--24620543 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
24620474 CACAAGAAGT
24620484 ATGCATCGTGAGTGTTGACAACGCCAGTGC
1 ATGCATCGTGAGTGTTGACAACGCCAGTGC
24620514 ATGCATCGTGAGTGTTGACAACGCCAGTGC
1 ATGCATCGTGAGTGTTGACAACGCCAGTGC
24620544 TCCCTCACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (30 bp):
ATGCATCGTGAGTGTTGACAACGCCAGTGC
Found at i:24637122 original size:19 final size:19
Alignment explanation
Indices: 24637080--24637130 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
24637070 TGGTTTAATG
*
24637080 TTTTTTAATTTTTATTACA
1 TTTTTTAATTTTTATTAAA
*
24637099 -TTTTTAGTTTTTATTAAA
1 TTTTTTAATTTTTATTAAA
24637117 TTTTTTAATTTTTA
1 TTTTTTAATTTTTA
24637131 ATTATTATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTTAATTTTTATTAAA
Found at i:24637147 original size:26 final size:27
Alignment explanation
Indices: 24637084--24637139 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
24637074 TTAATGTTTT
* * *
24637084 TTAATTTTTATTACATTTTTAGTTTTTA
1 TTAAATTTT-TTACATTTTTAATTATTA
24637112 TTAAATTTTTTA-ATTTTTAATTATTA
1 TTAAATTTTTTACATTTTTAATTATTA
24637138 TT
1 TT
24637140 CTATTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.56
27 3 0.12
28 8 0.32
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (27 bp):
TTAAATTTTTTACATTTTTAATTATTA
Found at i:24641968 original size:30 final size:30
Alignment explanation
Indices: 24641932--24642022 Score: 146
Period size: 30 Copynumber: 3.0 Consensus size: 30
24641922 CACGGGCAGG
24641932 CACATGGGCATGTGGCCTGCCCGTGTGGAT
1 CACATGGGCATGTGGCCTGCCCGTGTGGAT
*
24641962 CACATGGGCGTGTGGCCTGCCCGTGTGGAT
1 CACATGGGCATGTGGCCTGCCCGTGTGGAT
* * *
24641992 CACATGGGCATGTGCCCAGTCCGTGTGGAT
1 CACATGGGCATGTGGCCTGCCCGTGTGGAT
24642022 C
1 C
24642023 CTAAAAACTC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.13, C:0.27, G:0.36, T:0.23
Consensus pattern (30 bp):
CACATGGGCATGTGGCCTGCCCGTGTGGAT
Found at i:24641975 original size:17 final size:17
Alignment explanation
Indices: 24641953--24642005 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
24641943 GTGGCCTGCC
24641953 CGTGTGGATCACATGGG
1 CGTGTGGATCACATGGG
**
24641970 CGTGTGG--C-C-TGCC
1 CGTGTGGATCACATGGG
24641983 CGTGTGGATCACATGGG
1 CGTGTGGATCACATGGG
*
24642000 CATGTG
1 CGTGTG
24642006 CCCAGTCCGT
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
13 9 0.33
14 1 0.04
15 2 0.07
16 1 0.04
17 14 0.52
ACGTcount: A:0.13, C:0.23, G:0.40, T:0.25
Consensus pattern (17 bp):
CGTGTGGATCACATGGG
Found at i:24643850 original size:14 final size:14
Alignment explanation
Indices: 24643833--24643863 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24643823 AAACAAAATT
24643833 TAAAAAAATAATAA
1 TAAAAAAATAATAA
*
24643847 TAAAATAATAATAA
1 TAAAAAAATAATAA
24643861 TAA
1 TAA
24643864 TAAACTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAAAAAATAATAA
Found at i:24643853 original size:11 final size:11
Alignment explanation
Indices: 24643837--24643866 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
24643827 AAAATTTAAA
24643837 AAAATAATAAT
1 AAAATAATAAT
24643848 AAAATAATAAT
1 AAAATAATAAT
24643859 AATAATAA
1 AA-AATAA
24643867 ACTCATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:24643992 original size:19 final size:19
Alignment explanation
Indices: 24643978--24644016 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
24643968 AATAAAAGCT
24643978 TATAAAAAATTTAAAAATA
1 TATAAAAAATTTAAAAATA
*
24643997 TATAAAAAA-TAAAAAATA
1 TATAAAAAATTTAAAAATA
24644015 TA
1 TA
24644017 AGTATAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
TATAAAAAATTTAAAAATA
Found at i:24644435 original size:30 final size:30
Alignment explanation
Indices: 24644389--24644445 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
24644379 ATGTGAGATC
* *
24644389 CCACACGCCCGAGTGGCTAGGCCGTGTGCT
1 CCACACACCCGAGTGGCCAGGCCGTGTGCT
*
24644419 CCACACACCCGTGTGGCCAGGCCGTGT
1 CCACACACCCGAGTGGCCAGGCCGTGT
24644446 AACTCTCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.39, G:0.32, T:0.16
Consensus pattern (30 bp):
CCACACACCCGAGTGGCCAGGCCGTGTGCT
Found at i:24644486 original size:199 final size:199
Alignment explanation
Indices: 24644222--24644638 Score: 717
Period size: 199 Copynumber: 2.1 Consensus size: 199
24644212 GTGAGATCCT
* *
24644222 ACACACCCGTGTGGCCAGGCCGTTTAACTCTCTGACTTTGAAAAAAAATTAGCTCTAGATTTCAC
1 ACACACCCGTGTGGCCAGGCCGTGTAACTCTCTGACTTTGAAAAAAAATTAGCTCCAGATTTCAC
* * * * *
24644287 ACGGCCTAGGATACGCCCGTTTGTCTAAGCCGTGTGGGTCACATGGCCATGTCGCCAAGCCGTGT
66 ACGGCCTAGGACACGCCCATGTGTCCAAGCCGTGTGGGTCACATGGCCATGTCGCCAAGCCGTAT
* *
24644352 GTGTTTTCCTTCGCTTCTTCCACGCCCATGTGAGATCCCACACGCCCGAGTGGCTAGGCCGTGTG
131 GTGTTTTCCTTCGCTTCTCCCACACCCATGTGAGATCCCACACGCCCGAGTGGCTAGGCCGTGTG
24644417 CTCC
196 CTCC
24644421 ACACACCCGTGTGGCCAGGCCGTGTAACTCTCTGACTTTGAAAAAAAATTAGCTCCAGATTTCAC
1 ACACACCCGTGTGGCCAGGCCGTGTAACTCTCTGACTTTGAAAAAAAATTAGCTCCAGATTTCAC
* *
24644486 ACGGCCTAGGACACGCCCATGTGTCCAGGCCGTGTGGGTCACATGGCCATGTCGCCAGGCCGTAT
66 ACGGCCTAGGACACGCCCATGTGTCCAAGCCGTGTGGGTCACATGGCCATGTCGCCAAGCCGTAT
* *
24644551 GTGTTTTCCTTCGCTTCTCCCACACCCATGTGAGGTCCCACACGCCCGTGTGGCTAGGCCGTGTG
131 GTGTTTTCCTTCGCTTCTCCCACACCCATGTGAGATCCCACACGCCCGAGTGGCTAGGCCGTGTG
24644616 CTCC
196 CTCC
24644620 ACACACCCGTGTGGCCAGG
1 ACACACCCGTGTGGCCAGG
24644639 TCATGTAGGT
Statistics
Matches: 205, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
199 205 1.00
ACGTcount: A:0.19, C:0.32, G:0.25, T:0.24
Consensus pattern (199 bp):
ACACACCCGTGTGGCCAGGCCGTGTAACTCTCTGACTTTGAAAAAAAATTAGCTCCAGATTTCAC
ACGGCCTAGGACACGCCCATGTGTCCAAGCCGTGTGGGTCACATGGCCATGTCGCCAAGCCGTAT
GTGTTTTCCTTCGCTTCTCCCACACCCATGTGAGATCCCACACGCCCGAGTGGCTAGGCCGTGTG
CTCC
Found at i:24648636 original size:3 final size:3
Alignment explanation
Indices: 24648628--24648692 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
24648618 ATCTACTCAC
24648628 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
24648676 GTT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
24648693 ATCTTCTTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:24649330 original size:26 final size:26
Alignment explanation
Indices: 24649272--24649331 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
24649262 ATTTATATTT
*
24649272 TCATTA-TTATATTTTAGATATTATG
1 TCATTATTTATATTTTAGATATTATA
*
24649297 TC-TATATTTATA-TTTAGGTATTAATA
1 TCAT-TATTTATATTTTAGATATT-ATA
24649323 TCATTATTT
1 TCATTATTT
24649332 TACTATTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 1 0.03
25 13 0.45
26 14 0.48
27 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (26 bp):
TCATTATTTATATTTTAGATATTATA
Found at i:24649376 original size:18 final size:18
Alignment explanation
Indices: 24649355--24649397 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
24649345 TTTTTCATAC
*
24649355 TATTATTATTATCACTAT
1 TATTATTATTAGCACTAT
*
24649373 TATTACTATTAGCACTAT
1 TATTATTATTAGCACTAT
*
24649391 TTTTATT
1 TATTATT
24649398 TGCTATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATTATTAGCACTAT
Found at i:24662030 original size:43 final size:43
Alignment explanation
Indices: 24661923--24662121 Score: 136
Period size: 43 Copynumber: 4.6 Consensus size: 43
24661913 CCACCAAGCT
* * * * * **
24661923 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATA
1 TTAAACCCCTAAGCAGTAGGGTAACAAG-TCAAATTTACAAACC
*** * * *
24661967 TTATTGCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACC
1 TTAAACCCCTAAGCAGTAGGGTAACAAGTCAAATTTACAAACC
* * * * *
24662010 TTAAACCCCTAAGCAGTAGGGTAACAGGTTAAGTTTACAGATC
1 TTAAACCCCTAAGCAGTAGGGTAACAAGTCAAATTTACAAACC
* * *
24662053 -TAAACCCCTAAGCAGTGGGGAAAC-AGATC-AATTATGACAAGCC
1 TTAAACCCCTAAGCAGTAGGGTAACAAG-TCAAATT-T-ACAAACC
24662096 TT-AACCACCTAAGCAGTAGGGTAACA
1 TTAAACC-CCTAAGCAGTAGGGTAACA
24662122 GGTTGAAAAT
Statistics
Matches: 116, Mismatches: 33, Indels: 11
0.73 0.21 0.07
Matches are distributed among these distances:
41 4 0.03
42 24 0.21
43 47 0.41
44 41 0.35
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (43 bp):
TTAAACCCCTAAGCAGTAGGGTAACAAGTCAAATTTACAAACC
Found at i:24671659 original size:28 final size:27
Alignment explanation
Indices: 24671596--24671665 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
24671586 ATAGTGAGTC
24671596 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
24671623 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
24671651 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24671666 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:24674657 original size:3 final size:3
Alignment explanation
Indices: 24674649--24674689 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
24674639 ATCTATTCAC
24674649 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
24674690 ATCTTCTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:24675372 original size:18 final size:18
Alignment explanation
Indices: 24675351--24675393 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
24675341 TTTTTCATAC
*
24675351 TATTATTATTATCACTAT
1 TATTATTATTAGCACTAT
*
24675369 TATTACTATTAGCACTAT
1 TATTATTATTAGCACTAT
*
24675387 TTTTATT
1 TATTATT
24675394 TGCTATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATTATTAGCACTAT
Found at i:24677920 original size:30 final size:30
Alignment explanation
Indices: 24677862--24677922 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24677852 CACGGGCTGG
* * *
24677862 CACATGAGCATGTGGCCTGCCCGTGTGGAT
1 CACATGAGCATGTGCCCAGCCCGAGTGGAT
* *
24677892 CACATGGGCATGTGCCCAGCCTGAGTGGAT
1 CACATGAGCATGTGCCCAGCCCGAGTGGAT
24677922 C
1 C
24677923 CTGAAAACTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.21
Consensus pattern (30 bp):
CACATGAGCATGTGCCCAGCCCGAGTGGAT
Found at i:24679378 original size:26 final size:26
Alignment explanation
Indices: 24679349--24679456 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
24679339 TGATACAAAT
24679349 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
24679375 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24679401 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
24679427 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24679453 TGAT
1 TGAT
24679457 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:24681490 original size:137 final size:137
Alignment explanation
Indices: 24681243--24681666 Score: 785
Period size: 137 Copynumber: 3.1 Consensus size: 137
24681233 GAGTAGTCTC
24681243 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * * *
24681308 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGTCCTAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
24681373 ACTGTTA
131 ACTGTTA
24681380 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
24681445 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
24681510 ACTGTTA
131 ACTGTTA
*
24681517 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
24681582 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
24681647 ACTGTTA
131 ACTGTTA
**
24681654 CCTGAATGGGCTT
1 CCCAAATGGGCTT
24681667 AGGCCCAATG
Statistics
Matches: 280, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 280 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:24684881 original size:50 final size:50
Alignment explanation
Indices: 24684822--24684920 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
24684812 CATCTATGAA
* * *
24684822 AAAAAATATAAACCCAAATATATGATTGGTCCTACACCTTAAATTATATG
1 AAAAAATATAAACACAAATATATGATTCGTCCTACACCTTAAATAATATG
* *
24684872 AAAAAATATAAACACAAATATATTATTCGTCCTACTCCTTAAATAATAT
1 AAAAAATATAAACACAAATATATGATTCGTCCTACACCTTAAATAATAT
24684921 AGACTAATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.31
Consensus pattern (50 bp):
AAAAAATATAAACACAAATATATGATTCGTCCTACACCTTAAATAATATG
Found at i:24685787 original size:14 final size:15
Alignment explanation
Indices: 24685764--24685811 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
24685754 TAAACTAAAA
*
24685764 AAAAAAAAGTAC-TG
1 AAAAATAAGTACTTG
24685778 AAAAATAAGT-CTTG
1 AAAAATAAGTACTTG
24685792 AAAAATTAAGTA-TT-
1 AAAAA-TAAGTACTTG
24685806 AAAAAT
1 AAAAAT
24685812 TTTAAGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.07
14 21 0.70
15 7 0.23
ACGTcount: A:0.60, C:0.04, G:0.10, T:0.25
Consensus pattern (15 bp):
AAAAATAAGTACTTG
Found at i:24685812 original size:14 final size:15
Alignment explanation
Indices: 24685770--24685812 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
24685760 AAAAAAAAAA
*
24685770 AAGTACTGAAAAA-T
1 AAGTATTGAAAAATT
*
24685784 AAGTCTTGAAAAATT
1 AAGTATTGAAAAATT
24685799 AAGTATT-AAAAATT
1 AAGTATTGAAAAATT
24685813 TTAAGTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (15 bp):
AAGTATTGAAAAATT
Found at i:24687458 original size:2 final size:2
Alignment explanation
Indices: 24687451--24687489 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
24687441 TAAATCCACA
24687451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24687490 AACTCACTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24687820 original size:25 final size:25
Alignment explanation
Indices: 24687774--24687824 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
24687764 ATTTAAGAGA
**
24687774 AAATTAAAAGACATGACCTAAAAAC
1 AAATTAAAAGACACAACCTAAAAAC
*
24687799 AAATTAAAAGACACAACTTAAAAAC
1 AAATTAAAAGACACAACCTAAAAAC
24687824 A
1 A
24687825 TAAATTTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.63, C:0.16, G:0.06, T:0.16
Consensus pattern (25 bp):
AAATTAAAAGACACAACCTAAAAAC
Found at i:24688757 original size:32 final size:32
Alignment explanation
Indices: 24688721--24688785 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
24688711 CCTTGTTGAC
24688721 TAAATTTAATAAATCAAGTGGTGAAACATGAT
1 TAAATTTAATAAATCAAGTGGTGAAACATGAT
24688753 TAAATTTAATAAATCAAGTGGTGAAACATGAT
1 TAAATTTAATAAATCAAGTGGTGAAACATGAT
24688785 T
1 T
24688786 TGCTAGAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.32
Consensus pattern (32 bp):
TAAATTTAATAAATCAAGTGGTGAAACATGAT
Found at i:24690936 original size:38 final size:38
Alignment explanation
Indices: 24690894--24690982 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 38
24690884 TTACCGATTG
* * * *
24690894 CATGTTCAGCATGCTTACTATTATTGTTGAA-TCGAATA
1 CATGTTAAGCATGCCTACTACTAATGTTGAACT-GAATA
*
24690932 CATGTTAAGCATGCCTACTGCTAATGTTGAACTGAATA
1 CATGTTAAGCATGCCTACTACTAATGTTGAACTGAATA
24690970 CATGTTAAGCATG
1 CATGTTAAGCATG
24690983 TCTGTTGTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
38 44 0.98
39 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (38 bp):
CATGTTAAGCATGCCTACTACTAATGTTGAACTGAATA
Found at i:24692185 original size:20 final size:19
Alignment explanation
Indices: 24692160--24692221 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 19
24692150 TCCTTTAACA
24692160 ATTTTAATATTTATAATTTT
1 ATTTTAATATTT-TAATTTT
*
24692180 ATTTTATTTATTTTTTAATTTT
1 ATTTTA---ATATTTTAATTTT
* *
24692202 AGTTCTAATGTTTTAATTTT
1 A-TTTTAATATTTTAATTTT
24692222 GTTTCAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
20 18 0.51
22 8 0.23
23 9 0.26
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (19 bp):
ATTTTAATATTTTAATTTT
Found at i:24698714 original size:28 final size:28
Alignment explanation
Indices: 24698674--24698730 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
24698664 GGAGAAAGAG
24698674 ACCGAAGTACCAATCAATGAGCCAGTAA
1 ACCGAAGTACCAATCAATGAGCCAGTAA
*
24698702 ACCGAAGTACCAATCAATGAGCTAGTAA
1 ACCGAAGTACCAATCAATGAGCCAGTAA
24698730 A
1 A
24698731 GGAGGAGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.23, G:0.18, T:0.16
Consensus pattern (28 bp):
ACCGAAGTACCAATCAATGAGCCAGTAA
Found at i:24703640 original size:39 final size:39
Alignment explanation
Indices: 24703594--24703671 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
24703584 ATTCAGACTA
*
24703594 AGTCAAAAAGTACTTTGTCTAAAGGAAAAGAATTCAGGG
1 AGTCAAAAAGTACTTTGTCTAAAGGAAAACAATTCAGGG
*
24703633 AGTCAAAAAGTACTTTGTCTAAAGGAGAACAATTCAGGG
1 AGTCAAAAAGTACTTTGTCTAAAGGAAAACAATTCAGGG
24703672 CGAAAACCCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (39 bp):
AGTCAAAAAGTACTTTGTCTAAAGGAAAACAATTCAGGG
Found at i:24706204 original size:28 final size:28
Alignment explanation
Indices: 24706136--24706202 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
24706126 AAATTTGTAC
*
24706136 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCAAGTTTGATTATAT
24706164 AGCACTAAGTGTGCAAG-TTGATTATAT
1 AGCACTAAGTGTGCAAGTTTGATTATAT
24706191 A-CACTAAGTGTG
1 AGCACTAAGTGTG
24706203 TGGACTCACT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 11 0.29
27 11 0.29
28 16 0.42
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCAAGTTTGATTATAT
Found at i:24707823 original size:86 final size:86
Alignment explanation
Indices: 24707726--24708382 Score: 329
Period size: 86 Copynumber: 7.6 Consensus size: 86
24707716 ATAGACCAAA
** * *
24707726 ACATAGCAGATCTGGCCTTCACG-TG-TTTACACTGAAGCAGATCCAAGATAACAAATCTGGCAT
1 ACATAGCAGATCTAACCTTCA-GATGATTT-CACTGAAGCAGATCCAAGATAACAGATATGGCAT
*
24707789 CTCCATTTCGACAGAGAGCAGAT
64 CTCCATTTCAACAGAGAGCAGAT
* *
24707812 ACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGTAGATCCAAGAT----GATTTGGCATCC
1 ACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCCAAGATAACAGATATGGCAT-C
*** ** * * *
24707873 TTGTGTTTACAAGGGACA-AATCGAA
65 -TCCATTT-CAACAGAGAGCA--GAT
*
24707898 AGCATAGCAGATCTGACCTTCACG-TG-TTTACACTGAAGCAGATCCAAGATAACAGATATGGCA
1 A-CATAGCAGATCTAACCTTCA-GATGATTT-CACTGAAGCAGATCCAAGATAACAGATATGGCA
24707961 TCTCCATTTCAAC-GAAGAGCAGAT
63 TCTCCATTTCAACAG-AGAGCAGAT
* *
24707985 ACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGTAGATCCAAGAT----GATTTGGCA--T
1 ACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCCAAGATAACAGATATGGCATCT
* ** * *
24708044 CCTTGTGTTTACA-AGGAACAAAT
66 CCAT-T-TCAACAGA-GAGCAGAT
* * * * * * ** ** *
24708067 CGAAGGCGTAGCAGATTTGACTTTCGGATG-TTCCCACAACAAAAAAGATCCAAGATAACAGATC
1 ---A--CATAGCAGATCTAACCTTCAGATGATT-TCAC--TGAAGCAGATCCAAGATAACAGATA
* * *
24708131 TGGCATCTCCATTTCGACGGAGAGTAGAT
58 TGGCATCTCCATTTCAACAGAGAGCAGAT
* *
24708160 ACATAGCAGATCTAACCTTCAGATGATTTCACTGAAACAGATCCAAGAT----GATTTGGCATC-
1 ACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCCAAGATAACAGATATGGCATCT
* * * * * *
24708220 CTTATGTTACAAGGAACAAATC-GAAG
66 C-CAT-TT-CAA--CAGAGAGCAG-AT
* * * * * ** * *
24708246 ACATAGCAGATTTGACTTTCGGATG-TTCCCACACCAAAGTAGATCCAAGATAACAGATCTGGCA
1 ACATAGCAGATCTAACCTTCAGATGATT---TCACTGAAGCAGATCCAAGATAACAGATATGGCA
** * *
24708310 TCTCCATTTTGACGGAGAGCAGAC
63 TCTCCATTTCAACAGAGAGCAGAT
*
24708334 ACATAGCAGATCTAACCTTTAGATGATTTCACTGAAGCAGATCCAAGAT
1 ACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCCAAGAT
24708383 GATTTGGCTT
Statistics
Matches: 420, Mismatches: 97, Indels: 108
0.67 0.16 0.17
Matches are distributed among these distances:
80 4 0.01
81 3 0.01
82 37 0.09
83 3 0.01
84 7 0.02
85 11 0.03
86 143 0.34
87 72 0.17
88 68 0.16
89 23 0.05
90 3 0.01
91 11 0.03
92 12 0.03
93 17 0.04
94 2 0.00
95 4 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (86 bp):
ACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCCAAGATAACAGATATGGCATCT
CCATTTCAACAGAGAGCAGAT
Found at i:24708016 original size:173 final size:173
Alignment explanation
Indices: 24707726--24708469 Score: 1032
Period size: 173 Copynumber: 4.3 Consensus size: 173
24707716 ATAGACCAAA
* * * * *
24707726 ACATAGCAGATCTGGCCTTCACGTGTTTACACTGAAGCAGATCCAAGATAACAAATCTGGCATCT
1 ACATAGCAGATTTGACTTTCACGTGTTTACACTAAAGCAGATCCAAGATAACAGATCTGGCATCT
*
24707791 CCATTTCGAC-AGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGTAGATC
66 CCATTTCGACGA-AGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATC
*
24707855 CAAGATGATTTGGCATCCTTGTGTTTACAAGGGACAAATCGAA-
130 CAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAG
* * * *
24707898 AGCATAGCAGATCTGACCTTCACGTGTTTACACTGAAGCAGATCCAAGATAACAGATATGGCATC
1 A-CATAGCAGATTTGACTTTCACGTGTTTACACTAAAGCAGATCCAAGATAACAGATCTGGCATC
* *
24707963 TCCATTTCAACGAAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGTAGATC
65 TCCATTTCGACGAAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATC
24708028 CAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAG
130 CAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAG
* * * * **
24708072 GCGTAGCAGATTTGACTTTC-GGATGTTCCCACAAC-AAAAAAGATCCAAGATAACAGATCTGGC
1 ACATAGCAGATTTGACTTTCACG-TGTT--TAC-ACTAAAGCAGATCCAAGATAACAGATCTGGC
* * *
24708135 ATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAACAG
62 ATCTCCATTTCGACGAAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAG
*
24708200 ATCCAAGATGATTTGGCATCCTTATG-TTACAAGGAACAAATCGAAG
127 ATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAG
* * * *
24708246 ACATAGCAGATTTGACTTTC-GGATGTTCCCACACCAAAGTAGATCCAAGATAACAGATCTGGCA
1 ACATAGCAGATTTGACTTTCACG-TGTT--TACACTAAAGCAGATCCAAGATAACAGATCTGGCA
* * * *
24708310 TCTCCATTTTGACGGAGAGCAGACACATAGCAGATCTAACCTTTAGATGATTTCACTGAAGCAGA
63 TCTCCATTTCGACGAAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGA
* *
24708375 TCCAAGATGATTTGGCTTCCTTGTGTTTACAAGGAGCAAATCGAAG
128 TCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAG
* * * *
24708421 ACATAGCAGTTTTGGCTTTCACGTGTTTACACTAAAGCAAATCTAAGAT
1 ACATAGCAGATTTGACTTTCACGTGTTTACACTAAAGCAGATCCAAGAT
24708470 GATTTGACAT
Statistics
Matches: 521, Mismatches: 41, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
172 2 0.00
173 203 0.39
174 161 0.31
175 152 0.29
176 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (173 bp):
ACATAGCAGATTTGACTTTCACGTGTTTACACTAAAGCAGATCCAAGATAACAGATCTGGCATCT
CCATTTCGACGAAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCC
AAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAG
Found at i:24708315 original size:174 final size:175
Alignment explanation
Indices: 24707764--24708440 Score: 1031
Period size: 174 Copynumber: 3.9 Consensus size: 175
24707754 ACACTGAAGC
* *
24707764 AGATCCAAGATAACAAATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACC
1 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACC
* *
24707829 TTCAGATGATTTCACTGAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGGACAAAT
66 TTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAAT
* * * * ** *
24707894 CGAA-AGCATAGCAGATCTGACCTTCACG-TGTT--TACACTGAAGC
131 CGAAGA-CATAGCAGATTTGACTTTC-GGATGTTCCCACACCAAAGA
* * *
24707937 AGATCCAAGATAACAGATATGGCATCTCCATTTCAACGAAGAGCAGATACATAGCAGATCTAACC
1 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACC
*
24708002 TTCAGATGATTTCACTGAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAAT
66 TTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAAT
* * * *
24708067 CGAAGGCGTAGCAGATTTGACTTTCGGATGTTCCCACAACAAAAA
131 CGAAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAAAGA
*
24708112 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACC
1 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACC
* *
24708177 TTCAGATGATTTCACTGAAACAGATCCAAGATGATTTGGCATCCTTATG-TTACAAGGAACAAAT
66 TTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAAT
*
24708241 CGAAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAAAGT
131 CGAAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAAAGA
* *
24708286 AGATCCAAGATAACAGATCTGGCATCTCCATTTTGACGGAGAGCAGACACATAGCAGATCTAACC
1 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACC
* * *
24708351 TTTAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCTTCCTTGTGTTTACAAGGAGCAAAT
66 TTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAAT
* *
24708416 CGAAGACATAGCAGTTTTGGCTTTC
131 CGAAGACATAGCAGATTTGACTTTC
24708441 ACGTGTTTAC
Statistics
Matches: 460, Mismatches: 39, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
172 1 0.00
173 148 0.32
174 162 0.35
175 149 0.32
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (175 bp):
AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACC
TTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAAT
CGAAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAAAGA
Found at i:24709668 original size:20 final size:19
Alignment explanation
Indices: 24709643--24709703 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 19
24709633 TCCTTTAACA
24709643 ATTTTAATATTTATAATTTT
1 ATTTTAATATTT-TAATTTT
*
24709663 ATTTTATTTATTTTTAATTTT
1 ATTTTA-ATA-TTTTAATTTT
* *
24709684 AGTTCTAATGTTTTAATTTT
1 A-TTTTAATATTTTAATTTT
24709704 GTTTCAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 16 0.47
21 11 0.32
22 7 0.21
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (19 bp):
ATTTTAATATTTTAATTTT
Found at i:24710147 original size:20 final size:20
Alignment explanation
Indices: 24710133--24710170 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
24710123 ATATTTTATT
24710133 TTTATATTACTTATTATATGG
1 TTTATATTA-TTATTATATGG
24710154 TTTATATTATTA-TATAT
1 TTTATATTATTATTATAT
24710171 TTTGGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTATATTATTATTATATGG
Found at i:24710364 original size:2 final size:2
Alignment explanation
Indices: 24710357--24710387 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24710347 TAATATAACT
24710357 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24710388 TTTAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24723052 original size:2 final size:2
Alignment explanation
Indices: 24723045--24723082 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
24723035 GCTTAACATA
*
24723045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24723083 GAGAACAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24723314 original size:18 final size:17
Alignment explanation
Indices: 24723275--24723307 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24723265 CATGTGACAG
*
24723275 AAATTTTAAAAATAATA
1 AAATTTTAAAAAAAATA
24723292 AAATTTTAAAAAAAAT
1 AAATTTTAAAAAAAAT
24723308 TATAATTCTT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTTTAAAAAAAATA
Found at i:24724561 original size:17 final size:16
Alignment explanation
Indices: 24724541--24724586 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 16
24724531 TAAAAGAGAC
24724541 AAATTTATAATTTTTA
1 AAATTTATAATTTTTA
24724557 TAAATTTGATATATTTTTA
1 -AAATTT-ATA-ATTTTTA
24724576 AATATTTATAA
1 AA-ATTTATAA
24724587 AATTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.27
18 8 0.31
19 11 0.42
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
AAATTTATAATTTTTA
Found at i:24730742 original size:24 final size:23
Alignment explanation
Indices: 24730693--24730743 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
24730683 TGCAACTTGG
*
24730693 TTTTTTATTTTTATTTTTAATTA
1 TTTTTTATTTTTATTTTTAATGA
**
24730716 TTTTTTATTCTTTATTTTTTGTGA
1 TTTTTTATT-TTTATTTTTAATGA
24730740 TTTT
1 TTTT
24730744 CTTTTTAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTTTATTTTTATTTTTAATGA
Found at i:24731866 original size:66 final size:64
Alignment explanation
Indices: 24731794--24731921 Score: 152
Period size: 66 Copynumber: 2.0 Consensus size: 64
24731784 GTACCTGGCT
24731794 GTGTGCTAGGCC-ATGCCAAACTT-GTAGGGTATACTGACTTATACAACACAGCCAAGTCACACG
1 GTGTGCTAGGCCGATGCC-AA-TTAG-AGGGTATACTGACTTATACAACACAGCC-AGTCACACG
24731857 TCC
62 TCC
* * * * *
24731860 GTGTGCTAGGCCGTGTGCCAATTAGAGGGTATACTGACTTGTACCATATAGCCAGTCACACG
1 GTGTGCTAGGCCG-ATGCCAATTAGAGGGTATACTGACTTATACAACACAGCCAGTCACACG
24731922 CACATGTGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
65 9 0.17
66 38 0.70
67 3 0.06
68 4 0.07
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (64 bp):
GTGTGCTAGGCCGATGCCAATTAGAGGGTATACTGACTTATACAACACAGCCAGTCACACGTCC
Found at i:24732995 original size:23 final size:24
Alignment explanation
Indices: 24732962--24733023 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
24732952 GCTGATGAAC
** *
24732962 AGTAAGCTCTATTGAGCTG-AAAT
1 AGTAAGCTCTAACGAGATGAAAAT
*
24732985 AGTAAGGTCTAACGAGATGAAAAT
1 AGTAAGCTCTAACGAGATGAAAAT
*
24733009 AGTAAGCTCTTACGA
1 AGTAAGCTCTAACGA
24733024 ACTGATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.26
Consensus pattern (24 bp):
AGTAAGCTCTAACGAGATGAAAAT
Found at i:24740062 original size:14 final size:14
Alignment explanation
Indices: 24740043--24740071 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24740033 ACCGACTCGT
24740043 TCGGATATCTCATA
1 TCGGATATCTCATA
24740057 TCGGATATCTCATA
1 TCGGATATCTCATA
24740071 T
1 T
24740072 GGCCGATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (14 bp):
TCGGATATCTCATA
Found at i:24745960 original size:28 final size:27
Alignment explanation
Indices: 24745897--24745966 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
24745887 ATAGTGAGTC
*
24745897 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
24745924 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
24745952 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24745967 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24756820 original size:40 final size:40
Alignment explanation
Indices: 24756596--24756820 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
24756586 GCTACTCGTT
* *
24756596 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
24756636 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
24756676 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
24756716 CCACTGCCTTCGGG-CTTAGCCTGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
24756755 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
24756796 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24756821 CATCATTCGA
Statistics
Matches: 161, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 117 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:24761211 original size:21 final size:22
Alignment explanation
Indices: 24761155--24761212 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
24761145 ATATAGTTAT
24761155 ACATGATATGAC-ATG-GTATGC
1 ACATGATATG-CTATGAGTATGC
*
24761176 ACATGATATGTTATGAG-ATGC
1 ACATGATATGCTATGAGTATGC
24761197 ACATGATATGCTATGA
1 ACATGATATGCTATGA
24761213 TACACTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (22 bp):
ACATGATATGCTATGAGTATGC
Found at i:24761320 original size:24 final size:24
Alignment explanation
Indices: 24761288--24761334 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
24761278 CTATTTACCA
**
24761288 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
24761311 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
24761335 ATGATAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:24765139 original size:28 final size:28
Alignment explanation
Indices: 24765107--24765167 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
24765097 CAAATGTTAG
24765107 TCTCATGAGTACATATAAACAAACTTTA
1 TCTCATGAGTACATATAAACAAACTTTA
*
24765135 TCTCATGAGTACATATAAACAACCTTTA
1 TCTCATGAGTACATATAAACAAACTTTA
24765163 TCTCA
1 TCTCA
24765168 ATTTCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (28 bp):
TCTCATGAGTACATATAAACAAACTTTA
Found at i:24765473 original size:23 final size:24
Alignment explanation
Indices: 24765416--24765496 Score: 83
Period size: 23 Copynumber: 3.3 Consensus size: 24
24765406 ATATGATCTA
*
24765416 TAAGCTCCTCTTGAGTTGATGAACAG
1 TAAGCT-CTATTGAGTTGA-GAACAG
*
24765442 TAAGCTCTATTGAGTTGA-AATAG
1 TAAGCTCTATTGAGTTGAGAACAG
*** *
24765465 TAAGCTCTAACAAGCTGAGAACAG
1 TAAGCTCTATTGAGTTGAGAACAG
24765489 TAAGCTCT
1 TAAGCTCT
24765497 TACGAACTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
23 18 0.38
24 12 0.26
25 11 0.23
26 6 0.13
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAGCTCTATTGAGTTGAGAACAG
Found at i:24768669 original size:51 final size:51
Alignment explanation
Indices: 24768609--24768706 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
24768599 TTAAACATGC
*
24768609 TTAATTGCCATGGCTTATTAAATGGGAGGTCCTTATGTTGTAATTAGACCA
1 TTAATTGCCATGACTTATTAAATGGGAGGTCCTTATGTTGTAATTAGACCA
*
24768660 TTAATTGCCATGACTTATTATATGGGAGGTCCTTATGTTGTAATTAG
1 TTAATTGCCATGACTTATTAAATGGGAGGTCCTTATGTTGTAATTAG
24768707 TGGTGATGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (51 bp):
TTAATTGCCATGACTTATTAAATGGGAGGTCCTTATGTTGTAATTAGACCA
Found at i:24769758 original size:47 final size:47
Alignment explanation
Indices: 24769700--24769818 Score: 141
Period size: 47 Copynumber: 2.5 Consensus size: 47
24769690 CCGCTTTTTA
* *
24769700 GCTACTGGCCATGATATAGGTATTTTGAGAGGAA-TTACCTTGATTTG
1 GCTACTGGCCATGATATAGGTACTTCGAGA-GAAGTTACCTTGATTTG
* * * * *
24769747 GCTACGGGCCATGGTATAGGTACTTCGGGATAAGTTACCTTGCTTTG
1 GCTACTGGCCATGATATAGGTACTTCGAGAGAAGTTACCTTGATTTG
* *
24769794 GTTACTGGCCATGATATATGTACTT
1 GCTACTGGCCATGATATAGGTACTT
24769819 ATCGATTGTG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 2 0.03
47 58 0.97
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (47 bp):
GCTACTGGCCATGATATAGGTACTTCGAGAGAAGTTACCTTGATTTG
Found at i:24776475 original size:21 final size:21
Alignment explanation
Indices: 24776436--24776475 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24776426 GTTGAAATGT
*
24776436 CACATGGGCATGTTACCCTTC
1 CACATGGGCATGTGACCCTTC
* *
24776457 CACATGGGCGTGTGCCCCT
1 CACATGGGCATGTGACCCT
24776476 GTGTTAAGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (21 bp):
CACATGGGCATGTGACCCTTC
Found at i:24800951 original size:27 final size:27
Alignment explanation
Indices: 24800921--24800982 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
24800911 GGGCAAAATG
24800921 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
24800948 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
24800975 GTAATTTT
1 GTAATTTT
24800983 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:24801021 original size:26 final size:26
Alignment explanation
Indices: 24800965--24801062 Score: 126
Period size: 27 Copynumber: 3.7 Consensus size: 26
24800955 TACCCTACAG
* * *
24800965 GGGTATTTTAGTAATTTTTCAAACCA
1 GGGTATTTTGGTAATTTTACAAACTA
24800991 TGGGTATTTTGGTAATTTTACAAACTA
1 -GGGTATTTTGGTAATTTTACAAACTA
*
24801018 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACT-A
24801045 GGGTATTTCT-GTAATTTT
1 GGGTATTT-TGGTAATTTT
24801063 GTAAATCGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
26 24 0.37
27 40 0.62
28 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:24801068 original size:27 final size:27
Alignment explanation
Indices: 24800965--24801076 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
24800955 TACCCTACAG
* * **
24800965 GGGTATTTTAGTAATTTTTCAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATTGA
*
24800991 TGGGTATTTTGGTAATTTTACAAACT-A
1 -GGGTATTTTGGTAATTTTACAAATTGA
24801018 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATTGA
** *
24801045 GGGTATTTCT-GTAATTTTGTAAATCGA
1 GGGTATTT-TGGTAATTTTACAAATTGA
24801072 GGGTA
1 GGGTA
24801077 AAACAGTAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
26 24 0.32
27 50 0.67
28 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATTGA
Found at i:24801102 original size:54 final size:54
Alignment explanation
Indices: 24801055--24801292 Score: 377
Period size: 54 Copynumber: 4.4 Consensus size: 54
24801045 GGGTATTTCT
* * *
24801055 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
24801109 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
24801163 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
24801217 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
24801271 ATAATTCTGTAAATCGGGGGTA
1 GTAATTTTATAAATCGAGGGTA
24801293 CTTTGGTAAT
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 174 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (54 bp):
GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:24801303 original size:27 final size:27
Alignment explanation
Indices: 24801055--24801292 Score: 341
Period size: 27 Copynumber: 8.8 Consensus size: 27
24801045 GGGTATTTCT
* *
24801055 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
24801082 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
24801109 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
24801136 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
24801163 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
24801190 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
24801217 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
24801244 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
24801271 ATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
24801293 CTTTGGTAAT
Statistics
Matches: 190, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:24801319 original size:27 final size:27
Alignment explanation
Indices: 24801298--24801387 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
24801288 GGGTACTTTG
*
24801298 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
24801325 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
24801352 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
24801379 GTAATTTTA
1 GTAATTTTA
24801388 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Done.